Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005794.1 Hibiscus syriacus cultivar Beakdansim tig00013582_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: 201817
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:12096 original size:22 final size:22
Alignment explanation
Indices: 12071--12113 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12061 ACTCAACATA
12071 TAAAAATAAATTAGTTAAAAAT
1 TAAAAATAAATTAGTTAAAAAT
* *
12093 TAAAGATAAATTATTTAAAAA
1 TAAAAATAAATTAGTTAAAAA
12114 AAAGGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAAAATAAATTAGTTAAAAAT
Found at i:12121 original size:21 final size:21
Alignment explanation
Indices: 12070--12123 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
12060 GACTCAACAT
*
12070 ATAAAAATAAATTAGTTAAAA
1 ATAAAGATAAATTAGTTAAAA
*
12091 ATTAAAGATAAATTATTTAAAA
1 A-TAAAGATAAATTAGTTAAAA
12113 A-AAAGGATAAA
1 ATAAA-GATAAA
12124 CTATACTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 7 0.24
22 19 0.66
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
ATAAAGATAAATTAGTTAAAA
Found at i:13026 original size:23 final size:24
Alignment explanation
Indices: 13000--13044 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
12990 ATGATAACAT
*
13000 TTTATTATTAT-ATACTTCATTTC
1 TTTATTATTATCATAATTCATTTC
13023 TTTATTATTATCATAATTCATT
1 TTTATTATTATCATAATTCATT
13045 GTTTTGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTATTATTATCATAATTCATTTC
Found at i:13514 original size:21 final size:21
Alignment explanation
Indices: 13476--13515 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13466 GGTTACTGAT
** *
13476 ATAATTTATTTTTTATTTTAA
1 ATAATTTACATTTAATTTTAA
13497 ATAATTTACATTTAATTTT
1 ATAATTTACATTTAATTTT
13516 GTAACTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATAATTTACATTTAATTTTAA
Found at i:13582 original size:19 final size:19
Alignment explanation
Indices: 13558--13597 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13548 AAAATTTTAG
*
13558 ATATTTATAAATTAAATTA
1 ATATTTATAAATGAAATTA
13577 ATATTTATAAATGAAATTA
1 ATATTTATAAATGAAATTA
13596 AT
1 AT
13598 GGTAATCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATATTTATAAATGAAATTA
Found at i:25889 original size:12 final size:12
Alignment explanation
Indices: 25872--25929 Score: 73
Period size: 12 Copynumber: 4.8 Consensus size: 12
25862 GAGGAGGAGG
25872 AGAAGAATGAGA
1 AGAAGAATGAGA
25884 AGAAGAATGAGA
1 AGAAGAATGAGA
25896 AGAAGAA-GAGGA
1 AGAAGAATGA-GA
* *
25908 AGGAGAAGGAGA
1 AGAAGAATGAGA
*
25920 AGGAGAATGA
1 AGAAGAATGA
25930 AGAGTTAGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
11 2 0.05
12 38 0.90
13 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (12 bp):
AGAAGAATGAGA
Found at i:25896 original size:18 final size:17
Alignment explanation
Indices: 25875--25929 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
25865 GAGGAGGAGA
25875 AGAATGAGAAGAAGAATG
1 AGAA-GAGAAGAAGAATG
* *
25893 AGAAGAAGAAGAGGAAGG
1 AGAAG-AGAAGAAGAATG
*
25911 AGAAGGAGAAGGAGAATG
1 AGAA-GAGAAGAAGAATG
25929 A
1 A
25930 AGAGTTAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (17 bp):
AGAAGAGAAGAAGAATG
Found at i:26825 original size:20 final size:20
Alignment explanation
Indices: 26800--26852 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
26790 GATTTTACAG
**
26800 AATCGCAACGCGAATTTGA-A
1 AATCGCAACGCGAACAT-ATA
*
26820 AATCGCAACGTGAACATATA
1 AATCGCAACGCGAACATATA
26840 AATCGCAACGCGA
1 AATCGCAACGCGA
26853 TTCTGACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:26904 original size:81 final size:81
Alignment explanation
Indices: 26880--27058 Score: 272
Period size: 81 Copynumber: 2.2 Consensus size: 81
26870 AGTATCCGTA
*
26880 AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAAAT
1 AAATCGCAACGCGTATCTGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAAAT
26945 CGCAACGAGAATACAT
66 CGCAACGAGAATACAT
* * * *
26961 AAATCGCAACGCGTATCTGTAAATCGCAATGAGAATACGT-AAATCGCAATGCGTATCCGTAAAT
1 AAATCGCAACGCGTATCTGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAAAT
* *
27025 CGCAACGACAATACGT
66 CGCAACGAGAATACAT
27041 AAAATCGCAACGCG-ATCT
1 -AAATCGCAACGCGTATCT
27059 CCGGTATCGC
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 41 0.46
81 49 0.54
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (81 bp):
AAATCGCAACGCGTATCTGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAAAT
CGCAACGAGAATACAT
Found at i:26905 original size:20 final size:20
Alignment explanation
Indices: 26861--27054 Score: 176
Period size: 20 Copynumber: 9.6 Consensus size: 20
26851 GATTCTGACT
* *
26861 ATCGCAATGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
26882 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
26902 ATCGCAACGAC-AATACATAAA
1 ATCGCAACG-CGTATCCGT-AA
26923 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
26943 ATCGCAACGAGAATACATAA
1 ATCGCAACGCGTATCCGTAA
*
26963 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
26983 ATCGCAATGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
27003 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
27023 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
27044 ATCGCAACGCG
1 ATCGCAACGCG
27055 ATCTCCGGTA
Statistics
Matches: 139, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
20 95 0.68
21 44 0.32
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:26906 original size:41 final size:41
Alignment explanation
Indices: 26861--27054 Score: 284
Period size: 40 Copynumber: 4.8 Consensus size: 41
26851 GATTCTGACT
* * *
26861 ATCGCAATGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
26902 ATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
26943 ATCGCAACGAGAATACAT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
26983 ATCGCAATGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
27023 ATCGCAACGACAATACGTAAAATCGCAACGCG
1 ATCGCAACGAGAATACGTAAAATCGCAACGCG
27055 ATCTCCGGTA
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 73 0.53
41 65 0.47
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:26995 original size:40 final size:41
Alignment explanation
Indices: 26800--27058 Score: 280
Period size: 40 Copynumber: 6.4 Consensus size: 41
26790 GATTTTACAG
* * * *
26800 AATCGCAACGCGAATTTGAAAATCGCAACGTG-A-ACATATA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATA-A
* * * * *
26840 AATCGCAACGCG-ATTCTG-ACTATCGCAATGAGTATCCGTAA
1 AATCGCAACGCGTA-TCTGTA-AATCGCAACGAGAATACATAA
* *
26881 AATCGCAACGCGTATCCGTAAATCGCAACGACAATACATAA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATAA
*
26922 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACAT-A
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATAA
* *
26962 AATCGCAACGCGTATCTGTAAATCGCAATGAGAATACGT-A
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATAA
* * * *
27002 AATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATAA
27043 AATCGCAACGCG-ATCT
1 AATCGCAACGCGTATCT
27059 CCGGTATCGC
Statistics
Matches: 189, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 100 0.53
41 82 0.43
42 5 0.03
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (41 bp):
AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATAA
Found at i:27094 original size:121 final size:121
Alignment explanation
Indices: 26820--27054 Score: 350
Period size: 121 Copynumber: 1.9 Consensus size: 121
26810 CGAATTTGAA
* * * * * *
26820 AATCGCAACGTGAACATATAAATCGCAACGCG-ATTCTG-ACTATCGCAATGAGTATCCGTAAAA
1 AATCGCAACGAGAATACATAAATCGCAACGCGTA-TCTGTA-AATCGCAATGAGAATACGTAAAA
26883 TCGCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGT
64 TCGCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGT
26941 AAATCGCAACGAGAATACATAAATCGCAACGCGTATCTGTAAATCGCAATGAGAATACGT-AAAT
1 -AATCGCAACGAGAATACATAAATCGCAACGCGTATCTGTAAATCGCAATGAGAATACGTAAAAT
* *
27005 CGCAATGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCG
65 CGCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCG
27055 ATCTCCGGTA
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
121 52 0.50
122 49 0.48
123 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (121 bp):
AATCGCAACGAGAATACATAAATCGCAACGCGTATCTGTAAATCGCAATGAGAATACGTAAAATC
GCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGT
Found at i:27172 original size:20 final size:20
Alignment explanation
Indices: 27147--27194 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
27137 TTTTCCTATT
27147 TCGCAACGCGAATAC-GTAAA
1 TCGCAACGCGAAT-CTGTAAA
*
27167 TCGCAATGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
27187 TCGCAACG
1 TCGCAACG
27195 AGATTCTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:27202 original size:20 final size:20
Alignment explanation
Indices: 27147--27202 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
27137 TTTTCCTATT
*
27147 TCGCAACGCGAATAC-GTAAA
1 TCGCAACGAGAAT-CTGTAAA
* *
27167 TCGCAATGCGAATCTGTAAA
1 TCGCAACGAGAATCTGTAAA
*
27187 TCGCAACGAGATTCTG
1 TCGCAACGAGAATCTG
27203 ACTATCGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAACGAGAATCTGTAAA
Found at i:28105 original size:24 final size:24
Alignment explanation
Indices: 28048--28107 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
28038 TAGTCAGTAT
28048 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
28072 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
28096 TCGAATTTTGAT
1 TCGAAATTTGAT
28108 GATTTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:30122 original size:20 final size:20
Alignment explanation
Indices: 30099--30154 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
30089 TGAAATGAAA
30099 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
30119 ATCGCAATGCG-GA-AATGACT
1 ATCGCAA--CGAGAGAATGACT
30139 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
30155 CGAAACGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:30180 original size:19 final size:19
Alignment explanation
Indices: 30090--30235 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
30080 TCTTTTGATT
*
30090 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
** *
30109 GAGAATGACTATCGCAATGC
1 GA-AATGAAAATCGCAACGC
**
30129 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
30147 G--A-GAGAATCGAAACGC
1 GAAATGAAAATCGCAACGC
30163 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
30182 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
30199 G--A-GAGAATAGCAACGC
1 GAAATGAAAATCGCAACGC
*
30215 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
30234 GA
1 GA
30236 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 43 0.43
20 27 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:30195 original size:52 final size:52
Alignment explanation
Indices: 30119--30235 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 52
30109 GAGAATGACT
** *
30119 ATCGCAATGCGGAAATGACTATCGCAACGAGAGAATCGAAACGCGAAATGAAA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATAGAAACGCGAAATGAAA
* *
30172 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATAGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATAGAAACGCGAAATGAAA
30224 ATCGCAATGCGA
1 ATCGCAATGCGA
30236 TTTTGGTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 49 0.84
53 9 0.16
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATAGAAACGCGAAATGAAA
Found at i:30316 original size:40 final size:40
Alignment explanation
Indices: 30258--30349 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
30248 GTTGCGATTA
**
30258 TCTCGTTGCGATTTTCA-TTTCGCGTTGCGATTTTCATTT
1 TCTCGTTGCGATAGTCATTTTCGCGTTGCGATTTTCATTT
* *
30297 CTCTCGTTGCGATAGTCATTTTTGTGTTGCGATTTTCATTT
1 -TCTCGTTGCGATAGTCATTTTCGCGTTGCGATTTTCATTT
30338 TCAT-GTTGCGAT
1 TC-TCGTTGCGAT
30350 TTTAAGTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 25 0.54
41 21 0.46
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.50
Consensus pattern (40 bp):
TCTCGTTGCGATAGTCATTTTCGCGTTGCGATTTTCATTT
Found at i:30350 original size:20 final size:20
Alignment explanation
Indices: 30262--30352 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
