Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004990.1 Hibiscus syriacus cultivar Beakdansim tig00011202_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: 148483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1247 original size:6 final size:6
Alignment explanation
Indices: 1238--1308 Score: 124
Period size: 6 Copynumber: 11.8 Consensus size: 6
1228 CATGTACATG
*
1238 TATACA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
1286 TATATA TATATA TATATA CATAT
1 TATATA TATATA TATATA TATAT
1309 TGGTTATAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (6 bp):
TATATA
Found at i:1252 original size:4 final size:4
Alignment explanation
Indices: 1238--1308 Score: 124
Period size: 4 Copynumber: 17.8 Consensus size: 4
1228 CATGTACATG
*
1238 TATA CATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
1286 TATA TATA TATA TATA TACA TAT
1 TATA TATA TATA TATA TATA TAT
1309 TGGTTATAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (4 bp):
TATA
Found at i:1576 original size:18 final size:18
Alignment explanation
Indices: 1553--1640 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
1543 AGGGATTATG
1553 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1571 AGTGGTTCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1589 AGTGGTCTTTTGGGACGT
1 AGTGGTCCTTCGGGACAT
*
1607 AGTGGTTCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1625 AGT-GTCTTTCGGGACA
1 AGTGGTCCTTCGGGACA
1641 AATATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
17 11 0.19
18 48 0.81
ACGTcount: A:0.16, C:0.17, G:0.34, T:0.33
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1604 original size:36 final size:36
Alignment explanation
Indices: 1553--1640 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
1543 AGGGATTATG
*
1553 AGTGGTCCTTCGGGACATAGTGGTTCTTCGGGACAT
1 AGTGGTCTTTCGGGACATAGTGGTTCTTCGGGACAT
* *
1589 AGTGGTCTTTTGGGACGTAGTGGTTCTTCGGGACAT
1 AGTGGTCTTTCGGGACATAGTGGTTCTTCGGGACAT
1625 AGT-GTCTTTCGGGACA
1 AGTGGTCTTTCGGGACA
1641 AATATTCAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 11 0.23
36 36 0.77
ACGTcount: A:0.16, C:0.17, G:0.34, T:0.33
Consensus pattern (36 bp):
AGTGGTCTTTCGGGACATAGTGGTTCTTCGGGACAT
Found at i:11102 original size:31 final size:32
Alignment explanation
Indices: 11038--11102 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
11028 TTATTCTTTG
*
11038 TTAAAATTCAATTTTGTTTGAGTGTCAAGCTT
1 TTAAAATTCAATTTTGTTTGAATGTCAAGCTT
11070 TTAAAA-TCAATTTTTGTTTGGAATG-CAA-CTT
1 TTAAAATTCAA-TTTTGTTT-GAATGTCAAGCTT
11101 TT
1 TT
11103 GAAGGGGAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 9 0.30
32 17 0.57
33 4 0.13
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (32 bp):
TTAAAATTCAATTTTGTTTGAATGTCAAGCTT
Found at i:11716 original size:20 final size:19
Alignment explanation
Indices: 11687--11726 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
11677 TATTACTTTG
11687 TATAATAGTATCGATACCA
1 TATAATAGTATCGATACCA
11706 TATACATAGTATCGATACCA
1 TATA-ATAGTATCGATACCA
11726 T
1 T
11727 CAGGCCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (19 bp):
TATAATAGTATCGATACCA
Found at i:13312 original size:16 final size:16
Alignment explanation
Indices: 13285--13360 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
13275 TTAGTGAGAC
13285 AACATAATAAAATAAAT
1 AACAT-ATAAAATAAAT
13302 AACATATAAAATAAAT
1 AACATATAAAATAAAT
* *
13318 --CATATTATATAAA-
1 AACATATAAAATAAAT
* *
13331 AACGTTATTAAAATAAAG
1 AAC-ATA-TAAAATAAAT
*
13349 CACATATAAAAT
1 AACATATAAAAT
13361 GGGAATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 19 0.40
17 14 0.30
18 2 0.04
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (16 bp):
AACATATAAAATAAAT
Found at i:15476 original size:26 final size:26
Alignment explanation
Indices: 15440--15493 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
15430 ACCAAAGTGC
15440 TAATACACATAAGGT-AGTGCCCACCA
1 TAATACACATAAGGTCA-TGCCCACCA
15466 TAATACACATAAGGTCATGCCCACCA
1 TAATACACATAAGGTCATGCCCACCA
15492 TA
1 TA
15494 TGCACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (26 bp):
TAATACACATAAGGTCATGCCCACCA
Found at i:18944 original size:14 final size:14
Alignment explanation
Indices: 18925--18955 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18915 CACGTAAAAG
18925 ATTCTGAAAAATGA
1 ATTCTGAAAAATGA
*
18939 ATTCTGTAAAATGA
1 ATTCTGAAAAATGA
18953 ATT
1 ATT
18956 ACATTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (14 bp):
ATTCTGAAAAATGA
Found at i:19095 original size:24 final size:24
Alignment explanation
Indices: 19055--19100 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19045 ATAAACATCA
19055 AATACAATGAATATATTATTTATT
1 AATACAATGAATATATTATTTATT
* *
19079 AATATAAT-AATACTATTTTTTA
1 AATACAATGAATA-TATTATTTA
19101 ATTTCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
AATACAATGAATATATTATTTATT
Found at i:20160 original size:29 final size:29
Alignment explanation
Indices: 20076--20160 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
20066 CAAAATGTAT
* * *
20076 AACTTTTAAAATTATAC-TTTGA-TCTCTA
1 AACTTTTAAAATT-TACATTTTAGTCACCA
* * * *
20104 AACTTTTATAACTTTATACTTTGGTCACCA
1 AACTTTTA-AAATTTACATTTTAGTCACCA
20134 AACTTTTAAAATTTACATTTTAGTCAC
1 AACTTTTAAAATTTACATTTTAGTCAC
20161 TAGTCAAAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
28 10 0.23
29 21 0.49
30 12 0.28
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (29 bp):
AACTTTTAAAATTTACATTTTAGTCACCA
Found at i:21090 original size:21 final size:22
Alignment explanation
Indices: 21064--21142 Score: 119
Period size: 21 Copynumber: 3.7 Consensus size: 22
21054 ACTATCGCAA
*
21064 TGCGATTTT-CCAATTTTGCGT
1 TGCGATTTTCCCAATTTCGCGT
21085 TGCGATTTT-CCAATTTCGCGT
1 TGCGATTTTCCCAATTTCGCGT
*
21106 TGCGATTTTCCCAA-TTCGCAT
1 TGCGATTTTCCCAATTTCGCGT
21127 TGCGATTTTCCCAATT
1 TGCGATTTTCCCAATT
21143 CGCAATGCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
21 49 0.91
22 5 0.09
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (22 bp):
TGCGATTTTCCCAATTTCGCGT
Found at i:21143 original size:21 final size:21
Alignment explanation
Indices: 21058--21152 Score: 113
Period size: 21 Copynumber: 4.5 Consensus size: 21
21048 ATTATGACTA
*
21058 TCGCAATGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAATT
* *
21079 TTGCGTTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAATT
*
21100 TCGCGTTGCGATTTTCCCAA-T
1 TCGCATTGCGATTTT-CCAATT
21121 TCGCATTGCGATTTTCCCAA-T
1 TCGCATTGCGATTTT-CCAATT
*
21142 TCGCAATGCGA
1 TCGCATTGCGA
21153 ATTTGGAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 63 0.94
22 4 0.06
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAATT
Found at i:21187 original size:20 final size:20
Alignment explanation
Indices: 21162--21276 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 20
21152 AATTTGGAAA
*
21162 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCGATACTGACT
* * **
21182 ATCGCAACGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
*
21203 ATCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * * *
21223 TTCGCAACTCGGTACTTAAT
1 ATCGCAACGCGATACTGACT
* * *
21243 TTCGCAACTCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
21263 TTCGCAACGAGATA
1 ATCGCAACGCGATA
21277 ATACATAATC
Statistics
Matches: 72, Mismatches: 22, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
20 57 0.79
21 15 0.21
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:21498 original size:22 final size:22
Alignment explanation
Indices: 21460--21503 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21450 CACTCTCTCA
* *
21460 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACAAAATCCGTC
21482 CCCATCTCC-AGCAAAATCCGTC
1 CCCATCTCCGA-CAAAATCCGTC
21504 TGTCTCCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.25, C:0.43, G:0.11, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:21791 original size:20 final size:20
Alignment explanation
Indices: 21737--21810 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
21727 AAATCGCAAC
* *
21737 GCGATTTT-ATTCTCTCGTT
1 GCGATTTTCATTTTCGCGTT
** **
21756 GCGATAGTCAAATTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
21776 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
21796 GCGATTTTCATTTTC
1 GCGATTTTCATTTTC
21811 AGAAACTATT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:23158 original size:18 final size:18
Alignment explanation
Indices: 23131--23177 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
23121 CCACTTCGGG
23131 AGCCATCACCTCACCCAA
1 AGCCATCACCTCACCCAA
* *
23149 AGCTATCACCTCACCCAG
1 AGCCATCACCTCACCCAA
23167 AGCCATCACCT
1 AGCCATCACCT
23178 AATCGACCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.47, G:0.09, T:0.15
Consensus pattern (18 bp):
AGCCATCACCTCACCCAA
Found at i:23743 original size:20 final size:20
