Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1416
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: 110888
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:1590 original size:19 final size:20
Alignment explanation
Indices: 1568--1609 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1558 TTAAATTAGT
1568 ACATAATATATA-AATTTTA
1 ACATAATATATATAATTTTA
**
1587 ACATGTTATATATAATTTTA
1 ACATAATATATATAATTTTA
1607 ACA
1 ACA
1610 CATTCATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (20 bp):
ACATAATATATATAATTTTA
Found at i:1961 original size:16 final size:16
Alignment explanation
Indices: 1940--1979 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1930 TACATTCATG
1940 TTTTATTGGTATTATT
1 TTTTATTGGTATTATT
* *
1956 TTTTATCTTGTATTGTT
1 TTTTAT-TGGTATTATT
1973 TTTTATT
1 TTTTATT
1980 ATTTTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (16 bp):
TTTTATTGGTATTATT
Found at i:3051 original size:25 final size:23
Alignment explanation
Indices: 3023--3091 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
3013 TTAAAATTAT
3023 TTTTATATTAATATTTACATATACA
1 TTTTATATTAATATTTA-ATATA-A
3048 TTTTATAATTAA-ATTTAAATATAA
1 TTTTAT-ATTAATATTT-AATATAA
3072 TTTT-T-TTAATTATTTAATAT
1 TTTTATATTAA-TATTTAATAT
3092 CTATTCGACT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 5 0.12
24 5 0.12
25 15 0.38
26 6 0.15
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTATATTAATATTTAATATAA
Found at i:3355 original size:26 final size:26
Alignment explanation
Indices: 3298--3355 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
3288 TAAATTTCCA
3298 TTAATTTATTGTTATCAATTGAAATT
1 TTAATTTATTGTTATCAATTGAAATT
* * **
3324 TCAATTT-TTTTTACTCAATTGAGTTT
1 TTAATTTATTGTTA-TCAATTGAAATT
3350 TTAATT
1 TTAATT
3356 AGACAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (26 bp):
TTAATTTATTGTTATCAATTGAAATT
Found at i:3740 original size:3 final size:3
Alignment explanation
Indices: 3726--3764 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
3716 ATAAACATAA
* *
3726 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3765 CTTCCATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4887 original size:25 final size:22
Alignment explanation
Indices: 4844--4902 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
4834 ATTTAATATA
*
4844 ATATATT-TTTTAATTATATCAT
1 ATATATTATTTTAATAATATC-T
4866 ATATATTATTTTAATCAAATATCT
1 ATATATTATTTTAAT--AATATCT
*
4890 TTAATATTATTTT
1 AT-ATATTATTTT
4903 TTATTCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 7 0.23
24 2 0.06
25 15 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATATTATTTTAATAATATCT
Found at i:5492 original size:18 final size:17
Alignment explanation
Indices: 5452--5494 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
5442 TATAATTTTA
* *
5452 ATTAATTTATTATAATT
1 ATTAATTTTTTAAAATT
5469 -TTAATTTTTTAAATATT
1 ATTAATTTTTTAAA-ATT
5486 ATTAATTTT
1 ATTAATTTT
5495 CGAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTAATTTTTTAAAATT
Found at i:7417 original size:30 final size:30
Alignment explanation
Indices: 7365--7422 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
7355 TAATCTCGAT
7365 TTTTATATAAATTAATAATAAAA-ATAATA
1 TTTTATATAAATTAATAATAAAATATAATA
* **
7394 TTTTATTTAAATTTAATTTTAAAATATAA
1 TTTTATATAAA-TTAATAATAAAATATAA
7423 ATATAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 10 0.42
31 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTTATATAAATTAATAATAAAATATAATA
Found at i:9692 original size:17 final size:17
Alignment explanation
Indices: 9651--9694 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9641 TAAAATTATC
*
9651 ATATAAATATTTAAAATT
1 ATATAAA-ATTTAAAACT
* *
9669 TTTTAAAATTTAAAACT
1 ATATAAAATTTAAAACT
9686 ATATAAAAT
1 ATATAAAAT
9695 GAATTTATTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAAATTTAAAACT
Found at i:12496 original size:2 final size:2
Alignment explanation
Indices: 12484--12526 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
12474 AGAGCGAGCA
*
12484 AG AG CG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12526 A
1 A
12527 CGTAGTGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12821 original size:21 final size:21
Alignment explanation
Indices: 12766--12821 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
12756 TAAATATAAA
* *
12766 AAAACATAACATAAAAAAATT
1 AAAATATAACATAAAAAAAAT
*
12787 AAAATATAATATAATAAAAAAT
1 AAAATATAACATAA-AAAAAAT
*
12809 AATAT-TAACATAA
1 AAAATATAACATAA
12822 CACGAATAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATATAACATAAAAAAAAT
Found at i:12994 original size:127 final size:126
Alignment explanation
Indices: 12846--13090 Score: 373
Period size: 127 Copynumber: 1.9 Consensus size: 126
12836 TAATATTTTA
* *
12846 AAATCTATATAAAATAAATTATTAATATATTACGAATATGAATAAGATCATACATAATATAAAAT
1 AAATCTATATAAAATAAATTATTAATATATTACGAATATGAACAAGATCACACATAATATAAAAT
* * *
12911 TAAAAGTTATTTAAATAATTTTAATTATACTTGATAATTTTAAATATAGTATGAATGTTTCG
66 TAAAAGTTATTTAAATAATTTTAATTACACTT-ATAATTTCAAATATAATATGAATGTTTCG
* * * **
12973 AAATCTATATAAAATAAATTATTAGTGTGTTACGAATATGAACAAGATGGCACATAATATAAAAT
1 AAATCTATATAAAATAAATTATTAATATATTACGAATATGAACAAGATCACACATAATATAAAAT
* *
13038 TAAGAGTTATTTAAATATTTTTAATTACACTTATAATTTCAAATATAATATGA
66 TAAAAGTTATTTAAATAATTTTAATTACACTTATAATTTCAAATATAATATGA
13091 TTAAATAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
126 19 0.18
127 87 0.82
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (126 bp):
AAATCTATATAAAATAAATTATTAATATATTACGAATATGAACAAGATCACACATAATATAAAAT
TAAAAGTTATTTAAATAATTTTAATTACACTTATAATTTCAAATATAATATGAATGTTTCG
Found at i:13704 original size:21 final size:22
Alignment explanation
Indices: 13671--13714 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
13661 ATTATTATAG
**
13671 TTATTTGATTTTAATTTTAAAT
1 TTATTTGATTTTAAAATTAAAT
13693 TTATTT-ATTTTAAAATTAAAT
1 TTATTTGATTTTAAAATTAAAT
13714 T
1 T
13715 ACTGTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATTTGATTTTAAAATTAAAT
Found at i:14361 original size:32 final size:33
Alignment explanation
Indices: 14320--14390 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
14310 TATTATCTAT
** * *
14320 TTATATAAATTTCGATATATTAATA-ATTTATG
1 TTATATAAATTTAAATATATTAATATATTCATA
*
14352 TTATATAAATTTAAATATATTTATATATTCATA
1 TTATATAAATTTAAATATATTAATATATTCATA
14385 TTATAT
1 TTATAT
14391 TCATGATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (33 bp):
TTATATAAATTTAAATATATTAATATATTCATA
Found at i:15820 original size:22 final size:23
Alignment explanation
Indices: 15782--15825 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
15772 AATTATATTT
*
15782 TTAAATAATAAGT-AAAATCATA
1 TTAAAAAATAAGTAAAAATCATA
15804 TTAAAAAATAA-TAAAAAATCAT
1 TTAAAAAATAAGT-AAAAATCAT
15826 TAAAAGAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAAAAATAAGTAAAAATCATA
Found at i:15827 original size:21 final size:23
Alignment explanation
Indices: 15784--15830 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
15774 TTATATTTTT
15784 AAATAATAAGTAAAATCATATTAAA
1 AAATAATAAG-AAAATCA-ATTAAA
15809 AAATAATAA-AAAATC-ATTAAA
1 AAATAATAAGAAAATCAATTAAA
15830 A
1 A
15831 GAGCCGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
23 6 0.27
25 9 0.41
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATAATAAGAAAATCAATTAAA
Found at i:17372 original size:19 final size:19
Alignment explanation
Indices: 17345--17382 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17335 TATTATTATA
17345 ATAAAATAAACATATAAAT
1 ATAAAATAAACATATAAAT
* *
17364 ATAATATAAATATATAAAT
1 ATAAAATAAACATATAAAT
17383 TATTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAATAAACATATAAAT
Found at i:20817 original size:2 final size:2
Alignment explanation
Indices: 20810--20839 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20800 ATAGCAAGCA
20810 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20840 GGTATCATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22242 original size:16 final size:16
Alignment explanation
Indices: 22217--22260 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
22207 AGTAGAAATC
*
22217 AAAAATTAAAAAATAA
1 AAAAAATAAAAAATAA
*
22233 AAAAAAT-AAAAATTA
1 AAAAAATAAAAAATAA
*
22248 ATAAAATAAAAAA
1 AAAAAATAAAAAA
22261 AATCATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAAAATAA
Found at i:22247 original size:23 final size:25
Alignment explanation
Indices: 22212--22270 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
22202 TAATAAGTAG