30252 CGATTATCTC
*
30262 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
30281 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCGT
** *
30301 CGTTGCGATAGTCATTTTTGT
1 -GTTGCGATTTTCATTTTCGT
*
30322 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
30342 GTTGCGATTTT
1 GTTGCGATTTT
30353 AAGTTTAGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 13 0.22
20 30 0.50
21 17 0.28
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.52
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:30936 original size:20 final size:20
Alignment explanation
Indices: 30911--31126 Score: 218
Period size: 20 Copynumber: 10.6 Consensus size: 20
30901 CTTTAAAAAT
*
30911 CGCGTTGCGATTTACGGATG
1 CGCGTTGCGATTTACGGATA
*
30931 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
30951 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
30972 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
30992 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
31012 CGCGTTGCGATTTATGTATT
1 CGCGTTGCGATTTACGGATA
*
31032 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
31052 CGTGTTGCGATTTTACGTATTT
1 CGCGTTGCGA-TTTACGGA-TA
*
31074 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
31095 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
31116 CTCGTTGCGAT
1 CGCGTTGCGAT
31127 AGTCAGAATC
Statistics
Matches: 158, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
20 97 0.61
21 45 0.28
22 9 0.06
23 7 0.04
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:30997 original size:40 final size:41
Alignment explanation
Indices: 30913--31126 Score: 315
Period size: 40 Copynumber: 5.2 Consensus size: 41
30903 TTAAAAATCG
* *
30913 CGTTGCGATTTACGGATGCGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
30954 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
30994 CGTTGCGATTTACAGATACGCGTTGCGA-TTTATGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
31034 CGTTGCGATTTACGGATACGTGTTGCGATTTTACGTATTTTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTA--TTCT
* *
31077 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
31118 CGTTGCGAT
1 CGTTGCGAT
31127 AGTCAGAATC
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 74 0.47
41 44 0.28
43 38 0.24
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:31158 original size:20 final size:20
Alignment explanation
Indices: 31135--31187 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
31125 ATAGTCAGAA
*
31135 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
31155 TCGCGTAGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
31175 TCGCGTTGCGATT
1 TCGCGTTGCGATT
31188 CTGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:31286 original size:20 final size:19
Alignment explanation
Indices: 31237--31290 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
31227 ATTCTTCATA
31237 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
31256 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
31277 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
31291 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:33845 original size:46 final size:47
Alignment explanation
Indices: 33778--33866 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 47
33768 GGTGCTCAAT
* * *
33778 TAATGCACTGTTTTAGCTACTTTTT-AGAGGTCATTTATTGCAACAA
1 TAATGCACTGTTTCAACTACTTTTTCAGAGGTCATTTAATGCAACAA
* *
33824 TAATGCATTGTTTCAACTACTTTTTCAGAGGTTATTTAATGCA
1 TAATGCACTGTTTCAACTACTTTTTCAGAGGTCATTTAATGCA
33867 TAATTCAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 22 0.59
47 15 0.41
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (47 bp):
TAATGCACTGTTTCAACTACTTTTTCAGAGGTCATTTAATGCAACAA
Found at i:34023 original size:277 final size:276
Alignment explanation
Indices: 33512--34153 Score: 971
Period size: 277 Copynumber: 2.3 Consensus size: 276
33502 ATCTTCAATC
* * * * *
33512 TTTCAGTTACATTTTAGAGGTCATTTATTGCAACAATAATGCACTGTTTCAAATACTTTTCAGAT
1 TTTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCATTGTTTCAACTACTTTTCAGAG
* * ** * * * *
33577 GTCATTTAATGCATGATTCAAGCATTTGATCAGAAAACGGGTGAAAATAGTGTTGCATTATCATC
66 GTTATTTAATGCATAATTCAAGCAACTCATCAGAAAACGAGTGAAAATAATGATGCATTATCATC
* * *
33642 TTCTGCAACTTCTCAATGATATATCAACTTAAATCAGAAAACTTTTTAGTGTTGAATTGTCACTT
131 TTCTGCAACTTCTCAATGATATATCAACTTAAATCAGAAAACTTTTCAATGTTGAATTGTCACAT
* * * *
33707 CAAATCATAAAAAACGTGTATTTTAACCAGGCCAAATTATTCACTGCTTCAACTACTTTTCGGTG
196 CAAATCATAAAAAACGTATATTTTAACCAAGACAAATTATTCACTACTTCAACTACTTTTCGGTG
33772 CTCAATTAATGCACTG
261 CTCAATTAATGCACTG
*
33788 TTTTAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCATTGTTTCAACTACTTTTTCAGA
1 TTTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCATTGTTTCAACTAC-TTTTCAGA
* *
33853 GGTTATTTAATGCATAATTCAAGCAACTCTTCAGAAAACGAGTGAAAATAATGATGTATTATCAT
65 GGTTATTTAATGCATAATTCAAGCAACTCATCAGAAAACGAGTGAAAATAATGATGCATTATCAT
* *
33918 CTTCTGCAACTTCTCAGTGATATATCAACTTAAATTAGAAAACTTTTCAATGTTGAATTGTCACA
130 CTTCTGCAACTTCTCAATGATATATCAACTTAAATCAGAAAACTTTTCAATGTTGAATTGTCACA
* * *
33983 TCAAATCATAAAAAACGTATATTTTAACCAAGATAAATTATTCACTACTTTAGCTACTTTTCGGT
195 TCAAATCATAAAAAACGTATATTTTAACCAAGACAAATTATTCACTACTTCAACTACTTTTCGGT
34048 GCTCAATTAATGCACTG
260 GCTCAATTAATGCACTG
* *
34065 TTTCAGCTACTTTTCAGAGGTCATTTATTG-AAGCAATAATGCATTGTTTCAGCTACTTTTCAGA
1 TTTCAGCTACTTTTTAGAGGTCATTTATTGCAA-CAATAATGCATTGTTTCAACTACTTTTCAGA
* *
34129 GGTTATCTAATGCAAAATTCAAGCA
65 GGTTATTTAATGCATAATTCAAGCA
34154 GCTATTCAAA
Statistics
Matches: 331, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
276 84 0.25
277 247 0.75
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (276 bp):
TTTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCATTGTTTCAACTACTTTTCAGAG
GTTATTTAATGCATAATTCAAGCAACTCATCAGAAAACGAGTGAAAATAATGATGCATTATCATC
TTCTGCAACTTCTCAATGATATATCAACTTAAATCAGAAAACTTTTCAATGTTGAATTGTCACAT
CAAATCATAAAAAACGTATATTTTAACCAAGACAAATTATTCACTACTTCAACTACTTTTCGGTG
CTCAATTAATGCACTG
Found at i:39186 original size:19 final size:19
Alignment explanation
Indices: 39162--39200 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
39152 CAGATACAGT
*
39162 CAAACAAGAGTATCAAATA
1 CAAACAAGAGAATCAAATA
* *
39181 CAAACATGTGAATCAAATA
1 CAAACAAGAGAATCAAATA
39200 C
1 C
39201 GGACACTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (19 bp):
CAAACAAGAGAATCAAATA
Found at i:39386 original size:19 final size:19
Alignment explanation
Indices: 39359--39395 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39349 AAAACAAAAC
*
39359 AAATCAAATCCAAATAAAT
1 AAATAAAATCCAAATAAAT
*
39378 AAATAAAATTCAAATAAA
1 AAATAAAATCCAAATAAA
39396 ATAGTATCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAATCCAAATAAAT
Found at i:40286 original size:29 final size:29
Alignment explanation
Indices: 40244--40435 Score: 190
Period size: 29 Copynumber: 6.5 Consensus size: 29
40234 GGGGGTAGGT
40244 CGCCATGCACGCCCGGCGACCTACCAGGC
1 CGCCATGCACGCCCGGCGACCTACCAGGC
40273 CGCCATGCACGCCCGGCGACCTACCAGGC
1 CGCCATGCACGCCCGGCGACCTACCAGGC
*** *
40302 CGCCATGCACGCCCGGCGACCTGGTAGGT
1 CGCCATGCACGCCCGGCGACCTACCAGGC
* * *
40331 CGCCATGCATGCCCTGCGACCTACCAGCC
1 CGCCATGCACGCCCGGCGACCTACCAGGC
** *
40360 AACGCCCATGCACGCCCAACGACCT-CCATGC
1 --CG-CCATGCACGCCCGGCGACCTACCAGGC
** *
40391 ACGCCCATGCACGCCCAACGACCT-CCATGAC
1 -CG-CCATGCACGCCCGGCGACCTACCA-GGC
*
40422 CTCCATGCACGCCC
1 CGCCATGCACGCCC
40436 ATGCACGCCC
Statistics
Matches: 140, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
29 88 0.63
30 28 0.20
31 7 0.05
32 17 0.12
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.10
Consensus pattern (29 bp):
CGCCATGCACGCCCGGCGACCTACCAGGC
Found at i:40376 original size:10 final size:10
Alignment explanation
Indices: 40361--40506 Score: 69
Period size: 10 Copynumber: 14.7 Consensus size: 10
40351 CTACCAGCCA
40361 ACGCCCATGC
1 ACGCCCATGC
*
40371 ACGCCCA-AC
1 ACGCCCATGC
40380 GAC-CTCCATGC
1 -ACGC-CCATGC
40391 ACGCCCATGC
1 ACGCCCATGC
*
40401 ACGCCCA-AC
1 ACGCCCATGC
40410 GAC-CTCCATG-
1 -ACGC-CCATGC
40420 AC-CTCCATGC
1 ACGC-CCATGC
40430 ACGCCCATGC
1 ACGCCCATGC
*
40440 ACGCCCA-AC
1 ACGCCCATGC
40449 GAC-CTCCATGC
1 -ACGC-CCATGC
* *
40460 ATGCCCAGGC
1 ACGCCCATGC
* *
40470 ACGTCCA-AC
1 ACGCCCATGC
40479 GAC-CTCCATGC
1 -ACGC-CCATGC
*
40490 ACGGCCATGC
1 ACGCCCATGC
40500 ACGCCCA
1 ACGCCCA
40507 ACGACCTCCA
Statistics
Matches: 104, Mismatches: 15, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
9 16 0.15
10 82 0.79
11 6 0.06
ACGTcount: A:0.23, C:0.48, G:0.18, T:0.11
Consensus pattern (10 bp):
ACGCCCATGC
Found at i:40397 original size:30 final size:30
Alignment explanation
Indices: 40361--40526 Score: 215
Period size: 30 Copynumber: 5.2 Consensus size: 30
40351 CTACCAGCCA
40361 ACGCCCATGCACGCCCAACGACCTCCATGC
1 ACGCCCATGCACGCCCAACGACCTCCATGC
40391 ACGCCCATGCACGCCCAACGACCTCCATGACCTCCATGC
1 ACGCCCATGCACGCCC-A--A----C--GACCTCCATGC
40430 ACGCCCATGCACGCCCAACGACCTCCATGC
1 ACGCCCATGCACGCCCAACGACCTCCATGC
* * *
40460 ATGCCCAGGCACGTCCAACGACCTCCATGC
1 ACGCCCATGCACGCCCAACGACCTCCATGC
*
40490 ACGGCCATGCACGCCCAACGACCTCCATGC
1 ACGCCCATGCACGCCCAACGACCTCCATGC
40520 ACGCCCA
1 ACGCCCA
40527 GCTCGCCAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
30 86 0.72
31 1 0.01
32 1 0.01
33 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 27 0.23
ACGTcount: A:0.23, C:0.48, G:0.17, T:0.11
Consensus pattern (30 bp):
ACGCCCATGCACGCCCAACGACCTCCATGC
Found at i:40425 original size:39 final size:39
Alignment explanation
Indices: 40380--40458 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
40370 CACGCCCAAC
40380 GACCTCCATGCACGCCCATGCACGCCCAACGACCTCCAT
1 GACCTCCATGCACGCCCATGCACGCCCAACGACCTCCAT
40419 GACCTCCATGCACGCCCATGCACGCCCAACGACCTCCAT
1 GACCTCCATGCACGCCCATGCACGCCCAACGACCTCCAT
40458 G
1 G
40459 CATGCCCAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.48, G:0.16, T:0.13
Consensus pattern (39 bp):
GACCTCCATGCACGCCCATGCACGCCCAACGACCTCCAT
Found at i:40472 original size:69 final size:70
Alignment explanation
Indices: 40361--40506 Score: 240
Period size: 69 Copynumber: 2.1 Consensus size: 70
40351 CTACCAGCCA
* *
40361 ACGCCCATGCACGCCCAACGACCTCCATGCACGCCCATGCACGCCCAACGACCTCCATG-ACCTC
1 ACGCCCATGCACGCCCAACGACCTCCATGCACGCCCAGGCACGCCCAACGACCTCCATGCACCGC
40425 CATGC
66 CATGC
* * *
40430 ACGCCCATGCACGCCCAACGACCTCCATGCATGCCCAGGCACGTCCAACGACCTCCATGCACGGC
1 ACGCCCATGCACGCCCAACGACCTCCATGCACGCCCAGGCACGCCCAACGACCTCCATGCACCGC
40495 CATGC
66 CATGC
40500 ACGCCCA
1 ACGCCCA
40507 ACGACCTCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
69 56 0.79
70 15 0.21
ACGTcount: A:0.23, C:0.48, G:0.18, T:0.11
Consensus pattern (70 bp):
ACGCCCATGCACGCCCAACGACCTCCATGCACGCCCAGGCACGCCCAACGACCTCCATGCACCGC
CATGC
Found at i:41193 original size:21 final size:21
Alignment explanation
Indices: 41168--41211 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
41158 AATTTAGTTA
41168 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
41189 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
41210 AT
1 AT
41212 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:41225 original size:28 final size:28
Alignment explanation
Indices: 41188--41241 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
41178 TAGTATAAAT
*
41188 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
41216 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
41242 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:41606 original size:5 final size:5
Alignment explanation
Indices: 41596--41623 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
41586 AAGAAACAAT
41596 AAAGG AAAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAA
41624 TGAGCAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:44385 original size:60 final size:59
Alignment explanation
Indices: 44313--44791 Score: 675
Period size: 60 Copynumber: 8.2 Consensus size: 59
44303 TTTATAAGAT
* *
44313 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA--TGA
*
44374 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
