Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000659.1 Hibiscus syriacus cultivar Beakdansim tig00001282_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: 163697
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:417 original size:23 final size:20
Alignment explanation
Indices: 390--432 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
380 ATTACCTAAC
390 TTAAACTATAATTTATATAATAA
1 TTAAA-TAT-ATTTATA-AATAA
*
413 TTAAATATTTTTATAAATAA
1 TTAAATATATTTATAAATAA
433 ATAATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 3 0.16
23 5 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAATATATTTATAAATAA
Found at i:690 original size:10 final size:10
Alignment explanation
Indices: 675--740 Score: 59
Period size: 10 Copynumber: 7.0 Consensus size: 10
665 TTTTTTTAAT
675 GATTAAATTA
1 GATTAAATTA
*
685 GATTAAAGTA
1 GATTAAATTA
695 GATTAAATT-
1 GATTAAATTA
* *
704 -ATTGAAGTA
1 GATTAAATTA
713 GATTAAATT-
1 GATTAAATTA
* *
722 -ATTGAAGTA
1 GATTAAATTA
731 GATTAAATTA
1 GATTAAATTA
741 CAAGATAGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
8 12 0.29
10 30 0.71
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (10 bp):
GATTAAATTA
Found at i:713 original size:18 final size:18
Alignment explanation
Indices: 675--740 Score: 105
Period size: 18 Copynumber: 3.6 Consensus size: 18
665 TTTTTTTAAT
*
675 GATTAAATTAGATTAAAGTA
1 GATTAAATT--ATTGAAGTA
695 GATTAAATTATTGAAGTA
1 GATTAAATTATTGAAGTA
713 GATTAAATTATTGAAGTA
1 GATTAAATTATTGAAGTA
731 GATTAAATTA
1 GATTAAATTA
741 CAAGATAGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
18 36 0.80
20 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
GATTAAATTATTGAAGTA
Found at i:1096 original size:21 final size:21
Alignment explanation
Indices: 1057--1096 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1047 AATGTTTCAT
1057 CTCTAAGTAGAGATAGAGATG
1 CTCTAAGTAGAGATAGAGATG
1078 CTCTAGAGTAGAGAT-GAGA
1 CTCTA-AGTAGAGATAGAGA
1097 ATTGGAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.23
Consensus pattern (21 bp):
CTCTAAGTAGAGATAGAGATG
Found at i:2195 original size:21 final size:21
Alignment explanation
Indices: 2171--2210 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2161 CATAAACCTC
* *
2171 TTAAAATTATATAATTATACA
1 TTAAAATAATAAAATTATACA
*
2192 TTAATATAATAAAATTATA
1 TTAAAATAATAAAATTATA
2211 TTATCCCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAATAATAAAATTATACA
Found at i:2754 original size:234 final size:234
Alignment explanation
Indices: 2340--2810 Score: 764
Period size: 234 Copynumber: 2.0 Consensus size: 234
2330 GTGACTCGTC
*
2340 TAATTTAATTCGTCAAATATTGAGTCGCCGAAGCAATTTACTTGCGGTAAGTGTCACGGACCGTC
1 TAATTTAATTCGTCAAATATTGAGTCGCCGAAGCAATTTACTTGCGGTAAGTGTCACGGACCGCC
* *
2405 AACCCATGATCGAGTCCAATACGTTCAAGGCTGCCAAAGACTATCTTTATCACGTTTTGGACATT
66 AACCCATGATCGAGTCCAATACATTCAAGGCTGCCAAAGACTATCTTTATAACGTTTTGGACATT
2470 CCAAAAGACTTTACAAAAGATTTTCTAAAACACTCAAGAGAGCCGACCCATTCACATTGGAGAAT
131 CCAAAAGACTTTACAAAAGATTTTCTAAAACACTCAAGAGAGCCGACCCATTCACATTGGAGAAT
2535 GAGATAAGGCATGATAATTATCAATAATTATCTTGTAGA
196 GAGATAAGGCATGATAATTATCAATAATTATCTTGTAGA
* * * *
2574 TAATTTAATTCGTCAAATATTGAGTCGTCGAAGTAATTTACTTGTGGTAAGTGTCACGGACTGCC
1 TAATTTAATTCGTCAAATATTGAGTCGCCGAAGCAATTTACTTGCGGTAAGTGTCACGGACCGCC
* *
2639 AACCCATGATCGAGTCCAATACATTCAAGGCTGCCAAAGACTATCTTTGTAACGTTTTGGGCATT
66 AACCCATGATCGAGTCCAATACATTCAAGGCTGCCAAAGACTATCTTTATAACGTTTTGGACATT
* * * * * * *
2704 CC-AAAGACTTTATAGAAGATTTTTCTAGAAGACTCAGGAGAGCTGACCCATTCACCTTGGAGAA
131 CCAAAAGACTTTACAAAAGA-TTTTCTAAAACACTCAAGAGAGCCGACCCATTCACATTGGAGAA
* *
2768 TGCGATAAGGCATGATAATTATTAATAATTATCTTGTAGA
195 TGAGATAAGGCATGATAATTATCAATAATTATCTTGTAGA
2808 TAA
1 TAA
2811 ATCCCACAAT
Statistics
Matches: 218, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
233 15 0.07
234 203 0.93
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (234 bp):
TAATTTAATTCGTCAAATATTGAGTCGCCGAAGCAATTTACTTGCGGTAAGTGTCACGGACCGCC
AACCCATGATCGAGTCCAATACATTCAAGGCTGCCAAAGACTATCTTTATAACGTTTTGGACATT
CCAAAAGACTTTACAAAAGATTTTCTAAAACACTCAAGAGAGCCGACCCATTCACATTGGAGAAT
GAGATAAGGCATGATAATTATCAATAATTATCTTGTAGA
Found at i:3558 original size:41 final size:40
Alignment explanation
Indices: 3502--3589 Score: 167
Period size: 41 Copynumber: 2.2 Consensus size: 40
3492 ACAAGACACG
3502 AGAGAGGGATACTCATCTTGGACGATCTTCACCGAAAAGA
1 AGAGAGGGATACTCATCTTGGACGATCTTCACCGAAAAGA
3542 AGAGAGGAGATACTCATCTTGGACGATCTTCACCGAAAAGA
1 AGAGAGG-GATACTCATCTTGGACGATCTTCACCGAAAAGA
3583 AGAGAGG
1 AGAGAGG
3590 TCGTCGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 7 0.15
41 40 0.85
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (40 bp):
AGAGAGGGATACTCATCTTGGACGATCTTCACCGAAAAGA
Found at i:3970 original size:14 final size:14
Alignment explanation
Indices: 3940--3969 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
3930 TATTGATTGG
3940 TTTATTTATTTTAT
1 TTTATTTATTTTAT
3954 TTTATTT-TTTTAT
1 TTTATTTATTTTAT
3967 TTT
1 TTT
3970 TTACTAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:4020 original size:26 final size:26
Alignment explanation
Indices: 3991--4047 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
3981 TATTTATCTG
3991 TTTTATCTTTT-TAT-TATATTAATATT
1 TTTTATCTTTTATATATATA-T-ATATT
*
4017 TTTTTTCTTTTATATATATATATATT
1 TTTTATCTTTTATATATATATATATT
4043 TTTTA
1 TTTTA
4048 ATCTAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 19 0.70
27 4 0.15
28 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTATCTTTTATATATATATATATT
Found at i:8122 original size:106 final size:105
Alignment explanation
Indices: 7635--9124 Score: 1982
Period size: 106 Copynumber: 14.3 Consensus size: 105
7625 CTCGAGAGTA
* ** * * * * *
7635 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG
* * * * * *
7699 GGGCGGCTGATTGTCAACAAACACTTCCCAATTTCAGAGCC
65 GGACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* * * * *
7740 AATTTCAACTTCACATCGAAGGATTTTGGACTCCAGACAACGTATA-TTCAACTTCACAATGAAG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA-AGTTCAACTTCACGACGAAG
* * *
7804 GGACCGCTGGTTGTC-AACAAATTTTCCCGATTTCAGAGCC
65 GGACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
7844 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * **
7909 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
*
7949 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
8014 GACCGCTGGTTGTCAATAAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
8055 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
8120 GACCGCTAGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* *
8160 AATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
8225 GACCGCTGGTTGTCAATAAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
8266 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
8331 GACCGCTGGTTGTC--AATAAA-----CAACTTC----CC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* *
8360 AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
8425 GACCGCTGGTTGTCAATAAACAATTTTCCAA-TTCTAGAGTC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTC-AGAGCC
* *
8466 AATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
8531 GACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
*
8572 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
8637 GACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
* * *
8678 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
8743 GACTGCTGGTTGTC-AACAAATTTTCCCGATTTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
8782 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * * *
8847 GACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* *
8887 AATTTCAAATTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * **
8952 GACCACTGCTTGTC-AACAAAATTT--C-A-TTCAGAATC
66 GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
* * * * *
8987 AATTTCAACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* ** ** *
9052 GACGGCTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCC
66 GACCGCTGGTTGTCAA-AAAAAATTTCCCAATTTCAGAGCC
9093 AATTTCAACTTCACGATG-G-AGGATATTGGACT
1 AATTTCAACTTCAC-A-GCGAAGGATATTGGACT
9125 TGGAACAATG
Statistics
Matches: 1230, Mismatches: 126, Indels: 57
0.87 0.09 0.04
Matches are distributed among these distances:
94 79 0.06
97 4 0.00
98 6 0.00
100 77 0.06
101 5 0.00
102 10 0.01
103 6 0.00
104 190 0.15
105 347 0.28
106 501 0.41
107 5 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAAAAAAAATTTCCCAATTTCAGAGCC
Found at i:8330 original size:43 final size:43
Alignment explanation
Indices: 8269--8424 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
8259 CAGAGCCAAT
8269 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
8312 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
8363 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
8406 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
8425 GACCGCTGGT
Statistics
Matches: 82, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
43 36 0.44
44 4 0.05
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:8624 original size:212 final size:209
Alignment explanation
Indices: 7635--9124 Score: 1989
Period size: 211 Copynumber: 7.2 Consensus size: 209
7625 CTCGAGAGTA
* * * * * * *
7635 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG
* ** * * *
7699 GGGCGGCTGATTGTCAACAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGAT
65 GGACCACTGGTTGTCAACAAA-A-TTCTC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * * * * *
7764 TTTGGACTCCAGACAACGTATA-TTCAACTTCACAATGAAGGGACCGCTGGTTGTCAA-CAA-AT
127 ATTGGACTCCAGACAACGCA-AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
* *
7826 TTTCCCGATT-TCAGAGCC
191 CTTCCCAATTCTCAGAGCC
*
7844 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
7909 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 GACCACTGGTTGTCAACAA-AA-TTC-TCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* * *
7974 TTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAAT
128 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
8039 TCCCAATT-TCAGAGCC
193 TCCCAATTCTCAGAGCC
