Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2179
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: 149774
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:5017 original size:13 final size:13
Alignment explanation
Indices: 4995--5043 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
4985 AGATGAAAAG
4995 AATTTTTTTTATT
1 AATTTTTTTTATT
* *
5008 AATTTATTTTGTT
1 AATTTTTTTTATT
5021 -ATTATTTTTTATT
1 AATT-TTTTTTATT
5034 ATATTTTTTT
1 A-ATTTTTTT
5044 AAATTTTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.10
13 18 0.62
14 5 0.17
15 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
AATTTTTTTTATT
Found at i:5968 original size:21 final size:22
Alignment explanation
Indices: 5919--5974 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
5909 AGCTGCTACC
*
5919 GTGTTCGTGGATGCTACTGCTGTT
1 GTGTTCGTGGATG--ACTGCTGCT
*
5943 GTGTTCGTGGATG-CTGTTGCT
1 GTGTTCGTGGATGACTGCTGCT
5964 GTGTTCGTGGA
1 GTGTTCGTGGA
5975 AGTAGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 17 0.57
24 13 0.43
ACGTcount: A:0.07, C:0.14, G:0.38, T:0.41
Consensus pattern (22 bp):
GTGTTCGTGGATGACTGCTGCT
Found at i:6586 original size:31 final size:31
Alignment explanation
Indices: 6539--6604 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
6529 TTCTTTCCAT
*
6539 TTGCTTGTGTCCCCCATGATTGCATGCTACA
1 TTGCATGTGTCCCCCATGATTGCATGCTACA
*
6570 TTGCATGTGTCTCCCATGATTGCATGCTACA
1 TTGCATGTGTCCCCCATGATTGCATGCTACA
6601 TTGC
1 TTGC
6605 CTTACATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (31 bp):
TTGCATGTGTCCCCCATGATTGCATGCTACA
Found at i:6680 original size:17 final size:17
Alignment explanation
Indices: 6660--6704 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
6650 GATTTTTTTT
6660 ATTTTTTATTTCTATTA
1 ATTTTTTATTTCTATTA
* *
6677 A-TTTTTATTTTTTTTTA
1 ATTTTTTA-TTTCTATTA
6694 ATTTTTTATTT
1 ATTTTTTATTT
6705 TTACTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
18 6 0.25
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTATTTCTATTA
Found at i:7346 original size:51 final size:51
Alignment explanation
Indices: 7272--7387 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
7262 TGCCTGCATG
* * ** *
7272 TATCAATACATTTTGGTTAAAAACCTAGAATGTATTGATACAATGAAGAATA
1 TATCGATACA-TTTGGGTAAAAACCTAGAATGTATCAATACAATGAAAAATA
* *
7324 TATCGATACATTTGGGTCAAAACCTAGAATGTATCAATACAATGAAAAATG
1 TATCGATACATTTGGGTAAAAACCTAGAATGTATCAATACAATGAAAAATA
*
7375 TATCGATAAATTT
1 TATCGATACATTT
7388 TCATTCCATA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 47 0.84
52 9 0.16
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (51 bp):
TATCGATACATTTGGGTAAAAACCTAGAATGTATCAATACAATGAAAAATA
Found at i:9472 original size:17 final size:16
Alignment explanation
Indices: 9441--9474 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9431 AGTAAAGTAT
9441 AAATATAAAATAATAC
1 AAATATAAAATAATAC
*
9457 AAATATAATTATAATAC
1 AAATATAA-AATAATAC
9474 A
1 A
9475 CAAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATAAAATAATAC
Found at i:11522 original size:2 final size:2
Alignment explanation
Indices: 11515--11563 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
11505 CTCAACTATT
* * *
11515 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TG 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
11557 TA TA TA T
1 TA TA TA T
11564 GAGATTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14203 original size:26 final size:26
Alignment explanation
Indices: 14160--14279 Score: 72
Period size: 27 Copynumber: 4.5 Consensus size: 26
14150 AATTATACAA
14160 AATATTATATTTTATATA-TATTTTT
1 AATATTATATTTTATATATTATTTTT
* *
14185 AATATTTTAATTTTTTATATTA-TTTT
1 AATATTAT-ATTTTATATATTATTTTT
* * *
14211 AATTTGTATATATTCATATATT-TATATT
1 AATAT-TATAT-TTTATATATTAT-TTTT
14239 -ATATTTATATTTTTATCATATTATATTTT
1 AATA-TTATA-TTTTAT-ATATTAT-TTTT
*
14268 --TACTATATTTTA
1 AATATTATATTTTA
14280 ATTACTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
25 7 0.09
26 24 0.32
27 26 0.35
28 12 0.16
29 5 0.07
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
AATATTATATTTTATATATTATTTTT
Found at i:14224 original size:19 final size:18
Alignment explanation
