Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold353
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: 358750
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:2287 original size:19 final size:20
Alignment explanation
Indices: 2241--2294 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2231 GTATCGATAC
2241 AATGTATCGATACATGATGA
1 AATGTATCGATACATGATGA
* *
2261 ATTGTATCGATACATGGT-A
1 AATGTATCGATACATGATGA
2280 AATGTATCGATACAT
1 AATGTATCGATACAT
2295 TGAGCCCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATGATGA
Found at i:9470 original size:27 final size:26
Alignment explanation
Indices: 9433--9520 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
9423 AACAAAAAGC
9433 TCTATATGTAAAGGTTTAATTGAAAAT
1 TCTATATGTAAA-GTTTAATTGAAAAT
* * *
9460 TCTATAGGTAAATTTTAATTAAAAAT
1 TCTATATGTAAAGTTTAATTGAAAAT
* * *
9486 TTTAAATCTAAAATGTTTAATTGAAAAT
1 TCTATATGT-AAA-GTTTAATTGAAAAT
9514 TCTATAT
1 TCTATAT
9521 AGAAATGTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
26 17 0.35
27 14 0.29
28 17 0.35
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (26 bp):
TCTATATGTAAAGTTTAATTGAAAAT
Found at i:9485 original size:13 final size:13
Alignment explanation
Indices: 9469--9573 Score: 52
Period size: 13 Copynumber: 7.6 Consensus size: 13
9459 TTCTATAGGT
9469 AAATTTTAATTAA
1 AAATTTTAATTAA
9482 AAATTTTAAATCT-A
1 AAATTTT-AAT-TAA
*
9496 AAATGTTTAATTGA
1 AAAT-TTTAATTAA
* *
9510 AAATTCT-ATATAG
1 AAATTTTAAT-TAA
*
9523 AAATGTATAATTAAA
1 AAAT-TTTAATT-AA
* *
9538 AAGATCTATAAATAA
1 AA-AT-TTTAATTAA
*
9553 AAAGTTTAATTAA
1 AAATTTTAATTAA
*
9566 AAAATTTA
1 AAATTTTA
9574 GTACGTGAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
12 2 0.03
13 29 0.40
14 20 0.28
15 13 0.18
16 8 0.11
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (13 bp):
AAATTTTAATTAA
Found at i:15839 original size:30 final size:32
Alignment explanation
Indices: 15782--15840 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
15772 TTCTTGTAAC
**
15782 TAATACCAAAAGTTTATGCAAGTTCTCCCCCT
1 TAATACCAAAAGTTTATGCAAACTCTCCCCCT
15814 TAATA-CAAAA-TTTATGCAAACTCTCCC
1 TAATACCAAAAGTTTATGCAAACTCTCCC
15841 TATCTCCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.60
31 5 0.20
32 5 0.20
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (32 bp):
TAATACCAAAAGTTTATGCAAACTCTCCCCCT
Found at i:15975 original size:87 final size:86
Alignment explanation
Indices: 15757--16013 Score: 433
Period size: 86 Copynumber: 3.0 Consensus size: 86
15747 AAATCTATTC
*
15757 TCTCCCTTTTTGTTATTCTTGTAACTAATACCAAAAGTTTATGCAAGTTCTCCCCCTTAATACAA
1 TCTCCCTTTTTGTTATTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCCCCTTAATACAA
15822 AATTTATGCAAACTCTCCCTA
66 AATTTATGCAAACTCTCCCTA
* *
15843 TCTCCCTTTTTGTTATTCTTGTAACTAATACAAAAAGTTTATGCAAGCTCTCCCCCTTAATCCAA
1 TCTCCCTTTTTGTTATTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCCCCTTAATACAA
* *
15908 AATTTATGCAAACTCTCTCTTT
66 AATTTATGCAAACTCTC-CCTA
* *
15930 TCTCTCTTTTTATTATTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCCCCTTAATACAA
1 TCTCCCTTTTTGTTATTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCCCCTTAATACAA
*
15995 AATTTATTCAAACTCTCCC
66 AATTTATGCAAACTCTCCC
16014 CCTTAATACG
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
86 80 0.50
87 79 0.50
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (86 bp):
TCTCCCTTTTTGTTATTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCCCCTTAATACAA
AATTTATGCAAACTCTCCCTA
Found at i:16011 original size:30 final size:31
Alignment explanation
Indices: 15955--16022 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
15945 TTCTTGTAAC
*
15955 TAATACCAAAAGTTTATGCAAGCTCTCCCCCT
1 TAATA-CAAAAGTTTATGCAAACTCTCCCCCT
*
15987 TAATACAAAA-TTTATTCAAACTCTCCCCCT
1 TAATACAAAAGTTTATGCAAACTCTCCCCCT
16017 TAATAC
1 TAATAC
16023 GTTCTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 24 0.71
31 5 0.15
32 5 0.15
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.31
Consensus pattern (31 bp):
TAATACAAAAGTTTATGCAAACTCTCCCCCT
Found at i:17218 original size:13 final size:13
Alignment explanation
Indices: 17200--17225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17190 ACATACAAGA
17200 TGTATCGATACAT
1 TGTATCGATACAT
17213 TGTATCGATACAT
1 TGTATCGATACAT
17226 GACCAAATGT
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:17221 original size:32 final size:33
Alignment explanation
Indices: 17180--17245 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 33
17170 CCTTAACTGT
17180 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1 TTGTATCGATACATGACCAA-ATGTATCGATACA
*
17212 TTGTATCGATACATGACCAAATGTGTCGATACA
1 TTGTATCGATACATGACCAAATGTATCGATACA
17245 T
1 T
17246 CGGCTTGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 14 0.45
33 14 0.45
34 3 0.10
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATGTATCGATACA
Found at i:25907 original size:13 final size:13
Alignment explanation
Indices: 25889--25913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25879 ATAATGCACA
25889 GTATCGATACATT
1 GTATCGATACATT
25902 GTATCGATACAT
1 GTATCGATACAT
25914 GACAACTGTA
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):
GTATCGATACATT
Found at i:25946 original size:21 final size:19
Alignment explanation
Indices: 25899--25952 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
25889 GTATCGATAC
*
25899 ATTGTATCGATACATGACA
1 ATTGTATCGATACATGAAA
* *
25918 ACTGTATCGATACTTGCAAA
1 ATTGTATCGATACATG-AAA
25938 GATTGTATCGATACA
1 -ATTGTATCGATACA
25953 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 14 0.50
20 2 0.07
21 12 0.43
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (19 bp):
ATTGTATCGATACATGAAA
Found at i:26023 original size:32 final size:33
Alignment explanation
Indices: 25982--26049 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
25972 CCTTAACTGT
25982 TTGTATCGATACAT-A-CAAGATGTATCAATACA
1 TTGTATCGATACATGACCAA-ATGTATCAATACA
* *
26014 TTGTATCGATTCATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACCAAATGTATCAATACA
26047 TTG
1 TTG
26050 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATGTATCAATACA
Found at i:30227 original size:13 final size:13
Alignment explanation
Indices: 30186--30234 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
30176 CTGTTACAAG
*
30186 CAATGTATCAATA
1 CAATGTATCGATA
30199 CAAT-T-TC-AT-
1 CAATGTATCGATA
30208 C-ATGTATCGATA
1 CAATGTATCGATA
30220 CAATGTATCGATA
1 CAATGTATCGATA
30233 CA
1 CA
30235 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:30250 original size:33 final size:34
Alignment explanation
Indices: 30186--30255 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
30176 CTGTTACAAG
*
30186 CAATGTATCAATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCACCATGTATCGATA
*
30220 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCAATACAATT-TCACCATGTATCGATA
30253 CAA
1 CAA
30256 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCACCATGTATCGATA
Found at i:30309 original size:20 final size:20
Alignment explanation
Indices: 30284--30340 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
30274 CTGCCAATTT
30284 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
* **
30304 CATGTATTGATACAA-TGAG
1 CATGTATCGATACAATTGTC
30323 CATGTATCGATAC-ATTGT
1 CATGTATCGATACAATTGT
30341 ATCGATACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 14 0.45
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:30343 original size:13 final size:13
Alignment explanation
Indices: 30325--30349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30315 ACAATGAGCA
30325 TGTATCGATACAT
1 TGTATCGATACAT
30338 TGTATCGATACA
1 TGTATCGATACA
30350 AAGCAGTATG
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:30369 original size:33 final size:32
Alignment explanation
Indices: 30306--30370 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
30296 CAATTGTCCA
* * *
30306 TGTATTGATACAATGAGCATGTATCGATACAT
1 TGTATCGATACAAAGAGCATGTATCAATACAT
*
30338 TGTATCGATACAAAGCAGTATGTATCAATACAT
1 TGTATCGATACAAAG-AGCATGTATCAATACAT
30371 CTGGAAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAGCATGTATCAATACAT
Found at i:39640 original size:21 final size:20
Alignment explanation
Indices: 39610--39653 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
39600 CACTTGCAAC
39610 TCATTTTTTTCTCCTCTAAT
1 TCATTTTTTTCTCCTCTAAT
**
39630 TCATTTATTTTCTTTTCTAAT
1 TCATTT-TTTTCTCCTCTAAT
39651 TCA
1 TCA
39654 CTTAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (20 bp):
TCATTTTTTTCTCCTCTAAT
Found at i:39666 original size:21 final size:21
Alignment explanation
Indices: 39624--39667 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
39614 TTTTTTCTCC
* * *
39624 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTATTT
39645 TCTAATTCACTTAATTTATTT
1 TCTAATTCACTTAATTTATTT
39666 TC
1 TC
39668 AAGAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTATTT
Found at i:41021 original size:36 final size:35
Alignment explanation
Indices: 40939--41035 Score: 105
Period size: 36 Copynumber: 2.9 Consensus size: 35
40929 CTTACAACAC
*
40939 TATC-TTTC-AAGGCTAAGATAGAA--AC-CTCCT
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTCTCCT
**
40969 TATCTTTTCACGGGCTAAGATAGAACCTCTCTCCT
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTCTCCT
* *
41004 TATTTTTTTCAAAGGCTAAGATAAAACCTCTC
1 TA-TCTTTTCAAAGGCTAAGATAGAACCTCTC
41036 AATCACTTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 4 0.07
31 4 0.07
32 13 0.24
34 1 0.02
35 7 0.13
36 25 0.46
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (35 bp):
TATCTTTTCAAAGGCTAAGATAGAACCTCTCTCCT
Found at i:41614 original size:20 final size:20
Alignment explanation
Indices: 41566--41621 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
41556 TGATACAATT
*
41566 CAATATGTATCGATACTAAG
1 CAATATGTATCGATACAAAG
*
41586 -AACATGTATCGATACAAAG
1 CAATATGTATCGATACAAAG
41605 CAATATGTATCGATACA
1 CAATATGTATCGATACA
41622 TTTGGGTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (20 bp):
CAATATGTATCGATACAAAG
Found at i:44584 original size:30 final size:30
Alignment explanation
Indices: 44550--44606 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
44540 TTTTCAAAAA
*
44550 TAATCTCCCCTTTTATAAAAACAAATTTAT
1 TAATCACCCCTTTTATAAAAACAAATTTAT
*
44580 TAATCACCTCTTTTATAAAAACAAATT
1 TAATCACCCCTTTTATAAAAACAAATT
44607 ATTTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATCACCCCTTTTATAAAAACAAATTTAT
Found at i:46374 original size:13 final size:13
Alignment explanation
Indices: 46356--46381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46346 CAATTTTTTG
46356 TGTATCGATACAT
1 TGTATCGATACAT
46369 TGTATCGATACAT
1 TGTATCGATACAT
46382 ACTTGCTGTA
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:46446 original size:21 final size:21
Alignment explanation
Indices: 46420--46495 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
46410 CTGCCAAGAA
46420 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
46441 ATGTATCGATACATC-GCAAC
1 ATGTATCGATACATCTTTTTC
46461 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
46482 ATGTATCGATACAT
1 ATGTATCGATACAT
46496 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:46465 original size:20 final size:20
Alignment explanation
Indices: 46440--46513 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
46430 ACATCTTTTT
46440 CATGTATCGATACATCGCAA
1 CATGTATCGATACATCGCAA
****
46460 CATGTATCGATACATCTTTTT
1 CATGTATCGATACATC-GCAA
*
46481 CATGTATCGATACATTGCAA
1 CATGTATCGATACATCGCAA
46501 CATGTATCGATAC
1 CATGTATCGATAC
46514 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATCGCAA
Found at i:46477 original size:41 final size:41
Alignment explanation