*
8055 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
8120 GACCGCTAGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATA
66 GACCACTGGTTGTCAACAAA-A-TTCTC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* * *
8185 TTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAAT
128 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
8250 TCCCAATT-TCAGAGCC
193 TCCCAATTCTCAGAGCC
*
8266 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * * *
8331 GACCGCTGGTTGTCAA-TAAA--C-AACTTC----CCAATTTCAACTTCGCAACGAAGGATATTG
66 GACCACTGGTTGTCAACAAAATTCTCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
8388 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
*
8453 CAATTCT-AGAGTC
196 CAATTCTCAGAGCC
* * *
8466 AATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
8531 GACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GACCACTGGTTGTCAAC-AA-AA-TTCTC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
8596 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
127 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
8661 TTCCCAATT-TCAGAGCC
192 TTCCCAATTCTCAGAGCC
* * *
8678 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
** * * *
8743 GACTGCTGGTTGTCAACAAATTTTCCCGATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATAT
66 GACCACTGGTTGTCAACAAA-ATTCTC-ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
* *
8808 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTT
129 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
8872 CCCAA-TCTCAGAGCC
194 CCCAATTCTCAGAGCC
*
8887 AATTTCAAATTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* ** *
8952 GACCACTGCTTGTCAACAAAATT-TCA-TTCAGAATCAATTTCAACTTCACAACGAAGGATGTTG
66 GACCACTGGTTGTCAACAAAATTCTCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * * * * *
9015 GACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACCAATTTCC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
**
9080 CGGTTC-CAGAGCC
196 CAATTCTCAGAGCC
* * *
9093 AATTTCAACTTCACGATGGAGGATATTGGACT
1 AATTTCAACTTCACAACGAAGGATATTGGACT
9125 TGGAACAATG
Statistics
Matches: 1163, Mismatches: 92, Indels: 55
0.89 0.07 0.04
Matches are distributed among these distances:
200 176 0.15
201 1 0.00
202 1 0.00
203 2 0.00
204 4 0.00
205 81 0.07
206 47 0.04
207 3 0.00
208 8 0.01
209 255 0.22
210 107 0.09
211 301 0.26
212 177 0.15
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (209 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCACTGGTTGTCAACAAAATTCTCATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
CAATTCTCAGAGCC
Found at i:10189 original size:42 final size:42
Alignment explanation
Indices: 10130--10219 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
10120 ACAAGACACG
*
10130 AGAGAGGGGATACTCATCTTTGGACGATCTTCACCGAAAAGA
1 AGAGAGGAGATACTCATCTTTGGACGATCTTCACCGAAAAGA
10172 AGAGAGGAGATACTCATCTTTGGACGATCTTCACCGAAAAGA
1 AGAGAGGAGATACTCATCTTTGGACGATCTTCACCGAAAAGA
10214 AGAGAG
1 AGAGAG
10220 ATCGTCGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (42 bp):
AGAGAGGAGATACTCATCTTTGGACGATCTTCACCGAAAAGA
Found at i:10472 original size:19 final size:20
Alignment explanation
Indices: 10432--10472 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10422 GTATATTGAC
* *
10432 GTGTTTTTCCTTTAATTATT
1 GTGTTTTCCCTTTAAATATT
10452 GTGTTTTCCCTTTAAAT-TT
1 GTGTTTTCCCTTTAAATATT
10471 GT
1 GT
10473 TTGTGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.61
Consensus pattern (20 bp):
GTGTTTTCCCTTTAAATATT
Found at i:10601 original size:14 final size:14
Alignment explanation
Indices: 10571--10600 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10561 TATTGATTGG
10571 TTTATTTATTTTAT
1 TTTATTTATTTTAT
10585 TTTATTT-TTTTAT
1 TTTATTTATTTTAT
10598 TTT
1 TTT
10601 TTACTAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:10656 original size:17 final size:16
Alignment explanation
Indices: 10629--10667 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
10619 CTGTTTTATC
10629 TTTTTATTATATTAATAT
1 TTTTTATTATA-T-ATAT
10647 TTTTTA-TATATATAT
1 TTTTTATTATATATAT
10662 TTTTTA
1 TTTTTA
10668 ATCTAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 4 0.19
18 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTATTATATATAT
Found at i:13644 original size:60 final size:59
Alignment explanation
Indices: 13536--13649 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
13526 ATTATGTTGC
* * * *
13536 TTTTAATAGTCGAGGGACTCAACAAAGTAACTTCCTATAGTTGGGGGACTATTTTGTAA
1 TTTTAATAGTCGAGAGACTCAACAAAGTAACTTCCTATAGTCGAGGGACCATTTTGTAA
13595 TTTTAAATAGTCGAGAGACTCAACAAA-TCAAC-TCTCTATAGTCGAGGGACCATTT
1 TTTT-AATAGTCGAGAGACTCAACAAAGT-AACTTC-CTATAGTCGAGGGACCATTT
13650 GAATACTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 7 0.15
60 41 0.85
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (59 bp):
TTTTAATAGTCGAGAGACTCAACAAAGTAACTTCCTATAGTCGAGGGACCATTTTGTAA
Found at i:20910 original size:26 final size:26
Alignment explanation
Indices: 20870--20920 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
20860 TTAACATTGT
* *
20870 TTGAACATTTAATTTTTTTTAAAAAAA
1 TTGAAAATTTAA-TTTATTTAAAAAAA
20897 TTGAAAATTT-ATTTATTTAAAAAA
1 TTGAAAATTTAATTTATTTAAAAAA
20921 TAAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
TTGAAAATTTAATTTATTTAAAAAAA
Found at i:26853 original size:19 final size:19
Alignment explanation
Indices: 26831--26872 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
26821 AACGGTCAAC
26831 GGTCGGGTCAGGCCGGTCG
1 GGTCGGGTCAGGCCGGTCG
*
26850 GGTCGGGTCGGGCCGGTCG
1 GGTCGGGTCAGGCCGGTCG
26869 GGTC
1 GGTC
26873 AGACCGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.02, C:0.26, G:0.55, T:0.17
Consensus pattern (19 bp):
GGTCGGGTCAGGCCGGTCG
Found at i:29431 original size:21 final size:21
Alignment explanation
Indices: 29405--29447 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29395 TTTCTGGGTT
* *
29405 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
29426 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
29447 A
1 A
29448 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:29563 original size:67 final size:67
Alignment explanation
Indices: 29427--29575 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 67
29417 ACCCATTCAA
* *
29427 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAGTATGCTAGAGGGGAATCGGTACCCCCAG
1 GGGGAACCGATACCCCTTCAACGAATATGAATTCCAGTATGCTAGAGGGGAATCGATACCCCCAG
29492 GG
66 GG
* **
29494 GGGGAACCGATACCCC-TCATCGTTTATGAATTCCAG-ATTGCTTA-AGGGGAATCGATA-CCCC
1 GGGGAACCGATACCCCTTCAACGAATATGAATTCCAGTA-TGC-TAGAGGGGAATCGATACCCCC
29555 AGGGG
64 A-GGG
*
29560 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
29576 CATGAGAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
65 6 0.08
66 49 0.67
67 18 0.25
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (67 bp):
GGGGAACCGATACCCCTTCAACGAATATGAATTCCAGTATGCTAGAGGGGAATCGATACCCCCAG
GG
Found at i:29913 original size:29 final size:29
Alignment explanation
Indices: 29879--29948 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
29869 CATATTATGA
**
29879 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
**
29908 TACATGACATGAATTCATATTGTATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
29937 TACATGACATGA
1 TACATGACATGA
29949 TTATGCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:30028 original size:29 final size:31
Alignment explanation
Indices: 29964--30022 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
29954 CAGAAAAGTT
*
29964 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
29995 ATATGC-CTATGTG-TTAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
30023 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
30 7 0.27
31 6 0.23
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.34
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:36412 original size:67 final size:67
Alignment explanation
Indices: 36316--36466 Score: 191
Period size: 67 Copynumber: 2.3 Consensus size: 67
36306 ACCCATTCAA
* * *
36316 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAG-TATGC-TAGAGGGGAATCGGTACCCCC
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAT-TGCTTA-AGGGGAATCGATA-CCCC
36379 A-GGG
63 AGGGG
* **
36383 GGGGAACCGATACCCCCTCATCGTTTATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
36448 GG
66 GG
*
36450 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
36467 ATGAGAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
66 5 0.07
67 66 0.89
68 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
GG
Found at i:36803 original size:29 final size:29
Alignment explanation
Indices: 36769--36838 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
36759 CATATTATGA
**
36769 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
**
36798 TACATGACATGAATTCATATTGTATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
36827 TACATGACATGA
1 TACATGACATGA
36839 TTATGCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:36896 original size:30 final size:31
Alignment explanation
Indices: 36854--36913 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
36844 CAGAAAAGTT
*
36854 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
36885 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
36914 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:43162 original size:10 final size:9
Alignment explanation
Indices: 43123--43174 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
43113 CGAGTCAGAT
43123 CGGTCAAAC
1 CGGTCAAAC
*
43132 CGGTTCAGAC
1 CGG-TCAAAC
**
43142 CGGTTTGAAC
1 CGG-TCAAAC
43152 CGGTCAAAAC
1 CGGTC-AAAC
43162 CGGTCAAAC
1 CGGTCAAAC
43171 CGGT
1 CGGT
43175 TTTCAGCTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 12 0.34
10 23 0.66
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:54884 original size:124 final size:124
Alignment explanation
Indices: 54664--54912 Score: 480
Period size: 124 Copynumber: 2.0 Consensus size: 124
54654 ATCGCCACAA
54664 ATTGTCACAGGGCTTTTCACAGGCTGTTATAAAATAAAATAAATCAACATCTTCCAGTTCAAAGA
1 ATTGTCACAGGGCTTTTCACAGGCTGTTATAAAATAAAATAAATCAACATCTTCCAGTTCAAAGA