44432 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
44492 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
44552 CTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
44611 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
44671 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
44731 TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
44779 TTTAGTAATGATT
1 -TTAGTAATGATT
44792 TGATAGTAAT
Statistics
Matches: 387, Mismatches: 15, Indels: 38
0.88 0.03 0.09
Matches are distributed among these distances:
48 32 0.08
49 4 0.01
52 8 0.02
53 2 0.01
55 1 0.00
56 1 0.00
58 5 0.01
59 64 0.17
60 261 0.67
61 9 0.02
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
Found at i:44419 original size:35 final size:34
Alignment explanation
Indices: 44379--44718 Score: 97
Period size: 29 Copynumber: 11.2 Consensus size: 34
44369 TTTGATAGTA
44379 ATGATTAGTAATAATGAAATTATTATTAATTATGT
1 ATGATTAGTAATAATGAAATTATTATTAATTAT-T
* * * *
44414 ATGATT--TGAT-A-GTAATGA-T-TT-AGTA--
1 ATGATTAGTAATAATGAAATTATTATTAATTATT
*
44439 ATGATTAGTAATAATGAAATTATTATTAATTTTT
1 ATGATTAGTAATAATGAAATTATTATTAATTATT
* * * *
44473 AATGATT--TGAT-A-GTAATGA-T-TT-AGTA--
1 -ATGATTAGTAATAATGAAATTATTATTAATTATT
44499 ATGATTAGTAATAATGAAATTATTATTAATTATGT
1 ATGATTAGTAATAATGAAATTATTATTAATTAT-T
* * * * *
44534 ATGATT--TGAT-A-GTAATGA--CTT-AGTA--
1 ATGATTAGTAATAATGAAATTATTATTAATTATT
44559 ATGATTAGTAATAATGAAATTATTATTAATT-TT
1 ATGATTAGTAATAATGAAATTATTATTAATTATT
* * * *
44592 AATGATT--TGAT-A-GTAATGA-T-TT-AGTA--
1 -ATGATTAGTAATAATGAAATTATTATTAATTATT
44618 ATGATTAGTAATAATGAAATTATTATTAATTATGT
1 ATGATTAGTAATAATGAAATTATTATTAATTAT-T
* * * *
44653 ATGATT--TGAT-A-GTAATGA-T-TT-AGTA--
1 ATGATTAGTAATAATGAAATTATTATTAATTATT
*
44678 ATGATTAGTAATAATGAAATTATTATTAATTTTT
1 ATGATTAGTAATAATGAAATTATTATTAATTATT
44712 AATGATT
1 -ATGATT
44719 TGATAGTAAT
Statistics
Matches: 209, Mismatches: 45, Indels: 102
0.59 0.13 0.29
Matches are distributed among these distances:
25 30 0.14
27 17 0.08
28 18 0.09
29 34 0.16
30 12 0.06
31 31 0.15
32 19 0.09
33 12 0.06
34 6 0.03
35 30 0.14
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (34 bp):
ATGATTAGTAATAATGAAATTATTATTAATTATT
Found at i:44439 original size:11 final size:11
Alignment explanation
Indices: 44423--44510 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 11
44413 TATGATTTGA
44423 TAGTAATGATT
1 TAGTAATGATT
44434 TAGTAATGATT
1 TAGTAATGATT
* *
44445 AGTAATAATGAAAT
1 --TAGTAATG-ATT
* * *
44459 TATTATTAATT
1 TAGTAATGATT
*
44470 T-TTAATGATTT
1 TAGTAATGA-TT
44481 GATAGTAATGATT
1 --TAGTAATGATT
44494 TAGTAATGA-T
1 TAGTAATGATT
44504 TAGTAAT
1 TAGTAAT
44511 AATGAAATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
10 13 0.21
11 25 0.41
12 5 0.08
13 10 0.16
14 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (11 bp):
TAGTAATGATT
Found at i:44447 original size:21 final size:20
Alignment explanation
Indices: 44423--44690 Score: 62
Period size: 21 Copynumber: 13.4 Consensus size: 20
44413 TATGATTTGA
44423 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
44444 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * * *
44462 TATTAATTTTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
44483 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
44504 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
44522 TATTAATTATGTA-TGATTTGA-
1 TAGTAA-TATTTAGT-A-ATGAT
*
44543 TAGTAATGACTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
44564 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
44582 TATTAAT-TTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
44602 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
44623 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * *
44641 TATTAATTATGTA-TGATTTGA-
1 TAGTAA-TATTTAGT-A-ATGAT
44662 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
44683 TAGTAATA
1 TAGTAATA
44691 ATGAAATTAT
Statistics
Matches: 169, Mismatches: 49, Indels: 59
0.61 0.18 0.21
Matches are distributed among these distances:
18 47 0.28
19 9 0.05
20 28 0.17
21 67 0.40
22 18 0.11
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:44461 original size:120 final size:119
Alignment explanation
Indices: 44310--44738 Score: 745
Period size: 120 Copynumber: 3.6 Consensus size: 119
44300 GTATTTATAA
*
44310 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA-
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAA--TGAT
44374 TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
64 TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
* *
44430 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATGA-TT
44495 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
65 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
* *
44550 GACTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATGA-TT
44614 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
65 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
* *
44669 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTA
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATGATTA
44734 GTAAT
66 GTAAT
44739 AATAATTTAT
Statistics
Matches: 301, Mismatches: 5, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
118 3 0.01
119 126 0.42
120 172 0.57
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (119 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATGATTA
GTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
Found at i:44762 original size:21 final size:22
Alignment explanation
Indices: 44738--44807 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
44728 TGATTAGTAA
44738 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
44759 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
44782 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
44806 TA
1 TA
44808 CGACTGGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:44775 original size:14 final size:14
Alignment explanation
Indices: 44759--44806 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
44749 TATTAATATT
*
44759 TAATGATTTGATAT
1 TAATGATTTGATAG
44773 TAATGA-TT--TAG
1 TAATGATTTGATAG
44784 TAATGATTTGATAG
1 TAATGATTTGATAG
44798 TAATGATTT
1 TAATGATTT
44807 ACGACTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:47148 original size:30 final size:31
Alignment explanation
Indices: 47111--47186 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
47101 TTTCCCTTAA
47111 ACAACTAATAAACTATTCTTTAA-TATAAATT
1 ACAACTAATAAACTATT-TTTAATTATAAATT
*
47142 A-AACTAATAAA-TGATTTTTAATTATAATTT
1 ACAACTAATAAACT-ATTTTTAATTATAAATT
* *
47172 ACTACTAAAAAACTA
1 ACAACTAATAAACTA
47187 ATTAACTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 6 0.16
30 21 0.55
31 10 0.26
32 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (31 bp):
ACAACTAATAAACTATTTTTAATTATAAATT
Found at i:47389 original size:21 final size:21
Alignment explanation
Indices: 47365--47404 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
47355 TTTCTATATG
47365 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
47386 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
47405 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:47485 original size:18 final size:18
Alignment explanation
Indices: 47432--47486 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
47422 TTGTTTTACC
*
47432 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
47450 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
47462 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
47479 CTAATTTA
1 CTAATTTA
47487 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:47545 original size:35 final size:37
Alignment explanation
Indices: 47506--47577 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
47496 TCTTTTATAT
47506 AACTT-AA-ACTAATAAACT-ATTTTTTATTATAATAA
1 AACTTAAACACTAATAAACTAATTTTTTA-TATAATAA
47541 AACTTAAACTACTAATAAACTAATTTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTTATATAATA
47578 TAAATTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 5 0.15
36 2 0.06
38 18 0.55
39 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.42
Consensus pattern (37 bp):
AACTTAAACACTAATAAACTAATTTTTTATATAATAA
Found at i:47637 original size:27 final size:29
Alignment explanation
Indices: 47602--47666 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
47592 AAAATATAAC
*
47602 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
47629 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
47657 TTAATTATTT
1 TTAAATATTT
47667 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:47986 original size:12 final size:11
Alignment explanation
Indices: 47955--47990 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
47945 ACGTTCACGG
47955 GCTGCAATAAT
1 GCTGCAATAAT
*
47966 GCAGCAATAAGT
1 GCTGCAATAA-T
47978 GCTGCAATAAT
1 GCTGCAATAAT
47989 GC
1 GC
47991 AGTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (11 bp):
GCTGCAATAAT
Found at i:48223 original size:33 final size:33
Alignment explanation
Indices: 48181--48246 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
48171 AAGCATGGAC
*
48181 TGCATGGTGACCTTTGACGAGCTGGACGTGCAT
1 TGCATGGTGACCTTTGACGAGATGGACGTGCAT
* *
48214 TGCATGGTGACCTTTGGCGAGATGGGCGTGCAT
1 TGCATGGTGACCTTTGACGAGATGGACGTGCAT
48247 GGGCGTGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.17, C:0.20, G:0.36, T:0.27
Consensus pattern (33 bp):
TGCATGGTGACCTTTGACGAGATGGACGTGCAT
Found at i:48250 original size:10 final size:10
Alignment explanation
Indices: 48235--48311 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
48225 CTTTGGCGAG
48235 ATGGGCGTGC
1 ATGGGCGTGC
48245 ATGGGCGTGC
1 ATGGGCGTGC
48255 ATGGGCATGGTGC
1 ATGGGC---GTGC
* **
48268 AT-GGTGACC
1 ATGGGCGTGC
* * *
48277 TTTGGCGAG-
1 ATGGGCGTGC
48286 ATGGGCGTGC
1 ATGGGCGTGC
48296 ATGGGCGTGC
1 ATGGGCGTGC
48306 ATGGGC
1 ATGGGC
48312 ATGGAGGTCG
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
9 9 0.17
10 36 0.68
12 2 0.04
13 6 0.11
ACGTcount: A:0.13, C:0.18, G:0.47, T:0.22
Consensus pattern (10 bp):
ATGGGCGTGC
Found at i:48289 original size:51 final size:51
Alignment explanation
Indices: 48214--48315 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
48204 GGACGTGCAT
48214 TGCATGGTGACCTTTGGCGAGATGGGCGTGCATGGGCGTGCATGGGCATGG
1 TGCATGGTGACCTTTGGCGAGATGGGCGTGCATGGGCGTGCATGGGCATGG
48265 TGCATGGTGACCTTTGGCGAGATGGGCGTGCATGGGCGTGCATGGGCATGG
1 TGCATGGTGACCTTTGGCGAGATGGGCGTGCATGGGCGTGCATGGGCATGG
48316 AGGTCGTTGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.14, C:0.18, G:0.45, T:0.24
Consensus pattern (51 bp):
TGCATGGTGACCTTTGGCGAGATGGGCGTGCATGGGCGTGCATGGGCATGG
Found at i:48366 original size:29 final size:29
Alignment explanation
Indices: 48331--48417 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
48321 GTTGGCTGGT
*
48331 AGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
* ***
48360 AGGTCGCTGGGCGTGCATGGCGACCTGGT
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
*
48389 AGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
48418 CCCCCGGTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.15, C:0.30, G:0.39, T:0.16
Consensus pattern (29 bp):
AGGTCGCAGGGCGTGCATGGCGACCTACC
Found at i:56650 original size:15 final size:15
Alignment explanation
Indices: 56630--56658 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56620 CGCAATTAGG
56630 TAATTTTTAAAAATT
1 TAATTTTTAAAAATT
56645 TAATTTTTAAAAAT
1 TAATTTTTAAAAAT
56659 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTTTAAAAATT
Found at i:57511 original size:85 final size:85
Alignment explanation
Indices: 57329--57524 Score: 252
Period size: 85 Copynumber: 2.3 Consensus size: 85
57319 ATGCCGCAAT
* * * *
57329 AGGTCAAGATCTATAGCGGCGTTTTAGGAACAAACGCCGCAAAAAGTCGAGATCTATAGTAGCGT
1 AGGTCGAGATCTATAGCGACGTTTTTGGAACAAACACCGCAAAAAGTCGAGATCTATAGTAGCGT
57394 CTTTGGAACAAACGCCACAA
66 CTTTGGAACAAACGCCACAA
* * *
57414 AGGTCGAGATCTATAACGACGTTTTTGGAACAAACACCGCAAAAGGTCGAGATCTATA-TCGGCG
