Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold85
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: 1350895
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.21
Warning! 487514 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:12227 original size:28 final size:28
Alignment explanation
Indices: 12146--12227 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
12136 TTTTGGAGAT
*
12146 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
12174 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
12202 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
12228 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:12370 original size:51 final size:51
Alignment explanation
Indices: 12210--12380 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
12200 GAAATAACGA
* * *
12210 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
12262 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
12315 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
12366 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
12381 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:12426 original size:27 final size:28
Alignment explanation
Indices: 12363--12438 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
12353 AAAATAAAGT
*
12363 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
12391 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
12418 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
12439 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:14924 original size:13 final size:13
Alignment explanation
Indices: 14906--14931 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14896 ACAAAGATCC
14906 ATGTATCGATACA
1 ATGTATCGATACA
14919 ATGTATCGATACA
1 ATGTATCGATACA
14932 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:14927 original size:33 final size:33
Alignment explanation
Indices: 14885--14951 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14875 AAAATTTCCA
***
14885 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
14918 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
14951 A
1 A
14952 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:14995 original size:19 final size:18
Alignment explanation
Indices: 14971--15038 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
14961 CAGTAGCTAA
14971 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
14990 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
15005 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
15022 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
15039 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:15011 original size:13 final size:13
Alignment explanation
Indices: 14993--15017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14983 ACAATACTTA
14993 TGTATCGATACAT
1 TGTATCGATACAT
15006 TGTATCGATACA
1 TGTATCGATACA
15018 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15015 original size:32 final size:32
Alignment explanation
Indices: 14974--15036 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
14964 TAGCTAATTA
*
14974 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
15006 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
15037 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:15118 original size:21 final size:21
Alignment explanation
Indices: 15094--15192 Score: 198
Period size: 21 Copynumber: 4.7 Consensus size: 21
15084 CATTTGTAGG
15094 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
15115 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
15136 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
15157 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
15178 ATGTATCGATACATT
1 ATGTATCGATACATT
15193 TGGAAATTTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:15219 original size:13 final size:13
Alignment explanation
Indices: 15201--15226 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15191 TTTGGAAATT
15201 TTTTTTTTTTTCA
1 TTTTTTTTTTTCA
15214 TTTTTTTTTTTCA
1 TTTTTTTTTTTCA
15227 AACACTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTCA
Found at i:18167 original size:13 final size:13
Alignment explanation
Indices: 18149--18176 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18139 ATACACAGAT
18149 CAATGTATCGATA
1 CAATGTATCGATA
18162 CAATGTATCGATA
1 CAATGTATCGATA
18175 CA
1 CA
18177 TTTTAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:18239 original size:13 final size:13
Alignment explanation
Indices: 18221--18272 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
18211 AGCTTCGTAG
18221 CGATACATTGTAT
1 CGATACATTGTAT
18234 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
18253 CGATACATTGTAT
1 CGATACATTGTAT
18266 CGATACA
1 CGATACA
18273 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:18253 original size:19 final size:19
Alignment explanation
Indices: 18229--18310 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
18219 AGCGATACAT
18229 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
18248 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
18261 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
18280 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
18299 TGTATTGATACA
1 TGTATCGATACA
18311 GTTACTTGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 6 0.11
18 1 0.02
19 39 0.70
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:18262 original size:32 final size:32
Alignment explanation
Indices: 18221--18291 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
18211 AGCTTCGTAG
18221 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
18253 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
18285 CGATACA
1 CGATACA
18292 ACACTTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:20191 original size:19 final size:19
Alignment explanation
Indices: 20148--20203 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
20138 CTTCCAGTTT
20148 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
20168 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
20187 CATGTATCGATATAATG
1 CATGTATCGATACAATG
20204 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:20210 original size:32 final size:31
Alignment explanation
Indices: 20169--20230 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 31
20159 ACAATTGAGT
20169 ATGTATCGATACAATGAGC-ATGTATCGATATA
1 ATGTATCGATACAA--AGCAATGTATCGATATA
20201 ATGTATCGATACAAAGCATATGTATCGATA
1 ATGTATCGATACAAAGCA-ATGTATCGATA
20231 CTTCTGGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 3 0.11
32 25 0.89
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (31 bp):
ATGTATCGATACAAAGCAATGTATCGATATA
Found at i:21616 original size:20 final size:20
Alignment explanation
Indices: 21568--21622 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
21558 CTGCCAAGGA
21568 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
21588 AATGGATCGATACATTGA-TC
1 AATGTATCGATACATT-ATTC
**
21608 TTTGTATCGATACAT
1 AATGTATCGATACAT
21623 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:28697 original size:6 final size:6
Alignment explanation
Indices: 28675--28738 Score: 62
Period size: 6 Copynumber: 10.7 Consensus size: 6
28665 AGTCAAAAGT
* *
28675 AAAAAC ACACAAA- AAAAAT AAAAA- AAACAAA AAAAAC AAAAAC AAAAAC
1 AAAAAC A-A-AAAC AAAAAC AAAAAC AAA-AAC AAAAAC AAAAAC AAAAAC
28724 AAAAAC AAAAA- AAAA
1 AAAAAC AAAAAC AAAA
28739 CACACAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.19
6 34 0.65
7 5 0.10
8 3 0.06
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (6 bp):
AAAAAC
Found at i:28697 original size:9 final size:9
Alignment explanation
Indices: 28683--28737 Score: 76
Period size: 9 Copynumber: 6.1 Consensus size: 9
28673 GTAAAAACAC
28683 ACAAAAAAA
1 ACAAAAAAA
*
28692 ATAAAAAAA
1 ACAAAAAAA
28701 ACAAAAAAA
1 ACAAAAAAA
28710 ACAAAAACAA
1 ACAAAAA-AA
*
28720 A-AACAAAA
1 ACAAAAAAA
28728 ACAAAAAAA
1 ACAAAAAAA
28737 A
1 A
28738 ACACACAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
8 3 0.08
9 34 0.85
10 3 0.08
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:28700 original size:12 final size:12
Alignment explanation
Indices: 28675--28750 Score: 73
Period size: 12 Copynumber: 6.2 Consensus size: 12
28665 AGTCAAAAGT
*
28675 AAAAACACACAAA
1 AAAAACA-AAAAA
*
28688 AAAAATAAAAAA
1 AAAAACAAAAAA
*
28700 AACAAA-AAAAAC
1 AA-AAACAAAAAA
*
28712 AAAAACAAAAAC
1 AAAAACAAAAAA
28724 AAAAACAAAAAA
1 AAAAACAAAAAA
*
28736 AAACACACAAAAA
1 AAAAACA-AAAAA
28749 AA
1 AA
28751 GTGTAAAGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
11 3 0.05
12 36 0.65
13 16 0.29
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.01
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:28749 original size:27 final size:27
Alignment explanation
Indices: 28683--28737 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
28673 GTAAAAACAC
*
28683 ACAAAAA-AAATAAAAAAAACAAAAAAA
1 ACAAAAACAAA-AACAAAAACAAAAAAA
28710 ACAAAAACAAAAACAAAAACAAAAAAA
1 ACAAAAACAAAAACAAAAACAAAAAAA
28737 A
1 A
28738 ACACACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (27 bp):
ACAAAAACAAAAACAAAAACAAAAAAA
Found at i:28750 original size:1 final size:1
Alignment explanation
Indices: 28685--28738 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
28675 AAAAACACAC
* * * * * *
28685 AAAAAAAATAAAAAAAACAAAAAAAACAAAAACAAAAACAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
28739 CACACAAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:30067 original size:30 final size:30
Alignment explanation
Indices: 30027--30730 Score: 560
Period size: 30 Copynumber: 22.6 Consensus size: 30
30017 AATTCTTCAA
* * *
30027 ATCTCTTTTCTAAGTTCACGACTCAGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
*
30057 ATCTTTTTTCTTCAAAGTCCAC-AGCTTAGTGGC
1 ATC--TTTT-TTCAAAGTCCACGA-CTCAGTGGC
* **
30090 ATCTTGTCCCAAAGTCCACGACTCAGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
**
30120 ATCTTTCTCCCAAAGTCCACGACTCAGTGGC
1 ATCTTT-TTTCAAAGTCCACGACTCAGTGGC
*
30151 ATCTTTTCTTCATAGTCCACGACTCAGTGGC
1 ATCTTTT-TTCAAAGTCCACGACTCAGTGGC
* *
30182 ATCCTTTTCTTCCAAGTCTACGACTCAGTGGC
1 AT-CTTTT-TTCAAAGTCCACGACTCAGTGGC
*
30214 ATCTTTTTTATTCAAAGTCCATGACTCAGTGGC
1 ATC--TTTT-TTCAAAGTCCACGACTCAGTGGC
* **
30247 ATCTCTTCCCAAAGTCCACGACTCAGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
*
30277 ATCTTTTCTTCAAAGTCCACAACTCAGTGGC
1 ATCTTTT-TTCAAAGTCCACGACTCAGTGGC
* * *
30308 ATCTCTTTTCTAAGTCCTATGACTCAGTGGC
1 ATCTTTTTTCAAAGTCC-ACGACTCAGTGGC
* *
30339 ATCCTTTTCTTCCAAGTCCACGACTCAATGGC
1 AT-CTTTT-TTCAAAGTCCACGACTCAGTGGC
*
30371 ATCTTTTTTTCTTCAAAGTCCACGACTTAGTGGC
1 ATC---TTTT-TTCAAAGTCCACGACTCAGTGGC
* * **
30405 ATCTCTTCTCAAAGTCCATAACTCAGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
* *
30435 ATCTCTTTTCTCAAA-T-TACGACTTAGTGGC
1 ATCT-TTTT-TCAAAGTCCACGACTCAGTGGC
* * **
30465 ATCTCTTCTCAAAGTCCATAACTCAGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
* * *
30495 ATCTATTTTCTCAAAGTCCACAACTTAATGGC
1 ATCT-TTTT-TCAAAGTCCACGACTCAGTGGC
* * *
30527 ATCTCTTCTCAAAGTCCACAACTCAGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
* *
30557 ATCTTTCTTCTCAAAGTCCACAACTTAGTGGC
1 ATCTTT-TT-TCAAAGTCCACGACTCAGTGGC
* * * *
30589 AATCTCTTCTCAAAGTCCACAACTCTGTGGC
1 -ATCTTTTTTCAAAGTCCACGACTCAGTGGC
* * *
30620 ATC-CTTTT--AAGTCCACAACTCCGTGGC
1 ATCTTTTTTCAAAGTCCACGACTCAGTGGC
** * * *
30647 ATCTTTTTCCTTTTAAGTCCACAACTCCGTGGA
1 ATC-TTTT--TTCAAAGTCCACGACTCAGTGGC