54729 TGAGCAATCTCAATATTTCCAAAGTTCACCGGTAATTAAACACATATAGACCAGTGTCC
66 TGAGCAATCTCAATATTTCCAAAGTTCACCGGTAATTAAACACATATAGACCAGTGTCC
*
54788 ATTGTCACAGGGCTTTTCACAGGCTGTTATAAAATAAACTAAATCAACATCTTCCAGTTCAAAGA
1 ATTGTCACAGGGCTTTTCACAGGCTGTTATAAAATAAAATAAATCAACATCTTCCAGTTCAAAGA
*
54853 TGAGCAATCTCAATATTTCCAAAGTTCACCGGTAATTAAACACATATAGACCATTGTCC
66 TGAGCAATCTCAATATTTCCAAAGTTCACCGGTAATTAAACACATATAGACCAGTGTCC
54912 A
1 A
54913 CTGGAATTAG
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 123 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (124 bp):
ATTGTCACAGGGCTTTTCACAGGCTGTTATAAAATAAAATAAATCAACATCTTCCAGTTCAAAGA
TGAGCAATCTCAATATTTCCAAAGTTCACCGGTAATTAAACACATATAGACCAGTGTCC
Found at i:54948 original size:124 final size:123
Alignment explanation
Indices: 54694--54950 Score: 327
Period size: 124 Copynumber: 2.1 Consensus size: 123
54684 AGGCTGTTAT
*
54694 AAAATAAAATAAATCAACATCTTCCAGTTCAAAGATGAGCAATCTCAATATTTCCAAAGTTCACC
1 AAAATAAACTAAATCAACATCTTCCAGTTCAAAGATGAGCAATCTCAATATTTCCAAAGTTCACC
* ** ** *** * * *
54759 GGTAATTAAACACATATAGACCAGTGTCCATTGTCACAGGGCTTTTCACAGGCTGTTAT
66 GGTAATTAAACACATATAGACCAGTGTCCACTGGAACAGAACTAAACACAAGC-GTAAC
54818 AAAATAAACTAAATCAACATCTTCCAGTTCAAAGATGAGCAATCTCAATATTTCCAAAGTTCACC
1 AAAATAAACTAAATCAACATCTTCCAGTTCAAAGATGAGCAATCTCAATATTTCCAAAGTTCACC
* * * *
54883 GGTAATTAAACACATATAGACCATTGTCCACTGGAATTAGAAACTAAAGATAAGC-TAAC
66 GGTAATTAAACACATATAGACCAGTGTCCACTGGAA-CAG-AACTAAACACAAGCGTAAC
*
54942 ATAATAAAC
1 AAAATAAAC
54951 CTGGACGTTG
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
124 106 0.93
125 2 0.02
126 6 0.05
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.26
Consensus pattern (123 bp):
AAAATAAACTAAATCAACATCTTCCAGTTCAAAGATGAGCAATCTCAATATTTCCAAAGTTCACC
GGTAATTAAACACATATAGACCAGTGTCCACTGGAACAGAACTAAACACAAGCGTAAC
Found at i:56027 original size:20 final size:21
Alignment explanation
Indices: 56002--56053 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
55992 TTTTCCTAAT
*
56002 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
56022 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
56043 TCGCAATGCGA
1 TCGCAATGCGA
56054 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:56067 original size:20 final size:20
Alignment explanation
Indices: 56042--56155 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
56032 AATTGGGAAA
*
56042 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
56062 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
56082 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
56103 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
56123 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
56143 TTCGCAACGCGAT
1 ATCGCAACGCGAT
56156 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:56086 original size:61 final size:61
Alignment explanation
Indices: 56039--56155 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
56029 GCGAATTGGG
* * * * *
56039 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
56100 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
56156 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:56712 original size:19 final size:19
Alignment explanation
Indices: 56674--56740 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
56664 TTCGAGAATG
56674 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
56694 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
56713 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
56732 AAAATCGCA
1 AAAATCGCA
56741 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:56758 original size:19 final size:19
Alignment explanation
Indices: 56736--56947 Score: 140
Period size: 19 Copynumber: 12.1 Consensus size: 19
56726 GAAACCAAAA
*
56736 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
56755 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
56769 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
56788 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
56807 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
56821 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
56840 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
56854 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
56873 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* ***
56887 TCTCGTTGCGAAAGTCATT
1 TCGCGTTGCGATTTTCATT
*
56906 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
56926 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
56946 TC
1 TC
56948 AACTAAAAGA
Statistics
Matches: 152, Mismatches: 19, Indels: 44
0.71 0.09 0.20
Matches are distributed among these distances:
14 40 0.26
16 9 0.06
17 10 0.07
19 62 0.41
20 30 0.20
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:56819 original size:52 final size:52
Alignment explanation
Indices: 56736--56852 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
56726 GAAACCAAAA
* **
56736 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
56788 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
56840 TCGCGTTGCGATT
1 TCGCGTTGCGATT
56853 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:56828 original size:33 final size:33
Alignment explanation
Indices: 56791--56922 Score: 228
Period size: 33 Copynumber: 4.0 Consensus size: 33
56781 TTTCATTTCG
**
56791 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
56824 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
56857 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
*
56890 CGTTGCGAAAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATAGTCATTT-CGCGTTGCGATTCTC
56923 ATTATCTCGT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 80 0.84
34 15 0.16
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.39
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:56829 original size:14 final size:14
Alignment explanation
Indices: 56810--56897 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
56800 TTTCATTTCG
56810 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
56824 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
56843 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
56857 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
56876 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
56890 CGTTGCGA
1 CGTTGCGA
56898 AAGTCATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 30 0.50
16 4 0.07
17 4 0.07
19 22 0.37
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:59094 original size:21 final size:21
Alignment explanation
Indices: 59070--59185 Score: 58
Period size: 21 Copynumber: 5.5 Consensus size: 21
59060 CCTATCGTTG
59070 AAGAGGCCCCTATCATTCCTC
1 AAGAGGCCCCTATCATTCCTC
* **
59091 AAGAGTCCCCTCCCA--CCGTTC
1 AAGAGGCCCCTATCATTCC--TC
* * *
59112 AAGAGGCCACTGTCATCCCTC
1 AAGAGGCCCCTATCATTCCTC
* * * * * *
59133 AAGAGTCCACTCTTA-TCGTTG
1 AAGAGGCCCCTATCATTC-CTC
59154 AAGAGGCCCCTATCATTCCTC
1 AAGAGGCCCCTATCATTCCTC
* *
59175 GAGAGTCCCCT
1 AAGAGGCCCCT
59186 CCCACCATTC
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 1 0.01
21 61 0.90
22 2 0.03
23 2 0.03
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.23
Consensus pattern (21 bp):
AAGAGGCCCCTATCATTCCTC
Found at i:59116 original size:42 final size:42
Alignment explanation
Indices: 59040--59242 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
59030 GACTCGCCTG
* * * * * *
59040 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
59082 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * ** * * *
59124 TCATCCCTCAAGAGTCCACTCTTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
59166 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
59208 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTC-CTCAAGA-GTCCCCTCCCACCGTTCAAGAG
59243 CCCAATTCAC
Statistics
Matches: 131, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
41 2 0.02
42 127 0.97
43 2 0.02
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:59200 original size:21 final size:21
Alignment explanation
Indices: 59176--59242 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
59166 TCATTCCTCG
59176 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
59197 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCATTCA
59218 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
59239 AGAG
1 AGAG
59243 CCCAATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:59221 original size:84 final size:84
Alignment explanation
Indices: 59037--59212 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
59027 CCCGACTCGC
59037 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
*
59102 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* *
59121 CTGTCATCCCTCAAGAGTCCACTCTTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
59186 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
59205 CTGTCATC
1 CTGTCATC
59213 GTTGAAGAGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:59242 original size:84 final size:84
Alignment explanation
Indices: 59037--59242 Score: 270
Period size: 84 Copynumber: 2.5 Consensus size: 84
59027 CCCGACTCGC
* * * *
59037 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
*
59102 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
** * * * *
59121 CTGTCATCCCTCAAGAGTCCACTCTTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
59186 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
** *
59205 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
59243 CCCAATTCAC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 106 0.96
85 4 0.04
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCAAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:61034 original size:30 final size:30
Alignment explanation
Indices: 60998--61061 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
60988 GAAGGACCTG
* *
60998 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
61028 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
61058 TCCA
1 TCCA
61062 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:61836 original size:64 final size:64