Indices: 46420--46513 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
46410 CTGCCAAGAA
46420 ATGTATCGATACATCTTTTTCATGTATCGATACATCGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATCGCAAC
*
46461 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATCGCAAC
46502 ATGTATCGATAC
1 ATGTATCGATAC
46514 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATCGCAAC
Found at i:48358 original size:13 final size:13
Alignment explanation
Indices: 48340--48364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48330 ACTGAAGCAA
48340 TGTATCGATACAT
1 TGTATCGATACAT
48353 TGTATCGATACA
1 TGTATCGATACA
48365 ATCTGGAAAA
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:48995 original size:23 final size:24
Alignment explanation
Indices: 48950--48996 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
48940 CAAAGAATTG
*
48950 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
48974 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
48997 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:52084 original size:13 final size:13
Alignment explanation
Indices: 52066--52091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52056 CAATTTTTTG
52066 TGTATCGATACAT
1 TGTATCGATACAT
52079 TGTATCGATACAT
1 TGTATCGATACAT
52092 ACTTGCTGTA
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:52156 original size:21 final size:21
Alignment explanation
Indices: 52130--52205 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
52120 CTGCCAAGAA
52130 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
***
52151 ATGTATCGATAC-T-TTGCAAC
1 ATGTATCGATACATCTT-TTTC
52171 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
52192 CTGTATCGATACAT
1 ATGTATCGATACAT
52206 TGCAACATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:52175 original size:20 final size:20
Alignment explanation
Indices: 52150--52246 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
52140 ACATCTTTTT
52150 CATGTATCGATACTTTGCAA
1 CATGTATCGATACTTTGCAA
***
52170 CATGTATCGATACATCTT-TTT
1 CATGTATCGATAC-T-TTGCAA
* *
52191 CCTGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
52211 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
**
52230 TTGTGTATCGATACTTT
1 -CATGTATCGATACTTT
52247 TAAGGGTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.07
20 42 0.69
21 13 0.21
22 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:52187 original size:41 final size:41
Alignment explanation
Indices: 52130--52223 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
52120 CTGCCAAGAA
*
52130 ATGTATCGATACATCTTTTTCATGTATCGATACTTTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
52171 ATGTATCGATACATCTTTTTCCTGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
52212 ATGTATCGATAC
1 ATGTATCGATAC
52224 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:55663 original size:19 final size:19
Alignment explanation
Indices: 55639--55701 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
55629 TTTCAATGAT
*
55639 TTGTATAGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
55658 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
55672 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
55690 TTGTATCGATAC
1 TTGTATCGATAC
55702 TTACGAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:55676 original size:32 final size:32
Alignment explanation
Indices: 55640--55701 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
55630 TTCAATGATT
*
55640 TGTATAGATACATAAGTGTTGTATTGATACAA
1 TGTATAGATACATAAGTGTTGTATCGATACAA
*
55672 TGTATCGATACATAAGTGTTGTATCGATAC
1 TGTATAGATACATAAGTGTTGTATCGATAC
55702 TTACGAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATAGATACATAAGTGTTGTATCGATACAA
Found at i:55764 original size:13 final size:13
Alignment explanation
Indices: 55746--55770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55736 ATTACTCAAA
55746 TGTATCGATACAT
1 TGTATCGATACAT
55759 TGTATCGATACA
1 TGTATCGATACA
55771 CTAATCTTTG
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:55821 original size:52 final size:53
Alignment explanation
Indices: 55759--55907 Score: 151
Period size: 52 Copynumber: 2.9 Consensus size: 53
55749 ATCGATACAT
*** * **
55759 TGTATCGATACACTAAT-CTTTGTATAGATACACGTAGGCAAATTTGCCTAGA
1 TGTATCGATACACTAATGAAATATATAGATACACACAGGCAAATTTGCCTAGA
* * *
55811 TGTATCGATACACT-ATGAAATATATCGATACATACAGGCAAATTTGCCTATA
1 TGTATCGATACACTAATGAAATATATAGATACACACAGGCAAATTTGCCTAGA
* * * **
55863 TGTATCGATACACT-ATAAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTAATGAAATATATAGATACACACAGGCAAATTT
55908 TCATATTTCG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (53 bp):
TGTATCGATACACTAATGAAATATATAGATACACACAGGCAAATTTGCCTAGA
Found at i:62535 original size:19 final size:18
Alignment explanation
Indices: 62513--62561 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 18
62503 ATTCGAAAGT
62513 AAACATAAAAAAAACAAAA
1 AAACA-AAAAAAAACAAAA
62532 AAACAAAAAACAAACAAAA
1 AAACAAAAAA-AAACAAAA
62551 AAACAAAAAAA
1 AAACAAAAAAA
62562 TGCAAAGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (18 bp):
AAACAAAAAAAAACAAAA
Found at i:62567 original size:10 final size:8
Alignment explanation
Indices: 62520--62561 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
62510 AGTAAACATA
62520 AAAAAAAC
1 AAAAAAAC
62528 AAAAAAAC
1 AAAAAAAC
62536 AAAAAACAAAC
1 --AAAA-AAAC
62547 AAAAAAAC
1 AAAAAAAC
62555 AAAAAAA
1 AAAAAAA
62562 TGCAAAGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 19 0.61
9 4 0.13
10 4 0.13
11 4 0.13
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:63841 original size:31 final size:31
Alignment explanation
Indices: 63795--63913 Score: 143
Period size: 31 Copynumber: 3.9 Consensus size: 31
63785 CTTCAAATAC
*
63795 CTTCTTAAAGTCCACGACTTAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTTAGTGGCAATCT
*
63826 CTTCTCAAAGCCCACGACTTAGTGGC-AT-T
1 CTTCTCAAAGTCCACGACTTAGTGGCAATCT
* * * *
63855 TTGTCTTAAAGTCCATGACTCAGTGGCAATCT
1 CT-TCTCAAAGTCCACGACTTAGTGGCAATCT
* *
63887 CTTTTCAAAGTCCACGACTTCGTGGCA
1 CTTCTCAAAGTCCACGACTTAGTGGCA
63914 CTCTTTTTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 2 0.03
30 22 0.31
31 46 0.64
32 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTTAGTGGCAATCT
Found at i:63880 original size:61 final size:61
Alignment explanation
Indices: 63797--63947 Score: 194
Period size: 61 Copynumber: 2.4 Consensus size: 61
63787 TCAAATACCT
*
63797 TCTTAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGCCCACGACTTAGTGGCATTTTG
1 TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTTAGTGGCATTTTG
* * * * *
63858 TCTTAAAGTCCATGACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTTCGTGGCACTCTTTT
1 TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTTAGTGGCA-T-TTTG
* *
63921 TCCTTCTAAGTCCACGACTCCGTGGCA
1 T-CTT-AAAGTCCACGACTCAGTGGCA
63948 CCTTTTTCAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 51 0.66
62 1 0.01
63 4 0.05
64 3 0.04
65 18 0.23
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (61 bp):
TCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTTAGTGGCATTTTG
Found at i:63933 original size:34 final size:34
Alignment explanation
Indices: 63894--64118 Score: 270
Period size: 34 Copynumber: 6.8 Consensus size: 34
63884 TCTCTTTTCA
*
63894 AAGTCCACGACTTCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTTCGTGGCACTCTTTTTCCTTCT
* * *
63928 AAGTCCACGACTCCGTGGCAC-CTTTTTCATT-T
1 AAGTCCACAACTTCGTGGCACTCTTTTTCCTTCT
*
63960 AAGCCCACAAC-TCTGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTTC-GTGGCACTCTTTTTCCTTCT
*
63994 AAGTCCACAAC-TCTGTGGCAC-CTTTTTCATT-T
1 AAGTCCACAACTTC-GTGGCACTCTTTTTCCTTCT
*
64026 AAGCCCACAACTTCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTTCGTGGCACTCTTTTTCCTTCT
* *
64060 AAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTTT
1 AAGTCCACAACTTCGTGGCACTCTTTTTCC-TTCT
64094 AAGTCCACAAC-TCTGTGGCA-TCTTT
1 AAGTCCACAACTTC-GTGGCACTCTTT
64119 CTTCTTTTCA
Statistics
Matches: 168, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
31 1 0.01
32 35 0.21
33 47 0.28
34 85 0.51
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (34 bp):
AAGTCCACAACTTCGTGGCACTCTTTTTCCTTCT
Found at i:63991 original size:66 final size:66
Alignment explanation
Indices: 63908--64118 Score: 345
Period size: 66 Copynumber: 3.2 Consensus size: 66
63898 CCACGACTTC
*
63908 GTGGCACTCTTTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTTTTCATTTAAGCCCACAACTC
1 GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCATTTAAGCCCACAACTC
63973 T
66 T
*
63974 GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTTTTCATTTAAGCCCACAACT-
1 GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCATTTAAGCCCACAACTC
64038 T
66 T
* *
64039 CGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTTAAGTCCACAA
1 -GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTT-C-ATTTAAGCCCACAA
64104 CTCT
63 CTCT
64108 GTGGCA-TCTTT
1 GTGGCACTCTTT
64119 CTTCTTTTCA
Statistics
Matches: 136, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
65 1 0.01
66 108 0.79
67 6 0.04
68 20 0.15
69 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (66 bp):
GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCATTTAAGCCCACAACTC
T
Found at i:64068 original size:100 final size:99
Alignment explanation
Indices: 63889--64118 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 99
63879 GGCAATCTCT
* * * * *
63889 TTTCAAAGTCCACGACT-TCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTT
1 TTTCTAAGTCCACAACTCT-GTGGCAC-CTTTTTCATTCTAAGCCCACAACTCCGTGGCACCTTT
*
63953 TTCATTTAAGCCCACAACTCTGTGGCACTCTTTTTCC
64 TTCATTTAAGCCCACAACTCCGTGGCAC-CTTTTTCC
*
63990 -TTCTAAGTCCACAACTCTGTGGCACCTTTTTCATT-TAAGCCCACAACTTCGTGGCACTCTTTT
1 TTTCTAAGTCCACAACTCTGTGGCACCTTTTTCATTCTAAGCCCACAACTCCGTGGCAC-CTTTT
* *
64053 TCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCC
65 TCATT-TAAGCCCACAACTCCGTGGCACCTTTTTCC
* *
64089 TTTTTAAGTCCACAACTCTGTGGCATCTTT
1 TTTCTAAGTCCACAACTCTGTGGCACCTTT
64119 CTTCTTTTCA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
98 19 0.17
99 26 0.23
100 68 0.60
101 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.37
Consensus pattern (99 bp):
TTTCTAAGTCCACAACTCTGTGGCACCTTTTTCATTCTAAGCCCACAACTCCGTGGCACCTTTTT
CATTTAAGCCCACAACTCCGTGGCACCTTTTTCC
Found at i:64266 original size:43 final size:43
Alignment explanation
Indices: 64158--65514 Score: 814
Period size: 43 Copynumber: 28.9 Consensus size: 43
64148 GGCATCTTCT
* * * *
64158 TTTAAGCCCACTATAGCTGGCCTTGACTCAGCATATTGGCACCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---C--C
* * *
64206 TTTAAGCCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* *
64249 TTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
* *
64298 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
64341 TTTGAGTCCAATATAGCT-GCCTTTAAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGGCC-TTGAATCAGCACATTGGCACC
* * *
64384 TTATCTTTAGTCCAATGTAGCTGGCCTTGAATAAGCACATTGGCACC
1 ---T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
64431 -TT-GGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * *
64477 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
** *
64520 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATGTAGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * * * *
64568 TTTAAGACCAATGTCGCTGACCTTGAATCAGCACAGTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* *
64611 TTTGAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
* * * * **
64660 TTTAAGACTAATGTAGCTGGCCTTGAAGCAGCACCGTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* *
64703 TTTGAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * *
64751 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * * * *
64794 TTTAAGTCTAATATCGCTGGCCTAGAATCAGTATATTGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * * *
64842 TTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
64885 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT---G-----G-CACC
* *
64937 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * *
64986 TTTAAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCGCATTCGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-GCA-----C--C
* * *
65038 TTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * * * * * *
65086 TTTAAGACCAATGTCGCTGACCTTGAATTAGCTCATTGGCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
65129 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCGCTTTTGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT---G-----G-CACC
*
65181 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * *
65230 TTTAAATCCAATATCA-TTGGCCTTGAATCAGCATATTGGCACCTTTTTCATC
1 TTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA-------C--C
*
65282 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CACC
* *
65330 TTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
* *
65379 TTTAAGTCCAATGTAGATGGCCTTGAATCAGCACATTGGCACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CACC
** *
65427 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCTTATTAGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * *
65476 TTTAAGTCCAATATCGCTGGCCTTGACTCAGCATATTGG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
65515 TGCCTTCATC
Statistics
Matches: 1057, Mismatches: 150, Indels: 203
0.75 0.11 0.14
Matches are distributed among these distances:
41 32 0.03
42 6 0.01
43 287 0.27
44 7 0.01
45 2 0.00
46 5 0.00
47 40 0.04
48 285 0.27
49 219 0.21
50 5 0.00
51 7 0.01
52 157 0.15
53 1 0.00
54 2 0.00
57 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:64363 original size:91 final size:92
Alignment explanation
Indices: 64158--65569 Score: 1370
Period size: 91 Copynumber: 15.0 Consensus size: 92
64148 GGCATCTTCT
* * * *
64158 TTTAAGCCCACTATAGCTGGCCTTGACTCAGCATATTGGCACC-TCATCTTTAAGCCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
64222 CTGGCCTTGAATCAGTACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
64249 TTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
64314 CTAGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
64341 TTTGAGTCCAATATAGCT-GCCTTTAAATCAGCATATTGGCACCTT-ATCTTT-AGTCCAATGTA
1 TTTAAGTCCAATATAGCTGGCC-TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
64403 GCTGGCCTTGAATAAGCACATTGGCACC
65 GCTGGCCTTGAATCAGCACATTGGCACC
* * * * *
64431 -TT-GGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
64493 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * * *
64520 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATGTAGGCACCTT-GTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* *
64584 CTGACCTTGAATCAGCACAGTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
64611 TTTGAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* **
64676 CTGGCCTTGAAGCAGCACCGTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
64703 TTTGAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
64767 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * * * * *
64794 TTTAAGTCTAATATCGCTGGCCTAGAATCAGTATATTGGCACCTT-GTCTTTAAGACCAATGTTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
64858 CTGGCCTTGAATCAGCACATTGGCATC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
64885 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CT-TCATCTTTAAGTCCAATG
*
64950 TTGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
63 TAGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * * * * *
64986 TTTAAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCGCATTCGTCATCTTTAAGTCCAGTA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-GCA-CCTTCATCTTTAAGTCCAATG
* *
65051 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
63 TAGCTGGCCTTGAATCAGCACATTGGCA-C----C
* * * * * * *
65086 TTTAAGACCAATGTCGCTGACCTTGAATTAGC-TCATTGG------CATCTTTAAGTCCAATATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT-ATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
65144 GCTAGCCTTGAATCAGCATATTAGCGCTTTTGTCATC
65 GCTGGCCTTGAATCAGCACATT---G-----G-CACC
* * * * *
65181 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT-A
* *
65246 -TTGGCCTTGAATCAGCATATTGGCACCTTTTTCATC
65 GCTGGCCTTGAATCAGCACATTGGCA-------C--C
* * * *
65282 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* *
65346 TTGGCCTTGAATCAGCATATTGGCACCTTTATC
66 CTGGCCTTGAATCAGCACATTGGCA-C-----C
* * * * *
65379 TTTAAGTCCAATGTAGATGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
** *
65443 CTGGCCTTGAATCAGCTTATTAGCACCTTCATC
66 CTGGCCTTGAATCAGCACATTGGCA----C--C
* * ** **
65476 TTTAAGTCCAATATCGCTGGCCTTGACTCAGCATATTGGTGCCTTCATCATTTTTAAAACCCAAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC---TTT-AAGTCCAAT
* *
65541 GTCGTTGGCCTTGAATCAGCACATTGGCA
62 GTAGCTGGCCTTGAATCAGCACATTGGCA
65570 TTCTTCTCAT
Statistics
Matches: 1148, Mismatches: 112, Indels: 111
0.84 0.08 0.08
Matches are distributed among these distances:
88 41 0.04
89 41 0.04
90 39 0.03
91 372 0.32
92 170 0.15
93 2 0.00
94 3 0.00
95 75 0.07
97 127 0.11
98 7 0.01
99 4 0.00
100 76 0.07
101 158 0.14
102 31 0.03
103 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:64784 original size:274 final size:274
Alignment explanation
Indices: 64169--65569 Score: 1336
Period size: 274 Copynumber: 5.0 Consensus size: 274
64159 TTAAGCCCAC
* ** * *
64169 TATAGCTGGCCTTGACTCAGCATATTGGCACCTCATCTTTAAGCCCAATGTAGCTGGCCTTGAAT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
* * *
64234 CAGTACATTGGCACCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
66 CAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCT
*
64299 TTAAGTCCAATGTAGCT-AGCCTTGAATCAGCACATTGGCACCTTTGAGTCCAATATAGCT-GCC
130 TTAAGACCAATGTAGCTGA-CCTTGAATCAGCACATTGGCACCTTTGAGTCCAATATAGCTGGCC
* *
64362 TTTAAATCAGCATATTGGCACC-TTATCTTT-AGTCCAATGTAGCTGGCCTTGAATAAGCACATT
194 -TTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
64425 GGCACC-TTG-GTCCAA
258 GGCACCTTTGAGTCCAA
*
64440 TATAGCTGGCCTTAAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
* *
64505 CAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATGTAGGCACCTTGTCTT
66 CAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
* *
64570 TAAGACCAATGTCGCTGACCTTGAATCAGCACAGTGGCACCTTTGAGTCCAATATAGCTGGCCTT
131 TAAGACCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTTGAGTCCAATATAGCTGGCCTT
* * * **
64635 GAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTAGCTGGCCTTGAAGCAGCACCGTGGC
196 GAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
64700 ACCTTTGAGTCCAA
261 ACCTTTGAGTCCAA
64714 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
* * * *
64779 CAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTAGAATCAGTATATTGGCACCTTGTCTT
66 CAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
* * * * *
64844 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
131 TAAGACCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTTGAGTCCAATATAGCTGGCCTT
* * *
64909 GAATCAGCATATTGGCGCTTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATT
196 GAATCAGCATATTGGCAC-CTT-T-ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
* *
64974 GGCATCTTCATCTTTAAGTCCGA
258 GGCA----C--CTTTGAGTCCAA
* * * * * *
64997 TATTGCTGGCCTTGAATCAGCATATTGGCGCATTCGTCATCTTTAAGTCCAGTATCGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGACCAATGTCGCTGGCCTT
* * * * * *
65062 GAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGACCTTGAATTAGC-TCATTGGC
62 GAATCAGCACATTGGCA-C----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT-ATTGGC
* * * * * *
65126 A-----TCTTTAAGTCCAATATCGCT-AGCCTTGAATCAGCATATTAGCGCTTTTGTCATCTTTA
121 ACCTTGTCTTTAAGACCAATGTAGCTGA-CCTTGAATCAGCACATT---G-----G-CACCTTTG
* * * * * * *
65185 AGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATCA-TTG
176 AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT-AGCTG
* *
65249 GCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTCCAA
240 GCCTTGAATCAGCACATTGGCA-------C--CTTTGAGTCCAA
* * *** * * * *
65293 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGTTGGCCTTGAAT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
* * * *
65358 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGATGGCCTTGAATCAGCACATTGGCACCT
66 CAGCACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
*** * * * ** * *
65423 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCTTATTAGCACCTTCATCTTTAAGTCCAAT
125 TGTCTTTAAGACCAATGTAGCTGACCTTGAATCAGCACATTGGCA----C--CTTTGAGTCCAAT
* * ** * ** * *
65488 ATCGCTGGCCTTGACTCAGCATATTGGTGCCTTCATCATTTTTAAAACCCAATGTCGTTGGCCTT
184 ATAGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAATGTAGCTGGCCTT
65553 GAATCAGCACATTGGCA
245 GAATCAGCACATTGGCA
65570 TTCTTCTCAT
Statistics
Matches: 960, Mismatches: 112, Indels: 88
0.83 0.10 0.08
Matches are distributed among these distances:
270 78 0.08
271 127 0.13
272 33 0.03
273 3 0.00
274 205 0.21
275 2 0.00
276 1 0.00
277 38 0.04
281 1 0.00
283 41 0.04
284 1 0.00
287 72 0.08
288 1 0.00
289 2 0.00
290 2 0.00
291 1 0.00
292 74 0.08
293 76 0.08
295 43 0.04
296 87 0.09
298 39 0.04
299 33 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (274 bp):
TATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
CAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
TAAGACCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTTTGAGTCCAATATAGCTGGCCTT
GAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
ACCTTTGAGTCCAA
Found at i:64959 original size:52 final size:50
Alignment explanation
Indices: 64881--65619 Score: 632
Period size: 52 Copynumber: 14.8 Consensus size: 50
64871 AGCACATTGG
64881 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC-TTT-T
* * * * *
64933 CATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGC-ATCTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* * *
64982 CATCTTTAAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCGCATTCGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC-TT-TT
* * *
65034 CATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCAC-CTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* * * * *
65083 -GTCTTTAAGACCAATGTCGCTGACCTTGAATTAGC-TCATT-G-G-----
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT-ATTGGCGCTTTT
* *
65125 CATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCGCTTTTGT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC-TTT-T
* * * *
65177 CATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGC-ATCTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* ** *
65226 CATCTTTAAATCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-GC-TTTT
* * * * *
65278 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* * * * *
65326 CACCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* * * * * *
65376 -ATCTTTAAGTCCAATGTAGATGGCCTTGAATCAGCACATTGGCAC--CT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* * * * * *
65423 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCTTATTAGCAC-CTT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
* * *
65472 CATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCATATTGGTGCCTTCAT
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCG-CTT-TT
* ** * * * * *
65524 CATTTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCT
1 CATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC--GCTTTT
* * * * * *
65577 CATCTTCAAGTCTAAATGTCACTGGCCATGAATCAGCACATTG
1 CATCTTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTG
65620 TCATTTTTCA
Statistics
Matches: 563, Mismatches: 95, Indels: 57
0.79 0.13 0.08