1 AGGTCGAGATCTATAGCGACGTTTTTGGAACAAACACCGCAAAAAGTCGAGATCTATAGT-AGCG
* *
57478 TTTTTGGAACAAACGCCGCAAA
65 TCTTTGGAACAAACGCCAC-AA
* * *
57500 ATGTC-ATATCTATAGCGTCGTTTTT
1 AGGTCGAGATCTATAGCGACGTTTTT
57525 TTATACAAAC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 89 0.93
86 6 0.06
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (85 bp):
AGGTCGAGATCTATAGCGACGTTTTTGGAACAAACACCGCAAAAAGTCGAGATCTATAGTAGCGT
CTTTGGAACAAACGCCACAA
Found at i:57524 original size:42 final size:43
Alignment explanation
Indices: 57321--57539 Score: 262
Period size: 43 Copynumber: 5.1 Consensus size: 43
57311 AACAAAAAAT
* * *
57321 GCCGCAATAGGTCAAGATCTATAGCGGCGTTTTAGGAACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAAC
* ** *
57364 GCCGCAAAAAGTCGAGATCTATAGTAGCGTCTTTGGAACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAAC
* * *
57407 GCCAC-AAAGGTCGAGATCTATAACGACGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAAC
* *
57449 ACCGCAAAAGGTCGAGATCTATATCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAAC
* * * **
57492 GCCGCAAAATGTC-ATATCTATAGCGTCGTTTTTTTATACAAAC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-ACAAAC
57535 GCCGC
1 GCCGC
57540 TAATTACCTT
Statistics
Matches: 149, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 52 0.35
43 97 0.65
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (43 bp):
GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:60095 original size:41 final size:41
Alignment explanation
Indices: 60046--60395 Score: 287
Period size: 41 Copynumber: 8.5 Consensus size: 41
60036 TTTAGCGGTA
* * *
60046 TTTGTATAAAAATGCCACTAAAATAAGAGTCAATAGCGGCG
1 TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
* * ** * * *
60087 TTTTTATAAAAAAAAAGCCGTTAAAGTATGAGTCT-TCAGCGGCA
1 TTTGTAT---AAAAACGCCACTAAAATACGAGTCTAT-AGCGGCG
* * * * *
60131 TTTATATAAAAACGCCACTAAAACAAGAGTCAATAGTGGCG
1 TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
* * * * * *
60172 TTTGTATAAAAACACCAATAAAACACGAGTCTTTAGCGACA
1 TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
* **
60213 TTTGTATAAAAACACCACT-AAATCACGAGTCTATAGCTACG
1 TTTGTATAAAAACGCCACTAAAAT-ACGAGTCTATAGCGGCG
* * * *
60254 TTTGTA-AAAAAAGCCACTAAAGTACGAGTCTATAGCGACA
1 TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
* * *
60294 TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAACGGCG
1 TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
* * **
60335 TTTGTATAAAAACACCACTAAAATGCTCGTCTATAGCGGCG
1 TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
* *
60376 TTT-T-TAAAAACACCGCTAAA
1 TTTGTATAAAAACGCCACTAAA
60396 GTACAACTCT
Statistics
Matches: 252, Mismatches: 49, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.06
40 35 0.14
41 169 0.67
42 1 0.00
43 1 0.00
44 31 0.12
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (41 bp):
TTTGTATAAAAACGCCACTAAAATACGAGTCTATAGCGGCG
Found at i:60367 original size:122 final size:120
Alignment explanation
Indices: 60172--60399 Score: 278
Period size: 122 Copynumber: 1.9 Consensus size: 120
60162 AATAGTGGCG
* * *
60172 TTTGTATAAAAACACCAATAAAACACGAGTCTTTAGCGACATTTGTATAAAAACACCACTAAATC
1 TTTGTATAAAAACACCAATAAAACACAAGTCTATAACGACATTTGTATAAAAACACCACTAAATC
*
60237 ACGAGTCTATAGCTACGTTTGTAAAAAAAGCCACTAAAGTACGAGTCTATAGCGACA
66 AC-AGTCTATAGCGACGTTTGTAAAAAAA-CCACTAAAGTACGAGTCTATAGCGACA
* * ** * *
60294 TTTGTATAAAAACGCCACTAAAGTACAAGTCTATAACGGCGTTTGTATAAAAACACCACTAAAAT
1 TTTGTATAAAAACACCAATAAAACACAAGTCTATAACGACATTTGTATAAAAACACCACT-AAAT
* * * * *
60359 GCTC-GTCTATAGCGGCGTTTTTAAAAACACCGCTAAAGTAC
65 -CACAGTCTATAGCGACGTTTGTAAAAAAACCACTAAAGTAC
60400 AACTCTGTCA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
121 11 0.12
122 72 0.81
123 4 0.04
124 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (120 bp):
TTTGTATAAAAACACCAATAAAACACAAGTCTATAACGACATTTGTATAAAAACACCACTAAATC
ACAGTCTATAGCGACGTTTGTAAAAAAACCACTAAAGTACGAGTCTATAGCGACA
Found at i:60426 original size:80 final size:83
Alignment explanation
Indices: 60169--60435 Score: 237
Period size: 81 Copynumber: 3.3 Consensus size: 83
60159 GTCAATAGTG
* ** ** *
60169 GCGTTTGTAT-AAAAACACCAATAAAACACGAGTCTTTAGCGACATTTGTATAAAAACACCACTA
1 GCGTTTGTATAAAAAACACCACTAAAATGCTCGTCTATAGCGACATTTGTATAAAAACACCACTA
* * *
60233 AA-TCACGAGTCTATAGCTA
66 AAGT-ACAACTCTATAAC-A
* * * ** *
60252 -CGTTTGTA-AAAAAA-GCCACTAAAGTACGAGTCTATAGCGACATTTGTATAAAAACGCCACTA
1 GCGTTTGTATAAAAAACACCACTAAAATGCTCGTCTATAGCGACATTTGTATAAAAACACCACTA
* *
60314 AAGTACAAGTCTATAACG
66 AAGTACAACTCTATAACA
* * *
60332 GCGTTTGTAT-AAAAACACCACTAAAATGCTCGTCTATAGCGGCGTTT-T-TAAAAACACCGCTA
1 GCGTTTGTATAAAAAACACCACTAAAATGCTCGTCTATAGCGACATTTGTATAAAAACACCACTA
* *
60394 AAGTACAACTCTGTCACA
66 AAGTACAACTCTATAACA
*
60412 GCGTTTGT-TGAAAAAACGCCACTA
1 GCGTTTGTAT-AAAAAACACCACTA
60436 TATGTGAACA
Statistics
Matches: 154, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
79 1 0.01
80 34 0.22
81 81 0.53
82 38 0.25
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (83 bp):
GCGTTTGTATAAAAAACACCACTAAAATGCTCGTCTATAGCGACATTTGTATAAAAACACCACTA
AAGTACAACTCTATAACA
Found at i:60435 original size:163 final size:163
Alignment explanation
Indices: 60096--60405 Score: 371
Period size: 163 Copynumber: 1.9 Consensus size: 163
60086 GTTTTTATAA
** * *
60096 AAAAAAAGCCGTTAAAGTATGAGTCTTCAGCGGCATTTATATAAAAACGCCACTAAAACAAGAGT
1 AAAAAAAGCCACTAAAGTACGAGTCTTCAGCGACATTTATATAAAAACGCCACTAAAACAAGAGT
** *
60161 CAATAGTGGCGTTTGTATAAAAACACCAATAAAACACGAGTCTTTAGCGACATTTGTATAAAAAC
66 CAATAACGGCGTTTGTATAAAAACACCAATAAAACACGAGTCTATAGCGACATTTGTATAAAAAC
* *
60226 ACCACTAAATCACGAGTCTATAGCTACGTTTGT
131 ACCACTAAATCACAACTCTATAGCTACGTTTGT
*
60259 AAAAAAAGCCACTAAAGTACGAGTCTAT-AGCGACATTTGTATAAAAACGCCACTAAAGTAC-A-
1 AAAAAAAGCCACTAAAGTACGAGTCT-TCAGCGACATTTATATAAAAACGCCACTAAA--ACAAG
* * ** ** * *
60321 AGTCTATAACGGCGTTTGTATAAAAACACCACTAAAATGCTCGTCTATAGCGGCGTTT-T-TAAA
63 AGTCAATAACGGCGTTTGTATAAAAACACCAATAAAACACGAGTCTATAGCGACATTTGTATAAA
*
60384 AACACCGCTAAAGT-ACAACTCT
128 AACACCACTAAA-TCACAACTCT
60406 GTCACAGCGT
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
161 21 0.17
162 2 0.02
163 97 0.78
164 2 0.02
165 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (163 bp):
AAAAAAAGCCACTAAAGTACGAGTCTTCAGCGACATTTATATAAAAACGCCACTAAAACAAGAGT
CAATAACGGCGTTTGTATAAAAACACCAATAAAACACGAGTCTATAGCGACATTTGTATAAAAAC
ACCACTAAATCACAACTCTATAGCTACGTTTGT
Found at i:62982 original size:26 final size:26
Alignment explanation
Indices: 62918--62983 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
62908 ATCAGGCTCG
*
62918 TTGTAATCGGGCATGTGTGCCTTGCT
1 TTGTAATCGGGCCTGTGTGCCTTGCT
62944 TTGTAATCGGGCCTGTGTGCCTTGCT
1 TTGTAATCGGGCCTGTGTGCCTTGCT
*
62970 TTGTAACCGGGCCT
1 TTGTAATCGGGCCT
62984 TCGGGCTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.11, C:0.23, G:0.30, T:0.36
Consensus pattern (26 bp):
TTGTAATCGGGCCTGTGTGCCTTGCT
Found at i:67086 original size:17 final size:18
Alignment explanation
Indices: 67047--67084 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
67037 TTATTTTTTG
67047 ATTTAGTTATATAATTAT
1 ATTTAGTTATATAATTAT
*
67065 ATTTA-TTATTTAA-TAT
1 ATTTAGTTATATAATTAT
67081 ATTT
1 ATTT
67085 TACCTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTAGTTATATAATTAT
Found at i:73544 original size:20 final size:20
Alignment explanation
Indices: 73482--73531 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
73472 ATGAAAAATA
73482 AGATTTATCTAATTGATATG
1 AGATTTATCTAATTGATATG
73502 AGATTTATCTAATTGATATG
1 AGATTTATCTAATTGATATG
73522 AGATTTATCT
1 AGATTTATCT
73532 CATTAATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (20 bp):
AGATTTATCTAATTGATATG
Found at i:73882 original size:16 final size:16
Alignment explanation
Indices: 73857--73887 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73847 CAGTGAATGC
*
73857 TAATATTATTATTTTG
1 TAATAATATTATTTTG
73873 TAATAATATTATTTT
1 TAATAATATTATTTT
73888 CTAACAAGAA
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:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATAATATTATTTTG
Found at i:75288 original size:16 final size:16
Alignment explanation
Indices: 75267--75309 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
75257 AATTAAGAGA
75267 TGAATGATTCAAATGC
1 TGAATGATTCAAATGC
*
75283 TGAATGATTCAAATGT
1 TGAATGATTCAAATGC
75299 TGAATGATTCA
1 TGAATGATTCA
75310 GAGGCTCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (16 bp):
TGAATGATTCAAATGC
Found at i:81070 original size:23 final size:25
Alignment explanation
Indices: 81018--81070 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 25
81008 AAATTAATCA
81018 AATAATATATTAATATGATTAAAAT
1 AATAATATATTAATATGATTAAAAT
*
81043 AATAATA-ATT-AT-TGATTTAAAT
1 AATAATATATTAATATGATTAAAAT
81065 ATATAA
1 A-ATAA
81071 CAATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 10 0.38
23 6 0.23
24 3 0.12
25 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
AATAATATATTAATATGATTAAAAT
Found at i:82282 original size:3 final size:3
Alignment explanation
Indices: 82264--82335 Score: 99
Period size: 3 Copynumber: 23.0 Consensus size: 3
82254 TTTGGGCCTG
* *
82264 TAA TATA TAA TAAA TAA TAA TAT TAA TAA CAA TAA TAA TAA TAAA TAA
1 TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
82312 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
82336 ATATATAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
3 53 0.85
4 9 0.15
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:82304 original size:28 final size:29
Alignment explanation
Indices: 82265--82343 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 29
82255 TTGGGCCTGT
*
82265 AATATATAATAAATAATAATATTAATAACAA
1 AATA-ATAATAAATAATAATAATAATAAC-A
*
82296 TAATAATAATAAATAATAATAATAATAA-T
1 -AATAATAATAAATAATAATAATAATAACA
82325 AATAATAATAAATATATAA
1 AATAATAATAAATA-ATAA
82344 ATAAAATGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 14 0.32
29 4 0.09
31 22 0.50
32 4 0.09
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (29 bp):
AATAATAATAAATAATAATAATAATAACA
Found at i:82308 original size:31 final size:31
Alignment explanation
Indices: 82264--82335 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
82254 TTTGGGCCTG
*
82264 TAATATATAATAAATAATAATATTAATAACAA
1 TAATA-ATAATAAATAATAATAATAATAACAA
*
82296 TAATAATAATAAATAATAATAATAATAATAA
1 TAATAATAATAAATAATAATAATAATAACAA
82327 TAATAATAA
1 TAATAATAA
82336 ATATATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 33 0.87
32 5 0.13
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (31 bp):
TAATAATAATAAATAATAATAATAATAACAA
Found at i:82345 original size:8 final size:7
Alignment explanation
Indices: 82264--82347 Score: 75
Period size: 7 Copynumber: 11.4 Consensus size: 7
82254 TTTGGGCCTG
*
82264 TAATATA
1 TAATAAA
82271 TAATAAA
1 TAATAAA
82278 TAATAATA
1 TAATAA-A
82286 TTAATAACAA
1 -TAAT-A-AA
82296 TAAT-AA
1 TAATAAA
82302 TAATAAA
1 TAATAAA
82309 TAAT-AA
1 TAATAAA
82315 TAAT-AA
1 TAATAAA
82321 TAATAATAA
1 TAAT-A-AA
82330 TAATAAA
1 TAATAAA
82337 TATATAAA
1 TA-ATAAA
82345 TAA
1 TAA
82348 AATGGGTAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
6 18 0.27
7 23 0.34
8 9 0.13
9 14 0.21
10 2 0.03
11 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:82607 original size:17 final size:17
Alignment explanation
Indices: 82585--82643 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
82575 TTGAACAAGC
82585 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
*
82602 TCTTCTTC-TTCAGATG-AGT
1 TCTTC-TCATT--G-TGAACT
82621 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
82638 TCTTCT
1 TCTTCT
82644 TCTTCAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 4 0.12
19 10 0.29
20 2 0.06
ACGTcount: A:0.15, C:0.24, G:0.12, T:0.49
Consensus pattern (17 bp):
TCTTCTCATTGTGAACT
Found at i:82625 original size:36 final size:36
Alignment explanation
Indices: 82585--82668 Score: 168
Period size: 36 Copynumber: 2.3 Consensus size: 36
82575 TTGAACAAGC
82585 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
82621 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