Alignment explanation
Indices: 61740--61900 Score: 202
Period size: 64 Copynumber: 2.5 Consensus size: 64
61730 TAATGAAGGT
* *
61740 ATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGC-ATTCGATGTTTT-TATTT-AATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCAT-AAATCCTATTCGATGTTTTCTATTTAAAT--
**
61802 GG
63 AC
* *
61804 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATAC
1 ATGCATCGATGCACTACTTGTGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATAC
* *
61868 ATGCATCGATGCACTGCATGTGCATCGATGCAT
1 ATGCATCGATGCACTACTTGTGCATCGATGCAT
61901 CTTAAACAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 5 0.06
64 72 0.85
65 5 0.06
66 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATAC
Found at i:63056 original size:14 final size:14
Alignment explanation
Indices: 63037--63072 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
63027 ATTGTTTAAT
63037 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
63051 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
63065 TGATTTGT
1 TGATTTGT
63073 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:63297 original size:33 final size:33
Alignment explanation
Indices: 63254--63380 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
63244 ATTAAATTCG
*
63254 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *** **
63287 CGTTGTGATTTTCATTTCGCATTGCGAAAATAG
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
63320 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
63353 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
63381 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:63332 original size:66 final size:66
Alignment explanation
Indices: 63253--63379 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
63243 AATTAAATTC
*
63253 GCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGTGATTTTCATTTCGCATTGCGAAAAT
1 GCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAAAT
63318 A
66 A
* *
63319 GCGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 GCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
63380 TAGTAATTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (66 bp):
GCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAAAT
A
Found at i:65900 original size:24 final size:24
Alignment explanation
Indices: 65866--65919 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
65856 CTGAAACATC
*
65866 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
65890 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
65914 ATCAAA
1 ATCAAA
65920 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:66688 original size:20 final size:20
Alignment explanation
Indices: 66663--66713 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
66653 TGTATTATCT
*
66663 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCA
66683 CGTTGCGAAAGTCAGAATCA
1 CGTTGCGAAAGTCAGAATCA
66703 CGTTGCGAAAG
1 CGTTGCGAAAG
66714 GCAATCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCA
Found at i:66984 original size:19 final size:20
Alignment explanation
Indices: 66926--66995 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
66916 ATTCATTTGA
*
66926 CTATCGCAACACGAAAATGG
1 CTATCGCAACGCGAAAATGG
66946 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
66966 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
66985 CTATCGCAACG
1 CTATCGCAACG
66996 ACAAAATCGC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 17 0.35
20 32 0.65
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:67041 original size:19 final size:19
Alignment explanation
Indices: 67002--67070 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
66992 AACGACAAAA
*
67002 TCGCAATGCGATTTT-ATT
1 TCGCATTGCGATTTTCATT
67020 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
67039 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
67058 TCGCATTGCGATT
1 TCGCATTGCGATT
67071 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 14 0.29
19 35 0.71
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:67101 original size:20 final size:20
Alignment explanation
Indices: 67076--67114 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
67066 CGATTCTCTC
67076 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
67096 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
67115 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:67216 original size:14 final size:14
Alignment explanation
Indices: 67197--67233 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
67187 CATCAATTAA
67197 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
67211 ACAAATCATCTTTT
1 ACAAATCAACATTT
67225 ACAAATCAA
1 ACAAATCAA
67234 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:69126 original size:20 final size:19
Alignment explanation
Indices: 69103--69170 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
69093 GAAACTTAAA
69103 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
69123 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
69143 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
69162 ATCGCAACG
1 ATCGCAACG
69171 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:69178 original size:14 final size:14
Alignment explanation
Indices: 69159--69216 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
69149 ATGCGAAATG
69159 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
69173 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
69189 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
69205 AAAATTGCAACG
1 AAAATCGCAACG
69217 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:69201 original size:32 final size:33
Alignment explanation
Indices: 69143--69221 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
69133 GGAAATGGCT
69143 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
69176 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
69208 ATTGCAACGCGAAA
1 ATCGCAATGCGAAA
69222 CACAAATTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 28 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:69278 original size:32 final size:32
Alignment explanation
Indices: 69241--69362 Score: 145
Period size: 32 Copynumber: 3.6 Consensus size: 32
69231 CATTGCGATT
*
69241 TTCATTTCGCGTTGCGATTTTGTCGTTGCGAATTCA
1 TTCATTTCGCATTGCGATTTTGTCGTTGCG-A---A
69277 TTTCGCATTTCGCATTGCGATTTTGTCGTTGCGAA
1 -TT--CATTTCGCATTGCGATTTTGTCGTTGCGAA
* *
69312 TTCATTTCACATTGCGATTTTGTCGTTGCGATT
1 TTCATTTCGCATTGCGATTTTGTCGTTGCGA-A
69345 TTCATTTCGCATTGCGAT
1 TTCATTTCGCATTGCGAT
69363 AGCCATTTTC
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
32 28 0.36
33 17 0.22
34 2 0.03
35 1 0.01
37 2 0.03
38 1 0.01
39 27 0.35
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (32 bp):
TTCATTTCGCATTGCGATTTTGTCGTTGCGAA
Found at i:69297 original size:39 final size:39
Alignment explanation
Indices: 69243--69382 Score: 154
Period size: 39 Copynumber: 3.8 Consensus size: 39
69233 TTGCGATTTT
*
69243 CATTTCGCGTTGCGATTTTGTCGTTGCGAATTCATTTCG
1 CATTTCGCATTGCGATTTTGTCGTTGCGAATTCATTTCG
69282 CATTTCGCATTGCGATTTTGTCGTTGCGAATTCATTT--
1 CATTTCGCATTGCGATTTTGTCGTTGCGAATTCATTTCG
*
69319 CA-----CATTGCGATTTTGTCGTTGCGATTTTCATTTCG
1 CATTTCGCATTGCGATTTTGTCGTTGCGA-ATTCATTTCG
* * *
69354 CATTGCG-ATAGCCATTTTCGT-GTTGCGAA
1 CATTTCGCATTGCGATTTT-GTCGTTGCGAA
69383 AGGAAACTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
32 22 0.25
33 7 0.08
35 2 0.02
37 2 0.02
39 52 0.60
40 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (39 bp):
CATTTCGCATTGCGATTTTGTCGTTGCGAATTCATTTCG
Found at i:69308 original size:14 final size:14
Alignment explanation
Indices: 69291--69346 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
69281 GCATTTCGCA
69291 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
69305 TTGCGAATTCATT-TCACA
1 TTGCG-ATT--TTGT--CG
69323 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
69337 TTGCGATTTT
1 TTGCGATTTT
69347 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 16 0.47
15 5 0.15
16 2 0.06
17 5 0.15
18 6 0.18
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:69371 original size:71 final size:71
Alignment explanation
Indices: 69241--69382 Score: 198
Period size: 71 Copynumber: 2.0 Consensus size: 71
69231 CATTGCGATT
* * * * *
69241 TTCATTTCGCGTTGCGATTTTGTCGTTGCGAATTCATTTCGCATTTCGCATTGCGATTTT-GTCG
1 TTCATTTCACATTGCGATTTTGTCGTTGCGAATTCATTTCGCATTGCGCATAGCCATTTTCGT-G
69305 TTGCGAA
65 TTGCGAA
*
69312 TTCATTTCACATTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCG-ATAGCCATTTTCGTG
1 TTCATTTCACATTGCGATTTTGTCGTTGCGA-ATTCATTTCGCATTGCGCATAGCCATTTTCGTG
69376 TTGCGAA
65 TTGCGAA
69383 AGGAAACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
71 46 0.73
72 17 0.27
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (71 bp):
TTCATTTCACATTGCGATTTTGTCGTTGCGAATTCATTTCGCATTGCGCATAGCCATTTTCGTGT
TGCGAA
Found at i:69883 original size:18 final size:18
Alignment explanation
Indices: 69857--69901 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
69847 GTCGATCAGA
*
69857 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
69875 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
69893 TGATGGCTC
1 TGATGGCTC
69902 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:71272 original size:20 final size:20
Alignment explanation
Indices: 71224--71282 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
71214 AATAGTTTCT
** *
71224 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
71244 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
71264 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
71283 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:71572 original size:22 final size:22
Alignment explanation
Indices: 71545--71588 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
71535 GATGGAGATA
71545 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
71567 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
71589 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:71802 original size:20 final size:20
Alignment explanation