Indices: 14187--14224 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14177 ATATTTTTAA
*
14187 TATTTTAATTTTTTATAT
1 TATTTTAATTTTATATAT
14205 TATTTTAATTTGTATATAT
1 TATTTTAATTT-TATATAT
14224 T
1 T
14225 CATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTTTAATTTTATATAT
Found at i:14237 original size:33 final size:33
Alignment explanation
Indices: 14198--14282 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 33
14188 ATTTTAATTT
14198 TTTATATTATTTTAATTTGTAT-ATATTCATATA
1 TTTATATTATTTTAATTTGTATCATATT-ATATA
* *
14231 TTTATATTATATTTATATTTTTATCATATTATATT
1 TTTATATTAT-TTTA-ATTTGTATCATATTATATA
14266 TTTACTA-TATTTTAATT
1 TTTA-TATTATTTTAATT
14283 ACTTTTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
33 13 0.28
34 8 0.17
35 18 0.39
36 7 0.15
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (33 bp):
TTTATATTATTTTAATTTGTATCATATTATATA
Found at i:14301 original size:21 final size:20
Alignment explanation
Indices: 14243--14302 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
14233 TATATTATAT
*
14243 TTATATTTTTATCATATT-A
1 TTATTTTTTTATCATATTAA
* *
14262 -TATTTTTACTAT-ATTTTAA
1 TTATTTTT-TTATCATATTAA
14281 TTACTTTTTTTATCATATTAA
1 TTA-TTTTTTTATCATATTAA
14302 T
1 T
14303 ATAGAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
18 10 0.32
19 4 0.13
20 5 0.16
21 12 0.39
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTTTTTTATCATATTAA
Found at i:14396 original size:21 final size:20
Alignment explanation
Indices: 14372--14451 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 20
14362 ATATGATACG
14372 AATATAACTTAAAAATAATTA
1 AATATAACTT-AAAATAATTA
*
14393 AATATAA-TTAAAA-AATAA
1 AATATAACTTAAAATAATTA
*
14411 AATATAACATAAATATAA-TA
1 AATATAACTTAAA-ATAATTA
*
14431 AA-ATAAC-TAAAATAAATA
1 AATATAACTTAAAATAATTA
14449 AAT
1 AAT
14452 TACTGTATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.08
18 19 0.37
19 13 0.25
20 6 0.12
21 9 0.18
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AATATAACTTAAAATAATTA
Found at i:14448 original size:39 final size:39
Alignment explanation
Indices: 14372--14450 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 39
14362 ATATGATACG
* *
14372 AATATAACTTAAAAATAATTAAATATAATTAAAAAATAA
1 AATATAACATAAAAATAATTAAATATAATAAAAAAATAA
*
14411 AATATAACATAAATATAA-TAAA-ATAACTAAAATAAATAA
1 AATATAACATAAAAATAATTAAATATAA-TAAAA-AAATAA
14450 A
1 A
14451 TTACTGTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 4 0.11
38 8 0.23
39 23 0.66
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (39 bp):
AATATAACATAAAAATAATTAAATATAATAAAAAAATAA
Found at i:15179 original size:13 final size:13
Alignment explanation
Indices: 15161--15185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15151 AAATAATTAC
15161 TAGTATTTGTTAA
1 TAGTATTTGTTAA
15174 TAGTATTTGTTA
1 TAGTATTTGTTA
15186 GTAGGATATA
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (13 bp):
TAGTATTTGTTAA
Found at i:15475 original size:3 final size:3
Alignment explanation
Indices: 15460--15489 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
15450 TAAGGAACTA
*
15460 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15490 CTCAAAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:18668 original size:20 final size:21
Alignment explanation
Indices: 18634--18672 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
18624 AGGTCAAAAC
18634 CCTAGAAAGTATCGATACAGA
1 CCTAGAAAGTATCGATACAGA
18655 CCTAGAAA-TATCGATACA
1 CCTAGAAAGTATCGATACA
18673 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGA
Found at i:20898 original size:21 final size:20
Alignment explanation
Indices: 20872--20920 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
20862 AATGTTCTTA
20872 AAAAGAAAGAAGAAGAATTAG
1 AAAAGAAAGAAG-AGAATTAG
* *
20893 AAAAGAAAATAAGTGAATTAG
1 AAAAG-AAAGAAGAGAATTAG
20914 AAAAGAA
1 AAAAGAA
20921 GATAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 17 0.68
22 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.12
Consensus pattern (20 bp):
AAAAGAAAGAAGAGAATTAG
Found at i:20925 original size:21 final size:21
Alignment explanation
Indices: 20886--20932 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