82657 TCTTCTCATTGT
1 TCTTCTCATTGT
82669 CAATCCTTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.49
Consensus pattern (36 bp):
TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
Found at i:82645 original size:33 final size:34
Alignment explanation
Indices: 82585--82678 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 34
82575 TTGAACAAGC
82585 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTGTGAA--TCTTCTTCTTCAGATGAGT
82621 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTGTGAA--TCTTCTTCTTCAGATGAGT
*
82657 TCTTCTCATTGTCAATCCTTCT
1 TCTTCTCATTGTGAAT-CTTCT
82679 GGAAATGATG
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
34 1 0.02
35 5 0.09
36 50 0.89
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (34 bp):
TCTTCTCATTGTGAATCTTCTTCTTCAGATGAGT
Found at i:82844 original size:113 final size:113
Alignment explanation
Indices: 82618--83372 Score: 814
Period size: 113 Copynumber: 6.5 Consensus size: 113
82608 TCTTCAGATG
* * * *
82618 AGTTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTGTCAA--TCCTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-T
* * * *
82677 CTGGAAATGATGATCCATCGAGTGATGAATTCGAGCAAAA-GTTGAACA
65 CTGGTAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACA
* * * ** *
82725 AATTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
82790 TGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACA
66 TGGTAATGTTGATCCATCGAATGATGAATTCAAGC-AAAAGGTTGAACA
* *
82838 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * * * **
82903 TGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACA
66 TGGTAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACA
* * *
82951 AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTATCATTATGAACTTTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTCT
* * ** * *
83016 CTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGAT-AGAGTCATGCAAAAGGTTGAACA
65 CT-G----G-TAATGTTGATCCA--T-C--GAATGATGA-ATTCAAGCAAAAGGTTGAACA
83076 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * ** * *
83141 TGGAAAAGTTGATGTTGATCTATCTCCTTCTATGAT-AGAGTCATGCAAAAGGTTGAACA
66 T-G----G-TAATGTTGATCCA--T-C--GAATGATGA-ATTCAAGCAAAAGGTTGAACA
83200 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
83265 TGGCAATGTTGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACA
66 TGGTAATGTTGATCCATCGAATGATGAATTCAAGC-AAAAGGTTGAACA
83313 AGTTCTTCTCATTATGAACTTCTTCTT-CTCTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCT-TCTTCAGATGAGTTCTTCTCATTATGAACT
83373 CTAACTGACA
Statistics
Matches: 571, Mismatches: 53, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
107 15 0.03
110 6 0.01
111 27 0.05
112 38 0.07
113 239 0.42
114 11 0.02
115 2 0.00
116 1 0.00
118 10 0.02
119 2 0.00
120 8 0.01
122 1 0.00
123 2 0.00
124 131 0.23
125 78 0.14
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGTAATGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACA
Found at i:83201 original size:124 final size:124
Alignment explanation
Indices: 82936--83372 Score: 659
Period size: 124 Copynumber: 3.6 Consensus size: 124
82926 ATGGATTTGA
* * *
82936 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTATC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
83001 ATTATGAACTTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAT
66 ATTATGAAC-TTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAT
83061 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
83126 ATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAT
66 ATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAT
83185 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * ** * *
83250 ATTATGAACTTTCTCTGG--CA----ATGTTGATCCA--T-C--GAATGAT-GAATTCAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGATAG-AGTCAT
83298 GCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTCTCTTCAGATGAGTTCTTC
1 GC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT-TCTTCAGATGAGTTCTTC
83361 TCATTATGAACT
64 TCATTATGAACT
83373 CTAACTGACA
Statistics
Matches: 300, Mismatches: 9, Indels: 18
0.92 0.03 0.06
Matches are distributed among these distances:
112 3 0.01
113 76 0.25
114 4 0.01
115 1 0.00
116 1 0.00
118 10 0.03
122 1 0.00
124 133 0.44
125 71 0.24
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (124 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAT
Found at i:83257 original size:362 final size:350
Alignment explanation
Indices: 82711--83372 Score: 936
Period size: 362 Copynumber: 1.9 Consensus size: 350
82701 ATGAATTCGA
* *
82711 GCAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
82776 TTATGAACTCGCCCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGT
66 TTATGAACTCGCCCTGGTAATGTTGATCCATCCAATGATGAAGTCAAGCGAAAAGTTGAACAAGT
* *
82841 TCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* ** *
82906 AAAAGCTGATCCATCAAATGATGGATTTGAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAT
196 AAAAGCTGATCCATCAAATGATGAATTCAAGCGAAAA-GTTGAACAAATTCTTCTCATTATGAAC
82970 TTCTTCTTC-CTTCTTCAGATGAGTTCTTATCATTATGAACTTTTCTCTGGAAAAGTTGATGTTG
260 TTCTTCTTCTC-TCTTCAGATGAGTTCTTATCATTATGAACTTTTCTCTGGAAAAGTTGATGTTG
83034 ATCTATCTCCTTCTATGATAGAGTCAT
324 ATCTATCTCCTTCTATGATAGAGTCAT
*
83061 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * * *
83126 ATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATGAT-AGAGTCATGC-AA
65 ATTATGAACTCGCCCT-G----G-TAATGTTGATCCA--T-C--CAATGATGA-AGTCAAGCGAA
83189 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
118 AA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * *
83254 TGAACTTTCTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCT
182 TGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCGAAAAGTTGAACAAATTCT
*
83319 TCTCATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTCTTCTCATTATGAACT
247 TCTCATTATGAACTTCTTCTTCTCTCTTCAGATGAGTTCTTATCATTATGAACT
83373 CTAACTGACA
Statistics
Matches: 272, Mismatches: 24, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
350 6 0.02
351 68 0.25
352 1 0.00
356 1 0.00
357 11 0.04
359 1 0.00
360 1 0.00
361 5 0.02
362 173 0.64
363 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (350 bp):
GCAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGCCCTGGTAATGTTGATCCATCCAATGATGAAGTCAAGCGAAAAGTTGAACAAGT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAATGATGAATTCAAGCGAAAAGTTGAACAAATTCTTCTCATTATGAACT
TCTTCTTCTCTCTTCAGATGAGTTCTTATCATTATGAACTTTTCTCTGGAAAAGTTGATGTTGAT
CTATCTCCTTCTATGATAGAGTCAT
Found at i:83835 original size:22 final size:22
Alignment explanation
Indices: 83809--83863 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
83799 GATAAAGCTT
*
83809 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
83831 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
83853 TCATCTTTGAA
1 TCATCTTTGAA
83864 GAGTGTAGAT
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:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:86763 original size:114 final size:114
Alignment explanation
Indices: 86430--86769 Score: 538
Period size: 113 Copynumber: 3.0 Consensus size: 114
86420 GATCATGCAG
* * * * * * *
86430 TTCATCTTTCAATTCTAATGATTGGTTCTGTGGTTCCTACCGAACTAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
86495 ACATTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
86544 TTCATCTTTCAAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTT-AAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
86609 AATACTTCCAGAAGATGCTATTGGG-CTCCTTATTTCTACTATGAGCAAA
65 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * * *
86658 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATATCAAACCAGATCAAATAACTCAAAGA
1 TTCATCTTTAAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
86723 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
86770 CATGGCACTT
Statistics
Matches: 209, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
113 75 0.36
114 63 0.30
115 71 0.34
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTAAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:88997 original size:6 final size:6
Alignment explanation
Indices: 88986--89043 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
88976 TGATTCAATT
* * *
88986 TTTTTC TTTTTC TTTTT- TGTTTT- TTTTTC TATTTC TTTTCC TCTCTT-
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC T-TTTTC
89033 TTTTTC TTTTT
1 TTTTTC TTTTT
89044 TCCTTTCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.19
6 32 0.76
7 2 0.05
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:89010 original size:23 final size:24
Alignment explanation
Indices: 88984--89043 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
88974 CTTGATTCAA
* * *
88984 TTTTTTTCTTTTTCTTTT-TTGTT
1 TTTTTTTCTTTTTCTTTTCCTCTC
*
89007 TTTTTTTCTATTTCTTTTCCTCTC
1 TTTTTTTCTTTTTCTTTTCCTCTC
89031 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
89044 TCCTTTCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTTTTCTTTTTCTTTTCCTCTC
Found at i:89063 original size:27 final size:26
Alignment explanation
Indices: 89033--89086 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 26
89023 TTCCTCTCTT
89033 TTTTTCTTTTTTCCTTTCTTTGCTGGA
1 TTTTTCTTTTTT-CTTTCTTTGCTGGA
89060 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
89086 T
1 T
89087 GAGTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.04, C:0.17, G:0.11, T:0.69
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:92411 original size:14 final size:14
Alignment explanation
Indices: 92377--92430 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
92367 CATAAAAATA
* *
92377 CAAATGCAAAGATG
1 CAAATGTAAATATG
92391 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
92406 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
92420 TAAATGTAAAT
1 CAAATGTAAAT
92431 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:92600 original size:29 final size:26
Alignment explanation
Indices: 92547--92601 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 26
92537 GATGTAAGTT
*
92547 TAAAAATGTAAATGTAAATACAAATG
1 TAAAAATGTAAATGAAAATACAAATG
92573 TAAAAATGTACCAATGCAAAATACAAATG
1 TAAAAATGTA--AATG-AAAATACAAATG
92602 CATGTATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
28 4 0.16
29 11 0.44
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (26 bp):
TAAAAATGTAAATGAAAATACAAATG
Found at i:95652 original size:12 final size:12
Alignment explanation
Indices: 95637--95661 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95627 TGTGGTTTGC
95637 TTTTTGTTTTTT
1 TTTTTGTTTTTT
95649 TTTTTGTTTTTT
1 TTTTTGTTTTTT
95661 T
1 T
95662 GTTCTCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:96077 original size:3 final size:3
Alignment explanation
Indices: 96059--96117 Score: 82
Period size: 3 Copynumber: 19.0 Consensus size: 3
96049 TTTGGGCCTG
* *
96059 TAA TATA TAA TAAA TAA TAA TAA TAA TAA CAA CAA TAA TAA TAA TAA
1 TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96106 TAA TAA TAA TAA
1 TAA TAA TAA TAA
96118 ATATATAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:96127 original size:8 final size:7
Alignment explanation
Indices: 96059--96129 Score: 62
Period size: 6 Copynumber: 10.4 Consensus size: 7
96049 TTTGGGCCTG
*
96059 TAATATA
1 TAATAAA
96066 TAATAAA
1 TAATAAA
96073 TAAT-AA
1 TAATAAA
96079 TAAT-AA
1 TAATAAA
*
96085 TAACAACAA
1 TAA-TA-AA
96094 TAAT-AA
1 TAATAAA
96100 TAAT-AA
1 TAATAAA
96106 TAAT-AA
1 TAATAAA
96112 TAATAAA
1 TAATAAA
96119 TATATAAA
1 TA-ATAAA
96127 TAA
1 TAA
96130 AATGGGTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
6 29 0.52
7 15 0.27
8 7 0.12
9 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:97449 original size:182 final size:182
Alignment explanation
Indices: 97142--97814 Score: 999
Period size: 182 Copynumber: 3.7 Consensus size: 182
97132 TGTCGGTTTA
* * * * *
97142 TGTCGATACTTTATAAAAATATATCGATCCACATCAATATAACAGGTAAAATTATGAAAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
* * * *