Indices: 71777--71828 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
71767 ATTATGTATT
71777 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
71797 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
71817 ATCTCGTTGCGA
1 ATCGCGTTGCGA
71829 TTTTCCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:71940 original size:21 final size:21
Alignment explanation
Indices: 71900--71940 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
71890 ACTGTAAACC
**
71900 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
71921 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
71941 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:79628 original size:10 final size:10
Alignment explanation
Indices: 79615--79639 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
79605 TTAATATTAT
79615 TATATTTAAA
1 TATATTTAAA
79625 TATATTTAAA
1 TATATTTAAA
79635 TATAT
1 TATAT
79640 AATCAGAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATTTAAA
Found at i:87250 original size:26 final size:25
Alignment explanation
Indices: 87219--87298 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
87209 CCAATTTTTG
87219 ACATTCTATCTCTTTGAGACCTTG-A
1 ACATTCT-TCTCTTTGAGACCTTGAA
*
87244 A-A-TATTCT-TTT-AGACCTTGAA
1 ACATTCTTCTCTTTGAGACCTTGAA
* *
87265 ACATTCCCTCTCTTTGAGACCTGGAA
1 ACATT-CTTCTCTTTGAGACCTTGAA
87291 ACATTCTT
1 ACATTCTT
87299 TCCACCTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 8 0.18
21 5 0.11
22 4 0.09
23 3 0.07
24 4 0.09
25 6 0.14
26 14 0.32
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (25 bp):
ACATTCTTCTCTTTGAGACCTTGAA
Found at i:87258 original size:20 final size:20
Alignment explanation
Indices: 87229--87270 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
87219 ACATTCTATC
*
87229 TCTTTGAGACCTTGAAATAT
1 TCTTTGAGACCTTGAAACAT
*
87249 TCTTTTAGACCTTGAAACAT
1 TCTTTGAGACCTTGAAACAT
87269 TC
1 TC
87271 CCTCTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (20 bp):
TCTTTGAGACCTTGAAACAT
Found at i:87326 original size:45 final size:46
Alignment explanation
Indices: 87226--87329 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 46
87216 TTGACATTCT
* * * *
87226 ATCTCTTTGAGACCTTGAAATATTCTTTTAGACCTTGAAACATTCC
1 ATCTCTTTGAGACCTGGAAACATTCTTTTACACCTTGAAACACTCC
* * *
87272 CTCTCTTTGAGACCTGGAAACATTC-TTTCCACCTTGAAACACTGC
1 ATCTCTTTGAGACCTGGAAACATTCTTTTACACCTTGAAACACTCC
* *
87317 ATTTTTTTGAGAC
1 ATCTCTTTGAGAC
87330 ACAAAAGTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 26 0.54
46 22 0.46
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (46 bp):
ATCTCTTTGAGACCTGGAAACATTCTTTTACACCTTGAAACACTCC
Found at i:87918 original size:12 final size:11
Alignment explanation
Indices: 87901--87977 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 11
87891 TCCAATGAAA
87901 AAAGAAATAAGC
1 AAAGAAA-AAGC
*
87913 AAAGAAAAA-A
1 AAAGAAAAAGC
*
87923 AAAAACAAAGAGC
1 AAAGA-AAA-AGC
*
87936 AAAGAGAAAAATC
1 -AA-AGAAAAAGC
*
87949 AAAGCAAAAATC
1 AAAG-AAAAAGC
87961 AAAGAAAAAGC
1 AAAGAAAAAGC
87972 AAAGAA
1 AAAGAA
87978 CAAAAAGAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
10 4 0.08
11 19 0.36
12 21 0.40
13 2 0.04
14 5 0.09
15 2 0.04
ACGTcount: A:0.73, C:0.09, G:0.14, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAGC
Found at i:87926 original size:23 final size:22
Alignment explanation
Indices: 87898--87969 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 22
87888 AGATCCAATG
87898 AAAAAAGAAATAAGCAAAGAAAA
1 AAAAAAGAAA-AAGCAAAGAAAA
87921 AAAAAA-ACAAAGAGCAAAGAGAAA
1 AAAAAAGA-AAA-AGCAAAGA-AAA
* *
87945 AATCAAAGCAAAAATCAAAGAAAA
1 AA-AAAAG-AAAAAGCAAAGAAAA
87969 A
1 A
87970 GCAAAGAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.05
23 16 0.39
24 9 0.22
25 10 0.24
26 3 0.07
27 1 0.02
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.04
Consensus pattern (22 bp):
AAAAAAGAAAAAGCAAAGAAAA
Found at i:87933 original size:16 final size:19
Alignment explanation
Indices: 87897--87933 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87887 AAGATCCAAT
87897 GAAAAAAGAAATAAGCAAA
1 GAAAAAAGAAATAAGCAAA
87916 GAAAAAA-AAA-AA-CAAA
1 GAAAAAAGAAATAAGCAAA
87932 GA
1 GA
87934 GCAAAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 3 0.17
19 7 0.39
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (19 bp):
GAAAAAAGAAATAAGCAAA
Found at i:87952 original size:36 final size:37
Alignment explanation
Indices: 87903--87976 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
87893 CAATGAAAAA
*
87903 AGAAATAAGCAAAGAAAAAAAAAAACAAAGAGCAAAG
1 AGAAATAAGCAAAGAAAAAAAAAAACAAAAAGCAAAG
* * ** *
87940 AGAAA-AATCAAAGCAAAAATCAAAGAAAAAGCAAAG
1 AGAAATAAGCAAAGAAAAAAAAAAACAAAAAGCAAAG
87976 A
1 A
87977 ACAAAAAGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
36 26 0.84
37 5 0.16
ACGTcount: A:0.72, C:0.09, G:0.15, T:0.04
Consensus pattern (37 bp):
AGAAATAAGCAAAGAAAAAAAAAAACAAAAAGCAAAG
Found at i:87956 original size:25 final size:23
Alignment explanation
Indices: 87898--87984 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 23
87888 AGATCCAATG
*
87898 AAAAAAGAAATAAGCAAAGAAAAA
1 AAAAAACAAA-AAGCAAAGAAAAA
*
87922 AAAAAACAAAGAGCAAAGAGAAAA
1 AAAAAACAAAAAGCAAAGA-AAAA
* * *
87946 ATCAAAGCAAAAATCAAAGAAAAA
1 A-AAAAACAAAAAGCAAAGAAAAA
*
87970 GCAAAGAACAAAAAG
1 --AAAAAACAAAAAG
87985 AGGACAAAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
23 8 0.16
24 18 0.37
25 22 0.45
26 1 0.02
ACGTcount: A:0.74, C:0.09, G:0.14, T:0.03
Consensus pattern (23 bp):
AAAAAACAAAAAGCAAAGAAAAA
Found at i:87968 original size:11 final size:11
Alignment explanation
Indices: 87940--87977 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
87930 AAGAGCAAAG
87940 AGAAAAATCAA
1 AGAAAAATCAA
87951 AGCAAAAATCAA
1 AG-AAAAATCAA
*
87963 AGAAAAAGCAA
1 AGAAAAATCAA
87974 AGAA
1 AGAA
87978 CAAAAAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:89173 original size:4 final size:4
Alignment explanation
Indices: 89164--89221 Score: 102
Period size: 4 Copynumber: 15.0 Consensus size: 4
89154 ATATATCAAC
89164 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
89210 ACAT ACAT ACAT
1 ACAT ACAT ACAT
89222 GATACATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
4 50 0.96
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:89728 original size:36 final size:36
Alignment explanation
Indices: 89676--89793 Score: 141
Period size: 36 Copynumber: 3.3 Consensus size: 36
89666 TGAGAATTTT
* *
89676 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGATTGAGACAATTTCTTTA
* *
89713 AAAGCAAATTTTGTCTCGATTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGATTGAGACA-ATTTCTTTA
* * *
89748 AAAAAAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
89784 AAAACAAATT
1 AAAACAAATT
89794 CCGCCTCACT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
34 4 0.06
35 25 0.37
36 28 0.41
37 11 0.16
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
Found at i:89809 original size:71 final size:70
Alignment explanation
Indices: 89675--89814 Score: 165
Period size: 71 Copynumber: 2.0 Consensus size: 70
89665 TTGAGAATTT
* * ** * ** * *
89675 TAAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGCAAATTTTGTCTCGATTGAGACA
1 TAAAAAAAAATTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACA
89740 GCTTTC
66 -CTTTC
*
89746 TAAAAAAAAATTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGCCTC-ACTGGAGAC
1 TAAAAAAAAATTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGA-TGGAGAC
89810 ACTTT
65 ACTTT
89815 TCATTGAGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
70 5 0.09
71 53 0.91
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (70 bp):
TAAAAAAAAATTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACA
CTTTC
Found at i:89907 original size:35 final size:33
Alignment explanation
Indices: 89863--89980 Score: 103
Period size: 36 Copynumber: 3.4 Consensus size: 33
89853 ACAAAGTTGA
* *
89863 TCTCACTTGAGATCGTTTCTCAAAATCAAACTTTG
1 TCTCACTTGAGA-C-TTTCTCAAAAACAAATTTTG
*
89898 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC--TTTCTC-AAAAACAAATTTTG
* * *
89934 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-T-TCTCAAAAACAAATTTTG
*
89968 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
89981 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
34 25 0.36
35 18 0.26
36 26 0.38
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (33 bp):
TCTCACTTGAGACTTTCTCAAAAACAAATTTTG
Found at i:89944 original size:36 final size:36
Alignment explanation
Indices: 89878--89981 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
89868 CTTGAGATCG
* *
89878 TTTCTC-AAAATCAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
89913 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* *
89949 TATCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
89982 TCATTTTCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 23 0.40
35 7 0.12
36 28 0.48
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:90352 original size:30 final size:29
Alignment explanation
Indices: 90234--90430 Score: 274
Period size: 29 Copynumber: 6.8 Consensus size: 29
90224 TTCTCTTGAG
90234 AAAATCTTTGAGTTTGTTCCTTTTGAATA
1 AAAATCTTTGAGTTTGTTCCTTTTGAATA
90263 AAAATCTTTGAGTTTGTTCCTTTTGAATA
1 AAAATCTTTGAGTTTGTTCCTTTTGAATA
*
90292 AAAATCTTTGAG-TTGTTTCTTTTGAA-A
1 AAAATCTTTGAGTTTGTTCCTTTTGAATA
* *
90319 AAAATCTTTGAGTTTGTTCCTCTTGAAAAA
1 AAAATCTTTGAGTTTGTTCCTTTTG-AATA
* *
90349 AAAATATTTGAGTTTGTTCATTTTGAATA
1 AAAATCTTTGAGTTTGTTCCTTTTGAATA
* *
90378 AAAATCTTTGAGATTGTTTCTTTTGAA-A
1 AAAATCTTTGAGTTTGTTCCTTTTGAATA
*
90406 CAAAAGTCTTTGAGTTTGTTTCTTT
1 -AAAA-TCTTTGAGTTTGTTCCTTT
90431 GGAAACAAAA
Statistics
Matches: 151, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
27 13 0.09
28 24 0.16
29 73 0.48
30 41 0.27
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (29 bp):
AAAATCTTTGAGTTTGTTCCTTTTGAATA
Found at i:90474 original size:37 final size:37
Alignment explanation
Indices: 90424--90607 Score: 135
Period size: 37 Copynumber: 5.3 Consensus size: 37
90414 TTTGAGTTTG
90424 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