Alignment explanation
Indices: 23718--23763 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23708 TAGTTTACTT
23718 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
23738 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
23758 TCGCAA
1 TCGCAA
23764 TGCGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:23772 original size:19 final size:19
Alignment explanation
Indices: 23729--23787 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
23719 CGCAACACGA
*
23729 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAATGC-G
*
23749 AAATGGCTATCGCAATGCG
1 AAATGACTATCGCAATGCG
**
23768 AAATGAAAATCGCAATGCG
1 AAATGACTATCGCAATGCG
23787 A
1 A
23788 TTTGTGTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:23853 original size:20 final size:20
Alignment explanation
Indices: 23797--23885 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
23787 ATTTGTGTTT
**
23797 CGCGTTGCGATTTTCATTT-
1 CGCGTTGCGATAGTCATTTC
* *
23816 CGCATTGCGATAGCCATTTC
1 CGCGTTGCGATAGTCATTTC
*
23836 CGCGTTGTGATAGTCATTTC
1 CGCGTTGCGATAGTCATTTC
*
23856 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGATAGTCATTTC
23876 CGCGTTGCGA
1 CGCGTTGCGA
23886 AAGTAAGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 15 0.25
20 45 0.75
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATAGTCATTTC
Found at i:23896 original size:20 final size:20
Alignment explanation
Indices: 23856--23911 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
23846 TAGTCATTTC
* * *
23856 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
23876 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
*
23896 CGTGTTGCGAAAGTAA
1 CGCGTTGCGAAAGTAA
23912 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:23903 original size:40 final size:40
Alignment explanation
Indices: 23812--23905 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
23802 TGCGATTTTC
* * * *
23812 ATTT-CGCATTGCGATAGCCATTTCCGCGTTGTGATAGTC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
* *
23851 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
*
23891 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
23906 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.85
41 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
Found at i:24340 original size:41 final size:42
Alignment explanation
Indices: 24250--24340 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 42
24240 CCCGACTCAC
* * *
24250 CTGTCATTCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCA
* * *
24292 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCA
24333 CTGTCATC
1 CTGTCATC
24341 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 22 0.52
42 20 0.48
ACGTcount: A:0.23, C:0.41, G:0.14, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCA
Found at i:24349 original size:41 final size:41
Alignment explanation
Indices: 24253--24370 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
24243 GACTCACCTG
* * * *
24253 TCATTCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCATTCAAGAGGCCACTA
* *
24295 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCCACTA
** * * *
24336 TCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 TCATCCCTCAAGA-GTCCCCCCCACCATTCAAGAG
24371 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
41 27 0.43
42 36 0.57
ACGTcount: A:0.24, C:0.39, G:0.16, T:0.21
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCCACTA
Found at i:25944 original size:19 final size:19
Alignment explanation
Indices: 25920--26025 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
25910 ATCGCAACGA
*
25920 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
25939 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
25958 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
25977 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
25996 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
26010 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
26026 TTTTCATTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 2 0.02
17 2 0.02
19 67 0.81
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:26077 original size:34 final size:34
Alignment explanation
Indices: 26032--26135 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 34
26022 GCGATTTTCA
*
26032 TTTCGCATTGCGATTTTCTAGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTAGTTGCGATAGCCAT
*
26066 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC---T--AGTTGCGATAGCCAT
* * **
26106 TTTTGCGTTGCGATTTCCCCGTTGCGATAG
1 TTTCGCGTTGCGATTTTCTAGTTGCGATAG
26136 TCAAATGAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
34 21 0.37
35 5 0.09
38 1 0.02
39 4 0.07
40 26 0.46
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.41
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCTAGTTGCGATAGCCAT
Found at i:26116 original size:20 final size:20
Alignment explanation
Indices: 26052--26119 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
26042 CGATTTTCTA
26052 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
26072 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
26092 ATTGCGATAGCCATTTTTGC
1 GTTGCGATAGCCATTTTCGC
26112 GTTGCGAT
1 GTTGCGAT
26120 TTCCCCGTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
19 3 0.09
20 29 0.83
21 3 0.09
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:26453 original size:20 final size:21
Alignment explanation
Indices: 26409--26460 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
26399 ATAGTCAGTA
*
26409 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
26430 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
26450 TCGCATTGCGA
1 TCGCATTGCGA
26461 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:26600 original size:128 final size:128
Alignment explanation
Indices: 26372--26625 Score: 490
Period size: 128 Copynumber: 2.0 Consensus size: 128
26362 TCAGAATCTT
*
26372 GTTGCGATTTTGTATTATCTCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCATT
1 GTTGCGATTTTGTATTATCTCGTTGCGATAGTCAGTATCGCATTGCAATTTTCCAAATTCGCATT
26437 GCGATTTACTTATTCGCATTGCGAATTAGGAAAATCGCAACGCGATACTTACTTTCGCAACTC
66 GCGATTTACTTATTCGCATTGCGAATTAGGAAAATCGCAACGCGATACTTACTTTCGCAACTC
*
26500 GTTGCGATTTTGTATTATCTCGTTGCGATAGTCAGTATCGCATTTCAATTTTCCAAATTCGCATT
1 GTTGCGATTTTGTATTATCTCGTTGCGATAGTCAGTATCGCATTGCAATTTTCCAAATTCGCATT
26565 GCGATTTACTTATTCGCATTGCGAATTAGGAAAATCGCAACGCGATACTTACTTTCGCAAC
66 GCGATTTACTTATTCGCATTGCGAATTAGGAAAATCGCAACGCGATACTTACTTTCGCAAC
26626 GAGATAATAC
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 124 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (128 bp):
GTTGCGATTTTGTATTATCTCGTTGCGATAGTCAGTATCGCATTGCAATTTTCCAAATTCGCATT
GCGATTTACTTATTCGCATTGCGAATTAGGAAAATCGCAACGCGATACTTACTTTCGCAACTC
Found at i:27399 original size:24 final size:24
Alignment explanation
Indices: 27372--27425 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
27362 GTATTCGAAA
*
27372 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
27396 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
27420 TTTGAT
1 TTTGAT
27426 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:29935 original size:19 final size:19
Alignment explanation
Indices: 29913--30010 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
29903 AGAAATTACT
29913 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29932 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
29946 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
29965 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
29979 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29998 ATCGCAACGCGAA
1 ATCGCAATGCGAA
30011 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:29955 original size:33 final size:33
Alignment explanation
Indices: 29913--30006 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
29903 AGAAATTACT
29913 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
29946 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
29979 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
30007 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:30188 original size:14 final size:14
Alignment explanation
Indices: 30169--30205 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30159 CATCAATTAA
30169 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
30183 ACAAATCACCTTTT
1 ACAAATCAACTTTT
30197 ACAAATCAA
1 ACAAATCAA
30206 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:31622 original size:21 final size:21
Alignment explanation
Indices: 31556--31622 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
31546 GTGAATCGGG
*
31556 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
31576 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
31598 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
31619 CTCT
