Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 62
Found at i:4687797 original size:16 final size:18
Alignment explanation
Indices: 4687758--4687804 Score: 71
Period size: 16 Copynumber: 2.7 Consensus size: 18
4687748 TAATTTATAA
4687758 AAATAAATTGAATTTCTAC
1 AAATAAATTGAA-TTCTAC
4687777 AAATAAATTGAA-TCT-C
1 AAATAAATTGAATTCTAC
4687793 AAATAAATTGAA
1 AAATAAATTGAA
4687805 CTTGAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.46
17 3 0.11
19 12 0.43
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
AAATAAATTGAATTCTAC
Found at i:4688154 original size:7 final size:6
Alignment explanation
Indices: 4688134--4688178 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
4688124 TTGACCCTCA
**
4688134 TTTTTC TTTTTC TTTTCTC TTTTTC CCTTT- TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTT
4688179 CTTTTCTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 3 0.09
6 24 0.73
7 6 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:4688182 original size:19 final size:19
Alignment explanation
Indices: 4688134--4688183 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
4688124 TTGACCCTCA
4688134 TTTTTCTTT-TTCTTTTCTC
1 TTTTTCTTTCTT-TTTTCTC
* *
4688153 TTTTTC--CCTTTTTTTTC
1 TTTTTCTTTCTTTTTTCTC
4688170 TTTTTCTTTCTTTT
1 TTTTTCTTTCTTTT
4688184 CTTCAAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 12 0.48
18 2 0.08
19 11 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTCTTTTTTCTC
Found at i:4699532 original size:26 final size:28
Alignment explanation
Indices: 4699489--4699541 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4699479 ATTAAAATAA
*
4699489 ATATTTAAAAATTAATTTTATT-ATATAT
1 ATATATAAAAATTAA-TTTATTCATATAT
4699517 ATATATAAAAA-T-ATTTATTCATATA
1 ATATATAAAAATTAATTTATTCATATA
4699542 ATAAAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 6 0.26
27 1 0.04
28 10 0.43
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
ATATATAAAAATTAATTTATTCATATAT
Found at i:4700889 original size:12 final size:11
Alignment explanation
Indices: 4700872--4700907 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
4700862 GGTCTGTAAT
4700872 TATTTATTTATA
1 TATTTATTTA-A
4700884 TATTTATTTAA
1 TATTTATTTAA
*
4700895 TATGTATTTAA
1 TATTTATTTAA
4700906 TA
1 TA
4700908 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:4700911 original size:3 final size:3
Alignment explanation
Indices: 4700903--4701062 Score: 240
Period size: 3 Copynumber: 54.7 Consensus size: 3
4700893 AATATGTATT
* *
4700903 TAA TAA TAA TAA TAA TAA TGA TAA TTA TAA TAA TAA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
*
4700949 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA T-A TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
4700994 TGA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4701041 -AA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
4701063 TGGATAAAAA
Statistics
Matches: 145, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
2 10 0.07
3 132 0.91
4 3 0.02
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4701075 original size:32 final size:32
Alignment explanation
Indices: 4700903--4701062 Score: 180
Period size: 32 Copynumber: 5.0 Consensus size: 32
4700893 AATATGTATT
* * *
4700903 TAATAATAATAATAATAATGATAATTATAATAA
1 TAATAATAA-AAAAATAATAATAATAATAATAA
*
4700936 TAATATATAATAATAATAATAATAAT-ATAAT-A
1 TAATA-ATAA-AAAAATAATAATAATAATAATAA
* * * *
4700968 TAATAATAATATAATAATAATAATGATGATAA
1 TAATAATAAAAAAATAATAATAATAATAATAA
* *
4701000 TAATAATAATATAATAATAATAATAATAATAA
1 TAATAATAAAAAAATAATAATAATAATAATAA
*
4701032 TAATAATAAAATAATAATAATAATAATAATA
1 TAATAATAAAAAAATAATAATAATAATAATA
4701063 TGGATAAAAA
Statistics
Matches: 118, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
30 14 0.12
31 8 0.07
32 67 0.57
33 10 0.08
34 19 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (32 bp):
TAATAATAAAAAAATAATAATAATAATAATAA
Found at i:4707661 original size:16 final size:16
Alignment explanation
Indices: 4707637--4707668 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4707627 TATCGCCGAC
*
4707637 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
4707653 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
4707669 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:4709367 original size:3 final size:3
Alignment explanation
Indices: 4709359--4709407 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
4709349 TTTTTATCCA
*
4709359 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4709407 T
1 T
4709408 TATATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4709426 original size:21 final size:20
Alignment explanation
Indices: 4709365--4709448 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 20
4709355 TCCATATTAT
4709365 TATTATTAT-TAT-TAT-TA
1 TATTATTATATATATATATA
4709382 TTATTATTAT-TAT-TAT-TA
1 -TATTATTATATATATATATA
4709400 TCATTATTTATATATATATATA
1 T-ATTA-TTATATATATATATA
* * *
4709422 TATTA-AATACATATATAAA
1 TATTATTATATATATATATA
4709441 TATTATTA
1 TATTATTA
4709449 AAAAATAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.02
18 21 0.38
19 20 0.36
20 4 0.07
21 7 0.12
22 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTATATATATATATA
Found at i:4710795 original size:19 final size:19
Alignment explanation
Indices: 4710757--4710792 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4710747 TAATTTAGTC
4710757 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
4710776 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
4710793 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:4722074 original size:1 final size:1
Alignment explanation
Indices: 4722068--4722108 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
4722058 TATTTGCTTG
* *
4722068 AAAAAAAAAAGAAAAAAAAAAAAAAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4722109 GGAAAGGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:4722092 original size:19 final size:19
Alignment explanation
Indices: 4722068--4722108 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4722058 TATTTGCTTG
4722068 AAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
4722087 AAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAGAAAAAAAA
4722106 AAA
1 AAA
4722109 GGAAAGGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAA
Found at i:4722113 original size:13 final size:13
Alignment explanation
Indices: 4722068--4722113 Score: 60
Period size: 12 Copynumber: 3.7 Consensus size: 13
4722058 TATTTGCTTG
*
4722068 AAAAA-AAAAAGA
1 AAAAAGAAAAAAA
4722080 AAAAA-AAAAAAA
1 AAAAAGAAAAAAA
4722092 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
*
4722105 AAAAGGAAA
1 AAAAAGAAA
4722114 GGGGGGTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 16 0.52
13 15 0.48
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:4723617 original size:83 final size:84
Alignment explanation
Indices: 4723248--4723790 Score: 933
Period size: 84 Copynumber: 6.6 Consensus size: 84
4723238 GAACAAATAT
4723248 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
*
4723313 TCATTGAATTTAAAAGATG
66 TCATTGAATTTAGAAGATG
4723332 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
4723397 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
* * *
4723416 AATGTGCTCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACATAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
4723481 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
* * *
4723500 AATGTGCTCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGGCAGAA-CAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
*
4723564 TCATTGAGTTTAGAAGATG
66 TCATTGAATTTAGAAGATG
*
4723583 AATGTGCTCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
4723647 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
4723666 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
*
4723730 TCATTGAGTTTA-AA-A-G
66 TCATTGAATTTAGAAGATG
4723746 AATGT--TC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
4723791 GATTCAGTAG
Statistics
Matches: 445, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
77 38 0.09
78 2 0.00
80 6 0.01
81 1 0.00
82 2 0.00
83 175 0.39
84 221 0.50
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (84 bp):
AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
TCATTGAATTTAGAAGATG
Found at i:4724780 original size:113 final size:112
Alignment explanation
Indices: 4724542--4725958 Score: 2113
Period size: 113 Copynumber: 12.5 Consensus size: 112
4724532 TCATTTGAAA
*
4724542 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4724607 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATG
*
4724656 GATTATC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4724720 TAATGAGAAG-TTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATG
66 TAATGAGAAGATTTGTTCAACCTTTTACCTGAATTCA-TC-AATTGATG
*
4724768 GATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4724833 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATG
*
4724882 GATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4724947 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
*
4724995 GATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4725059 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
*
4725107 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4725172 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCA-TC-AATTGATG
*
4725222 GATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4725287 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATG
*
4725336 GATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4725401 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
*
