Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008674.1 Hibiscus syriacus cultivar Beakdansim tig00111689_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 899125
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:10761 original size:19 final size:19
Alignment explanation
Indices: 10737--10781 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
10727 CAAGTTTGAG
*
10737 TACCATGAATGTCAGATCT
1 TACCATGAATGTAAGATCT
10756 TACCATGAATGTAAGATCT
1 TACCATGAATGTAAGATCT
10775 TACCATG
1 TACCATG
10782 CAAAGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (19 bp):
TACCATGAATGTAAGATCT
Found at i:11605 original size:26 final size:26
Alignment explanation
Indices: 11566--11634 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
11556 AAGTGCTAAT
11566 ACACATAAGGTCATGCCCACCGTAAA
1 ACACATAAGGTCATGCCCACCGTAAA
* * * *
11592 ACACATTAGATCATGTCCACCGTAAT
1 ACACATAAGGTCATGCCCACCGTAAA
*
11618 ACACATGAGGTCATGCC
1 ACACATAAGGTCATGCC
11635 TACCATATAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (26 bp):
ACACATAAGGTCATGCCCACCGTAAA
Found at i:12783 original size:39 final size:39
Alignment explanation
Indices: 12729--12808 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
12719 CATCAACCCC
12729 ATAACTTTTCATCTTTTCCAAATGGATCCCTAAAGGAAA
1 ATAACTTTTCATCTTTTCCAAATGGATCCCTAAAGGAAA
12768 ATAACTTTTCATCTTTTCCAAATGGATCCCTAAAGGAAA
1 ATAACTTTTCATCTTTTCCAAATGGATCCCTAAAGGAAA
12807 AT
1 AT
12809 TAATGGATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (39 bp):
ATAACTTTTCATCTTTTCCAAATGGATCCCTAAAGGAAA
Found at i:13764 original size:3 final size:3
Alignment explanation
Indices: 13756--13791 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13746 TTACCTTAAA
13756 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13792 TAATTAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14005 original size:37 final size:37
Alignment explanation
Indices: 13959--14064 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 37
13949 ACGTTGGAAG
*
13959 CAACTTAAAATATTACATTCTTTATAATTTTTTTGATT
1 CAACCTAAAATATTACATTCTTTATAATTTTTTTG-TT
*
13997 -AACCTAAAATATTATATT-TTTCATAATATTTTTTTGTT
1 CAACCTAAAATATTACATTCTTT-AT-A-ATTTTTTTGTT
* *
14035 GCCAACCAAAAATCTTACATTCTTTATAAT
1 --CAACCTAAAATATTACATTCTTTATAAT
14065 ATTTAAGTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
36 3 0.05
37 18 0.32
38 3 0.05
39 11 0.20
40 1 0.02
41 17 0.30
42 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.48
Consensus pattern (37 bp):
CAACCTAAAATATTACATTCTTTATAATTTTTTTGTT
Found at i:15547 original size:14 final size:15
Alignment explanation
Indices: 15523--15555 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15513 CCTTTGCCCC
15523 AAATCCCTAAATCCT
1 AAATCCCTAAATCCT
*
15538 AAAT-CCTAAATCTT
1 AAATCCCTAAATCCT
15552 AAAT
1 AAAT
15556 TTTAAATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATCCCTAAATCCT
Found at i:16204 original size:28 final size:28
Alignment explanation
Indices: 16173--16245 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
16163 TTATAATCGA
16173 ATTAAAATTTTAATAATTATTTATAACT
1 ATTAAAATTTTAATAATTATTTATAACT
*
16201 ATTAAAATTTTAATAATTATTTATAATT
1 ATTAAAATTTTAATAATTATTTATAACT
*
16229 ATTAAAATTTTAGTAAT
1 ATTAAAATTTTAATAAT
16246 AGTTAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTAAAATTTTAATAATTATTTATAACT
Found at i:16228 original size:10 final size:10
Alignment explanation
Indices: 16185--16231 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
16175 TAAAATTTTA
16185 ATAATTATTT
1 ATAATTATTT
*
16195 ATAACTA-TT
1 ATAATTATTT
* *
16204 AAAATT-TTA
1 ATAATTATTT
16213 ATAATTATTT
1 ATAATTATTT
16223 ATAATTATT
1 ATAATTATT
16232 AAAATTTTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAATTATTT
Found at i:24328 original size:12 final size:13
Alignment explanation
Indices: 24302--24347 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
24292 TCATTCGATA
*
24302 TTATATAATATAT
1 TTATATTATATAT
24315 TTATATTATA-AT
1 TTATATTATATAT
*
24327 TTATATTACATA-
1 TTATATTATATAT
*
24339 ATATATTAT
1 TTATATTAT
24348 TCATTTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATTATATAT
Found at i:25528 original size:2 final size:2
Alignment explanation
Indices: 25517--25548 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
25507 CATATTACAT
25517 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25549 GTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25553 original size:8 final size:7
Alignment explanation
Indices: 25517--25649 Score: 66
Period size: 8 Copynumber: 18.9 Consensus size: 7
25507 CATATTACAT
*
25517 TATAATA
1 TATATTA
25524 TATATATA
1 TATAT-TA
25532 TATATATA
1 TATAT-TA
25540 TATATTA
1 TATATTA
25547 TAGTATTA
1 TA-TATTA
25555 T-TATTA
1 TATATTA
25561 T-TATTA
1 TATATTA
*
25567 TATTTTA
1 TATATTA
*
25574 T-TTTTA
1 TATATTA
* *
25580 CATACTTG
1 TATA-TTA
25588 TATTATTA
1 TA-TATTA
*
25596 GTATTTTA
1 -TATATTA
25604 T-TATGTA
1 TATAT-TA
*
25611 TTTATT-
1 TATATTA
25617 T-TATT-
1 TATATTA
25622 TATATGT-
1 TATAT-TA
25629 TATATTA
1 TATATTA
25636 TATATATA
1 TATAT-TA
25644 TATATT
1 TATATT
25650 TCATTTCTTG
Statistics
Matches: 104, Mismatches: 9, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
5 5 0.05
6 24 0.23
7 31 0.30
8 40 0.38
9 4 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:30156 original size:16 final size:17
Alignment explanation
Indices: 30121--30161 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
30111 AAAGAGCAAA
30121 AAACAAAGAAAAAAGAG
1 AAACAAAGAAAAAAGAG
30138 AAAC-AAGAACAAAAG-G
1 AAACAAAGAA-AAAAGAG
*
30154 AAAAAAAG
1 AAACAAAG
30162 GAAAGAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (17 bp):
AAACAAAGAAAAAAGAG
Found at i:30160 original size:28 final size:28
Alignment explanation
Indices: 30125--30187 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
30115 AGCAAAAAAC
*
30125 AAAG-AAAAAAGAGA-AACAAGAA-CAA
1 AAAGAAAAAAAGAAAGAACAAGAATCAA
*
30150 AAGGAAAAAAAGGAAAGAACAAGAATCAA
1 AAAGAAAAAAA-GAAAGAACAAGAATCAA
30179 AAAGAAAAA
1 AAAGAAAAA
30188 GGGAAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 3 0.10
26 6 0.19
27 3 0.10
28 8 0.26
29 11 0.35
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (28 bp):
AAAGAAAAAAAGAAAGAACAAGAATCAA
Found at i:30192 original size:28 final size:28
Alignment explanation
Indices: 30087--30198 Score: 83
Period size: 28 Copynumber: 4.1 Consensus size: 28
30077 AATATCCAAT
* * *
30087 CAAGAACAAAAATAAAAAAAAGTAAAAGAG
1 CAAGAACAAAAA-GAAAAAAAGGAAAA-AA
*
30117 CAA-AA-AACAAAG-AAAAAAG--AGAAA
1 CAAGAACAA-AAAGAAAAAAAGGAAAAAA
* *
30141 CAAGAACAAAAGGAAAAAAAGGAAAGAA
1 CAAGAACAAAAAGAAAAAAAGGAAAAAA
*
30169 CAAGAATCAAAAAG-AAAAAGGGAAAAAA
1 CAAGAA-CAAAAAGAAAAAAAGGAAAAAA
30197 CA
1 CA
30199 CATGTTAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
24 4 0.06
25 7 0.11
26 9 0.14
27 7 0.11
28 25 0.38
29 11 0.17
30 3 0.05
ACGTcount: A:0.73, C:0.08, G:0.16, T:0.03
Consensus pattern (28 bp):
CAAGAACAAAAAGAAAAAAAGGAAAAAA
Found at i:32319 original size:106 final size:106
Alignment explanation
Indices: 32202--32735 Score: 872
Period size: 106 Copynumber: 5.0 Consensus size: 106
32192 ATATCGTGCC
* * *
32202 ACTCAAGACAACACAAGTTCAACTTTACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
32267 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
32308 ACTCAAGACAACACAAGTTCAACTTCACAACAAAGGGACGGATGATTGTCAACAAACAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
32373 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
32414 ACTCAAGACAATACAAGTTCAACTTCACAGCGAAGGGACGGCTGGTTGTCAACAAACAACTTCCA
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
32479 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
32520 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
32585 AATTTCATAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
32626 ACTCAAGACAACACAAGTTCAACTTTACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
32691 AA-TTCAAGAACCAATTTCAACTTCACGGCAAAGGATATTGG
66 AATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
32732 ACTC
1 ACTC
32736 GGAACAATAC
Statistics
Matches: 397, Mismatches: 30, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 3 0.01
106 394 0.99
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (106 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:34686 original size:15 final size:13
Alignment explanation
Indices: 34666--34716 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
34656 TTCATATTAC
34666 ATTATATA-TATAT
1 ATTATATATTAT-T
34679 ATTATATA-TATT
1 ATTATATATTATT
34691 ATTAT-TATTATT
1 ATTATATATTATT
34703 ATTAT-TATTATT
1 ATTATATATTATT
34715 AT
1 AT
34717 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
11 2 0.05
12 24 0.65
13 11 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATATATTATT
Found at i:34695 original size:3 final size:3
Alignment explanation
Indices: 34678--34724 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
34668 TATATATATA
34678 TAT TA- TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34721 TAT T
1 TAT T
34725 TTTACATACC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.15
3 31 0.77
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:34871 original size:20 final size:17
Alignment explanation
Indices: 34795--34864 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
34785 TATATTTTTA
34795 ATATTTT-TATATATAT
1 ATATTTTATATATATAT
* * *
34811 ATACTTTAGT-TATTTCT
1 ATATTTTA-TATATATAT
*
34828 -TATTTGATTATATATAT
1 ATATTTTA-TATATATAT
34845 ATATTTTATATAGTATAT
1 ATATTTTATATA-TATAT
34863 AT
1 AT
34865 GCATTTTCAT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
16 12 0.30
17 14 0.35
18 14 0.35