97207 ATCACGAAAAGACAAAACCGGTAAAGCGTTACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATA
*
97272 AGTATCGATACTTTGTGAGTTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGATACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
*
97324 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACTAAAA-C
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGA-TAAAACC
* *
97388 GGTCTTGAAAAGATAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATAT
65 GGTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATAT
* * *
97453 AAGTATCGACACTTTGTTAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAG
130 AAGTATCGATACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
97506 TGTCGATACTTTATAACAATGCATCGATCCACAATGATATAACAGGTAAAAATATGATAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
* * * * * * *
97571 GTCTCTAAAGGACAAAACTGGTATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
97636 AGTATCGATACTTTGCGAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAG
131 AGTATCGATACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
97688 TATCGATACTTTAT-AAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
* * * *
97752 GTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTGGATACTTTAATA
66 GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
97815 AGTACGCGTA
Statistics
Matches: 438, Mismatches: 51, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
181 102 0.23
182 332 0.76
183 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGATACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:100248 original size:21 final size:21
Alignment explanation
Indices: 100224--100267 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
100214 AAGACAATCA
100224 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
100245 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
100266 AG
1 AG
100268 GCATAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:100339 original size:33 final size:33
Alignment explanation
Indices: 100302--100368 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
100292 AAATAGATGG
*
100302 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
100335 AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
100368 A
1 A
100369 TTAAGATGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.46, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
Found at i:100573 original size:18 final size:18
Alignment explanation
Indices: 100550--100588 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100540 GAAAAATTAT
100550 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
* *
100568 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAAGAGGGAG
100586 GAA
1 GAA
100589 ATGAGGAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:101877 original size:200 final size:200
Alignment explanation
Indices: 101525--102683 Score: 1470
Period size: 200 Copynumber: 5.8 Consensus size: 200
101515 GTAAGAATAT
* * *
101525 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * * *
101590 AGTAATTTTGTAAAATAACCGATATAAATATACCAGTTTTATGTGAGAATAGGTTTACATA-ATG
66 GGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACA-ACATG
** * * *
101654 TATCGACACTT-TTTAACTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
130 TATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGAAC
*
101718 GCATAAA
194 CCATAAA
* * * * *
101725 GTGTCGAAACATTTAGAAAAAGTATCAATCCTAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * ** * **
101790 GGTAAATTTACAATGTAATAGGTATAACTATATTGGTTTTATGAGAGAATAGGTATACATA-ATG
66 GGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACA-ACATG
* *
101854 TATCGACACTTCTGGAATTTGTGTCGATACTATTTGTCCAGAAGGAATGCCCAAAAGGGT-ACAC
130 TATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGA-AC
101918 CCATAAA
194 CCATAAA
* *
101925 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
101990 GG-AAATTTTTCAATGTAACCAGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATG
66 GGTAAA-TTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACATG
* * * *
102054 TATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAAAAGGTTACAC
130 TATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGA-AC
102119 CCATAAA
194 CCATAAA
* * *
102126 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
102191 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTATACAACATGT
66 GGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACATGT
* * *
102256 ATCGACACTTGTGGAATTTGTGTCGATAC-TTTTGTCCAGAAGGAATGGCCAAACGGGTGTACCC
131 ATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGAACCC
102320 ATAAA
196 ATAAA
* * *
102325 GTGTCGATACATTTTTAAAAAGTGTCGAA-CCCAAAAACATCAAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATC-AATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * * *
102389 AGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTTTACAACATG
65 AGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACATG
* * * * * *
102454 TATTGACACTTGTGGAATTTGTGTCGATACTTTTGGTTCAAAAGGAATGCCTAAACGGGTGCAA-
130 TATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTG-AAC
102518 CCATAAA
194 CCATAAA
* * * * ** *
102525 GTGTCGATACATTTTTAAAAAGTGTCAATCCCAAAAACTTTGAAACTGACAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
102590 GGTAAATTTCCAATGTAACCGATATAAATATACCGATTTTATGAGAGAATAGGTCTTCAACATGT
66 GGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACATGT
** *
102655 ATCGACACTTGTTAAATTTTTGTCGATAC
131 ATCGACACTTGTGGAATTTGTGTCGATAC
102684 CATTTTAAAT
Statistics
Matches: 851, Mismatches: 98, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
199 165 0.19
200 524 0.62
201 160 0.19
202 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACATGT
ATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGAACCC
ATAAA
Found at i:102644 original size:600 final size:601
Alignment explanation
Indices: 101525--102683 Score: 1650
Period size: 600 Copynumber: 1.9 Consensus size: 601
101515 GTAAGAATAT
*
101525 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
* *
101590 AGTAATTTTGTAAAATAACCGATATAAATATACCAGTTTTATGTGAGAATAGGTTTACATAATGT
66 AGTAATTTTGTAAAATAACCGATATAAATATACCAGTTTTATGAGAGAATAGGTATACATAATGT
** * * *
101655 ATCGACACTTTTTAACTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
131 ATCGACACTTTGGAACTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGATGAACCC
* * *
101720 ATAAAGTGTCGAAACATTTAGAAAAAGTATCAATCCTAGAAACATCGAAACCCATAAATATAATG
196 ATAAAGTGTCGAAACATTTAGAAAAAGTATCAATCCCAAAAACATCAAAACCCATAAATATAATG
* * * ***
101785 TAATAGGTAAATTTACAATGTAATAGGTATAACTATATTGGTTTTATGAGAGAATAGGTATACAT
261 TAATAGGTAAATTTACAATATAACAGGTATAAATATACCAGTTTTATGAGAGAATAGGTATACAT
*
101850 AATGTATCGACACTTCTGGAATTTGTGTCGATACTATTTGTCCAGAAGGAATGCCCAAAAGGGTA
326 AATGTATCGACACTTCTGGAATTTGTGTCGATACTATTTGTCCAAAAGGAATGCCCAAAAGGGTA
* * * *
101915 CACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTA
391 CAACCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCACAATTA
* * *
101980 TAATGTAATAGGAAATTTTTCAATGTAACCAGTATAAATATATCGGTTTTATGAGAGAATAGGTC
456 TAATGTAATAGGAAATTTTCCAATGTAACCAGTATAAATATACCGATTTTATGAGAGAATAGGTC
*
102045 TACAACATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAAA
521 TACAACATGTATCGACACTTGTGAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAAA
102110 AGGTTACACCCATAAA
586 AGGTTACACCCATAAA
*
102126 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
* * * * *
102191 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTATACA-ACATG
66 AGTAATTTTGTAAAATAACCGATATAAATATACCAGTTTTATGAGAGAATAGGTATACATA-ATG
* * * *
102255 TATCGACACTTGTGGAA-TTTGTGTCGATAC-TTTTGTCCAGAAGGAATGGCCAAACGGGTGTAC
130 TATCGACACTT-TGGAACTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGATGAAC
* ** * *
102318 CCATAAAGTGTCGATACATTTTTAAAAAGTGTCGAA-CCCAAAAACATCAAAACCCATAATTATA
194 CCATAAAGTGTCGAAACATTTAGAAAAAGTATC-AATCCCAAAAACATCAAAACCCATAAATATA
* ** * *
102382 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTTTA
258 ATGTAATAGGTAAATTTACAATATAACAGGTATAAATATACCAGTTTTATGAGAGAATAGGTATA
* * * * *
102447 CA-ACATGTATTGACACTTGTGGAATTTGTGTCGATACT-TTTGGTTCAAAAGGAATGCCTAAAC
323 CATA-ATGTATCGACACTTCTGGAATTTGTGTCGATACTATTT-GTCCAAAAGGAATGCCCAAAA
* * * * * **
102510 GGGTGCAACCATAAAGTGTCGATACATTTTTAAAAAGTGTCAATCCCAAAAACTTTGAAACTGAC
386 GGGTACAACCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCAC
102575 AATTATAATGTAATAGGTAAA-TTTCCAATGTAACC-GATATAAATATACCGATTTTATGAGAGA
451 AATTATAATGTAATAGG-AAATTTTCCAATGTAACCAG-TATAAATATACCGATTTTATGAGAGA
* * *
102638 ATAGGTCTTCAACATGTATCGACACTTGTTAAATTTTTGTCGATAC
514 ATAGGTCTACAACATGTATCGACACTTGTGAAATTTGTGTCGATAC
102684 CATTTTAAAT
Statistics
Matches: 490, Mismatches: 61, Indels: 15
0.87 0.11 0.03
Matches are distributed among these distances:
599 5 0.01
600 335 0.68
601 147 0.30
602 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (601 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
AGTAATTTTGTAAAATAACCGATATAAATATACCAGTTTTATGAGAGAATAGGTATACATAATGT
ATCGACACTTTGGAACTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGATGAACCC
ATAAAGTGTCGAAACATTTAGAAAAAGTATCAATCCCAAAAACATCAAAACCCATAAATATAATG
TAATAGGTAAATTTACAATATAACAGGTATAAATATACCAGTTTTATGAGAGAATAGGTATACAT
AATGTATCGACACTTCTGGAATTTGTGTCGATACTATTTGTCCAAAAGGAATGCCCAAAAGGGTA
CAACCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCACAATTA
TAATGTAATAGGAAATTTTCCAATGTAACCAGTATAAATATACCGATTTTATGAGAGAATAGGTC
TACAACATGTATCGACACTTGTGAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAAA
AGGTTACACCCATAAA
Found at i:104156 original size:6 final size:6
Alignment explanation
Indices: 104145--104202 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
104135 CAAATGGTCA
* * * *
104145 ATGAAG ATGAAG ATGACG ATGAAG ATGACG ATGAAG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
104193 ATGATG ATGA
1 ATGAAG ATGA
104203 TGGTGATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.41, C:0.03, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:104203 original size:6 final size:6
Alignment explanation
Indices: 104145--104209 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
104135 CAAATGGTCA
* * * * * *
104145 ATGAAG ATGAAG ATGACG ATGAAG ATGACG ATGAAG ATGATG ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
*
104193 ATGATG ATGATG GTGAT
1 ATGATG ATGATG ATGAT
104210 AATCCAAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.38, C:0.03, G:0.34, T:0.25
Consensus pattern (6 bp):
ATGATG
Found at i:104204 original size:12 final size:12
Alignment explanation
Indices: 104145--104202 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
104135 CAAATGGTCA
*
104145 ATGAAGATGAAG
1 ATGATGATGAAG
*
104157 ATGACGATGAAG
1 ATGATGATGAAG
*
104169 ATGACGATGAAG
1 ATGATGATGAAG
*
104181 ATGATGATGATG
1 ATGATGATGAAG
104193 ATGATGATGA
1 ATGATGATGA
104203 TGGTGATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.41, C:0.03, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:105541 original size:12 final size:12
Alignment explanation
Indices: 105526--105586 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
105516 TTGGAGTTTG
105526 AATTTAAATTTC
1 AATTTAAATTTC
* * *
105538 AATTTGAGTTTG
1 AATTTAAATTTC
* *
105550 AATTTCAATTTG
1 AATTTAAATTTC
* *
105562 AGTTTGAATTTC
1 AATTTAAATTTC
*
105574 AATATAAATTTC
1 AATTTAAATTTC
105586 A
1 A
105587 GCTCCACTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (12 bp):
AATTTAAATTTC
Found at i:105543 original size:18 final size:18
Alignment explanation
Indices: 105522--105576 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
105512 GTAATTGGAG
* *
105522 TTTGAATTTAAATTTCAA
1 TTTGAGTTTGAATTTCAA
105540 TTTGAGTTTGAATTTCAA
1 TTTGAGTTTGAATTTCAA
105558 TTTGAGTTTGAATTTCAA
1 TTTGAGTTTGAATTTCAA
105576 T
1 T
105577 ATAAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (18 bp):
TTTGAGTTTGAATTTCAA
Found at i:105567 original size:24 final size:24
Alignment explanation
Indices: 105514--105586 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
105504 TTTCATATGT
*
105514 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATTTC
* *