4725449 GATCAGC-TTTCCAGAG-AAGTTCATAATGAGAAG---TCATCTGAAGAA-G--GAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4725506 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
* * *
4725554 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* ** * *
4725619 TAATGAGAAGAATTTGGTCAACCTTTTTTTTCTAAATTCATCAAATTGATA
66 TAATGAGAAG-ATTTGTTCAACC--TTTTACCTGAATTCATC-AATTGATG
* * *
4725670 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
** *
4725735 TAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCATTTGATG
66 TAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
* * * *
4725783 GATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAG
1 GATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAG
* * * * *
4725847 TTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATG
62 TTCATAATGAGAAG-ATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
* ** *
4725899 GATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 GATCATCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
4725959 TTTATTCAAT
Statistics
Matches: 1230, Mismatches: 49, Indels: 49
0.93 0.04 0.04
Matches are distributed among these distances:
105 66 0.05
106 9 0.01
107 18 0.01
108 12 0.01
110 11 0.01
111 43 0.03
112 139 0.11
113 327 0.27
114 266 0.22
115 149 0.12
116 170 0.14
117 19 0.02
118 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGATTTGTTCAACCTTTTACCTGAATTCATCAATTGATG
Found at i:4725405 original size:454 final size:454
Alignment explanation
Indices: 4724526--4725958 Score: 2363
Period size: 454 Copynumber: 3.2 Consensus size: 454
4724516 CAAAGATTCA
* **
4724526 AATCTATCATTTGAAAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
4724591 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATG
66 AGG-AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATC-ATTTGATG
* *
4724656 GATTATC-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
129 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4724720 TAATGAGAAG--TTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATGGATTATCTTTTCCAG
194 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATGGATTATCTTTTCCAG
4724783 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
259 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
4724848 GTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGA
324 GTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGA
4724913 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCT
389 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCT
4724978 G
454 G
4724979 AATCCATCATTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
4725043 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGG
66 AGG-AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGG
4725108 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
130 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
4725173 AATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATGGATTATCTTTTCCAGA
195 AATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATGGATTATCTTTTCCAGA
4725238 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
260 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
4725303 TTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAG
325 TTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAG
4725368 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
390 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
4725433 AATCCATCATTTGATGGATCAGC-TTTCCAGAG-AAGTTCATAATGAGAAG---TCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
4725493 A-G-GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGA
66 AGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGA
* * *
4725556 TCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAAGAAGAAGTTCATA
131 TCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* ** * *
4725621 ATGAGAAGAATTTGGTCAACCTTTTTTTTCTAAATTCA-TCAAATTGATAGATTATCTTTTCCAG
196 ATGAGAAGAATTTGTTCAACC--TTTTACCTGAATTCATTCAAATTGATGGATTATCTTTTCCAG
* *
4725685 AGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
259 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
** * * * * * *
4725750 GTTCAACCTTTTTTCTGAATTCATC-ATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATG
324 GTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAG-AAAGTTCATAATG
* *
4725813 AGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT
388 AGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
* *
4725878 GCTTG
450 ACCTG
* * * **
4725883 AATTCATCATTTGATGGATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCAGCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
4725948 AAAGAGAAGAA
65 AAGGAGAAGAA
4725959 TTTATTCAAT
Statistics
Matches: 930, Mismatches: 33, Indels: 29
0.94 0.03 0.03
Matches are distributed among these distances:
446 1 0.00
447 180 0.19
448 111 0.12
449 14 0.02
450 88 0.09
451 17 0.02
452 155 0.17
453 73 0.08
454 272 0.29
456 12 0.01
457 1 0.00
458 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (454 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGA
TCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATTCAAATTGATGGATTATCTTTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
TCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGA
AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:4725431 original size:229 final size:226
Alignment explanation
Indices: 4724542--4725958 Score: 2205
Period size: 229 Copynumber: 6.3 Consensus size: 226
4724532 TCATTTGAAA
*
4724542 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
4724607 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATC-TTTCCAGA
66 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATGGATCATCTTTTCCAGA
4724671 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG--TTTG
130 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
4724734 TTCAACCTTTTACCTGAATTCATTCAAATTGATG
195 TTCAACCTTTTACCTGAATTCA-TC-AATTGATG
*
4724768 GATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
4724833 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGA
66 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATGGATCATCTTTTCCAGA
4724898 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
130 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* *
4724963 TTCAACCTTTTACCTGAATCCATCATTTGATG
195 TTCAACCTTTTACCTGAATTCATCAATTGATG
*
4724995 GATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
4725059 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCAACTTTTCCAGAG
66 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAG
4725124 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
131 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
4725189 TCAACCTTTTACCTGAATTCATTCAAATTGATG
196 TCAACCTTTTACCTGAATTCA-TC-AATTGATG
*
4725222 GATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
4725287 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGA
66 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AATTGATGGATCATCTTTTCCAGA
4725352 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
130 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* *
4725417 TTCAACCTTTTACCTGAATCCATCATTTGATG
195 TTCAACCTTTTACCTGAATTCATCAATTGATG
*
4725449 GATCAGC-TTTCCAGAG-AAGTTCATAATGAGAAG---TCATCTGAAGAA-G--GAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
4725506 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCAGCTTTTCCAGAG
66 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAG
* * *
4725571 AAAGTTCATAATGAGAAGAACCCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGG
131 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
** * *
4725636 TCAACCTTTTTTTTCTAAATTCATCAAATTGATA
196 TCAACC--TTTTACCTGAATTCATC-AATTGATG
* * *
4725670 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
** * * * *
4725735 TAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCATTTGATGGATCAACATTGCCAG-G
66 TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAG
* *
4725799 TAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
131 -AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * * *
4725864 TTGTTCAATCTTTTGCTTGAATTCATCATTTGATG
192 TTGTTCAACCTTTTACCTGAATTCATCAATTGATG
* ** *
4725899 GATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 GATCATCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
4725959 TTTATTCAAT
Statistics
Matches: 1104, Mismatches: 64, Indels: 43
0.91 0.05 0.04
Matches are distributed among these distances:
218 90 0.08
219 50 0.05
220 13 0.01
221 12 0.01
222 21 0.02
223 16 0.01
225 124 0.11
226 227 0.21
227 124 0.11
228 91 0.08
229 243 0.22
230 47 0.04
231 1 0.00
232 45 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (226 bp):
GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATCATCTTTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
TCAACCTTTTACCTGAATTCATCAATTGATG
Found at i:4726103 original size:3 final size:3
Alignment explanation
Indices: 4726095--4726150 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
4726085 TTTTTATCCA
4726095 TAT TAT TAT TAT TA- TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4726141 TAT CAT TAT T
1 TAT TAT TAT T
4726151 TATATATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4727543 original size:19 final size:19
Alignment explanation
Indices: 4727505--4727540 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4727495 TAATTTAGTC
4727505 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
4727524 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
4727541 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:4727606 original size:20 final size:21
Alignment explanation