**
30680 ATCTTTTTCCTTTTAAGTCCACGACTCAGTGGC
1 ATC-TTTT--TTCAAAGTCCACGACTCAGTGGC
30713 AATCTTTTTT--AAGTCCAC
1 -ATCTTTTTTCAAAGTCCAC
30731 AATTCCGTGG
Statistics
Matches: 563, Mismatches: 78, Indels: 67
0.80 0.11 0.09
Matches are distributed among these distances:
27 21 0.04
28 5 0.01
29 17 0.03
30 141 0.25
31 135 0.24
32 99 0.18
33 114 0.20
34 31 0.06
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (30 bp):
ATCTTTTTTCAAAGTCCACGACTCAGTGGC
Found at i:30216 original size:63 final size:63
Alignment explanation
Indices: 30038--30749 Score: 580
Period size: 63 Copynumber: 11.4 Consensus size: 63
30028 TCTCTTTTCT
* * * * * * *
30038 AAGTTCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCAC-AGCTTAGTGGCATCTTGTC-CCA
1 AAGTCCACAACTCAGTGGCATC-CTTTTCTTCCAAGTCCACGA-CTCAGTGGCATCTTTTCTTCA
* *
30101 AAGTCCACGACTCAGTGGCAT-C-TTTCTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACAACTCAGTGGCATCCTTTTCTTCC-AAGTCCACGACTCAGTGGCATCTTTTCTTCA
* * * *
30163 TAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAGTCTACGACTCAGTGGCATCTTTTTTATTCA
1 AAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATC--TTTTCTTCA
** *
30228 AAGTCCATGACTCAGTGGCAT-CTCTTC--CCAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACAACTCAGTGGCATCCTTTTCTTCC-AAGTCCACGACTCAGTGGCATCTTTTCTTCA
*
30289 AAGTCCACAACTCAGTGGCATCTCTTTTC-T--AAGTCCTATGACTCAGTGGCATCCTTTTCTTC
1 AAGTCCACAACTCAGTGGCATC-CTTTTCTTCCAAGTCC-ACGACTCAGTGGCAT-CTTTTCTTC
*
30351 C
63 A
* * * * * *
30352 AAGTCCACGACTCAATGGCATCTTTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTC-TCA
1 AAGTCCACAACTCAGTGGCATC--CTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCA
* * * * *
30416 AAGTCCATAACTCAGTGGCATCTCTTTTC-T-CAAAT-TACGACTTAGTGGCATCTCTTC-TCA
1 AAGTCCACAACTCAGTGGCATC-CTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCA
* * * * * * *
30476 AAGTCCATAACTCAGTGGCATCTATTTTC-TCAAAGTCCACAACTTAATGGCATCTCTTC-TCA
1 AAGTCCACAACTCAGTGGCATC-CTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCA
* * *
30538 AAGTCCACAACTCAGTGGCAT-C-TTTCTTCTCAAAGTCCACAACTTAGTGGCAATCTCTTC-TC
1 AAGTCCACAACTCAGTGGCATCCTTTTCTTC-C-AAGTCCACGACTCAGTGGC-ATCTTTTCTTC
30600 A
63 A
* * * **
30601 AAGTCCACAACTCTGTGGCATCC--TT-TT--AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATC-TTTT-CTTCA
* * * **
30661 AAGTCCACAACTCCGTGGAATCTTTTTCCTTTTAAGTCCACGACTCAGTGGCAATCTTTT-TT--
1 AAGTCCACAACTCAGTGGCATCCTTTT-CTTCCAAGTCCACGACTCAGTGGC-ATCTTTTCTTCA
* * *
30723 AAGTCCACAATTCCGTGGCACCCTTTT
1 AAGTCCACAACTCAGTGGCATCCTTTT
30750 AAGTCCACAA
Statistics
Matches: 555, Mismatches: 60, Indels: 69
0.81 0.09 0.10
Matches are distributed among these distances:
57 3 0.01
58 20 0.04
59 5 0.01
60 82 0.15
61 62 0.11
62 127 0.23
63 136 0.25
64 44 0.08
65 33 0.06
66 34 0.06
67 9 0.02
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (63 bp):
AAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTCA
Found at i:30332 original size:157 final size:157
Alignment explanation
Indices: 30038--30713 Score: 729
Period size: 157 Copynumber: 4.3 Consensus size: 157
30028 TCTCTTTTCT
* *
30038 AAGTTCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCAC-AGCTTAGTGGCATCT-TGTCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGA-CTCAGTGGCATCTCT-TCCCA
* * * *
30101 AAGTCCACGACTCAGTGGCATC-TTTCTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTC-AT
64 AAGTCCACAACTCAGTGGCATCTTTTCTCTCAAAGTCCACAACTCAGTGGCATCTCTT-TTCTA-
*
30164 AGTCCACGACTCAGTGGCATCCTTTTCTTCC
127 AGTCCACAACTCAGTGGCATCCTTTTCTTCC
* * *
30195 AAGTCTACGACTCAGTGGCATCTTTTTTATTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAAA
1 AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAA
*
30260 GTCCACGACTCAGTGGCATCTTTTCT-TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTC
66 GTCCACAACTCAGTGGCATCTTTTCTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTC
**
30324 CTATGACTCAGTGGCATCCTTTTCTTCC
131 C-ACAACTCAGTGGCATCCTTTTCTTCC
* * *
30352 AAGTCCACGACTCAATGGCATCTTTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTCTCAA
1 AAGTCCACGACTCAGTGGCATC-TTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
* * * * * *
30417 AGTCCATAACTCAGTGGCATCTCTTT-TCTCAAA-T-TACGACTTAGTGGCATCTCTTCTCAAAG
65 AGTCCACAACTCAGTGGCATCT-TTTCTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAG
* * *
30479 TCCATAACTCAGTGGCATCTATTTTC-TCA
129 TCCACAACTCAGTGGCATC-CTTTTCTTCC
* * * * * *
30508 AAGTCCACAACTTAATGGCATC--TCTTC-TCAAAGTCCACAACTCAGTGGCATCTTTCTTCTCA
1 AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATC--TCTTCCCA
* * *
30570 AAGTCCACAACTTAGTGGCAATC-TCT-TCTCAAAGTCCACAACTCTGTGGCATC-C-TTT-TAA
64 AAGTCCACAACTCAGTGGC-ATCTTTTCTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAA
* * **
30630 GTCCACAACTCCGTGGCATCTTTTTCCTTTT
128 GTCCACAACTCAGTGGCATCCTTTT-CTTCC
* * * * **
30661 AAGTCCACAACTCCGTGGAATCTTTTTCCTTTTAAGTCCACGACTCAGTGGCA
1 AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
30714 ATCTTTTTTA
Statistics
Matches: 447, Mismatches: 53, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
151 4 0.01
152 44 0.10
153 34 0.08
154 27 0.06
155 19 0.04
156 65 0.15
157 179 0.40
158 67 0.15
159 8 0.02
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (157 bp):
AAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAA
GTCCACAACTCAGTGGCATCTTTTCTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTC
CACAACTCAGTGGCATCCTTTTCTTCC
Found at i:30639 original size:27 final size:27
Alignment explanation
Indices: 30538--31109 Score: 246
Period size: 27 Copynumber: 18.8 Consensus size: 27
30528 TCTCTTCTCA
* *
30538 AAGTCCACAACTCAGTGGCATCTTTCTTCTCA
1 AAGTCCACAACTCCGTGGCATC---CTT-T-T
** *
30570 AAGTCCACAACTTAGTGGCAATCTCTTCTCA
1 AAGTCCACAACTCCGTGGC-ATC-CTT-T-T
*
30601 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
30628 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA------TCCTTTT
*
30661 AAGTCCACAACTCCGTGGAATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGG---C---ATCCTTTT
* * *
30694 AAGTCCACGACTCAGTGGCAATCTTTTTT
1 AAGTCCACAACTCCGTGGC-ATC-CTTTT
* *
30723 AAGTCCACAATTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
30750 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
30777 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-------TCCTTTT
* * *
30811 AAGCCCATAACTCTGTGGCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-------TCCTTTT
* * * *
30845 AAGTCCACATCTCTGTGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
30872 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-------TCCTTTT
* *
30906 AATTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
30933 AAGCCCACAACTCCGTGGCGCTCTTTTTCCTTTT
1 AAGTCCACAACTCCGT-G-G--C---ATCCTTTT
* *
30967 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCA------TCCTTTT
* *
31000 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCA-------TCCTTTT
* * *
31035 AAGTCCACAACTCCATGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
31062 AAGTCTACAACTCCGTGGCA-CCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
31088 AAGTCCACAACTCCGTGGCATC
1 AAGTCCACAACTCCGTGGCATC
31110 TTTCTCCTTT
Statistics
Matches: 439, Mismatches: 57, Indels: 93
0.75 0.10 0.16
Matches are distributed among these distances:
26 25 0.06
27 134 0.31
28 6 0.01
29 24 0.05
30 5 0.01
31 26 0.06
32 19 0.04
33 58 0.13
34 130 0.30
35 11 0.03
36 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:30738 original size:95 final size:89
Alignment explanation
Indices: 30601--31147 Score: 410
Period size: 95 Copynumber: 6.0 Consensus size: 89
30591 TCTCTTCTCA
* *
30601 AAGTCCACAACTCTGTGGC-ATC-CTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAG
1 AAGTCCACAACTCCGTGGCAATCTTTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAG
*
30664 TCCACAACTCCGTGGAATCTTTTTCCTTTT
66 TCCACAACTCCGTGGTA-C-----CCTTTT
* * *
30694 AAGTCCACGACTCAGTGGCAATCTTTTTTAAGTCCACAATTCCGTGGCA-C-----CCTTTTAAG
1 AAGTCCACAACTCCGTGGCAATCTTTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAG
*
30753 TCCACAACTCCGTGGCACCCTTTT
66 TCCACAACTCCGTGGTACCCTTTT
* * * * *
30777 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCTGTGGCATTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCAATC---TT--TTTTAAGTCCACAACTCCGTGGCA-TCTTTTTCCT
* *
30842 TTTAAGTCCACATCTCTGTGGTACCCTTTT
60 TTTAAGTCCACAACTCCGTGGTACCCTTTT
* * *
30872 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAATTCCACAACTCCGTGGCA-C-----CCTT
1 AAGTCCACAACTCCGTGGCAATC---TT--TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTT
*
30931 TTAAGCCCACAACTCCGTGGCGCT-CTTTTTCCTTTT
61 TTAAGTCCACAACTCCGT-G-G-TAC-----CCTTTT
* * * * *
30967 AAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCA-----ATCTTTTTTAAGTCCACAACTCCGTGGCA-TCTTTTTCCT
*
31032 TTTAAGTCCACAACTCCATGGTACCCTTTT
60 TTTAAGTCCACAACTCCGTGGTACCCTTTT
* * *
31062 AAGTCTACAACTCCGTGGC-A-C-CTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTTAAG
1 AAGTCCACAACTCCGTGGCAATCTTTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAG
* * * *
31124 CCCACAAGTCAGTGGCACCCTTTT
66 TCCACAACTCCGTGGTACCCTTTT
31148 CAAAAGCCCA
Statistics
Matches: 374, Mismatches: 45, Indels: 77
0.75 0.09 0.16
Matches are distributed among these distances:
83 25 0.07
86 36 0.10
87 21 0.06
88 41 0.11
89 26 0.07
90 3 0.01
91 1 0.00
93 18 0.05
94 4 0.01
95 170 0.45
97 3 0.01
99 1 0.00
100 4 0.01
101 1 0.00
102 20 0.05
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (89 bp):
AAGTCCACAACTCCGTGGCAATCTTTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAG
TCCACAACTCCGTGGTACCCTTTT
Found at i:30748 original size:122 final size:125
Alignment explanation
Indices: 30538--31048 Score: 475
Period size: 122 Copynumber: 4.1 Consensus size: 125
30528 TCTCTTCTCA
* * ** * * *
30538 AAGTCCACAACTCAGTGGCATCTTTCTT-C-TCAAAGTCCACAACTTAGTGGCAATCTCTTC-TC
1 AAGTCCACAACTCCGTGGAATCTTT-TTCCTTTTAAGCCCACAACTCAGTGGCAATCT-TTCTTT
* * * *
30600 AAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
64 TAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
30661 AAGTCCACAACTCCGTGGAATCTTTTTCCTTTTAAGTCCACGACTCAGTGGCAATC-TT-TTTTA
1 AAGTCCACAACTCCGTGGAATCTTTTTCCTTTTAAGCCCACAACTCAGTGGCAATCTTTCTTTTA
* *
30724 AGTCCACAATTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA--C-----CCTTTT
66 AGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * * *
30777 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCTGTGGCATTCTTTTTCCT
1 AAGTCCACAACTCCGTGG-AATCTTTTTCCTTTTAAGCCCACAACTCAGTGGCAATC--TTT-CT
* * *
30842 TTTAAGTCCACATCTCTGTGGTACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
62 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * **
30906 AATTCCACAACTCCGTGGCA-C-----CCTTTTAAGCCCACAACTCCGTGGCGCTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGAATCTTTTTCCTTTTAAGCCCACAACTCAGTGGCAATC--TTT-CTT
* *
30965 TTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
63 TTAAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTC
31030 CTTTT
121 CTTTT
31035 AAGTCCACAACTCC
1 AAGTCCACAACTCC
31049 ATGGTACCCT
Statistics
Matches: 328, Mismatches: 37, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
116 23 0.07
117 32 0.10
120 2 0.01
121 1 0.00
122 149 0.45
123 24 0.07
124 23 0.07
127 2 0.01
128 4 0.01
129 68 0.21
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (125 bp):
AAGTCCACAACTCCGTGGAATCTTTTTCCTTTTAAGCCCACAACTCAGTGGCAATCTTTCTTTTA
AGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:30814 original size:34 final size:34