Matches are distributed among these distances:
43 32 0.06
44 2 0.00
45 1 0.00
47 3 0.01
48 114 0.20
49 163 0.29
50 6 0.01
51 2 0.00
52 175 0.31
53 62 0.11
54 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (50 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTT
Found at i:65126 original size:244 final size:238
Alignment explanation
Indices: 64202--65569 Score: 1201
Period size: 244 Copynumber: 5.8 Consensus size: 238
64192 ATTGGCACCT
* * * * *
64202 CATCTTTAAGCCCAATGTAGCTGGCCTTGAATCAG--TA----CA-TTGGCACCTTTAAGTTCAA
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTGTCATCTTTAAGTCCAA
* * * *
64260 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGAA
66 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
* * * * *
64325 TCAGCACATT-G-GCA--C-CTTTGAGTCCAATATAGCT-GCCTTTAAATCAGCATATTGGCACC
131 TCAGCATATTGGCGCATTCTCTTTAAGTCCAATATCGCTGGCC-TTGAATCAGCACATTGGCACC
* *
64384 TTATCTTT-AGTCCAATGTAGCTGGCCTTGAATAAGCACATTGG
195 TTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCTCATTGG
* * * *
64427 CA-CCTT-GGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTG---TCTTTAAGACCA
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTGTCATCTTTAAGTCCA
* * *
64487 ATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGA
65 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
* * * * * * * * *
64546 ATCAGCATGTAGGCACCTTGTCTTTAAGACCAATGTCGCTGACCTTGAATCAGCACAGTGGCA-C
130 ATCAGCATATTGGCGCATTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
* *
64610 ----CTTTGAGTCCAATATAGCTGGCCTTGAATCAGCAT-ATTGG
195 TTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC-TCATTGG
* * * * * * * *
64650 CACCTTTATCTTTAAGACTAATGTAGCTGGCCTTGAAGCAGC--A----C-CGTGGCACCTTTGA
1 ---C---ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTGTCATCTTTAA
* * * *
64708 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGC
60 GTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGC
* * * * *
64772 CTTGAATCAGCACATT-G-GCA--C-CTTTAAGTCTAATATCGCTGGCCTAGAATCAGTATATTG
125 CTTGAATCAGCATATTGGCGCATTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* * * *
64832 GCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGG
190 GCACCTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCTCATTGG
* *
64881 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTTTTGTCATCTTTAAGTCC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--TTGTCATCTTTAAGTCC
* * * * *
64946 AATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATTGCTGGCCTTG
64 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTG
* *
65011 AATCAGCATATTGGCGCATTCGTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTG
129 AATCAGCATATTGGCGCA-T--TC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* * * * *
65076 GCACCTTGTCTTTAAGACCAATGTCGCTGACCTTGAATTAGCTCATTGG
190 GCACCTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCTCATTGG
* * **
65125 CATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCGCTTTTGTCATCTTTAAGTCC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-GCACTTGTCATCTTTAAGTCC
* * * **
65190 AATATTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATCATTGGCCTTG
64 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTG
* * * *
65255 AATCAGCATATTGGCACCTTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
129 AATCAGCATATTGGC-GC--ATTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
* * * *
65320 GCACCTCACCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCAT-ATTGG
190 GCACCTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC-TCATTGG
* * * * *
65369 CACCTTTATCTTTAAGTCCAATGTAGATGGCCTTGAATCAGCACATTGGCAC--CTCACCTTTAA
1 ---C---ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTGTCATCTTTAA
** *
65432 GTCCAATATAGCTGGCCTTGAATCAGCTTATTAGCACCTTCATCTTTAAGTCCAATATCGCTGGC
60 GTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGC
* * * ** * *
65497 CTTGACTCAGCATATTGGTGCCTTCATCATTTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCA
125 CTTGAATCAGCATATTGGCGCATTC-TC---TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCA
65562 CATTGGCA
185 CATTGGCA
65570 TTCTTCTCAT
Statistics
Matches: 927, Mismatches: 142, Indels: 126
0.78 0.12 0.11
Matches are distributed among these distances:
222 37 0.04
223 58 0.06
224 5 0.01
225 35 0.04
226 73 0.08
227 33 0.04
228 40 0.04
229 5 0.01
230 4 0.00
231 92 0.10
232 1 0.00
234 45 0.05
235 34 0.04
236 1 0.00
237 3 0.00
242 1 0.00
243 6 0.01
244 288 0.31
245 4 0.00
246 89 0.10
247 35 0.04
248 2 0.00
249 1 0.00
250 35 0.04
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (238 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTGTCATCTTTAAGTCCAA
TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
TCAGCATATTGGCGCATTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
TATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCTCATTGG
Found at i:65868 original size:49 final size:49
Alignment explanation
Indices: 65749--65972 Score: 264
Period size: 49 Copynumber: 4.7 Consensus size: 49
65739 CTCATCCTTA
*
65749 TCATCCTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
* *
65795 -C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
*
65841 TTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
* * * * *
65890 ACATC-TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCCT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCT
* * *
65939 CATCATTTTTAAGTCTAATGTCGCTGGCCTTGAA
1 --TCATCTTTAAGTCCAATGTAGCTGGCCTTGAA
65973 ATAAGAGGCC
Statistics
Matches: 151, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 39 0.26
45 1 0.01
48 36 0.24
49 49 0.32
51 3 0.02
52 23 0.15
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
Found at i:69523 original size:19 final size:19
Alignment explanation
Indices: 69499--69561 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
69489 AGCGATACAT
69499 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
69518 TGTATCGAT---TCA-TTA
1 TGTATCGATACAACACTTA
*
69533 --TATCGATACAATACTTA
1 TGTATCGATACAACACTTA
69550 TGTATCGATACA
1 TGTATCGATACA
69562 TTTATTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 7 0.20
15 3 0.09
16 3 0.09
17 3 0.09
19 19 0.54
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:69542 original size:32 final size:32
Alignment explanation
Indices: 69486--69563 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
69476 GCAGTAGCTT
* *
69486 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
* *
69518 TGTATCGATTCATTATATCGATACAATACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
69550 TGTATCGATACATT
1 TGTATCGATACATT
69564 TATTGTTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAACACTTA
Found at i:69589 original size:13 final size:13
Alignment explanation
Indices: 69571--69595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69561 ATTTATTGTT
69571 TGTATCGATACAA
1 TGTATCGATACAA
69584 TGTATCGATACA
1 TGTATCGATACA
69596 TTGAATAATG
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:69619 original size:148 final size:148
Alignment explanation
Indices: 69423--69731 Score: 564
Period size: 148 Copynumber: 2.1 Consensus size: 148
69413 CAAAGATCAA
* *
69423 TGTATCAATACAATGTATCGATACATTGAATAATGTATCGATATATTTCCTTGGCAGTAGCTTTG
1 TGTATCAATACAATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTATG
*
69488 TAGCGATACATTGTATCGATACAACACTTATGTATCGATTCATTATATCGATACAATACTTATGT
66 TAGCGATACATTGTATCGATACAACACTTATGTATCGATACATTATATCGATACAATACTTATGT
69553 ATCGATACATTTATTGTT
131 ATCGATACATTTATTGTT
*
69571 TGTATCGATACAATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTATG
1 TGTATCAATACAATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTATG
* *
69636 TAGCGATACATTGTATTGATACAACACTTATGTATCGATACATTGTATCGATACAATACTTATGT
66 TAGCGATACATTGTATCGATACAACACTTATGTATCGATACATTATATCGATACAATACTTATGT
69701 ATCGATACATTTATTGTT
131 ATCGATACATTTATTGTT
69719 TGTATCAATACAA
1 TGTATCAATACAA
69732 ATTATTGAAA
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
148 154 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (148 bp):
TGTATCAATACAATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTATG
TAGCGATACATTGTATCGATACAACACTTATGTATCGATACATTATATCGATACAATACTTATGT
ATCGATACATTTATTGTT
Found at i:69675 original size:19 final size:19
Alignment explanation
Indices: 69647--69709 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
69637 AGCGATACAT
*
69647 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
69666 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
69679 TGTATCGATACAATACTTA
1 TGTATCGATACAACACTTA
69698 TGTATCGATACA
1 TGTATCGATACA
69710 TTTATTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 5 0.14
18 1 0.03
19 20 0.56
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:69675 original size:32 final size:32
Alignment explanation
Indices: 69632--69716 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
69622 TGGCAGTAGC
*
69632 TATGTAGCGATACATTGTATTGATACAACACT
1 TATGTATCGATACATTGTATTGATACAACACT
* *
69664 TATGTATCGATACATTGTATCGATACAATACT
1 TATGTATCGATACATTGTATTGATACAACACT
69696 TATGTATCGATACATT-TATTG
1 TATGTATCGATACATTGTATTG
69717 TTTGTATCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 4 0.08
32 45 0.92
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (32 bp):
TATGTATCGATACATTGTATTGATACAACACT
Found at i:69684 original size:13 final size:13
Alignment explanation
Indices: 69666--69690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69656 ACAACACTTA
69666 TGTATCGATACAT
1 TGTATCGATACAT
69679 TGTATCGATACA
1 TGTATCGATACA
69691 ATACTTATGT
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:70661 original size:87 final size:87
Alignment explanation
Indices: 70547--71015 Score: 708
Period size: 87 Copynumber: 5.4 Consensus size: 87
70537 TGAAGAAGAA
** * *
70547 TGCCAATATGCTGAGACAAGGCCAGCGACATTGGGCTTGCGCCAATGTGCTGATTCAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
*
70612 AACATTGGTCTTAAAGACAAGG
66 GACATTGGTCTTAAAGACAAGG
* * *
70634 TACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGAATCAAGGCTAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
* *
70699 GACATTGGTCTTAAATATGAAGG
66 GACATTGGTCTTAAAGA-CAAGG
* * *
70722 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTGTGCC-ATGTGTTGATTCAAGGCCAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
70786 GACATTGGTCTTAAAGACAAGG
66 GACATTGGTCTTAAAGACAAGG
* * * *
70808 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTATGCTAATGTGCTGATTCAAGGCCAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
70873 GACATTGGTCTTAAAGACAAGG
66 GACATTGGTCTTAAAGACAAGG
* *
70895 TGCCAATATGTTGATTCAAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
* *
70960 GACATTGGTCTTTAAGATAAGG
66 GACATTGGTCTTAAAGACAAGG
*
70982 TGCCAATATG-TCGATTCAAGGCCAACGATATTGG
1 TGCCAATATGCT-GATTCAAGGCCAGCGATATTGG
71016 ACTCAAGATG
Statistics
Matches: 346, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
86 44 0.13
87 257 0.74
88 45 0.13
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (87 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
GACATTGGTCTTAAAGACAAGG
Found at i:71149 original size:101 final size:98
Alignment explanation
Indices: 70935--71171 Score: 289
Period size: 101 Copynumber: 2.4 Consensus size: 98
70925 TTAGGCTTGT
* * * * *
70935 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAAGATAAGGTGCCAATATGTCGATTCA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TTAAGATAAGATGCCAATATGTCAATTCA
* ** *
71000 AGGCCAACGATATTGGACTCAAGATGGTAAAGGT
65 AGGCCAACGACATTGGACTCAAGATGACAAAGGC
*
71034 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAGAGATGAAGATGCC-A-ATGTACTAAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AGAT-AAGATGCCAATATGT-C-AAT
** *
71097 TCAAGGCCAGTGACATTGGACTTGAAGATGACAAAGGC