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (17 bp):
ATATTTTATATATATAT
Found at i:35004 original size:22 final size:22
Alignment explanation
Indices: 34976--35017 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34966 TATTTTATGT
34976 TTTTTG-TCTATTTTTATTTTTA
1 TTTTTGTTC-ATTTTTATTTTTA
*
34998 TTTTTGTTCCTTTTTATTTT
1 TTTTTGTTCATTTTTATTTT
35018 CTCTACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTTGTTCATTTTTATTTTTA
Found at i:35011 original size:16 final size:17
Alignment explanation
Indices: 34992--35031 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34982 TCTATTTTTA
* *
34992 TTTTTATTTT-TGTTCC
1 TTTTTATTTTCTCTACC
35008 TTTTTATTTTCTCTACC
1 TTTTTATTTTCTCTACC
35025 TTTTTAT
1 TTTTTAT
35032 CTTCATGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.10, C:0.15, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTATTTTCTCTACC
Found at i:39264 original size:21 final size:20
Alignment explanation
Indices: 39233--39296 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
39223 ATATATAATT
39233 TATTAATGCATGCATGTATAA
1 TATT-ATGCATGCATGTATAA
**
39254 TATATATGCATATATGTATAA
1 TAT-TATGCATGCATGTATAA
** *
39275 T-TTATTAATGCATGTATGA
1 TATTATGCATGCATGTATAA
39294 TAT
1 TAT
39297 GTATATTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 18 0.53
22 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (20 bp):
TATTATGCATGCATGTATAA
Found at i:39292 original size:23 final size:23
Alignment explanation
Indices: 39219--39292 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
39209 AATGTATGAT
*
39219 ATGTATATATAATTTATTAATGC
1 ATGTATGTATAATTTATTAATGC
* *
39242 ATGCATGTATAATATA-T-ATGC
1 ATGTATGTATAATTTATTAATGC
*
39263 ATATATGTATAATTTATTAATGC
1 ATGTATGTATAATTTATTAATGC
39286 ATGTATG
1 ATGTATG
39293 ATATGTATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 17 0.40
22 2 0.05
23 23 0.55
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (23 bp):
ATGTATGTATAATTTATTAATGC
Found at i:39505 original size:14 final size:14
Alignment explanation
Indices: 39486--39516 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
39476 ATCCTAACTT
39486 TAAACCATGAACAC
1 TAAACCATGAACAC
*
39500 TAAACCATGAACCC
1 TAAACCATGAACAC
39514 TAA
1 TAA
39517 TATAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (14 bp):
TAAACCATGAACAC
Found at i:39742 original size:2 final size:2
Alignment explanation
Indices: 39681--39725 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
39671 ATAAACCATG
39681 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39724 TA
1 TA
39726 AAGTAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:40187 original size:15 final size:15
Alignment explanation
Indices: 40162--40198 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
40152 ATAAACCATG
40162 TATAGTATATATAAAC
1 TATA-TATATATAAAC
40178 TATATATATATAAAC
1 TATATATATATAAAC
40193 TATATA
1 TATATA
40199 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:40283 original size:7 final size:7
Alignment explanation
Indices: 40273--40343 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
40263 TAGTTTATAG
40273 AAACCCT
1 AAACCCT
40280 AAACCCT
1 AAACCCT
* *
40287 AAATCAT
1 AAACCCT
40294 AAACCCT
1 AAACCCT
**
40301 -AATTCT
1 AAACCCT
**
40307 AAACTTT
1 AAACCCT
*
40314 AAACCAT
1 AAACCCT
*
40321 AAACACT
1 AAACCCT
*
40328 AAACCAT
1 AAACCCT
40335 AAACCCT
1 AAACCCT
40342 AA
1 AA
40344 TTTAAATGGA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
6 4 0.08
7 44 0.92
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:40298 original size:14 final size:14
Alignment explanation
Indices: 40273--40343 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
40263 TAGTTTATAG
*
40273 AAACCCTAAACCCT
1 AAACCATAAACCCT
*
40287 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
40301 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
40314 AAACCATAAACACT
1 AAACCATAAACCCT
40328 AAACCATAAACCCT
1 AAACCATAAACCCT
40342 AA
1 AA
40344 TTTAAATGGA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
13 9 0.20
14 37 0.80
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:40318 original size:41 final size:40
Alignment explanation
Indices: 40273--40349 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
40263 TAGTTTATAG
* * *
40273 AAACCCTAAACCCTAAATCATAAACCCTAATTCTAAACTTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAACTTT
40314 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
40350 TGGACTAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.23
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAACTTT
Found at i:40733 original size:13 final size:13
Alignment explanation
Indices: 40715--40744 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
40705 CCATGTATAG
40715 TATATATAAACTA
1 TATATATAAACTA
40728 TATATATAAACTA
1 TATATATAAACTA
40741 TATA
1 TATA
40745 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:40733 original size:20 final size:21
Alignment explanation
Indices: 40684--40734 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
40674 TAAATAATTT
*
40684 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
40706 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
40726 TATATATAT
1 TATATATAT
40735 AAACTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:41221 original size:20 final size:19
Alignment explanation
Indices: 41189--41247 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 19
41179 ATTTTATATA
*
41189 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACC-T
*
41208 GTATAGTATATATAAA-CT
1 ATATAGTATATATAAACCT
41226 ATATA-TATATATAAA-CT
1 ATATAGTATATATAAACCT
41243 ATATA
1 ATATA
41248 AAGTAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 4 0.11
20 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (19 bp):
ATATAGTATATATAAACCT
Found at i:41228 original size:9 final size:9
Alignment explanation
Indices: 41216--41249 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
41206 ATGTATAGTA
41216 TATATAAAC
1 TATATAAAC
*
41225 TATATATA-
1 TATATAAAC
41233 TATATAAAC
1 TATATAAAC
41242 TATATAAA
1 TATATAAA
41250 GTAAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:41236 original size:17 final size:18
Alignment explanation
Indices: 41209--41247 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
41199 ATAAACCATG
41209 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
41227 TATA-TATATATAAACTA
1 TATAGTATATATAAACTA
41244 TATA
1 TATA
41248 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:41347 original size:14 final size:14
Alignment explanation
Indices: 41322--41392 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
41312 TAGTTTATAG
*
41322 AAACCCTAAACCCT
1 AAACCATAAACCCT
**
41336 AAATTATAAACCCT
1 AAACCATAAACCCT
** **
41350 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
41363 AAACCATAAACACT
1 AAACCATAAACCCT
41377 AAACCATAAACCCT
1 AAACCATAAACCCT
41391 AA
1 AA
41393 TTTAAATGGA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.20
14 35 0.80
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:41358 original size:13 final size:14
Alignment explanation
Indices: 41327--41359 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
41317 TATAGAAACC
41327 CTAAACCCTAAATT
1 CTAAACCCTAAATT
*
41341 ATAAACCCT-AATT
1 CTAAACCCTAAATT
41354 CTAAAC
1 CTAAAC
41360 TTTAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAAACCCTAAATT
Found at i:41367 original size:41 final size:40
Alignment explanation
Indices: 41322--41398 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
41312 TAGTTTATAG
* * **
41322 AAACCCTAAACCCTAAATTATAAACCCTAATTCTAAACTTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAACTTT
41363 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
41399 TGGACTAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 4 0.12
41 28 0.88
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAACTTT
Found at i:41732 original size:13 final size:13
Alignment explanation
Indices: 41700--41726 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41690 TAATTTACAT
41700 TTAAATAATTTTA
1 TTAAATAATTTTA
41713 TTAAATAATTTTA
1 TTAAATAATTTTA
41726 T
1 T
41727 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:41773 original size:13 final size:13
Alignment explanation
Indices: 41755--41784 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
41745 CCATGTATAG
41755 TATATATAAACTA
1 TATATATAAACTA
41768 TATATATAAACTA
1 TATATATAAACTA
41781 TATA
1 TATA
41785 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:41773 original size:20 final size:21
Alignment explanation
Indices: 41724--41774 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
41714 TAAATAATTT
*
41724 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
41746 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
41766 TATATATAT
1 TATATATAT
41775 AAACTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:41964 original size:550 final size:542
Alignment explanation
Indices: 40858--41898 Score: 1844
Period size: 550 Copynumber: 1.9 Consensus size: 542
40848 ATTTAAATAG
*
40858 ACTAATACATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGCAAACTAATGTTAA
1 ACTAATGCATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGCAAACTAATGTTAA
40923 TGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
66 TGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
*
40988 ATAAATGAGCCATTAATGTGAATTAACCTAACATGCGACTAAAATACAAATTATGCAATTTAAAT
131 ATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAAT
*
41053 TAATATGACATGTACTATTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
196 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