20876 GAAAGAAGAA
20886 GAATTAGAAAAGAAAATAAGT
1 GAATTAGAAAAGAAAATAAGT
* *
20907 GAATTAGAAAAGAAGATAATT
1 GAATTAGAAAAGAAAATAAGT
20928 GAATT
1 GAATT
20933 GCTAGATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.23
Consensus pattern (21 bp):
GAATTAGAAAAGAAAATAAGT
Found at i:20973 original size:21 final size:21
Alignment explanation
Indices: 20949--20989 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20939 TGGTAATAAA
20949 GAATTAGCTAATGAA-AACAAC
1 GAATTAGCTAA-GAAGAACAAC
*
20970 GAATTGGCTAAGAAGAACAA
1 GAATTAGCTAAGAAGAACAA
20990 GAACTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (21 bp):
GAATTAGCTAAGAAGAACAAC
Found at i:27483 original size:20 final size:22
Alignment explanation
Indices: 27447--27487 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
27437 AAAGGTCAAA
27447 ACCCTAGAAAGTATCGATACAG
1 ACCCTAGAAAGTATCGATACAG
27469 ACCC-AGAAA-TATCGATACA
1 ACCCTAGAAAGTATCGATACA
27488 TATTGCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (22 bp):
ACCCTAGAAAGTATCGATACAG
Found at i:27817 original size:15 final size:15
Alignment explanation
Indices: 27797--27826 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27787 TCCAACGAGT
27797 ATGTCAACATTCTAG
1 ATGTCAACATTCTAG
27812 ATGTCAACATTCTAG
1 ATGTCAACATTCTAG
27827 CCTATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
ATGTCAACATTCTAG
Found at i:35978 original size:47 final size:47
Alignment explanation
Indices: 35902--35998 Score: 140
Period size: 47 Copynumber: 2.1 Consensus size: 47
35892 AACCATTAAA
* * *
35902 CTATAGAAAACAAAAAAGGTTGTAGAATTCTAATAGTCTTACATTCC
1 CTATAGAAAACAAAAAAGGTTATACAATTCTAATAGCCTTACATTCC
* * *
35949 CTATAGAAAACAAATATGTTTATACAATTCTAATAGCCTTACATTCC
1 CTATAGAAAACAAAAAAGGTTATACAATTCTAATAGCCTTACATTCC
35996 CTA
1 CTA
35999 AAATAAAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (47 bp):
CTATAGAAAACAAAAAAGGTTATACAATTCTAATAGCCTTACATTCC
Found at i:40701 original size:21 final size:21
Alignment explanation
Indices: 40660--40703 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
40650 CTCTCCTTTA
* *
40660 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
40681 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
40702 TC
1 TC
40704 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:42526 original size:13 final size:13
Alignment explanation
Indices: 42508--42533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42498 ATAATCACCC
42508 TGTATCGATACAA
1 TGTATCGATACAA
42521 TGTATCGATACAA
1 TGTATCGATACAA
42534 AGAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44625 original size:15 final size:15
Alignment explanation
Indices: 44605--44635 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44595 ATTTCGTTTG
*
44605 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
44620 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
44635 G
1 G
44636 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:46456 original size:21 final size:23
Alignment explanation
Indices: 46431--46478 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
46421 GCAAGTTTTC
*
46431 ATTTTTC-TTAGCTAAC-TCATT
1 ATTTTTCATTAGCCAACTTCATT
*
46452 A-TTTTCATTAGCCAACTTCTTT
1 ATTTTTCATTAGCCAACTTCATT
46474 ATTTT
1 ATTTT
46479 AACTTGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 5 0.23
23 3 0.14
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTTTTCATTAGCCAACTTCATT
Found at i:46478 original size:22 final size:20
Alignment explanation
Indices: 46433--46478 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
46423 AAGTTTTCAT
*
46433 TTTTCTTAGCTAACTCATTA
1 TTTTCTTAGCCAACTCATTA
*
46453 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAAC-TCATTA
46475 TTTT
1 TTTT
46479 AACTTGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 8 0.36
22 9 0.41
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTCTTAGCCAACTCATTA
Found at i:52751 original size:20 final size:21
Alignment explanation
Indices: 52726--52780 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
52716 CGTTACAAGC
52726 CATGTATCGATACAAT-TCAT
1 CATGTATCGATACAATGTCAT
*
52746 CATGTATCGATACAATGTCCT
1 CATGTATCGATACAATGTCAT
52767 -ATGTATCGATACAA