22212 AAATCAAAAATTAA-AAAATAAAAA
1 AAATCAAAAATTAATAAAATAAAAA
22236 AAAT-AAAAATTAATAAAATAAAAA
1 AAATCAAAAATTAATAAAATAAAAA
22260 AAATCATAAAA
1 AAATCA-AAAA
22271 AACATGCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.28
24 18 0.56
25 1 0.03
26 4 0.12
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (25 bp):
AAATCAAAAATTAATAAAATAAAAA
Found at i:26205 original size:13 final size:13
Alignment explanation
Indices: 26187--26212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26177 TACACCAAGT
26187 ATGTATCGATACA
1 ATGTATCGATACA
26200 ATGTATCGATACA
1 ATGTATCGATACA
26213 CAAAAAATTG
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:26210 original size:32 final size:33
Alignment explanation
Indices: 26169--26232 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
26159 TAGCCAAACT
* **
26169 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
26201 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
26233 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:30304 original size:15 final size:15
Alignment explanation
Indices: 30284--30314 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30274 TAAAAATGTC
*
30284 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
30299 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
30314 C
1 C
30315 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:32407 original size:13 final size:13
Alignment explanation
Indices: 32389--32424 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
32379 CATTTTTCTT
32389 TGTATCGATACAA
1 TGTATCGATACAA
*
32402 TGTATCGATACAC
1 TGTATCGATACAA
32415 TGTATCGATA
1 TGTATCGATA
32425 TAGGGGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:32581 original size:20 final size:20
Alignment explanation
Indices: 32538--32583 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
32528 AAATCTTTTG
32538 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
32559 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
32579 CAAAA
1 CAAAA
32584 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:36057 original size:13 final size:13
Alignment explanation
Indices: 36039--36064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36029 TACACCAAGT
36039 ATGTATCGATACA
1 ATGTATCGATACA
36052 ATGTATCGATACA
1 ATGTATCGATACA
36065 CAAAAAATTT
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:36150 original size:20 final size:21
Alignment explanation
Indices: 36120--36158 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
36110 TATATTTTTC
36120 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
36141 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
36159 CACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:40252 original size:19 final size:20
Alignment explanation
Indices: 40208--40261 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
40198 CTGCCAATCT
**
40208 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
40228 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
40247 CATGTATCGATACAA
1 CATGTATCGATACAA
40262 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:41243 original size:13 final size:13
Alignment explanation
Indices: 41225--41250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41215 CAATTTTTTG
41225 TGTATCGATACAT
1 TGTATCGATACAT
41238 TGTATCGATACAT
1 TGTATCGATACAT
41251 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41262 original size:32 final size:33
Alignment explanation
Indices: 41205--41268 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
41195 TACAAGCCAA
**
41205 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
41238 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
41269 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:42294 original size:13 final size:13
Alignment explanation
Indices: 42276--42301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42266 AAATTTTTTG
42276 TGTATCGATACAT
1 TGTATCGATACAT
42289 TGTATCGATACAT
1 TGTATCGATACAT
42302 GCTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42326 original size:19 final size:19
Alignment explanation
Indices: 42289--42326 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42279 ATCGATACAT
*
42289 TGTATCGATACATGCTTGG
1 TGTATCGATACAAGCTTGG
*
42308 TGTATCGATACAAGTTTGG
1 TGTATCGATACAAGCTTGG
42327 CTACTGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAGCTTGG
Found at i:44888 original size:13 final size:13
Alignment explanation
Indices: 44872--44907 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
44862 AATCCCCCTA
44872 TATCGATACAGTG
1 TATCGATACAGTG
*
44885 TATCGATACATTG
1 TATCGATACAGTG
44898 TATCGATACA
1 TATCGATACA
44908 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:47002 original size:15 final size:15
Alignment explanation
Indices: 46982--47012 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46972 ATTTTGTTTG
*
46982 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
46997 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
47012 G
1 G
47013 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:51011 original size:20 final size:21
Alignment explanation
Indices: 50986--51024 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
50976 TTCCCGTGTG
50986 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
51006 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
51025 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:51097 original size:13 final size:13
Alignment explanation
Indices: 51079--51104 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51069 CAATTTTTTG
51079 TGTATCGATACAT
1 TGTATCGATACAT
51092 TGTATCGATACAT
1 TGTATCGATACAT
51105 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51116 original size:32 final size:33
Alignment explanation
Indices: 51059--51122 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
51049 TACAAGCCAA
**
51059 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
51092 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
51123 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:51199 original size:20 final size:20
Alignment explanation
Indices: 51153--51226 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
51143 ATCCCAATGA
***
51153 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
51174 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
51194 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
51214 TATGTATCGATAC
1 CATGTATCGATAC
51227 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:53605 original size:22 final size:21
Alignment explanation
Indices: 53569--53616 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
53559 TTTCTTTGAT
53569 GATTTTGATGAAAAA-TGAAA
1 GATTTTGATGAAAAAGTGAAA
53589 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTG-A-TGAAAAAGTGAAA
*
53612 AATTT
1 GATTT
53617 GTGGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 7 0.29
23 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (21 bp):
GATTTTGATGAAAAAGTGAAA
Found at i:57926 original size:21 final size:22
Alignment explanation
Indices: 57895--57935 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
57885 ATTTAAATTC
57895 TATTACTAATTCATCAAAAGCA
1 TATTACTAATTCATCAAAAGCA
*
57917 TATTA-TAATTCTTCAAAAG
1 TATTACTAATTCATCAAAAG
57936 TATAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (22 bp):
TATTACTAATTCATCAAAAGCA
Found at i:59895 original size:33 final size:34
Alignment explanation
Indices: 59857--59956 Score: 118
Period size: 33 Copynumber: 3.0 Consensus size: 34
59847 GTTACAAGCT
*
59857 ATGTATCGATACAATT-CATCATGTATT-AGTACA
1 ATGTATCGATACAATTGCACCATGTATTGA-TACA
* *
59890 ATGTATTGATAC-ATTGTACCATGTATTGATACA
1 ATGTATCGATACAATTGCACCATGTATTGATACA
* *
59923 ATGTATCGATAC-ATTGTACCATGTATCGATACA
1 ATGTATCGATACAATTGCACCATGTATTGATACA
59956 A
1 A
59957 ACAATGGAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 3 0.05
33 56 0.93
34 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (34 bp):
ATGTATCGATACAATTGCACCATGTATTGATACA
Found at i:59908 original size:20 final size:20
Alignment explanation
Indices: 59885--59927 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
59875 TCATGTATTA
*
59885 GTACAATGTATTGATACATT
1 GTACAATGTATTGATACAAT
*
59905 GTACCATGTATTGATACAAT
1 GTACAATGTATTGATACAAT
59925 GTA
1 GTA
59928 TCGATACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (20 bp):
GTACAATGTATTGATACAAT
Found at i:60010 original size:20 final size:20
Alignment explanation
Indices: 59984--60039 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