Indices: 4727569--4727608 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4727559 AGAATTTTTC
**
4727569 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
4727590 TTTTA-TATATTCATAAATA
1 TTTTATTATATTCATAAATA
4727609 GTAACTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:4728336 original size:22 final size:22
Alignment explanation
Indices: 4728303--4728349 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
4728293 CGATACATCG
4728303 ATAAAGAGGACCAAATGTGTGA
1 ATAAAGAGGACCAAATGTGTGA
*
4728325 ATAACAGA-GACCAAATGTGTTA
1 ATAA-AGAGGACCAAATGTGTGA
4728347 ATA
1 ATA
4728350 TATCAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (22 bp):
ATAAAGAGGACCAAATGTGTGA
Found at i:4729440 original size:31 final size:31
Alignment explanation
Indices: 4729368--4729442 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
4729358 CAAAATACAA
*
4729368 AAGATATGATCACTTACATTTTTATTTAAAT
1 AAGATATGGTCACTTACATTTTTATTTAAAT
* * *
4729399 AAGATTTGGTCACTTTCATTTTTATTTAATT
1 AAGATATGGTCACTTACATTTTTATTTAAAT
*
4729430 AAGATGTGGTCAC
1 AAGATATGGTCAC
4729443 CCCGAGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (31 bp):
AAGATATGGTCACTTACATTTTTATTTAAAT
Found at i:4729798 original size:13 final size:12
Alignment explanation
Indices: 4729780--4729826 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
4729770 CGATACCCGA
4729780 TTTATTGTATATT
1 TTTATT-TATATT
*
4729793 TTTATTTTTA-T
1 TTTATTTATATT
*
4729804 TTTATATTAAATT
1 TTTAT-TTATATT
4729817 TTTATTTATA
1 TTTATTTATA
4729827 ATCCTCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 6 0.21
12 10 0.36
13 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTATTTATATT
Found at i:4730224 original size:23 final size:19
Alignment explanation
Indices: 4730178--4730237 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 19
4730168 TATCATATAA
4730178 TTTTATATTAAACTTAAATGT
1 TTTTATATT-AACTTAAAT-T
4730199 TTTTATATTAACTTATTAATAT
1 TTTTATATTAACTTA--AAT-T
4730221 TTTTACTATTAACTTAA
1 TTTTA-TATTAACTTAA
4730238 TTTATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 6 0.17
21 10 0.29
22 9 0.26
23 10 0.29
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTATATTAACTTAAATT
Found at i:4730267 original size:28 final size:29
Alignment explanation
Indices: 4730236--4730291 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
4730226 CTATTAACTT
* *
4730236 AATTTATAAATAT-TTTATTTTTATTTTC
1 AATTTAAAAATATATTTATTTTAATTTTC
4730264 AATTTAAAAATATACTTTATTTTAATTT
1 AATTTAAAAATATA-TTTATTTTAATTT
4730292 ATTAAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
30 12 0.50
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (29 bp):
AATTTAAAAATATATTTATTTTAATTTTC
Found at i:4734542 original size:15 final size:15
Alignment explanation
Indices: 4734522--4734568 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
4734512 GTGTGTGAGA
4734522 AGAAGAAGGAAAAAT
1 AGAAGAAGGAAAAAT
4734537 AGAAGAA-G----A-
1 AGAAGAAGGAAAAAT
4734546 AGAAGAAGGAAAAAT
1 AGAAGAAGGAAAAAT
4734561 AGAAGAAG
1 AGAAGAAG
4734569 AAGAGGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
14 2 0.08
15 15 0.58
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (15 bp):
AGAAGAAGGAAAAAT
Found at i:4734551 original size:24 final size:24
Alignment explanation
Indices: 4734519--4734572 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
4734509 TATGTGTGTG
4734519 AGAAGAAGAAGGAAAAATAGAAGA
1 AGAAGAAGAAGGAAAAATAGAAGA
4734543 AGAAGAAGAAGGAAAAATAGAAGA
1 AGAAGAAGAAGGAAAAATAGAAGA
4734567 AGAAGA
1 AGAAGA
4734573 GGTGAACGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.04
Consensus pattern (24 bp):
AGAAGAAGAAGGAAAAATAGAAGA
Found at i:4735772 original size:39 final size:39
Alignment explanation
Indices: 4735728--4735807 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
4735718 TATCACATAA
4735728 ATAA-TTAAA-CAAATCTAATATTTTTTTATAATTATTTTT
1 ATAATTTAAATCAAATCTAA-ATTTTTTTA-AATTATTTTT
* * *
4735767 ATAATTTAAATTAAATTTAAATTTTTTTAATTTATTTTT
1 ATAATTTAAATCAAATCTAAATTTTTTTAAATTATTTTT
4735806 AT
1 AT
4735808 CGTAAATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 15 0.42
40 14 0.39
41 7 0.19
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (39 bp):
ATAATTTAAATCAAATCTAAATTTTTTTAAATTATTTTT
Found at i:4736727 original size:34 final size:30
Alignment explanation
Indices: 4736688--4736756 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
4736678 TTGATATAAC
4736688 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
*
4736722 GATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
4736751 AATTTA
1 AATTTA
4736757 TTCAAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 9 0.28
30 12 0.38
31 6 0.19
33 1 0.03
34 4 0.12
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:4736767 original size:29 final size:30
Alignment explanation
Indices: 4736697--4736756 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4736687 CAATTTAAGG
*
4736697 CAAAATGGTTTTTGGACTTGAATTGGATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
4736728 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
4736757 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 12 0.43
31 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:4736959 original size:20 final size:20
Alignment explanation
Indices: 4736934--4737082 Score: 172
Period size: 20 Copynumber: 7.3 Consensus size: 20
4736924 AATGCAATTA
*
4736934 GTGCATCGATGCATCCTTTT
1 GTGCATCGATGCATCCTTCT
*
4736954 GTGCATCGATGCATCCTTAT
1 GTGCATCGATGCATCCTTCT
* *
4736974 ATGCATCGACGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
***
4736994 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTTCT
*
4737015 GTGCATCGACGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
***
4737035 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTTCT
*
4737056 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTTCT
4737076 GTGCATC
1 GTGCATC
4737083 CATTCACGAA
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
20 75 0.69
21 33 0.31
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTTCT
Found at i:4737018 original size:21 final size:21
Alignment explanation
Indices: 4736992--4737070 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
4736982 ACGCATCCTT
4736992 CTGTGCATCGATGCATCAAGG
1 CTGTGCATCGATGCATCAAGG
* ***
4737013 CTGTGCATCGACGCATC-CTT
1 CTGTGCATCGATGCATCAAGG
4737033 CTGTGCATCGATGCATCAAGG
1 CTGTGCATCGATGCATCAAGG
4737054 CTGTGCATCGATGCATC
1 CTGTGCATCGATGCATC
4737071 CTGCTGTGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.33
21 33 0.67
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (21 bp):
CTGTGCATCGATGCATCAAGG
Found at i:4737077 original size:61 final size:60
Alignment explanation
Indices: 4736934--4737082 Score: 181
Period size: 61 Copynumber: 2.5 Consensus size: 60
4736924 AATGCAATTA
** * ***
4736934 GTGCATCGATGCATCCTTTTGTGCATCGATGCATCCTTATATGCATCGACGCATCCTTCT
1 GTGCATCGATGCATCCTGCTGTGCATCGACGCATCCTTATATGCATCGACGCATCAGGCT
** * * *
4736994 GTGCATCGATGCATCAAGGCTGTGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATC-CTGCTGTGCATCGACGCATCCTTATATGCATCGACGCATC-AGGCT
4737056 GTGCATCGATGCATCCTGCTGTGCATC
1 GTGCATCGATGCATCCTGCTGTGCATC
4737083 CATTCACGAA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
60 15 0.20
61 42 0.57
62 17 0.23
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (60 bp):
GTGCATCGATGCATCCTGCTGTGCATCGACGCATCCTTATATGCATCGACGCATCAGGCT
Found at i:4737097 original size:41 final size:41
Alignment explanation
Indices: 4736934--4737082 Score: 210
Period size: 41 Copynumber: 3.7 Consensus size: 41
4736924 AATGCAATTA
* * ****
4736934 GTGCATCGATGCATCCTTTTGTGCATCGATGCATC-CTTAT
1 GTGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
*
4736974 ATGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
1 GTGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
4737015 GTGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
1 GTGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
* *
4737056 GTGCATCGATGCATCCTGCTGTGCATC
1 GTGCATCGACGCATCCTTCTGTGCATC
4737083 CATTCACGAA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 32 0.33
41 66 0.67
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (41 bp):
GTGCATCGACGCATCCTTCTGTGCATCGATGCATCAAGGCT
Found at i:4737234 original size:21 final size:21
Alignment explanation
Indices: 4737201--4737240 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4737191 TTTTAGTAGA
4737201 AAAATCATACCCAAACGGCTCC
1 AAAATCATACCC-AACGGCTCC
*
4737223 AAAA-CATCCCCAACGGCT
1 AAAATCATACCCAACGGCT
4737241 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.40, C:0.38, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAATCATACCCAACGGCTCC
Found at i:4737494 original size:34 final size:32
Alignment explanation
Indices: 4737455--4737524 Score: 77
Period size: 34 Copynumber: 2.1 Consensus size: 32
4737445 TTTTGTAAAG
* * *
4737455 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGATTCTAGCTTAGCCCG-G-AAAAACTA
* *
4737489 GGGAAATATTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGATTCTAGCTTAGCCCGGAAAAACTA
4737521 GGGA
1 GGGA
4737525 GTTGTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 11 0.35
33 1 0.03
34 19 0.61
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (32 bp):
GGGAAAGATTCTAGCTTAGCCCGGAAAAACTA
Found at i:4737921 original size:32 final size:31
Alignment explanation
Indices: 4737881--4737959 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
4737871 GGTCCAATTG
*
4737881 TTTT-TAATATTTGTTACTAAAAGTTTAATAT
1 TTTTCTAATATTTATTACTAAAAGTTT-ATAT
* ** *
4737912 TTTTCTAATATTTATTATTATGAGTTTATTT
1 TTTTCTAATATTTATTACTAAAAGTTTATAT
4737943 TTTTCTAATATTTATTA