1 CTCT
31623 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:31641 original size:42 final size:42
Alignment explanation
Indices: 31595--31674 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
31585 CGATGACAGT
* * *
31595 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATATG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATATG
* * *
31637 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
31675 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATATG
Found at i:32076 original size:91 final size:90
Alignment explanation
Indices: 31896--32080 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
31886 ATTTCAAACT
*
31896 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
31961 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGCCAGCAACCGAATAAATTTAC
31989 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
32053 GTATTGCCAGCAACCGAATAAATTTAC
64 GAATTGCCAGCAACCGAATAAATTTAC
32080 T
1 T
32081 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 41 0.47
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGCCAGCAACCGAATAAATTTAC
Found at i:33824 original size:14 final size:14
Alignment explanation
Indices: 33805--33860 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
33795 GGAAATGACT
33805 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
33819 ATCGCAACACGAAATGA
1 ATCGC-A-ACGAGA-GA
33836 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
33852 ATCGCAACG
1 ATCGCAACG
33861 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 14 0.40
15 1 0.03
16 7 0.20
17 7 0.20
18 1 0.03
19 5 0.14
ACGTcount: A:0.41, C:0.25, G:0.23, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:33879 original size:33 final size:33
Alignment explanation
Indices: 33781--33868 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
33771 ACGAGATAAT
33781 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
33815 GAGAATCGCAACACGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
33848 GAGAATCGCAACGCGAAATGA
1 GAGAATCGCAACGCGAAATGA
33869 AAATCACAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 39 0.75
34 13 0.25
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:33901 original size:19 final size:19
Alignment explanation
Indices: 33756--33901 Score: 96
Period size: 19 Copynumber: 8.1 Consensus size: 19
33746 TCTTTTGGTT
*
33756 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
33775 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
33795 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
33813 G--A-GAGAATCGCAACAC
1 GAAATGAAAATCGCAACGC
**
33829 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
33846 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
33862 GAAATGAAAATCACAACGC
1 GAAATGAAAATCGCAACGC
* *
33881 GAAATGAAAATTGCAATGC
1 GAAATGAAAATCGCAACGC
33900 GA
1 GA
33902 TTTTGGTTTC
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
14 18 0.18
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 41 0.41
20 27 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:34568 original size:21 final size:22
Alignment explanation
Indices: 34516--34568 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
34506 ATTTACTTAT
34516 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
34537 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
34558 TCGCATTGCGA
1 TCGCATTGCGA
34569 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:40262 original size:17 final size:18
Alignment explanation
Indices: 40217--40279 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
40207 CAATTTAAAC
* *
40217 TATAATAAAAATATAAAAA
1 TATAATAAAAATAT-ACAT
* *
40236 TACAAATAAAAATGTA-AT
1 TA-TAATAAAAATATACAT
*
40254 TATAATAAAAATATACTT
1 TATAATAAAAATATACAT
40272 TATAATAA
1 TATAATAA
40280 CTCACTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 11 0.31
18 12 0.33
19 3 0.08
20 10 0.28
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAATAAAAATATACAT
Found at i:45534 original size:23 final size:22
Alignment explanation
Indices: 45504--45546 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
45494 GTGTGGTAAT
45504 AAATTTGAACATTGATGTTTACC
1 AAATTTGAACATTGA-GTTTACC
45527 AAATTTGAACATTGAGTTTA
1 AAATTTGAACATTGAGTTTA
45547 TGCGTTACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (22 bp):
AAATTTGAACATTGAGTTTACC
Found at i:45788 original size:24 final size:24
Alignment explanation
Indices: 45751--45838 Score: 131
Period size: 24 Copynumber: 3.7 Consensus size: 24
45741 GGCCTTTTCA
45751 AGCTTCAATCGAGCTCGAGTCTTG
1 AGCTTCAATCGAGCTCGAGTCTTG
* *
45775 AGCTTTAATTGAGCTCGAGTCTTG
1 AGCTTCAATCGAGCTCGAGTCTTG
* * *
45799 AGCTTTAATTGAGCTCGAGTCTCG
1 AGCTTCAATCGAGCTCGAGTCTTG
45823 AGCTTCAATCGAGCTC
1 AGCTTCAATCGAGCTC
45839 CTAAATTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (24 bp):
AGCTTCAATCGAGCTCGAGTCTTG
Found at i:45871 original size:16 final size:16
Alignment explanation
Indices: 45846--45876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45836 CTCCTAAATT
*
45846 TTTTTTGAGTTCGAGC
1 TTTTTCGAGTTCGAGC
45862 TTTTTCGAGTTCGAG
1 TTTTTCGAGTTCGAG
45877 TTGAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCGAGC
Found at i:48574 original size:28 final size:27
Alignment explanation
Indices: 48543--48675 Score: 99
Period size: 29 Copynumber: 4.7 Consensus size: 27
48533 TAAAAATATA
*
48543 AAATTATAATAAAGGCCTAAACTTTTAG
1 AAATTATAATAAAGGAC-AAACTTTTAG
* *
48571 AAATCATATTAAAGGACAAA-TGTGTTAG
1 AAATTATAATAAAGGACAAACT-T-TTAG
* * *
48599 GAATTAAAATAAAGGACAAAGCTTTTTAT
1 AAATTATAATAAAGGACAAA-C-TTTTAG
* * *
48628 AAATTATAATAAGGGACAAGGCTTTTTAT
1 AAATTATAATAAAGGACAA-AC-TTTTAG
*
48657 AAATTACAATAAAGG-CAAA
1 AAATTATAATAAAGGACAAA
48676 AAAAATTACA
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 37 0.44
29 40 0.48
30 1 0.01
31 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.29
Consensus pattern (27 bp):
AAATTATAATAAAGGACAAACTTTTAG
Found at i:48644 original size:29 final size:29
Alignment explanation
Indices: 48600--48675 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
48590 ATGTGTTAGG
48600 AATTAAAATAAAGGACAAAGCTTTTTATA
1 AATTAAAATAAAGGACAAAGCTTTTTATA
* * *
48629 AATTATAATAAGGGACAAGGCTTTTTATA
1 AATTAAAATAAAGGACAAAGCTTTTTATA
*
48658 AATTACAATAAAGG-CAAA
1 AATTAAAATAAAGGACAAA
48676 AAAAATTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (29 bp):
AATTAAAATAAAGGACAAAGCTTTTTATA
Found at i:48713 original size:27 final size:28
Alignment explanation
Indices: 48655--48727 Score: 112
Period size: 27 Copynumber: 2.6 Consensus size: 28
48645 AAGGCTTTTT
*
48655 ATAAATTACAATAAAGGCAAAAAAAATTAC
1 ATAAATTACAAT-AATGC-AAAAAAATTAC
48685 ATAAATTACAATAATGC-AAAAAATTAC
1 ATAAATTACAATAATGCAAAAAAATTAC
48712 ATAAATTACAATAATG
1 ATAAATTACAATAATG
48728 GCATACATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 26 0.62
29 4 0.10
30 12 0.29
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (28 bp):
ATAAATTACAATAATGCAAAAAAATTAC
Found at i:48754 original size:29 final size:29
Alignment explanation
Indices: 48714--48786 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
48704 AAAATTACAT
*
48714 AAATTACAATAATGGCATACATA-TTTTAA
1 AAATTATAATAATGGC-TACATACTTTTAA
*
48743 AAATTATAATAATGG-TACGTACTTTTAA
1 AAATTATAATAATGGCTACATACTTTTAA
48771 AAATTATAATAATGGC
1 AAATTATAATAATGGC
48787 CCAAAATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 5 0.12
28 21 0.52
29 14 0.35
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (29 bp):
AAATTATAATAATGGCTACATACTTTTAA
Found at i:49982 original size:28 final size:28
Alignment explanation
Indices: 49949--50051 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 28
49939 GCACGGGCTG
*
49949 TTAAGGAATGGAGGTGTTGCCGCTGCCG
1 TTAAGGAATGGAGGTGTTGCCGCTGCCA
* **
49977 TTAAGGACTGGAGGTGTGTTG-CTATCGCCA
1 TTAAGGAATGGA-G-GTGTTGCCGCT-GCCA
* * * *
50007 CTAAAGAATGGAGGTGTTGCTGCTTCCA
1 TTAAGGAATGGAGGTGTTGCCGCTGCCA
*
50035 TTAAGGAATGAAGGTGT
1 TTAAGGAATGGAGGTGT
50052 GCTACTATTA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 34 0.60
29 5 0.09
30 18 0.32
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
TTAAGGAATGGAGGTGTTGCCGCTGCCA
Found at i:51054 original size:18 final size:18
Alignment explanation
Indices: 51027--51064 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51017 TAAAAGGATC
*
51027 ATAAATATACATATACAT
1 ATAAAGATACATATACAT
*
51045 ATAAAGATACATGTACAT
1 ATAAAGATACATATACAT
51063 AT
1 AT
51065 TAACCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAAAGATACATATACAT
Found at i:54363 original size:28 final size:29
Alignment explanation
Indices: 54329--54384 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
54319 AGAATAAGAA
*
54329 TCAAAAT-TTAAAGATGAAATTAGAATGT
1 TCAAAATCTTAAAGATCAAATTAGAATGT
* *
54357 TCAAAATCTTAAATATCAATTTAGAATG
1 TCAAAATCTTAAAGATCAAATTAGAATG