41118 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
261 ACCTAATTAATCATGTTTTATATAATTTACATTT--ATAA---TATTAATTTTATTAAATAATTT
41183 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATATAAACTATATA
321 TATATAATATGTATGTATAAACCATGTATAGTATATATAAAC---ATATATATATAAACTATATA
*
41248 AAGTAAATTACTTATATAGTTTATAGAAACATTATGCATAAACTATATAAAGTAATAAAATATAT
383 AAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATAT
**
41313 AGTTTATAGAAACCCTAAACCCTAAATTATAAACCCTAATTCTAAACTTTAAACCATAAACACTA
448 AGTTTATAGAAACCCTAAACCCTAAATTATAAACCCTAATTCTAAACTGGAAACCATAAACACTA
* * *
41378 AACCATAAACCCTAATTTAAATGGACTAGC
513 AACAATAAACACTAATTGAAATGGACTAGC
* *
41408 ACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAA
1 ACTAATGCATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGCAAACTAATGTTAA
41473 TGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
66 TGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
41538 ATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAAT
131 ATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAAT
41603 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
196 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
41668 ACCTAATTAATCATGTTTTATATAATTTACA-TT-TAA-A-TAATTTTATTAAATAATTTTATAT
261 ACCTAATTAATCATGTTTTATATAATTTACATTTATAATATTAATTTTATTAAATAATTTTATAT
41729 AATATGTATGTATAAACCATGTATAGTATATATAAAC-TATATATATAAACTATATAAAGTAAAT
326 AATATGTATGTATAAACCATGTATAGTATATATAAACATATATATATAAACTATATAAAGTAAAT
41793 TACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATA
391 TACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATA
**
41858 GAAACCCTAAATTCTAAATTATAAACCCTAATT-TAAA-TGGA
456 GAAACCCTAAACCCTAAATTATAAACCCTAATTCTAAACTGGA
41899 CTAGGACTAA
Statistics
Matches: 481, Mismatches: 10, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
535 2 0.00
536 4 0.01
537 122 0.25
541 61 0.13
542 1 0.00
546 3 0.01
549 2 0.00
550 286 0.59
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.37
Consensus pattern (542 bp):
ACTAATGCATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGCAAACTAATGTTAA
TGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
ATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAAT
TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
ACCTAATTAATCATGTTTTATATAATTTACATTTATAATATTAATTTTATTAAATAATTTTATAT
AATATGTATGTATAAACCATGTATAGTATATATAAACATATATATATAAACTATATAAAGTAAAT
TACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATA
GAAACCCTAAACCCTAAATTATAAACCCTAATTCTAAACTGGAAACCATAAACACTAAACAATAA
ACACTAATTGAAATGGACTAGC
Found at i:42070 original size:496 final size:501
Alignment explanation
Indices: 40326--42389 Score: 3243
Period size: 499 Copynumber: 4.0 Consensus size: 501
40316 ACCATAAACA
* *
40326 CTAAACCATAAACCCTAATTTAAATGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTG
1 CTAAATCATAAACCCTAATTTAAATGGACTAGCACTAATACATATATATTTGTAATAAAAGAGTG
* * * * *
40391 GGCTTGTATTGGGCCAATGTAAACTAATGTTAATGGACTAGCATTATTGCAAATGGACTTATTTT
66 GACTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
*
40456 TGGGTTTTATTATTACTTATTCATAACAATAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
131 TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
*
40521 ATGCAACTAAAATACAAATTATGCAATTTAAACTAATATGACATGTACTACTATTTATGAACCAT
196 ATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCAT
*
40586 ATAATATGCAATGTAACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
261 ATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
40651 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
326 TT--ATAA---TATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
40716 ATATATAAAC-TATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTAT
386 ATATATAAACATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTAT
40780 GCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATC
451 GCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATC
40831 CTAAATCATAAACCCTAATTT-AA---A-TAG-ACTAATACATATATATTTGTAATAAAAGAGTG
1 CTAAATCATAAACCCTAATTTAAATGGACTAGCACTAATACATATATATTTGTAATAAAAGAGTG
40890 GACTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
66 GACTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
40955 TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
131 TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
* *
41020 ATGCGACTAAAATACAAATTATGCAATTTAAATTAATATGACATGTACTATTATTTATGAACCAT
196 ATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCAT
41085 ATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
261 ATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
41150 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
326 TT--ATAA---TATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
*
41215 ATATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAT
386 ATATATAAAC---ATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
*
41280 TATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACC
448 TATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATC
41334 CTAAATTATAAACCCTAATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 CT-AA--AT-----C--A---TAAAC------CC-T--A-A-T------T------TAA-----A
* * *
41399 TGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAAC
25 TGGACTAGCACTAATACATATATATTTGTAATAAAAGAGTGGACTTGCATTGGGCCTATGCAAAC
41464 TAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCAT
90 TAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCAT
41529 AACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGC
155 AACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGC
41594 AATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAA
220 AATTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAA
41659 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACA-TT-TAA-A-TAATTTTATTAAATA
285 TTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTATAATATTAATTTTATTAAATA
41720 ATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAAC-TATATATATAAACTATAT
350 ATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACATATATATATAAACTATAT
41784 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATA
415 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATA
*
41849 TAGTTTATAGAAACCCTAAATT
480 TAGTTTATAGAAACCCTAAATC
* *
41871 CTAAATTATAAACCCTAATTTAAATGGACTAGGACTAATACATATATATTTGTAATAAAAGAGTG
1 CTAAATCATAAACCCTAATTTAAATGGACTAGCACTAATACATATATATTTGTAATAAAAGAGTG
*
41936 GACTTGCATTGGGCCTATGCAAACTAATGTTAATGTACTAGCACTATTGCAAATGGACTTATTTT
66 GACTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
*
42001 TGGGTTTTATTATTACTTATTTATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
131 TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
*
42066 ATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAATCAT
196 ATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCAT
*
42131 ATAATATGCAATGTGAAATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
261 ATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
42196 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
326 TT--ATAA---TATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
* *
42261 ATATATATACTATATATATATAAACTATATAAAGTGAATTACTTATATAGTTTATAGAAACACTA
386 ATATATAAAC-ATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
* * *
42326 TGCATAAATTATATAAAGTAATAAAATATATAATTTATAGAAACCCTAAACC
450 TGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATC
42378 CTAAATCATAAA
1 CTAAATCATAAA
42390 TCTTAATTCT
Statistics
Matches: 1459, Mismatches: 38, Indels: 122
0.90 0.02 0.08
Matches are distributed among these distances:
496 293 0.20
497 2 0.00
499 356 0.24
500 6 0.00
501 4 0.00
503 105 0.07
504 5 0.00
505 80 0.05
506 2 0.00
507 112 0.08
511 1 0.00
513 2 0.00
514 1 0.00
515 1 0.00
516 5 0.00
517 1 0.00
518 2 0.00
522 2 0.00
523 1 0.00
524 5 0.00
525 1 0.00
526 1 0.00
527 2 0.00
533 1 0.00
534 2 0.00
536 2 0.00
537 104 0.07
539 1 0.00
540 1 0.00
541 61 0.04
542 1 0.00
545 1 0.00
546 3 0.00
548 1 0.00
549 5 0.00
550 286 0.20
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (501 bp):
CTAAATCATAAACCCTAATTTAAATGGACTAGCACTAATACATATATATTTGTAATAAAAGAGTG
GACTTGCATTGGGCCTATGCAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
ATGCAACTAAAATACAAATTATGCAATTTAAATTAATATGACATGTACTACTATTTATGAACCAT
ATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACAT
TTATAATATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATA
TAAACATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATA
AACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAATC
Found at i:42619 original size:14 final size:14
Alignment explanation
Indices: 42600--42646 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
42590 ATTTTGTCTT
42600 TATATAAATTAAAC
1 TATATAAATTAAAC
42614 TATAT-AATT----
1 TATATAAATTAAAC
42623 TATATAAATTAAAC
1 TATATAAATTAAAC
*
42637 TATATTAATT
1 TATATAAATT
42647 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:42625 original size:23 final size:24
Alignment explanation
Indices: 42598--42647 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
42588 TTATTTTGTC
42598 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
42621 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
42645 TTT
1 TTT
42648 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:42707 original size:10 final size:11
Alignment explanation
Indices: 42684--42718 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
42674 TCTAATGTAC
42684 TTTTAAATAAT
1 TTTTAAATAAT
*
42695 TTTTAAA-ATT
1 TTTTAAATAAT
42705 TTTTAAATAAT
1 TTTTAAATAAT
42716 TTT
1 TTT
42719 ATATAATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:42947 original size:16 final size:16
Alignment explanation