1 TTTTCTAATATTTATTA
4737960 TTAGGGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 24 0.57
32 18 0.43
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTTCTAATATTTATTACTAAAAGTTTATAT
Found at i:4737980 original size:34 final size:32
Alignment explanation
Indices: 4737902--4737989 Score: 108
Period size: 31 Copynumber: 2.7 Consensus size: 32
4737892 TGTTACTAAA
*
4737902 AGTTTAATATTTTTCTAATATTTATTATTATG
1 AGTTTATTATTTTTCTAATATTTATTATTATG
4737934 AGTTTATT-TTTTTCTAATATTTATTATTA-G
1 AGTTTATTATTTTTCTAATATTTATTATTATG
* *
4737964 GGTTTACTCTTATTTTTTTAATATTT
1 AGTTTA---TTATTTTTCTAATATTT
4737990 GTATAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
30 6 0.12
31 21 0.43
32 7 0.14
33 2 0.04
34 13 0.27
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (32 bp):
AGTTTATTATTTTTCTAATATTTATTATTATG
Found at i:4738097 original size:29 final size:29
Alignment explanation
Indices: 4738033--4738090 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
4738023 CTAACATTTG
*
4738033 TTATTAAGGGCCTAAATTTTTAATACTTA
1 TTATTAAGGGCCTAAATTTTTAATACATA
4738062 TTATTAAGGGCCT-AATTTTTCAATACATA
1 TTATTAAGGGCCTAAATTTTT-AATACATA
4738091 CTTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (29 bp):
TTATTAAGGGCCTAAATTTTTAATACATA
Found at i:4743150 original size:17 final size:17
Alignment explanation
Indices: 4743103--4743159 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
4743093 AGTATGTTGT
4743103 TTCATTCAATAAAGCTAG
1 TTCATTCAATAAA-CTAG
*
4743121 TTCA-CCAACTAAACTAG
1 TTCATTCAA-TAAACTAG
*
4743138 TTCATTCATTAAAACTAG
1 TTCATTCAAT-AAACTAG
4743156 TTCA
1 TTCA
4743160 ATTAGTCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (17 bp):
TTCATTCAATAAACTAG
Found at i:4743730 original size:17 final size:17
Alignment explanation
Indices: 4743708--4743741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4743698 TTGGACACCT
*
4743708 AAGTGTCTACATACATC
1 AAGTGTCCACATACATC
*
4743725 AAGTGTCCACATTCATC
1 AAGTGTCCACATACATC
4743742 CTCCATTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (17 bp):
AAGTGTCCACATACATC
Found at i:4744206 original size:20 final size:20
Alignment explanation
Indices: 4744181--4744223 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
4744171 GAATGAAAAT
4744181 TTGGCTTGAAATGCTCAAAC
1 TTGGCTTGAAATGCTCAAAC
4744201 TTGGCTTGAAATGCTCAAAC
1 TTGGCTTGAAATGCTCAAAC
4744221 TTG
1 TTG
4744224 AGGTTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGGCTTGAAATGCTCAAAC
Found at i:4747151 original size:44 final size:44
Alignment explanation
Indices: 4747088--4747286 Score: 290
Period size: 44 Copynumber: 4.5 Consensus size: 44
4747078 GATTTAATAC
* * *
4747088 CCTTCATATTGTATCGATGCACATTCAAGGAATGCATCGGTTCA
1 CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATCGGTACA
* * *
4747132 CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATTGTTTCA
1 CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATCGGTACA
*
4747176 CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATTGGTACA
1 CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATCGGTACA
* * *
4747220 CTTTCATAGTGTATCGATGCATATTCAAAGAATGCATCAGTACA
1 CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATCGGTACA
* *
4747264 CTTTCATAGTGTATCAATGCATA
1 CCTTCATAGTGTATCGATGCATA
4747287 GTGCACAAAA
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 144 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
CCTTCATAGTGTATCGATGCATATTCAAGGAATGCATCGGTACA
Found at i:4747279 original size:21 final size:21
Alignment explanation
Indices: 4747215--4747279 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
4747205 GAATGCATTG
4747215 GTACACTTTCATAGTGTATC-
1 GTACACTTTCATAGTGTATCA
* * *
4747235 GATGCA-TATTCAAAGAATGCATCA
1 G-TACACT-TTCATAG--TGTATCA
4747259 GTACACTTTCATAGTGTATCA
1 GTACACTTTCATAGTGTATCA
4747280 ATGCATAGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 11
0.66 0.12 0.22
Matches are distributed among these distances:
20 2 0.06
21 15 0.45
23 14 0.42
24 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (21 bp):
GTACACTTTCATAGTGTATCA
Found at i:4751347 original size:117 final size:117
Alignment explanation
Indices: 4751127--4751347 Score: 295
Period size: 117 Copynumber: 1.9 Consensus size: 117
4751117 CTTTCAAATC
*
4751127 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATTCTTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAACTCTTCTTCAAGATTT
* *
4751192 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGCTTAATTT
66 CATTTTGATTTTCAAAATCCATTTTCCTTTCTAAAAGAAGTTTGCTTAATTT
* * * *
4751244 GAAAATTTCTTTTTCAA-AGTTTTCAAATTTTATTTTTGAAAGCTCT-AACTCATTTTTCAATAT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAACTC-TTCTTCAAGAT
* * **
4751307 TTCATTTTGATTTTCCAAGTCTGTTTTACCTTTC-AAAAGAA
64 TTCATTTTGATTTTCAAAATCCATTTT-CCTTTCTAAAAGAA
4751348 TATCATTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 5 0.06
117 80 0.89
118 5 0.06
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAACTCTTCTTCAAGATTT
CATTTTGATTTTCAAAATCCATTTTCCTTTCTAAAAGAAGTTTGCTTAATTT
Found at i:4773335 original size:39 final size:39
Alignment explanation
Indices: 4773258--4773335 Score: 88
Period size: 39 Copynumber: 2.0 Consensus size: 39
4773248 AGTTGACAAG
* * * *
4773258 TTGGAAATTTCATCTTGGTTGGTGGCTAACTTGTACATA
1 TTGGAAAATTCATCTTGGTAGGTGGCAAACTTGAACATA
4773297 TTGGAAAATTC-T-TTGGTAGGTGGCCAAACTTTGAACATA
1 TTGGAAAATTCATCTTGGTAGGTGG-CAAAC-TTGAACATA
4773336 CTGTTCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
37 10 0.30
38 5 0.15
39 18 0.55
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (39 bp):
TTGGAAAATTCATCTTGGTAGGTGGCAAACTTGAACATA
Found at i:4775131 original size:36 final size:37
Alignment explanation
Indices: 4775059--4775132 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
4775049 GTTGGAAACT
*
4775059 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
*
4775096 ATTTATATGATTTT-TTT-ACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
4775132 A
1 A
4775133 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 13 0.39
37 15 0.45
38 5 0.15
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:4778440 original size:10 final size:10
Alignment explanation
Indices: 4778398--4778449 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
4778388 ACTGGAAACT
4778398 GGTTTTGACC
1 GGTTTTGACC
*
4778408 GG-TTTAACC
1 GGTTTTGACC
4778417 GGTTTTGAACC
1 GGTTTTG-ACC
4778428 GGTTTTGACC
1 GGTTTTGACC
4778438 GG-TTTGACC
1 GGTTTTGACC
4778447 GGT
1 GGT
4778450 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:4778489 original size:18 final size:17
Alignment explanation
Indices: 4778464--4778510 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
4778454 ACCCGTTTAC
4778464 CCGTTTACCCGACCCGA
1 CCGTTTACCCGACCCGA
*
4778481 CCAGTTTACCCGACTCGA
1 CC-GTTTACCCGACCCGA
*
4778499 CCGTTGACCCGA
1 CCGTTTACCCGA
4778511 TCCGTTGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (17 bp):
CCGTTTACCCGACCCGA
Found at i:4778595 original size:29 final size:29
Alignment explanation
Indices: 4778535--4778601 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
4778525 ACCGTTGACC
****
4778535 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAAAT
4778564 GGTGCTATTCTGGGAATTAATTCGAAAAT
1 GGTGCTATTCTGGGAATTAATTCGAAAAT
4778593 GGTGCTATT
1 GGTGCTATT
4778602 TGTGTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAAAT
Found at i:4785687 original size:10 final size:10
Alignment explanation
Indices: 4785645--4785696 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
4785635 ACTGGAAACT
4785645 GGTTTTGACC
1 GGTTTTGACC
*
4785655 GG-TTTAACC
1 GGTTTTGACC
4785664 GGTTTTGAACC
1 GGTTTTG-ACC
4785675 GGTTTTGACC
1 GGTTTTGACC
4785685 GG-TTTGACC
1 GGTTTTGACC
4785694 GGT
1 GGT
4785697 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:4785726 original size:18 final size:17
Alignment explanation
Indices: 4785703--4785753 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
4785693 CGGTCACGAC
4785703 CCGTTTACCCGACCCGA
1 CCGTTTACCCGACCCGA
4785720 CCAGTTTACCCGACCCGA
1 CC-GTTTACCCGACCCGA
*
4785738 CCGTTGACCCGACCCG
1 CCGTTTACCCGACCCG
4785754 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.16
Consensus pattern (17 bp):
CCGTTTACCCGACCCGA
Found at i:4785756 original size:13 final size:12
Alignment explanation
Indices: 4785731--4785773 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
4785721 CAGTTTACCC
4785731 GACCCGACCGTT
1 GACCCGACCGTT
4785743 GACCCGACCCGTT
1 GACCCGA-CCGTT
*
4785756 GACCGTTGACCGTT
1 GACC--CGACCGTT
4785770 GACC
1 GACC
4785774 GGTGCTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 7 0.26
13 9 0.33
14 9 0.33
15 2 0.07
ACGTcount: A:0.16, C:0.40, G:0.26, T:0.19
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:4785834 original size:29 final size:29
Alignment explanation
Indices: 4785774--4785840 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
4785764 ACCGTTGACC
****
4785774 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAAAT
4785803 GGTGCTATTCTGGGAATTAATTCGAAAAT
1 GGTGCTATTCTGGGAATTAATTCGAAAAT
4785832 GGTGCTATT
1 GGTGCTATT
4785841 TGTGTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAAAT
Found at i:4790745 original size:3 final size:3
Alignment explanation
Indices: 4790716--4790798 Score: 103
Period size: 3 Copynumber: 27.0 Consensus size: 3
4790706 GGCCTGTTTG
* * *
4790716 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4790763 TAA TAA TAA TTA TAA TAA TAC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4790799 AATGAGTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 62 0.91
4 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4791173 original size:17 final size:17