54385 AGGATCATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (29 bp):
TCAAAATCTTAAAGATCAAATTAGAATGT
Found at i:54677 original size:31 final size:30
Alignment explanation
Indices: 54614--54734 Score: 84
Period size: 31 Copynumber: 3.9 Consensus size: 30
54604 ACTAATAAAT
* ** *
54614 TTTGATAAGTTTAAGGACCATTTTGTAGTAG
1 TTTGATAAGTTTAATGAATATTTTATA-TAG
54645 TTTGATAAGTTTAATGAATATTTTATGATAG
1 TTTGATAAGTTTAATGAATATTTTAT-ATAG
* * *
54676 TTTGACAATATTTAATG-ATAATTTTATAAATAT
1 TTTGATAA-GTTTAATGAAT-ATTTTAT--ATAG
* * *
54709 TTTG-TAAGTTTTATCATTATTTTATA
1 TTTGATAAGTTTAATGAATATTTTATA
54735 ACTTCTGAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
29 1 0.01
31 46 0.64
32 18 0.25
33 7 0.10
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (30 bp):
TTTGATAAGTTTAATGAATATTTTATATAG
Found at i:55152 original size:42 final size:42
Alignment explanation
Indices: 55100--55244 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 42
55090 TGCCACAAAA
*
55100 TGATACTTTAGCGGCGTTTTTCCAACAAACGCCACAATAGAG
1 TGATATTTTAGCGGCGTTTTTCCAACAAACGCCACAATAGAG
* ** *
55142 TGATAATTTAGCGGCGTTTGTAGC-ACAAACGCCATAATAGAG
1 TGATATTTTAGCGGCGTTT-TTCCAACAAACGCCACAATAGAG
* *
55184 T--TATTTATAGTGGC-TTTTTTCAACAAACGCCACAATAGA-
1 TGATATTT-TAGCGGCGTTTTTCCAACAAACGCCACAATAGAG
* *
55223 TTAGTATTTTAGCGGCATTTTT
1 TGA-TATTTTAGCGGCGTTTTT
55245 ATACAAATAC
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
39 3 0.03
40 23 0.27
41 12 0.14
42 46 0.53
43 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (42 bp):
TGATATTTTAGCGGCGTTTTTCCAACAAACGCCACAATAGAG
Found at i:55428 original size:72 final size:74
Alignment explanation
Indices: 55288--55434 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 74
55278 CATTTGTCCA
*
55288 ACAAACGATGCTATAGAGTAGTAATTTAGCGGCGTTTATCAAACAAACACCGCAATAGTGTTGTT
1 ACAAACGACGCTATAGAGTAGTAATTTAGCGGCGTTTATCAAACAAACACCGCAATAGTGTTGTT
55353 TATAG-GGC
66 TATAGTGGC
* * * * *
55361 ACAAACGCCGCTATAGAGTAGTAATTT-GTGGCGTTTGTCTTAA-AAACGCCGCAATA-TGGTTG
1 ACAAACGACGCTATAGAGTAGTAATTTAGCGGCGTTTATC-AAACAAACACCGCAATAGT-GTTG
55423 TTTATAGTGGC
64 TTTATAGTGGC
55434 A
1 A
55435 TTTTTAGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
71 1 0.02
72 33 0.51
73 31 0.48
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (74 bp):
ACAAACGACGCTATAGAGTAGTAATTTAGCGGCGTTTATCAAACAAACACCGCAATAGTGTTGTT
TATAGTGGC
Found at i:55940 original size:21 final size:22
Alignment explanation
Indices: 55900--55947 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
55890 GTGTTTTTCT
55900 GCTTTCGAATAGAAAAATAATA
1 GCTTTCGAATAGAAAAATAATA
*
55922 GCTTTCGAATAG-GAAATAATA
1 GCTTTCGAATAGAAAAATAATA
55943 GCTTT
1 GCTTT
55948 TGAAAACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (22 bp):
GCTTTCGAATAGAAAAATAATA
Found at i:57067 original size:80 final size:81
Alignment explanation
Indices: 56942--57131 Score: 199
Period size: 82 Copynumber: 2.3 Consensus size: 81
56932 ACCTGACTTT
*
56942 TTGCGGCGTTTATAT-CTAAAACAGCCGCAATATGGTTAATCTATAGTGGCGTTTAT-AACAAAC
1 TTGCGGCGTTTTTATAC--AAAC-GCCGCAATATGGTTAATCTATAGTGGCGTTTATCAACAAAC
* *
57005 ACCGCTATAGAATAGTACA
63 ACCGCAACAGAATAGTACA
* *
57024 TTGCGGCGTTTTTATACAAACGCCGCAATA-GGTGTAA-CATATAGTGGCGTTTTTCAACAAACG
1 TTGCGGCGTTTTTATACAAACGCCGCAATATGGT-TAATC-TATAGTGGCGTTTATCAACAAACA
* * * *
57087 CCGCAACATATTTGTACT
64 CCGCAACAGAATAGTACA
* *
57105 TTAGCAGCGTTTTTATAAAAACGCCGC
1 TT-GCGGCGTTTTTATACAAACGCCGC
57132 GAAAAAGTCA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 4 0.04
80 26 0.28
81 25 0.27
82 36 0.39
83 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (81 bp):
TTGCGGCGTTTTTATACAAACGCCGCAATATGGTTAATCTATAGTGGCGTTTATCAACAAACACC
GCAACAGAATAGTACA
Found at i:57073 original size:41 final size:40
Alignment explanation
Indices: 56960--57092 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 40
56950 TTTATATCTA
*
56960 AAACAGCCGCAATATGGT-TAATC-TATAGTGGCGTTTATAAC
1 AAAC-GCCGCAATA-GGTGTAA-CATATAGTGGCGTTTTTAAC
* * * *
57001 AAACACCGCTATAGAATAGT-ACAT-T-GCGGCGTTTTTATAC
1 AAACGCCGCAATAG-GT-GTAACATATAGTGGCGTTTTTA-AC
57041 AAACGCCGCAATAGGTGTAACATATAGTGGCGTTTTTCAAC
1 AAACGCCGCAATAGGTGTAACATATAGTGGCGTTTTT-AAC
57082 AAACGCCGCAA
1 AAACGCCGCAA
57093 CATATTTGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
38 2 0.03
39 16 0.22
40 25 0.34
41 29 0.39
42 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (40 bp):
AAACGCCGCAATAGGTGTAACATATAGTGGCGTTTTTAAC
Found at i:59372 original size:90 final size:87
Alignment explanation
Indices: 59218--59392 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 87
59208 GACCTAACAC
* *
59218 ATCCTTTTATAGCCAAGTTACTCTAATCATATAGGGTTTTATTATTTCAAATTAATTAAATCTAT
1 ATCCTCTTATAGCCAAGTTACACTAATCATATAGGGTTTTATTATTTCAAATTAATTAAATCTAT
*
59283 ATTTAATTAATTAGAATTTAATA
66 ATTTAATTAATT-GAAATTAATA
* *
59306 ATCCTCTTATATCCAAGTTACACTAATCATATTGGGAATTTTATTATTTCAAATTAATTAAATCT
1 ATCCTCTTATAGCCAAGTTACACTAATCATATAGGG--TTTTATTATTTCAAATTAATTAAATCT
59371 ATATTTAATTAATTGAAATTAA
64 ATATTTAATTAATTGAAATTAA
59393 ATATTCGGGA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
88 32 0.40
89 7 0.09
90 41 0.51
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (87 bp):
ATCCTCTTATAGCCAAGTTACACTAATCATATAGGGTTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATA
Found at i:67564 original size:44 final size:44
Alignment explanation
Indices: 67471--67576 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
67461 ACAATACCGA
* * * *
67471 CATTTGTA-ACAAAAAACGCCGTTATATACCATACCTTTTGTCG
1 CATTTGTACCCAAAAAATGCCGCTATATACCAAACCTTTTGTCG
* *
67514 CATTTGTATCCGAAAAATGCCGCTATATACCAAACCTTTTG-CGG
1 CATTTGTACCCAAAAAATGCCGCTATATACCAAACCTTTTGTC-G
*
67558 CGTTTGTACCCAAAAAATG
1 CATTTGTACCCAAAAAATG
67577 ACGTTAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 9 0.17
44 44 0.83
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (44 bp):
CATTTGTACCCAAAAAATGCCGCTATATACCAAACCTTTTGTCG
Found at i:68547 original size:2 final size:2
Alignment explanation
Indices: 68540--68565 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68530 CTCAAGAATA
68540 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68566 GTAACTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69004 original size:18 final size:18
Alignment explanation
Indices: 68981--69028 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
68971 TTTCAAATAG
68981 TTGAGATGGAGGATAAAT
1 TTGAGATGGAGGATAAAT
*
68999 TTGAGAAT-GAGGATACAT
1 TTGAG-ATGGAGGATAAAT
* *
69017 GTGAGGTGGAGG
1 TTGAGATGGAGG
69029 TGGGTGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 22 0.88
19 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.25
Consensus pattern (18 bp):
TTGAGATGGAGGATAAAT
Found at i:79379 original size:17 final size:17
Alignment explanation
Indices: 79357--79396 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
79347 AGAATTTGAC
79357 GTGTTGAATTTCAACCG
1 GTGTTGAATTTCAACCG
79374 GTGTTGAATTTCAACCG
1 GTGTTGAATTTCAACCG
79391 GTGTTG
1 GTGTTG
79397 CTTACTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (17 bp):
GTGTTGAATTTCAACCG
Found at i:82583 original size:23 final size:23
Alignment explanation
Indices: 82527--82621 Score: 88
Period size: 23 Copynumber: 4.2 Consensus size: 23
82517 AATAAATTCA
* * * *
82527 TTTATGTTCACTTGTTTTATTCG
1 TTTATGTTCATTTATTGTGTTCG
82550 TTTATGTTCATTTATTGTGTTCG
1 TTTATGTTCATTTATTGTGTTCG
* *
82573 TTTATGTTCATTTA-CGT-CT-G
1 TTTATGTTCATTTATTGTGTTCG
* *
82593 TTTATGTTCGTTCATTTGTGTTCG
1 TTTATGTTCATTTA-TTGTGTTCG
82617 TTTAT
1 TTTAT
82622 CATTTAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
20 13 0.22
21 1 0.02
22 4 0.07
23 34 0.59
24 6 0.10
ACGTcount: A:0.13, C:0.12, G:0.16, T:0.60
Consensus pattern (23 bp):
TTTATGTTCATTTATTGTGTTCG
Found at i:84335 original size:2 final size:2
Alignment explanation
Indices: 84328--84370 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
84318 ACTCACTCCA
84328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84370 A
1 A
84371 ATGGTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92412 original size:15 final size:15
Alignment explanation
Indices: 92392--92426 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
92382 GACCACACAT
92392 TGCTGCAGATAACCC
1 TGCTGCAGATAACCC
*
92407 TGCTGCAGATGACCC
1 TGCTGCAGATAACCC
92422 TGCTG
1 TGCTG
92427 GACCACGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.23
Consensus pattern (15 bp):
TGCTGCAGATAACCC
Found at i:95008 original size:15 final size:16
Alignment explanation
Indices: 94990--95024 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
94980 CTCAAACACT
94990 AAACCCTAAAAC-CTA
1 AAACCCTAAAACTCTA
*
95005 AAACTCTAAAACTCTA
1 AAACCCTAAAACTCTA
95021 AAAC
1 AAAC
95025 TAGGGTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACCCTAAAACTCTA
Found at i:95013 original size:8 final size:8
Alignment explanation
Indices: 94990--95025 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
94980 CTCAAACACT
*
94990 AAACCCTA
1 AAACTCTA
94998 AAAC-CTA
1 AAACTCTA
95005 AAACTCTA
1 AAACTCTA
95013 AAACTCTA
1 AAACTCTA
95021 AAACT
1 AAACT
95026 AGGGTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (8 bp):
AAACTCTA
Found at i:98284 original size:21 final size:21
Alignment explanation
Indices: 98215--98311 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
98205 AAATGGAGTG
* *
98215 CATGGATGCACTACA-TGGTG
1 CATGGATGCACTACAGGGGTA
* ** *
98235 CATCGATGCACTAGTGGCAGGTG
1 CATGGATGCACTACAGG--GGTA
**
98258 CATGGATGCACTGTAGGGGTA
1 CATGGATGCACTACAGGGGTA
* *
98279 CATGGATACACTACAGGGGTG
1 CATGGATGCACTACAGGGGTA
98300 CATGGATGCACT
1 CATGGATGCACT
98312 TTGACACCCT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
20 12 0.20
21 31 0.52
23 17 0.28
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
CATGGATGCACTACAGGGGTA
Found at i:98560 original size:21 final size:21
Alignment explanation
Indices: 98537--98575 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
98527 TGTTTAATGA
98537 AAAAT-ATACCAATTGTTAAC
1 AAAATGATACCAATTGTTAAC
*
98557 AAAATGATATCAATTGTTA
1 AAAATGATACCAATTGTTA
98576 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAATGATACCAATTGTTAAC
Found at i:101676 original size:20 final size:20
Alignment explanation
Indices: 101647--101699 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
101637 GCAGCCTTGG
* *
101647 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAACAGGA
101667 TGCATCGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
101687 TGCATCGATGCAC
1 TGCATCGATGCAC
101700 TAATTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:101772 original size:23 final size:21
Alignment explanation
Indices: 101720--101797 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 21
101710 CGAAATGGAA
* *
101720 TGCATGGATGCACTACA-TGG
1 TGCATGGATGCACTGCAGGGG
* *
101740 TGCATCGATGCACTAG-TGGCAGG
1 TGCATGGATGCACT-GCAGG--GG
101763 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTGCAGGGG
101784 TGCATGGATGCACT
1 TGCATGGATGCACT
101798 TTGACACCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 13 0.28
21 16 0.34
22 1 0.02
23 17 0.36
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGG
Found at i:102700 original size:25 final size:25
Alignment explanation
Indices: 102667--102723 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
102657 CATTACTGTA
*
102667 GTTGTGCTGTCAACTTGATCAGCTT
1 GTTGAGCTGTCAACTTGATCAGCTT
*
102692 GTTGAGCTGTCAACTTGATCAGTTT
1 GTTGAGCTGTCAACTTGATCAGCTT
102717 GTTGAGC
1 GTTGAGC
102724 CAGCCCACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.39
Consensus pattern (25 bp):
GTTGAGCTGTCAACTTGATCAGCTT
Found at i:104228 original size:29 final size:30
Alignment explanation
Indices: 104171--104236 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
104161 CTCTTTTTTC
* *
104171 ACTTTAATTTTCCAGTATTTCCATTTCAGT
1 ACTTTAATTTTCCAGCATTTACATTTCAGT
* *
104201 TCTTTAATTTT-CAGCATTTATATTTCAGT
1 ACTTTAATTTTCCAGCATTTACATTTCAGT
104230 ACTTTAA
1 ACTTTAA
104237 ATTCTAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.52
Consensus pattern (30 bp):
ACTTTAATTTTCCAGCATTTACATTTCAGT
Found at i:104235 original size:15 final size:14
Alignment explanation
Indices: 104171--104254 Score: 55
Period size: 15 Copynumber: 5.7 Consensus size: 14
104161 CTCTTTTTTC
104171 ACTTTAATTTTCCAGT
1 ACTTTAA-TTT-CAGT
*
104187 A-TTTCCATTTCAGT
1 ACTTT-AATTTCAGT
* *
104201 TCTTTAATTTTCAGC
1 ACTTTAA-TTTCAGT
104216 A-TTTATATTTCAGT
1 ACTTTA-ATTTCAGT
*
104230 ACTTTAAATTCTAGT
1 ACTTTAATTTC-AGT
*
104245 ATTTTAATTT
1 ACTTTAATTT
104255 TCTACATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
14 20 0.38
15 31 0.58
16 2 0.04
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (14 bp):
ACTTTAATTTCAGT
Found at i:104248 original size:29 final size:29
Alignment explanation
Indices: 104171--104248 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
104161 CTCTTTTTTC
* *
104171 ACTTTAATTTTCCAGTATTTCCATTTCAGT
1 ACTTTAATTCT-CAGTATTTACATTTCAGT
* * * *
104201 TCTTTAATTTTCAGCATTTATATTTCAGT
1 ACTTTAATTCTCAGTATTTACATTTCAGT
104230 ACTTTAAATTCT-AGTATTT
1 ACTTT-AATTCTCAGTATTT
104249 TAATTTTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (29 bp):
ACTTTAATTCTCAGTATTTACATTTCAGT
Found at i:110266 original size:16 final size:16
Alignment explanation
Indices: 110234--110268 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
110224 TAGATATCCG
*
110234 ATCTAAAAATTCGGAT
1 ATCTAAAAATTCAGAT
*
110250 ATCTAAAAATTTAGAT
1 ATCTAAAAATTCAGAT
110266 ATC
1 ATC
110269 CAATTTTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (16 bp):
ATCTAAAAATTCAGAT
Found at i:110653 original size:35 final size:35
Alignment explanation
Indices: 110585--110946 Score: 350
Period size: 37 Copynumber: 10.3 Consensus size: 35
110575 TATATATAAT
* * * *
110585 CATATAATATA-GTTTTTTAACATATTTTTGAAAA
1 CATATAATATATGGTTTTGAAAACATTTTTGAAAA
110619 CATATAATATATGGTTTTGAAAACATTTTTGAAAA
1 CATATAATATATGGTTTTGAAAACATTTTTGAAAA
* *
110654 CGTATAATATATGGTTTTGAAAACATGTTTGAAAA
1 CATATAATATATGGTTTTGAAAACATTTTTGAAAA
* *
110689 CTTATAATATATGGCTTTG-AAACATTTTTGAAAACA
1 CATATAATATATGGTTTTGAAAACATTTTTG-AAA-A
* *
110725 CATATAATATATAGTTTTGAAAATATTTTTGAAAA
1 CATATAATATATGGTTTTGAAAACATTTTTGAAAA
*
110760 CCTATATAATATATGATTTTGAAAACATTTTTGAAAA
1 -C-ATATAATATATGGTTTTGAAAACATTTTTGAAAA
* * *
110797 CGTTTATAATATATGGATTTGAAAGCATTTTTGAAAA
1 C--ATATAATATATGGTTTTGAAAACATTTTTGAAAA
** *
110834 C-------GCATGGTTTTGAAAACGTTTTTGAAAA
1 CATATAATATATGGTTTTGAAAACATTTTTGAAAA
*
110862 CGTATATAATATA--GTTTTGAAAATATTTTTGAAAA
1 C--ATATAATATATGGTTTTGAAAACATTTTTGAAAA
* * **
110897 CATGTAATATATAGTGTTTTTAAAACGGTTTTGAAAA
1 CATATAATATAT-G-GTTTTGAAAACATTTTTGAAAA
110934 CATATATATATAT
1 CATATA-ATATAT
110947 AATTTTTTGA
Statistics
Matches: 272, Mismatches: 35, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
28 23 0.08
33 9 0.03
34 21 0.08
35 94 0.35
36 22 0.08
37 97 0.36
38 6 0.02
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (35 bp):
CATATAATATATGGTTTTGAAAACATTTTTGAAAA
Found at i:110793 original size:12 final size:12
Alignment explanation
Indices: 110776--110899 Score: 54
Period size: 12 Copynumber: 10.0 Consensus size: 12
110766 TAATATATGA
110776 TTTTGAAAACAT
1 TTTTGAAAACAT
*
110788 TTTTGAAAACGT
1 TTTTGAAAACAT
* * *
110800 TTAT-AATATAT
1 TTTTGAAAACAT
* *
110811 GGATTTGAAAGCAT
1 --TTTTGAAAACAT
110825 TTTTGAAAACGCAT
1 TTTTGAAAA--CAT
*
110839 GGTTTTGAAAACGT
1 --TTTTGAAAACAT
*
110853 TTTTGAAAACGT
1 TTTTGAAAACAT
* * * * *
110865 ATAT-AATATAG
1 TTTTGAAAACAT
*
110876 TTTTGAAAATAT
1 TTTTGAAAACAT
110888 TTTTGAAAACAT
1 TTTTGAAAACAT
110900 GTAATATATA
Statistics
Matches: 80, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
11 9 0.11
12 51 0.64
13 2 0.03
14 9 0.11
16 9 0.11
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:110855 original size:28 final size:28
Alignment explanation
Indices: 110809--110863 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
110799 TTTATAATAT
*
110809 ATGGATTTGAAAGCATTTTTGAAAACGC
1 ATGGATTTGAAAACATTTTTGAAAACGC
* *
110837 ATGGTTTTGAAAACGTTTTTGAAAACG
1 ATGGATTTGAAAACATTTTTGAAAACG
110864 TATATAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (28 bp):
ATGGATTTGAAAACATTTTTGAAAACGC
Found at i:110856 original size:65 final size:63
Alignment explanation
Indices: 110776--110897 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 63
110766 TAATATATGA
* *
110776 TTTTGAAAACATTTTTGAAAACGTTTATAATATATGGATTTGAAAGCATTTTTGAAAACGCATGG
1 TTTTGAAAACATTTTTGAAAACGTATATAATATA--GATTTGAAAACATTTTTGAAAACGCATGG
* * *
110841 TTTTGAAAACGTTTTTGAAAACGTATATAATATAGTTTTGAAAATATTTTTGAAAAC
1 TTTTGAAAACATTTTTGAAAACGTATATAATATAGATTTGAAAACATTTTTGAAAAC
110898 ATGTAATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
63 20 0.38
65 32 0.62
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.40
Consensus pattern (63 bp):
TTTTGAAAACATTTTTGAAAACGTATATAATATAGATTTGAAAACATTTTTGAAAACGCATGG
Found at i:110930 original size:100 final size:102
Alignment explanation
Indices: 110738--110934 Score: 249
Period size: 100 Copynumber: 2.0 Consensus size: 102
110728 ATAATATATA
* * *
110738 GTTTTGAAAATATTTTTGAAAACCTATATAATATATGATTTTGAAAACATTTTTGAAAACGTTTA
1 GTTTTGAAAACATTTTTGAAAACCTATATAATATATGATTTTGAAAACATTTTTGAAAACATTAA
* *
110803 TAATATATGGATTTGAAAGCATTTTTGAAAACGCATG
66 TAATATATGGATTTGAAAACAGTTTTGAAAACGCATG
* * *
110840 GTTTTGAAAACGTTTTTGAAAACGTATATAATATA-G-TTTTGAAAATATTTTTGAAAACATGTA
1 GTTTTGAAAACATTTTTGAAAACCTATATAATATATGATTTTGAAAACATTTTTGAAAACAT-TA
* * *
110903 AT-ATATA-GTGTTTTTAAAACGGTTTTGAAAAC
65 ATAATATATG-GATTTGAAAACAGTTTTGAAAAC