59974 ACTGCCAATC
*
59984 TCATGTATCGATACAATT-G
1 TCATGTATCGATACAATTAA
*
60003 TCCATGTATTGATACAATTAA
1 T-CATGTATCGATACAATTAA
60024 T-ATGTATCGATACAAT
1 TCATGTATCGATACAAT
60040 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.47
20 16 0.50
21 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (20 bp):
TCATGTATCGATACAATTAA
Found at i:60043 original size:13 final size:13
Alignment explanation
Indices: 60025--60051 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60015 TACAATTAAT
60025 ATGTATCGATACA
1 ATGTATCGATACA
60038 ATGTATCGATACA
1 ATGTATCGATACA
60051 A
1 A
60052 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:60049 original size:32 final size:33
Alignment explanation
Indices: 60006--60070 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
59996 ACAATTGTCC
* **
60006 ATGTATTGATACAATTAAT-ATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
*
60038 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
60071 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:68969 original size:79 final size:79
Alignment explanation
Indices: 68687--68972 Score: 450
Period size: 79 Copynumber: 3.6 Consensus size: 79
68677 AAAATAGAAT
* * * *
68687 CGGGGTTGGAGTAT--CCTCGTGAAAATAATGGGGCTGGAGTATCTCCAATTATGAGAAATCAAT
1 CGGGGTTGGAGTATCCCCTCG-G-AAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAAT
68750 ATTTTAGGAATAAAAC
64 ATTTTAGGAATAAAAC
* * * *
68766 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTGTGAGAAGTAAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
68831 TTTAGGAATAAAGC
66 TTTAGGAATAAAAC
*
68845 CGGGGTTAGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
68910 TTTAGGAATAAAAC
66 TTTAGGAATAAAAC
68924 CGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGAT
68973 GATTAACGGG
Statistics
Matches: 189, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
79 183 0.97
80 1 0.01
81 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGGAATAAAAC
Found at i:68991 original size:27 final size:28
Alignment explanation
Indices: 68924--68999 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
68914 GGAATAAAAC
***
68924 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
68952 TGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
68979 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
69000 TGTGAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:69145 original size:52 final size:52
Alignment explanation
Indices: 68983--69203 Score: 263
Period size: 51 Copynumber: 4.3 Consensus size: 52
68973 GATTAACGGG
* *
68983 GTTGGAGTATCCCCGATTGT-GAAAATTAGTGTTTT-GAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
* *
69033 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCA-AAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
* *
69084 GTTGGAGTATTCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
* * * * * * ** *
69136 GTTGGAGTATCCTCGATTAT-GAGAAATCAATATTTT-GGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAAATAAAATCGGA
69187 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
69204 GAAATAACGA
Statistics
Matches: 147, Mismatches: 20, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
50 20 0.14
51 87 0.59
52 40 0.27
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCGGA
Found at i:69178 original size:103 final size:101
Alignment explanation
Indices: 68983--69203 Score: 264
Period size: 103 Copynumber: 2.2 Consensus size: 101
68973 GATTAACGGG
* *
68983 GTTGGAGTATCCCCGATTGTGAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCG
1 GTTGGAGTATCCCCGATTGTGAAAATTAGTGTTTTGAAAATAAAACCAGAGTTGGAGTATCCCCG
* *** * *
69048 ATTGTGGAAAATTGGTGTTTCAAAAATAAAATCGGA
66 ATTATGGAAAATCAATATTTCAAAAATAAAACCGGA
* * *
69084 GTTGGAGTATTCCCGATTGTGGAAAATTAGTGTTTTAGAAAATAAAATCAGAGTTGGAGTATCCT
1 GTTGGAGTATCCCCGATTGT-GAAAATTAGTGTTTT-GAAAATAAAACCAGAGTTGGAGTATCCC
*** * *
69149 CGATTAT-GAGAAATCAATATTTTGGAAATAAAGCCGGG
64 CGATTATGGA-AAATCAATATTTCAAAAATAAAACCGGA
69187 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
69204 GAAATAACGA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
101 19 0.19
102 17 0.17
103 64 0.64
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (101 bp):
GTTGGAGTATCCCCGATTGTGAAAATTAGTGTTTTGAAAATAAAACCAGAGTTGGAGTATCCCCG
ATTATGGAAAATCAATATTTCAAAAATAAAACCGGA
Found at i:69324 original size:52 final size:53
Alignment explanation
Indices: 69214--69338 Score: 148
Period size: 52 Copynumber: 2.4 Consensus size: 53
69204 GAAATAACGA
* ** **
69214 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTTGGTAATAAAATCAG
1 GGTTGGAGTATCCCCGATTAAAGAAAAATTGGTG-TTTTTGAAAATAAAATCAG
* *
69267 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAA-CAGG
1 GGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTTGAAAATAAAATCA-G
69319 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
69339 TAAACAATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
51 2 0.03
52 32 0.52
53 17 0.27
54 11 0.18
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.32
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTTGAAAATAAAATCAG
Found at i:71731 original size:21 final size:21
Alignment explanation
Indices: 71705--71746 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
71695 ACAAAGATTG
71705 ATGTATCGATACATTTCCTTA
1 ATGTATCGATACATTTCCTTA
71726 ATGTATCGATACATTTCCTTA
1 ATGTATCGATACATTTCCTTA
71747 GCAGTAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTCCTTA
Found at i:71797 original size:19 final size:18
Alignment explanation
Indices: 71773--71831 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
71763 GATACATTGA
71773 ATCGATACAAAACTTATGT
1 ATCGATAC-AAACTTATGT
71792 ATCGATAC--A--T-TGT
1 ATCGATACAAACTTATGT
71805 ATCGA-ACAACACTTATGT
1 ATCGATACAA-ACTTATGT
71823 ATCGATACA
1 ATCGATACA
71832 TTTACGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
12 2 0.06
13 8 0.24
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 8 0.24
19 11 0.33
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (18 bp):
ATCGATACAAACTTATGT
Found at i:71822 original size:31 final size:32
Alignment explanation
Indices: 71754--71833 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 32
71744 TTAGCAGTAG
*
71754 CTTA-GTAGCGATACATTGAATCGATACAAAA
1 CTTATGTATCGATACATTGAATCGATACAAAA
* *
71785 CTTATGTATCGATACATTGTATCGA-ACAACA
1 CTTATGTATCGATACATTGAATCGATACAAAA
71816 CTTATGTATCGATACATT
1 CTTATGTATCGATACATT
71834 TACGATTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 27 0.60
32 18 0.40
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (32 bp):
CTTATGTATCGATACATTGAATCGATACAAAA
Found at i:71917 original size:21 final size:21
Alignment explanation
Indices: 71891--71960 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
71881 GTTGGGACCT
71891 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
71912 TGTATCGATACATT-T-G---
1 TGTATCGATACATTCTAGAAA
71928 -G-ATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
71947 TGTATCGATACATT
1 TGTATCGATACATT
71961 TGGATAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.26
15 2 0.05
16 1 0.02
19 1 0.02
20 2 0.05
21 25 0.60
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGAAA
Found at i:71940 original size:35 final size:35
Alignment explanation
Indices: 71894--71965 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
71884 GGGACCTTGT
71894 ATCGATACATTCTAGAAATGTATCGATACATTTGG
1 ATCGATACATTCTAGAAATGTATCGATACATTTGG
71929 ATCGATACATTCTAGAAATGTATCGATACATTTGG
1 ATCGATACATTCTAGAAATGTATCGATACATTTGG
71964 AT
1 AT
71966 AAAAATGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (35 bp):
ATCGATACATTCTAGAAATGTATCGATACATTTGG
Found at i:74028 original size:61 final size:61
Alignment explanation
Indices: 73949--75288 Score: 983
Period size: 55 Copynumber: 22.4 Consensus size: 61
73939 GTGGGATTTG
* *
73949 AAAGGCGTCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
74010 AAAGGCGTCCTGCCCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGCAAAAAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAAAGA
* *
74072 AAA-GCATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAG-A
* * * * * * * **
74132 AAAGGCGAAAGGAGAGAGCGTCCTGCTCTT--TGA-GGGCTAAGAA-GTGC-CACCAACT-TGTG
1 AAAGGC---------G-TCCTGCT-CT-TTGAGGACTGG--AA-AATG-CCAC-CAACTTGTGT-
74191 TGGGCTTTGCAAAAAG-
48 -GGGCTTT--AAAAAGA
* *
74207 AAA-GCATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT---AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAGA
*