Alignment explanation
Indices: 4791151--4791248 Score: 67
Period size: 17 Copynumber: 5.4 Consensus size: 17
4791141 GTTGAACAAA
*
4791151 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
*
4791168 TTCTTCTTTCA-TATG-AG
1 TTCTTC--TCATTATGAAC
4791185 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
4791202 TTCTTCTTTCTTTTTCAGATGAA-
1 TTCTTC--TC--ATT---ATGAAC
4791225 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
4791242 TTCTTCT
1 TTCTTCT
4791249 TCCTTCTTCA
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
15 3 0.05
16 9 0.14
17 27 0.42
18 4 0.06
19 7 0.11
21 4 0.06
23 6 0.09
24 5 0.08
ACGTcount: A:0.19, C:0.20, G:0.07, T:0.53
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:4791229 original size:40 final size:40
Alignment explanation
Indices: 4791167--4791283 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
4791157 TCATTATGAA
*
4791167 TTTCTTCTTTCATATGAGTTCTTCTCATTATGAACTTCTTC
1 TTTCTT-TTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
*
4791208 TTTCTTTTTCAGATGAATTCTTCTCATTATGAACTTCTTC
1 TTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
* *
4791248 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 TTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
4791284 TCTCTGGAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
40 65 0.92
41 6 0.08
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (40 bp):
TTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
Found at i:4791278 original size:185 final size:190
Alignment explanation
Indices: 4791040--4791401 Score: 536
Period size: 185 Copynumber: 1.9 Consensus size: 190
4791030 GTTGAATAAG
* * *
4791040 TTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAATTCTTCTCATTATGAATTTTCTCT-
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTG
* * * *
4791104 GTAAAGGTGATCTATTAAGTGATGAATTCAAGCA-AAAGTTGAACAAATTCTTCTCATTATGAA-
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAGCATAAAGTTGAACAAATTCTTCTCATTATGAAT
*
4791167 TTTCTT-CT-TTCATATGAGTTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAA
131 TTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAA
*
4791225 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTG
* ** *
4791290 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAGCTGATCCATCAAGTGATGAATTCAAGCATAAAGTTGAACAAATTCTTCTCATTATGAA-
*
4791355 TTTTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
130 -TTTTCTTCCT-CTTCAGATGAGTTCTTCTCATTATGAACTTCTTCT
4791402 GGAAAAGCTG
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
185 60 0.39
186 27 0.17
187 28 0.18
190 6 0.04
191 2 0.01
193 32 0.21
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.45
Consensus pattern (190 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTCAAGCATAAAGTTGAACAAATTCTTCTCATTATGAAT
TTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAA
Found at i:4791362 original size:113 final size:113
Alignment explanation
Indices: 4791223--4791998 Score: 1139
Period size: 113 Copynumber: 6.8 Consensus size: 113
4791213 TTTTCAGATG
4791223 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
4791288 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
* * * *
4791336 AATTCTTCTCATTATGAATTTTTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
4791401 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
* * * *
4791449 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGACGAGTTCTTCTTATTATGAAC-TTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
4791513 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
** *
4791561 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-T
*
4791625 CTGGAAAAGCTGATCCATTAAGTGATGGATTTGAGCAAAAGGTTGAACA
65 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
** *
4791674 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-T
* *
4791738 CTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACA
65 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
* * *
4791787 AATTCTTCTCATTATGAATTTATTCTTCCTCCTTCAAGTAATGAGTTCTTCTCATTATGAACTCT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AG--ATGAGTTCTTCTCATTATGAACT-T
* *** * * ** * *
4791852 AC-CTGGAAATTTTAATCCATCACA-TGATGAATTCAAACAAAAGGTTAAACA
62 TCTCTGGAAAAGCTGATCCATCA-AGTGATGGATTTGAGCAAAAGGTTGAACA
*
4791903 AATTCCTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
4791968 TGGAAAAGTTGATCCATCAAGTGATGGATTT
66 TGGAAAAGCTGATCCATCAAGTGATGGATTT
4791999 AAATCTTTGC
Statistics
Matches: 607, Mismatches: 47, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
112 110 0.18
113 401 0.66
114 2 0.00
115 2 0.00
116 89 0.15
117 1 0.00
118 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
Found at i:4791617 original size:225 final size:226
Alignment explanation
Indices: 4791223--4792000 Score: 1175
Period size: 225 Copynumber: 3.4 Consensus size: 226
4791213 TTTTCAGATG
4791223 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
4791288 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGA
*
4791353 ATTTTTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCAT
131 ATTTATTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCAT
*
4791418 CAAGTGATGGATTTGAGCATAAGGTTGAACA
196 CAAGTGATGGATTTGAGCAAAAGGTTGAACA
* * * *
4791449 AATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAGACGAGTTCTTCTTATTATGAAC-TTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* **
4791513 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGA
* * * * *
4791578 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCAT
131 ATTTATTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCAT
*
4791643 TAAGTGATGGATTTGAGCAAAAGGTTGAACA
196 CAAGTGATGGATTTGAGCAAAAGGTTGAACA
** *
4791674 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-T
* *
4791738 CTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATG
65 CTGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATG
* ** *** *
4791803 AATTTATTCTTCCTCCTTCAAGTAATGAGTTCTTCTCATTATGAACTCTACCTGGAAATTTTAAT
130 AATTTATTCTTCCTCCTTC-AG--ATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGAT
* ** * *
4791868 CCATCACA-TGATGAATTCAAACAAAAGGTTAAACA
192 CCATCA-AGTGATGGATTTGAGCAAAAGGTTGAACA
*
4791903 AATTCCTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
4791968 TGGAAAAGTTGATCCATCAAGTGATGGATTTAA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAA
4792001 ATCTTTGCTA
Statistics
Matches: 497, Mismatches: 49, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
225 212 0.43
226 132 0.27
227 2 0.00
229 147 0.30
230 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (226 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGA
ATTTATTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCAT
CAAGTGATGGATTTGAGCAAAAGGTTGAACA
Found at i:4791654 original size:338 final size:340
Alignment explanation
Indices: 4791226--4791998 Score: 1232
Period size: 338 Copynumber: 2.3 Consensus size: 340
4791216 TCAGATGAAT
4791226 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * *
4791291 AAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTCTTCTCATTATGAACT
* * *
4791356 TTTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAA
131 TCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGATGATCCATCAA
*
4791421 GTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTC-A
196 GTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTCCTTCAA
* * * * *
4791485 G-ACGAGTTCTTCTTATTATGAACTTCT-CTGGAAAAGCTGATCCATCA-AGTGATGGATTTAAG
261 GAACGAGTTCTTCTCATTATGAAC-TCTACTGGAAAAGCTAATCCATCACA-TGATGAATTCAAA
* *
4791547 CAAAAGGTTGAACAAGC
324 CAAAAGGTTAAACAAAC
*
4791564 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
* *
4791628 GAAAAGCTGATCCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTCTTCTCATTATGAAC
* *
4791693 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGATGATCCATCA
130 TTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGATGATCCATCA
4791758 AGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTCCTTCA
195 AGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTCCTTCA
* ***
4791823 AGTAATGAGTTCTTCTCATTATGAACTCTACCTGGAAATTTTAATCCATCACATGATGAATTCAA
260 AG-AACGAGTTCTTCTCATTATGAACTCTA-CTGGAAAAGCTAATCCATCACATGATGAATTCAA
*
4791888 ACAAAAGGTTAAACAAAT
323 ACAAAAGGTTAAACAAAC
*
4791906 TCCTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
4791971 AAAAGTTGATCCATCAAGTGATGGATTT
66 AAAAGCTGATCCATCAAGTGATGGATTT
4791999 AAATCTTTGC
Statistics
Matches: 399, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
337 3 0.01
338 242 0.61
339 2 0.01
340 3 0.01
341 20 0.05
342 125 0.31
343 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (340 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAACTCTTCTCATTATGAACT
TCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGATGATCCATCAA
GTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTCCTTCAA
GAACGAGTTCTTCTCATTATGAACTCTACTGGAAAAGCTAATCCATCACATGATGAATTCAAACA
AAAGGTTAAACAAAC
Found at i:4792863 original size:83 final size:83
Alignment explanation
Indices: 4792727--4793027 Score: 584
Period size: 83 Copynumber: 3.6 Consensus size: 83
4792717 GGTTCCTACT
*
4792727 AAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
4792792 TCAATGATTGGTTTTACC
66 TCAATGATTGGTTTTACC
*
4792810 AAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
4792875 TCAATGATTGGTTTTACC
66 TCAATGATTGGTTTTACC
4792893 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
4792958 TCAATGATTGGTTTTACC
66 TCAATGATTGGTTTTACC
4792976 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
4793028 GGCATTTGTT