Indices: 42919--42981 Score: 81
Period size: 16 Copynumber: 3.9 Consensus size: 16
42909 TCATTTACAG
* *
42919 GTCAGGTTAAAAACAT
1 GTCAGGTTGAAAACAA
* *
42935 GTCATGTTGAAAACAG
1 GTCAGGTTGAAAACAA
*
42951 GTCAGGTTAAAAACAA
1 GTCAGGTTGAAAACAA
42967 GTCAGGTTGAAAACA
1 GTCAGGTTGAAAACA
42982 GGTCGGGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (16 bp):
GTCAGGTTGAAAACAA
Found at i:42951 original size:32 final size:32
Alignment explanation
Indices: 42915--42985 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
42905 TGGATCATTT
* *
42915 ACAGGTCAGGTTAAAAACATGTCATGTTGAAA
1 ACAGGTCAGGTTAAAAACAAGTCAGGTTGAAA
42947 ACAGGTCAGGTTAAAAACAAGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAAACAAGTCAGGTTGAAA
42979 ACAGGTC
1 ACAGGTC
42986 GGGTAATACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (32 bp):
ACAGGTCAGGTTAAAAACAAGTCAGGTTGAAA
Found at i:43370 original size:73 final size:73
Alignment explanation
Indices: 43251--43410 Score: 302
Period size: 73 Copynumber: 2.2 Consensus size: 73
43241 TTACAGATCG
*
43251 GGACATACCAAGAACGAAGTTTCATCATCATCTCTCTACACTAATTATGAAGTCAAGTCAACCGT
1 GGACATACCAAGAACGAAGTTTCATCATCATCTCTCTACACTAATTAAGAAGTCAAGTCAACCGT
43316 AGCCTGTA
66 AGCCTGTA
*
43324 GGACATACCAAGAAGGAAGTTTCATCATCATCTCTCTACACTAATTAAGAAGTCAAGTCAACCGT
1 GGACATACCAAGAACGAAGTTTCATCATCATCTCTCTACACTAATTAAGAAGTCAAGTCAACCGT
43389 AGCCTGTA
66 AGCCTGTA
43397 GGACATACCAAGAA
1 GGACATACCAAGAA
43411 AAGTCTTCAA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (73 bp):
GGACATACCAAGAACGAAGTTTCATCATCATCTCTCTACACTAATTAAGAAGTCAAGTCAACCGT
AGCCTGTA
Found at i:57032 original size:21 final size:22
Alignment explanation
Indices: 57006--57069 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
56996 ATTTAACAAT
57006 TTGGATATTGGAATTTAGGG-C
1 TTGGATATTGGAATTTAGGGAC
* *
57027 TTGGAT-TTATGAATTTTGGGAC
1 TTGGATATT-GGAATTTAGGGAC
** *
57049 TCAGATATTGGGATTTAGGGA
1 TTGGATATTGGAATTTAGGGA
57070 TTTGCTACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.06
21 15 0.45
22 14 0.42
23 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.31, T:0.39
Consensus pattern (22 bp):
TTGGATATTGGAATTTAGGGAC
Found at i:60157 original size:3 final size:3
Alignment explanation
Indices: 60151--60178 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60141 TTATTGTTGC
60151 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
60179 TTACTCCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:60453 original size:122 final size:121
Alignment explanation
Indices: 60109--60442 Score: 509
Period size: 116 Copynumber: 2.8 Consensus size: 121
60099 GGTTAGTTTA
* *
60109 ATTTTCAGGTGGATGTTTCTCTAAG-TGTGTTGTTATTGTTGCTATTATTATTATTATTATTATT
1 ATTTTCACGTGGAAGTTTCTCTAAGAT-TGTTGTTATTGTTGC---TATTATTA-TATTATTATT
60173 ATTATTTTACTCCATGATGTTTTCTGTAAAACCAATTGTAAACAAGGATGGTTTCATTTTC
61 ATTATTTTACTCCATGATGTTTTCTGTAAAACCAATTGTAAACAAGGATGGTTTCATTTTC
* * *
60234 A-TTTCACGTGGAAGTTTCTCTAAAATTGTTTTTATTGTT--TCTTA-T-TATTATTATTATTAT
1 ATTTTCACGTGGAAGTTTCTCTAAGATTGTTGTTATTGTTGCTATTATTATATTATTATTATTAT
60294 TTTACTCCATGATGTTTTCTGTAAAACCAATTGTAAACAAGGATGGTTTCATTTTC
66 TTTACTCCATGATGTTTTCTGTAAAACCAATTGTAAACAAGGATGGTTTCATTTTC
60350 ATTTTCACGTGGAAGTTTCTCTAAGATTGTTGTTATTGTTGCTATTATTAGTATTATTATTATTA
1 ATTTTCACGTGGAAGTTTCTCTAAGATTGTTGTTATTGTTGCTATTATTA-TATTATTATTATTA
* *
60415 TTTTACTACATGACGTTTTCTGTAAAAC
65 TTTTACTCCATGATGTTTTCTGTAAAAC
60443 TGCTTGTAAA
Statistics
Matches: 192, Mismatches: 10, Indels: 17
0.88 0.05 0.08
Matches are distributed among these distances:
116 72 0.38
117 36 0.19
118 1 0.01
119 8 0.04
120 1 0.01
122 40 0.21
124 32 0.17
125 2 0.01
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (121 bp):
ATTTTCACGTGGAAGTTTCTCTAAGATTGTTGTTATTGTTGCTATTATTATATTATTATTATTAT
TTTACTCCATGATGTTTTCTGTAAAACCAATTGTAAACAAGGATGGTTTCATTTTC
Found at i:64488 original size:39 final size:41
Alignment explanation
Indices: 64422--64542 Score: 158
Period size: 39 Copynumber: 2.9 Consensus size: 41
64412 ATCCAGTATT
64422 GTTTCCTGTGTGACCCCATGATTGTCCAACGCCACATCCAG-
1 GTTTCCTGTGTGA-CCCATGATTGTCCAACGCCACATCCAGC
64463 G-TTCCTGTGTGACCCATGATTGTCCAACGCCACATCCAGCAC
1 GTTTCCTGTGTGACCCATGATTGTCCAACGCCACATCCAG--C
*
64505 TGTTTCCTG-GCTGACTCCCTGATTGTCCAACGCCACAT
1 -GTTTCCTGTG-TGAC-CCATGATTGTCCAACGCCACAT
64543 GCAGTATTGT
Statistics
Matches: 72, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
39 27 0.38
40 11 0.15
41 1 0.01
43 2 0.03
44 10 0.14
45 21 0.29
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.27
Consensus pattern (41 bp):
GTTTCCTGTGTGACCCATGATTGTCCAACGCCACATCCAGC
Found at i:64495 original size:84 final size:82
Alignment explanation
Indices: 64401--64659 Score: 264
Period size: 78 Copynumber: 3.1 Consensus size: 82
64391 CTGACCCAGT
*
64401 TCCAAAGCCACATCCAGTATTGTTTCCTGTG-TGACCCCATGATTGTCCAACGCCACATCCAGGT
1 TCCAACGCCACATCCAGTATTGTTTCCTG-GCTGACCCC-TGATTGTCCAACGCCACATCCAGGT
64465 TCCTGTGTGACCCATGATTG
64 TCCTGTGTGACCC-TGATTG
* * *
64485 TCCAACGCCACATCCAGCACTGTTTCCTGGCTGACTCCCTGATTGTCCAACGCCACATGCA-GTA
1 TCCAACGCCACATCCAGTATTGTTTCCTGGCTGAC-CCCTGATTGTCCAACGCCACATCCAGGT-
*
64549 T--TGT-T--TCCTGATTG
64 TCCTGTGTGACCCTGATTG
* * * * *
64563 TCCAACACCACATCCAGTATTGTTTCTTGGCTGACCCCCTGATTGTCCAACACTACATCCATTGT
1 TCCAACGCCACATCCAGTATTGTTTCCTGGCTGA-CCCCTGATTGTCCAACGCCACATCCA--GG
64628 TTCCTG-GCTGACCCCCTGATTG
63 TTCCTGTG-TGA--CCCTGATTG
*
64650 TCCAATGCCA
1 TCCAACGCCA
64660 ATTCCAATAC
Statistics
Matches: 144, Mismatches: 16, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
78 58 0.40
79 3 0.02
80 1 0.01
81 2 0.01
82 5 0.03
83 4 0.03
84 52 0.36
85 3 0.02
87 16 0.11
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.29
Consensus pattern (82 bp):
TCCAACGCCACATCCAGTATTGTTTCCTGGCTGACCCCTGATTGTCCAACGCCACATCCAGGTTC
CTGTGTGACCCTGATTG
Found at i:64529 original size:45 final size:43
Alignment explanation
Indices: 64401--64659 Score: 203
Period size: 45 Copynumber: 6.2 Consensus size: 43
64391 CTGACCCAGT
* *
64401 TCCAAAGCCACATCCAGTATTGTTTCCTGTGTGACCCCATGATTG
1 TCCAACGCCACATCCAGCATTGTTTCCTG-GTGACCCC-TGATTG
*
64446 TCCAACGCCACATCCAG----G-TTCCTGTGTGACCCATGATTG
1 TCCAACGCCACATCCAGCATTGTTTCCTG-GTGACCCCTGATTG
*
64485 TCCAACGCCACATCCAGCACTGTTTCCTGGCTGACTCCCTGATTG
1 TCCAACGCCACATCCAGCATTGTTTCCTGG-TGAC-CCCTGATTG
* *
64530 TCCAACGCCACATGCAGTATTG--T--T--T----CCTGATTG
1 TCCAACGCCACATCCAGCATTGTTTCCTGGTGACCCCTGATTG
* * *
64563 TCCAACACCACATCCAGTATTGTTTCTTGGCTGACCCCCTGATTG
1 TCCAACGCCACATCCAGCATTGTTTCCTGG-TGA-CCCCTGATTG
* *
64608 TCCAACACTACAT-C--CATTGTTTCCTGGCTGACCCCCTGATTG
1 TCCAACGCCACATCCAGCATTGTTTCCTGG-TGA-CCCCTGATTG
*
64650 TCCAATGCCA
1 TCCAACGCCA
64660 ATTCCAATAC
Statistics
Matches: 181, Mismatches: 14, Indels: 41
0.77 0.06 0.17
Matches are distributed among these distances:
33 28 0.15
35 1 0.01
37 1 0.01
38 1 0.01
39 23 0.13
40 15 0.08
41 2 0.01
42 33 0.18
43 3 0.02
44 11 0.06
45 63 0.35
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.29
Consensus pattern (43 bp):
TCCAACGCCACATCCAGCATTGTTTCCTGGTGACCCCTGATTG
Found at i:64564 original size:33 final size:33
Alignment explanation
Indices: 64522--64588 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
64512 TGGCTGACTC
* *
64522 CCTGATTGTCCAACGCCACATGCAGTATTGTTT
1 CCTGATTGTCCAACACCACATCCAGTATTGTTT
64555 CCTGATTGTCCAACACCACATCCAGTATTGTTT
1 CCTGATTGTCCAACACCACATCCAGTATTGTTT
64588 C
1 C
64589 TTGGCTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTGATTGTCCAACACCACATCCAGTATTGTTT
Found at i:64640 original size:42 final size:43
Alignment explanation
Indices: 64555--64654 Score: 157
Period size: 42 Copynumber: 2.3 Consensus size: 43
64545 AGTATTGTTT
*
64555 CCTGATTGTCCAACACCACATCCAGTATTGTTTCTTGGCTGACCC
1 CCTGATTGTCCAACACCACATCCA--ATTGTTTCCTGGCTGACCC
*
64600 CCTGATTGTCCAACACTACATCC-ATTGTTTCCTGGCTGACCC
1 CCTGATTGTCCAACACCACATCCAATTGTTTCCTGGCTGACCC
64642 CCTGATTGTCCAA
1 CCTGATTGTCCAA
64655 TGCCAATTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
42 31 0.58
45 22 0.42
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (43 bp):
CCTGATTGTCCAACACCACATCCAATTGTTTCCTGGCTGACCC
Found at i:67050 original size:34 final size:34
Alignment explanation
Indices: 67007--67075 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
66997 CGAAATCACG
67007 GTAAATGAAGCTTTTATATGAAGTTCATGATACA
1 GTAAATGAAGCTTTTATATGAAGTTCATGATACA
67041 GTAAATGAAGCTTTTATATGAAGTTCATGATACA
1 GTAAATGAAGCTTTTATATGAAGTTCATGATACA
67075 G
1 G
67076 AATCAACTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.35
Consensus pattern (34 bp):
GTAAATGAAGCTTTTATATGAAGTTCATGATACA
Found at i:67240 original size:33 final size:33
Alignment explanation
Indices: 67198--67261 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
67188 AAATCACGGT
67198 AATGAAGCTTTATATGAAGTTCATGATACAGTA
1 AATGAAGCTTTATATGAAGTTCATGATACAGTA
67231 AATGAAGCTTTATATGAAGTTCATGATACAG
1 AATGAAGCTTTATATGAAGTTCATGATACAG
67262 AATCACTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (33 bp):
AATGAAGCTTTATATGAAGTTCATGATACAGTA
Found at i:75735 original size:30 final size:30
Alignment explanation
Indices: 75699--75769 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
75689 TAATAAAACC
* *
75699 TTTCAATTTCACTTATGTAGCTTTGTCCCA
1 TTTCAATTTCACGTATGTAACTTTGTCCCA
75729 TTTCAATTTCACGTATGTAACTTTGTCCCA
1 TTTCAATTTCACGTATGTAACTTTGTCCCA
75759 TTTCAATTTCA
1 TTTCAATTTCA
75770 ATCATAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (30 bp):
TTTCAATTTCACGTATGTAACTTTGTCCCA
Found at i:76092 original size:27 final size:26
Alignment explanation
Indices: 76061--76143 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 26
76051 CTCTCTCTAA