74263 --AGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------A
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
74316 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * * *
74373 --AGGCGTCCTGCTCTTTGAAGACTGGGAAGTGCCACCAATTTGTGTGGGCTTTAAAAGAAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAA
74436 GCGA
60 --GA
* * * * ** * ** * ** * *** * *** ****
74440 AAGGAGAGAG-CGTCCTGCTCT-TCGA-GGGCTAGGAAG-TGCCACCAACTTGTGTGGGCTTTGC
1 AA--AG-GCGTCCTGCT-CTTTGAGGACTGG--AAAATGCCACCAAC-TTGTGTGGGCTTTAAAA
74501 A-A
59 AGA
*
74503 AAAGAAAGCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT----AG-
1 AAAG---GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
74562 -GAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------A
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * *
74616 AAAGGCGTCTTCCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT---AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
74673 --AGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * * * * *
74732 AAAAGCATCCTGCTCTTTGAGGACTCGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* **
74793 GAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * *
74852 AAAGGCGTTCTGCTCTTTGAGGATTGGAAAATTCCACCAACTTGTGTGGGCTTT-AAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAG-A
74913 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------A
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
74968 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGACTTT---AAG-
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * *
75025 --AGGCGTCCTGCTCTTTGAGGGCTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* * * * *
75084 AAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* ** *
75145 GAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTT-AAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
75204 AAAGGCGTTCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTT-AAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAG-A
* *
75265 AAAGGCAT-TTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
75289 AAAAAGTGGA
Statistics
Matches: 1033, Mismatches: 148, Indels: 197
0.75 0.11 0.14
Matches are distributed among these distances:
54 1 0.00
55 381 0.37
56 13 0.01
58 13 0.01
59 56 0.05
60 131 0.13
61 309 0.30
62 13 0.01
63 28 0.03
64 20 0.02
66 2 0.00
70 2 0.00
71 18 0.02
72 19 0.02
73 8 0.01
74 11 0.01
75 3 0.00
77 5 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA
Found at i:74256 original size:135 final size:134
Alignment explanation
Indices: 74014--74261 Score: 435
Period size: 135 Copynumber: 1.8 Consensus size: 134
74004 AAAAGAAAAG
74014 GCGTCCTGCCCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGCAAAAAGAAAGCAT
1 GCGTCCTGCCCTTTGAGGACT-GAAAATGCCACCAACTTGTATGGGCTTTGCAAAAAGAAAGCAT
74079 CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGAAAGG
65 CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGAAAGG
74144 AGAGA
130 AGAGA
* * *
74149 GCGTCCTGCTCTTTGAGGGCT-AAGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 GCGTCCTGCCCTTTGAGGACTGAA-AA-TGCCACCAACTTGTATGGGCTTTGCAAAAAGAAAGCA
74213 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
64 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
74262 GAGGCATCCT
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
133 2 0.02
134 2 0.02
135 104 0.96
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (134 bp):
GCGTCCTGCCCTTTGAGGACTGAAAATGCCACCAACTTGTATGGGCTTTGCAAAAAGAAAGCATC
CTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGAAAGGA
GAGA
Found at i:74479 original size:300 final size:290
Alignment explanation
Indices: 73925--75259 Score: 1617
Period size: 300 Copynumber: 4.5 Consensus size: 290
73915 TGGAAAGGTT
* * *
73925 TGCCACCAACTTGTGTGGGATTTGAA-AGGCGTCTTGCTCTTTGAGGACTGGAAAATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* *
73989 CTTATGTGGGCTTTAAAAAGAAAAGGCGTCCTGCCCTTTGAGGACTGGAAAATGCCACCAACTTG
66 CTTGTGTGGGCTTT----A-AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
* * * * *
74054 TATGGGCTTTGCAAAAAGAAAGCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTG
126 TGTGGGCTTT-----AAG-AGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTG
*
74119 GGCTTTAAAAGAAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGGCTAAGAAGTGCCACCA
185 GGCTTT-----AAAAA---G-AA--AGAGAGCGTCCTGCTCTTTGAGGGCTAGGAAGTGCCACCA
*
74184 ACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTACTCTTTGAGGACTGAAAAG
239 ACTTGTGTGGGCTTTG-AAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAAG
*
74237 TGCCACCAACTTGTGTGGGCTTT-AAGAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
74301 CTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGG
66 CTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGG
* * *
74365 GCTTTAAGAGGCGTCCTGCTCTTTGAAGACTGGGAAGTGCCACCAATTTGTGTGGGCTTTAAAAG
131 GCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----
*
74430 AAAAAAGCGAAAGGAGAGAGCGTCCTGCTCTTCGAGGGCTAGGAAGTGCCACCAACTTGTGTGGG
191 -AAAAA--G-AA--AGAGAGCGTCCTGCTCTTTGAGGGCTAGGAAGTGCCACCAACTTGTGTGGG
74495 CTTTGCAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAAG
250 CTTTG-AAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAAG
* *
74537 TGCCACCAACTTGTGTGGGCTTT-AGGAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * *
74601 CTTGTGTGGGCTTT-AAAAGGCGTCTTCCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGG
66 CTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGG
*
74665 GCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAA
131 GCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAA
* * * * * * *
74730 GAAA-A-AGCATCCTGCTCTTTGAGGACTCGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGA
196 GAAAGAGAGCGTCCTGCTCTTTGAGGGCTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AA
* * *
74793 GAAGGCGTCCTGCTCTTTGAGGACTG-AAGG
260 GAAAGCATCCTGCTCTTTGAGGACTGAAAAG
* * *
74823 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTTCTGCTCTTTGAGGATTGGAAAATTCCA
1 TGCCACCAACTTGTGTGGGCTTT-AAAG---AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCA
74888 CCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
62 CCAACTTGTGTGGGCTTT-----AAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * * *
74953 CTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGA
122 CTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGG
*
75018 CTTT-------AAGAG-GCGTCCTGCTCTTTGAGGGCTGGGAAGTGCCACCAACTTGTGTGGGCT
187 CTTTAAAAAGAAAGAGAGCGTCCTGCTCTTTGAGGGCTAGGAAGTGCCACCAACTTGTGTGGGCT
*
75075 TT-AAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
252 TTGAAAAAG--AAAGCATCCTGCTCTTTGAGGACTGAAAAG
**
75115 TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCC
1 TGCCACCAACTTGTGTGGGCTTT--AA--AG-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCC
* *
75179 ACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTTCTGCTCTTTGAGGACTGGAAAATGCCACCAA
61 ACCAACTTGTGTGGGCTTT---A-AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
*
75244 CTTGTGTAGGCTTTAA
122 CTTGTGTGGGCTTTAA
75260 AAGAAAAAGG
Statistics
Matches: 932, Mismatches: 68, Indels: 67
0.87 0.06 0.06
Matches are distributed among these distances:
286 29 0.03
287 70 0.08
288 3 0.00
289 3 0.00
290 8 0.01
291 173 0.19
292 50 0.05
293 25 0.03
294 5 0.01
295 2 0.00
297 102 0.11
300 325 0.35
301 11 0.01
306 53 0.06
311 2 0.00
312 71 0.08
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (290 bp):
TGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
CTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGG
GCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAA
GAAAGAGAGCGTCCTGCTCTTTGAGGGCTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAG
AAAGCATCCTGCTCTTTGAGGACTGAAAAG
Found at i:74556 original size:135 final size:129
Alignment explanation
Indices: 74320--74560 Score: 331
Period size: 135 Copynumber: 1.8 Consensus size: 129
74310 GCTTTAAAAG
* * *
74320 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCT
1 GCGTCCTGCTCTTCGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAGCATCCTGCT
** *
74385 CTTTGAAGACTGGGAAGTGCCACCAATTTGTGTGGGCTTTAAAAGAAAAAAGCGAAAGGAGAGA
66 CTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCGAAAGGAGAGA
* *
74449 GCGTCCTGCTCTTCGAGGGCTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 GCGTCCTGCTCTTCGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT-----AAG-AAGCA
*
74513 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTA
59 TCCTGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTA
74561 GGAGGCATCC
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
129 44 0.46
130 2 0.02
134 3 0.03
135 47 0.49
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (129 bp):
GCGTCCTGCTCTTCGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAGCATCCTGCT
CTTTGAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCGAAAGGAGAGA
Found at i:75002 original size:352 final size:354
Alignment explanation
Indices: 73925--75288 Score: 1751
Period size: 352 Copynumber: 3.8 Consensus size: 354
73915 TGGAAAGGTT
* *
73925 TGCCACCAACTTGTGTGGGATTTGAA-AGGCGTCTTGCTCTTTGAGGACTGGAAAATGCCACCAA
1 TGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * * *
73989 CTTATGTGGGCTTTAAAAAGAAAAGGCGTCCTGCCCTTTGAGGACTGGAAAATGCCACCAACTTG
65 CTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
* * * * *
74054 TATGGGCTTTGCAAAA--AGAAAGCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTG
130 TGTGGGCTTTG-AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTG
*
74117 TGGGCTTTAAAAGAAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGGCT-AAGAAGTGCCA
193 TGGGCTTT-----AAAAA---G-AA--A-AG-GCGTCCTGCTCTTTGAGGACTGAA-AAGTGCCA
* *
74181 CCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCATCCTACTCTTTGAGGACT-GAAAAGTGCCAC
244 CCAACTTGTGTGGGCTTT--AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCAC
* *
74243 CAACTTGTGTGGGCTTTAAGAGGCATCCTGCTCTTTGAGGACTGGAAAA
306 CAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
*
74292 TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
* * * * * *
74357 TTGTGTGGGCTTT---AAG---AGGCGTCCTGCTCTTTGAAGACTGGGAAGTGCCACCAATTTGT
66 TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
* *
74416 GTGGGCTTTAAAAGAAAAAAGCGAAAGGAGAGAGCGTCCTGCTCTTCGAGGGCTAGGAA-GTGCC
131 GTGGGCTTT----G--AAAAG-G--A-GA-AG-GCGTCCTGCTCTTTGAGGACT--GAAGGTGCC
*
74480 ACCAACTTGTGTGGGCTTTGCAAAAAG-AAA-GCATCCTGCTCTTTGAGGACTGAAAAGTGCCAC
182 ACCAACTTGTGTGGGCTTT--AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCAC
*
74543 CAACTTGTGTGGGCTTT---AG---GAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
245 CAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
* * *
74602 TTGTGTGGGCTTTAAAAGGCGTCTTCCTCTTTGAGGACTGAAAAA
310 TTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* *
74647 TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
*
74712 TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTCGAAAATGCCACCAACTTGT
66 TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
*
74777 GTAGGCTTTG-AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGG
131 GTGGGCTTTGAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGG
* * *
74841 GCTTT-AAAAGAAAAGGCGTTCTGCTCTTTGAGGATTGGAAAA-TTCCACCAACTTGTGTGGGCT
196 GCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCT
*
74904 TTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA
260 TTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA
74969 AAGGCGTCCTGCTCTTTGAGGACTGGAAAA
325 AAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* * * * *
74999 TGCCACCAACTTGTATGGACTTTAAGAGGCGTCCTGCTCTTTGAGGGCTGGGAAGTGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
*
75064 TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGT
66 TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
*
75129 GTGGGCTTTG-AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGG
131 GTGGGCTTTGAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGG
* *
75193 GCTTT-AAAAGAAAAGGCGTTCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTAGGCT
196 GCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCT
*
75256 TTAAAAGAAAAAGGCAT-TTGCTCTTTGAGGACT
260 TTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT
75289 AAAAAGTGGA
Statistics
Matches: 901, Mismatches: 60, Indels: 88
0.86 0.06 0.08
Matches are distributed among these distances:
344 5 0.01
345 3 0.00
346 43 0.05
347 29 0.03
348 19 0.02
349 4 0.00
350 2 0.00
351 16 0.02
352 343 0.38
353 1 0.00
354 5 0.01
355 145 0.16
356 6 0.01
357 1 0.00
358 3 0.00
361 135 0.15
362 2 0.00
363 1 0.00
364 4 0.00
365 1 0.00
366 7 0.01
367 72 0.08
368 1 0.00
371 6 0.01
372 2 0.00
373 1 0.00
374 41 0.05
375 2 0.00
376 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (354 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
GTGGGCTTTGAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGG
GCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT
TAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAA
AGGCGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:76278 original size:1 final size:1
Alignment explanation
Indices: 76274--76321 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
76264 CTTTTCTATC
* * * * *
76274 TTTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
76322 AAAAAAGAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:76293 original size:16 final size:14
Alignment explanation
Indices: 76274--76321 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
76264 CTTTTCTATC
*
76274 TTTTTTCTTTGTTT
1 TTTTTTTTTTGTTT
76288 TGTTTTTTTGTT-TTT
1 T-TTTTTTT-TTGTTT
76303 TTTTTTTTTTGTTT
1 TTTTTTTTTTGTTT
76317 TTTTT
1 TTTTT
76322 AAAAAAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.07
14 16 0.53
15 10 0.33
16 2 0.07
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTGTTT
Found at i:76298 original size:8 final size:8
Alignment explanation
Indices: 76274--76320 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
76264 CTTTTCTATC
*
76274 TTTTTTCT
1 TTTTTTGT
76282 TTGTTTTGT
1 TT-TTTTGT
76291 TTTTTTGT
1 TTTTTTGT
*
76299 TTTTTTTT
1 TTTTTTGT
76307 TTTTTTGT
1 TTTTTTGT
76315 TTTTTT
1 TTTTTT
76321 TAAAAAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 28 0.80
9 7 0.20
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (8 bp):
TTTTTTGT
Found at i:76312 original size:24 final size:24
Alignment explanation
Indices: 76274--76320 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
76264 CTTTTCTATC
76274 TTTTTTCTTTGTTTTGTTTTTTTG
1 TTTTTTCTTTGTTTTGTTTTTTTG
* *
76298 TTTTTTTTTTTTTTTGTTTTTTT
1 TTTTTTCTTTGTTTTGTTTTTTT
76321 TAAAAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (24 bp):
TTTTTTCTTTGTTTTGTTTTTTTG
Found at i:76321 original size:13 final size:13
Alignment explanation
Indices: 76274--76321 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
76264 CTTTTCTATC
*
76274 TTTTTTCTTTGTT
1 TTTTTTTTTTGTT
*
76287 TTGTTTTTTTGTT
1 TTTTTTTTTTGTT
76300 TTTTTTTTTT-TT
1 TTTTTTTTTTGTT
76312 TGTTTTTTTT
1 T-TTTTTTTT
76322 AAAAAAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 3 0.10
13 28 0.90
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:88846 original size:79 final size:79
Alignment explanation
Indices: 88763--88988 Score: 206
Period size: 79 Copynumber: 2.9 Consensus size: 79
88753 AATAAGGCAA
* * * * *
88763 GGGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATGTTTCAAAAATAGAATCGGGGTTGGAGTAT
1 GGGTTGAAGTATCCCCAATTATGAG-AAATCA-ATATTTCAAAAATAAAACCGGGGTTGGAGTAT
88826 CCCCGTGAAAATAATG
64 CCCCGTGAAAATAATG
* * * **
88842 GGGTTGGAGTATCTCCAATTATGAGAAATCAATATTTTAGGAATAAAACCGGGGTTGGAGTATCC
1 GGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAACCGGGGTTGGAGTATCC
* **
88907 CC-TCAGAAATAACA
66 CCGTGA-AAATAATG
* * * * * ** * *
88921 GGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGGAGTTGGAGTATCC
1 GGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAACCGGGGTTGGAGTATCC
88986 CCG
66 CCG
88989 ATTGTGAGAA
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
78 2 0.02
79 119 0.96
80 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
GGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAACCGGGGTTGGAGTATCC
CCGTGAAAATAATG
Found at i:88991 original size:51 final size:51
Alignment explanation
Indices: 88919--89038 Score: 206
Period size: 51 Copynumber: 2.4 Consensus size: 51
88909 TCAGAAATAA
* *
88919 CAGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGGAATAAAGC
1 CAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAAC
88970 C-GGAGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAAC
1 CAGG-GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAAC
89021 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
89039 TCGGAAATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
50 2 0.03
51 61 0.94
52 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAAC
Found at i:89029 original size:209 final size:210
Alignment explanation
Indices: 88654--89063 Score: 496
Period size: 209 Copynumber: 2.0 Consensus size: 210
88644 ATCTCCCGAC