110935 ATATATATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
99 1 0.01
100 45 0.55
101 4 0.05
102 32 0.39
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (102 bp):
GTTTTGAAAACATTTTTGAAAACCTATATAATATATGATTTTGAAAACATTTTTGAAAACATTAA
TAATATATGGATTTGAAAACAGTTTTGAAAACGCATG
Found at i:110975 original size:23 final size:24
Alignment explanation
Indices: 110925--110991 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 24
110915 TTTAAAACGG
110925 TTTTGAAAACATATATATATATAATT
1 TTTTGAAAACA-ATATATATATAA-T
*
110951 TTTTGAAAAC-ATAT-TATATAGT
1 TTTTGAAAACAATATATATATAAT
* *
110973 TTTTGAAAATAAAATATAT
1 TTTTGAAAACAATATATAT
110992 GTTATATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.28
23 9 0.25
24 7 0.19
26 10 0.28
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (24 bp):
TTTTGAAAACAATATATATATAAT
Found at i:110986 original size:27 final size:26
Alignment explanation
Indices: 110956--111012 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
110946 TAATTTTTTG
110956 AAAACATA-TTATATAGTTTTTGAAAAT
1 AAAACATAGTTATATAGTTTTT--AAAT
*
110983 AAAATATATGTTATATAGTTTTTAAAT
1 AAAACATA-GTTATATAGTTTTTAAAT
111010 AAA
1 AAA
111013 TATATAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 14 0.52
29 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (26 bp):
AAAACATAGTTATATAGTTTTTAAAT
Found at i:110996 original size:29 final size:28
Alignment explanation
Indices: 110964--111018 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
110954 TGAAAACATA
110964 TTATATAGTTTTTGAAAATAAA-ATATATG
1 TTATATAGTTTTT--AAATAAATATATATG
110993 TTATATAGTTTTTAAATAAATATATA
1 TTATATAGTTTTTAAATAAATATATA
111019 ATACATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 7 0.28
28 5 0.20
29 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (28 bp):
TTATATAGTTTTTAAATAAATATATATG
Found at i:111037 original size:3 final size:3
Alignment explanation
Indices: 111024--111071 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
111014 ATATAATACA
* * * *
111024 TAT TA- TAT TAT TAT TTT TAT TAT TTT TAT TAT TTT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111071 T
1 T
111072 TTTTTATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (3 bp):
TAT
Found at i:111043 original size:9 final size:9
Alignment explanation
Indices: 111031--111079 Score: 91
Period size: 9 Copynumber: 5.6 Consensus size: 9
111021 ACATATTATA
111031 TTATTATTT
1 TTATTATTT
111040 TTATTATTT
1 TTATTATTT
111049 TTATTATTT
1 TTATTATTT
111058 TTATTATTT
1 TTATTATTT
111067 TTATT-TTT
1 TTATTATTT
111075 TTATT
1 TTATT
111080 TTGTTCATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 8 0.20
9 32 0.80
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTATTT
Found at i:111067 original size:8 final size:8
Alignment explanation
Indices: 111024--111106 Score: 64
Period size: 9 Copynumber: 10.1 Consensus size: 8
111014 ATATAATACA
*
111024 TATTATAT
1 TATTATTT
111032 TATTATTTT
1 TATTA-TTT
111041 TATTATTTT
1 TATTA-TTT
111050 TATTATTTT
1 TATTA-TTT
111059 TATTA-TT
1 TATTATTT
111066 T-TTATTT
1 TATTATTT
*
111073 TTTTATTT
1 TATTATTT
*
111081 TGTTCA-TT
1 TATT-ATTT
111089 TATTTATTT
1 TA-TTATTT
*
111098 AATTATTT
1 TATTATTT
111106 T
1 T
111107 TGGTTTTAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
6 3 0.05
7 6 0.09
8 24 0.38
9 31 0.48
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (8 bp):
TATTATTT
Found at i:111091 original size:27 final size:27
Alignment explanation
Indices: 111038--111098 Score: 51
Period size: 26 Copynumber: 2.3 Consensus size: 27
111028 ATATTATTAT
*
111038 TTTTA-TTATTTTTATTATTTTTA-TTA
1 TTTTATTTA-TTTTATTATTTTCATTTA
111064 TTTTTATTT-TTTTATT-TTGTTCATTTA
1 -TTTTATTTATTTTATTATT-TTCATTTA
111091 -TTTATTTA
1 TTTTATTTA
111099 ATTATTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
25 9 0.31
26 10 0.34
27 8 0.28
28 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTATTTATTTTATTATTTTCATTTA
Found at i:112227 original size:15 final size:15
Alignment explanation
Indices: 112207--112260 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
112197 ATCCTTGACT
112207 TTTAATTATTTTCAA
1 TTTAATTATTTTCAA
* *
112222 TTTAATCATTTTTAA
1 TTTAATTATTTTCAA
* *
112237 TTTGA--ATTTTC-T
1 TTTAATTATTTTCAA
112249 TTTAATTATTTT
1 TTTAATTATTTT
112261 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
12 4 0.13
13 5 0.16
14 5 0.16
15 17 0.55
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTAATTATTTTCAA
Found at i:112276 original size:9 final size:9
Alignment explanation
Indices: 112264--112293 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
112254 TTATTTTATT
112264 TTTTTAATA
1 TTTTTAATA
112273 TTTTTAATA
1 TTTTTAATA
*
112282 TTTTTATTA
1 TTTTTAATA
112291 TTT
1 TTT
112294 AACTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTAATA
Found at i:117554 original size:3 final size:3
Alignment explanation
Indices: 117546--117638 Score: 141
Period size: 3 Copynumber: 31.0 Consensus size: 3
117536 TTTAATTTAT
* * *
117546 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
117594 TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
117639 AATATATATA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:117584 original size:27 final size:27
Alignment explanation
Indices: 117546--117646 Score: 159
Period size: 27 Copynumber: 3.7 Consensus size: 27
117536 TTTAATTTAT
117546 TTATTATTATTATAATTATAATTATTA
1 TTATTATTATTATAATTATAATTATTA
*
117573 TTATTATTATTATAATTATTATTATTA
1 TTATTATTATTATAATTATAATTATTA
* *
117600 TTATTATTATTATAAATATTATTATTA
1 TTATTATTATTATAATTATAATTATTA
117627 TTATTATTATTA-AATATATA
1 TTATTATTATTATAAT-TATA
117647 TATATATATA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 2 0.03
27 67 0.97
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTATTATTATTATAATTATAATTATTA
Found at i:117647 original size:2 final size:2
Alignment explanation
Indices: 117640--117668 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117630 TTATTATTAA
117640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117669 AATAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119010 original size:13 final size:13
Alignment explanation
Indices: 118994--119033 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
118984 ATATAATAAA
118994 TAAATATTTATTT
1 TAAATATTTATTT
*
119007 TAAATAAATTATTT
1 TAAAT-ATTTATTT
119021 T-AATATTTATTT
1 TAAATATTTATTT
119033 T
1 T
119034 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:121382 original size:14 final size:14
Alignment explanation
Indices: 121344--121397 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
121334 ATTTTAAATA
*
121344 ATTTACATTTACA-
1 ATTTACATTTGCAT
121357 ATTTTACATTTGCAT
1 A-TTTACATTTGCAT
121372 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
121387 CTTTGCATTTG
1 ATTTACATTTG
121398 TATTACACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 1 0.03
14 21 0.60
15 13 0.37
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:121386 original size:15 final size:15
Alignment explanation
Indices: 121359--121397 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
121349 CATTTACAAT
121359 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
121373 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
121388 TTTGCATTTG
1 TTTACATTTG
121398 TATTACACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:124696 original size:9 final size:9
Alignment explanation
Indices: 124669--124713 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
124659 CTCATCCAGC
124669 AAAGAAAGAA
1 AAAGAAA-AA
*
124679 GAA-AAAAA
1 AAAGAAAAA
124687 AAAGAAAAA
1 AAAGAAAAA
124696 AAAGAAAAA
1 AAAGAAAAA
124705 AAAGAAAAA
1 AAAGAAAAA
124714 GGAAAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 4 0.12
9 26 0.81
10 2 0.06
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:124706 original size:23 final size:24
Alignment explanation
Indices: 124673--124719 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
124663 TCCAGCAAAG
*
124673 AAAGAAGAAAAA-AAAAAGAAAAA
1 AAAGAAAAAAAAGAAAAAGAAAAA
*
124696 AAAGAAAAAAAAGAAAAAGGAAAA
1 AAAGAAAAAAAAGAAAAAGAAAAA
124720 TTGAATCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAGAAAAAAAAGAAAAAGAAAAA
Found at i:124817 original size:25 final size:25
Alignment explanation
Indices: 124789--124866 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
124779 AGAAGAGCAA
124789 GAAATGCTGGAGATATGAGAAAATG
1 GAAATGCTGGAGATATGAGAAAATG
* ** *
124814 GAAATGAATACAAGA-A-GAG-CAA--
1 GAAATG-CT-GGAGATATGAGAAAATG
124836 GAAATGCTGGAGATATGAGAAAATG
1 GAAATGCTGGAGATATGAGAAAATG
124861 GAAATG
1 GAAATG
124867 AATCCAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 9 0.24
23 2 0.05
24 2 0.05
25 15 0.39
26 2 0.05
27 3 0.08
ACGTcount: A:0.49, C:0.05, G:0.29, T:0.17
Consensus pattern (25 bp):
GAAATGCTGGAGATATGAGAAAATG