Alignment explanation
Indices: 30771--31147 Score: 312
Period size: 34 Copynumber: 12.0 Consensus size: 34
30761 TCCGTGGCAC
30771 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
30805 CCTTTTAAGCCCATAACTCTGTGGCATTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
30839 CCTTTTAAGTCCACATCTCTGTGGTA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
30866 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
**
30900 CCTTTTAATTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
30927 CCTTTTAAGCCCACAACTCCGTGGCGCTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
30961 CCTTTTAAGTCCACAACTCCATGGCAC-CTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
30994 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
* * *
31029 CCTTTTAAGTCCACAACTCCATGGTA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
31056 CCTTTTAAGTCTACAACTCCGTGGCA--------
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
31082 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
31115 CCTTTTAAGCCCACAAGTCAGTGGCACCCTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
31148 CAAAAGCCCA
Statistics
Matches: 282, Mismatches: 37, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
26 25 0.09
27 68 0.24
29 2 0.01
32 3 0.01
33 34 0.12
34 139 0.49
35 11 0.04
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:30870 original size:61 final size:61
Alignment explanation
Indices: 30805--31087 Score: 370
Period size: 61 Copynumber: 4.5 Consensus size: 61
30795 CACTCTTTTT
* * * * ** *
30805 CCTTTTAAGCCCATAACTCTGTGGCATTCTTTTTCCTTTTAAGTCCACATCTCTGTGGTAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCAC
* *
30866 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAATTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCAC
*
30927 CCTTTTAAGCCCACAACTCCGTGGCGCTCTTTTTCCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCAC
*
30988 CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGG
1 C-----C-TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGG
*
31053 TAC
59 CAC
* *
31056 CCTTTTAAGTCTACAACTCCGTGGCAC-CTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTT
31088 AAGTCCACAA
Statistics
Matches: 199, Mismatches: 16, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
60 5 0.03
61 131 0.66
62 4 0.02
63 1 0.01
66 1 0.01
67 4 0.02
68 53 0.27
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.36
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCAC
Found at i:31092 original size:26 final size:26
Alignment explanation
Indices: 31029--31112 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
31019 CACTCTTTTT
* *
31029 CCTTTTAAGTCCACAACTCCATGGTA
1 CCTTTTAAGTCCACAACTCCGTGGCA
*
31055 CCCTTTTAAGTCTACAACTCCGTGGCA
1 -CCTTTTAAGTCCACAACTCCGTGGCA
31082 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
*
31108 TCTTT
1 CCTTT
31113 CTCCTTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
26 29 0.56
27 23 0.44
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTCCGTGGCA
Found at i:31194 original size:29 final size:30
Alignment explanation
Indices: 31121--31244 Score: 134
Period size: 30 Copynumber: 4.3 Consensus size: 30
31111 TTCTCCTTTT
31121 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
31151 AAGCCCACAAGTCAGTGGCA-CCTCTTTC-A
1 AAGCCCACAAGTCAGTGGCACCCT-TTTCAA
* *
31180 GAGCCCACAAGTCAGTGGCA-AC-TTTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * ** *
31208 AAGCACATAAGTTGGTGGCGCCCTTTT--A
1 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
31236 AAGCCCACA
1 AAGCCCACA
31245 CAAGTTGGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
27 4 0.05
28 23 0.29
29 25 0.32
30 27 0.34
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACCCTTTTCAA
Found at i:31390 original size:39 final size:39
Alignment explanation
Indices: 31329--31567 Score: 183
Period size: 39 Copynumber: 5.7 Consensus size: 39
31319 ACTAATGTTA
* *
31329 CTGGCCTTGATTCAGCACATTGGCACAAGTTCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACAAGTTCAATATCG
* **
31368 CTGGTCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACTAATGTCG
1 CTGGCCTTGAATCAGCATATTGGCA-CAAGT-TC--A-A-T-A--TCG
*
31416 CTGGCCTTGAATCAGCATATTGGCACAAGTCCAATATCG
1 CTGGCCTTGAATCAGCATATTGGCACAAGTTCAATATCG
** *
31455 CTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTGAGACCAAT-G
1 CTGGCCTTGAATCAGCATATTGGCA-CAAGT-TC--A-A--TATCG
* * **
31500 TTACTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
1 ---CTGGCCTTGAATCAGCATATTGGCACAAGTTCAATATCG
31542 CTGGCCTTGAATCAGCATATTGGCAC
1 CTGGCCTTGAATCAGCATATTGGCAC
31568 CTTGTCTTTA
Statistics
Matches: 158, Mismatches: 22, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
39 74 0.47
40 6 0.04
41 6 0.04
42 2 0.01
43 4 0.03
44 4 0.03
45 2 0.01
46 5 0.03
47 4 0.03
48 51 0.32
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (39 bp):
CTGGCCTTGAATCAGCATATTGGCACAAGTTCAATATCG
Found at i:31438 original size:87 final size:87
Alignment explanation
Indices: 31271--31790 Score: 707
Period size: 87 Copynumber: 6.0 Consensus size: 87
31261 TCTTCTAAGT
* * * * **
31271 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACTTTTATCTTTAAGACTAATGTTACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-CTTGTCTTTAAGACCAATGTCGCTGGCCT
* *
31336 TGATTCAGCACATTGGCACAAGT
65 TGAATCAGCACATTGGCACAAGC
* * * *
31359 TCAATATCGCTGGTCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACTAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
31424 GAATCAGCATATTGGCACAAGT
66 GAATCAGCACATTGGCACAAGC
* * **
31446 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTGAGACCAATGTTACTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
31511 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
*
31533 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
31598 GAATCAGTACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
* * * * * *
31620 CCAATATCGTTGGCCCTAAATCAGTATATTGGTACCTTGTCTTTAAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
31685 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
* * * * * *
31707 CCAATATCGTTGGGCTTGAATCAGCATATTGGCACCTTCATCTTTAAGATCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCT
31772 TGAATCAGCACATTGGCAC
65 TGAATCAGCACATTGGCAC
31791 CTTAACCATC
Statistics
Matches: 387, Mismatches: 44, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
87 316 0.82
88 71 0.18
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:31642 original size:39 final size:39
Alignment explanation
Indices: 31599--31719 Score: 98
Period size: 48 Copynumber: 2.9 Consensus size: 39
31589 GCTAGCCTTG
31599 AATCAGTACATTGGCATAAGCCCAATATCGTTGGCCCTA
1 AATCAGTACATTGGCATAAGCCCAATATCGTTGGCCCTA
* * * * * *
31638 AATCAGTATATTGGTACCTTGTCTTTAAGACCAATATCGCTGGCCTTG
1 AATCAGTACATT-G------G-C-ATAAGCCCAATATCGTTGGCCCTA
*
31686 AATCAGCACATTGGCATAAGCCCAATATCGTTGG
1 AATCAGTACATTGGCATAAGCCCAATATCGTTGG
31720 GCTTGAATCA
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
39 27 0.44
40 2 0.03
41 1 0.02
46 1 0.02
47 2 0.03
48 29 0.47
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (39 bp):
AATCAGTACATTGGCATAAGCCCAATATCGTTGGCCCTA
Found at i:31725 original size:39 final size:39
Alignment explanation
Indices: 31663--31740 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
31653 ACCTTGTCTT
31663 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
31702 TAAGCCCAATATCGTTGGGCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
31741 CCTTCATCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:31823 original size:52 final size:49
Alignment explanation
Indices: 31702--31986 Score: 277
Period size: 49 Copynumber: 5.7 Consensus size: 49
31692 CACATTGGCA
* * * *
31702 TAAGCCCAATATCGTTGGGCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
31751 TAAGATCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT---CATCTT
*
31803 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
31852 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATT
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT
* * ** *
31902 CCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCGTCTT
1 --TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * * *
31951 CAAGTCTAATGTCGCTAGCCATGAATCAGTACATTG
1 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTG
31987 TCATTCTTCG
Statistics
Matches: 197, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
47 28 0.14
49 85 0.43
50 5 0.03
52 79 0.40
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:31882 original size:101 final size:101
Alignment explanation
Indices: 31702--31986 Score: 337
Period size: 101 Copynumber: 2.8 Consensus size: 101
31692 CACATTGGCA
* * * * *
31702 TAAGCCCAATATCGTTGGGCTTGAATCAGCATATTGGCACCTTCATCTTTAAGAT-CGATGTCGT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG-TCCAATGTCGT
*
31766 TGGCCTTGAATCAGCACATTGGCA-CCTTAACCA-TCTT
65 TGGCCTTGAATCAGCACATTGGCATCCTTAA-CATTC-C
* *
31803 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGTT
* *
31868 GGCCTTGAATCAGCATATTGGCATCTTTAACATTCC
66 GGCCTTGAATCAGCACATTGGCATCCTTAACATTCC
** * * * *
31904 TAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCGTCTTCAAGTCTAATGTCGCT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGTT
* * *
31967 AGCCATGAATCAGTACATTG
66 GGCCTTGAATCAGCACATTG
31987 TCATTCTTCG
Statistics
Matches: 159, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
99 35 0.22
100 1 0.01
101 116 0.73
102 7 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (101 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGTT
GGCCTTGAATCAGCACATTGGCATCCTTAACATTCC
Found at i:34815 original size:20 final size:21
Alignment explanation
Indices: 34774--34828 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
34764 AAATTTTATT
34774 ATATTTTA-ATTTTATTTAAA
1 ATATTTTATATTTTATTTAAA
34794 ATATTTTATA-TTTATATT-AA
1 ATATTTTATATTTTAT-TTAAA
*
34814 AT-TTTGATATTTTAT
1 ATATTTTATATTTTAT
34829 AATTCATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 6 0.19
20 22 0.71
21 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATATTTTATATTTTATTTAAA
Found at i:34823 original size:26 final size:26
Alignment explanation
Indices: 34794--34865 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
34784 TTTATTTAAA
*
34794 ATATTTTATATTTATATTAAATTTTG
1 ATATTTTATATTTATATTAAATTTAG
* *
34820 ATATTTTATAATTCATA-TATATTTAG
1 ATATTTTAT-ATTTATATTAAATTTAG
* *
34846 ATATTCATATATTTAGATTA
1 ATATT-TTATATTTATATTA
34866 TATTCGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 26 0.70
27 11 0.30
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (26 bp):
ATATTTTATATTTATATTAAATTTAG
Found at i:34839 original size:16 final size:17
Alignment explanation
Indices: 34820--34863 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
34810 TTAAATTTTG
*
34820 ATATTTTATA-ATTCAT
1 ATATTTTAGATATTCAT
34836 ATATATTTAGATATTCAT
1 ATAT-TTTAGATATTCAT
34854 ATA-TTTAGAT
1 ATATTTTAGAT
34864 TATATTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 5 0.20
18 9 0.36
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (17 bp):
ATATTTTAGATATTCAT
Found at i:38590 original size:2 final size:2
Alignment explanation
Indices: 38578--38611 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
38568 TGGCTTAACA
38578 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38612 ATTTTGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:40123 original size:30 final size:30
Alignment explanation