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 215 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (83 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAAT
TCAATGATTGGTTTTACC
Found at i:4794188 original size:9 final size:8
Alignment explanation
Indices: 4794174--4794233 Score: 59
Period size: 8 Copynumber: 6.9 Consensus size: 8
4794164 CTTGACCCCC
4794174 CTTTTTCTT
1 CTTTTT-TT
4794183 C-TTTTTT
1 CTTTTTTT
4794190 CTCTTTTTT
1 CT-TTTTTT
4794199 CTTTTTCTCT
1 CTTTTT-T-T
4794209 CTTTTTTTTT
1 C--TTTTTTT
4794219 CTTTTTTT
1 CTTTTTTT
4794227 CTTTTTT
1 CTTTTTT
4794234 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
7 3 0.07
8 22 0.49
9 10 0.22
10 4 0.09
11 1 0.02
12 5 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:4794188 original size:10 final size:10
Alignment explanation
Indices: 4794175--4794237 Score: 66
Period size: 9 Copynumber: 6.9 Consensus size: 10
4794165 TTGACCCCCC
4794175 TTTTTCTTCT
1 TTTTTCTTCT
4794185 TTTTTC-TCT
1 TTTTTCTTCT
4794194 TTTTTC-T-T
1 TTTTTCTTCT
*
4794202 TTTCTC-TCT
1 TTTTTCTTCT
*
4794211 TTTTTTTTC-
1 TTTTTCTTCT
4794220 TTTTT-TTCT
1 TTTTTCTTCT
4794229 TTTTTCTTC
1 TTTTTCTTC
4794238 AAGCATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 10 0.22
9 25 0.54
10 11 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:4794205 original size:15 final size:15
Alignment explanation
Indices: 4794185--4794236 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 15
4794175 TTTTTCTTCT
4794185 TTTTTCTCTTTTTTC
1 TTTTTCTCTTTTTTC
*
4794200 TTTTTCTCTCTTTT-
1 TTTTTCTCTTTTTTC
4794214 TTTTTCT-TTTTTTC
1 TTTTTCTCTTTTTTC
4794228 TTTTT-TCTT
1 TTTTTCTCTT
4794237 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 6 0.18
14 14 0.42
15 13 0.39
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTCTTTTTTC
Found at i:4794216 original size:20 final size:18
Alignment explanation
Indices: 4794175--4794233 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 18
4794165 TTGACCCCCC
*
4794175 TTTTTCTTC-TTTTTTC-
1 TTTTTTTTCTTTTTTTCT
*
4794191 TCTTTTTTCTTTTTCTCTCT
1 TTTTTTTTCTTTTT-T-TCT
4794211 TTTTTTTTCTTTTTTTCT
1 TTTTTTTTCTTTTTTTCT
4794229 TTTTT
1 TTTTT
4794234 CTTCAAGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 9 0.25
19 3 0.08
20 13 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTTCT
Found at i:4801583 original size:15 final size:15
Alignment explanation
Indices: 4801560--4801591 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4801550 TGAAAAGAAT
4801560 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
4801575 AATGCATGTATGCAA
1 AATGAATGTATGCAA
4801590 AA
1 AA
4801592 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:4807124 original size:3 final size:3
Alignment explanation
Indices: 4807095--4807172 Score: 86
Period size: 3 Copynumber: 25.7 Consensus size: 3
4807085 GGCCTGTTTG
* *
4807095 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4807141 TTA TTA TAA TAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4807173 TGAGTAAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.03
3 57 0.88
4 6 0.09
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:4807137 original size:32 final size:29
Alignment explanation
Indices: 4807095--4807173 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 29
4807085 GGCCTGTTTG
*
4807095 TAATATTAATAAATAATATATATTAATAATAA
1 TAATAATAAT-AATAATAT-TA-TAATAATAA
* *
4807127 TAATAATAATAATATTATTATAATAATAC
1 TAATAATAATAATAATATTATAATAATAA
4807156 TAATAATAATAATAATAT
1 TAATAATAATAATAATAT
4807174 GAGTAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 25 0.58
30 2 0.05
31 7 0.16
32 9 0.21
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (29 bp):
TAATAATAATAATAATATTATAATAATAA
Found at i:4807639 original size:15 final size:15
Alignment explanation
Indices: 4807619--4807648 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4807609 TTTGAGGATA
4807619 TACATGCAAACAAGC
1 TACATGCAAACAAGC
4807634 TACATGCAAACAAGC
1 TACATGCAAACAAGC
4807649 ATTGAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
TACATGCAAACAAGC
Found at i:4814621 original size:2 final size:2
Alignment explanation
Indices: 4814614--4814640 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4814604 TGCTGCAAAT
4814614 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4814641 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4815459 original size:3 final size:3
Alignment explanation
Indices: 4815451--4815481 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4815441 TTGTAATAAA
*
4815451 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4815482 GAAATTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:4819835 original size:14 final size:15
Alignment explanation
Indices: 4819816--4819848 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4819806 AGTGAAAACA
*
4819816 TATTTA-TTAATTTT
1 TATTTATTTAATTGT
4819830 TATTTATTTAATTGT
1 TATTTATTTAATTGT
4819845 TATT
1 TATT
4819849 GTTTCTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TATTTATTTAATTGT
Found at i:4820707 original size:23 final size:23
Alignment explanation
Indices: 4820680--4820727 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4820670 AATAGTCTCG
4820680 AACTCAAATTTTCTAAATTATTA
1 AACTCAAATTTTCTAAATTATTA
4820703 AACTCAAATTTTCTAAATTATTA
1 AACTCAAATTTTCTAAATTATTA
4820726 AA
1 AA
4820728 TATAGGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (23 bp):
AACTCAAATTTTCTAAATTATTA
Found at i:4824843 original size:23 final size:23
Alignment explanation
Indices: 4824817--4824861 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4824807 ATTTATTTAT
* *
4824817 TTTTATGATGTATAGTTAATGTG
1 TTTTATGATATATAGTAAATGTG
*
4824840 TTTTATGGTATATAGTAAATGT
1 TTTTATGATATATAGTAAATGT
4824862 ATAATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (23 bp):
TTTTATGATATATAGTAAATGTG
Found at i:4826102 original size:17 final size:18
Alignment explanation
Indices: 4826067--4826104 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4826057 CTTATTTTTA
*
4826067 TTTTTTCATTCTATTTTG
1 TTTTTTCATTCTATCTTG
*
4826085 TTTTTTCATTTTA-CTTG
1 TTTTTTCATTCTATCTTG
4826102 TTT
1 TTT
4826105 GATTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTTCATTCTATCTTG
Found at i:4826167 original size:5 final size:5
Alignment explanation
Indices: 4826131--4826185 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
4826121 CTATTGTTTC
* *
4826131 ATTTT ATCTTT ATCTTT A-TTT CTCTT -TTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT AT-TTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
4826181 ATTTT
1 ATTTT
4826186 TGTTTAGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
4 6 0.14
5 28 0.64
6 10 0.23
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:4827153 original size:11 final size:11
Alignment explanation
Indices: 4827139--4827171 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
4827129 TTAGCGTTAC
4827139 ATGTTCGTTTA
1 ATGTTCGTTTA
4827150 ATGTTCGTTTA
1 ATGTTCGTTTA
4827161 ATGTTCGTTTA
1 ATGTTCGTTTA
4827172 TCGTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (11 bp):
ATGTTCGTTTA
Found at i:4827600 original size:20 final size:20
Alignment explanation
Indices: 4827575--4827626 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4827565 TCGAACAATG
4827575 TTTTTTTTATTGTCA-TTTTA
1 TTTTTTTTATT-TCATTTTTA
**
4827595 TTTTTTACATTTCATTTTTA
1 TTTTTTTTATTTCATTTTTA
4827615 TTTTTTTTATTT
1 TTTTTTTTATTT
4827627 TTAATTTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTTATTTCATTTTTA
Found at i:4835901 original size:25 final size:25
Alignment explanation
Indices: 4835867--4835916 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4835857 GTTGATTTAC
*
4835867 ATGGTTTTGATAAAATCATGAGATG
1 ATGGTTTTGATAAAATCACGAGATG
4835892 ATGGTTTTGATAAAATCACGAGATG
1 ATGGTTTTGATAAAATCACGAGATG
4835917 GTGATTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (25 bp):
ATGGTTTTGATAAAATCACGAGATG
Found at i:4835924 original size:25 final size:25
Alignment explanation
Indices: 4835871--4835924 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
4835861 ATTTACATGG
* *
4835871 TTTTGATAAAATCATGAGATGATGG
1 TTTTGATAAAATCACGAGATGATGA
*
4835896 TTTTGATAAAATCACGAGATGGTGA
1 TTTTGATAAAATCACGAGATGATGA
4835921 TTTT
1 TTTT
4835925 CAGGTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (25 bp):
TTTTGATAAAATCACGAGATGATGA
Found at i:4837750 original size:21 final size:20
Alignment explanation
Indices: 4837703--4837752 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
4837693 TATTATAGAT
4837703 TGTCATGTAAACTTTGTGAA
1 TGTCATGTAAACTTTGTGAA
* *
4837723 TCATCATGTAAGCTTTGTGAA
1 T-GTCATGTAAACTTTGTGAA
4837744 CTGTCATGT
1 -TGTCATGT
4837753 GATGTCGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (20 bp):
TGTCATGTAAACTTTGTGAA
Found at i:4849720 original size:20 final size:21
Alignment explanation
Indices: 4849695--4849734 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4849685 AAATTAGTAA
4849695 AAAGA-GTTTTAGTAATAATG
1 AAAGAGGTTTTAGTAATAATG
4849715 AAAGAGGTTTTAGTAATAAT
1 AAAGAGGTTTTAGTAATAAT
4849735 TGGAGGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (21 bp):
AAAGAGGTTTTAGTAATAATG
Found at i:4850319 original size:28 final size:28
Alignment explanation
Indices: 4850288--4850347 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
4850278 TTATTAAATA
* *
4850288 TATT-TAATTTTAATTTTAAAATATATTT
1 TATTCTAA-TTTAACTTAAAAATATATTT
*
4850316 TATTCTTATTTAACTTAAAAATATATTT
1 TATTCTAATTTAACTTAAAAATATATTT
4850344 TATT
1 TATT
4850348 GTTGCAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTCTAATTTAACTTAAAAATATATTT
Found at i:4853208 original size:17 final size:17
Alignment explanation