Found at i:124844 original size:47 final size:47
Alignment explanation
Indices: 124776--124869 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
124766 TCAAGTACAA
124776 ACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAAT
1 ACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAAT
124823 ACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAAT
1 ACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAAT
124870 CCAAAATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.51, C:0.06, G:0.28, T:0.15
Consensus pattern (47 bp):
ACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAAT
Found at i:127303 original size:114 final size:113
Alignment explanation
Indices: 127019--127359 Score: 556
Period size: 114 Copynumber: 3.0 Consensus size: 113
127009 AAGTGCCATG
127019 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
127084 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGA-TTAAAAGATGAATT
127134 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
127199 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTCAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATT-AAAAGATGAATT
* * *
127248 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTTATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * *
127313 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGG-ATTAAAAGATGAA
127360 CTGCATGATC
Statistics
Matches: 214, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
113 2 0.01
114 126 0.59
115 86 0.40
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (113 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTAAAAGATGAATT
Found at i:129815 original size:22 final size:22
Alignment explanation
Indices: 129784--129838 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
129774 ATCTACACTC
*
129784 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
129806 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
129828 TTCAAAGATGA
1 TTCAAAGATGA
129839 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:130421 original size:96 final size:94
Alignment explanation
Indices: 130238--130421 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 94
130228 TTAGCAAAGA
* * *
130238 TTTAAATCCATCATTCAATGGATCAGCATTGCCAGGTTGAGTTCATAATGAGAAGAACTCGTCTG
1 TTTAAATCCATCATTCAATGGATCAACAATGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCTG
130303 AAGAAGGAAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAA--TGTTCAACCTTTTG
* ** *
130334 TTTAAATTCATCATTTGATGGATTAACAATGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCAT
1 TTTAAATCCATCATTCAATGGATCAACAATGCCAGGTAGAGTTCATAATGAGAAGAACTCG---T
130399 CTGAAGAAGGAAGAAGAA-GTTCA
63 CTGAAGAAGGAAGAAGAATGTTCA
130422 TAATGAGAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
96 59 0.76
99 19 0.24
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (94 bp):
TTTAAATCCATCATTCAATGGATCAACAATGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCTG
AAGAAGGAAGAAGAATGTTCAACCTTTTG
Found at i:130559 original size:113 final size:112
Alignment explanation
Indices: 130311--131243 Score: 1207
Period size: 113 Copynumber: 8.2 Consensus size: 112
130301 TGAAGAAGGA
* * *
130311 AGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACAATGCCAGGTAGAGT
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTGATGGATTAACATTGCCAGGTAAAGT
130376 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
65 TCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * *
130427 AGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACATTTCCAGAG-AAA
1 AGAAGAATTTGTTCAACCTTTT-GCTTAAATTCATCATT-GATGGATTAACATTGCCAG-GTAAA
130490 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
63 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
130540 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTGATGGATTAACATTGCCAGGTAAAGT
*
130605 TCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
65 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
130653 AGAAGAATTTGTTCAACCTTTTGCTCAAA-TCTATTACTTGATGGATTATCTTTTCCAGAG-AAA
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTC-ATCA-TTGATGGATTAACATTGCCAG-GTAAA
130716 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
63 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *
130766 AGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAATTAATGGATTAACATTGCCAGGTACAGT
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTCATC-ATTGATGGATTAACATTGCCAGGTAAAGT
*
130831 TCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
65 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
130879 AGAAGAATTTGTTCAACCTTTTGCTCAAA-TCTATTACTTGATGGATTATCTTTTCCAGAG-AAA
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTC-ATCA-TTGATGGATTAACATTGCCAG-GTAAA
130942 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
63 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * *
130992 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTGATGGATTAACATTGCCAGGTAAAGT
131057 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
65 TCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * ** * * *
131108 AGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTGATGGAGCAGCTTTTCCA-G-AGAAG
1 AGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCA-TTGATGGATTAACATTGCCAGGTA-AAG
*
131171 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATA
64 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* ** *
131220 AGATGAGCTTGTTCAACTTTTTGC
1 AGAAGAATTTGTTCAACCTTTTGC
131244 ATAATTCCAT
Statistics
Matches: 723, Mismatches: 74, Indels: 44
0.86 0.09 0.05
Matches are distributed among these distances:
112 58 0.08
113 483 0.67
114 15 0.02
115 27 0.04
116 139 0.19
117 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (112 bp):
AGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCATTGATGGATTAACATTGCCAGGTAAAGTT
CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:130732 original size:226 final size:228
Alignment explanation
Indices: 130311--131242 Score: 1493
Period size: 226 Copynumber: 4.1 Consensus size: 228
130301 TGAAGAAGGA
* * * *
130311 AGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACAATGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
* *
130376 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
66 TCATAATAAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** * *
130441 AA-CTTTTCGCTTGAAT-TCATCA-TTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGA
130 AACCTTTT-GCTCAAATCT-ATCACTT-GATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGA
130503 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
192 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
130540 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
130605 TCATAATAAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
66 TCATAATAAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* *
130668 ACCTTTTGCTCAAATCTATTACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
131 ACCTTTTGCTCAAATCTATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
130733 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * *
130766 AGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAATTAATGGATTAACATTGCCAGGTACAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
130831 TCATAATAAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
66 TCATAATAAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* *
130894 ACCTTTTGCTCAAATCTATTACTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
131 ACCTTTTGCTCAAATCTATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
130959 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *
130992 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
* *
131057 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTT
66 TCATAATAAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
131122 AACCTTTTGCTCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGA
130 AACCTTTTGCTCAAATCTATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGA
*
131186 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATA
195 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
131220 AGATGAGCTTGTTCAACTTTTTG
1 AGAAGAACTTGTTCAACTTTTTG
131243 CATAATTCCA
Statistics
Matches: 662, Mismatches: 35, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
226 420 0.63
227 9 0.01
228 73 0.11
229 160 0.24
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (228 bp):
AGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTACAGT
TCATAATAAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAAATCTATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:131362 original size:84 final size:82
Alignment explanation
Indices: 131208--131391 Score: 201
Period size: 84 Copynumber: 2.2 Consensus size: 82
131198 AAGGAAGAAG
* * * * * * * *