1 CATGTATCGATACAA
52781 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (21 bp):
CATGTATCGATACAATGTCAT
Found at i:52853 original size:19 final size:18
Alignment explanation
Indices: 52808--52865 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
52798 ACTGCCAGTT
52808 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
52827 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
52846 ATCATGTATCAATACAATG
1 -TCATGTATCGATACAATG
52865 T
1 T
52866 ATCCATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:61185 original size:13 final size:13
Alignment explanation
Indices: 61167--61196 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61157 ACAATTCATC
61167 ATGTATCGATAAA
1 ATGTATCGATAAA
*
61180 ATGTATCGATACA
1 ATGTATCGATAAA
61193 ATGT
1 ATGT
61197 CCTATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATAAA
Found at i:61189 original size:33 final size:33
Alignment explanation
Indices: 61147--61210 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
61137 GTTACAAGCC
61147 ATGTATCGATACAAT-TCATCATGTATCGATAAA
1 ATGTATCGATACAATGTCAT-ATGTATCGATAAA
*
61180 ATGTATCGATACAATGTCCTATGTATCGATA
1 ATGTATCGATACAATGTCATATGTATCGATA
61211 CAAACAGCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACAATGTCATATGTATCGATAAA
Found at i:61286 original size:19 final size:19
Alignment explanation
Indices: 61241--61312 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
61231 ACTGCCAGTT
*
61241 TCATGTATTGATACAATTG-
1 TCATGTATCGATACAA-TGA
61260 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
* *
61280 TCATGTATCAATACAAAGCA
1 TCATGTATCGATACAATG-A
*
61300 TAATGTATCGATA
1 TCATGTATCGATA
61313 TATCTGGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 18 0.40
20 27 0.60
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:61307 original size:20 final size:19
Alignment explanation
Indices: 61263--61308 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61253 ACAATTGTCC
* * *
61263 ATGTATCGATACAATGATC
1 ATGTATCAATACAAAGATA
61282 ATGTATCAATACAAAGCATA
1 ATGTATCAATACAAAG-ATA
61302 ATGTATC
1 ATGTATC
61309 GATATATCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (19 bp):
ATGTATCAATACAAAGATA
Found at i:63660 original size:2 final size:2
Alignment explanation
Indices: 63649--63677 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
63639 ATCGTGTAAA
63649 AT AT -T 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
63678 TTATGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:64710 original size:72 final size:72
Alignment explanation
Indices: 64533--64720 Score: 216
Period size: 72 Copynumber: 2.6 Consensus size: 72
64523 AACTTTGAAT
* * *
64533 TCATTTTTAACATGTGTGCATGGAGATTAG-GTCACTCACTTATATGATGAAATGTCGATCAAAC
1 TCATTTTTAGCATCTGTGCATGGTGATT-GTGTCACTCACTTATATGATGAAATGTCGATCAAAC
*
64597 CTTTGAGT
65 CTTTGAGG
* * *** * * *
64605 TTATTCTTAGCATCTGTGCATGGTGACCATGTCACTCACTTATGTGTTGAAATGTTGATCAAACC
1 TCATTTTTAGCATCTGTGCATGGTGATTGTGTCACTCACTTATATGATGAAATGTCGATCAAACC
64670 TTTGAGG
66 TTTGAGG
* * * *
64677 TCATTTTTAGCATTTGTGCATAGTGATTGTGTCATTCATTTATA
1 TCATTTTTAGCATCTGTGCATGGTGATTGTGTCACTCACTTATA
64721 GGCTAAAATC
Statistics
Matches: 93, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (72 bp):
TCATTTTTAGCATCTGTGCATGGTGATTGTGTCACTCACTTATATGATGAAATGTCGATCAAACC
TTTGAGG
Found at i:64735 original size:72 final size:72
Alignment explanation
Indices: 64563--64761 Score: 168
Period size: 72 Copynumber: 2.8 Consensus size: 72
64553 TGGAGATTAG
* * * * * * * *
64563 GTCACTCACTTATATGATGAAATGTCGATCAAACCTTTGAGTTTATTCTTAGCATCTGTGCATGG
1 GTCACTCACTTATGTGCTAAAATCTTGATCAAACCTTTGAGGTCATTCTTAGCATCTGTGCATAG
64628 TGACCAT
66 TGACCAT
* * * * *
64635 GTCACTCACTTATGTGTTGAAATGTTGATCAAACCTTTGAGGTCATTTTTAGCATTTGTGCATAG
1 GTCACTCACTTATGTGCTAAAATCTTGATCAAACCTTTGAGGTCATTCTTAGCATCTGTGCATAG
***
64700 TGATTGT
66 TGACCAT
* * * * **
64707 GTCATTCATTTATAG-GCTAAAATCTTGATTAGAA-ATTAAAGGTCATTCTTAGCAT
1 GTCACTCACTTAT-GTGCTAAAATCTTGATCA-AACCTTTGAGGTCATTCTTAGCAT
64762 TTGTACGTGG
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
72 101 0.97
73 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (72 bp):