Indices: 40089--40148 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
40079 TAATTGGATA
* *
40089 TAAATTTAAAATTAAAAGTTTATTTGAATG
1 TAAATTAAAAATTAAAAATTTATTTGAATG
*
40119 TAAATTAAAAATTAAAAATTTATTTTAATG
1 TAAATTAAAAATTAAAAATTTATTTGAATG
40149 CAATAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (30 bp):
TAAATTAAAAATTAAAAATTTATTTGAATG
Found at i:40778 original size:7 final size:7
Alignment explanation
Indices: 40750--40786 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
40740 TATTTGATAT
40750 ATTATTA
1 ATTATTA
40757 A-TATT-
1 ATTATTA
40762 ATTATTA
1 ATTATTA
*
40769 ATTTTTA
1 ATTATTA
40776 ATTATTA
1 ATTATTA
40783 ATTA
1 ATTA
40787 ATAAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
5 1 0.04
6 8 0.31
7 17 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATTA
Found at i:40820 original size:19 final size:18
Alignment explanation
Indices: 40778--40820 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
40768 AATTTTTAAT
* *
40778 TATTAATTAATAAAACTA
1 TATTTATTAACAAAACTA
40796 TCATTTATTAACAAAACTAA
1 T-ATTTATTAACAAAACT-A
40816 TATTT
1 TATTT
40821 GACAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.86
20 2 0.10
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTTATTAACAAAACTA
Found at i:41240 original size:18 final size:18
Alignment explanation
Indices: 41217--41254 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
41207 AAATTAAGTT
*
41217 ATTTATTTAATTTTAAAA
1 ATTTATTTAATATTAAAA
41235 ATTTATTTAATATTAAAA
1 ATTTATTTAATATTAAAA
41253 AT
1 AT
41255 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATTTAATATTAAAA
Found at i:41278 original size:17 final size:20
Alignment explanation
Indices: 41258--41302 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
41248 TAAAAATAAA
41258 TAAAAATTATT-AA-AT-TT
1 TAAAAATTATTAAATATATT
*
41275 TAAAAA-AATTAAATATATT
1 TAAAAATTATTAAATATATT
41294 TAAAAATTA
1 TAAAAATTA
41303 AGTTGATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.14
17 8 0.36
18 2 0.09
19 8 0.36
20 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAATTATTAAATATATT
Found at i:41296 original size:26 final size:27
Alignment explanation
Indices: 41233--41303 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
41223 TTAATTTTAA
*
41233 AAATTTATTT-AATATTAAAAATAAAT
1 AAATATATTTAAATATTAAAAATAAAT
* * *
41259 AAAAAT-TATTAAATTTTAAAAA-AATT
1 AAATATAT-TTAAATATTAAAAATAAAT
*
41285 AAATATATTTAAAAATTAA
1 AAATATATTTAAATATTAA
41304 GTTGATTCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 1 0.03
26 23 0.66
27 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
AAATATATTTAAATATTAAAAATAAAT
Found at i:41386 original size:13 final size:15
Alignment explanation
Indices: 41370--41406 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
41360 AATTATGTAA
41370 TATATATTAT-TTT-
1 TATATATTATATTTG
*
41383 TATATTTTATATTTG
1 TATATATTATATTTG
41398 TATATATTA
1 TATATATTA
41407 GATAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 9 0.45
14 3 0.15
15 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TATATATTATATTTG
Found at i:41415 original size:33 final size:33
Alignment explanation
Indices: 41352--41418 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
41342 TTGATTTATT
* *
41352 TATTTTATAATTATGTAATATATATTATTTTTA
1 TATTTTATAATTATGTAATATAGATAATTTTTA
41385 TATTTTAT-ATT-TGTATATATTAGATAATTTTTA
1 TATTTTATAATTATGTA-ATA-TAGATAATTTTTA
41418 T
1 T
41419 TATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.13
32 6 0.20
33 20 0.67
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (33 bp):
TATTTTATAATTATGTAATATAGATAATTTTTA
Found at i:41531 original size:16 final size:16
Alignment explanation
Indices: 41498--41535 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
41488 AACTTAATAA
41498 AAAATATTAAATTATT
1 AAAATATTAAATTATT
*
41514 AAAA-ATTAAATTTTT
1 AAAATATTAAATTATT
*
41529 TAAATAT
1 AAAATAT
41536 ATATTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATTAAATTATT
Found at i:41891 original size:23 final size:23
Alignment explanation
Indices: 41865--41909 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
41855 ATTTAATTAA
41865 AAATT-TTATAAAAAAATATAAAT
1 AAATTATTA-AAAAAAATATAAAT
*
41888 AAATTATTAAAATAAATATAAA
1 AAATTATTAAAAAAAATATAAA
41910 AATAAAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATTATTAAAAAAAATATAAAT
Found at i:42821 original size:17 final size:16
Alignment explanation
Indices: 42800--42849 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
42790 TTATATTAAT
42800 TATATAAATATAAATA
1 TATATAAATATAAATA
42816 TAATATAAATAATTAAATA
1 T-ATATAAAT-A-TAAATA
*
42835 TAT-TAAATAAAAATA
1 TATATAAATATAAATA
42850 AAAATATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.17
16 2 0.07
17 13 0.43
18 3 0.10
19 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATATAAATATAAATA
Found at i:42827 original size:21 final size:21
Alignment explanation
Indices: 42803--42869 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 21
42793 TATTAATTAT
42803 ATAAATATAAATATAATATAA
1 ATAAATATAAATATAATATAA
42824 AT-AAT-TAAATAT-AT-TAA
1 ATAAATATAAATATAATATAA
* * *
42841 ATAAAAATAAAAATATTATAA
1 ATAAATATAAATATAATATAA
*
42862 AAAAATAT
1 ATAAATAT
42870 TTTTATTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 13 0.35
20 4 0.11
21 11 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAATATAAATATAATATAA
Found at i:42968 original size:15 final size:14
Alignment explanation
Indices: 42934--42967 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
42924 TAAATATATC
42934 ATATTATTTTTTAT
1 ATATTATTTTTTAT
42948 ATATTA-TTTTTAT
1 ATATTATTTTTTAT
42961 AT-TTATT
1 ATATTATT
42968 AAATATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 10 0.53
14 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTATTTTTTAT
Found at i:44065 original size:21 final size:20
Alignment explanation
Indices: 44040--44098 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
44030 AATTTCATTT
44040 TTTTATTTTCAAATAAAAAAA
1 TTTTATTTTCAAA-AAAAAAA
*
44061 TTTTA--TTCAAAAAATAAA
1 TTTTATTTTCAAAAAAAAAA
44079 TATTT-TTTTCAACAAAAAAA
1 T-TTTATTTTCAA-AAAAAAA
44099 CTAATTGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 7 0.22
19 9 0.28
20 5 0.16
21 11 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTATTTTCAAAAAAAAAA
Found at i:44089 original size:20 final size:18
Alignment explanation
Indices: 44045--44098 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
44035 CATTTTTTTA
44045 TTTTCAAATAAAAAAATTT
1 TTTTCAAA-AAAAAAATTT
*
44064 TATTCAAAAAATAAATATTT
1 TTTTCAAAAAA-AAA-ATTT
44084 TTTTCAACAAAAAAA
1 TTTTCAA-AAAAAAA
44099 CTAATTGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 13 0.43
21 4 0.13
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTTCAAAAAAAAAATTT
Found at i:45124 original size:18 final size:20
Alignment explanation
Indices: 45103--45152 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
45093 CTAAATAGAT
45103 ATTTAACTATTG-ATT-TTA
1 ATTTAACTATTGAATTGTTA
*
45121 ATTTAATTATTGCAATTGTTA
1 ATTTAACTATTG-AATTGTTA
*
45142 ATTTTACTATT
1 ATTTAACTATT
45153 ATAATGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (20 bp):
ATTTAACTATTGAATTGTTA
Found at i:49186 original size:13 final size:14
Alignment explanation
Indices: 49160--49203 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
49150 ATAAAAATTC
49160 AAAGAATTAAAAGAA
1 AAAGAA-TAAAAGAA
*
49175 AAAGTA-AAAAGAA
1 AAAGAATAAAAGAA
*
49188 GAAGAATAAAAGAA
1 AAAGAATAAAAGAA
49202 AA
1 AA
49204 GATATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.46
14 8 0.33
15 5 0.21
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAGAATAAAAGAA
Found at i:49290 original size:2 final size:2
Alignment explanation
Indices: 49283--49332 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
49273 TATTCAGAGG
49283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49325 AT AT AT AT
1 AT AT AT AT
49333 TGTCTTTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55557 original size:28 final size:27
Alignment explanation
Indices: 55443--55574 Score: 78
Period size: 28 Copynumber: 4.9 Consensus size: 27
55433 TGATAAAATT
* **
55443 TTATTATAT-TTTA-ATTTTATTTAAA
1 TTATTATATATTTATATTATATTTTGA
* * *
55468 ATATTTTATATTTATATTAAATTTTGA
1 TTATTATATATTTATATTATATTTTGA
* *
55495 TAAGTT-TATAATTTATATATATATTTTAAA
1 TTA-TTATAT-ATTTATAT-TATATTTT-GA
*
55525 ATATTCATATATTTATATTATA-TTTGA
1 TTATT-ATATATTTATATTATATTTTGA
*
55552 TTTATT-TATA-TTATATCATATTT
1 -TTATTATATATTTATATTATATTT
55575 ATGTTATATC
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
25 16 0.20
26 10 0.12
27 13 0.16
28 17 0.21
29 13 0.16
30 10 0.12
31 3 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTATATATTTATATTATATTTTGA
Found at i:55573 original size:16 final size:16
Alignment explanation
Indices: 55554--55584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55544 ATATTTGATT
55554 TATTTATATTATATCA
1 TATTTATATTATATCA
*
55570 TATTTATGTTATATC
1 TATTTATATTATATC
55585 TTAATTTGAT
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:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTTATATTATATCA
Found at i:55574 original size:20 final size:20
Alignment explanation
Indices: 55534--55583 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
55524 AATATTCATA
*
55534 TATTTATATTATATTTGATT
1 TATTTATATTATATATGATT
55554 TATTTATATTATATCAT-ATT
1 TATTTATATTATAT-ATGATT
55574 TATGTTATAT
1 TAT-TTATAT
55584 CTTAATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TATTTATATTATATATGATT
Found at i:70922 original size:14 final size:14
Alignment explanation
Indices: 70903--70936 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
70893 AAAATGAAAT
70903 TACCTTTCCAACGG
1 TACCTTTCCAACGG
*
70917 TACCTTTCCAATGG
1 TACCTTTCCAACGG
70931 TACCTT
1 TACCTT
70937 GTTTACCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (14 bp):
TACCTTTCCAACGG
Found at i:75960 original size:1 final size:1
Alignment explanation
Indices: 75954--76017 Score: 65
Period size: 1 Copynumber: 64.0 Consensus size: 1
75944 GAGTTCCCTT
* * * * * * *
75954 AAAAAAAAACAAAAAAAAAACAACAACAAAAAAAAAAAACAAAAAAACAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
76018 GTGCAAAGGC
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:75973 original size:14 final size:14
Alignment explanation
Indices: 75954--76017 Score: 92
Period size: 14 Copynumber: 4.4 Consensus size: 14
75944 GAGTTCCCTT
75954 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
*
75968 AAAAAACAACAACAAA
1 AAAAAAAAAC-A-AAA
75984 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
*
75998 AAACAAAAACAAAA
1 AAAAAAAAACAAAA
76012 AAAAAA
1 AAAAAA
76018 GTGCAAAGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
14 30 0.68
15 2 0.05
16 12 0.27
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:75990 original size:30 final size:29
Alignment explanation
Indices: 75954--76017 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
75944 GAGTTCCCTT
75954 AAAAAAAAACAAAAAAA-AAACAACAACAAA
1 AAAAAAAAACAAAAAAACAAA-AACAA-AAA
75984 AAAAAAAAACAAAAAAACAAAAACAAAAA
1 AAAAAAAAACAAAAAAACAAAAACAAAAA
76013 AAAAA
1 AAAAA
76018 GTGCAAAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 8 0.24
30 22 0.67
31 3 0.09
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (29 bp):
AAAAAAAAACAAAAAAACAAAAACAAAAA
Found at i:75997 original size:27 final size:26
Alignment explanation
Indices: 75954--76017 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