* * * ***
90461 TTTCTTTTGAAACAAAAATCTTTGAGTC-T--G----
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
*
90491 TTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
* * * ***
90528 TTTCTTTTGAAACAAAAATCTTTGAGTC-T--G----
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
*
90558 TTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
90595 TTTCTTTTGGAAA
1 TTTC-TTTGGAAA
90608 AATCTTTGAA
Statistics
Matches: 105, Mismatches: 27, Indels: 29
0.65 0.17 0.18
Matches are distributed among these distances:
30 42 0.40
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 47 0.45
38 8 0.08
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAA
Found at i:90495 original size:30 final size:30
Alignment explanation
Indices: 90461--90574 Score: 104
Period size: 30 Copynumber: 3.6 Consensus size: 30
90451 CTTAAGATAA
*
90461 TTTCTTTTGAAACAAAAATCTTTGAGTCTG
1 TTTCTTTGGAAACAAAAATCTTTGAGTCTG
* **
90491 TTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT-AA
1 TTTCTTTGGAAACAAAA----A--TCT-TTGAG-TCTG
*
90528 TTTCTTTTGAAACAAAAATCTTTGAGTCTG
1 TTTCTTTGGAAACAAAAATCTTTGAGTCTG
90558 TTTCTTTGGAAACAAAA
1 TTTCTTTGGAAACAAAA
90575 TTTTATCTCT
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
29 1 0.02
30 36 0.55
31 3 0.05
33 1 0.02
34 1 0.02
36 3 0.05
37 20 0.30
38 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (30 bp):
TTTCTTTGGAAACAAAAATCTTTGAGTCTG
Found at i:90502 original size:67 final size:67
Alignment explanation
Indices: 90394--90626 Score: 400
Period size: 67 Copynumber: 3.5 Consensus size: 67
90384 TTTGAGATTG
* * *
90394 TTTCTTTTGAAACAAAAGTCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
90459 AA
66 AA
90461 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
90526 AA
66 AA
90528 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
90593 AA
66 AA
* *
90595 TTTCTTTTG---GAAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
90627 CTTAAGATGA
Statistics
Matches: 161, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
64 21 0.13
67 140 0.87
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGAT
AA
Found at i:90895 original size:120 final size:119
Alignment explanation
Indices: 90726--90950 Score: 256
Period size: 120 Copynumber: 1.9 Consensus size: 119
90716 CTTAACAAAA
* ** *
90726 TCATCTTGGAGTCTATTTCTTTAAAAACAAATATTGTCTCTCTGGAGACAGTTTCAAATGAGAAA
1 TCATCTTGGAGTCTATTTCTTTAAAAACAAATATTATCTCTCTAAAGACAATTTCAAATGA-AAA
**
90791 CTAA-CTTTTGAGATTGTTTCATTTGAAACAAATTTGGTCTCACTTAAGATATGAT
65 AAAATC-TTTGAGATTGTTTCATTTGAAACAAATTTGGTCTCACTTAAGATATGAT
* * ** * ***
90846 TCATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCT-TAAAGACAATTTCTTTTGAAAA
1 TCATCTTGGAGTCTATTTCTTTAAAAAC-AAATATTATCTCTCTAAAGACAATTTCAAATGAAAA
* * *
90910 AAAATCTTTGAGTTTGTTTCCTTTGAAACAAATTTTGTCTC
65 AAAATCTTTGAGATTGTTTCATTTGAAACAAATTTGGTCTC
90951 TCGAGACAAC
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
119 37 0.43
120 38 0.44
121 11 0.13
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (119 bp):
TCATCTTGGAGTCTATTTCTTTAAAAACAAATATTATCTCTCTAAAGACAATTTCAAATGAAAAA
AAATCTTTGAGATTGTTTCATTTGAAACAAATTTGGTCTCACTTAAGATATGAT
Found at i:90928 original size:65 final size:63
Alignment explanation
Indices: 90848--90972 Score: 178
Period size: 65 Copynumber: 2.0 Consensus size: 63
90838 GATATGATTC
* *
90848 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAAC-AAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAAAA
* * **
90913 ATCTTTGAGTTTGTTTCCTTTGAAACAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
90973 TACCACCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 19 0.35
64 11 0.20
65 24 0.44
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (63 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAAAA
Found at i:90993 original size:64 final size:64
Alignment explanation
Indices: 90850--91014 Score: 167
Period size: 64 Copynumber: 2.6 Consensus size: 64
90840 TATGATTCAT
* * *
90850 CTTTGAG-TCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAAAA
1 CTTTGAGTTC-GTTTCCTTTGAAAC-AAATTTTGTCTCTTAAAGACAACTTCTTTTGAAAAAAAA
*
90914 T
64 C
* ** **
90915 CTTTGAGTTTGTTTCCTTTGAAACAAATTTTGTCTC-TCGAGACAACTTCTTTTGAAAATACCAC
1 CTTTGAGTTCGTTTCCTTTGAAACAAATTTTGTCTCTTAAAGACAACTTCTTTTGAAAA-AAAAC
*
90979 CTTTGA-TATCGTTT-CTATTAAAACAAATTTTGTCTC
1 CTTTGAGT-TCGTTTCCT-TTGAAACAAATTTTGTCTC
91015 GCATGAGACA
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
63 22 0.26
64 42 0.49
65 20 0.24
66 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.43
Consensus pattern (64 bp):
CTTTGAGTTCGTTTCCTTTGAAACAAATTTTGTCTCTTAAAGACAACTTCTTTTGAAAAAAAAC
Found at i:91269 original size:1 final size:1
Alignment explanation
Indices: 91263--91290 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
91253 ATGTCTTTTC
91263 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
91291 CTTTGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:91700 original size:40 final size:40
Alignment explanation
Indices: 91642--91968 Score: 191
Period size: 40 Copynumber: 7.8 Consensus size: 40
91632 CCAGCCGTCC
* * * *
91642 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGATCTCT
* * * *
91682 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCTAG---ACCAGATC-TCT
* * *
91725 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGATCTCT
* * *
91771 TCATCACGTATGAGCCGTGTCATCAGCT-GACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCATC-CCTAGACCAGATCTCT
* *
91811 TCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCC-TAG---ACCAGATC-TCT
* * *
91854 TCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGATCTCT
* *
91900 TCATCACGTATGAGCCGTGTCTTTCTCC--GACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTC-ATC-CCTAGACCAGATCTCT
*
91940 TCATCACGTATGAGCCGTGTCA-CCCTAGA
1 TCATCACGTAGGAGCCGTGTCATCCCTAGA
91969 TAACCAGCCG
Statistics
Matches: 226, Mismatches: 34, Indels: 55
0.72 0.11 0.17
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 4 0.02
40 85 0.38
42 2 0.01
43 61 0.27
44 3 0.01
45 2 0.01
46 59 0.26
47 6 0.03
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (40 bp):
TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGATCTCT
Found at i:91778 original size:46 final size:45
Alignment explanation
Indices: 91672--92047 Score: 218
Period size: 46 Copynumber: 8.7 Consensus size: 45
91662 CATCCCCAGA
* * * * **
91672 CCAGAGCTCTTCATCACGTAGGAGCCGTGTCA--ACCATAGATAA
1 CCAGATCTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* *
91715 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGATC-TCTTCATCACGTAGGAACCGTGTTATCACC-TTAGATGG
* * * * *
91761 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCAGC-T-GA---
1 CCAGATCTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* * * **
91801 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA-C-CCTTAGATAA
1 CCAGATCTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* * *
91844 CCAG-CCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGG
1 CCAGATC-TCTTCATCACGTAGGAACCGTGTTATCACC-TTAGATGG
* * * *
91890 CCAGATCTCTTCATCACGTATGAGCCGTGTCTTTCTCC---GA---
1 CCAGATCTCTTCATCACGTAGGAACCGTGT-TATCACCTTAGATGG
* * * **
91930 CCAGATCTCTTCATCACGTATGAGCCGTG---TCACCCTAGATAA
1 CCAGATCTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
* * *
91972 CCAG-CCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGG
1 CCAGATC-TCTTCATCACGTAGGAACCGTGTTATCACC-TTAGATGG
* * *
92018 CCAGAACTCTTCATCACGTATGAACAGTGT
1 CCAGATCTCTTCATCACGTAGGAACCGTGT
92048 CGTCCCCACC
Statistics
Matches: 261, Mismatches: 44, Indels: 53
0.73 0.12 0.15
Matches are distributed among these distances:
36 4 0.02
38 1 0.00
39 4 0.02
40 60 0.23
41 1 0.00
42 24 0.09
43 56 0.21
44 2 0.01
45 10 0.04
46 91 0.35
47 8 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
CCAGATCTCTTCATCACGTAGGAACCGTGTTATCACCTTAGATGG
Found at i:91856 original size:129 final size:127
Alignment explanation
Indices: 91642--92040 Score: 620
Period size: 129 Copynumber: 3.1 Consensus size: 127
91632 CCAGCCGTCC
* * * *
91642 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGAGCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCAT-CCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTC-ACC
*
91707 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
64 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * *
91771 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATC-CCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCC
* *
91836 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGATCTCT
65 -TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
91900 TCATCACGTATGAGCCGTGTCTTTCTCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCACC
1 TCATCACGTATGAGCCGTGTC-ATC-CCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACC
*
91964 CTAGATAACCAGCCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGGCCAGAACTCT
64 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
92028 TCATCACGTATGA
1 TCATCACGTATGA
92041 ACAGTGTCGT
Statistics
Matches: 249, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
128 77 0.31
129 169 0.68
130 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (127 bp):
TCATCACGTATGAGCCGTGTCATCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCCT
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:92218 original size:3 final size:3
Alignment explanation
Indices: 92207--92246 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
92197 TTTTTTATCG
92207 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
92247 GTTTATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:92239 original size:22 final size:22
Alignment explanation
Indices: 92211--92254 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
92201 TTATCGTTAT
92211 TTTATTATTATTAT-TATTATTA
1 TTTATTATTATTATGT-TTATTA
92233 TTTATTATTATTATGTTTATTA
1 TTTATTATTATTATGTTTATTA
92255 ATTACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATTATTATTATGTTTATTA
Found at i:93008 original size:22 final size:22
Alignment explanation