105538 AATTTGAGTTTGAATTTCAATTTG
1 AATTTGAGTTTGAATTTAAATTTC
* * * *
105562 AGTTTGAATTTCAATATAAATTTC
1 AATTTGAGTTTGAATTTAAATTTC
105586 A
1 A
105587 GCTCCACTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATTTC
Found at i:107259 original size:198 final size:198
Alignment explanation
Indices: 106920--107405 Score: 823
Period size: 198 Copynumber: 2.4 Consensus size: 198
106910 TAAAGTTTCT
* * *
106920 CATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACCTCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAA-CGATAATTATAAT
* * *
106985 ATAATAGGTAAATTTACAATGTAACTGGTATAATAAATCAGTTTTATGAGAAAATAGGTCTACAA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAATAAACCAGTTTTATGAGAAAATAGGTCTACAA
107050 ATTGTATCGACACTTGT-TGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGT
130 ATTGTATCGACACTTGTGT-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGT
107114 GCACG
194 GCACG
* *
107119 CATAAAGTGTCAATACATTTGT-AAAAGTATCGATCCCAGAAACATCGAAACGATAATTATAATG
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACGATAATTATAATG
*
107183 TAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGGTTTTATGAGAAAATAGGTCTACAA
66 TAATAGGTAAATTTACAATGTAACCGGTAT-AATAAACCAGTTTTATGAGAAAATAGGTCTACAA
*
107248 ATTGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTTCAAAAGGGTG
130 ATTGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGTG
107313 CACG
195 CACG
*
107317 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCAAAACTGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAAC-GATAATTATAAT
107382 GTAATAGGTAAATTTACAATGTAA
65 GTAATAGGTAAATTTACAATGTAA
107406 TAAGTCGTGT
Statistics
Matches: 270, Mismatches: 13, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
197 42 0.16
198 143 0.53
199 49 0.18
200 36 0.13
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAATAAACCAGTTTTATGAGAAAATAGGTCTACAAA
TTGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGTGC
ACG
Found at i:108087 original size:200 final size:198
Alignment explanation
Indices: 107703--108421 Score: 957
Period size: 199 Copynumber: 3.6 Consensus size: 198
107693 ACCTAACTAT
*
107703 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* ** * * *
107766 TAGGTAAATTAACAATGTAACTTGTATAAATATACCGGTTAATTATAAAACATGTCAACATAATG
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATTAGAAAATATGTC-ACATAATG
** *
107831 TATCGACACTTGTGGAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCTCAAACGAGGTGCA
128 TATCGACACTTGTTAAATTTGTGTCGATACATT-TTGTTCAGAATGAATG-TCAAACGAGGTGCA
**
107895 AACATAAA
191 CGCATAAA
*
107903 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
107968 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCAGCATAACGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATTAGAAAATATGTCA-CATAATGT
* *
108033 ATCGACACTTGTTAAATTTGTGTCGATACATTTTGTTCATAATGAATGTCAAACGGGGTGCACGC
129 ATCGACACTTGTTAAATTTGTGTCGATACATTTTGTTCAGAATGAATGTCAAACGAGGTGCACGC
*
108098 ATAGA
194 ATAAA
* *
108103 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAA-CGAAAATTACAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
108167 GGTAAATTTACAATGTACCCGGTATAAATATACCGGTTTTATAAGAAAATAAGTCTAAATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATTAGAAAATATGTC-ACATAATGT
* * * * *
108232 ATCGACACTTTTTAAGTTTGTGTCGATACATTTT-TTCAGACTGAATGCCCAACGAGGTGCACGC
129 ATCGACACTTGTTAAATTTGTGTCGATACATTTTGTTCAGAATGAATGTCAAACGAGGTGCACGC
108296 ATAAA
194 ATAAA
* * * *
108301 ATGTCGATACATTTA--AAATTGTATCGATCCAAGAAAACATCGAAACCGATAATTATAATGTAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCA-AAAACATCGAAACCGATAATTATAATGTAA
* * *
108364 TAGGTAAATTTACAATGTTACTGGTATAAATATACCGGTTTACTTAGAAAATAGGTCA
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTA-TTAGAAAATATGTCA
108422 ATATAAGCCC
Statistics
Matches: 464, Mismatches: 45, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
196 3 0.01
197 11 0.02
198 60 0.13
199 168 0.36
200 154 0.33
201 66 0.14
202 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATTAGAAAATATGTCACATAATGTAT
CGACACTTGTTAAATTTGTGTCGATACATTTTGTTCAGAATGAATGTCAAACGAGGTGCACGCAT
AAA
Found at i:108556 original size:23 final size:23
Alignment explanation
Indices: 108506--108550 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
108496 TGTCTATTTT
* *
108506 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
108529 ATTATATAAGTGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
108551 TGTTATTGTA
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:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:108582 original size:87 final size:87
Alignment explanation
Indices: 108422--108584 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 87
108412 AAATAGGTCA
*
108422 ATATAAGCCCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCCCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
*
108487 CTAGTTAAATGTCTATTTTATT
66 CGAGTTAAATGTCTATTTTATT
* * * *
108509 ATATAAGCGCTATCTATTACATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCCCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
108574 CCGA-TTAAATG
66 -CGAGTTAAATG
108585 ATATAACATA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
87 67 0.97
88 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCCCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
CGAGTTAAATGTCTATTTTATT
Found at i:112871 original size:5 final size:5
Alignment explanation
Indices: 112864--112897 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
112854 CCTCTGCTTT
*
112864 GCTCT GCTCA GCTCA GCTCA GCTCA GCTCA GCTC
1 GCTCA GCTCA GCTCA GCTCA GCTCA GCTCA GCTC
112898 TTAAGGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.15, C:0.41, G:0.21, T:0.24
Consensus pattern (5 bp):
GCTCA
Found at i:113607 original size:13 final size:12
Alignment explanation
Indices: 113589--113631 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
113579 TTTAGTTGTA
113589 ATTTTATAATTTT
1 ATTTT-TAATTTT
113602 A-TTTTAATTTT
1 ATTTTTAATTTT
113613 AATTTTTATATTTT
1 -ATTTTTA-ATTTT
113627 ATTTT
1 ATTTT
113632 AGATTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 7 0.26
12 4 0.15
13 11 0.41
14 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTTAATTTT
Found at i:113609 original size:19 final size:19
Alignment explanation
Indices: 113556--113632 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
113546 AAATTCTTTA
*
113556 TTTAAATTTTA-AATT-AT
1 TTTAAATTTTATATTTAAT
*
113573 TTTAAA-TTTAGT-TGTAAT
1 TTTAAATTTTA-TATTTAAT
113591 TTTATAATTTTAT-TTTAAT
1 TTTA-AATTTTATATTTAAT
* *
113610 TTTAATTTTTATATTTTAT
1 TTTAAATTTTATATTTAAT
113629 TTTA
1 TTTA
113633 GATTATATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
16 4 0.08
17 7 0.14
18 13 0.27
19 21 0.43
20 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTAAATTTTATATTTAAT
Found at i:115139 original size:24 final size:24
Alignment explanation
Indices: 115112--115186 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
115102 ATTTACGTGG
115112 AAAACCCCTAAATAATATAGGGTA
1 AAAACCCCTAAATAATATAGGGTA
115136 AAAACCCCTAAAT--T-TACGTGG--
1 AAAACCCCTAAATAATATA-G-GGTA
115157 AAAACCCCTAAATAATATAGGGTA
1 AAAACCCCTAAATAATATAGGGTA
115181 AAAACC
1 AAAACC
115187 ATTGGTATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
21 15 0.34
22 4 0.09
23 4 0.09
24 21 0.48
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (24 bp):
AAAACCCCTAAATAATATAGGGTA
Found at i:115150 original size:45 final size:45
Alignment explanation
Indices: 115100--115186 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
115090 AAGAGACACA
115100 AAATTTACGTGGAAAACCCCTAAATAATATAGGGTAAAAACCCCT
1 AAATTTACGTGGAAAACCCCTAAATAATATAGGGTAAAAACCCCT
115145 AAATTTACGTGGAAAACCCCTAAATAATATAGGGTAAAAACC
1 AAATTTACGTGGAAAACCCCTAAATAATATAGGGTAAAAACC
115187 ATTGGTATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (45 bp):
AAATTTACGTGGAAAACCCCTAAATAATATAGGGTAAAAACCCCT
Found at i:115162 original size:21 final size:21
Alignment explanation
Indices: 115100--115169 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 21
115090 AAGAGACACA
115100 AAATTTACGTGGAAAACCCCT
1 AAATTTACGTGGAAAACCCCT
115121 AAATAATATA-G-GGTAAAAACCCCT
1 AAAT--T-TACGTGG--AAAACCCCT
115145 AAATTTACGTGGAAAACCCCT
1 AAATTTACGTGGAAAACCCCT
115166 AAAT
1 AAAT
115170 AATATAGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
21 19 0.45
22 4 0.10
23 4 0.10
24 15 0.36
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (21 bp):
AAATTTACGTGGAAAACCCCT
Found at i:122635 original size:24 final size:25
Alignment explanation
Indices: 122603--122660 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
122593 GATCCTGTAA
*
122603 ATAAAATAAT-AA-ATAAATTAGTAT
1 ATAATATAATCAACATAAATTA-TAT
*
122627 ATAATATAATCAATCATATATTATAT
1 ATAATATAATCAA-CATAAATTATAT
122653 ATAATATA
1 ATAATATA
122661 TTTTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 2 0.07
26 11 0.38
27 7 0.24
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAATATAATCAACATAAATTATAT
Found at i:123353 original size:84 final size:83
Alignment explanation
Indices: 123235--124447 Score: 1107
Period size: 84 Copynumber: 14.8 Consensus size: 83
123225 GCTATGTTGT
* * * *
123235 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTCC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GCAGATAACCCTTC
* * * * *
123299 TAGCCTTGAGTTATGTTGT
65 TCGACTTAAGTTATGCTGC
* * * * * * * * *
123318 ACATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTG-GGGT-TTTTG-GCATATAGCCCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
* *
123380 CGACTTAAGCTATACTGC
66 CGACTTAAGTTATGCTGC
* * * * *
123398 AAATGATGTG--C-C---GTTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAAACAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTT
* *
123457 CTAGACTTAAGTTGTGCTGC
64 CTCGACTTAAGTTATGCTGC
* * *
123477 AAATGATATGCCCT-GAAGTTGAGCGTAGTCGAACTCGAATGTCTTTGGTGACAGATAACCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTG-CAGATAACCCTTC
** * *
123541 TAAACTTGAGTTATGCTGT
65 TCGACTTAAGTTATGCTGC
* * * * ** * *
123560 GAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCTCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
*
123623 CGACTTAAGCTATGCTGC
66 CGACTTAAGTTATGCTGC
* * * * *
123641 AAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTT
* * *
123705 GTAGACTTAAGTTGTGCTGC
64 CTCGACTTAAGTTATGCTGC
* * * *
123725 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAATCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTT
123789 CTCGACTTAAGTTATGCTGC
64 CTCGACTTAAGTTATGCTGC
* * * * ** *
123809 AAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTT-G-GCAGATAGCCCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
*
123872 CGACTTAAGCTATGCTGC
66 CGACTTAAGTTATGCTGC
* *
123890 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTG-CAGATAACCCTT
** * *
123954 CTAAACTTGAGTTATGCTGT
64 CTCGACTTAAGTTATGCTGC
* * * * ** * *
123974 GAATGATATGCCCT-GAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCTCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
*
124036 CGACTTAAGCTATGCTGC
66 CGACTTAAGTTATGCTGC
* *
124054 AAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTT
124118 CTCGACTTAAGTTATGCTGC
64 CTCGACTTAAGTTATGCTGC
* * * * ** *
124138 AAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTT-G-GCAGATAGCCCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
* *
124201 CGACTTAAGCTATGCTAC
66 CGACTTAAGTTATGCTGC
* * * *
124219 AAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTT
* * * * *
124283 CTAGCCTTGAGTTATGTTGT
64 CTCGACTTAAGTTATGCTGC
* * ** *
124303 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCCCTTCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
* *
124366 CGACTTAAGCTATTCTGC
66 CGACTTAAGTTATGCTGC
* * * *
124384 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTGGCAGGTAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GCAGATAACCCTTC
124447 T
65 T
124448 GGCCTTGAGC
Statistics
Matches: 905, Mismatches: 185, Indels: 81
0.77 0.16 0.07
Matches are distributed among these distances:
74 15 0.02
75 3 0.00
77 4 0.00
78 1 0.00
79 37 0.04
80 195 0.22
81 162 0.18
82 23 0.03
83 69 0.08
84 311 0.34
85 85 0.09
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (83 bp):
AAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCT
CGACTTAAGTTATGCTGC
Found at i:123894 original size:165 final size:164
Alignment explanation
Indices: 123225--124447 Score: 1457
Period size: 165 Copynumber: 7.5 Consensus size: 164
123215 CTTTCTTTAG
* * **
123225 GCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
* * * * * * *
123290 TAACCCTCCTAGCCTTGAGTTATGTTGTACATGATATGCCCTCGAAGCTGAGTGTAATCGAACT-
66 TAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* * *
123354 TGGGGTTTTTGGCATATAGCCCTTCTCGACTTAA
131 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
* * * * *
123388 GCTATACTGCAAATGATGTGCC-----GTTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAG
* * * * * *
123448 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCCT-GAAGTTGAGCGTAGTCGAACT
65 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
*** * ** *
123512 CGAATGTCTTTGGTGACAGATAACCCTTCTAAACTTGA
130 CGGGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAA
* ** * * * * * **
123550 GTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAG
1 GCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAG
* * * * * * * *
123612 ATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACT
65 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
*** * * * *
123676 CAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAA
130 CGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAA
* * *
123715 GTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAG
* * *
123780 ATAATCCTTCTCGACTTAAGTTATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACT
65 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
*
123845 TGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
130 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
*
123880 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAG
* * ** *
123945 ATAACCCTTCTAAACTTGAGTTATGCTGTGAATGATATGCCCT-GAAGCTGAGTGTAATCGAACT
65 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
*
124009 CGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAA
130 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
124044 GCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
1 GCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCA
* *
124108 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCGAAC
64 GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
*
124173 TTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
129 TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
* * **
124209 GCTATGCTACAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTCACAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAG
* * * *
124274 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
65 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
124339 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
130 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
* *
124374 GCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTGGCAGG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
*
124438 TAGCCCTTCT
66 TAACCCTTCT
124448 GGCCTTGAGC
Statistics
Matches: 908, Mismatches: 125, Indels: 54
0.84 0.11 0.05
Matches are distributed among these distances:
158 42 0.05
159 47 0.05
160 1 0.00
161 1 0.00
162 32 0.04
163 43 0.05
164 238 0.26
165 401 0.44
166 14 0.02
167 2 0.00
168 66 0.07
169 21 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (164 bp):
GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
TAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
Found at i:124075 original size:329 final size:329
Alignment explanation
Indices: 123225--124447 Score: 1576
Period size: 329 Copynumber: 3.7 Consensus size: 329
123215 CTTTCTTTAG
* *
123225 GCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGA
* * * *
123290 TAACCCTCCTAGCCTTGAGTTATGTTGTACATGATATGCCCTCGAAGCTGAGTGTAATCGAACT-
66 TAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * * *
123354 TGGGGTTTTTGGCATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC-----GTTG
131 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTG
* * * * * *
123414 AGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTGTGCTGCAA
196 AGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
** * * * * *** * *
123479 ATGATATGCCCT-GAAGTTGAGCGTAGTCGAACTCGAATGTCTTTGGTGACAGATAACCCTTCTA
261 ATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTT-G-G-CAGATAGCCCTTCTC
* *
123543 AACTTGA
323 GACTTAA
* ** * * * * * **
123550 GTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG---CAG
1 GCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAG
* * * * * * * * * * *
123612 ATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACT
65 ATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
*** * * * * * * *
123676 CAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGG
130 CGGGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGG
*
123741 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAATCCTTCTCGACTTAAGTTATGC
191 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
123806 TGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTC
256 TGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTC
123871 TCGACTTAA
321 TCGACTTAA
*
123880 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTCACAG
* *
123945 ATAACCCTTCTAAACTTGAGTTATGCTGTGAATGATATGCCCT-GAAGCTGAGTGTAATCGAACT
65 ATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
*
124009 CGGGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGC
130 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGC
124073 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
194 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
124138 AAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCG
259 AAATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCG
124203 ACTTAA
324 ACTTAA
* *
124209 GCTATGCTACAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTCACAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTCACAG
* * *
124274 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
65 ATAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
*
124339 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
130 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
* *
124404 GAGCGTAGTCGAACTCGAAGGTC-TTGG-TGGCAGGTAGCCCTTCT
195 GAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
124448 GGCCTTGAGC
Statistics
Matches: 773, Mismatches: 105, Indels: 37
0.84 0.11 0.04
Matches are distributed among these distances:
322 17 0.02
323 38 0.05
325 16 0.02
326 33 0.04
327 39 0.05
328 15 0.02
329 312 0.40
330 146 0.19
331 1 0.00
332 73 0.09
333 83 0.11
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (329 bp):
GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGA
TAACCCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTG
AGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
ATGACGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGAC
TTAA
Found at i:127870 original size:18 final size:19
Alignment explanation
Indices: 127829--127873 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
127819 AGTTAATGTG
127829 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
127848 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
127866 AATGCAAA
1 AATGCAAA
127874 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:131139 original size:24 final size:25
Alignment explanation
Indices: 131107--131164 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
131097 GATCCTGTAA
*
131107 ATAAAATAAT-AA-ATAAATTAGTAT
1 ATAATATAATCAACATAAATTA-TAT
*
131131 ATAATATAATCAATCATATATTATAT
1 ATAATATAATCAA-CATAAATTATAT
131157 ATAATATA
1 ATAATATA
131165 TTTTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 2 0.07
26 11 0.38
27 7 0.24
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAATATAATCAACATAAATTATAT
Found at i:134788 original size:41 final size:39
Alignment explanation
Indices: 134743--134872 Score: 108
Period size: 41 Copynumber: 3.4 Consensus size: 39
134733 CATAGTAGTT
* *
134743 CTTTAGTGGCGTTTTTATCCAAACGCCGCTAAAGACTCGTA
1 CTTTAGTGGCGTTTTTA--CAAACGCCGCTATAGACTTGTA
* * **
134784 CTTTATTGGC-----TACAAACACCATTATAGACTTGTA
1 CTTTAGTGGCGTTTTTACAAACGCCGCTATAGACTTGTA
* **
134818 CTTTAGTGGCGTTTTTAGACAAACGCCGCTATACACTTGCG
1 CTTTAGTGGCGTTTTT--ACAAACGCCGCTATAGACTTGTA
134859 CTTTAGTGGCGTTT
1 CTTTAGTGGCGTTT
134873 ATGTTTACAA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
34 26 0.38
36 2 0.03
39 1 0.01
41 40 0.58
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (39 bp):
CTTTAGTGGCGTTTTTACAAACGCCGCTATAGACTTGTA
Found at i:138346 original size:43 final size:42
Alignment explanation
Indices: 138097--138349 Score: 290
Period size: 42 Copynumber: 6.0 Consensus size: 42
138087 TATCACGAGC
* * * *
138097 CCTTTTGCGGCGTTTGTATCCAAAAACGCGGTTATAAATTTGA
1 CCTTTTGCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGA
*
138140 CCTTTTGTGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGA
1 CCTTTTGCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGA
* * * *
138183 CCTTTTGCGGCGTTTATTTCAAAAATGCCACTATAGATCTGA
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGA
** * * *
138225 TATTTTGCAGCGTTTATTCCAAAAATGCCGCTATAGATCTGA
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGA
* * * *
138267 CCTTTTGCAGAGTTTGTTCCAAAAACGCTGCTATAGATATCGA
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GA
* * *
138310 CCTTTTACGGCGTTTGTTCCAAAAACGTCGCGATAGATCT
1 CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT
138350 TGATCTATTG
Statistics
Matches: 180, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 92 0.51
43 88 0.49
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (42 bp):
CCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGA
Found at i:138346 original size:127 final size:128
Alignment explanation
Indices: 138099--138349 Score: 308
Period size: 127 Copynumber: 2.0 Consensus size: 128
138089 TCACGAGCCC
* * * * * ** *
138099 TTTTGCGGCGTTTGTATCCAAAAACGCGGTTATAAATTTGACCTTTTGTGGCGTTTGTATCCAAA
1 TTTTGCAGCGTTTATATCCAAAAACGCCGCTATAAATCTGACCTTTTGCAGAGTTTGTATCCAAA
* * * * *
138164 AACGCCGCTATAGATCTGACCTTTTGCGGCGTTTATTTCAAAAATGCCACTATAGATCTGATA
66 AACGCCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACGCCACGATAGATCTGATA
* *
138227 TTTTGCAGCGTTTAT-TCCAAAAATGCCGCTATAGATCTGACCTTTTGCAGAGTTTGT-TCCAAA
1 TTTTGCAGCGTTTATATCCAAAAACGCCGCTATAAATCTGACCTTTTGCAGAGTTTGTATCCAAA
* * * *
138290 AACGCTGCTATAGATATCGACCTTTTACGGCGTTTGTTCCAAAAACGTCGCGATAGATCT
66 AACGCCGCTATAGATAT-GACCTTTTACGGCGTTTATTCCAAAAACGCCACGATAGATCT
138350 TGATCTATTG
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
126 21 0.20
127 69 0.67
128 13 0.13
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (128 bp):
TTTTGCAGCGTTTATATCCAAAAACGCCGCTATAAATCTGACCTTTTGCAGAGTTTGTATCCAAA
AACGCCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACGCCACGATAGATCTGATA
Found at i:139807 original size:2 final size:2
Alignment explanation
Indices: 139800--139826 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
139790 CATATGCTTT
139800 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
139827 TAGATAAATA
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:139995 original size:30 final size:30
Alignment explanation
Indices: 139961--140047 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
139951 AAATTATAAC
* * *
139961 TTAACCCTAAATTTTAGATAAAATATTAAT
1 TTAACCATAAACTTTATATAAAATATTAAT
* *
139991 TTAACCATAAACTTCATATAAAATACTAAT
1 TTAACCATAAACTTTATATAAAATATTAAT
*
140021 TTAACTCTTAAACTTTATATAAAATAT
1 TTAAC-CATAAACTTTATATAAAATAT
140048 CAAATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 30 0.62
31 18 0.38
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (30 bp):
TTAACCATAAACTTTATATAAAATATTAAT
Done.