75944 GAGTTCCCTT
*
75954 AAAAAAAAACAAAAAAAAAACAACAAC
1 AAAAAAAAA-AAAAAAAAAACAAAAAC
75981 AAAAAAAAAAAACAAAAAAACAAAAAC
1 AAAAAAAAAAAA-AAAAAAACAAAAAC
76008 AAAAAAAAAA
1 AAAAAAAAAA
76018 GTGCAAAGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAAAACAAAAAC
Found at i:77285 original size:31 final size:31
Alignment explanation
Indices: 77248--77349 Score: 154
Period size: 31 Copynumber: 3.3 Consensus size: 31
77238 ATACCTTCTT
77248 AAAGCCCACGATTCAGTGGCATCTTTCCTTC
1 AAAGCCCACGATTCAGTGGCATCTTTCCTTC
* *
77279 TAAGCCCACGACTCAGTGGCAATCTCTT-C-TC
1 AAAGCCCACGATTCAGTGGC-ATCT-TTCCTTC
77310 AAAGCCCACGATTCAGTGGCATCTTTCCTTC
1 AAAGCCCACGATTCAGTGGCATCTTTCCTTC
77341 AAAGCCCAC
1 AAAGCCCAC
77350 AACTCCGTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.03
30 5 0.08
31 49 0.78
32 5 0.08
33 2 0.03
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (31 bp):
AAAGCCCACGATTCAGTGGCATCTTTCCTTC
Found at i:77339 original size:62 final size:62
Alignment explanation
Indices: 77242--77361 Score: 204
Period size: 62 Copynumber: 1.9 Consensus size: 62
77232 CTTCAAATAC
* * *
77242 CTTCTTAAAGCCCACGATTCAGTGGCATCTTTCCTTCTAAGCCCACGACTCAGTGGCAATCT
1 CTTCTCAAAGCCCACGATTCAGTGGCATCTTTCCTTCAAAGCCCACAACTCAGTGGCAATCT
*
77304 CTTCTCAAAGCCCACGATTCAGTGGCATCTTTCCTTCAAAGCCCACAACTCCGTGGCA
1 CTTCTCAAAGCCCACGATTCAGTGGCATCTTTCCTTCAAAGCCCACAACTCAGTGGCA
77362 CCTTTTTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (62 bp):
CTTCTCAAAGCCCACGATTCAGTGGCATCTTTCCTTCAAAGCCCACAACTCAGTGGCAATCT
Found at i:77381 original size:37 final size:37
Alignment explanation
Indices: 77331--77682 Score: 661
Period size: 37 Copynumber: 9.5 Consensus size: 37
77321 TTCAGTGGCA
*
77331 TCTTTCCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
77368 TCTTTCCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
77405 TCTTTTCTTCAAAGCCCACAACTCCGTGGTACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
77442 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
77479 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
77516 TCTTTCCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
77553 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
77590 T-TTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
77626 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
77663 TCTTTTCTTCAAAGCCCACA
1 TCTTTTCTTCAAAGCCCACA
77683 CCAGTCGGTG
Statistics
Matches: 309, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
36 36 0.12
37 273 0.88
ACGTcount: A:0.19, C:0.36, G:0.11, T:0.35
Consensus pattern (37 bp):
TCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:77936 original size:95 final size:95
Alignment explanation
Indices: 77750--78881 Score: 2153
Period size: 95 Copynumber: 11.9 Consensus size: 95
77740 CACCTTCTTT
*
77750 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTTCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
77812 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
77842 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
77907 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
*
77937 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCTTCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78002 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
78032 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78097 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
78127 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78192 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
78222 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78287 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
78317 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78382 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
*
78412 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78477 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
*
78507 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAGTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78572 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
* *
78602 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCTAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78667 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
*
78697 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAGTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78762 TAGCTGGCCTTGAATCAGCACATTGGCACC
66 TAGCTGGCCTTGAATCAGCACATTGGCACC
* **
78792 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCCATCTTTAAGATCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
78857 TAGCTGGCCTTGAATCAGCACATTG
66 TAGCTGGCCTTGAATCAGCACATTG
78882 ACATCTTTTT
Statistics
Matches: 1021, Mismatches: 16, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
92 43 0.04
94 2 0.00
95 976 0.96
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (95 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:79588 original size:13 final size:13
Alignment explanation
Indices: 79570--79594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79560 CATAAAGTGT
79570 TGTATCGATACAA
1 TGTATCGATACAA
79583 TGTATCGATACA
1 TGTATCGATACA
79595 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:79592 original size:33 final size:33
Alignment explanation
Indices: 79550--79616 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
79540 ATCAACGATT
79550 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
79583 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
79616 T
1 T
79617 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:79675 original size:13 final size:13
Alignment explanation
Indices: 79657--79681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79647 ATCACTTAAA
79657 TGTATCGATACAT
1 TGTATCGATACAT
79670 TGTATCGATACA
1 TGTATCGATACA
79682 CTGATCTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86238 original size:57 final size:57
Alignment explanation
Indices: 86150--87539 Score: 1497
Period size: 57 Copynumber: 24.2 Consensus size: 57
86140 CACCTTTTCC
86150 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
86207 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCAACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
86264 AAAGCCCACAAGTCCGTGGCATCTTTTTCGAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* ** * *
86321 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTTGTGGCATCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCA
* * * * * *
86380 AAAGCCCATAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCCA-TGG-AATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGT-CAGTGGCAA-C-CTTCA
* * *
86437 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTTTC-
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC----TTCA
* *
86495 AAAGCCCATAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
86552 AAAGCCCATAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * *
86609 AAAGCCTACAAGTCAGTGGCACCATTTTCCAAAGCCCACAAGTCTGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * * * *
86668 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCTACAAGTTCA-TGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAG-TCAGTGGCAAC-CTTCA
* * * * * *
86725 AAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCA
* * * *
86783 AAAGACCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCACCCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * * * * *
86840 AAAGCCCACAAGTTAGTGGCAAC-CTTCAAAAGCCCACAAGTCCGTGCCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
86897 AAAGCCCACAAGTTC-GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAG-TCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
86954 AAAGCCCACAAGTCCGT----TCTTTTCCAAAGCCCACAAGTCAGTGGAAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
87007 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCCGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * * * * * *
87066 AAAGCCTACAAGTCAGTGGCAAC-CTTCAAAAGCTCACAAGTCCGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * *
87123 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGC-ACCATTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC---TTCA
*
87181 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
87238 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * *
87295 AAAGCCCACAAGTCAGTGGCACCTTTTTCCAAAGCCCACAAGTCCGTGACATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * * *
87354 AAAGCCCACAAGTCAGTGGCACCTTTTTCCAAAGCCCACAAGTCCGTGACATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * *
87413 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCATAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
87469 AAAGCCCACAAGTCAGTGACACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
87527 AAAGCACACAAGT
1 AAAGCCCACAAGT
87540 TGGTGCAACC
Statistics
Matches: 1170, Mismatches: 121, Indels: 83
0.85 0.09 0.06
Matches are distributed among these distances:
53 51 0.04
56 63 0.05
57 577 0.49
58 248 0.21
59 222 0.19
60 9 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:86372 original size:87 final size:87
Alignment explanation
Indices: 86150--87539 Score: 1429
Period size: 87 Copynumber: 16.1 Consensus size: 87
86140 CACCTTTTCC
* * *
86150 AAAGCCCACAAGTCAGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGC
* * *
86212 CCACAAGTCAGTGGCATCTTTTCC
65 CCACAAGTCAGTGGCAAC-CTTCA
* * * *
86236 AAAGCCAACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCCGTGGCATCTTTTTCGAAGCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
86299 CACAAGTCAGTGGCAACCTTCA
66 CACAAGTCAGTGGCAACCTTCA
* **
86321 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTTGTGGCATCTTTTTCAAAGCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
*
86386 CATAAGTCAGTGGCAACCTTCA
66 CACAAGTCAGTGGCAACCTTCA
* * *
86408 AAAGCCCACAAGTCCA-TGG-AATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAG
1 AAAGCCCACAAGT-CAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAG
86469 CCCACAAGTCAGTGGC-ACCTTTTTTC-
64 CCCACAAGTCAGTGGCAACC----TTCA
* * * * *
86495 AAAGCCCATAAGTCCGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGC
* * * * *
86557 CCATAAGTCCGTGGCATCTTTTCC
65 CCACAAGTCAGTGGCAAC-CTTCA
* * * * *
86581 AAAGCCCACAAGTTAGTGGCAACC--TTCAAAAGCCTACAAGTCAGTGGCACCATTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATC-TTTTTCAAAGC
* * * *
86644 CCACAAGTCTGTGGCATCTTTTCC
65 CCACAAGTCAGTGGCAAC-CTTCA
* * *
86668 AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCTACAAGTTCA-TGGCATCTTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAG-TCAGTGGCATCTTTTTCAAAGC
*
86730 CCACAAGTCAGTGGCAACCTTTA
65 CCACAAGTCAGTGGCAACCTTCA
* * * * *
86753 AAAGCCTACAAGTCAGTGGCACCCTTTTCCAAAGACCACAAGTCCGTGGCATCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
* *
86818 CACAAGTTAGTGGCACCCTTCA
66 CACAAGTCAGTGGCAACCTTCA
* * * * *
86840 AAAGCCCACAAGTTAGTGGCAACC--TTCAAAAGCCCACAAGTCCGTGCCATCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
* * *
86903 CACAAGTTC-GTGGCATCTTTTCC
66 CACAAG-TCAGTGGCAAC-CTTCA
* * *
86926 AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCCGT----TCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
*
86985 CACAAGTCAGTGGAAACCTTCA
66 CACAAGTCAGTGGCAACCTTCA
* * *
87007 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
*
87072 TACAAGTCAGTGGCAACCTTCA
66 CACAAGTCAGTGGCAACCTTCA
* * * * *
87094 AAAGCTCACAAGTCCGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGC
*
87156 CCACAAGTCAGTGGC-ACCATTTTCC