Indices: 4853167--4853238 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
4853157 ATTCATGCTT
4853167 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
4853184 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
4853202 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
*
4853219 CTAGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
4853236 CTA
1 CTA
4853239 ACTCTTAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 34 0.72
18 13 0.28
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:4855148 original size:18 final size:18
Alignment explanation
Indices: 4855114--4855148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4855104 TTGGAGTGTA
* *
4855114 TTGGTGAGGTTTTTTTTG
1 TTGGTGAGGTCTATTTTG
4855132 TTGGTGAGGTCTATTTT
1 TTGGTGAGGTCTATTTT
4855149 TCATTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.31, T:0.57
Consensus pattern (18 bp):
TTGGTGAGGTCTATTTTG
Found at i:4856921 original size:17 final size:17
Alignment explanation
Indices: 4856880--4856968 Score: 63
Period size: 17 Copynumber: 5.2 Consensus size: 17
4856870 ATTCATGCAT
4856880 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
4856897 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
4856915 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* * * *
4856932 ATAGTCCATTTATCAAA
1 CTAGTTCATTAATTAAA
* * *
4856949 ATAGTCCATTTATTAAA
1 CTAGTTCATTAATTAAA
4856966 CTA
1 CTA
4856969 ACTCTTAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
17 48 0.79
18 13 0.21
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:4858160 original size:18 final size:18
Alignment explanation
Indices: 4858137--4858201 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
4858127 CTTACAACAC
4858137 TTACCACAACAACACCAT
1 TTACCACAACAACACCAT
*
4858155 TTACCACGACAACACCAT
1 TTACCACAACAACACCAT
* *
4858173 TTGCCACGACAACACCAT
1 TTACCACAACAACACCAT
*
4858191 TTGCCACAACA
1 TTACCACAACA
4858202 CCATTCATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.17
Consensus pattern (18 bp):
TTACCACAACAACACCAT
Found at i:4858206 original size:15 final size:18
Alignment explanation
Indices: 4858140--4858197 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
4858130 ACAACACTTA
* *
4858140 CCACAACAACACCATTTA
1 CCACGACAACACCATTTG
4858158 CCACGACAACACCATTTG
1 CCACGACAACACCATTTG
4858176 CCACGACAACACCATTTG
1 CCACGACAACACCATTTG
4858194 CCAC
1 CCAC
4858198 AACACCATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.36, C:0.41, G:0.07, T:0.16
Consensus pattern (18 bp):
CCACGACAACACCATTTG
Found at i:4862454 original size:19 final size:21
Alignment explanation
Indices: 4862426--4862465 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
4862416 GTTGAAAATG
*
4862426 AATTGGTTTT-AAAAT-AAAA
1 AATTGATTTTGAAAATCAAAA
4862445 AATTGATTTTGAAAATCAAAA
1 AATTGATTTTGAAAATCAAAA
4862466 TGAAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (21 bp):
AATTGATTTTGAAAATCAAAA
Found at i:4863927 original size:18 final size:18
Alignment explanation
Indices: 4863904--4863938 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4863894 TACTCACTAG
4863904 GTAGTATCGATACTACCT
1 GTAGTATCGATACTACCT
4863922 GTAGTATCGATACTACC
1 GTAGTATCGATACTACC
4863939 AGCAATGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (18 bp):
GTAGTATCGATACTACCT
Found at i:4869763 original size:18 final size:19
Alignment explanation
Indices: 4869742--4869786 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
4869732 ATTTTATGGA
*
4869742 TATTTATTCAT-TTATTTT
1 TATTTATTCATGTTATTAT
4869760 TA-TTATTCATGTTATTAT
1 TATTTATTCATGTTATTAT
4869778 TATTATATT
1 TATT-TATT
4869787 ATATTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 1 0.04
20 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTATTCATGTTATTAT
Found at i:4870054 original size:3 final size:3
Alignment explanation
Indices: 4870038--4870092 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
4870028 CTTTATATAT
4870038 TTA TTA TT- TT- TTA TTA TT- TTCA TT- TT- TTA TTCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA
4870080 -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
4870093 TTTAAAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 12 0.26
3 29 0.63
4 5 0.11
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:4870064 original size:16 final size:17
Alignment explanation
Indices: 4870029--4870068 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
4870019 ATCTTATAAC
*
4870029 TTTATATATTTATTATTT
1 TTTAT-TATTTATCATTT
4870047 TTTATTATTT-TCATTT
1 TTTATTATTTATCATTT
4870063 TTTATT
1 TTTATT
4870069 CATTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTATTTATCATTT
Found at i:4874023 original size:9 final size:9
Alignment explanation
Indices: 4874018--4874069 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
4874008 GGCAAAAGAA
*
4874018 AAAAAAAAC
1 AAAAAAAAG
4874027 AAAAAAAAG
1 AAAAAAAAG
4874036 CAAAAAAAAAG
1 --AAAAAAAAG
*
4874047 AACAAAAAG
1 AAAAAAAAG
4874056 -AAAAAAAG
1 AAAAAAAAG
4874064 AAAAAA
1 AAAAAA
4874070 GGGACAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.19
9 21 0.57
11 9 0.24
ACGTcount: A:0.87, C:0.06, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4874034 original size:20 final size:20
Alignment explanation
Indices: 4874011--4874062 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4874001 TAAAAAGGGC
4874011 AAAAGAAAAAAAAAACAAAA
1 AAAAGAAAAAAAAAACAAAA
* * *
4874031 AAAAGCAAAAAAAAAGAACA
1 AAAAGAAAAAAAAAACAAAA
4874051 AAAAGAAAAAAA
1 AAAAGAAAAAAA
4874063 GAAAAAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.87, C:0.06, G:0.08, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAAAAACAAAA
Found at i:4875757 original size:36 final size:36
Alignment explanation
Indices: 4875650--4875772 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
4875640 ATTGAAAACA
* *
4875650 TTTCCCTTGAAATAA-TTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
4875685 TTTCCCTTGGAACTAAGTTTT-GTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
4875722 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
4875758 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
4875773 AACCTTTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
35 15 0.20
36 32 0.43
37 25 0.33
38 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:4875866 original size:67 final size:68
Alignment explanation
Indices: 4875748--4875915 Score: 200
Period size: 67 Copynumber: 2.5 Consensus size: 68
4875738 TTTCGTCTAT
* * **
4875748 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTT-TT
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
4875809 CTCC
66 -TCC
* *
4875813 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
4875878 TCC
66 TCC
* * *
4875881 TTTGAGACCGTTTCTCATGAAACAACAAATATCTT
1 CTTGAGACAGTTTCTCTTGAAAC-ACAAA-ATCTT
4875916 TGAGATCGTT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
65 17 0.20
66 2 0.02
67 28 0.32
68 28 0.32
69 7 0.08
70 5 0.06
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
TCC
Found at i:4876670 original size:105 final size:105
Alignment explanation
Indices: 4876509--4876852 Score: 502
Period size: 105 Copynumber: 3.3 Consensus size: 105
4876499 GCCATCCGCG
* * *
4876509 ATTTCAACTCCACGACGGAGGATATCGTGGCAC-TCGAGACAACGCAAGTTCAACTTCACGACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTTC-AGACAACGCAAGTTCAACTTCACGACGA
4876573 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
4876617 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
4876682 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
4876722 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
4876787 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
4876822 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
4876853 CTGAACAATG
Statistics
Matches: 220, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
100 35 0.16
101 1 0.00
102 1 0.00
103 2 0.01
104 2 0.01
105 152 0.69
106 5 0.02
108 22 0.10
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:4878036 original size:18 final size:17
Alignment explanation
Indices: 4877997--4878039 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
4877987 TATTTATGGA
4877997 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
4878013 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
4878031 TATTATTAT
1 TATTATTAT
4878040 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:4878338 original size:21 final size:20
Alignment explanation
Indices: 4878279--4878348 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
4878269 ATCTTATAAC
* *
4878279 TTATATTTATATTATTTTTTA
1 TTAT-TTTATATTATTATTCA
* *
4878300 TTATTTTCATTTTTTTATTCA
1 TTATTTT-ATATTATTATTCA
4878321 TTATTATTATATTATTATT-A
1 TTATT-TTATATTATTATTCA
*
4878341 TTTTTTTA
1 TTATTTTA
4878349 AAAATCTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 3 0.08
20 8 0.20
21 27 0.68
22 2 0.05
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTTATATTATTATTCA
Found at i:4878344 original size:32 final size:31
Alignment explanation
Indices: 4878289--4878348 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
4878279 TTATATTTAT
*
4878289 ATTATTTTTTATTATTTTCATTTTTTTATTC
1 ATTATTTTATATTATTTTCATTTTTTTATTC
4878320 ATTATTATTATATTATTATT-ATTTTTTTA
1 ATTATT-TTATATTATT-TTCATTTTTTTA
4878349 AAAATCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.23
32 18 0.69
33 2 0.08
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (31 bp):
ATTATTTTATATTATTTTCATTTTTTTATTC
Found at i:4880194 original size:25 final size:25
Alignment explanation
Indices: 4880149--4880204 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
4880139 TGTAGTCATC