62 TCAAGGCCAACGACATTGGAC-TCAAGATGACAAAGGC
71135 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
71172 GTGCCAATGC
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
98 7 0.06
99 37 0.31
100 27 0.23
101 48 0.40
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (98 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATAAGATGCCAATATGTCAATTCAA
GGCCAACGACATTGGACTCAAGATGACAAAGGC
Found at i:71368 original size:57 final size:58
Alignment explanation
Indices: 71281--71399 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 58
71271 CACCAACTTG
* * * * *
71281 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAAGGGGTGCACCAACTTGTGGGCTTTTGAAAGGGTGCCACGGACT
**
71338 TGTGGGC-TTTAAAAGGGGTGCCACGGACTTGTGGGCTTTTGAAAAGGGTGCCACGGACT
1 TGTGGGCTTTTAAAAGGGGTG-CACCAACTTGTGGGCTTTTG-AAAGGGTGCCACGGACT
71397 TGT
1 TGT
71400 CGACTTAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 11 0.21
57 24 0.46
59 17 0.33
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (58 bp):
TGTGGGCTTTTAAAAGGGGTGCACCAACTTGTGGGCTTTTGAAAGGGTGCCACGGACT
Found at i:71389 original size:30 final size:29
Alignment explanation
Indices: 71281--71399 Score: 136
Period size: 29 Copynumber: 4.1 Consensus size: 29
71271 CACCAACTTG
**
71281 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGG-TGCCACGGACT
* * *
71310 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACGGACT
*
71338 TGTGGGC-TTTAAAAGGGGTGCCACGGACT
1 TGTGGGCTTTTGAAA-GGGTGCCACGGACT
71367 TGTGGGCTTTTGAAAAGGGTGCCACGGACT
1 TGTGGGCTTTTG-AAAGGGTGCCACGGACT
71397 TGT
1 TGT
71400 CGACTTAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
27 5 0.07
28 18 0.24
29 30 0.39
30 20 0.26
31 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGCCACGGACT
Found at i:71470 original size:27 final size:27
Alignment explanation
Indices: 71322--71799 Score: 344
Period size: 27 Copynumber: 16.1 Consensus size: 27
71312 TGTGCTTTTG
* * * *
71322 AAGGTTGCCACTGACTTGTGGGCTTTAA
1 AAGGGTGCCACGGAGTTGTGGAC-TTAA
* *
71350 AAGGGGTGCCACGGACTTGTGGGCTTTTGAA
1 AA-GGGTGCCACGGAGTTGTGGAC--TT-AA
* *
71381 AAGGGTGCCACGGACTTGTCGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTAA
* * *
71408 AAGGAGAAAGATGCCACAGAGTTTTAGACTTAAA
1 AA-G-G---G-TGCCACGGAGTTGTGGACTT-AA
*
71442 AAGGGTGCCACGGAGTTATGGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTAA
71469 AAGGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGGTGCCACGGAGTTGTGGACTT-AA
* * *
71497 AAGAAAAGGTACCACAGAGTTATGGACTTAA
1 AAG----GGTGCCACGGAGTTGTGGACTTAA
*
71528 AAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTAA
71555 AAGGAAAGGTGCCACAGGAGTTGTGGACTTAA
1 AA-G---GGTGCCAC-GGAGTTGTGGACTTAA
*
71587 AAGGGTGCCACAGGAGTTGTGCACTTAAA
1 AAGGGTGCCAC-GGAGTTGTGGACTT-AA
* *
71616 AAGAAAAGGTACCACAGAGTTGTGGACTTAA
1 AAG----GGTGCCACGGAGTTGTGGACTTAA
*
71647 AAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGGTGCCACGGAGTTGTGGACTTAA
71674 AAGGAAAGGTGCCACGGAGTTGTGGACTTAA
1 AA-G---GGTGCCACGGAGTTGTGGACTTAA
*
71705 AAGGAAAAAGATGCCATGGAGTTGTGGACTTAA
1 AAGG-----G-TGCCACGGAGTTGTGGACTTAA
* ** *
71738 AATGGTGCCACAAAGTTGTGGACATAA
1 AAGGGTGCCACGGAGTTGTGGACTTAA
*
71765 AAGGAAAGGTGCCACGGAGTTGTAGACTTAA
1 AA-G---GGTGCCACGGAGTTGTGGACTTAA
71796 AAGG
1 AAGG
71800 AATGAAAGCT
Statistics
Matches: 376, Mismatches: 35, Indels: 79
0.77 0.07 0.16
Matches are distributed among these distances:
27 101 0.27
28 52 0.14
29 26 0.07
30 24 0.06
31 70 0.19
32 51 0.14
33 48 0.13
34 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (27 bp):
AAGGGTGCCACGGAGTTGTGGACTTAA
Found at i:71534 original size:59 final size:58
Alignment explanation
Indices: 71419--71708 Score: 406
Period size: 59 Copynumber: 5.0 Consensus size: 58
71409 AGGAGAAAGA
* * * * *
71419 TGCCACAGAGTTTTAGACTT--AA-AAAGGGTGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGG
* * *
71474 TGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTACCACAGAGTTATGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTT-AAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGG
*
71533 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACAGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGAAAAGGTGCCACA-GAGTTGTGGACTTAAAAGGG
* *
71592 TGCCACAGGAGTTGTGCACTTAAAAAGAAAAGGTACCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACA-GAGTTGTGGACTT-AAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGG
* *
71652 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
71709 AAAAAGATGC
Statistics
Matches: 211, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
55 17 0.08
58 52 0.25
59 87 0.41
60 39 0.18
61 16 0.08
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (58 bp):
TGCCACAGAGTTGTGGACTTAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:71630 original size:119 final size:117
Alignment explanation
Indices: 71419--71708 Score: 487
Period size: 119 Copynumber: 2.5 Consensus size: 117
71409 AGGAGAAAGA
* * * *
71419 TGCCACAGAGTTTTAGACTT-AAA--AAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
71481 GAGTTGTGGACTTAAAAAGAAAAGGTACCACAGAGTTATGGACTTAAAAGGG
66 GAGTTGTGCACTTAAAAAGAAAAGGTACCACAGAGTTATGGACTTAAAAGGG
71533 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACAGGAGTTGTGGACTTAAAAGGGTGCCAC
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCAC-GGAGTTGTGGACTTAAAAGGGTGCCAC
*
71598 AGGAGTTGTGCACTTAAAAAGAAAAGGTACCACAGAGTTGTGGACTTAAAAGGG
65 -GGAGTTGTGCACTTAAAAAGAAAAGGTACCACAGAGTTATGGACTTAAAAGGG
71652 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
71709 AAAAAGATGC
Statistics
Matches: 165, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
114 18 0.11
115 3 0.02
117 10 0.06
118 46 0.28
119 88 0.53
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (117 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
GAGTTGTGCACTTAAAAAGAAAAGGTACCACAGAGTTATGGACTTAAAAGGG
Found at i:71738 original size:91 final size:91
Alignment explanation
Indices: 71535--71801 Score: 355
Period size: 91 Copynumber: 2.9 Consensus size: 91
71525 TAAAAGGGTG
71535 CCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACAGGAGTTGTGGACTTAAAA-G---GGTGCC
1 CCACAGAGTTGTGGACTTAAAA-G---GGTGCCACA-GAGTTGTGGACTTAAAAGGAAAGGTGCC
* * *
71596 ACAGGAGTTGTGCACTTAAAAAG-AAAAGGTA
61 AC-GGAGTTGTGGACTTAAAAGGAAAAAGATA
71627 CCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGA
1 CCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGA
*
71692 GTTGTGGACTTAAAAGGAAAAAGATG
66 GTTGTGGACTTAAAAGGAAAAAGATA
** * * *
71718 CCATGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGTGGACATAAAAGGAAAGGTGCCACGGA
1 CCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGA
*
71783 GTTGTAGACTTAAAAGGAA
66 GTTGTGGACTTAAAAGGAA
71802 TGAAAGCTCA
Statistics
Matches: 160, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
87 17 0.11
88 10 0.06
90 18 0.11
91 93 0.58
92 22 0.14
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (91 bp):
CCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAGGTGCCACGGA
GTTGTGGACTTAAAAGGAAAAAGATA
Found at i:71766 original size:60 final size:58
Alignment explanation
Indices: 71681--71797 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
71671 TAAAAGGAAA
** * * *
71681 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGACTTAAAAT
1 GGTGCCACAAAGTTGTGGACATAAAAGG--AAAGATGCCACGGAGTTGTAGACTTAAAAT
*
71741 GGTGCCACAAAGTTGTGGACATAAAAGGAAAGGTGCCACGGAGTTGTAGACTTAAAA
1 GGTGCCACAAAGTTGTGGACATAAAAGGAAAGATGCCACGGAGTTGTAGACTTAAAA
71798 GGAATGAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 26 0.51
60 25 0.49
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (58 bp):
GGTGCCACAAAGTTGTGGACATAAAAGGAAAGATGCCACGGAGTTGTAGACTTAAAAT
Found at i:72561 original size:19 final size:20
Alignment explanation
Indices: 72517--72568 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
72507 TTACAAGCCA
72517 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
72537 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
72556 ATGTATCGATACA
1 ATGTATCGATACA
72569 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:72657 original size:20 final size:21
Alignment explanation
Indices: 72610--72662 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
72600 GCCAATCACC
*
72610 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
72631 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
72651 TGTATCGATACA
1 TGTATCGATACA
72663 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:74658 original size:21 final size:21
Alignment explanation
Indices: 74629--74669 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
74619 TGTAAGTGTG
*
74629 GGGGCTGCCCGGTTGCGACCTA
1 GGGGCTG-CCGGTCGCGACCTA
74651 GGGG-TGCCGGTCGCGACCT
1 GGGGCTGCCGGTCGCGACCT
74670 GGTGAGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.07, C:0.32, G:0.44, T:0.17
Consensus pattern (21 bp):
GGGGCTGCCGGTCGCGACCTA
Found at i:75131 original size:13 final size:13
Alignment explanation
Indices: 75113--75148 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
75103 ATAAACCCTT
*
75113 TGTATCGATACAC
1 TGTATCGATACAA
75126 TGTATCGATACAA
1 TGTATCGATACAA
*
75139 TGTACCGATA
1 TGTATCGATA
75149 TAAAGAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75366 original size:8 final size:8
Alignment explanation
Indices: 75348--75378 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
75338 ATTTCAGCAT
75348 CAAACATCA
1 CAAA-ATCA
75357 CAAAATCA
1 CAAAATCA
75365 CAAAATCA
1 CAAAATCA
75373 CAAAAT
1 CAAAAT
75379 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:79699 original size:3 final size:3
Alignment explanation
Indices: 79691--79724 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
79681 TCTGAGTTAC
*
79691 CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
79725 GTCCTTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:81332 original size:33 final size:32
Alignment explanation
Indices: 81290--81356 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
81280 GTTACAAGCT
*
81290 AATGTATCGATACAT-TTGGTCATGTATGGATAC
1 AATGTATCGATACATCTT-GT-ATGTATCGATAC
81323 AATGTATCGATACATCTTGTATGTATCGATAC
1 AATGTATCGATACATCTTGTATGTATCGATAC
81355 AA
1 AA
81357 ATAGTTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.41
33 17 0.53
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATCTTGTATGTATCGATAC
Found at i:81447 original size:20 final size:21
Alignment explanation
Indices: 81397--81449 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
81387 GCCAATCATC
*
81397 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
* *
81418 AGTATTGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
81438 TGTATCGATACA
1 TGTATCGATACA
81450 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:81455 original size:13 final size:13
Alignment explanation
Indices: 81437--81461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81427 ACATTTGGTC
81437 ATGTATCGATACA
1 ATGTATCGATACA
81450 ATGTATCGATAC
1 ATGTATCGATAC
81462 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:81876 original size:30 final size:31
Alignment explanation
Indices: 81769--81922 Score: 141
Period size: 31 Copynumber: 4.8 Consensus size: 31
81759 AGGGGCCAAG
* * *
81769 GAGTCATGGACTTTGAAAAGAAAAAGGTGCCACA
1 GAGTCATGGACTTTG---AGAAAGAGATGCCACT
* *
81803 GAGTCGTGGACTTTG-GAAAGAGATTGACACT
1 GAGTCATGGACTTTGAGAAAGAGA-TGCCACT
* * * *
81834 GATTCGTGGACTTTGAGACA-AGATGCCATT
1 GAGTCATGGACTTTGAGAAAGAGATGCCACT
*
81864 GAGTCATGGACTTCGAAGAAAAGAGATGCCACT
1 GAGTCATGGACTTTG-AG-AAAGAGATGCCACT
81897 GAGTCATGGACTTTGAGAAGAGAGAT
1 GAGTCATGGACTTTGAGAA-AGAGAT
81923 TTGAAGAATT
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
30 23 0.23
31 26 0.26
32 13 0.13
33 23 0.23
34 14 0.14
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (31 bp):