65 CCACAAGTCAGTGGCAACC---TTCA
* * * *
87181 AAAGCCCACAAGTCCGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGC
* * * *
87243 CCACAAGTCCGTGGCATCTTTTCC
65 CCACAAGTCAGTGGCAAC-CTTCA
* * *
87267 AAAGCCCACAAGTCAGTGGTAACC--TTCAAAAGCCCACAAGTCAGTGGCACCTTTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTT-CAAAGC
* * * * *
87330 CCACAAGTCCGTGACATCTTTTCC
65 CCACAAGTCAGTGGCAAC-CTTCA
* * *
87354 AAAGCCCACAAGTCAGTGGC-ACCTTTTTCCAAAGCCCACAAGTCCGTGACATCTTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGCAACC-TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGC
87418 CCACAAGTCAGTGGCAACCTTCA
65 CCACAAGTCAGTGGCAACCTTCA
* * * * *
87441 AAAGCCCATAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGACACCCTTTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGC
87504 CCACAAGTCAGTGGCAACCTTCA
65 CCACAAGTCAGTGGCAACCTTCA
*
87527 AAAGCACACAAGT
1 AAAGCCCACAAGT
87540 TGGTGCAACC
Statistics
Matches: 1140, Mismatches: 116, Indels: 96
0.84 0.09 0.07
Matches are distributed among these distances:
81 28 0.02
82 26 0.02
83 20 0.02
84 11 0.01
85 240 0.21
86 255 0.22
87 496 0.44
88 37 0.03
89 27 0.02
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCC
CACAAGTCAGTGGCAACCTTCA
Found at i:86402 original size:144 final size:143
Alignment explanation
Indices: 86150--87519 Score: 1524
Period size: 144 Copynumber: 9.6 Consensus size: 143
86140 CACCTTTTCC
* * * * *
86150 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCC
* *
86213 CACAAGTCAGTGGCATCTTTTCCAAAGCCAACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTC
65 CACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTC
* * *
86278 CGTGGCATCTTTTTC-
130 AGTGGCAAC--CTTCA
*
86293 GAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
** *
86358 ACAAGTTTGTGGCATCTTTTTCAAAGCCCATAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCC
66 ACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGT-C
* *
86423 A-TGG-AATCTTTTCC
130 AGTGGCAA-C-CTTCA
* *
86437 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTTTCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
* * * * *
86502 ATAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCATAAGTCC
66 ACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
* * *
86567 GTGGCATCTTTTCC
131 GTGGCAAC-CTTCA
* * *
86581 AAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCTACAAGTCAGTGGCACCATTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
* * *
86646 ACAAGTCTGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCTACAAGTTC
66 ACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAG-TC
* * *
86711 A-TGGCATCTTTTCC
130 AGTGGCAAC-CTTCA
* * *
86725 AAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCTACAAGTCAGTGGCACCCTTTTCCAAAGACC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
* * * * *
86790 ACAAGTCCGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCACCCTTCAAAAGCCCACAAGTTA
66 ACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
86855 GTGGCAACCTTCA
131 GTGGCAACCTTCA
* * * * * *
86868 AAAGCCCACAAGTCCGTGCCATCTTTTCCAAAGCCCACAAGTTC-GTGGCA-TCTTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAG-TCAGTGGCACCCTTTTCCAAAGC
* * * * ** *
86931 CCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCCGT-TC--TTTTCCAAAGCCCACAAG
64 CCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAG
*
86991 TCAGTGGAAACCTTCA
128 TCAGTGGCAACCTTCA
* * * *
87007 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCCGTGGCA-TCTTTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGC
* * * * * * * *
87071 CTACAAGTCAGTGGCAAC--CTTCAAAAGCTCACAAGTCCGTGGCATCTTTTCCAAAGCCCACAA
64 CCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAA
87134 GTCAGTGGCAACCTTCA
127 GTCAGTGGCAACCTTCA
* * *
87151 AAAGCCCACAAGTCAGTGGC-ACCATTTTCCAAAGCCCACAAGTCCGTGGCA-TCTTTTCCAAAG
1 AAAGCCCACAAGTCAGTGGCAACC---TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAG
* * * * * *
87214 CCCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCACA
63 CCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACA
*
87277 AGTCAGTGGTAACCTTCA
126 AGTCAGTGGCAACCTTCA
* * * *
87295 AAAGCCCACAAGTCAGTGGC-ACCTTTTTCCAAAGCCCACAAGTCCGTGACA-TCTTTTCCAAAG
1 AAAGCCCACAAGTCAGTGGCAACC---TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAG
* * * * * *
87358 CCCACAAGTCAGTGGCACCTTTTTCCAAAGCCCACAAGTCCGTGACATCTTTTCCAAAGCCCACA
63 CCCACAAGTCAGTGGCATCTTTTT-CAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACA
87423 AGTCAGTGGCAACCTTCA
126 AGTCAGTGGCAACCTTCA
* * *
87441 AAAGCCCATAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGACACCCTTTTCAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
87506 ACAAGTCAGTGGCA
66 ACAAGTCAGTGGCA
87520 ACCTTCAAAA
Statistics
Matches: 1112, Mismatches: 90, Indels: 48
0.89 0.07 0.04
Matches are distributed among these distances:
139 51 0.05
140 73 0.07
141 4 0.00
142 41 0.04
143 82 0.07
144 748 0.67
145 33 0.03
146 76 0.07
147 4 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (143 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
ACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
GTGGCAACCTTCA
Found at i:87629 original size:21 final size:21
Alignment explanation
Indices: 87605--87671 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
87595 ATATCGCTGG
87605 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
*
87626 CCTTTAA--AGCAATATCGCTGG--
1 CCTTGAATCAGC-ATAT---TGGCA
87647 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
87668 CCTT
1 CCTT
87672 TAAACCAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
19 6 0.17
20 4 0.11
21 16 0.44
22 4 0.11
23 6 0.17
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:87659 original size:23 final size:23
Alignment explanation
Indices: 87593--87659 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 23
87583 CTTCTAAGTC
87593 CAATATCGCTGGCCTTGAATCAG
1 CAATATCGCTGGCCTTGAATCAG
*
87616 C-ATAT---TGGCACCTTTAA--AG
1 CAATATCGCTGG--CCTTGAATCAG
87635 CAATATCGCTGGCCTTGAATCAG
1 CAATATCGCTGGCCTTGAATCAG
87658 CA
1 CA
87660 TATTGGCACC
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
19 6 0.18
20 4 0.12
21 12 0.35
22 4 0.12
23 8 0.24
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (23 bp):
CAATATCGCTGGCCTTGAATCAG
Found at i:87740 original size:49 final size:49
Alignment explanation
Indices: 87582--87995 Score: 368
Period size: 49 Copynumber: 8.8 Consensus size: 49
87572 GGTGGCATCT
* *
87582 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
*
87632 -----AAG--CAATATCGCTGGCCTTGAATCAGCATATTGGCA-C----
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* *
87669 -CTTTAA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * *
87716 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGTCATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* *
87765 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCA-C----
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * *
87809 -CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGTATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * *
87857 TCTTTAAGTCTAATATCGTTGGCATTGAATCAGCATATTGGCATCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * * ** * *
87906 ACATTCCTAAGCCCAATGTCGTTGGCCTTGTCTAAGCACATTGGCA-CTCT-
1 TC-TT--TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * *
87956 TCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
87996 TCATTCTTCG
Statistics
Matches: 301, Mismatches: 41, Indels: 47
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.01
42 64 0.21
43 38 0.13
44 4 0.01
47 28 0.09
48 7 0.02
49 120 0.40
50 3 0.01
51 3 0.01
52 31 0.10
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
Found at i:87843 original size:92 final size:92
Alignment explanation
Indices: 87717--87906 Score: 310
Period size: 92 Copynumber: 2.1 Consensus size: 92
87707 GCATCTTTAT
87717 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGTCATCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGTCATCTTCATCTTTAAGTCCAATATC
*
87782 GCTGGCCTTGAATCAACATATTGGCAC
66 GCTGGCCTTGAATCAGCATATTGGCAC
* *
87809 CTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGT-ATCTTCATCTTTAAGTCTAATAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATT-GTCATCTTCATCTTTAAGTCCAATAT
* * *
87873 CGTTGGCATTGAATCAGCATATTGGCAT
65 CGCTGGCCTTGAATCAGCATATTGGCAC
87901 CTTTAA
1 CTTTAA
87907 CATTCCTAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 89 0.98
93 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGTCATCTTCATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCATATTGGCAC
Found at i:87860 original size:141 final size:140
Alignment explanation
Indices: 87574--88004 Score: 497
Period size: 141 Copynumber: 3.1 Consensus size: 140
87564 CACAAGTTGG
* * *
87574 TGGCATCTTC-T-TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-T-TTA
1 TGGCATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
* *
87632 AAG-CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA-ACCAATGTCGCTGGCCTTGA
66 AAGCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTGA
87695 ATCAGCACAT
131 ATCAGCACAT
* * *
87705 TGGCATCTTTATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGTCATCTTCATCTTT
1 TGGCATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
*
87770 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTAAGTCCAATGTCGTTGGCCTTG
66 AAG-CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTG
87835 AATCAGCACAT
130 AATCAGCACAT
* * * * *
87846 TGGTATCTTCATCTTTAAGTCTAATATCGTTGGCATTGAATCAGCATATTGGCATCTTTAACATT
1 TGGCATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATC-TT
* * * *
87911 CCTAAGCCCAATGTCGTTGGCCTTG--TCTAAGCACATTGGCACTCTTCTTCAAGTCTAATGTCG
65 --TAAG-CCAATATCGCTGGCCTTGAATC-AA-CATATTGGCAC-C-T-TT-AAGTCCAATGTCG
*
87974 CTGGCCATGAATCAGCACAT
121 CTGGCCTTGAATCAGCACAT
*
87994 TGTCATTCTTC
1 TGGCA-TCTTC
88005 GCATCTTCGA
Statistics
Matches: 254, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
131 9 0.04
132 1 0.00
133 37 0.15
134 1 0.00
136 1 0.00
137 1 0.00
138 5 0.02
140 39 0.15
141 82 0.32
142 4 0.02
143 2 0.01
144 30 0.12
145 1 0.00
146 1 0.00
147 2 0.01
148 33 0.13
149 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (140 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
AAGCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTGA
ATCAGCACAT
Found at i:96917 original size:16 final size:17
Alignment explanation
Indices: 96896--96933 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
96886 TATGTTTTTG
96896 AAATTTTT-TTATTGTT
1 AAATTTTTATTATTGTT
*
96912 AAATTTTTATTATTTTT
1 AAATTTTTATTATTGTT
96929 AAATT
1 AAATT
96934 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
AAATTTTTATTATTGTT
Found at i:101042 original size:35 final size:38
Alignment explanation
Indices: 100997--101071 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 38
100987 ATATAAAAAT
100997 AATATAATTAATATAAT-ATTTATAA-ATTTT-T-TTTA
1 AATATAATTAATATAATAATTT-TAATATTTTGTATTTA
101032 AATATAATTAATATAATAATTTTAATATTTTGTATTTA
1 AATATAATTAATATAATAATTTTAATATTTTGTATTTA
101070 AA
1 AA
101072 ATTTTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
35 20 0.56
36 9 0.25
37 1 0.03
38 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (38 bp):
AATATAATTAATATAATAATTTTAATATTTTGTATTTA
Found at i:103959 original size:30 final size:30
Alignment explanation
Indices: 103887--103962 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
103877 TTGATTTATG
* * *