GTCACTCACTTATGTGCTAAAATCTTGATCAAACCTTTGAGGTCATTCTTAGCATCTGTGCATAG
TGACCAT
Found at i:66725 original size:140 final size:142
Alignment explanation
Indices: 66549--66818 Score: 411
Period size: 140 Copynumber: 1.9 Consensus size: 142
66539 TGTAAATTTC
** * *
66549 GAAATCTCATTTCGTACCTTAATGGAGAATCGAAAAGATACAAAAAGTTTTG-AGCACTTTTATA
1 GAAATCTCATTTCGTACCTTAATAAAGAACCAAAAAGATACAAAAAGTTTTGAAG-ACTTTTATA
*
66613 CCTCTATGAAAAACCATAAGAATATTAAAAATCCTAAAAAAATAAGA-AATATTTTTTATTTAAT
65 CCTCTATGAAAAACCATAAGAATATTAAAAATCCTAAAAAAATAAGATAATAATTTTTATTTAAT
66677 TTTTAATTTTAAA
130 TTTTAATTTTAAA
* *
66690 GAAAT-TCATTTCGTACCTTAATAAAGAACCAAAAAGATAGAAAAAGTTTTGAAGATTTTTATAC
1 GAAATCTCATTTCGTACCTTAATAAAGAACCAAAAAGATACAAAAAGTTTTGAAGACTTTTATAC
* * * *
66754 CTCTATGGAAAACCATAGGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATT
66 CTCTATGAAAAACCATAAGAATATTAAAAATCCTAAAAAAATAAGATAATAATTTTTATTTAATT
66819 ATAAAATAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
140 92 0.79
141 24 0.21
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (142 bp):
GAAATCTCATTTCGTACCTTAATAAAGAACCAAAAAGATACAAAAAGTTTTGAAGACTTTTATAC
CTCTATGAAAAACCATAAGAATATTAAAAATCCTAAAAAAATAAGATAATAATTTTTATTTAATT
TTTAATTTTAAA
Found at i:66827 original size:22 final size:21
Alignment explanation
Indices: 66801--66841 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
66791 AAATTAAGAT
*
66801 AATAATTTTTATTTAATTATAA
1 AATAATATTTATTT-ATTATAA
66823 AATAATATTTATTTATTAT
1 AATAATATTTATTTATTAT
66842 TATTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATAATATTTATTTATTATAA
Found at i:66869 original size:16 final size:16
Alignment explanation
Indices: 66830--66869 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
66820 TAAAATAATA
*
66830 TTTATTTATTATTATT
1 TTTATTTTTTATTATT
66846 TTTATTTTTTATTATT
1 TTTATTTTTTATTATT
66862 TTTATTTT
1 TTTATTTT
66870 CAAAAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTTTATTATT
Found at i:68035 original size:35 final size:36
Alignment explanation
Indices: 67984--68053 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 36
67974 TCATTTTTCT
*
67984 CTCTTAAAAATATTCTCCCCCTTAAACGATTATCTC
1 CTCTAAAAAATATTCTCCCCCTTAAACGATTATCTC
*
68020 CTCTAAAAAAT-TTCTCTCCCTTAAACGATTATCT
1 CTCTAAAAAATATTCTCCCCCTTAAACGATTATCT
68054 TCTCCCCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (36 bp):
CTCTAAAAAATATTCTCCCCCTTAAACGATTATCTC
Found at i:68328 original size:19 final size:20
Alignment explanation
Indices: 68306--68344 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
68296 ATCACTAGAG
*
68306 CTAGTCGAGGAA-TCGTGCT
1 CTAGTCGAGAAATTCGTGCT
*
68325 CTAGTCTAGAAATTCGTGCT
1 CTAGTCGAGAAATTCGTGCT
68345 TTCATCGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (20 bp):
CTAGTCGAGAAATTCGTGCT
Found at i:76166 original size:19 final size:19
Alignment explanation
Indices: 76121--76177 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
76111 TTGCCAGTTT
**
76121 CATGTATCGATACAGATTGGC
1 CATGTATCGATACA-A-TGAA
76142 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
76161 CATGTATCGATATAATG
1 CATGTATCGATACAATG
76178 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
20 1 0.03
21 14 0.42
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:76184 original size:32 final size:33
Alignment explanation
Indices: 76143--76205 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
76133 CAGATTGGCC
*
76143 ATGTATCGATACAATG-AACATGTATCGATATA
1 ATGTATCGATACAAAGCAACATGTATCGATATA
*
76175 ATGTATCGATACAAAGCAGCATGTATCGATA
1 ATGTATCGATACAAAGCAACATGTATCGATA
76206 CATCTCGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATATA
Found at i:76662 original size:11 final size:11
Alignment explanation
Indices: 76646--76709 Score: 76
Period size: 11 Copynumber: 5.7 Consensus size: 11
76636 CCTTAATTTT
76646 TCTTTTTTCTC
1 TCTTTTTTCTC
*
76657 TCTTTTTTTCTT
1 TC-TTTTTTCTC
76669 TCTTTTTTCTC
1 TCTTTTTTCTC
*
76680 TCTTTTTTTCTT
1 TC-TTTTTTCTC
*
76692 TCTTTTTTATC
1 TCTTTTTTCTC
76703 T-TTTTTT
1 TCTTTTTT
76710 TTCTTCACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
10 6 0.13
11 20 0.43
12 20 0.43
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:76665 original size:12 final size:12