Indices: 92965--93008 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
92955 AAATTTACAT
*
92965 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
92987 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
93009 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:95507 original size:546 final size:546
Alignment explanation
Indices: 94475--95558 Score: 2168
Period size: 546 Copynumber: 2.0 Consensus size: 546
94465 CATCAGAATC
94475 TGAAATCAAATAAATGAAACTTCATTTAATGGCTAAATAATACGGTTACAAAGCATCAGGGACCA
1 TGAAATCAAATAAATGAAACTTCATTTAATGGCTAAATAATACGGTTACAAAGCATCAGGGACCA
94540 AAAGCGTAGTTACCCCATGCGTGAAATTACAGAACTCGTCCCCTCAAAACGACGCCGTTTCCCAC
66 AAAGCGTAGTTACCCCATGCGTGAAATTACAGAACTCGTCCCCTCAAAACGACGCCGTTTCCCAC
94605 AAGCTATAAATAGCCCAAATATCTCCTTGAACCGGCCATCTGTTTCATTTTCCCTTCAGCATGAG
131 AAGCTATAAATAGCCCAAATATCTCCTTGAACCGGCCATCTGTTTCATTTTCCCTTCAGCATGAG
94670 AAAGGGAAAGAGAGAGAAGAGGAGAGAGTGAGAGAGATATCTAGAAATCTCTCTGGAAACGGCGA
196 AAAGGGAAAGAGAGAGAAGAGGAGAGAGTGAGAGAGATATCTAGAAATCTCTCTGGAAACGGCGA
94735 GATTCCGCCGTGCCGGCCGCCACTGACCGGCGGCCGCCGCCGTACGCCGGCGCCGAAGGGAGAGA
261 GATTCCGCCGTGCCGGCCGCCACTGACCGGCGGCCGCCGCCGTACGCCGGCGCCGAAGGGAGAGA
94800 AAACGACACTATTCAAAGCGTCTCCAGACCCTGAGCAAGGATCTGGCCTCCGTTTGGCCTAAAAG
326 AAACGACACTATTCAAAGCGTCTCCAGACCCTGAGCAAGGATCTGGCCTCCGTTTGGCCTAAAAG
94865 TGGCTCAATCACAGTGGATTAGGGGAGAAACCTTTCGGTTTCTCCATCTCCGGCGACCGGTTTTC
391 TGGCTCAATCACAGTGGATTAGGGGAGAAACCTTTCGGTTTCTCCATCTCCGGCGACCGGTTTTC
94930 CTCGGTGTTCGACCAAGGTATGGTCTCTCTTCTCTCCTCTTTTTCCTATCTTCTGTTTTTTATGT
456 CTCGGTGTTCGACCAAGGTATGGTCTCTCTTCTCTCCTCTTTTTCCTATCTTCTGTTTTTTATGT
94995 TTTCTCTTTTTTTTTTTTTTTTTTTT
521 TTTCTCTTTTTTTTTTTTTTTTTTTT
95021 TGAAATCAAATAAATGAAACTTCATTTAATGGCTAAATAATACGGTTACAAAGCATCAGGGACCA
1 TGAAATCAAATAAATGAAACTTCATTTAATGGCTAAATAATACGGTTACAAAGCATCAGGGACCA
95086 AAAGCGTAGTTACCCCATGCGTGAAATTACAGAACTCGTCCCCTCAAAACGACGCCGTTTCCCAC
66 AAAGCGTAGTTACCCCATGCGTGAAATTACAGAACTCGTCCCCTCAAAACGACGCCGTTTCCCAC
95151 AAGCTATAAATAGCCCAAATATCTCCTTGAACCGGCCATCTGTTTCATTTTCCCTTCAGCATGAG
131 AAGCTATAAATAGCCCAAATATCTCCTTGAACCGGCCATCTGTTTCATTTTCCCTTCAGCATGAG
95216 AAAGGGAAAGAGAGAGAAGAGGAGAGAGTGAGAGAGATATCTAGAAATCTCTCTGGAAACGGCGA
196 AAAGGGAAAGAGAGAGAAGAGGAGAGAGTGAGAGAGATATCTAGAAATCTCTCTGGAAACGGCGA
95281 GATTCCGCCGTGCCGGCCGCCACTGACCGGCGGCCGCCGCCGTACGCCGGCGCCGAAGGGAGAGA
261 GATTCCGCCGTGCCGGCCGCCACTGACCGGCGGCCGCCGCCGTACGCCGGCGCCGAAGGGAGAGA
95346 AAACGACACTATTCAAAGCGTCTCCAGACCCTGAGCAAGGATCTGGCCTCCGTTTGGCCTAAAAG
326 AAACGACACTATTCAAAGCGTCTCCAGACCCTGAGCAAGGATCTGGCCTCCGTTTGGCCTAAAAG
95411 TGGCTCAATCACAGTGGATTAGGGGAGAAACCTTTCGGTTTCTCCATCTCCGGCGACCGGTTTTC
391 TGGCTCAATCACAGTGGATTAGGGGAGAAACCTTTCGGTTTCTCCATCTCCGGCGACCGGTTTTC
95476 CTCGGTGTTCGACCAAGGTATGGTCTCTCTTCTCTCCTCTTTTTCCTATCTTCTGTTTTTTATGT
456 CTCGGTGTTCGACCAAGGTATGGTCTCTCTTCTCTCCTCTTTTTCCTATCTTCTGTTTTTTATGT
95541 TTTCTCTTTTTTTTTTTT
521 TTTCTCTTTTTTTTTTTT
95559 CTGAACCCGA
Statistics
Matches: 538, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
546 538 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (546 bp):
TGAAATCAAATAAATGAAACTTCATTTAATGGCTAAATAATACGGTTACAAAGCATCAGGGACCA
AAAGCGTAGTTACCCCATGCGTGAAATTACAGAACTCGTCCCCTCAAAACGACGCCGTTTCCCAC
AAGCTATAAATAGCCCAAATATCTCCTTGAACCGGCCATCTGTTTCATTTTCCCTTCAGCATGAG
AAAGGGAAAGAGAGAGAAGAGGAGAGAGTGAGAGAGATATCTAGAAATCTCTCTGGAAACGGCGA
GATTCCGCCGTGCCGGCCGCCACTGACCGGCGGCCGCCGCCGTACGCCGGCGCCGAAGGGAGAGA
AAACGACACTATTCAAAGCGTCTCCAGACCCTGAGCAAGGATCTGGCCTCCGTTTGGCCTAAAAG
TGGCTCAATCACAGTGGATTAGGGGAGAAACCTTTCGGTTTCTCCATCTCCGGCGACCGGTTTTC
CTCGGTGTTCGACCAAGGTATGGTCTCTCTTCTCTCCTCTTTTTCCTATCTTCTGTTTTTTATGT
TTTCTCTTTTTTTTTTTTTTTTTTTT
Found at i:96060 original size:3 final size:3
Alignment explanation
Indices: 96054--96111 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
96044 AAAAAATATG
* **
96054 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96098 TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA
96112 CGGAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:96347 original size:43 final size:43
Alignment explanation
Indices: 96271--96605 Score: 207
Period size: 43 Copynumber: 7.8 Consensus size: 43
96261 TGTTGGGGAC
* * * * *
96271 GACACTGCTCATACGTGATGAAGAGTTCGGGTCGTCTAAGGGT
1 GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCTAAGGGT
* * * * *
96314 GACATGGTTCCTACGTGATGAAGACATCTGG---TCGAAGGAT
1 GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCTAAGGGT
** * * * *
96354 GACACTACTCATACATGATGAAGAGTTCTTGGCCATCTTAAGGTGAT
1 GACACGGCTCCTACGTGATGAAGACTTC-TGGTCATC-TAAGG-G-T
* * * ** *
96401 AACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGT
1 GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCTAAGGGT
* ** * *
96444 GACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCT---GAT
1 GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCTAAGGGT
* * *
96484 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCT-AAGG-G-T
* * * ** * * *
96530 AACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
1 GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCTAAGGGT
96573 GACACGGCTCCTACGTGATGAAGAGC-TCTGGTC
1 GACACGGCTCCTACGTGATGAAGA-CTTCTGGTC
96606 TGGGGATGAC
Statistics
Matches: 217, Mismatches: 61, Indels: 28
0.71 0.20 0.09
Matches are distributed among these distances:
40 61 0.28
41 3 0.01
43 82 0.38
44 5 0.02
45 12 0.06
46 35 0.16
47 19 0.09
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (43 bp):
GACACGGCTCCTACGTGATGAAGACTTCTGGTCATCTAAGGGT
Found at i:96603 original size:89 final size:83
Alignment explanation
Indices: 96483--96643 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
96473 GGTCAGCTGA
* * *
96483 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGCTCTGG---TCT---GGGGATAACACGGTTCCTACATGA
96548 TGAGGACGGCTGGTTATCTATGGT
60 TGAGGACGGCTGGTTATCTATGGT
* *
96572 TGACACGGCTCCTACGTGATGAAGAGCTCTGGTCTGGGGATGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCATACGTGATGAAGAGCTCTGGTCTGGGGATAACACGGTTCCTACATGATGAGGA
96637 CGGCTGG
66 CGGCTGG
96644 CCATCTTTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 34 0.51
86 3 0.04
89 30 0.45
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (83 bp):
TGACACGGCTCATACGTGATGAAGAGCTCTGGTCTGGGGATAACACGGTTCCTACATGATGAGGA
CGGCTGGTTATCTATGGT
Found at i:96649 original size:129 final size:128
Alignment explanation
Indices: 96305--96633 Score: 473
Period size: 129 Copynumber: 2.5 Consensus size: 128
96295 GTTCGGGTCG
* * **
96305 TCTAAGGGTGACATGGTTCCTACGTGATGAAGA-CATCTGGTCGAAGGATGACACTACTCATACA
1 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGC-TCTGGTCG-AGGATGACACGGCTCATACA
*
96369 TGATGAAGAGTTCTTGGCCATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
64 TGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
96434 A
128 A
* * *
96435 TCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTC-AGCTGATGACACGGCTCATACG
1 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGCTCTGGTCGAG--GATGACACGGCTCATACA
96499 TGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA
64 TGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA
* * * * *
96564 TCTATGGTTGACACGGCTCCTACGTGATGAAGAGCTCTGGTCTGGGGATGACACGGTTCCTACAT
1 TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGCTCTGGTC-GAGGATGACACGGCTCATACAT
96629 GATGA
65 GATGA
96634 GGACGGCTGG
Statistics
Matches: 178, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
128 2 0.01
129 110 0.62
130 65 0.37
131 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (128 bp):
TCTAAGGGTGACACGGCTCCTACGTGATGAAGAGCTCTGGTCGAGGATGACACGGCTCATACATG
ATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA
Found at i:96712 original size:28 final size:28
Alignment explanation
Indices: 96662--96715 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
96652 AGGATTTATG
* *
96662 GTTTCAAGAGAAACCAAATCAAAGATTT
1 GTTTCAAAAGAAACCAAACCAAAGATTT
96690 GTTTCAAAAGAAA-CAAACCCAAAGAT
1 GTTTCAAAAGAAACCAAA-CCAAAGAT
96716 GATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (28 bp):
GTTTCAAAAGAAACCAAACCAAAGATTT
Found at i:97110 original size:3 final size:3
Alignment explanation
Indices: 97102--97141 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
97092 ATTAATAAAC
97102 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
97142 CGATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:97127 original size:22 final size:22
Alignment explanation
Indices: 97094--97137 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
97084 AATATGTAAT
97094 TAATAAACATAATAATAATAAA
1 TAATAAACATAATAATAATAAA
97116 TAATAATA-ATAATAATAATAAA
1 TAATAA-ACATAATAATAATAAA
97138 ATAACGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAACATAATAATAATAAA
Found at i:101638 original size:22 final size:22
Alignment explanation
Indices: 101612--101664 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
101602 AAAGGATAAT
*
101612 TTATTTATTAAGTCAT-TCATTA
1 TTATTT-TTAAGTCATCTAATTA
*
101634 TTATTTTTTAGTCATCTAATTA
1 TTATTTTTAAGTCATCTAATTA
101656 TTATCTTTT
1 TTAT-TTTT
101665 TCCAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTTTTAAGTCATCTAATTA
Found at i:104860 original size:31 final size:31
Alignment explanation
Indices: 104825--104883 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
104815 AAAAAATTGG
*
104825 TAAATTTAATGATTATTTTATATCAATTTGA
1 TAAATTTAATGATCATTTTATATCAATTTGA
*
104856 TAAATTTAATGATCATTTTATATTAATT
1 TAAATTTAATGATCATTTTATATCAATT
104884 CTAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (31 bp):
TAAATTTAATGATCATTTTATATCAATTTGA
Found at i:104896 original size:31 final size:31
Alignment explanation
Indices: 104830--104896 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
104820 ATTGGTAAAT
* * *
104830 TTAATGATTATTTTATATCAATTTGATAAAT
1 TTAATGATCATTTTATATCAATTTGAAAAAA
*
104861 TTAATGATCATTTTATATTAATTCT-AAAAAA
1 TTAATGATCATTTTATATCAATT-TGAAAAAA
104892 TTAAT
1 TTAAT
104897 AATCGTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (31 bp):
TTAATGATCATTTTATATCAATTTGAAAAAA
Found at i:107644 original size:7 final size:7
Alignment explanation