*
76061 CTTCTTCTTTTTCTTTTCTTTCCTCT
1 CTTCTTCTTTTTCTTTTCTTTCCTCC
76087 CTT-TCTCTTTTCTCTTCTTCCTTTTCCTCC
1 CTTCT-TCTTTT-TCTT-TT-C-TTTCCTCC
* *
76117 CTTCTTCTCTATCCTTTTCTTTCCTCC
1 CTTCTTCT-TTTTCTTTTCTTTCCTCC
76144 TCCTTTTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
25 1 0.02
26 9 0.19
27 12 0.26
28 3 0.06
29 3 0.06
30 16 0.34
31 3 0.06
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.61
Consensus pattern (26 bp):
CTTCTTCTTTTTCTTTTCTTTCCTCC
Found at i:76095 original size:20 final size:20
Alignment explanation
Indices: 76066--76190 Score: 72
Period size: 20 Copynumber: 6.5 Consensus size: 20
76056 TCTAACTTCT
*
76066 TCTTTTTCTTTTCTTTCCTC
1 TCTTTCTCTTTTCTTTCCTC
*
76086 TCTTTCTCTTTTCTCTTCTTC
1 TCTTTCTCTTTTCT-TTCCTC
* * * *
76107 -CTTT-TC-CTCCCTTCTTC
1 TCTTTCTCTTTTCTTTCCTC
*
76124 TCTATC-CTTTTCTTTCCTC
1 TCTTTCTCTTTTCTTTCCTC
76143 -C--TC-CTTTTCTTTCCTTC
1 TCTTTCTCTTTTCTTTCC-TC
76160 TCCTTTC-CTTTTC-TTCTCTC
1 T-CTTTCTCTTTTCTTTC-CTC
76180 TCTCTTCTCTT
1 TCT-TTCTCTT
76191 CCTCTTTTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
16 13 0.16
17 8 0.10
18 7 0.08
19 12 0.14
20 26 0.31
21 17 0.20
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCTTTCTCTTTTCTTTCCTC
Found at i:76101 original size:15 final size:14
Alignment explanation
Indices: 76072--76157 Score: 54
Period size: 16 Copynumber: 5.9 Consensus size: 14
76062 TTCTTCTTTT
76072 TCTTTTCTTTCCTC
1 TCTTTTCTTTCCTC
76086 TCTTTCTCTTT--TC
1 TCTTT-TCTTTCCTC
76099 TCTTCTTCCTTTTCCTC
1 TCTT-TT-C-TTTCCTC
* * *
76116 CCTTCTTCTCT-ATC
1 TCTT-TTCTTTCCTC
76130 -CTTTTCTTTCCTCC
1 TCTTTTCTTTCCT-C
76144 TCCTTTTCTTTCCT
1 T-CTTTTCTTTCCT
76158 TCTCCTTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
12 5 0.09
13 11 0.19
14 10 0.18
15 10 0.18
16 13 0.23
17 8 0.14
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.60
Consensus pattern (14 bp):
TCTTTTCTTTCCTC
Found at i:76165 original size:27 final size:26
Alignment explanation
Indices: 76078--76168 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 26
76068 TTTTTCTTTT
76078 CTTTCCT-CTCTTTCTCTTTTCTCTTCTTC
1 CTTTCCTCCTCTTT-TC-TTTC-CTTC-TC
*
76107 CTTTTCCTCC-CTTCTTCTCTATCCTT-TT
1 C-TTTCCTCCTCTT-TTCT-T-TCCTTCTC
76135 CTTTCCTCCTCCTTTTCTTTCCTTCTC
1 CTTTCCTCCT-CTTTTCTTTCCTTCTC
76162 CTTTCCT
1 CTTTCCT
76169 TTTCTTCTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
26 5 0.10
27 17 0.33
28 6 0.12
29 5 0.10
30 15 0.29
31 4 0.08
ACGTcount: A:0.01, C:0.41, G:0.00, T:0.58
Consensus pattern (26 bp):
CTTTCCTCCTCTTTTCTTTCCTTCTC
Found at i:76175 original size:16 final size:16
Alignment explanation
Indices: 76128--76177 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
76118 TTCTTCTCTA
*
76128 TCCTTTTCTTTCCTCC
1 TCCTTTTCTTTCCTTC
76144 TCCTTTTCTTTCCTTC
1 TCCTTTTCTTTCCTTC
* *
76160 TCCTTTCCTTTTCTTC
1 TCCTTTTCTTTCCTTC
76176 TC
1 TC
76178 TCTCTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (16 bp):
TCCTTTTCTTTCCTTC
Found at i:81577 original size:15 final size:15
Alignment explanation
Indices: 81565--81636 Score: 72
Period size: 15 Copynumber: 4.4 Consensus size: 15
81555 AAAAAAAACT
81565 AAAAAAATGAAAATG
1 AAAAAAATGAAAATG
*
81580 AAAAAAATGAAAGTG
1 AAAAAAATGAAAATG
*
81595 AAAATGAATGGAAAAAATG
1 AAAA-AAAT-G--AAAATG
81614 AATAAAAAATGAAAATG
1 -A-AAAAAATGAAAATG
81631 AAAAAA
1 AAAAAA
81637 GAAAAGAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
15 23 0.49
16 4 0.09
17 7 0.15
19 6 0.13
20 4 0.09
21 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.14
Consensus pattern (15 bp):
AAAAAAATGAAAATG
Found at i:81583 original size:13 final size:13
Alignment explanation
Indices: 81567--81651 Score: 56
Period size: 13 Copynumber: 6.6 Consensus size: 13
81557 AAAAAACTAA
81567 AAAAATGAAAATG
1 AAAAATGAAAATG
*
81580 AAAAAAATGAAAGTG
1 --AAAAATGAAAATG
81595 -AAAATG--AATGG
1 AAAAATGAAAAT-G
*
81606 AAAAAATG--AATA
1 -AAAAATGAAAATG
81618 AAAAATGAAAATG
1 AAAAATGAAAATG
*
81631 AAAAAAGAAAA-G
1 AAAAATGAAAATG
81643 AAAATATGA
1 AAAA-ATGA
81652 GAGATGCTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
10 2 0.03
11 8 0.14
12 11 0.19
13 25 0.43
15 12 0.21
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:81633 original size:25 final size:24
Alignment explanation
Indices: 81565--81647 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 24
81555 AAAAAAAACT
81565 AAAAAAATGAAAATGAAAAAAATGA
1 AAAAAAATGAAAATG-AAAAAATGA
*
81590 AAGTGAAAATG--AATGGAAAAAATGA
1 AA--AAAAATGAAAAT-GAAAAAATGA
81615 ATAAAAAATGAAAATGAAAAAA-GA
1 A-AAAAAATGAAAATGAAAAAATGA
81639 AAAGAAAAT
1 AAA-AAAAT
81648 ATGAGAGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
23 2 0.04
24 14 0.29
25 22 0.45
26 5 0.10
27 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (24 bp):
AAAAAAATGAAAATGAAAAAATGA
Found at i:82681 original size:30 final size:29
Alignment explanation
Indices: 82646--82703 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
82636 GATTTATTTA
*
82646 GTGACCAAATTATAAA-TTTGATAAAGTTTG
1 GTGACCAAAGTATAAACTTT-A-AAAGTTTG
82676 GTGACCAAAGTATAAACTTTAAAAGTTT
1 GTGACCAAAGTATAAACTTTAAAAGTTT
82704 AGGGACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 16 0.62
31 3 0.12
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (29 bp):
GTGACCAAAGTATAAACTTTAAAAGTTTG
Found at i:83722 original size:31 final size:31
Alignment explanation
Indices: 83652--83725 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
83642 TTTTAAAAGC
* * * *
83652 TTTGGAAAAA-TTTAGGGACTATTTTGTATT
1 TTTGGAAAAAGTTGAGGGACCAATTTGTAAT
*
83682 TTTTG-AAAAGTTGAGGGACCAATTTGTAAT
1 TTTGGAAAAAGTTGAGGGACCAATTTGTAAT
83712 TTTGGAAAAAGTTG
1 TTTGGAAAAAGTTG
83726 GGAATTGTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 4 0.11
30 24 0.67
31 8 0.22
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (31 bp):
TTTGGAAAAAGTTGAGGGACCAATTTGTAAT
Found at i:83963 original size:18 final size:18
Alignment explanation
Indices: 83929--83964 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83919 ATTCCATTAC
*
83929 TGGAATTTCTTGAATTTA
1 TGGAATTTCTGGAATTTA
*
83947 TGGAATTTCTGGTATTTA
1 TGGAATTTCTGGAATTTA
83965 AAATTTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (18 bp):
TGGAATTTCTGGAATTTA
Found at i:85133 original size:36 final size:36
Alignment explanation
Indices: 85078--85165 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
85068 TTTAAGGAGT
* *
85078 GGTCATTCGGGACAGATGACATCCTTAGGGATGATA
1 GGTCATTCGGGACATATGACATCCTGAGGGATGATA
* * *
85114 GGTCCTTCGGGACATATGACATTCTGCGGGATGATA
1 GGTCATTCGGGACATATGACATCCTGAGGGATGATA
85150 GGTCATTCGGGACATA
1 GGTCATTCGGGACATA
85166 CATGGGGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (36 bp):
GGTCATTCGGGACATATGACATCCTGAGGGATGATA
Found at i:85231 original size:42 final size:42
Alignment explanation
Indices: 85161--85253 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
85151 GTCATTCGGG
* * *
85161 ACATACATGGGGTCCTTCAAGATATATATGTAATCCTTTGGA
1 ACATATATGCGGTCCTTCAAGACATATATGTAATCCTTTGGA
* * * **
85203 ACATATATGCGGTTCTTCGAGACATATATTTGGTCCTTTGGA
1 ACATATATGCGGTCCTTCAAGACATATATGTAATCCTTTGGA
85245 ACATATATG
1 ACATATATG
85254 TGATTCTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (42 bp):
ACATATATGCGGTCCTTCAAGACATATATGTAATCCTTTGGA
Found at i:85248 original size:21 final size:21
Alignment explanation
Indices: 85194--85253 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
85184 ATATATGTAA
85194 TCCTTTGGAACATATATGCGG
1 TCCTTTGGAACATATATGCGG
* * **
85215 TTC-TTCGAGACATATATTTGG
1 TCCTTTGGA-ACATATATGCGG
85236 TCCTTTGGAACATATATG
1 TCCTTTGGAACATATATG
85254 TGATTCTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (21 bp):
TCCTTTGGAACATATATGCGG
Found at i:98435 original size:23 final size:23
Alignment explanation
Indices: 98409--98487 Score: 124
Period size: 23 Copynumber: 3.4 Consensus size: 23
98399 TTTTTAATAA
* *
98409 CTCTGTCTTTATGACACG-TTTT
1 CTCTGTCTTTATGGCATGATTTT
98431 CCTCTGTCTTTATGGCATGATTTT
1 -CTCTGTCTTTATGGCATGATTTT
98455 CTCTGTCTTTATGGCATGATTTT
1 CTCTGTCTTTATGGCATGATTTT
98478 CTCTGTCTTT
1 CTCTGTCTTT
98488 GGCACATTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
23 49 0.92
24 4 0.08
ACGTcount: A:0.11, C:0.22, G:0.15, T:0.52
Consensus pattern (23 bp):
CTCTGTCTTTATGGCATGATTTT
Found at i:99090 original size:15 final size:13
Alignment explanation
Indices: 99055--99092 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
99045 ATCATCGACC
99055 TTAATTTTTT-AA
1 TTAATTTTTTAAA
99067 TTAATTTTTTAAA
1 TTAATTTTTTAAA
99080 TATACATTTTTTA
1 T-TA-ATTTTTTA
99093 TGAAAGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 3 0.13
14 2 0.09
15 8 0.35
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTAATTTTTTAAA
Found at i:99476 original size:15 final size:15
Alignment explanation
Indices: 99456--99572 Score: 112
Period size: 15 Copynumber: 7.5 Consensus size: 15
99446 TAATAAGGTT
99456 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
99471 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
99486 A-TTATTATAAAATA
1 ATTTATTTTAAAATA
*
99500 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
99515 AATTATTATAAAATATGAA
1 ATTTATT-TTAAA-AT--A
*
99534 TTGATTTATTTTTAAATA
1 ---ATTTATTTTAAAATA
99552 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
99566 ATTTATT
1 ATTTATT
99573 AGTATAGATT
Statistics
Matches: 88, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
14 25 0.28
15 44 0.50
16 4 0.05
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 3 0.03
22 6 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:99497 original size:29 final size:30
Alignment explanation
Indices: 99458--99529 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 30