4880149 AAAATATTCATACAAATATAAA-AA
1 AAAATATTCATACAAATATAAAGAA
4880173 TAAAATATT-ATACCTAAA-ATAAAGAA
1 -AAAATATTCATA-C-AAATATAAAGAA
4880199 AAAATA
1 AAAATA
4880205 AAACATTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 3 0.11
25 20 0.71
26 5 0.18
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAATATTCATACAAATATAAAGAA
Found at i:4880950 original size:81 final size:80
Alignment explanation
Indices: 4880860--4881021 Score: 254
Period size: 81 Copynumber: 2.0 Consensus size: 80
4880850 AATATAGGTT
* *
4880860 ATCATTTTCTGAAATTTAATTTGTTTCTAATTATATTTTAATTTTATAGT-TATTATTTTTGAAA
1 ATCATTTTCTGAAATTTAATTTG--TCTAAATATATTTTAATTTTATAGTATATTATCTTTGAAA
4880924 TTTTAAAATATTGAAAA
64 TTTTAAAATATTGAAAA
*
4880941 ATCATTTTCTGAAATTTAATTTGTCTAAATATGTTTTAATTTTATAGTCATATTATCTTTGAAAT
1 ATCATTTTCTGAAATTTAATTTGTCTAAATATATTTTAATTTTATAGT-ATATTATCTTTGAAAT
*
4881006 TTTAAAATTTTGAAAA
65 TTTAAAATATTGAAAA
4881022 TTTTTATCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
79 23 0.31
81 52 0.69
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (80 bp):
ATCATTTTCTGAAATTTAATTTGTCTAAATATATTTTAATTTTATAGTATATTATCTTTGAAATT
TTAAAATATTGAAAA
Found at i:4881221 original size:2 final size:2
Alignment explanation
Indices: 4881214--4881256 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4881204 TTTATTTTAC
*
4881214 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4881256 A
1 A
4881257 ATTTTAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4883749 original size:15 final size:15
Alignment explanation
Indices: 4883729--4883765 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
4883719 AAAGTTAGTG
4883729 AATGAATCGAGTTTT
1 AATGAATCGAGTTTT
4883744 AATGAATCGAGTTTT
1 AATGAATCGAGTTTT
4883759 AATGAAT
1 AATGAAT
4883766 AAAGTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (15 bp):
AATGAATCGAGTTTT
Found at i:4883771 original size:15 final size:15
Alignment explanation
Indices: 4883738--4883771 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4883728 GAATGAATCG
**
4883738 AGTTTTAATGAATCG
1 AGTTTTAATGAATAA
4883753 AGTTTTAATGAATAA
1 AGTTTTAATGAATAA
4883768 AGTT
1 AGTT
4883772 GTATTCATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (15 bp):
AGTTTTAATGAATAA
Found at i:4887472 original size:42 final size:42
Alignment explanation
Indices: 4887374--4887476 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
4887364 GTCGCTAAAG
*
4887374 TTAGCGGCGTTTTTTAAAAACAAACGCCGCAATAGGTGACAACAT
1 TTAGCGGCG-TTTTT--CAACAAACGCCGCAATAGGTGACAACAT
* * *****
4887419 ATAGCGTCGTTTTTCAACAAACGCCGCAATAGGTGTTGTTAT
1 TTAGCGGCGTTTTTCAACAAACGCCGCAATAGGTGACAACAT
4887461 TTAGCGGCGTTTTTCA
1 TTAGCGGCGTTTTTCA
4887477 GAAGAAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 36 0.75
44 5 0.10
45 7 0.15
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTCAACAAACGCCGCAATAGGTGACAACAT
Found at i:4887579 original size:43 final size:44
Alignment explanation
Indices: 4887532--4887630 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 44
4887522 ACTTAAAAAT
*
4887532 GCCGCAGTAGGTTTTGATA-TTTT-GCGGCGTTTTCCCCATAAAC
1 GCCGCAGTAGGTTTTGATATTTTTAGCGGCGTTTT-CCCACAAAC
4887575 GCCGCAGTAGG---TGATATTTTTAGCGGCGTTTTCCCACAAAC
1 GCCGCAGTAGGTTTTGATATTTTTAGCGGCGTTTTCCCACAAAC
* *
4887616 GTCACAGTAGGTTTT
1 GCCGCAGTAGGTTTT
4887631 CAGATTTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
40 5 0.10
41 21 0.44
42 10 0.21
43 11 0.23
44 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (44 bp):
GCCGCAGTAGGTTTTGATATTTTTAGCGGCGTTTTCCCACAAAC
Found at i:4887639 original size:42 final size:42
Alignment explanation
Indices: 4887536--4887642 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
4887526 AAAAATGCCG
* * *
4887536 CAGTAGGTTTTGATATTTTGCGGCGTTTTCCCCATAAACGCCG
1 CAGTAGGTTTT-ATATTTAGCGGCGTTTTCCCCACAAACGCCA
** * *
4887579 CAGTAGGTGATATTTTTAGCGGCGTTTT-CCCACAAACGTCA
1 CAGTAGGTTTTATATTTAGCGGCGTTTTCCCCACAAACGCCA
*
4887620 CAGTAGGTTTTCAGATTTAGCGG
1 CAGTAGGTTTT-ATATTTAGCGG
4887643 TATTTGTATA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
41 19 0.37
42 24 0.46
43 9 0.17
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (42 bp):
CAGTAGGTTTTATATTTAGCGGCGTTTTCCCCACAAACGCCA
Found at i:4888155 original size:21 final size:21
Alignment explanation
Indices: 4888073--4888156 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
4888063 CTGCTGATAT
* * *
4888073 GCTGCTTTTCTCTGTGCTGCC
1 GCTGCTTCTCTCTCTGCTTCC
*
4888094 GCTGCTTCTCTCTATG-TTGCC
1 GCTGCTTCTCTCTCTGCTT-CC
* *
4888115 GCTGCTTCTTTCTCTACTTCC
1 GCTGCTTCTCTCTCTGCTTCC
*
4888136 GCTGCTGCTCTCTCTGCTTCC
1 GCTGCTTCTCTCTCTGCTTCC
4888157 CTTGTTTCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 1 0.02
21 49 0.94
22 2 0.04
ACGTcount: A:0.02, C:0.37, G:0.18, T:0.43
Consensus pattern (21 bp):
GCTGCTTCTCTCTCTGCTTCC
Found at i:4899956 original size:42 final size:41
Alignment explanation
Indices: 4899892--4900048 Score: 129
Period size: 42 Copynumber: 3.8 Consensus size: 41
4899882 TTAAATAACC
* *
4899892 ATATTGCGGCGTTTTAT-ATATAAACGCCGCTAATTTACCACT
1 ATATTGCGGCATTTT-TGCTATAAACGCCGCTAATTTA-CACT
* * *
4899934 ATATTGCGGCATTTTTGGTATAAATGCCGCTATATTAACACT
1 ATATTGCGGCATTTTTGCTATAAACGCCGCTA-ATTTACACT
* * * * * * *
4899976 ATATTACGGCGTTTTAGCTA-AAATGCCGTTAAATGTATACT
1 ATATTGCGGCATTTTTGCTATAAACGCCGCT-AATTTACACT
* * *
4900017 CTATTGTGGCATTTTTACTATAAACGCCGCTA
1 ATATTGCGGCATTTTTGCTATAAACGCCGCTA
4900049 TTAATTAACC
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
41 31 0.34
42 56 0.62
43 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (41 bp):
ATATTGCGGCATTTTTGCTATAAACGCCGCTAATTTACACT
Found at i:4903349 original size:31 final size:31
Alignment explanation
Indices: 4903227--4903351 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 31
4903217 GTCGAGGGTA
*
4903227 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* * *
4903259 TACCTATG-TCTTTC-GAGACATATGGACAATA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
* *
4903290 TACCTATGTTCTAAGGAACATATTGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * *
4903321 TACCTAGGTTCTTCGGAACCTATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
4903352 GCCAAGGATC
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
31 50 0.67
32 25 0.33
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:4903392 original size:30 final size:30
Alignment explanation
Indices: 4903338--4903409 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
4903328 GTTCTTCGGA
* * *
4903338 ACCTATGGACAGTTGCCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
4903368 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
4903398 ACCTCTGGATAG
1 ACCTCTGGATAG
4903410 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:4906605 original size:29 final size:29
Alignment explanation
Indices: 4906561--4906651 Score: 128
Period size: 29 Copynumber: 3.0 Consensus size: 29
4906551 CCCAAACCCA
*
4906561 AATTAAATTGATGTCATTACTTACATCATTT
1 AATTAAA--GATGTCATTGCTTACATCATTT
4906592 AATTAAAGATGTCATTGCTTACATCATTT
1 AATTAAAGATGTCATTGCTTACATCATTT
* *
4906621 AAGTAATGATGTCATTGCTTACATCAATTT
1 AATTAAAGATGTCATTGCTTACATC-ATTT
4906651 A
1 A
4906652 GTTAGGTGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
29 44 0.79
30 5 0.09
31 7 0.12
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (29 bp):
AATTAAAGATGTCATTGCTTACATCATTT
Found at i:4911376 original size:29 final size:29
Alignment explanation
Indices: 4911341--4911422 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
4911331 AAACTAAATT
* *
4911341 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
4911370 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
4911399 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
4911423 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:4913326 original size:6 final size:6
Alignment explanation
Indices: 4913315--4913339 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4913305 CAAGCATAAT
4913315 CGTAAA CGTAAA CGTAAA CGTAAA C
1 CGTAAA CGTAAA CGTAAA CGTAAA C
4913340 TTAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (6 bp):
CGTAAA
Found at i:4913998 original size:144 final size:144
Alignment explanation
Indices: 4913738--4914026 Score: 560
Period size: 144 Copynumber: 2.0 Consensus size: 144
4913728 AAAACATATC
4913738 AAGAAGGTGGATATAAACATGTCGTAAAGACATAATTGTTTTTATTAAAAACTAAAAAACAAAGA
1 AAGAAGGTGGATATAAACATGTCGTAAAGACATAATTGTTTTTATTAAAAACTAAAAAACAAAGA
4913803 AGAAAAAAACCGGTGGTCGACAACTAATATAAAAATTGATACTACTATCGGCTAAATAAAATCAG
66 AGAAAAAAACCGGTGGTCGACAACTAATATAAAAATTGATACTACTATCGGCTAAATAAAATCAG
*
4913868 CGAATAAAACGTTA
131 CGAAGAAAACGTTA
4913882 AAGAAGGTGGATATAAACATGTCGTAAAGACATAATTGTTTTTATTAAAAACTAAAAAACAAAGA
1 AAGAAGGTGGATATAAACATGTCGTAAAGACATAATTGTTTTTATTAAAAACTAAAAAACAAAGA
*
4913947 AGAAAAAAACCGGTGGTCGACAACTAATATAAAATTTGATACTACTATCGGCTAAATAAAATCAG
66 AGAAAAAAACCGGTGGTCGACAACTAATATAAAAATTGATACTACTATCGGCTAAATAAAATCAG
4914012 CGAAGAAAACGTTA
131 CGAAGAAAACGTTA
4914026 A
1 A
4914027 TTTAATCTAT
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.24
Consensus pattern (144 bp):
AAGAAGGTGGATATAAACATGTCGTAAAGACATAATTGTTTTTATTAAAAACTAAAAAACAAAGA
AGAAAAAAACCGGTGGTCGACAACTAATATAAAAATTGATACTACTATCGGCTAAATAAAATCAG
CGAAGAAAACGTTA
Found at i:4914429 original size:35 final size:35
Alignment explanation
Indices: 4914383--4914458 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
4914373 AAAACAGTCC
* *
4914383 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
4914418 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
4914453 TCAATT
1 TCAATT
4914459 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Done.