Indices: 107632--107669 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
107622 AAAACTATCA
107632 ATGTAAT
1 ATGTAAT
107639 ATGTAAT
1 ATGTAAT
107646 ATGTAAT
1 ATGTAAT
107653 ATGTAAT
1 ATGTAAT
107660 ATGTAAT
1 ATGTAAT
107667 ATG
1 ATG
107670 CATATTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (7 bp):
ATGTAAT
Found at i:108227 original size:30 final size:30
Alignment explanation
Indices: 108150--108230 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
108140 TAGACAGTAA
** *
108150 AATCAAGTCACTTAATCAATCAATTGTAAC
1 AATCAAGTCACTTAATTTATCAATTGGAAC
*
108180 AATC-AGATCACTCAATTTATCAATTGGAAC
1 AATCAAG-TCACTTAATTTATCAATTGGAAC
*
108210 AATCAAGTCATTTAATTTATC
1 AATCAAGTCACTTAATTTATC
108231 GTTTAAAGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (30 bp):
AATCAAGTCACTTAATTTATCAATTGGAAC
Found at i:137061 original size:16 final size:18
Alignment explanation
Indices: 137029--137061 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
137019 CATTTGGATT
137029 AATGAAGACACAAACAAC
1 AATGAAGACACAAACAAC
137047 AATGAAG-CA-AAACAA
1 AATGAAGACACAAACAA
137062 AAGTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.64, C:0.18, G:0.12, T:0.06
Consensus pattern (18 bp):
AATGAAGACACAAACAAC
Found at i:138116 original size:18 final size:18
Alignment explanation
Indices: 138082--138122 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
138072 TAAGTTTATG
*
138082 AATATATTTTTATATAAA
1 AATATATTTTTAGATAAA
138100 AATAT-TTTTTAAGAT-AA
1 AATATATTTTT-AGATAAA
138117 AATATA
1 AATATA
138123 ATTTCATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATATATTTTTAGATAAA
Found at i:141850 original size:24 final size:25
Alignment explanation
Indices: 141822--141891 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 25
141812 TCACGAACAT
141822 GTTCATGAACATGTTTGTTTATATC
1 GTTCATGAACATGTTTGTTTATATC
**
141847 -TTCAT-AA-ATGTATTCATT-TATC
1 GTTCATGAACATGT-TTGTTTATATC
* *
141869 GTTCATGAACGTGTTCGTTTATA
1 GTTCATGAACATGTTTGTTTATA
141892 CATATTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
22 8 0.24
23 11 0.32
24 10 0.29
25 5 0.15
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (25 bp):
GTTCATGAACATGTTTGTTTATATC
Found at i:142515 original size:20 final size:20
Alignment explanation
Indices: 142490--142740 Score: 188
Period size: 20 Copynumber: 12.2 Consensus size: 20
142480 AATGACCAAC
*
142490 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
142510 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
142530 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
142550 AAAATCGCAACGCGATATTCC
1 AAAATCGCAACGCGAT-TAAG
*
142571 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
142592 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
***
142613 AAGAATCGCAACGCGATCTTCC
1 AA-AATCGCAACGCGAT-TAAG
* *
142635 AAGAATCGCAATGCGATTCAG
1 AA-AATCGCAACGCGATTAAG
142656 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
*
142676 AGAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
142698 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
* *
142716 AAAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATTAAG
142736 AAAAT
1 AAAAT
142741 GAGTAAATTC
Statistics
Matches: 192, Mismatches: 26, Indels: 26
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.02
20 123 0.64
21 13 0.07
22 52 0.27
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:142598 original size:42 final size:42
Alignment explanation
Indices: 142547--142731 Score: 220
Period size: 42 Copynumber: 4.5 Consensus size: 42
142537 CAACGGTCAA
* *
142547 AAGAAAATCGCAACGCGATATTCCAAGAATCGCAATGCGATT
1 AAGAGAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
*
142589 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATCTT
1 AAGAGAATCGCAACGCGATATTCCAAGAATCGCAACGCGA--TT
* * *
142633 CCA-AGAATCGCAATGCG--ATT-CAGAAAATCGCAACGCGATT
1 -AAGAGAATCGCAACGCGATATTCCA-AGAATCGCAACGCGATT
142673 AAGAGAATCGCAACGCG--ATTCCAAGAATCGCAACGCGATT
1 AAGAGAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
* *
142713 AAGAAAATCGCAATGCGAT
1 AAGAGAATCGCAACGCGAT
142732 TCAGAAAATG
Statistics
Matches: 123, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 49 0.40
41 4 0.03
42 53 0.43
44 15 0.12
45 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (42 bp):
AAGAGAATCGCAACGCGATATTCCAAGAATCGCAACGCGATT
Found at i:142635 original size:64 final size:62
Alignment explanation
Indices: 142492--142732 Score: 262
Period size: 64 Copynumber: 3.9 Consensus size: 62
142482 TGACCAACAA
** * * * ** *
142492 AATCGCAACGCGATTTAGAA-AATCGCAACGTTGA-AAAGAAAATCGCAACG-G-TCAAAAGAA
1 AATCGCAACGCGATTTCCAAGAATCGCAATG-CGATTAAGAAAATCGCAACGCGAT-TTAAGAG
* *
142552 AATCGCAACGCGATATTCCAAGAATCGCAATGCGATTAAGAGAATCGCAACGCGATCTTCCA-AG
1 AATCGCAACGCGAT-TTCCAAGAATCGCAATGCGATTAAGAAAATCGCAACGCGAT-TT-AAGAG
*
142616 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCAGAAAATCGCAACGCGA-TTAAGAG
1 AATCGCAACGCGAT-TTCCAAGAATCGCAATGCGATTAAGAAAATCGCAACGCGATTTAAGAG
* *
142678 AATCGCAACGCGA-TTCCAAGAATCGCAACGCGATTAAGAAAATCGCAATGCGATT
1 AATCGCAACGCGATTTCCAAGAATCGCAATGCGATTAAGAAAATCGCAACGCGATT
142733 CAGAAAATGA
Statistics
Matches: 156, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
60 51 0.33
61 8 0.05
62 40 0.26
63 1 0.01
64 55 0.35
65 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (62 bp):
AATCGCAACGCGATTTCCAAGAATCGCAATGCGATTAAGAAAATCGCAACGCGATTTAAGAG
Found at i:142691 original size:40 final size:40
Alignment explanation
Indices: 142490--142733 Score: 210
Period size: 40 Copynumber: 6.0 Consensus size: 40
142480 AATGACCAAC
* * **
142490 AAAATCGCAACGCGATTTAGAAAATCGCAACGTTGA--AAA
1 AAAATCGCAACGCGATTAAGAAAATCGCAACG-CGATTCCA
*
142529 GAAAATCGCAACG-G-TCAAAAGAAAATCGCAACGCGATATTCCA
1 -AAAATCGCAACGCGAT--TAAGAAAATCGCAACGCG--ATTCCA
* * *
142572 AGAATCGCAATGCGATTAAGAGAATCGCAACGCGATCTTCCA
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGA--TTCCA
* *** *
142614 AGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT-CA
1 AAAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTCCA
*
142655 GAAAATCGCAACGCGATTAAGAGAATCGCAACGCGATTCCA
1 -AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCA
* *
142696 AGAATCGCAACGCGATTAAGAAAATCGCAATGCGATTC
1 AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTC
142734 AGAAAATGAG
Statistics
Matches: 166, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 76 0.46
41 7 0.04
42 63 0.38
43 4 0.02
44 13 0.08
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCA
Found at i:142847 original size:6 final size:6
Alignment explanation
Indices: 142836--142868 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
142826 GACACGTATT
142836 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
142869 CAACCCGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:143391 original size:6 final size:6
Alignment explanation
Indices: 143370--143424 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
143360 TCTCGTCTCG
143370 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
143416 GGTCGT GGT
1 GGTCGT GGT
143425 AATACGTGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.20
6 39 0.80
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:143545 original size:20 final size:20
Alignment explanation
Indices: 143520--143748 Score: 223
Period size: 20 Copynumber: 11.2 Consensus size: 20
143510 GAATTTACTC
143520 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
143540 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
* *
143560 ACTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
143580 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
143600 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
*
143622 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
143642 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
* *
143662 ATTTTATGAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
143682 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* ** *
143704 ATCTTCT-TTTCAACGTTGCG
1 ATTTTCTGAATC-GCGTTGCG
* *
143724 CTTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
143744 ATTTT
1 ATTTT
143749 GTTGGTCATT
Statistics
Matches: 178, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
19 4 0.02
20 132 0.74
21 11 0.06
22 31 0.17
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:143666 original size:82 final size:80
Alignment explanation
Indices: 143529--143748 Score: 289
Period size: 82 Copynumber: 2.7 Consensus size: 80
143519 CATTTTCTGA
* * * *
143529 ATCGCGTTGCGATTTTCTTAATCGCGTTGCGACTTTCTTAATCGCGTTGCGATTTTCTTAATCGC
1 ATCGCGTTGCGA--TTCTTAATCGCGTTGCGATTTTCTAAATCGCGTTGCGATTTTATGAATCGC
*
143594 GTTGCGATTCTTGGAAG
64 ATTGCGATTCTTGGAAG
*
143611 ATCGCGTTGCGATTCTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTATGAATCGC
1 ATCGCGTTGCGATTCTT--AATCGCGTTGCGATTTTCTAAATCGCGTTGCGATTTTATGAATCGC
143676 ATTGCGATTCTTGGAAG
64 ATTGCGATTCTTGGAAG
* * *
143693 ATCGCGTTGCGATCTTCTT-TTCAACGTTGCGCTTTTCTAAATCGCGTTGCGATTTT
1 ATCGCGTTGCGA--TTCTTAATC-GCGTTGCGATTTTCTAAATCGCGTTGCGATTTT
143749 GTTGGTCATT
Statistics
Matches: 124, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
80 5 0.04
81 2 0.02
82 112 0.90
84 5 0.04
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (80 bp):
ATCGCGTTGCGATTCTTAATCGCGTTGCGATTTTCTAAATCGCGTTGCGATTTTATGAATCGCAT
TGCGATTCTTGGAAG
Found at i:144624 original size:6 final size:6
Alignment explanation
Indices: 144585--144621 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
144575 TTTTCCAAAA
* *
144585 CAAAAT CAAACT CAAACT CAAACT CAAACT CTAACT C
1 CAAACT CAAACT CAAACT CAAACT CAAACT CAAACT C
144622 TAATCTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CAAACT
Found at i:145493 original size:18 final size:18
Alignment explanation
Indices: 145470--145513 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
145460 CGTTAGGCAC
145470 CTAAAATTTTTTTAAACA
1 CTAAAATTTTTTTAAACA
* * *
145488 CTAAAATATTTTTCAAGA
1 CTAAAATTTTTTTAAACA
145506 C-AAAATTT
1 CTAAAATTT
145514 AAACACTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (18 bp):
CTAAAATTTTTTTAAACA
Done.