GAGTCATGGACTTTGAGAAAGAGATGCCACT
Found at i:87973 original size:20 final size:20
Alignment explanation
Indices: 87948--88000 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
87938 GTTACAAGCT
87948 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
87968 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
87988 ATGTATCGATACA
1 ATGTATCGATACA
88001 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:88075 original size:19 final size:19
Alignment explanation
Indices: 88030--88086 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
88020 CTGCCAGTTT
**
88030 CATGTATCGATACAATTTGTC
1 CATGTATCGATAC-A-TTGAA
88051 CATGTATCGATACATTGAA
1 CATGTATCGATACATTGAA
88070 CATGTATCGATACATTG
1 CATGTATCGATACATTG
88087 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 20 0.59
20 1 0.03
21 13 0.38
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
CATGTATCGATACATTGAA
Found at i:88090 original size:13 final size:13
Alignment explanation
Indices: 88072--88096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88062 ACATTGAACA
88072 TGTATCGATACAT
1 TGTATCGATACAT
88085 TGTATCGATACA
1 TGTATCGATACA
88097 AAGCAGCATG
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:88112 original size:33 final size:32
Alignment explanation
Indices: 88053--88117 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
88043 AATTTGTCCA
**
88053 TGTATCGATACATTGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
*
88085 TGTATCGATACAAAGCAGCATGTATCGATACAT
1 TGTATCGATACAAAG-AACATGTATCGATACAT
88118 CTGGGTCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:88677 original size:18 final size:18
Alignment explanation
Indices: 88656--88708 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
88646 AAATATTCTC
88656 CCTCTTAAACGATTATCT
1 CCTCTTAAACGATTATCT
** * *
88674 CCTCTTAAAAAATTCTCA
1 CCTCTTAAACGATTATCT
88692 CC-CTTAAACGATTATCT
1 CCTCTTAAACGATTATCT
88709 TCTCCCCTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (18 bp):
CCTCTTAAACGATTATCT
Found at i:93013 original size:13 final size:13
Alignment explanation
Indices: 92995--93149 Score: 55
Period size: 13 Copynumber: 11.9 Consensus size: 13
92985 TTCAATGATT
92995 TGTATCGATACAA
1 TGTATCGATACAA
93008 TGTATCGATACATAA
1 TGTATCGATAC--AA
93023 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
93040 TGTATCGCTACAA
1 TGTATCGATACAA
* * * *
93053 AGCTACTGCCAAGAAAA
1 TG-TA-T--CGATACAA
93070 TGTATCGATAC-A
1 TGTATCGATACAA
93082 T-TA-C--T-CAAA
1 TGTATCGATAC-AA
*
93091 TGTATCGATACAT
1 TGTATCGATACAA
93104 TGTATCGATAC-A
1 TGTATCGATACAA
93116 T-TA-C--T-CAAA
1 TGTATCGATAC-AA
*
93125 TGTATCGATACAT
1 TGTATCGATACAA
93138 TGTATCGATACA
1 TGTATCGATACA
93150 CTGATCTTTG
Statistics
Matches: 105, Mismatches: 13, Indels: 48
0.63 0.08 0.29
Matches are distributed among these distances:
7 2 0.02
8 2 0.02
9 4 0.04
10 6 0.06
11 6 0.06
12 3 0.03
13 54 0.51
14 4 0.04
15 4 0.04
16 2 0.02
17 7 0.07
19 11 0.10
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:93113 original size:34 final size:34
Alignment explanation
Indices: 93070--93149 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
93060 GCCAAGAAAA
93070 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
93104 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
93138 TGTATCGATACA
1 TGTATCGATACA
93150 CTGATCTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:107661 original size:52 final size:52
Alignment explanation
Indices: 107583--107710 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
107573 CGAAATATGA
*
107583 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
107635 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
107687 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
107711 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:107737 original size:13 final size:13
Alignment explanation
Indices: 107719--107743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107709 CAAAGATCAG
107719 TGTATCGATACAA
1 TGTATCGATACAA
107732 TGTATCGATACA
1 TGTATCGATACA
107744 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:107821 original size:33 final size:33
Alignment explanation
Indices: 107784--107850 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
107774 AGTAGCTTAA
107784 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
107817 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
107850 A
1 A
107851 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:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:107824 original size:13 final size:13
Alignment explanation
Indices: 107806--107830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107796 CAAAAAAATA
107806 TGTATCGATACAT
1 TGTATCGATACAT
107819 TGTATCGATACA
1 TGTATCGATACA
107831 ACATTTTATG
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:108830 original size:171 final size:171
Alignment explanation
Indices: 108638--109032 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
108628 TTTTAGAGAT
*
108638 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
108703 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATGCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
108768 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
108809 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
108874 GTGATAAAGATGCCAATATGTTGATGCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATGCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
*
108939 TGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
108980 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
109033 GCGTCAATGT
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 167 0.80
172 4 0.02
174 39 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATGCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:108855 original size:49 final size:49
Alignment explanation
Indices: 108709--108867 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
108699 AAAAGTGATA
* * * * *
108709 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
108760 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
108813 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
108862 ATGATG
1 AAGATG
108868 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:109104 original size:49 final size:49
Alignment explanation
Indices: 108929--109460 Score: 534
Period size: 49 Copynumber: 11.0 Consensus size: 49
108919 CTTAAAGATG
* *
108929 AGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
1 AGAAAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * *
108979 AGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T--
1 AGA---AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * *
109028 -G--AAAGGCGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * * * *
109074 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT--
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
109121 ----AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
** * * * * * *
109166 AGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*** * * * *
109215 AGGTGAAGGGGCCAATGTGCTGAGTCAAAGCCAGCTACATTGGTCTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
109264 A-AATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
1 AGAA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
**
109313 AG-ATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
** *
109361 AGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * * * *
109410 TGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 ---AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
109461 GAGGGGTTGC
Statistics
Matches: 395, Mismatches: 66, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
43 72 0.18
44 1 0.00
47 1 0.00
48 45 0.11
49 195 0.49
50 3 0.01
51 1 0.00
52 72 0.18
53 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
Found at i:109136 original size:92 final size:92
Alignment explanation
Indices: 108933--109414 Score: 552
Period size: 92 Copynumber: 5.1 Consensus size: 92
108923 AAGATGAGAA
* * *
108933 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AAAAGGTGCCAAT
* * *
108998 ATGCTGATTCAAGGCCAGCTATATTGGACTG
62 ATGCTGATTCAAGGCCAGCGATATCGGACTT
* * *
109029 AAAGGCGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
*
109094 TGATTCAAGGCCAGCGATATCGGGCTT
66 TGATTCAAGGCCAGCGATATCGGACTT
* ** *
109121 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
*
109186 TGATTCAAGGCCAGCGATATCGGGCTT
66 TGATTCAAGGCCAGCGATATCGGACTT
* * *
109213 AAAGGTGAAGGGGCCAATGTGCTGAGTCAAAGCCAGCTACATTGGTCTTAAA-AATAAAGGTGCC
1 AAAGGT------GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-AAAGGTGCC
* * *
109277 AATATGCTGATTCAAGGCCAGCTACATTGGACTT
59 AATATGCTGATTCAAGGCCAGCGATATCGGACTT
**
109311 AAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
1 --A-A--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAA
* * * * *
109376 TGTGCTGAGTCAAGGCCAGCTACATTGGACTT
61 TATGCTGATTCAAGGCCAGCGATATCGGACTT
*
109408 AATGGTG
1 AAAGGTG
109415 GAAAAGGTGC
Statistics
Matches: 341, Mismatches: 32, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
92 134 0.39
94 1 0.00
95 41 0.12
96 5 0.01
97 78 0.23
98 76 0.22
100 1 0.00
101 1 0.00
103 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATCGGACTT
Found at i:109762 original size:160 final size:155
Alignment explanation
Indices: 109566--109953 Score: 532
Period size: 160 Copynumber: 2.4 Consensus size: 155
109556 CTTAAAAGGG
109566 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
*
109631 AGA-GTGCCACGGAGTCGTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAAG
65 AGAGGTGCCACGGAGTCGTGGGCTTT-AAAGG-AAAA-GGTGCCACGGAGTTATGGACTTA-AAG
*
109695 -GAAAAAGAGTGCCACAGAGTTGTGGGCTTTT
126 AGAAAAA-AGTGCCACAGAATTGTGGGC-TTT
*
109726 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
* *
109791 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAA
63 --A-AAG-AGGTGCCACGGAGTCGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTATGGACTTAA
*
109856 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
124 AGA-GAAAAAAGTGCCACAGAATTGTGGGCTTT
* * *
109889 -AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAA-AAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
109952 GA
66 GA
109954 AAAAATGCCA
Statistics
Matches: 208, Mismatches: 11, Indels: 24
0.86 0.05 0.10
Matches are distributed among these distances:
154 1 0.00
155 3 0.01
160 86 0.41
161 6 0.03
162 26 0.12
163 6 0.03
164 40 0.19
165 13 0.06
166 6 0.03
167 21 0.10
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (155 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
GAGGTGCCACGGAGTCGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTATGGACTTAAAGAGAAA
AAAGTGCCACAGAATTGTGGGCTTT
Found at i:109789 original size:194 final size:191
Alignment explanation
Indices: 109531--109951 Score: 543
Period size: 194 Copynumber: 2.2 Consensus size: 191
109521 TTTGGGAAGG
*
109531 AAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
109594 TAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-G-A-GTGCCACGGAGTCGTGGGCTTT
64 TAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAGGTGCCACGGAGTCGTGGAC-TT
* *
109656 AAA-AGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGG
128 AAAGAGGAAAAA-AGTGCCACGGAATTATGGGCTT------AAAAAGAGTGCCACAGAGTTGTGG
109720 GCTTTTA
186 GC-TTTA
*
109727 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTTA
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
*
109790 AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTA
66 AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG--AAGGTGCCACGGAGTCGTGGACTTA
* * * * *
109855 AAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTA
129 AAGAGGAAAAAAGTGCCACGGAATTATGGGCTTAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
109918 AAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AA--AAAA-GTGCCACGGAGTTGTGGGCTTTGAA
109952 GAAAAAATGC
Statistics
Matches: 203, Mismatches: 11, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
191 6 0.03
192 23 0.11
193 4 0.02
194 84 0.41
195 24 0.12
196 9 0.04
197 4 0.02
198 25 0.12
199 24 0.12
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.21
Consensus pattern (191 bp):
AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAGGTGCCACGGAGTCGTGGACTTAAA
GAGGAAAAAAGTGCCACGGAATTATGGGCTTAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
Found at i:109989 original size:30 final size:30
Alignment explanation
Indices: 109928--110134 Score: 236
Period size: 31 Copynumber: 6.7 Consensus size: 30
109918 AAGGAAAAGG
* * * *
109928 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
* *
109959 TGCCATTGAGTCGTGGACCTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
* * *
109989 TGCCACTAAGTCGTGGACTTTAAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTT-GAGACAAA-A
110021 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
* *
110051 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTT-GAGACAAA-A
*
110083 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
110114 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
110135 TTTTTTTTTT
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
30 48 0.32
31 59 0.39
32 44 0.29
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:110033 original size:32 final size:32
Alignment explanation
Indices: 109532--110103 Score: 451
Period size: 34 Copynumber: 17.9 Consensus size: 32
109522 TTGGGAAGGA
* *
109532 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAA--G
109566 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTT--AAAG
* *
109601 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
*
109633 ----AG-TGCCACGGAGTCGTGGGCTTTAAAAGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTT-AAA-G
* *
109662 AAAAAGGGTGCCACGGAGTTATGGGC-TTAGAAGG
1 AAAAA-GATGCCACGGAGTTGTGGGCTTTA-AA-G
* *
109696 AAAAAGAGTGCCACAGAGTTGTGGGCTTTTAA-
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAG
109728 AAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTT--AAAG
* *
109761 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTT--AAAG
* *
109795 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* * *
109827 GAAAAGGTGCCACGGAGTTGTGGAC-TTAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* *
109858 ATGAAAAAAGTGCCACGGAATTGTGGGCTTT----
1 A--AAAAGA-TGCCACGGAGTTGTGGGCTTTAAAG
* *
109889 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* * *
109921 GAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
** * * * *
109953 AAAAA-ATGCCATTGAGTCGTGGACCTT-GAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* ** * *
109983 ACAAA-ATGCCACTAAGTCGTGGACTTTAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* * * *
110014 AAAAAGATGCCACTGAGTCGTGGACTTT-GAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* * * *
110045 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
* * *
110076 AAAAAGATGCCACTGAGTCGTGGACTTT
1 AAAAAGATGCCACGGAGTTGTGGGCTTT
110104 GAGCAGAGAT
Statistics
Matches: 459, Mismatches: 49, Indels: 62
0.81 0.09 0.11
Matches are distributed among these distances:
27 20 0.04
28 25 0.05
29 4 0.01
30 67 0.15
31 41 0.09
32 114 0.25
33 12 0.03
34 128 0.28
35 45 0.10
37 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (32 bp):
AAAAAGATGCCACGGAGTTGTGGGCTTTAAAG
Found at i:110034 original size:62 final size:62
Alignment explanation
Indices: 109928--110134 Score: 310
Period size: 62 Copynumber: 3.3 Consensus size: 62
109918 AAGGAAAAGG
* * * * * *
109928 TGCCACGGAGTTGTGGGCTTTGAAGAAAAA-ATGCCATTGAGTCGTGGACCTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
109989 TGCCACTAAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
110051 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
110114 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
110135 TTTTTTTTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
61 27 0.20
62 85 0.63
63 22 0.16
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:110042 original size:93 final size:93
Alignment explanation
Indices: 109908--110134 Score: 271
Period size: 93 Copynumber: 2.4 Consensus size: 93
109898 CCACGGAGTT
* * * * * *
109908 GTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCATTGAGTCGT
1 GTGGACTTTAAA-GAAAAGATGCCACTGAGTCGTGGACTTTG-AGAAAAAATGCCACTGAGTCGT
* *
109973 GGACCTT-GAGACAAA-ATGCCACTAAGTC
64 GGACCTTAAAGAAAAAGATGCCACTAAGTC
*
110001 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTG
1 GTGGACTTTAAAG-AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAAATGCCACTGAGTCGTG
* *
110066 GACTTTAAAGAAAAAGATGCCACTGAGTC
65 GACCTTAAAGAAAAAGATGCCACTAAGTC
* * *
110095 GTGGACTTT-GAGCAGAGATTGCCACTGAGTCGTGGACTTT
1 GTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
110135 TTTTTTTTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
92 31 0.27
93 64 0.55
94 21 0.18
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAAATGCCACTGAGTCGTGG
ACCTTAAAGAAAAAGATGCCACTAAGTC
Found at i:111116 original size:13 final size:13
Alignment explanation
Indices: 111100--111124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111090 GTTTTTTCCC
111100 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
111113 TTTTTTTTTTGT
1 TTTTTTTTTTGT
111125 GAAGAGTAGG
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:111184 original size:15 final size:15
Alignment explanation
Indices: 111164--111197 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
111154 CTCACCGAGA
*
111164 TTTTCTGTTTTGTTT
1 TTTTCTGTTTTCTTT
*
111179 TTTTCTTTTTTCTTT
1 TTTTCTGTTTTCTTT
111194 TTTT
1 TTTT
111198 TGTGTTTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTCTGTTTTCTTT
Found at i:113839 original size:13 final size:13
Alignment explanation
Indices: 113815--113928 Score: 90
Period size: 13 Copynumber: 8.7 Consensus size: 13
113805 ATCCTCTGCT
113815 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
* *
113828 AAGAAGAAAGAAG
1 AAAAAAAAAGAAG
113841 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
* *
113854 AAAAAAACA-AAC
1 AAAAAAAAAGAAG
*
113866 AAACAAAAAAAAAG
1 AAA-AAAAAAGAAG
* * *
113880 AAACAAACA-AAC
1 AAAAAAAAAGAAG
*
113892 AAACAAAAAAGAAA
1 AAA-AAAAAAGAAG
113906 AAAAAACAAAGAA-
1 AAAAAA-AAAGAAG
113919 AACAAAAAAA
1 AA-AAAAAAA
113929 ACAACAAAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
12 10 0.12
13 51 0.63
14 20 0.25
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:113869 original size:8 final size:8
Alignment explanation
Indices: 113858--113915 Score: 63
Period size: 8 Copynumber: 7.9 Consensus size: 8
113848 AAGAAGAAAA
113858 AAACAAAC
1 AAACAAAC
113866 AAACAAA-
1 AAACAAAC
*
113873 AAA-AAAG
1 AAACAAAC
113880 AAACAAAC
1 AAACAAAC
113888 AAACAAAC
1 AAACAAAC
*
113896 AAA-AAAG
1 AAACAAAC
113903 AAA-AAA-
1 AAACAAAC
113909 AAACAAA
1 AAACAAA
113916 GAAAACAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
6 6 0.13
7 18 0.40
8 21 0.47
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (8 bp):
AAACAAAC
Found at i:113873 original size:26 final size:26
Alignment explanation
Indices: 113818--113927 Score: 127
Period size: 26 Copynumber: 4.2 Consensus size: 26
113808 CTCTGCTAAA
* *
113818 AAAAAAGAAGAAGAAGAAA-GAAGAAA-
1 AAAAAAGAAGAA-AA-AAACAAACAAAC
113844 AAAAAAGAAGAAAAAAACAAACAAAC
1 AAAAAAGAAGAAAAAAACAAACAAAC
* *
113870 AAAAAAAAAGAAACAAACAAACAAAC
1 AAAAAAGAAGAAAAAAACAAACAAAC
*
113896 AAAAAAGAA-AAAAAAACAAAGAAAAC
1 AAAAAAGAAGAAAAAAACAAA-CAAAC
113922 AAAAAA
1 AAAAAA
113928 AACAACAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
24 3 0.04
25 17 0.23
26 54 0.73
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAGAAAAAAACAAACAAAC
Found at i:113875 original size:30 final size:29
Alignment explanation
Indices: 113841--113938 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 29
113831 AAGAAAGAAG
113841 AAAAAAAAAGAAGAAAAAAACAAACAAAC-
1 AAAAAAAAAGAA-AAAAAAACAAACAAACA
113870 AAAAAAAAAGAAACAAACAAACAAACAAA-A
1 AAAAAAAAAGAAA-AAA-AAACAAACAAACA
*
113900 AAGAAAAAAA-AACAAAGAAAACAAAAAAAACA
1 AA-AAAAAAAGAA-AAA-AAAAC-AAACAAACA
*
113932 ACAAAAA
1 AAAAAAA
113939 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
28 1 0.02
29 15 0.25
30 21 0.36
31 20 0.34
32 2 0.03
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (29 bp):
AAAAAAAAAGAAAAAAAAACAAACAAACA
Found at i:113930 original size:18 final size:17
Alignment explanation
Indices: 113854--113938 Score: 86
Period size: 17 Copynumber: 4.9 Consensus size: 17
113844 AAAAAAGAAG
*
113854 AAAAAAACAAACAAACA
1 AAAAAAACAAAAAAACA
113871 AAAAAAA-AGAAACAAAC-
1 AAAAAAACA-AAA-AAACA
*
113888 AAACAAACAAAAAAGA-A
1 AAAAAAACAAAAAA-ACA
113905 AAAAAAACAAAGAAAACA
1 AAAAAAACAAA-AAAACA
113923 AAAAAAACAACAAAAA
1 AAAAAAACAA-AAAAA
113939 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.05
17 30 0.53
18 23 0.40
19 1 0.02
ACGTcount: A:0.84, C:0.13, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAAAACA
Found at i:113937 original size:26 final size:24
Alignment explanation
Indices: 113844--113938 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 24
113834 AAAGAAGAAA
*
113844 AAAAAAGAAGAAAAAAACAAACAAAC
1 AAAAAA-AA-AAAAAAACAAAAAAAC
*
113870 AAAAAAAAAGAAACAAACAAACAAAC
1 AAAAAAAAA-AAA-AAACAAAAAAAC
113896 AAAAAAGAAAAAAAAACAAAGAAAAC
1 AAAAAA-AAAAAAAAACAAA-AAAAC
113922 AAAAAAAACAACAAAAA
1 AAAAAAAA-AA-AAAAA
113939 GGGTCCGGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
24 1 0.02
25 14 0.23
26 39 0.63
27 8 0.13
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAAACAAAAAAAC
Found at i:113938 original size:1 final size:1
Alignment explanation
Indices: 113841--113929 Score: 52
Period size: 1 Copynumber: 89.0 Consensus size: 1
113831 AAGAAAGAAG
* * * * * * * * * * *
113841 AAAAAAAAAGAAGAAAAAAACAAACAAACAAAAAAAAAGAAACAAACAAACAAACAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
113906 AAAAAACAAAGAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
113930 CAACAAAAAG
Statistics
Matches: 60, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:115492 original size:29 final size:28
Alignment explanation
Indices: 115370--115499 Score: 109
Period size: 30 Copynumber: 4.5 Consensus size: 28
115360 CCTCACCCTG
* * *
115370 TCAAAAGGCTACAAGTCAGTGGCAACAT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
*
115398 TCAAAAGCCCACAAGTCAGTGGCACCCTTTT
1 TCAAAAGCCCACAAGTCAGTGGCAACC---T
* * * *
115429 TC-GAAGCCCACAAGTTAGTGGCATCTTT
1 TCAAAAGCCCACAAGTCAGTGGCAAC-CT
* *
115457 TCCAAAGCCCACAAGCCAAGTGGCAACCT
1 TCAAAAGCCCACAAGTC-AGTGGCAACCT
*
115486 TCAAAAGTCCACAA
1 TCAAAAGCCCACAA
115500 CTCCGTAGCA
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
28 26 0.32
29 24 0.30
30 28 0.35
31 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (28 bp):
TCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:115585 original size:71 final size:69
Alignment explanation
Indices: 115489--115665 Score: 248
Period size: 71 Copynumber: 2.5 Consensus size: 69
115479 GCAACCTTCA
* *
115489 AAAGTCCACAACTCCGTAGCACCTTTCTTCTTTTTAAAGCCCACAACTCTATGGCACACTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTATGGCACACTTTTTC
115554 CTTTTT
66 C--TTT
* * *
115560 AAAGCCCACAACTCCATGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTATGGCACACTTTTTC
115625 CTTT
66 CTTT
* * *
115629 CAAGCCCATAACTCCGTGGCACTCTTT-TTCCTTTTAA
1 AAAGCCCACAACTCCGTGGCAC-CTTTCTTCTTTTTAA
115666 GTCCATAGCT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
69 31 0.32
70 4 0.04
71 61 0.64
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.36