99448 ATAAGGTTAT
* *
99458 TTATTTTAAAATAATTTATTTTAAAAT-AA
1 TTATTATAAAATAAATTATTTTAAAATAAA
99487 TTATTATAAAATAAATTATTTTAAAATAAA
1 TTATTATAAAATAAATTATTTTAAAATAAA
99517 TTATTATAAAATA
1 TTATTATAAAATA
99530 TGAATTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTATTATAAAATAAATTATTTTAAAATAAA
Found at i:99562 original size:14 final size:14
Alignment explanation
Indices: 99537--99572 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
99527 ATATGAATTG
99537 ATTTATTTTTAAATA
1 ATTTA-TTTTAAATA
99552 ATTTATTTTAAATA
1 ATTTATTTTAAATA
99566 ATTTATT
1 ATTTATT
99573 AGTATAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:99595 original size:32 final size:32
Alignment explanation
Indices: 99552--100181 Score: 352
Period size: 32 Copynumber: 22.4 Consensus size: 32
99542 TTTTTAAATA
99552 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
99584 ATTTGTTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
99606 ATTTATTTTAAATAATTTATTATTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
99638 ATTTATTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
99660 ATTTATTTTAAAT-ATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
* *
99691 ATTTATTTTAAAATAATTTATT--T-TA-AATA
1 ATTTATTTT-AAATAATTTATTAGTATAGATTG
* * * *
99720 ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-TA-AATAATTTA--TT--AGTATAGATTG
*
99760 ATTTATTTTAAATAATTTATTAGTATTGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
99792 ATTTA-TTT---TAA---A--A-TATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
99814 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
99846 ATTTATTTT-AA-AA--TA-T-G----GATTA
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
99868 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
99900 ATTTA-TTT---TAA---A--A-TATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
99922 ATTTATTTTAAATAATTTATTAGTATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
99954 ATTTATTTT--A-AA---A-TA-TAT--ATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
99976 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
100008 ATTTATTTT--A-AA---A-TA-TAT--ATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
100030 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
100062 ATTTATTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
100084 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
*
100116 ATTTATTTT-AA-AA--TA-T-G----GAATG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
* *
100138 ATTTATTTTAAATAATTTATTGGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTG
100170 ATTTATTTTAAA
1 ATTTATTTTAAA
100182 ATATGGATTG
Statistics
Matches: 472, Mismatches: 22, Indels: 208
0.67 0.03 0.30
Matches are distributed among these distances:
22 119 0.25
23 19 0.04
24 16 0.03
25 12 0.03
26 21 0.04
27 10 0.02
28 21 0.04
29 19 0.04
30 20 0.04
31 35 0.07
32 148 0.31
33 7 0.01
34 4 0.01
36 7 0.01
37 2 0.00
38 2 0.00
39 1 0.00
40 9 0.02
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTG
Found at i:99617 original size:54 final size:54
Alignment explanation
Indices: 99552--100198 Score: 1076
Period size: 54 Copynumber: 12.1 Consensus size: 54
99542 TTTTTAAATA
*
99552 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTGTTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
99606 ATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
99660 ATTTATTTTAAAT-ATTTATTAGTATAGATTGATTTATTTT-AAA-AT--A---
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
99706 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
99760 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
99814 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
99868 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* **
99922 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATATATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* **
99976 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
100030 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
100084 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAATG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
100138 ATTTATTTTAAATAATTTATTGGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
100192 ATTTATT
1 ATTTATT
100199 ATTGTAGTTG
Statistics
Matches: 566, Mismatches: 19, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 13 0.02
47 27 0.05
48 3 0.01
49 3 0.01
51 3 0.01
52 3 0.01
53 26 0.05
54 488 0.86
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
Found at i:99625 original size:14 final size:15
Alignment explanation
Indices: 99606--99749 Score: 62
Period size: 18 Copynumber: 8.8 Consensus size: 15
99596 ATATGGATTG
99606 ATTTATTTTAAA-TA
1 ATTTATTTTAAATTA
*
99620 ATTTATTATTATAGATTG
1 ATTTATT-TTA-A-ATTA
99638 ATTTATTTTAAAATATGGA
1 ATTTATTTT-AAAT-T--A
99657 TTGATTTATTTTAAA-T-
1 ---ATTTATTTTAAATTA
* *
99673 ATTTATTAGTATAGATTG
1 ATTTATT--T-TAAATTA
*
99691 ATTTATTTTAAAATA
1 ATTTATTTTAAATTA
99706 ATTTATTTTAAA-TA
1 ATTTATTTTAAATTA
* *
99720 ATTTATTAGTATAGATTG
1 ATTTATT--T-TAAATTA
99738 ATTTATTTTAAA
1 ATTTATTTTAAA
99750 ATATGGATTG
Statistics
Matches: 101, Mismatches: 9, Indels: 39
0.68 0.06 0.26
Matches are distributed among these distances:
13 7 0.07
14 16 0.16
15 23 0.23
16 9 0.09
17 9 0.09
18 24 0.24
19 1 0.01
21 3 0.03
22 9 0.09
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (15 bp):
ATTTATTTTAAATTA
Found at i:99645 original size:22 final size:22
Alignment explanation
Indices: 99629--100095 Score: 97
Period size: 22 Copynumber: 18.0 Consensus size: 22
99619 AATTTATTAT
99629 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
99651 TATGGATTGATTTATTTTAAATA
1 TATAGATTGATTTATTTTAAA-A
*
99674 TTTATTAGTATAGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA----TTTATTTTAAAA
** * ** * * *
99704 TAATTTATTTTAAATAATTTATTAG
1 T-ATAGA-TTGATTTATTTTA-AAA
99729 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
99751 TATGGATTGATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
99775 TTTATTAGTATTGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
99805 TATAGATTGATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
99829 TTTATTAGTATAGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
* *
99859 TATGGATTAATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
99883 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
99913 TATAGATTGATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
99937 TTTATTAGTATCGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
*
99967 TATATATTGATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
99991 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
*
100021 TATATATTGATTTATTTTAAATAA
1 TATAGATTGATTTATTTT-AA-AA
*
100045 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-TAG-ATTGA-T---TTATTTTAAAA
*
100075 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
100096 TAATTTATTA
Statistics
Matches: 332, Mismatches: 41, Indels: 144
0.64 0.08 0.28
Matches are distributed among these distances:
22 83 0.25
23 22 0.07
24 21 0.06
25 10 0.03
26 38 0.11
27 33 0.10
28 40 0.12
29 7 0.02
30 13 0.04
31 23 0.07
32 42 0.13
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:99711 original size:15 final size:14
Alignment explanation
Indices: 99660--99726 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 14
99650 ATATGGATTG
99660 ATTTATTTTAAAT-
1 ATTTATTTTAAATA
* *
99673 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
99691 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
99706 ATTTATTTTAAATA
1 ATTTATTTTAAATA
99720 ATTTATT
1 ATTTATT
99727 AGTATAGATT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 7 0.16
14 12 0.27
15 13 0.29
16 4 0.09
17 2 0.04
18 7 0.16
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:100132 original size:22 final size:22
Alignment explanation
Indices: 100107--100149 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
100097 AATTTATTAG
*
100107 TATGGATTGATTTATTTTAAAA
1 TATGGAATGATTTATTTTAAAA
100129 TATGGAATGATTTATTTTAAA
1 TATGGAATGATTTATTTTAAA
100150 TAATTTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGAATGATTTATTTTAAAA
Found at i:110697 original size:23 final size:23
Alignment explanation
Indices: 110671--110794 Score: 115
Period size: 23 Copynumber: 5.4 Consensus size: 23
110661 TTTTAGCATG
* * *
110671 TAAATGAACATGTTTACGAATGT
1 TAAATGAACATGCTCACGAACGT
* * * *
110694 TAAACGAACAT-ATAAGCGGACGT
1 TAAATGAACATGCTCA-CGAACGT
* *
110717 TAAATGAACATGCTCGCGTACGT
1 TAAATGAACATGCTCACGAACGT
*
110740 TAAATGAACATGCTCACGTACGT
1 TAAATGAACATGCTCACGAACGT
* * *
110763 TAAATGAACATGTTCATGAATGT
1 TAAATGAACATGCTCACGAACGT
110786 TAAATGAAC
1 TAAATGAAC
110795 GAACACGAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
22 2 0.02
23 81 0.96
24 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (23 bp):
TAAATGAACATGCTCACGAACGT
Found at i:110724 original size:46 final size:46
Alignment explanation
Indices: 110671--110794 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
110661 TTTTAGCATG
* *
110671 TAAATGAACATGTTTACGAATGTTAAACGAACAT-ATAAGCGGACGT
1 TAAATGAACATGTTCACGAATGTTAAATGAACATGATAA-CGGACGT
* * * * * * *
110717 TAAATGAACATGCTCGCGTACGTTAAATGAACATGCTCACGTACGT
1 TAAATGAACATGTTCACGAATGTTAAATGAACATGATAACGGACGT
*
110763 TAAATGAACATGTTCATGAATGTTAAATGAAC
1 TAAATGAACATGTTCACGAATGTTAAATGAAC
110795 GAACACGAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
46 61 0.97
47 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (46 bp):
TAAATGAACATGTTCACGAATGTTAAATGAACATGATAACGGACGT
Found at i:112003 original size:19 final size:17
Alignment explanation