103887 TTAAAAGTTTATTTAAGTATAAATTTAAGA
1 TTAAAAGTTTATTTGAGTATAAATTAAAAA
* *
103917 TT-AATGTCTTATTTGTGTATAAATTAAAAA
1 TTAAAAGT-TTATTTGAGTATAAATTAAAAA
103947 TTAAAAGTTTATTTGA
1 TTAAAAGTTTATTTGA
103963 ATAAATATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 4 0.11
30 29 0.78
31 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (30 bp):
TTAAAAGTTTATTTGAGTATAAATTAAAAA
Found at i:104416 original size:26 final size:28
Alignment explanation
Indices: 104387--104438 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
104377 TATATTTGAC
*
104387 AAAATTCAGTA-AAT-TAATAAATATAT
1 AAAATTCAATATAATATAATAAATATAT
*
104413 AAAATTCAATATTATATAATAAATAT
1 AAAATTCAATATAATATAATAAATAT
104439 GAGTTGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 2 0.09
28 10 0.45
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAATTCAATATAATATAATAAATATAT
Found at i:104967 original size:17 final size:17
Alignment explanation
Indices: 104945--104986 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
104935 GTTAAATTAT
104945 TTATTTAAT-TTTAAAGA
1 TTATTTAATATTTAAA-A
104962 TTATTTAATATTTAAAA
1 TTATTTAATATTTAAAA
*
104979 TAATTTAA
1 TTATTTAA
104987 ATAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTATTTAATATTTAAAA
Found at i:105004 original size:19 final size:19
Alignment explanation
Indices: 104980--105020 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
104970 TATTTAAAAT
*
104980 AATTTAAATAA-AAATATTA
1 AATTTAAAAAATAAAT-TTA
104999 AATTTAAAAAATAAATTTA
1 AATTTAAAAAATAAATTTA
105018 AAT
1 AAT
105021 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTTAAAAAATAAATTTA
Found at i:105025 original size:31 final size:35
Alignment explanation
Indices: 104975--105050 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
104965 TTTAATATTT
104975 AAAAT-AATTTAAATAAAAATATT-A-A-ATTTAA
1 AAAATAAATTTAAATAAAAATATTAACATATTTAA
105006 AAAATAAATTTAAAT-AAAATATTAAACATATTTAA
1 AAAATAAATTTAAATAAAAATATT-AACATATTTAA
105041 AAAATAAATT
1 AAAATAAATT
105051 GAGTCTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
31 13 0.32
32 9 0.22
33 1 0.03
34 1 0.03
35 16 0.40
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (35 bp):
AAAATAAATTTAAATAAAAATATTAACATATTTAA
Found at i:105132 original size:8 final size:8
Alignment explanation
Indices: 105121--105147 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
105111 TAATATATAT
105121 TATTTTTA
1 TATTTTTA
105129 TATTTTTA
1 TATTTTTA
105137 TATTTTTA
1 TATTTTTA
105145 TAT
1 TAT
105148 ATTAAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTTA
Found at i:105277 original size:15 final size:14
Alignment explanation
Indices: 105245--105297 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
105235 TAATAAAAAT
* *
105245 ATTAAATTATTAAG
1 ATTAAATTTTTAAA
105259 ATTAAATCTTTTAAA
1 ATTAAAT-TTTTAAA
105274 ATTATATATTTTTAAA
1 ATTA-A-ATTTTTAAA
*
105290 AATAAATT
1 ATTAAATT
105298 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.30
15 10 0.30
16 11 0.33
17 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
ATTAAATTTTTAAA
Found at i:108956 original size:20 final size:20
Alignment explanation
Indices: 108903--108957 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
108893 AAATTCCCAG
**
108903 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
108923 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
108943 ATGTATCGATACATT
1 ATGTATCGATACATT
108958 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:109011 original size:19 final size:18
Alignment explanation
Indices: 108987--109049 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
108977 AGCGATACAT
108987 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
109006 TGTATCGATAC--AC---
1 TGTATCGATACAAACTTA
109019 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
109038 TGTATCGATACA
1 TGTATCGATACA
109050 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
16 4 0.11
19 23 0.61
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:109023 original size:32 final size:32
Alignment explanation
Indices: 108979--109049 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
108969 AGCTTCGTAG
*
108979 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACACTGTATCGATACAAAACTTATGTAT
*
109011 CGATACACTGTATCGATACAACACTTATGTAT
1 CGATACACTGTATCGATACAAAACTTATGTAT
109043 CGATACA
1 CGATACA
109050 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACACTGTATCGATACAAAACTTATGTAT
Found at i:112205 original size:2 final size:2
Alignment explanation
Indices: 112194--112223 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
112184 GTTGGCACTC
112194 TA TA -A 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 TA TA T
112224 TTATTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112415 original size:27 final size:27
Alignment explanation
Indices: 112377--112431 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
112367 AAGCTAGCCC
112377 ACACCATTAAAGGTTATATAATTTAGA
1 ACACCATTAAAGGTTATATAATTTAGA
112404 ACACCATTAAAGGTTATATAATTTAGA
1 ACACCATTAAAGGTTATATAATTTAGA
112431 A
1 A
112432 TTGAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (27 bp):
ACACCATTAAAGGTTATATAATTTAGA
Found at i:112967 original size:179 final size:182
Alignment explanation
Indices: 112739--113102 Score: 511
Period size: 186 Copynumber: 2.0 Consensus size: 182
112729 ATTTTTTACC
* * **
112739 AAAATAAAATATCAAATCTATTAAAATTTTGAGTTAAGATTGTTTTTTGGTTTTGATTCAGTTGG
1 AAAATAAAATATCAAATCTATTAAAATTTTAAGTTAAGATTGTTTTTTGGTTTTAACACAGTTGG
* * *
112804 GGTTACGTTAGGTTAACAAGATTAAG-AAT-AT-CATA-AAATATTAGATTATTTCGATTTTAAA
66 AGTTACGTTAGGTTAACAAGATTAAGAAATCATAAATATAAATATTAAATTATTTCGATTTTAAA
* * *
112865 TTACTTTAAATTGTATTAAGTTTGATATTAAATTATTTCACTTTCAAAACTT
131 TTAATTTAAATCGTATCAAGTTTGATATTAAATTATTTCACTTTCAAAACTT
* *
112917 AAAATAAAATATCAAAGTTTATTAGAATTTTAAGTTAAGATTGTTTTTTGGTTTTAACACAGTTG
1 AAAATAAAATATCAAA-TCTATTAAAATTTTAAGTTAAGATTGTTTTTTGGTTTTAACACAGTTG
* *
112982 GAGTTATGTTAGGTTAATAAGATTAAGAAAATCATAAAATATTAAATATTAAATTATTTCGATTT
65 GAGTTACGTTAGGTTAACAAGATTAAG-AAATCAT-AAATA-TAAATATTAAATTATTTCGATTT
* * *
113047 TAAATTAATTTAAATCGTATCAAGTTTGATATTGAGTTATTTTACTTTCAAAACTT
127 TAAATTAATTTAAATCGTATCAAGTTTGATATTAAATTATTTCACTTTCAAAACTT
113103 TTAAATTTAG
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
178 16 0.10
179 66 0.41
181 3 0.02
182 2 0.01
184 3 0.02
186 71 0.44
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.43
Consensus pattern (182 bp):
AAAATAAAATATCAAATCTATTAAAATTTTAAGTTAAGATTGTTTTTTGGTTTTAACACAGTTGG
AGTTACGTTAGGTTAACAAGATTAAGAAATCATAAATATAAATATTAAATTATTTCGATTTTAAA
TTAATTTAAATCGTATCAAGTTTGATATTAAATTATTTCACTTTCAAAACTT
Found at i:116140 original size:2 final size:2
Alignment explanation
Indices: 116133--116188 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
116123 CTTCTTCCTT
116133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116175 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
116189 ATGTTGTAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118506 original size:3 final size:3
Alignment explanation
Indices: 118498--118526 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
118488 AATTAGCTAT
118498 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
118527 TTGCAGTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:119687 original size:29 final size:31
Alignment explanation
Indices: 119624--119687 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 31
119614 ATATATATTT
*
119624 TTTTAAATTTAATTTAATATGAAATATGAGA
1 TTTTAAATTTAATGTAATATGAAATATGAGA
* * *
119655 -TTTAAATTTTA-GTAATAT-AAATATTATA
1 TTTTAAATTTAATGTAATATGAAATATGAGA
119683 TTTTA
1 TTTTA
119688 TTTGAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 8 0.29
29 10 0.36
30 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTTAAATTTAATGTAATATGAAATATGAGA
Found at i:120725 original size:2 final size:2
Alignment explanation
Indices: 120718--120770 Score: 70
Period size: 2 Copynumber: 26.0 Consensus size: 2
120708 CTTCGAGGAA
* *
120718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AA AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
120761 GT AT AT AT AT
1 AT AT AT AT AT
120771 TGGTGCACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
2 43 0.98
3 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:121047 original size:36 final size:32
Alignment explanation
Indices: 120999--121079 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 32
120989 TAATTAAATA
*
120999 TTAGTATATATTATATATGTATA-ATTAAAATTTTT
1 TTAGTATTTATTAT-T-TGTATATATT--AATTTTT
*
121034 GTTAGTATTTATTATTTTTATATATTAATTTTT
1 -TTAGTATTTATTATTTGTATATATTAATTTTT
121067 TTATGTATTTATT
1 TTA-GTATTTATT
121080 TATTGATGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 3 0.07
33 16 0.39
34 5 0.12
35 4 0.10
36 13 0.32
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (32 bp):
TTAGTATTTATTATTTGTATATATTAATTTTT
Found at i:121431 original size:108 final size:109
Alignment explanation
Indices: 121141--121539 Score: 426
Period size: 110 Copynumber: 3.7 Consensus size: 109
121131 TAGAATTTAA
** *** * * *
121141 TTGCATTAATTATGTAAATTTGGGCATCAAAAGATTAGCCCCGAAATAAATCATCGTCTAGAGTC
1 TTGCATTAATTACATAAATTCAAGCACCAAAAGATTGGCCCCGAAATAAATCATCATCTAGAGTC
* * * * *
121206 GTAAAGCGACGTACGAACACCCTTTACATAGGATAATTCATTTT
66 ATAAAGCGGCGTACGAACGCTCTTTATATAGGATAATTCATTTT
* * * ** * * *
121250 TTACATTAATTACATAATATTCAGGCACTAAGGGATTGACCTCGAAATAAATCATCGTCTAGAGT
1 TTGCATTAATTACATAA-ATTCAAGCACCAAAAGATTGGCCCCGAAATAAATCATCATCTAGAGT
* *
121315 CATAAAGCGGCGTATGAATGCTCTTTATATAGGATAATTCATTTT
65 CATAAAGCGGCGTACGAACGCTCTTTATATAGGATAATTCATTTT
* * **
121360 TTGCATTAATTAC-TAAATTCAAGCACCAAAAGATTGGTCTCGAAATAGGTCATCATCTAGAGTC
1 TTGCATTAATTACATAAATTCAAGCACCAAAAGATTGGCCCCGAAATAAATCATCATCTAGAGTC
*
121424 ATAAAGCGGTGTACGAACG-TCTTTTATATAGGATAATTCTATTTT
66 ATAAAGCGGCGTACGAACGCTC-TTTATATAGGATAATTC-ATTTT
* * * ** * *
121469 TTGCATTCATTACGTAAATTCGAGCACCAAAAGATTGGTCCCC-AAATAGGTCGTTATCTAGAGT
1 TTGCATTAATTACATAAATTCAAGCACCAAAAGATTGG-CCCCGAAATAAATCATCATCTAGAGT
121533 CATAAAG
65 CATAAAG
121540 TGGAGTACAA
Statistics
Matches: 247, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
107 2 0.01
108 72 0.29
109 34 0.14
110 137 0.55
111 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (109 bp):
TTGCATTAATTACATAAATTCAAGCACCAAAAGATTGGCCCCGAAATAAATCATCATCTAGAGTC
ATAAAGCGGCGTACGAACGCTCTTTATATAGGATAATTCATTTT
Found at i:121606 original size:110 final size:110
Alignment explanation
Indices: 121168--121615 Score: 340
Period size: 110 Copynumber: 4.1 Consensus size: 110
121158 ATTTGGGCAT
* ** * * * * *
121168 CAAAAGATTAG-CCCCGAAATAAATCATCGTCTAGAGTCGTAAAGC-GACGTACGAACACCCTTT
1 CAAAAGATTGGTCCCC-AAATAGGTCATCATCTAGAGTCATAAAGCGGA-GTACAAACGCCTTTT
* * * *
121231 ACATAGGATAATTC-ATTTTTTACATTAATTACATAATATTC-AGGCAC
64 ATATAGGATAATTCTATTTTTTGCATAAATTACACAA-ATTCGA-GCAC
* ** * * ** * * ** *
121278 TAAGGGATT-GACCTCGAAATAAATCATCGTCTAGAGTCATAAAGCGGCGTATGAATG-CTCTTT
1 CAAAAGATTGGTCC-CCAAATAGGTCATCATCTAGAGTCATAAAGCGGAGTACAAACGCCT-TTT
* * *
121341 ATATAGGATAATTC-ATTTTTTGCATTAATTAC-TAAATTCAAGCAC
64 ATATAGGATAATTCTATTTTTTGCATAAATTACACAAATTCGAGCAC
* * * * *
121386 CAAAAGATTGGTCTCGAAATAGGTCATCATCTAGAGTCATAAAGCGGTGTACGAACGTCTTTTAT
1 CAAAAGATTGGTCCCCAAATAGGTCATCATCTAGAGTCATAAAGCGGAGTACAAACGCCTTTTAT
** **
121451 ATAGGATAATTCTATTTTTTGCATTCATTACGTAAATTCGAGCAC
66 ATAGGATAATTCTATTTTTTGCATAAATTACACAAATTCGAGCAC
* * * *