Alignment explanation
Indices: 76648--76713 Score: 84
Period size: 12 Copynumber: 5.7 Consensus size: 12
76638 TTAATTTTTC
76648 TTTTTTCTCTCT
1 TTTTTTCTCTCT
*
76660 TTTTTTCTTTC-
1 TTTTTTCTCTCT
76671 TTTTTTCTCTCT
1 TTTTTTCTCTCT
*
76683 TTTTTTCTTTCT
1 TTTTTTCTCTCT
76695 TTTTTATCT-T-T
1 TTTTT-TCTCTCT
76706 TTTTTTCT
1 TTTTTTCT
76714 TCACTTGCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
10 3 0.06
11 16 0.33
12 27 0.55
13 3 0.06
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:76670 original size:23 final size:23
Alignment explanation
Indices: 76644--76714 Score: 124
Period size: 23 Copynumber: 3.1 Consensus size: 23
76634 TGCCTTAATT
76644 TTTCTTTTTTCTCTCTTTTTTTC
1 TTTCTTTTTTCTCTCTTTTTTTC
76667 TTTCTTTTTTCTCTCTTTTTTTC
1 TTTCTTTTTTCTCTCTTTTTTTC
* *
76690 TTTCTTTTTTATCTTTTTTTTTC
1 TTTCTTTTTTCTCTCTTTTTTTC
76713 TT
1 TT
76715 CACTTGCCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTCTTTTTTCTCTCTTTTTTTC
Found at i:77467 original size:165 final size:165
Alignment explanation
Indices: 77251--77717 Score: 489
Period size: 165 Copynumber: 2.8 Consensus size: 165
77241 TAGATGAAGT
* * *** ** *
77251 TTTAAAAATTTCAAATCGAGACAAATCTCTCCAAAAACAATTATAGAATAGAAAACTCAATTTTT
1 TTTAAAAATTTTAAATCGAGAAAAATC-CTCTTGAAACTTTTATAGAATAGAAAACTCGATTTTT
* * * * *
77316 TAGAAATAGAAAAATTTCAAGAAAAAAATGAAAAACTCATTAAAATAAATGAGTTTTTCAAAATT
65 TAGAAATAGAAAAATTTCAAGAAAAAAATGAAAAACTAATGAAAATGAATGAATTTTTCAAAACT
*
77381 GATTTAAAGGAAGTCTA-ATGACAATGTTAGA-CAAA
130 GATTTAAAGGAAGTCTACA-GACAACGTTAGATCAAA
* * *
77416 TTTAAAAATTTTAAATCGAGAAAAATCCTCTTGAGAACTTTTATGGAATAGAAAATTCGATTTTC
1 TTTAAAAATTTTAAATCGAGAAAAATCCTCTTGA-AACTTTTATAGAATAGAAAACTCGATTTTT
* * * * * *
77481 CAAAAATAGGAGAATTTC-A-AAAAAAATGAAAAAATGAAAGAAAATGAATGAATTTTTCAAAAC
65 TAGAAATAGAAAAATTTCAAGAAAAAAATGAAAAACT-AATGAAAATGAATGAATTTTTCAAAAC
* * *
77544 TGATTTAAAGGGAGTCTACAGACAACGTTAGATGAAT
129 TGATTTAAAGGAAGTCTACAGACAACGTTAGATCAAA
* * *
77581 TTTAAAATTTTTAAATCGAGAAAAATCC-CTTTGAAAATATTTATAGAATAGAAAAGTCGA-TTT
1 TTTAAAAATTTTAAATCGAGAAAAATCCTC-TTGAAACT-TTTATAGAATAGAAAACTCGATTTT
* * * * *
77644 TTCGAAAAAAATAAAATTTTTGAAG-AAAAAATGAAAAACTTATGAAAATGAATGAATTTTTCAA
64 TTAGAAATAGA-AAAA--TTTCAAGAAAAAAATGAAAAACTAATGAAAATGAATGAATTTTTCAA
*
77708 AACTAATTTA
126 AACTGATTTA
77718 TTATGAATTA
Statistics
Matches: 248, Mismatches: 43, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
163 15 0.06
164 65 0.26
165 119 0.48
167 34 0.14
168 15 0.06
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (165 bp):
TTTAAAAATTTTAAATCGAGAAAAATCCTCTTGAAACTTTTATAGAATAGAAAACTCGATTTTTT
AGAAATAGAAAAATTTCAAGAAAAAAATGAAAAACTAATGAAAATGAATGAATTTTTCAAAACTG
ATTTAAAGGAAGTCTACAGACAACGTTAGATCAAA
Found at i:77753 original size:167 final size:164
Alignment explanation
Indices: 77236--77762 Score: 487
Period size: 165 Copynumber: 3.2 Consensus size: 164
77226 ATTTAATTAA
* * * *** * *
77236 AATATTAGATGAAGTTTTAAAAATTTCAAATCGAGACAAATCTCTCCAAAAACAATTATAGAATA
1 AATATTAGATGAA-TTTTAAAAATTTTAAATCGAGAAAAATCCCTTTGAAAATATTTATAGAATA
* * * * * * *
77301 GAAAACTCAATTTTTTAGAAATAGAAAAATTTCAAGAAAAAAATGAAAAACTCATTAAAATAAAT
65 GAAAACTCGA-TTTTTCGAAAAAAAAAAATTTCAAG-AAAAAATGAAAAACTAATGAAAATGAAT
* *
77366 GAGTTTTTCAAAATTGATTTAAAGGAAGTCT-AATGAC
128 GAATTTTTCAAAACTGATTTAAAGGAA-TCTAAATGAC
* * * * *
77403 AATGTTAGA-CAAATTTAAAAATTTTAAATCGAGAAAAAT-CCTCTTGAGAACT-TTTATGGAAT
1 AATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAATCCCT-TTGA-AAATATTTATAGAAT
* * * * * *
77465 AGAAAATTCGA-TTTTCCAAAAATAGGAGAATTTCAA-AAAAAATGAAAAAATGAAAGAAAATGA
64 AGAAAACTCGATTTTTCGAAAAA-A-AAAAATTTCAAGAAAAAATGAAAAACT-AATGAAAATGA
* *
77528 ATGAATTTTTCAAAACTGATTTAAAGGGAGTCTACA-GAC
126 ATGAATTTTTCAAAACTGATTTAAA-GGAATCTAAATGAC
** *
77567 AACGTTAGATGAATTTTAAAATTTTTAAATCGAGAAAAATCCCTTTGAAAATATTTATAGAATAG
1 AATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAATCCCTTTGAAAATATTTATAGAATAG
* * *
77632 AAAAGTCGATTTTTCGAAAAAAATAAAATTTTTGAAGAAAAAATGAAAAACTTATGAAAATGAAT
66 AAAACTCGATTTTTCGAAAAAAA-AAAA--TTTCAAGAAAAAATGAAAAACTAATGAAAATGAAT
* * * *
77697 GAATTTTTCAAAACTAATTTATTATGAAT-TAAATGAT
128 GAATTTTTCAAAACTGATTTA-AAGGAATCTAAATGAC
*