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTATGGCACACTTTTTC
CTTT
Found at i:115600 original size:35 final size:35
Alignment explanation
Indices: 115489--115665 Score: 207
Period size: 35 Copynumber: 5.1 Consensus size: 35
115479 GCAACCTTCA
* *
115489 AAAGTCCACAACTCCGTAGCAC-CTTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT-TTCTTTTT
** *
115524 AAAGCCCACAACTCTATGGCACACTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTTTT
*
115560 AAAGCCCACAACTCCATGGCAC-CTTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT-TTCTTTTT
* *
115595 AAAGCCCACAACTCTGTGGCACTCTTTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* * *
115629 CAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
115664 AA
1 AA
115666 GTCCATAGCT
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
34 30 0.24
35 57 0.46
36 37 0.30
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.36
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:115642 original size:34 final size:34
Alignment explanation
Indices: 115489--115690 Score: 183
Period size: 34 Copynumber: 5.8 Consensus size: 34
115479 GCAACCTTCA
* * * *
115489 AAAGTCCACAACTCCGTAGCAC-CTTTCTTCTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTT-TTC-CTTT
* *
115524 AAAGCCCACAACTCTATGGCACACTTTTTCCTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCC--TTT
** *
115560 AAAGCCCACAACTCCATGGCAC-CTTTCTTCTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTT-TTC-CTTT
115595 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTT
* * *
115629 CAAGCCCATAACTCCGTGGCACTCTTTTTCCTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTT
* * * * *
115663 TAAGTCCATAGCTCTGTGGCACCCTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTT
115691 AAGCCCACAA
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
34 57 0.40
35 51 0.36
36 35 0.24
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (34 bp):
AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTT
Found at i:115708 original size:27 final size:28
Alignment explanation
Indices: 115678--115744 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 28
115668 CCATAGCTCT
*
115678 GTGGCACCCTTTT-AAGCCCACAAGTCG
1 GTGGCACCCTTTTGAAGCCCACAAGTCA
115705 GTGGCACCCCTTTTGAAGCCCACAAGTCA
1 GTGGCA-CCCTTTTGAAGCCCACAAGTCA
*
115734 GTGGCAACCTT
1 GTGGCACCCTT
115745 CAAAAGCACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 6 0.17
28 11 0.31
29 19 0.53
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (28 bp):
GTGGCACCCTTTTGAAGCCCACAAGTCA
Found at i:115890 original size:22 final size:22
Alignment explanation
Indices: 115865--115935 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
115855 TTAAAACCCA
115865 ATATTGCTGGCCTTGAATCAGC
1 ATATTGCTGGCCTTGAATCAGC
* *
115887 ATATTGAC--ACCTTGAAGTCCG-
1 ATATTG-CTGGCCTTGAA-TCAGC
* * *
115908 ATATCGTTGGCCTTGAATCTGC
1 ATATTGCTGGCCTTGAATCAGC
115930 ATATTG
1 ATATTG
115936 GCACCGGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
21 15 0.41
22 21 0.57
23 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (22 bp):
ATATTGCTGGCCTTGAATCAGC
Found at i:116094 original size:87 final size:87
Alignment explanation
Indices: 115901--116113 Score: 225
Period size: 87 Copynumber: 2.4 Consensus size: 87
115891 TGACACCTTG
* **
115901 AAGTCCGATATCGTTGGCCTTGAATCTGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCTA
1 AAGTCCGATATCGTTGGCTTTGAATCTGCATATTGGCACCGG-ATCTTTAAGACCAATGTCACTA
* *
115966 GCCTTGAATCAGCACATTGGCAT
65 GCCTTGAATCAGCACATCGGCAC
* * * * * ** *
115989 AAGCCCAATATTGCTGGCTTTGAATC-GACGTATTGGCACTTTG-TCTTTAAGTCCAATGTCACT
1 AAGTCCGATATCGTTGGCTTTGAATCTG-CATATTGGCAC-CGGATCTTTAAGACCAATGTCACT
*
116052 GGCCTTGAATCAGCACATCGGCAC
64 AGCCTTGAATCAGCACATCGGCAC
* *
116076 AAGTTCGATATCGTTGGCTGTGAAT-TAGCATATTGGCA
1 AAGTCCGATATCGTTGGCTTTGAATCT-GCATATTGGCA
116114 TCTTTATCAC
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
87 67 0.67
88 32 0.32
89 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (87 bp):
AAGTCCGATATCGTTGGCTTTGAATCTGCATATTGGCACCGGATCTTTAAGACCAATGTCACTAG
CCTTGAATCAGCACATCGGCAC
Found at i:116838 original size:15 final size:15
Alignment explanation
Indices: 116810--116856 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 15
116800 AAATTTTATC
116810 TTAATTTTTA-AATT
1 TTAATTTTTATAATT
116824 TTAATTTTTATAA-T
1 TTAATTTTTATAATT
116838 TTAATTTTTTATTAATT
1 TTAA-TTTTTA-TAATT
116855 TT
1 TT
116857 TACGATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 15 0.52
15 8 0.28
16 3 0.10
17 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTTATAATT
Found at i:117921 original size:17 final size:19
Alignment explanation
Indices: 117884--117925 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
117874 AAAAGTGATG
117884 AGAAGAAGAAGGAAATGAGA
1 AGAAGAAGAAGGAAA-GAGA
* *
117904 AGAAGAAGAAGAAAAGAAA
1 AGAAGAAGAAGGAAAGAGA
117923 AGA
1 AGA
117926 TTTTTGGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (19 bp):
AGAAGAAGAAGGAAAGAGA
Found at i:119843 original size:157 final size:155
Alignment explanation
Indices: 119458--119982 Score: 581
Period size: 157 Copynumber: 3.4 Consensus size: 155
119448 TAGTGTCCAC
** * * * **
119458 TAGGGGTATTGGGTAGTTTTACGTCGAAGG-ATCCCCTAGGGGGATTTTGGTAATTTTCTTAGAA
1 TAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTCATAATTTT-TTAGAA
* * * * **
119522 TCGAGTCCTAGGTTGTCACCAGGTCCGTTTTTATACCGAAGGTGGGCATTTAGGATAGGTTCATC
65 TCGAGTCTTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATC
**
119587 ACCTTTTATCATCCTTTTTAAGTCCTT
130 -CCTTTTAAAATCCTTTTTAAGTCCTT
* * * * * *
119614 TAGGGATATCAGGCACTTCTACGTCGAAGGTATCCCTTGGGGGTATTTTCATAAATTTTTAGAAT
1 TAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTTAGAAT
* * * * *
119679 CGAGTCTTAGGTTGTC-CTCGGGTCCGCTTTTATGCCAAAAGTGGATACTTAGGGTAGATTCATC
66 CGAGTCTTAGGTTGTCAC-CGGGTCCGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATC
**
119743 CCAATTAAAATCCTTTTTTAAAGTCCTT
130 CCTTTTAAAATCC-TTTTT-AAGTCCTT
* * * * *
119771 TAGGGGTATGAGGTGCTTTTACGTCGAAGGTATCCCCTAGGGGCGTTTTCATAATTTTTTA-AAA
1 TAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTTAGAAT
* ** *
119835 CTGGGTCTTAGGTTGTCACCGGGTTTGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATC
66 C-GAGTCTTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATC
*
119900 CCTTTTAAAATCCTTTATAAGTCCTT
130 CCTTTTAAAATCCTTTTTAAGTCCTT
* * ** *
119926 T-GAGGTATCAGGTACTTCTACGTCGAAGGTATTCCCTAAAGGCATTTTCATCATTTT
1 TAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTCATAATTTT
119983 ACTTGAACTT
Statistics
Matches: 304, Mismatches: 59, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
154 47 0.15
155 19 0.06
156 94 0.31
157 143 0.47
158 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (155 bp):
TAGGGGTATCAGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTTAGAAT
CGAGTCTTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCC
CTTTTAAAATCCTTTTTAAGTCCTT
Found at i:129326 original size:78 final size:78
Alignment explanation
Indices: 129076--129363 Score: 307
Period size: 79 Copynumber: 3.7 Consensus size: 78
129066 TCATTGATAT
* * * *
129076 TTTTATTTCCAAAATA-TCGATTTTTCACTATC-AGGGATATTCCAACCCCGTTATTTTCAAGGG
1 TTTTATTTCCAAAATACT-AATTTTTCACCATCGA-GGATACTCCAACCCCATTATTTTC-AGGG
129139 GATACTCCAACCCC-A
63 GATACTCCAACCCCGA
* * * *
129154 GTTTTATTTCTAAAACACCAA-TTTTCTACCATCGAAGATACTCCAACCCCATTATTTTTCAGGG
1 -TTTTATTTCCAAAATACTAATTTTTC-ACCATCGAGGATACTCCAACCCCATTA-TTTTCAGGG
* * *
129218 GATACACTAACCCTGA
63 GATACTCCAACCCCGA
* * * *
129234 TTTTATTTCTAAAATACTAATTTTTCACCATTGGGGATACTCCAA-CCCATTGTTTTCGAGGGGA
1 TTTTATTTCCAAAATACTAATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTC-AGGGGA
129298 TACTCCAACCCCGA
65 TACTCCAACCCCGA
* * * *
129312 TTTTATTTCCAAAATATTGATTTTACACAATCGAGGATACTCCAACCCCATT
1 TTTTATTTCCAAAATACTAATTTTTCACCATCGAGGATACTCCAACCCCATT
129364 CTTTATTTCC
Statistics
Matches: 174, Mismatches: 27, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
77 5 0.03
78 66 0.38
79 91 0.52
80 12 0.07
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (78 bp):
TTTTATTTCCAAAATACTAATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAGGGGAT
ACTCCAACCCCGA
Found at i:129363 original size:157 final size:158
Alignment explanation
Indices: 129076--129363 Score: 377
Period size: 157 Copynumber: 1.8 Consensus size: 158
129066 TCATTGATAT
* * * *
129076 TTTTATTTCCAAAATATCGATTTTTCACTATCAGGGATATTCCAACCCCGTTATTTTCAAGGGGA
1 TTTTATTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCCCATTATTTTCAAGGGGA
* *
129141 TACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTCTACCATCGAAGATACTCCAACCCCAT
66 TACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTCTACAATCGAAGATACTCCAACCCCAT
129206 TATTTTTCAGGGGATACACTAACCCTGA
131 TATTTTTCAGGGGATACACTAACCCTGA
* ** * *
129234 TTTTATTTCTAAAATA-CTAATTTTTCACCATTGGGGATACTCCAA-CCCATTGTTTTCGAGGGG
1 TTTTATTTCCAAAATATC-AATTTTTCACCATCAGGGATACTCCAACCCCATTATTTTCAAGGGG
* *** *
129297 ATACTCCAACCCC-GATTTTATTTCCAAAATATTGATTTTAC-ACAATCGAGGATACTCCAACCC
65 ATACTCCAACCCCAG-TTTTATTTCCAAAACACCAATTTT-CTACAATCGAAGATACTCCAACCC
129360 CATT
128 CATT
129364 CTTTATTTCC
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
156 1 0.01
157 72 0.65
158 38 0.34
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (158 bp):
TTTTATTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCCCATTATTTTCAAGGGGA
TACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTCTACAATCGAAGATACTCCAACCCCAT
TATTTTTCAGGGGATACACTAACCCTGA
Found at i:129379 original size:52 final size:51
Alignment explanation
Indices: 129295--129409 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 51
129285 GTTTTCGAGG
**
129295 GGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTTACACAATCGA
1 GGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTACACAATCGA
* * *
129346 GGATACTCCAACCCC-ATTCTTTATTTCCAAAATATCAATTTTTCACCATTGA
1 GGATACTCCAACCCCGA-T-TTTATTTCCAAAATATCAATTTTACACAATCGA
*
129398 AGATACTCCAAC
1 GGATACTCCAAC
129410 TCTGTTGTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.02
51 16 0.29
52 39 0.70
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAATATCAATTTTACACAATCGA
Found at i:129485 original size:80 final size:80
Alignment explanation
Indices: 129346--129494 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
129336 ACACAATCGA
* ** *
129346 GGATACTCCAACCCCATTCTTTATTTCCAAAATATCAATTTTTCACCATTGAAGATACTCCAACT
1 GGATACTCCAACCCCATTCTTTATTTCCAAAATATCAATTATTCACCAGGGAAGATACTCCAACC
129411 CTGTTGTTTTCAAGG
66 CTGTTGTTTTCAAGG
** * *
129426 GGATACTCCAACCCCATT-TTTATTTCCAAGTTATTGAATTATTC-CTCAGGGAATG-TACTCTA
1 GGATACTCCAACCCCATTCTTTATTTCCAAAATA-TCAATTATTCAC-CAGGGAA-GATACTCCA
129488 ACCCTGT
63 ACCCTGT
129495 ACTTTGAGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
79 14 0.24
80 43 0.74
81 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (80 bp):
GGATACTCCAACCCCATTCTTTATTTCCAAAATATCAATTATTCACCAGGGAAGATACTCCAACC
CTGTTGTTTTCAAGG
Found at i:132363 original size:21 final size:21
Alignment explanation
Indices: 132330--132379 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
132320 TTGCAAGTTG
*
132330 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
132352 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
132373 AAATAAA
1 AAATAAA
132380 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:134197 original size:15 final size:15
Alignment explanation
Indices: 134177--134207 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
134167 TAAAAATGTC
*
134177 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
134192 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
134207 C
1 C
134208 CAAACGAAAT
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
Done.