*
88654 GAGAAATTTAATATTTTGGAGATAATAACAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG
1 GAGAAATTCAATATTTTGGAGATAATAACAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG
* * *
88719 AGTATCCTCGATTGCGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGATTA
66 AGTATCCTCGATTGCGAAAAATCAATGATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTA
* * * * *
88784 TAGAAAATAGATGTTTCAAAAATAGAATCGGGGTTGGAGTATCCCCGT-GAAAATAATGGGGTTG
131 TAGAAAATAGATATTTCAAAAATAAAACCAGGGTTGGAGTATCCCC-TCGAAAATAACGGGGTTG
88848 GAGTATCTCCAATTAT
195 GAGTATCTCCAATTAT
* *
88864 GAGAAA-TCAATATTTTAGGA-ATAA-AACCGGGGTTGGAGTATCCCCTCAGAAATAAC-AGGGT
1 GAGAAATTCAATATTTT-GGAGATAATAA-CAGGGTTGGAGTATCCCCTCAAAAATAACGA-GGT
* * * * *
88925 TGGAGTATCCTCGATTGTGAGAAATCAAT-ATTTTAGGAATAAAGC-CGGAGTTGGAGTATCCCC
63 TGGAGTATCCTCGATTGCGAAAAATCAATGA-TTTAGAAATAAAGCAAGG-GTTGAAGTATCCCC
* * ** *
88988 GATTGT-GAGAAATCA-ATATTTTAGGAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACG
126 GATTATAGA-AAAT-AGATATTTCAAAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACG
89051 GGGTTGGAGTATC
189 GGGTTGGAGTATC
89064 CCCGATGATT
Statistics
Matches: 171, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
208 9 0.05
209 152 0.89
210 10 0.06
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (210 bp):
GAGAAATTCAATATTTTGGAGATAATAACAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG
AGTATCCTCGATTGCGAAAAATCAATGATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTA
TAGAAAATAGATATTTCAAAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCTCCAATTAT
Found at i:89056 original size:28 final size:27
Alignment explanation
Indices: 89023--89095 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
89013 AATAAAACCA
**
89023 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGAGG-AATAACG
* *
89051 GGGTTGGAGTATCCCCGATGATTAACG
1 GGGTTGGAGTATCCCCGAGGAATAACG
*
89078 GGGTTAGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
89096 TTGTGAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAATAACG
Found at i:89139 original size:50 final size:50
Alignment explanation
Indices: 89080--89259 Score: 261
Period size: 51 Copynumber: 3.5 Consensus size: 50
89070 GATTAACGGG
* *
89080 GTTAGAGTATCCCCGATTGTGAAAATTGGTGTTTTAAAAATAAAACCGGG
1 GTTAGAGTATCCCCGATTGTGAAAATTGGTGTTTTAAAAATAAAATCGGA
* *
89130 GTTAAAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTGT-GAAAATTGGTGTTTTAAAAATAAAATCGGA
* *
89181 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTGTG-AAAATTGGTGTTTTA-AAAATAAAATCGGA
*
89233 GTTAGAGTATCCCCGATTATGAGAAAT
1 GTTAGAGTATCCCCGATTGTGA-AAAT
89260 CAATATTTTG
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
50 20 0.17
51 59 0.51
52 37 0.32
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (50 bp):
GTTAGAGTATCCCCGATTGTGAAAATTGGTGTTTTAAAAATAAAATCGGA
Found at i:89275 original size:103 final size:101
Alignment explanation
Indices: 89084--89267 Score: 253
Period size: 103 Copynumber: 1.8 Consensus size: 101
89074 AACGGGGTTA
* * *
89084 GAGTATCCCCGATTGTGAAAATTGGTGTTTTAAAAATAAAACCGGGGTTAAAGTATCCCCGATTG
1 GAGTATCCCCGATTGTGAAAATTGGTGCTTTAAAAATAAAACCGGAGTTAAAGTATCCCCGATTA
*** *
89149 TGGAAAATTGGTGTTTCAAAAATAAAATCGGAGTTG
66 TGGAAAATCAATATTTCAAAAATAAAATCGGAGTTG
* *
89185 GAGTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAAATAAAATCGGAGTTAGAGTATCCCCGAT
1 GAGTATCCCCGATTGTG-AAAATTGGTGCTTTA-AAAATAAAACCGGAGTTAAAGTATCCCCGAT
89250 TAT-GAGAAATCAATATTT
64 TATGGA-AAATCAATATTT
89268 TGGAAATAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
101 17 0.24
102 16 0.23
103 38 0.54
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (101 bp):
GAGTATCCCCGATTGTGAAAATTGGTGCTTTAAAAATAAAACCGGAGTTAAAGTATCCCCGATTA
TGGAAAATCAATATTTCAAAAATAAAATCGGAGTTG
Found at i:89288 original size:103 final size:101
Alignment explanation
Indices: 89076--89297 Score: 248
Period size: 103 Copynumber: 2.2 Consensus size: 101
89066 CGATGATTAA
* * *
89076 CGGGGTTAGAGTATCCCCGATTGTGAAAATTGGTGTTTTAAAAATAAAACCGGGGTTAAAGTATC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGCTTTAAAAATAAAACCGGAGTTAAAGTATC
* *** * *
89141 CCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAAT
66 CCCGATTATGGAAAATCAATATTTCAAAAATAAAAC
* * *
89177 CGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAAATAAAATCGGAGTTAGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTG-AAAATTGGTGCTTTA-AAAATAAAACCGGAGTTAAAGTA
*** * *
89242 TCCCCGATTAT-GAGAAATCAATATTTTGGAAATAGAGC
64 TCCCCGATTATGGA-AAATCAATATTTCAAAAATAAAAC
*
89280 CGGGGTTGGAGTTTCCCC
1 CGGGGTTGGAGTATCCCC
89298 TCGGAGGTAA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
101 23 0.23
102 16 0.16
103 60 0.61
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (101 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGCTTTAAAAATAAAACCGGAGTTAAAGTATC
CCCGATTATGGAAAATCAATATTTCAAAAATAAAAC
Found at i:89288 original size:259 final size:263
Alignment explanation
Indices: 88970--89462 Score: 699
Period size: 259 Copynumber: 1.9 Consensus size: 263
88960 GGAATAAAGC
* *
88970 CGGAGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAACCAGGGTTGGAGTAT
1 CGGAGTTAGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAACCAGGGTTGGAGTAT
* * *
89035 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTAGAGTATCCCCGATTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTAGAGTATCCCCGATTG
* **
89099 TG-AAAATTGGTG-TTTTAAAAATAAAACCGGGGTTAAAGTATCCCCGATT-GTGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTAAAAATAAAACCGGAGTTAAAGTATCCCCGATTAAAGGAAAATTGGT
89161 GTTTCAAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAAATAA
196 GTTTCAAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAAATAA
89226 AAT
261 AAT
* * * *
89229 CGGAGTTAGAGTATCCCCGATTATGAGAAATCAATATTTT-GGAAATAGAGCCGGGGTTGGAGTT
1 CGGAGTTAGAGTATCCCCGATTATGAGAAATCAATATTTTAGG-AATAAAACCAGGGTTGGAGTA
** * *
89293 TCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATT
65 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTAGAGTATCCCCGATT
** * ** *
89358 GTGAAAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATTCCCGATTAAAGGAAAATTG
130 GTGAAAAATTGGTG-TTTTTAAAAATAAAACCGGAGTTAAAGTATCCCCGATTAAAGGAAAATTG
** * *
89423 GTGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCCGATT
194 GTGTTTCAAAAATAAAATCGGAGTTGGAGTATCCCCGATT
89463 ATAAACAATT
Statistics
Matches: 202, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
258 2 0.01
259 89 0.44
260 26 0.13
261 10 0.05
263 30 0.15
264 45 0.22
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (263 bp):
CGGAGTTAGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAACCAGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTAGAGTATCCCCGATTG
TGAAAAATTGGTGTTTTTAAAAATAAAACCGGAGTTAAAGTATCCCCGATTAAAGGAAAATTGGT
GTTTCAAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGAAAAATTGGTGCTTTAGAAAATAA
AAT
Found at i:89449 original size:52 final size:53
Alignment explanation
Indices: 89340--89463 Score: 153
Period size: 52 Copynumber: 2.4 Consensus size: 53
89330 AAATAACGAG
* ** * *
89340 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTTGAAAATAAAATCGGA
* * *
89393 GTTGGAGTATTCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATTGGG
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTTGAAAATAAAATCGGA
89445 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
89464 TAAACAATTG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 34 0.56
53 16 0.26
54 11 0.18
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.34
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTTGAAAATAAAATCGGA
Found at i:91845 original size:13 final size:13
Alignment explanation
Indices: 91827--91852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91817 ACAAAGATCG
91827 ATGTATCGATACA
1 ATGTATCGATACA
91840 ATGTATCGATACA
1 ATGTATCGATACA
91853 TTTCCTTAAT
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:91863 original size:21 final size:21
Alignment explanation
Indices: 91839--91880 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
91829 GTATCGATAC
91839 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
91860 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
91881 GGTAATAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:91938 original size:32 final size:32
Alignment explanation
Indices: 91827--91969 Score: 130
Period size: 32 Copynumber: 4.5 Consensus size: 32
91817 ACAAAGATCG
* ***
91827 ATGTATCGATACAATGTATCGATACATTTCCTT
1 ATGTATCGATACATTGTATCGATACA-AAACTT