131208 AAGTTCATAATAAGATGAGCTTGTTCAACTTTTTGCATAATTCCATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCCATCACAGAAGGAAATAGATCA
*
131273 GCATCA-CCCTTTCTAG-AGA
66 ACATCATCCC---C-AGCAGA
* * * *
131292 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCCATCACAGAAGGAAATAGATCA
131357 ACATCATCCCCAGCAGA
66 ACATCATCCCCAGCAGA
131374 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
131392 ACTCATCTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 2 0.02
82 22 0.26
84 58 0.68
85 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCCATCACAGAAGGAAATAGATCA
ACATCATCCCCAGCAGA
Found at i:131570 original size:3 final size:3
Alignment explanation
Indices: 131562--131648 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
131552 ATTAATTTAT
* * * * * * * *
131562 TTA TTA TTA TTA TAA TTA TAA TAA TAA TAA TTA TTA TAA TAA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
131610 TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
131649 AATATATATA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:131580 original size:15 final size:15
Alignment explanation
Indices: 131562--131648 Score: 93
Period size: 15 Copynumber: 5.8 Consensus size: 15
131552 ATTAATTTAT
131562 TTATTATTATTATAA
1 TTATTATTATTATAA
* * *
131577 TTATAATAATAATAA
1 TTATTATTATTATAA
* *
131592 TTATTATAATAATAA
1 TTATTATTATTATAA
*
131607 TTATTATTATTATTA
1 TTATTATTATTATAA
* * *
131622 TTATAAATATTATTA
1 TTATTATTATTATAA
131637 TTATTATTATTA
1 TTATTATTATTA
131649 AATATATATA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 61 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTATTATTATAA
Found at i:131657 original size:2 final size:2
Alignment explanation
Indices: 131650--131680 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
131640 TTATTATTAA
131650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131681 ATAAAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131797 original size:16 final size:16
Alignment explanation
Indices: 131776--131817 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
131766 GCCCCATGCG
131776 CAGCCGCCTCTGCCTC
1 CAGCCGCCTCTGCCTC
*
131792 CAGCCGTCTCTGCCTC
1 CAGCCGCCTCTGCCTC
131808 CAGCCGCCTC
1 CAGCCGCCTC
131818 AGCCAACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.55, G:0.19, T:0.19
Consensus pattern (16 bp):
CAGCCGCCTCTGCCTC
Found at i:133029 original size:13 final size:13
Alignment explanation
Indices: 133013--133052 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
133003 ATATAATAAA
133013 TAAATATTTATTT
1 TAAATATTTATTT
*
133026 TAAATAAATTATTT
1 TAAAT-ATTTATTT
133040 T-AATATTTATTT
1 TAAATATTTATTT
133052 T
1 T
133053 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:137441 original size:73 final size:70
Alignment explanation
Indices: 137287--137476 Score: 283
Period size: 73 Copynumber: 2.6 Consensus size: 70
137277 TTGAACATAA
*
137287 TTTTGAAAACGTATAATATATGGTTTT-AATAACATTTTTGAAAACATATAATATATGGTTTTGA
1 TTTTGAAAACGTATAATATATGGTTTTGAA-AACATTTTTGAAAACATATAATATATGGTCTTGA
137351 AAACAT
65 AAACAT
*
137357 GTTTGAAAACGTATAATATATGGTTTTGAAAACATTTTTTGAAAACTTATATAATATATGGTCTT
1 TTTTGAAAACGTATAATATATGGTTTTGAAAACA-TTTTTGAAAAC--ATATAATATATGGTCTT
137422 GAAAACAT
63 GAAAACAT
* *
137430 TTTTGAAAACGTATATAATATATGATTTTGAAAGCATTTTTGAAAAC
1 TTTTGAAAACG--TATAATATATGGTTTTGAAAACATTTTTGAAAAC
137477 GTATGGTTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
70 30 0.28
71 13 0.12
73 34 0.31
74 11 0.10
75 21 0.19
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.41
Consensus pattern (70 bp):
TTTTGAAAACGTATAATATATGGTTTTGAAAACATTTTTGAAAACATATAATATATGGTCTTGAA
AACAT
Found at i:137478 original size:37 final size:37
Alignment explanation
Indices: 137263--137480 Score: 281
Period size: 35 Copynumber: 6.1 Consensus size: 37
137253 ATATATAATC
* * * *
137263 ATATAATATA-GTTTTTGAACATAATTTTGAAAACG-
1 ATATAATATATGGTTTTGAAAACATTTTTGAAAACGT
137298 -TATAATATATGGTTTT-AATAACATTTTTGAAAAC--
1 ATATAATATATGGTTTTGAA-AACATTTTTGAAAACGT
*
137332 ATATAATATATGGTTTTGAAAACATGTTTGAAAACG-
1 ATATAATATATGGTTTTGAAAACATTTTTGAAAACGT
*
137368 -TATAATATATGGTTTTGAAAACATTTTTTGAAAACTT
1 ATATAATATATGGTTTTGAAAACA-TTTTTGAAAACGT
*
137405 ATATAATATATGGTCTTGAAAACATTTTTGAAAACGT
1 ATATAATATATGGTTTTGAAAACATTTTTGAAAACGT
* *
137442 ATATAATATATGATTTTGAAAGCATTTTTGAAAACGT
1 ATATAATATATGGTTTTGAAAACATTTTTGAAAACGT
137479 AT
1 AT
137481 GGTTTTGAAA
Statistics
Matches: 163, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
34 11 0.07
35 70 0.43
36 12 0.07
37 48 0.29
38 22 0.13
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (37 bp):
ATATAATATATGGTTTTGAAAACATTTTTGAAAACGT
Found at i:137539 original size:88 final size:90
Alignment explanation
Indices: 137393--137565 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 90
137383 TGAAAACATT
*
137393 TTTTGAAAACTTATATAATATATGGTCTTGAAAACATTTTTGAAAACGTATATAATATAT-GATT
1 TTTTGAAAACGTATATAATATA-GGTCTTGAAAACATTTTTGAAAACGTATATAATATATAGATT
137457 TTGAAAGCATTTTTGAAAACGTATGG
65 TTGAAAGCATTTTTGAAAACGTATGG
* * *
137483 TTTTGAAAACGTATATAATATA-GTTTTGAAAATATTTTTGAAAACATGTA-AT-ATATATAGTT
1 TTTTGAAAACGTATATAATATAGGTCTTGAAAACATTTTTGAAAAC--GTATATAATATATAGAT
* **
137545 TTTTAAAGGGTTTTTGAAAAC
64 TTTGAAAGCATTTTTGAAAAC
137566 ATATATAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
88 27 0.37
89 22 0.30
90 24 0.33
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (90 bp):
TTTTGAAAACGTATATAATATAGGTCTTGAAAACATTTTTGAAAACGTATATAATATATAGATTT
TGAAAGCATTTTTGAAAACGTATGG
Found at i:137541 original size:90 final size:88
Alignment explanation
Indices: 137393--137565 Score: 224
Period size: 90 Copynumber: 1.9 Consensus size: 88
137383 TGAAAACATT
*
137393 TTTTGAAAACTTATATAATATATGGTCTTGAAAACATTTTTGAAAACGTATATAATATATGATTT
1 TTTTGAAAACGTATATAATATA-GGTCTTGAAAACATTTTTGAAAACGTATATAATATA-GATTT
137458 TGAAAGCATTTTTGAAAACGTATGG
64 TGAAAGCATTTTTGAAAACGTATGG
* * *
137483 TTTTGAAAACGTATATAATATA-GTTTTGAAAATATTTTTGAAAACATGTA-ATATATATAGTTT
1 TTTTGAAAACGTATATAATATAGGTCTTGAAAACATTTTTGAAAAC--GTATATA-ATATAGATT
* **
137546 TTTAAAGGGTTTTTGAAAAC
63 TTGAAAGCATTTTTGAAAAC
137566 ATATATAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
88 21 0.29
89 23 0.32
90 29 0.40
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (88 bp):
TTTTGAAAACGTATATAATATAGGTCTTGAAAACATTTTTGAAAACGTATATAATATAGATTTTG
AAAGCATTTTTGAAAACGTATGG
Found at i:139832 original size:23 final size:23
Alignment explanation
Indices: 139779--139836 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
139769 CAATCGTAAA
* *
139779 TGGCACTACAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
139802 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
139825 TGGCACTTCGGT
1 TGGCACTTCGGT
139837 ACATTTATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:139847 original size:23 final size:23
Alignment explanation
Indices: 139792--139847 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
139782 CACTACAGTG
* *
139792 CAATTCTACGCGGCACTTCGGTG
1 CAATTATACGCGGCACTTCGGTA
* *
139815 CAATTCTACGTGGCACTTCGGTA
1 CAATTATACGCGGCACTTCGGTA
*
139838 CATTTATACG
1 CAATTATACG
139848 AGCCGTGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (23 bp):
CAATTATACGCGGCACTTCGGTA
Found at i:146737 original size:23 final size:23
Alignment explanation
Indices: 146711--146785 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
146701 TCTTATATGG
*
146711 CACTACGGTGCAATTCTACGCGA
1 CACTTCGGTGCAATTCTACGCGA
* * *
146734 CACTTCGGTGCACTTCTATGCGG
1 CACTTCGGTGCAATTCTACGCGA
* *
146757 CACTTCGGTGCAATTCTACGTGG
1 CACTTCGGTGCAATTCTACGCGA
146780 CACTTC
1 CACTTC
146786 AGTGTATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.28
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACGCGA
Found at i:146799 original size:23 final size:23
Alignment explanation
Indices: 146708--146799 Score: 58
Period size: 23 Copynumber: 4.0 Consensus size: 23
146698 CAATCTTATA
* * *
146708 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTATACG
* * * * * *
146731 CGACACTTCGGTGCACTTCTATG
1 TGGCACTTCAGTGCAATTATACG
* * *
146754 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTATACG
* *
146777 TGGCACTTCAGTGTATTTATACG
1 TGGCACTTCAGTGCAATTATACG
146800 AGCTGTAGTG
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (23 bp):
TGGCACTTCAGTGCAATTATACG
Found at i:148241 original size:15 final size:15
Alignment explanation
Indices: 148221--148275 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
148211 AACCTTGACT
148221 TTTAATTCTTTTCAA
1 TTTAATTCTTTTCAA
* *
148236 TTTAATCCTTTTTAA
1 TTTAATTCTTTTCAA
*
148251 TTTGAA-T-TTTTC-T
1 TTT-AATTCTTTTCAA
148264 TTTAATTCTTTT
1 TTTAATTCTTTT
148276 ACTTATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 2 0.06
13 4 0.12
14 8 0.25
15 16 0.50
16 2 0.06
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTAATTCTTTTCAA
Done.