Indices: 111954--112007 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
111944 ATTCTAATCC
*
111954 TAAACAAATAAAATTTTA
1 TAAA-AAATATAATTTTA
111972 TAAAATAATTATAATTTGTAA
1 TAAAA-AA-TATAATTT-T-A
111993 TAAAAAATATAATTT
1 TAAAAAATATAATTT
112008 AATTATATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.03
18 6 0.19
19 15 0.48
20 3 0.10
21 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAAAAATATAATTTTA
Found at i:115411 original size:59 final size:59
Alignment explanation
Indices: 115260--115444 Score: 255
Period size: 59 Copynumber: 3.1 Consensus size: 59
115250 CATATGTCAT
*
115260 CAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATTCC
1 CAAACTATGACTCTCATTTTAAATTAGTCCTT-AACTTTTGAATATTCCAATTTCATTCC
* * * * *
115320 CAAACTATGATTCTAATTATAAATTAGCCCTTAACTTTTGAACATTCCAATTTCA-TCC
1 CAAACTATGACTCTCATTTTAAATTAGTCCTTAACTTTTGAATATTCCAATTTCATTCC
* * * *
115378 CAAACTATGACCCTCATTTTAAATTGGTTCCTTAACTTTTGAATTTTCCAAATTCATTCC
1 CAAACTATGACTCTCATTTTAAATTAG-TCCTTAACTTTTGAATATTCCAATTTCATTCC
115438 CAAACTA
1 CAAACTA
115445 ATCCAAATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
58 25 0.23
59 45 0.42
60 38 0.35
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.40
Consensus pattern (59 bp):
CAAACTATGACTCTCATTTTAAATTAGTCCTTAACTTTTGAATATTCCAATTTCATTCC
Found at i:115689 original size:60 final size:60
Alignment explanation
Indices: 115564--115733 Score: 156
Period size: 60 Copynumber: 2.8 Consensus size: 60
115554 GTATATACAT
* * *
115564 ATAGTTTGGGATGAAATTGAAATTTTCAAAAAGTTTGAGGACTAATTTATGATGAAGGTC
1 ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGATTGAGGACTAATTTATGAGGAAGGTC
*
115624 ATAGTTTGGGGAT-AGAATTGAAATGTTC-AAAAGATTGAGGAGTAATTTA-GAAGGATA-GTC
1 ATAGTTT-GGGATGA-AATTGAAATGTTCAAAAAGATTGAGGACTAATTTATG-AGGA-AGGTC
* * * *
115684 TTAGTTTAAGGATGAAATT-AGAATGTT-TAAAAG-TTTAGGGACTAATTTAT
1 ATAGTTT-GGGATGAAATTGA-AATGTTCAAAAAGATTGA-GGACTAATTTAT
115734 AATGAAAATC
Statistics
Matches: 92, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
59 5 0.05
60 68 0.74
61 19 0.21
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.35
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGATTGAGGACTAATTTATGAGGAAGGTC
Found at i:123316 original size:4 final size:4
Alignment explanation
Indices: 123307--123342 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
123297 TTATGCTTCT
*
123307 TTTC TTTC TTTC TTTC TTTC TTTC CTTC TTTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTT
123343 TATCTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:127984 original size:27 final size:26
Alignment explanation
Indices: 127920--127972 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
127910 TTAATTGATT
127920 AATATATAAATTTGAGAAAGTAAAAA
1 AATATATAAATTTGAGAAAGTAAAAA
127946 AATATATAAATTTGAGAAAGTAAAAA
1 AATATATAAATTTGAGAAAGTAAAAA
127972 A
1 A
127973 TCTAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.26
Consensus pattern (26 bp):
AATATATAAATTTGAGAAAGTAAAAA
Found at i:134740 original size:17 final size:17
Alignment explanation
Indices: 134698--134740 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
134688 GATCTGATTG
*
134698 ATAA-AATTTTAAAATA
1 ATAATAATTTAAAAATA
*
134714 ATGATCAATTTAAAAATA
1 ATAAT-AATTTAAAAATA
134732 ATAATAATT
1 ATAATAATT
134741 AGATGATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 4 0.18
18 15 0.68
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAATAATTTAAAAATA
Found at i:140355 original size:32 final size:32
Alignment explanation
Indices: 140287--140362 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 32
140277 AAATTCGGTC
* * *
140287 AATTCAAATTGAATATATTTGACTTAAGATCA
1 AATTCAAATTGAATAGATTCGACTCAAGATCA
* * * *
140319 AATTCGAATTGAATAGATTCGACTCGAGCTCG
1 AATTCAAATTGAATAGATTCGACTCAAGATCA
*
140351 AATTCAACTTGA
1 AATTCAAATTGA
140363 TTTCTTAACG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (32 bp):
AATTCAAATTGAATAGATTCGACTCAAGATCA
Found at i:143006 original size:2 final size:2
Alignment explanation
Indices: 143001--143040 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
142991 CACACGTTGG
143001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
143041 TGCAGAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147555 original size:17 final size:17
Alignment explanation
Indices: 147529--147567 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
147519 AAATGAAATC
*
147529 TTTTTCCTTCTTTC-CA
1 TTTTTCCTTCATTCTCA
147545 TTTTTCTCTTCATTCTCA
1 TTTTTC-CTTCATTCTCA
147563 TTTTT
1 TTTTT
147568 GTGGTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTCCTTCATTCTCA
Found at i:158517 original size:23 final size:23
Alignment explanation
Indices: 158465--158517 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
158455 TTAGGCCTTT
158465 TTTTTAATGATGATTAAAAAGCA
1 TTTTTAATGATGATTAAAAAGCA
* * *
158488 CTGTTAATGAGTGCTTAAAAA-CA
1 TTTTTAATGA-TGATTAAAAAGCA
158511 TTTTTAA
1 TTTTTAA
158518 AATTAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (23 bp):
TTTTTAATGATGATTAAAAAGCA
Found at i:159327 original size:19 final size:20
Alignment explanation
Indices: 159300--159338 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
159290 TTAGTTTATA
*
159300 ATTACAA-TTATAATTTTTT
1 ATTACAATTTAAAATTTTTT
*
159319 ATTATAATTTAAAATTTTTT
1 ATTACAATTTAAAATTTTTT
159339 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTACAATTTAAAATTTTTT
Found at i:159351 original size:20 final size:21
Alignment explanation
Indices: 159313--159352 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
159303 ACAATTATAA
*
159313 TTTTTTATTATAATTTAAAAT
1 TTTTTTATTATAATATAAAAT
*
159334 TTTTTTATTTTAA-ATAAAA
1 TTTTTTATTATAATATAAAA
159353 CTAACTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTATTATAATATAAAAT
Found at i:170039 original size:74 final size:74
Alignment explanation
Indices: 169955--170105 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
169945 CTGGAGATGA
169955 TCTCTCTAGGTTCTTTGGAGGTTATGAGGTACAGAAAAGACCAAAGATTCAGAGATTTTCATGGG
1 TCTCTCTAGGTTCTTTGGAGGTTATGAGGTACAGAAAAGACCAAAGATTCAGAGATTTTCATGGG
170020 TCCTTCAAT
66 TCCTTCAAT
170029 TCTCTCTAGGTTCTTTGGAGGTTATGAGGTACAGAAAAGACCAAAGATTCAGAGATTTTCATGGG
1 TCTCTCTAGGTTCTTTGGAGGTTATGAGGTACAGAAAAGACCAAAGATTCAGAGATTTTCATGGG
170094 TCCTTCAAT
66 TCCTTCAAT
170103 TCT
1 TCT
170106 AAGGTGCAGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (74 bp):
TCTCTCTAGGTTCTTTGGAGGTTATGAGGTACAGAAAAGACCAAAGATTCAGAGATTTTCATGGG
TCCTTCAAT
Found at i:171352 original size:30 final size:30
Alignment explanation
Indices: 171316--171378 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
171306 TATGTAATGA
171316 CATACCAATAATGCAACATAACCTCAATTT
1 CATACCAATAATGCAACATAACCTCAATTT
* *
171346 CATACCAATAATGTAGCATAACCTCAATTT
1 CATACCAATAATGCAACATAACCTCAATTT
171376 CAT
1 CAT
171379 CAATGTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (30 bp):
CATACCAATAATGCAACATAACCTCAATTT
Found at i:175983 original size:25 final size:25
Alignment explanation
Indices: 175947--175994 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
175937 AGTAGAATCT
175947 AAAAATAAAATTCAAATATAACATA
1 AAAAATAAAATTCAAATATAACATA
*
175972 AAAAATATAATTCAAATATAACA
1 AAAAATAAAATTCAAATATAACA
175995 ATTAAATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAATAAAATTCAAATATAACATA
Found at i:176248 original size:13 final size:14
Alignment explanation
Indices: 176230--176258 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
176220 ATTTGAATTC
176230 TATTTT-TAGATTT
1 TATTTTGTAGATTT
176243 TATTTTGTAGATTT
1 TATTTTGTAGATTT
176257 TA
1 TA
176259 AAAAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (14 bp):
TATTTTGTAGATTT
Found at i:186380 original size:121 final size:121
Alignment explanation
Indices: 186248--186485 Score: 399
Period size: 121 Copynumber: 2.0 Consensus size: 121
186238 CACTTTTAAC
186248 TTTTTCCTCCCTACAGTCCAAACAACATAACAAAACATGATCCTAGAATTAAACTTATTCAGAAT
1 TTTTTCCTCCCTACAGTCCAAACAACATAACAAAACATGATCCTAGAATTAAACTTATTCAGAAT
* *
186313 CAAAACCTAACAGCAGAAA-TTTCTTTTTCTCTC-ACTTTTTCAGCAACCAAACAATT
66 CAAAACCTAACAAC-GAAACTTT-TTTTTCTCTCTACTTTCTCAGCAACCAAACAATT
*
186369 TTTTTCCTCCCTACAGTCCAGACAACATAACAAAACATGATCCTAGAATTAAACTTATTCAGAAT
1 TTTTTCCTCCCTACAGTCCAAACAACATAACAAAACATGATCCTAGAATTAAACTTATTCAGAAT
*
186434 CAAAACCTAACAACGAAACTTTTTTTTCTCTCTTACTTTCTCAGCCACCAAA
66 CAAAACCTAACAACGAAACTTTTTTTTCTCTC-TACTTTCTCAGCAACCAAA
186486 AAAAAAGAGG
Statistics
Matches: 110, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
120 14 0.13
121 80 0.73
122 16 0.15
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (121 bp):
TTTTTCCTCCCTACAGTCCAAACAACATAACAAAACATGATCCTAGAATTAAACTTATTCAGAAT
CAAAACCTAACAACGAAACTTTTTTTTCTCTCTACTTTCTCAGCAACCAAACAATT
Found at i:192166 original size:36 final size:36
Alignment explanation
Indices: 192085--192229 Score: 161
Period size: 36 Copynumber: 4.1 Consensus size: 36
192075 AGATGAACAA
* * *
192085 TTGAATCGAAAGTGCGGATGCTTCCTTTCGTTC-AC
1 TTGAATCGAAAGTGCGGATGCTTACTTTTGTTCTTC
*
192120 TTGAATCGAAAGTACGGATGCTT-CTTTTCGTTCTTC
1 TTGAATCGAAAGTGCGGATGCTTACTTTT-GTTCTTC
* * *
192156 TTGAATCGAAAGTGCCGATGTTTACTTCTGTTCATT-
1 TTGAATCGAAAGTGCGGATGCTTACTTTTGTTC-TTC
* * *
192192 TTGAATCGAAAGTGCTGACGCTTCCTTTTGTTCTTC
1 TTGAATCGAAAGTGCGGATGCTTACTTTTGTTCTTC
192228 TT
1 TT
192230 ATTCACCTTC
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
34 4 0.04
35 28 0.30
36 55 0.59
37 6 0.06
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (36 bp):
TTGAATCGAAAGTGCGGATGCTTACTTTTGTTCTTC
Found at i:192225 original size:72 final size:71
Alignment explanation
Indices: 192085--192229 Score: 186
Period size: 72 Copynumber: 2.0 Consensus size: 71