121496 CAAAAGATTGGTCCCCAAATAGGTCGTTATCTAGAGTCATAAAGTGGAGTACAAATGCCTTTTAT
1 CAAAAGATTGGTCCCCAAATAGGTCATCATCTAGAGTCATAAAGCGGAGTACAAACGCCTTTTAT
* ** * *
121561 GTAAGG-TAATT-TATTTTTTGTGTAAATTACACAATATTTGGGCAC
66 AT-AGGATAATTCTATTTTTTGCATAAATTACACAA-ATTCGAGCAC
*
121606 CAAAGGATTG
1 CAAAAGATTG
121616 ACCCTGCAAT
Statistics
Matches: 283, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
108 68 0.24
109 44 0.16
110 166 0.59
111 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (110 bp):
CAAAAGATTGGTCCCCAAATAGGTCATCATCTAGAGTCATAAAGCGGAGTACAAACGCCTTTTAT
ATAGGATAATTCTATTTTTTGCATAAATTACACAAATTCGAGCAC
Found at i:122147 original size:11 final size:11
Alignment explanation
Indices: 122127--122156 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
122117 TCTTGAATTA
*
122127 AGATCTTTTTC
1 AGATCCTTTTC
122138 AGATCCTTTTC
1 AGATCCTTTTC
122149 AGATCCTT
1 AGATCCTT
122157 CGTCGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (11 bp):
AGATCCTTTTC
Found at i:127400 original size:20 final size:20
Alignment explanation
Indices: 127358--127412 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
127348 AAATTCCCAG
**
127358 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
127378 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
*
127398 ATGTATCAATACATT
1 ATGTATCGATACATT
127413 TCCTTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:132137 original size:13 final size:13
Alignment explanation
Indices: 132119--132143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132109 CAAAGATTAG
132119 TGTATCGATACAA
1 TGTATCGATACAA
132132 TGTATCGATACA
1 TGTATCGATACA
132144 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:132210 original size:19 final size:18
Alignment explanation
Indices: 132186--132248 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
132176 TAGCTTACAT
132186 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
132205 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
132218 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
132237 TGTATCGATACA
1 TGTATCGATACA
132249 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:132222 original size:32 final size:32
Alignment explanation
Indices: 132181--132281 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
132171 GGGAGTAGCT
*
132181 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
132213 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
* *
132245 TACATTGTATCGATATAACACTTTATGTATTGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
132278 TACA
1 TACA
132282 AATCGTTAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 51 0.78
33 14 0.22
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:132223 original size:13 final size:13
Alignment explanation
Indices: 132205--132259 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
132195 ACAAAACTTA
132205 TGTATCGATACAT
1 TGTATCGATACAT
132218 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
132236 ATGTATCGATACAT
1 -TGTATCGATACAT
132250 TGTATCGATA
1 TGTATCGATA
132260 TAACACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
16 6 0.17
18 1 0.03
19 9 0.25
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:139715 original size:26 final size:26
Alignment explanation
Indices: 139674--140063 Score: 251
Period size: 28 Copynumber: 14.3 Consensus size: 26
139664 TATTAAAACG
* * *
139674 AAGCCCATATTAGTTGGCACAAGTTA
1 AAGCCCACATTCGTTGGCACAAGTCA
139700 AAGCCCACATTCGTTGGCACAAGTCA
1 AAGCCCACATTCGTTGGCACAAGTCA
*
139726 AAGCCCACATTCATTGGCACAAGTCA
1 AAGCCCACATTCGTTGGCACAAGTCA
*** * *
139752 AAGTGAACACTCGTTGGCACACAAGTTA
1 AAGCCCACATTCGTTGG--CACAAGTCA
* *
139780 AAGCTCACAGTT-GTTGGCATAAGTCA
1 AAGCCCACA-TTCGTTGGCACAAGTCA
*
139806 AAGCCCACACTCGTTGGCATACAAGTCA
1 AAGCCCACATTCGTTGGC--ACAAGTCA
*
139834 AAGCCCACATTCGTTGGCATAAGTCA
1 AAGCCCACATTCGTTGGCACAAGTCA
* * * * *
139860 AAACCCACACTCGTTGACCCACAAGCCT
1 AAGCCCACATTCGTTG--GCACAAGTCA
* * * *
139888 AAGCTCACATTCGCTAGCACATAAGTCT
1 AAGCCCACATTCGTTGGCAC--AAGTCA
* ** *
139916 AAGCCTACATTCACTGCACACAAGTCA
1 AAGCCCACATTCGTTG-GCACAAGTCA
* * * *
139943 AAACCCATATTAGTTGGCATCTGAGTCA
1 AAGCCCACATTCGTTGGCA-C-AAGTCA
* * *
139971 AAGCCCACATTCGTTAGCATATAAGTCT
1 AAGCCCACATTCGTTGGC--ACAAGTCA
* *
139999 AATCCCACATTCGTTGGCACCTAAGTTA
1 AAGCCCACATTCGTTGGCA-C-AAGTCA
* * * *
140027 AAGTCCACACTAGTTAGCATCTAAGTCA
1 AAGCCCACATTCGTTGGCA-C-AAGTCA
*
140055 AAACCCACA
1 AAGCCCACA
140064 CTAGCTGACA
Statistics
Matches: 278, Mismatches: 69, Indels: 32
0.73 0.18 0.08
Matches are distributed among these distances:
25 1 0.00
26 108 0.39
27 16 0.06
28 148 0.53
29 4 0.01
30 1 0.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (26 bp):
AAGCCCACATTCGTTGGCACAAGTCA
Found at i:140016 original size:56 final size:54
Alignment explanation
Indices: 139677--140063 Score: 268
Period size: 54 Copynumber: 7.1 Consensus size: 54
139667 TAAAACGAAG
* * * * *
139677 CCCATATTAGTTGGCAC-AAGTTAAAGCCCACATTCGTTGGC--ACAAGTCAAAG
1 CCCACATTCGTTGGCACTAAGTCAAAGCCCACACTCGTT-GCATACAAGTCAAAA
* *** * * *
139729 CCCACATTCATTGGCAC-AAGTCAAAGTGAACACTCGTTGGCACACAAGTTAAAG
1 CCCACATTCGTTGGCACTAAGTCAAAGCCCACACTCGTT-GCATACAAGTCAAAA
* *
139783 CTCACAGTT-GTTGGCA-TAAGTCAAAGCCCACACTCGTTGGCATACAAGTCAAAG
1 CCCACA-TTCGTTGGCACTAAGTCAAAGCCCACACTCGTT-GCATACAAGTCAAAA
* ** * * *
139837 CCCACATTCGTTGGCA-TAAGTCAAAACCCACACTCGTTGACCCACAAGCCTAAG
1 CCCACATTCGTTGGCACTAAGTCAAAGCCCACACTCGTTG-CATACAAGTCAAAA
* * * * * * ** *
139891 CTCACATTCGCTAGCACATAAGTCTAAGCCTACATTCACTGCACACAAGTCAAAA
1 CCCACATTCGTTGGCAC-TAAGTCAAAGCCCACACTCGTTGCATACAAGTCAAAA
* * * * * * *
139946 CCCATATTAGTTGGCATCTGAGTCAAAGCCCACATTCGTTAGCATATAAGTCTAAT
1 CCCACATTCGTTGGCA-CTAAGTCAAAGCCCACACTCGTT-GCATACAAGTCAAAA
* * *
140002 CCCACATTCGTTGGCACCTAAGTTAAAGTCCACACTAGTTAGCAT-CTAAGTCAAAA
1 CCCACATTCGTTGGCA-CTAAGTCAAAGCCCACACTCGTT-GCATAC-AAGTCAAAA
140058 CCCACA
1 CCCACA
140064 CTAGCTGACA
Statistics
Matches: 264, Mismatches: 60, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
52 33 0.12
53 3 0.01
54 109 0.41
55 40 0.15
56 79 0.30
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (54 bp):
CCCACATTCGTTGGCACTAAGTCAAAGCCCACACTCGTTGCATACAAGTCAAAA
Found at i:140391 original size:18 final size:18
Alignment explanation
Indices: 140359--140393 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
140349 ATTAAGTAAT
* *
140359 TAAAAAAATATAAAAAAA
1 TAAAAAAACACAAAAAAA
140377 TAAAAAAACACAAAAAA
1 TAAAAAAACACAAAAAA
140394 GAGTGAACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (18 bp):
TAAAAAAACACAAAAAAA
Found at i:141630 original size:2 final size:2
Alignment explanation
Indices: 141619--141652 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
141609 AAATATTAGC
*
141619 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
141653 ATTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141700 original size:16 final size:15
Alignment explanation
Indices: 141658--141700 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
141648 GTATAATTAA
141658 AATTTTTGTTAATATT
1 AATTTTT-TTAATATT
*
141674 TATTATTTTTAGATATT
1 AATT-TTTTTA-ATATT
141691 AATTTTTTTA
1 AATTTTTTTA
141701 CGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
AATTTTTTTAATATT
Found at i:141990 original size:110 final size:109
Alignment explanation
Indices: 141775--142211 Score: 504
Period size: 110 Copynumber: 4.0 Consensus size: 109
141765 AATTTAATTG
* * * * *
141775 CATTAATTACGTAAATTTGAACACCAAAAGATTGGTCCCAAAATAAATCATCGTCTAGAGTCGTA
1 CATTAATTACGTAAATTCGGACACCAAAAGATTGGTCCCGAAATAAATCATCATCTAGAGTCATA
* * *
141840 AAGCGGCGTACGAACGCCCTTTACAAAGGATAATTTATTTTTTA
66 AAGCGGCGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
* ** * * *
141884 CATTAATTACGTAATATTCGGGCACCAAGGGATTGG-CCTCGAAATAAATCATCTTCTAGAATCG
1 CATTAATTACGTAA-ATTCGGACACCAAAAGATTGGTCC-CGAAATAAATCATCATCTAGAGTCA
** *
141948 TAAAGCGGCGTACGAATACCCTTTATATAGGATAATTCATTTTTTG
64 TAAAGCGGCGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
* * **
141994 CATTAATTAC-TAAATTCGGGCACCAAAAGATTGGTCCTGAAATAGGTCATCATCTAGAGTCATA
1 CATTAATTACGTAAATTCGGACACCAAAAGATTGGTCCCGAAATAAATCATCATCTAGAGTCATA
* * * *
142058 AAGAGACGTACGAACGTCCTTTATATAGGATAATTCTATTTTTTG
66 AAGCGGCGTACGAACGCCCTTTATATAGGATAATTC-ATTTTTTA
* * **
142103 CATTAATTACGTAAATTCAGACACCAAAAGATTAG-CCCTGAAATAGGTCATCATCTAGAGTCAT
1 CATTAATTACGTAAATTCGGACACCAAAAGATTGGTCCC-GAAATAAATCATCATCTAGAGTCAT
** * *
142167 AAAATGGCGTACAAACGCCCTTTATGTAAGG-TAATTCATTTTTTA
65 AAAGCGGCGTACGAACGCCCTTTATAT-AGGATAATTCATTTTTTA
142212 TGTAAATTAC
Statistics
Matches: 283, Mismatches: 38, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
108 71 0.25
109 48 0.17
110 161 0.57
111 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (109 bp):
CATTAATTACGTAAATTCGGACACCAAAAGATTGGTCCCGAAATAAATCATCATCTAGAGTCATA
AAGCGGCGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
Found at i:142178 original size:218 final size:219
Alignment explanation
Indices: 141772--142210 Score: 544
Period size: 218 Copynumber: 2.0 Consensus size: 219
141762 TAGAATTTAA
* *
141772 TTGCATTAATTACGTAAATTTGAACACCAAAAGATTGGTCCCAAAATAAATCATCGTCTAGAGTC
1 TTGCATTAATTACGTAAATTCGAACACCAAAAGATTGGTCCCAAAATAAATCATCATCTAGAGTC
* * *
141837 GTAAAGCGGCGTACGAACGCCCTTTACAAAGGATAATTTATTTTTTACATTAATTACGTAATATT
66 ATAAAGAGACGTACGAACGCCCTTTACAAAGGATAATTTATTTTTTACATTAATTACGTAATATT
* * ** * * * * * *
141902 CGGGCACCAAGGGATTGGCCTCGAAATAAATCATCTTCTAGAATCGTAAAGCGGCGTACGAATAC
131 CAGACACCAAAAGATTGCCCTCGAAATAAATCATCATCTAGAATCATAAAACGGCGTACAAACAC
141967 CCTTTATAT-AGGATAATTCATTTT
196 CCTTTATATAAGG-TAATTCATTTT
** ** **
141991 TTGCATTAATTAC-TAAATTCGGGCACCAAAAGATTGGTCCTGAAATAGGTCATCATCTAGAGTC
1 TTGCATTAATTACGTAAATTCGAACACCAAAAGATTGGTCCCAAAATAAATCATCATCTAGAGTC
* * * *
142055 ATAAAGAGACGTACGAACGTCCTTTATATAGGATAATTCTATTTTTTGCATTAATTACGTAA-AT
66 ATAAAGAGACGTACGAACGCCCTTTACAAAGGATAATT-TATTTTTTACATTAATTACGTAATAT
** * *
142119 TCAGACACCAAAAGATTAGCCCT-GAAATAGGTCATCATCTAGAGTCATAAAATGGCGTACAAAC
130 TCAGACACCAAAAGATT-GCCCTCGAAATAAATCATCATCTAGAATCATAAAACGGCGTACAAAC
* *
142183 GCCCTTTATGTAAGGTAATTCATTTT
194 ACCCTTTATATAAGGTAATTCATTTT
142209 TT
1 TT
142211 ATGTAAATTA
Statistics
Matches: 186, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
218 144 0.77
219 42 0.23
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (219 bp):
TTGCATTAATTACGTAAATTCGAACACCAAAAGATTGGTCCCAAAATAAATCATCATCTAGAGTC
ATAAAGAGACGTACGAACGCCCTTTACAAAGGATAATTTATTTTTTACATTAATTACGTAATATT
CAGACACCAAAAGATTGCCCTCGAAATAAATCATCATCTAGAATCATAAAACGGCGTACAAACAC
CCTTTATATAAGGTAATTCATTTT
Found at i:143605 original size:34 final size:35
Alignment explanation
Indices: 143567--143632 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
143557 ACTTTATATT
143567 TTTTAATCATTATTT-AATTAATATTTTAAATAAA
1 TTTTAATCATTATTTAAATTAATATTTTAAATAAA
* ** * *
143601 TTTTATTTTTTATTTAAATTTATTTTTTAAAT
1 TTTTAATCATTATTTAAATTAATATTTTAAAT
143633 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 12 0.46
35 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTAATCATTATTTAAATTAATATTTTAAATAAA
Found at i:143610 original size:17 final size:17
Alignment explanation
Indices: 143590--143632 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
143580 TTAATTAATA
143590 TTTTAAATAAATTTTATT
1 TTTTAAATAAA-TTTATT
**
143608 TTTTATTTAAATTTATT
1 TTTTAAATAAATTTATT
143625 TTTTAAAT
1 TTTTAAAT
143633 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAATAAATTTATT
Done.