* * * * *
91860 AATGTATCGATACATT-TCCTTGGTA-ATAGCTT
1 -ATGTATCGATACATTGT-ATCGATACAAAACTT
* *
91892 A-GTAGCGATACATTGTATCGATATAAAACTT
1 ATGTATCGATACATTGTATCGATACAAAACTT
*
91923 ATGTATCGATACATTGTATCGATACAACACTT
1 ATGTATCGATACATTGTATCGATACAAAACTT
91955 ATGTATCGATACATT
1 ATGTATCGATACATT
91970 TACGGTTTGC
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
30 16 0.18
31 8 0.09
32 46 0.51
33 2 0.02
34 18 0.20
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATTGTATCGATACAAAACTT
Found at i:91942 original size:13 final size:13
Alignment explanation
Indices: 91924--91948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91914 ATAAAACTTA
91924 TGTATCGATACAT
1 TGTATCGATACAT
91937 TGTATCGATACA
1 TGTATCGATACA
91949 ACACTTATGT
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:91961 original size:19 final size:19
Alignment explanation
Indices: 91905--91967 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
91895 AGCGATACAT
* *
91905 TGTATCGATATAAAACTTA
1 TGTATCGATACAACACTTA
91924 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
91937 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
91956 TGTATCGATACA
1 TGTATCGATACA
91968 TTTACGGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 5 0.14
18 1 0.03
19 21 0.57
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:96739 original size:6 final size:6
Alignment explanation
Indices: 96724--96758 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
96714 GTAATAAGTA
*
96724 AAAATC AAAATT AAAATT AAAATT AAAATT CAAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT -AAAA
96759 AAAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (6 bp):
AAAATT
Found at i:96804 original size:35 final size:35
Alignment explanation
Indices: 96765--96972 Score: 266
Period size: 35 Copynumber: 5.9 Consensus size: 35
96755 AAAAAAAATA
96765 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
96800 ATAAAAATGAAGGCATGGAATGATGATAATGATGGGCATGGAAT
1 ATAAAAATGAAGGC-----ATG--G--AATGATGGGCATGGAAT
96844 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
96879 ATAAAAATAAAGGCATGG-ATGAT-GGCATGG-AT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
* *
96911 AT--AAATGGAGGCAAGG-ATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
96943 ATAAAAATGAAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
96973 AAAAAATGAA
Statistics
Matches: 153, Mismatches: 6, Indels: 28
0.82 0.03 0.15
Matches are distributed among these distances:
30 16 0.10
31 7 0.05
32 8 0.05
33 7 0.05
34 17 0.11
35 59 0.39
37 1 0.01
39 3 0.02
40 3 0.02
42 1 0.01
44 31 0.20
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.21
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:96806 original size:44 final size:44
Alignment explanation
Indices: 96758--96888 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
96748 AAAATTCAAA
96758 AAAAATAATAAAAATGAAGGCATGGAATGATGGGCATGGAATAT
1 AAAAATAATAAAAATGAAGGCATGGAATGATGGGCATGGAATAT
* *** * *
96802 AAAAATGA-AGGCATGGAATG-ATGATAATGATGGGCATGG-----
1 AAAAATAATAAAAAT-GAAGGCATG-GAATGATGGGCATGGAATAT
96841 ---AAT-ATAAAAATGAAGGCATGGAATGATGGGCATGGAATAT
1 AAAAATAATAAAAATGAAGGCATGGAATGATGGGCATGGAATAT
96881 AAAAATAA
1 AAAAATAA
96889 AGGCATGGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 26
0.63 0.11 0.26
Matches are distributed among these distances:
35 19 0.30
36 9 0.14
43 9 0.14
44 26 0.41
ACGTcount: A:0.48, C:0.05, G:0.27, T:0.21
Consensus pattern (44 bp):
AAAAATAATAAAAATGAAGGCATGGAATGATGGGCATGGAATAT
Found at i:96815 original size:21 final size:21
Alignment explanation
Indices: 96790--96864 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
96780 TGGAATGATG
96790 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
* * *
96811 GGCATGGAATGATGATAATGATG
1 GGCATGGAAT-ATAAAAATGA-A
96834 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
96855 GGCATGGAAT
1 GGCATGGAAT
96865 GATGGGCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.43
22 16 0.35
23 10 0.22
ACGTcount: A:0.44, C:0.05, G:0.29, T:0.21
Consensus pattern (21 bp):
GGCATGGAATATAAAAATGAA
Found at i:96936 original size:64 final size:68
Alignment explanation
Indices: 96827--96968 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 68
96817 GAATGATGAT
*
96827 AATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATAAAGG
1 AATGAT-GGCATGGAATAT-AAAATGAAGGCAAGGAATGATGGGCATGGAATATAAAAATAAAGG
96892 CATGG
64 CATGG
* *
96897 -ATGATGGCATGG-ATAT-AAATGGAGGCAAGG-ATGATGGGCATGGAATATAAAAATGAAGGCA
1 AATGATGGCATGGAATATAAAATGAAGGCAAGGAATGATGGGCATGGAATATAAAAATAAAGGCA
96958 TGG
66 TGG
96961 AATGATGG
1 AATGATGG
96969 GCATAAAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
64 33 0.49
65 19 0.28
67 4 0.06
68 7 0.10
69 5 0.07
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (68 bp):
AATGATGGCATGGAATATAAAATGAAGGCAAGGAATGATGGGCATGGAATATAAAAATAAAGGCA
TGG
Found at i:98252 original size:28 final size:26
Alignment explanation
Indices: 98185--98253 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
98175 TTTCACAATC
*
98185 GGGGATACTCCAACCCCGTTAATCAT
1 GGGGATACTCCAACCCCGTTAATCAA
* *
98211 CGGGATACTCCAACCCCGTTATTTTCAA
1 GGGGATACTCCAACCCCGTTA--ATCAA
98239 GGGGATACTCCAACC
1 GGGGATACTCCAACC
98254 TCGGCTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 20 0.54
28 17 0.46
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (26 bp):
GGGGATACTCCAACCCCGTTAATCAA
Found at i:98618 original size:79 final size:79
Alignment explanation
Indices: 98212--98696 Score: 545
Period size: 78 Copynumber: 6.1 Consensus size: 79
98202 GTTAATCATC
* * *
98212 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCTCGGCTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCA
*
98277 A-GTTTCATAATCG
66 ATTTTTCATAATCG
* * * * *
98290 AGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCTAACCCCCGGTTTTGGTTTTATATCGAA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCC------GGTTTTATTTCTAA
* *
98355 AACATC-ATTTTTCCTTCATCG
59 AACATCAATTTTT-CATAATCG
* * * * *
98376 GGGATACTCCAATCCCGCTA-TTCCTAGGGGATACTCC-ACCCCGATTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCA
98439 ATTTTTCATAATCG
66 ATTTTTCATAATCG
* ** *
98453 GGGATACGCCAACCTAGTTATTTTCGAGGGGGATACTCCAA-CCCGGTTGTA-TTCTAAAACATC
1 GGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC
98516 AATTTTTCATAATCG
65 AATTTTTCATAATCG
* * * * *
98531 GGGATACTCCAACCCCGTTATTTACGGGGGGATACTCCAACCCCAGTTTTATTTCAAAAACACCA
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCA
98596 A-TTTTCATAATCG
66 ATTTTTCATAATCG
* * * * *
98609 AGGATTACTCCAATCCAGTTA-TTTCTGAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACAT
1 GGGA-TACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
98673 CAATTTTTCATAATCG
64 CAATTTTTCATAATCG
98689 GGGATACT
1 GGGATACT
98697 TTAAACCCCG
Statistics
Matches: 341, Mismatches: 48, Indels: 35
0.80 0.11 0.08
Matches are distributed among these distances:
77 51 0.15
78 121 0.35
79 89 0.26
80 16 0.05
83 4 0.01
84 2 0.01
85 34 0.10
86 24 0.07
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCA
ATTTTTCATAATCG
Found at i:106527 original size:52 final size:51
Alignment explanation
Indices: 106449--106597 Score: 181
Period size: 52 Copynumber: 2.9 Consensus size: 51
106439 CGAAATATGA
* *
106449 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGAGC
* * *
106501 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATTTGAGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGAGC
* * * **
106553 AGATTTGCCAGCATGTATCAATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
106598 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGAGC
Found at i:106688 original size:33 final size:33
Alignment explanation
Indices: 106651--106717 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
106641 AGTAGCTTAA
106651 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
106684 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
106717 A
1 A
106718 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:106691 original size:13 final size:13
Alignment explanation
Indices: 106673--106697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106663 CAAAAAAATA
106673 TGTATCGATACAT
1 TGTATCGATACAT
106686 TGTATCGATACA
1 TGTATCGATACA
106698 ACACTTTATG
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:108886 original size:35 final size:35
Alignment explanation
Indices: 108847--109011 Score: 241
Period size: 35 Copynumber: 4.9 Consensus size: 35
108837 TTCATTTTTT
*
108847 ATGCCCATCATTCCTTGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
108882 ATGCCCATCATTCCATGCCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
108917 ATGCCGATCA-TCCATG-CTTCCTTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
108949 ATGCCCATCATTCCAT-CCTTCA-TTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
108982 GTGCCTATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
109012 TATTTTTTTG
Statistics
Matches: 116, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
32 19 0.16
33 37 0.32
34 12 0.10
35 48 0.41
ACGTcount: A:0.18, C:0.32, G:0.07, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:108954 original size:67 final size:68
Alignment explanation
Indices: 108847--109011 Score: 237
Period size: 67 Copynumber: 2.4 Consensus size: 68
108837 TTCATTTTTT
*
108847 ATGCCCATCATTCCTTGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCAT-CCTCCA-TTTTAT
108912 ATTCC
64 ATTCC
* * *
108917 ATGCCGATCA-TCCATG-CTTCCTTTTT-TATTCCATGCCCATCATTCCATCCTTCATTTTATAT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATCCTCCATTTTATAT
108979 TCC
66 TCC
* *
108982 GTGCCTATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
109012 TATTTTTTTG
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
65 19 0.22
66 11 0.13
67 31 0.36
68 10 0.12
69 5 0.06
70 9 0.11
ACGTcount: A:0.18, C:0.32, G:0.07, T:0.44
Consensus pattern (68 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATCCTCCATTTTATAT
TCC
Found at i:109507 original size:38 final size:40
Alignment explanation
Indices: 109463--109562 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
109453 TCCCACTTTT
*
109463 TTGAGGACAAA-GAAAAGAG-AATGAATAG-GTCCTGCTCC
1 TTGAGGACAAAGGAAAAGAGAAAGGAA-AGTGTCCTGCTCC
*
109501 TTGAGGACAAAGGAAAAGAAGAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAG-AGAAAGGAAAGTGTCCTGCTCC
109542 TTGAGGACAAAGTGAAAAGAG
1 TTGAGGACAAAG-GAAAAGAG
109563 TACGTCTCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 11 0.20
39 6 0.11
40 4 0.07
41 28 0.51
42 6 0.11
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.17
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAGAGAAAGGAAAGTGTCCTGCTCC
Found at i:109783 original size:61 final size:60
Alignment explanation
Indices: 109688--109862 Score: 214
Period size: 61 Copynumber: 2.9 Consensus size: 60
109678 AAAGAAGTGT
*
109688 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCTTGTGGTCTTTGAAAAGA-AAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT-TTGTGGGCTTTGAAAAGAGAAA-GC
* * *
109749 GTCCTGCTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACT-TTGTGGGCTTTG-AAAAGAGAAAGC
* *
109810 ATCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTT-TGTGGGCTTTGAAAAG
109863 GCGTCATGCT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
59 4 0.04
60 3 0.03
61 81 0.83
62 10 0.10
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTTGTGGGCTTTGAAAAGAGAAAGC
Found at i:110097 original size:92 final size:93
Alignment explanation
Indices: 109966--110134 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
109956 AAAGAAAGCA
* *
109966 TCCTGCTCTTTGAGGACTAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCAC-TTG
1 TCCTGCTCTTTGAGGACTAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCACTTTG
110030 A-GACT-AAAGGGTGAAAGAGGAGAGCG
66 AGGACTGAAAGGGTGAAAGAGGAGAGCG
*
110056 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTA--AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCACTT
110121 TGAGGACTGAAAGG
64 TGAGGACTGAAAGG
110135 TGCCACCAAC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
90 19 0.27
92 39 0.55
93 4 0.06
94 4 0.06
95 5 0.07
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (93 bp):
TCCTGCTCTTTGAGGACTAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCACTTTG
AGGACTGAAAGGGTGAAAGAGGAGAGCG
Found at i:110118 original size:55 final size:55
Alignment explanation
Indices: 110053--110184 Score: 203
Period size: 55 Copynumber: 2.4 Consensus size: 55
110043 AAAGAGGAGA
* *
110053 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG
*
110108 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG
* *
110163 GCGTCATGCTCTTTAAGGACTG
1 GCGTCCTGCTCTTTGAGGACTG
110185 GAGGGTGAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 3 0.04
55 68 0.96
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG
Found at i:110234 original size:149 final size:149
Alignment explanation
Indices: 109747--110338 Score: 779
Period size: 149 Copynumber: 3.9 Consensus size: 149
109737 AAAAGAAAAG
*
109747 GCGTCCTGCTCTTTGAGGACT-GGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
1 GCGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGATTT--AAAAAG--AGCA
* *
109811 TCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCATGCTCTT
61 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATGCTCTT
*
109876 TGAGGACTAAAGGGCGAAATGAGAGA
125 TGAGGACTAAAGGGTGAAA-GAGAGA
*
109902 GCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGATTTACAAAAAGAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGATTT--AAAAAG--AGCAT
* * *
109967 CCTGCTCTTTGAGGACT-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCAC-TTG
62 CCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATGCTCTTTG
110030 A-GACTAAAGGGTGAAAGAGGAGA
127 AGGACTAAAGGGTGAAAGA-GAGA
* *
110053 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GCGTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGATTTAAAAAGAGCATCCTG
* * *
110116 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCATGCTCTTTAAGG
66 CTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATGCTCTTTGAGG
** *
110181 ACTGGAGGGTGAAAGGAGAGT
130 ACTAAAGGGTGAAA-GAGAGA
* * *
110202 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTT-AAAAG-GCGTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGATTTAAAAAGAGCATCCTG
* *
110265 CTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGAGTCCTGCTCTTTGAG
66 CTCTTTGAGGACTAA-AAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCATGCTCTTTGAG
110329 GACTGAAAGG
129 GACT-AAAGG
110339 TGCCACCAAC
Statistics
Matches: 400, Mismatches: 27, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
145 20 0.05
147 40 0.10
148 12 0.03
149 135 0.34
150 7 0.02
151 66 0.17
152 4 0.01
153 39 0.10
155 72 0.18
156 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (149 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGATTTAAAAAGAGCATCCTG
CTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATGCTCTTTGAGGA
CTAAAGGGTGAAAGAGAGA
Found at i:110409 original size:61 final size:60
Alignment explanation
Indices: 110202--110454 Score: 300
Period size: 55 Copynumber: 4.3 Consensus size: 60
110192 AAAGGAGAGT
*
110202 GCGTCCTGCTCTTTGAGGACT--AGGAAGTGCCACCAACTTGTATGGGCTTT-----AAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGG--GTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
*
110257 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTT-AA-G---AG
1 GCGTCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
* *
110312 GAGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
* *
110373 GCGTCCTGCCCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAG
110434 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
110455 GGAAGGGCTA
Statistics
Matches: 173, Mismatches: 11, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
55 89 0.51
56 2 0.01
57 4 0.02
58 1 0.01
60 3 0.02
61 74 0.43
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAG
Found at i:110411 original size:116 final size:110
Alignment explanation
Indices: 110204--110429 Score: 312
Period size: 116 Copynumber: 2.0 Consensus size: 110
110194 AGGAGAGTGC
* * *
110204 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTATATGGGCTTTAAAAGGCGTCCTGCCCT
*
110269 TTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGA
66 TTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
110314 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTATATGGGCTTT------AAAAGGCGTC
*
110378 CTGCCCTTTGAGGACTAA-AGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
59 CTGCCCTTTGAGGACTAAGA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
110430 AAAAGCGTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 10
0.86 0.05 0.08
Matches are distributed among these distances:
109 3 0.03
110 41 0.40
115 1 0.01
116 57 0.56
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (110 bp):
GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTATATGGGCTTTAAAAGGCGTCCTGCCCT
TTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Done.