77734 AATATTTGATGAATTTT-AAAATTTATAAA
1 AATATTAGATGAATTTTAAAAATTT-TAAA
77763 CCAGTGAAAC
Statistics
Matches: 288, Mismatches: 54, Indels: 36
0.76 0.14 0.10
Matches are distributed among these distances:
163 22 0.08
164 49 0.17
165 109 0.38
166 26 0.09
167 67 0.23
168 15 0.05
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (164 bp):
AATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAATCCCTTTGAAAATATTTATAGAATAG
AAAACTCGATTTTTCGAAAAAAAAAAATTTCAAGAAAAAATGAAAAACTAATGAAAATGAATGAA
TTTTTCAAAACTGATTTAAAGGAATCTAAATGAC
Found at i:82931 original size:13 final size:13
Alignment explanation
Indices: 82913--82942 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
82903 ACAATTCATC
*
82913 ATGTATCGATACA
1 ATGTATCAATACA
82926 ATGTATCAATACA
1 ATGTATCAATACA
82939 ATGT
1 ATGT
82943 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:83013 original size:20 final size:20
Alignment explanation
Indices: 82988--83045 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
82978 CTGCCAGTTT
*
82988 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATA
* *
83008 CATGTATCAATACAATGA-A
1 CATGTATCGATACAATTATA
83027 CATGTATCGATAC-ATTATA
1 CATGTATCGATACAATTATA
83046 TCGATACAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 16 0.50
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTATA
Found at i:89512 original size:165 final size:163
Alignment explanation
Indices: 88947--89561 Score: 523
Period size: 165 Copynumber: 3.7 Consensus size: 163
88937 AATATATATA
* * *
88947 AAAAAATTTCAAATTCATG-AAATAAATTAAAATTTTTAAAATTGATTT--TATGAGAATTTAAT
1 AAAAAA-TTAAAATTCATGAAAATAAA-T-AAATTTTTAAAAATGATTTAATATGA-AA-TAAAT
* * ** * * * * * *
89009 AACAATATTAGATGAATTTTAAAAATTTTAAA-TAAAAAAAAT-CTCCTCGAAAATATTTACGAA
61 AATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCT-C-CAAAAAAAATTACGGA
* ** * * * *
89072 GTAGACAACTCGGTTTTTC-AAAAATAAGAG-ATTTTATAA-
124 GTAGAAAACTCCATATGTCGAAAAA-AGGAGAACTTTA-AAG
* * * ** *
89111 AAAAAATATAAAACTCATGAAAATGAATTAAATTTTTAAAACTGATTTAATATGAGTTAAATGAT
1 AAAAAAT-TAAAATTCATGAAAAT-AAATAAATTTTTAAAAATGATTTAATATGAAATAAATAAT
* * * * * * * *
89176 GATATCTGATAAATTTTAAAAATAAAAAATCAAGAAAAATCCTTTCGAAAAAATTTACGGAGTAG
64 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-TCCAAAAAAAATTACGGAGTAG
* ** *
89241 AAAACTCCGTATGTCGAAAATGGGAGAACTTTAAGG
128 AAAACTCCATATGTCGAAAAAAGGAGAACTTTAAAG
* * * * *
89277 AAAAAATGGAAAACTT-ATGAAAATGAATGAGTTTTTGAAAATTGATTTAATATGAAATAAATAA
1 AAAAAAT-TAAAA-TTCATGAAAATAAATAAATTTTT-AAAAATGATTTAATATGAAATAAATAA
* *
89341 TAATATTTGATGAATTTTACAAATTAAAAACCAAGAAAAATCGTCCAAAAAAAATTACGGAGTAG
63 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCAAAAAAAATTACGGAGTAG
* *
89406 AAAACTTCATATTTCAGAAAAAAAGG-GAA-TTTCAAAG
128 AAAACTCCATATGTC-G-AAAAAAGGAGAACTTT-AAAG
* *
89443 AAAAAATTCAAAATTCATGAAAATAAATAAATTTTTAAAAATAAATTAATATGAAATAAATAATA
1 AAAAAATT-AAAATTCATGAAAATAAATAAATTTTTAAAAATGATTTAATATGAAATAAATAATA
* *
89508 ATATTTGATGAATTTTAAAAATTAAACACCAAGAAAAATCCTCCTAAAAAAATT
65 ATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCAAAAAAAATT
89562 TACGAATAAG
Statistics
Matches: 365, Mismatches: 68, Indels: 35
0.78 0.15 0.07
Matches are distributed among these distances:
163 1 0.00
164 60 0.16
165 166 0.45
166 130 0.36
167 8 0.02
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (163 bp):
AAAAAATTAAAATTCATGAAAATAAATAAATTTTTAAAAATGATTTAATATGAAATAAATAATAA
TATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCAAAAAAAATTACGGAGTAGAAA
ACTCCATATGTCGAAAAAAGGAGAACTTTAAAG
Found at i:94534 original size:19 final size:20
Alignment explanation
Indices: 94508--94552 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
94498 ATTTTAAAAA
94508 TCAAAATTT-AATTTTATATT
1 TCAAAATTTAAATTTT-TATT
94528 T-AAAATTTAAATTTTTATT
1 TCAAAATTTAAATTTTTATT
94547 TCAAAA
1 TCAAAA
94553 AATCTGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TCAAAATTTAAATTTTTATT
Found at i:96581 original size:21 final size:21
Alignment explanation
Indices: 96540--96583 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
96530 CTCCCCTTTA
* *
96540 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
96561 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