192075 AGATGAACAA
* * *
192085 TTGAATCGAAAGTGCGGATGCTTCCTTTCGTTCACTTGAATCGAAAGTACGGATGCTTCTTTTCG
1 TTGAATCGAAAGTGCCGATGCTTACTTTCGTTCACTTGAATCGAAAGTACGGACGCTTCTTTTCG
192150 TTCTTC
66 TTCTTC
* * * *
192156 TTGAATCGAAAGTGCCGATGTTTAC-TTCTGTTCATTTTGAATCGAAAGTGCTGACGCTTCCTTT
1 TTGAATCGAAAGTGCCGATGCTTACTTTC-GTTCA-CTTGAATCGAAAGTACGGACGCTT-CTTT
192220 T-GTTCTTC
63 TCGTTCTTC
192228 TT
1 TT
192230 ATTCACCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
70 3 0.05
71 27 0.42
72 29 0.45
73 5 0.08
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATGCTTACTTTCGTTCACTTGAATCGAAAGTACGGACGCTTCTTTTCG
TTCTTC
Found at i:192337 original size:36 final size:36
Alignment explanation
Indices: 192288--192373 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
192278 TATCTTTTGG
*
192288 TTCGACTTGAATCGGAAGTGCCGATGCTTCCCTCCA
1 TTCGACTTAAATCGGAAGTGCCGATGCTTCCCTCCA
** *
192324 TTCGACTTAAATCGGAAGTGTTGATGCTTCCCTCCG
1 TTCGACTTAAATCGGAAGTGCCGATGCTTCCCTCCA
*
192360 TTCGACTTTAATCG
1 TTCGACTTAAATCG
192374 ATGCAAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.33
Consensus pattern (36 bp):
TTCGACTTAAATCGGAAGTGCCGATGCTTCCCTCCA
Found at i:193617 original size:10 final size:10
Alignment explanation
Indices: 193602--193629 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
193592 AAGCTCTAAA
193602 AACTAATTAC
1 AACTAATTAC
193612 AACTAATTAC
1 AACTAATTAC
193622 AACTAATT
1 AACTAATT
193630 TCTAACAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (10 bp):
AACTAATTAC
Found at i:195428 original size:12 final size:12
Alignment explanation
Indices: 195411--195436 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
195401 CTCCGGGCGA
195411 CCTTGTAGGTCG
1 CCTTGTAGGTCG
195423 CCTTGTAGGTCG
1 CCTTGTAGGTCG
195435 CC
1 CC
195437 ATGCACTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (12 bp):
CCTTGTAGGTCG
Found at i:195546 original size:29 final size:29
Alignment explanation
Indices: 195513--195597 Score: 152
Period size: 29 Copynumber: 2.9 Consensus size: 29
195503 TCCCAACACA
195513 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
*
195542 TAGGTCGCCATGCCCTCCGGGCGATCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
*
195571 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
195598 ACCCTCGCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.12, C:0.36, G:0.31, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:195651 original size:33 final size:33
Alignment explanation
Indices: 195614--195759 Score: 118
Period size: 33 Copynumber: 4.4 Consensus size: 33
195604 GCTCGGCTTC
* *
195614 CCTCGGATTCCCTCGCATAGCTCGTTCGGTTGA
1 CCTCGGATGCCCTCGCATAGCTCGTTCGGATGA
*
195647 CCTCGGATGCCCTCGCATAGCTCGTTCGGATGGC
1 CCTCGGATGCCCTCGCATAGCTCGTTCGGAT-GA
* * *
195681 CTCGATCGGATGGCCTCGGAT-GCTC--TCGGATGG
1 C-C--TCGGATGCCCTCGCATAGCTCGTTCGGATGA
* * * * *
195714 CCTCGGATGCTCTCGGATGGCCTCGGTCGGATGG
1 CCTCGGATGCCCTCGCATAG-CTCGTTCGGATGA
*
195748 CCTCAGATGCCC
1 CCTCGGATGCCC
195760 AGCGTGTTGG
Statistics
Matches: 95, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
30 14 0.15
31 1 0.01
32 4 0.04
33 31 0.33
34 26 0.27
35 1 0.01
36 4 0.04
37 14 0.15
ACGTcount: A:0.12, C:0.33, G:0.31, T:0.25
Consensus pattern (33 bp):
CCTCGGATGCCCTCGCATAGCTCGTTCGGATGA
Found at i:195689 original size:14 final size:14
Alignment explanation
Indices: 195667--195698 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
195657 CCTCGCATAG
*
195667 CTCGTTCGGATGGC
1 CTCGATCGGATGGC
195681 CTCGATCGGATGGC
1 CTCGATCGGATGGC
195695 CTCG
1 CTCG
195699 GATGCTCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.25
Consensus pattern (14 bp):
CTCGATCGGATGGC
Found at i:195711 original size:20 final size:20
Alignment explanation
Indices: 195686--195739 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
195676 ATGGCCTCGA
195686 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
195706 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
195726 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
195740 TCGGATGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.09, C:0.30, G:0.37, T:0.24
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:195720 original size:30 final size:34
Alignment explanation
Indices: 195687--195751 Score: 59
Period size: 30 Copynumber: 1.9 Consensus size: 34
195677 TGGCCTCGAT
195687 CGGATGGCCTCGGAT-GCTCTCGGATGG-C-C-T
1 CGGATGGCCTCGGATGGCTCTCGGATGGCCTCGT
195717 CGGAT-GCTCTCGGATGGCCTCGGTCGGATGGCCTC
1 CGGATGGC-CTCGGATGG-CTC--TCGGATGGCCTC
195752 AGATGCCCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
29 2 0.07
30 12 0.43
31 1 0.04
32 3 0.11
34 8 0.29
35 1 0.04
36 1 0.04
ACGTcount: A:0.09, C:0.31, G:0.37, T:0.23
Consensus pattern (34 bp):
CGGATGGCCTCGGATGGCTCTCGGATGGCCTCGT
Found at i:195738 original size:54 final size:56
Alignment explanation
Indices: 195648--195757 Score: 161
Period size: 54 Copynumber: 2.0 Consensus size: 56
195638 TTCGGTTGAC
*
195648 CTCGGATGCCCTCGCATAGCTCGTTCGGATGGCCTCGATCGGATGGCCTCGGATGCT
1 CTCGGATGCCCTCGCATAGCTCG-TCGGATGGCCTCGATCGGATGGCCTCAGATGCT
* * *
195705 CTCGGATGGCCTCGGAT-GCTC-TCGGATGGCCTCGGTCGGATGGCCTCAGATGC
1 CTCGGATGCCCTCGCATAGCTCGTCGGATGGCCTCGATCGGATGGCCTCAGATGC
195758 CCAGCGTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 30 0.61
56 4 0.08
57 15 0.31
ACGTcount: A:0.12, C:0.31, G:0.34, T:0.24
Consensus pattern (56 bp):
CTCGGATGCCCTCGCATAGCTCGTCGGATGGCCTCGATCGGATGGCCTCAGATGCT
Found at i:195756 original size:10 final size:10
Alignment explanation
Indices: 195686--195739 Score: 76
Period size: 10 Copynumber: 5.4 Consensus size: 10
195676 ATGGCCTCGA
195686 TCGGATGGCC
1 TCGGATGGCC
195696 TCGGAT-GCTC
1 TCGGATGGC-C
195706 TCGGATGGCC
1 TCGGATGGCC
195716 TCGGAT-GCTC
1 TCGGATGGC-C
195726 TCGGATGGCC
1 TCGGATGGCC
195736 TCGG
1 TCGG
195740 TCGGATGGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.10
10 32 0.80
11 4 0.10
ACGTcount: A:0.09, C:0.30, G:0.37, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:195833 original size:29 final size:29
Alignment explanation
Indices: 195796--195853 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
195786 GCAATCTCTT
*
195796 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
195825 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
195854 CGACCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:196093 original size:13 final size:13
Alignment explanation
Indices: 196075--196100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
196065 TACCCGATGG
196075 TACAAAGACAATT
1 TACAAAGACAATT
196088 TACAAAGACAATT
1 TACAAAGACAATT
196101 GATTGTAAAT
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
TACAAAGACAATT
Found at i:210712 original size:57 final size:58
Alignment explanation
Indices: 210607--210723 Score: 182
Period size: 57 Copynumber: 2.0 Consensus size: 58
210597 TTTAAAAACA
* *
210607 TTACATTTACTTTGACAAAAAAAACTTTAGACACTTCAAAAAAATAAGACGCATGGTT
1 TTACATTTAATTTGACAAAAAAAACTTTAGACACTTCAAAAAAATAAGACGCATAGTT
* * *
210665 TTACATTTAATTTGAC-AAAAAAACTTTAGACACTTTAAACAAATAAGACGTATAGTT
1 TTACATTTAATTTGACAAAAAAAACTTTAGACACTTCAAAAAAATAAGACGCATAGTT
210722 TT
1 TT
210724 GACACATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 39 0.72
58 15 0.28
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (58 bp):
TTACATTTAATTTGACAAAAAAAACTTTAGACACTTCAAAAAAATAAGACGCATAGTT
Found at i:218942 original size:167 final size:170
Alignment explanation
Indices: 218662--218999 Score: 637
Period size: 167 Copynumber: 2.0 Consensus size: 170
218652 GAATCTACTT
218662 CAGTGACGGAGCACTTAAATACACTTAACACTTTATTTTCTCAGCTTACATCCTTAAGCAGTAAA
1 CAGTGACGGAGCACTTAAATACACTTAACACTTTATTTTCTCAGCTTA-ATCCTTAAGCAGTAAA
218727 ATAGGAGAACAATAACGTGCTGAGCTTCTACTTCAAAGTCTATTGGATTCGTATGATCAACTCAT
65 ATAGGAGAACAATAACGTGCTGAGCTTCTACTTCAAAGTCTATTGGATTCGTATGATCAACTCAT
218792 CATAAACTTGACAAACAGTAATGTCACCAGTTTAGTCTTCG
130 CATAAACTTGACAAACAGTAATGTCACCAGTTTAGTCTTCG
218833 CAGTGACGGAGCACTT-AATACACTTAACACTTTATTTTCTCAGCTT-ATCCTTAAGCAGT-AAA
1 CAGTGACGGAGCACTTAAATACACTTAACACTTTATTTTCTCAGCTTAATCCTTAAGCAGTAAAA
*
218895 TAGGAGAACAATTACGTGCTGAGCTTCTACTTCAAAGTCTATTGGATTCGTATGATCAACTCATC
66 TAGGAGAACAATAACGTGCTGAGCTTCTACTTCAAAGTCTATTGGATTCGTATGATCAACTCATC
218960 ATAAACTTGACAAACAGTAATGTCACCAGTTTAGTCTTCG
131 ATAAACTTGACAAACAGTAATGTCACCAGTTTAGTCTTCG
219000 ATGACGTTGC
Statistics
Matches: 166, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
167 107 0.64
168 13 0.08
170 30 0.18
171 16 0.10
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (170 bp):
CAGTGACGGAGCACTTAAATACACTTAACACTTTATTTTCTCAGCTTAATCCTTAAGCAGTAAAA
TAGGAGAACAATAACGTGCTGAGCTTCTACTTCAAAGTCTATTGGATTCGTATGATCAACTCATC
ATAAACTTGACAAACAGTAATGTCACCAGTTTAGTCTTCG
Found at i:219223 original size:53 final size:53
Alignment explanation
Indices: 219143--219248 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
219133 TCACAAACAT
219143 GGTATATCGAAGTCGAGAAGCAAGAAGAATTTAAAGTGCTACAACTGTGGAAA
1 GGTATATCGAAGTCGAGAAGCAAGAAGAATTTAAAGTGCTACAACTGTGGAAA
219196 GGTATATCGAAGTCGAGAAGCAAGAAGAATTTAAAGTGCTACAACTGTGGAAA
1 GGTATATCGAAGTCGAGAAGCAAGAAGAATTTAAAGTGCTACAACTGTGGAAA
219249 TAAATGTCAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (53 bp):
GGTATATCGAAGTCGAGAAGCAAGAAGAATTTAAAGTGCTACAACTGTGGAAA
Found at i:247615 original size:6 final size:6
Alignment explanation
Indices: 247604--247633 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
247594 TGGGGGTGAT
*
247604 GATGGG GATGGG GATGGG GATGGA GATGGG
1 GATGGG GATGGG GATGGG GATGGG GATGGG
247634 CCCGAATCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.63, T:0.17
Consensus pattern (6 bp):
GATGGG
Done.