96582 TC
1 TC
96584 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:98404 original size:13 final size:13
Alignment explanation
Indices: 98386--98410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98376 ATAATCACCC
98386 TGTATCGATACAA
1 TGTATCGATACAA
98399 TGTATCGATACA
1 TGTATCGATACA
98411 TTGAATTTCC
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:100490 original size:15 final size:15
Alignment explanation
Indices: 100470--100500 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100460 ATTTCGTTTG
*
100470 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
100485 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
100500 G
1 G
100501 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:108648 original size:157 final size:156
Alignment explanation
Indices: 108350--108892 Score: 606
Period size: 157 Copynumber: 3.5 Consensus size: 156
108340 TAGGACTTGA
* * ** * * * * *
108350 TTTTAGAAAATTTATGAAAATGCCTCCATGGGCATACCTTTGAAATGAAAGTTTCTCGGTAAACC
1 TTTTGGAAAAATTATGAAAATGCC-CTTTGGGTATACCTTCGACATGAAAGTATCTCGGTAACCC
* * * * *
108415 TAAAAGACTTAAAAATGATCATAAATGAGATAAAACTTTCCTAAATACCCACCTTTGGCATAAAA
65 TAAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCTTTGGCATAAAA
* * *
108480 GTATCCCGGTGATAACCTAAGACTCAG
130 GCATCTCGGTGATAACCTAGGACTCAG
* * * * * * *
108507 TTCT-AATAAAATTATGAAAATGCCCTTGTGAGTATACCTTTGACATAAAAGTATCTTGTTAACC
1 TTTTGGA-AAAATTATGAAAATGCCCTT-TGGGTATACCTTCGACATGAAAGTATCTCGGTAACC
* * **
108571 CTAAAGGACTTAAAAAGGATCATAAATGGGATGAACCTATCCAAAATACTTACCTTTGGCATAAA
64 CTAAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCTTTGGCATAAA
* * *
108636 AGCATCTAGGTGACAACCTAGGACTCAT
129 AGCATCTCGGTGATAACCTAGGACTCAG
* ** *
108664 TTTTGGAAAAATTATGAAAATGCCACTTTGGGTATACCTTCGACTTGAAAGTATC-CTAATAACT
1 TTTTGGAAAAATTATGAAAATGCC-CTTTGGGTATACCTTCGACATGAAAGTATCTC-GGTAACC
* * *
108728 CTAAAGGACTTAAAAAGGATCATAAATAGGATAAACCTATCCTAAATACCCACATTTGGTATAAA
64 CTAAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCTTTGGCATAAA
* *
108793 AGCATCTCGATGATAACCTAGGACT-TG
129 AGCATCTCGGTGATAACCTAGGACTCAG
* * * *
108820 ATTTTGGAAAAATTATGGAAATGCCCATATGGGTATACCTTCGATATGAAAGTATCTCGGCAACC
1 -TTTTGGAAAAATTATGAAAATGCCC-TTTGGGTATACCTTCGACATGAAAGTATCTCGGTAACC
108885 CTAAAGGA
64 CTAAAGGA
108893 TAGGAAAAAG
Statistics
Matches: 320, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
156 3 0.01
157 312 0.98
158 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (156 bp):
TTTTGGAAAAATTATGAAAATGCCCTTTGGGTATACCTTCGACATGAAAGTATCTCGGTAACCCT
AAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCTTTGGCATAAAAG
CATCTCGGTGATAACCTAGGACTCAG
Found at i:109234 original size:166 final size:164
Alignment explanation
Indices: 109005--109366 Score: 457
Period size: 166 Copynumber: 2.2 Consensus size: 164
108995 TCGTACCAAT
* * * *** *
109005 GAAAAACCGAGAGGATATGAAAAGTTTTAAAATTTTTTATATCCCTATGGAAGTCCATAGGAATA
1 GAAAAACTGAGAGAACATGAAAAGTTTTAAAAAAATTTATATCCCTATGGAAGACCATAGGAATA
* *
109070 ATAAATATTTAAA-GAAAATGACTAAGATAG-TGATTTTTCTTCTAAAATCCAAATTTGCTATTT
66 ATAAAAATTTAAATG-AAATGACTAAGATAGCT-ATTTTTCTTCTAAAAACCAAATTTGCTATTT
*
109133 AGTCCCTAAACTTCT-AAGAATTTCATTTCATACCCGAC
129 AGT--CAAAACTTCTGAA-AATTTCATTTCATACCCGAC
**
109171 GAAAAA-TCGAGAGAACAT-ATAAAGTTTTAAAAAAATTTATA-CTCCTATGGAAGACTGTAGGA
1 GAAAAACT-GAGAGAACATGA-AAAGTTTTAAAAAAATTTATATC-CCTATGGAAGACCATAGGA
*
109233 ATAATAAAAATTTAAATGAAATGACTAAGATAGCTATTTTTCTTCTAAAAACTAAATTTGCTATT
63 ATAATAAAAATTTAAATGAAATGACTAAGATAGCTATTTTTCTTCTAAAAACCAAATTTGCTATT
* *
109298 TAGTCAAAAGTTTTGAAAATTTCATTTCATACCCGAC
128 TAGTCAAAACTTCTGAAAATTTCATTTCATACCCGAC
* *
109335 GAAAAACTGAGAGGATATGAAAAGTTTTAAAA
1 GAAAAACTGAGAGAACATGAAAAGTTTTAAAA
109367 TTTTTTATGT
Statistics
Matches: 171, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
164 53 0.31
165 6 0.04
166 110 0.64
167 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (164 bp):
GAAAAACTGAGAGAACATGAAAAGTTTTAAAAAAATTTATATCCCTATGGAAGACCATAGGAATA
ATAAAAATTTAAATGAAATGACTAAGATAGCTATTTTTCTTCTAAAAACCAAATTTGCTATTTAG
TCAAAACTTCTGAAAATTTCATTTCATACCCGAC
Found at i:109699 original size:13 final size:13
Alignment explanation
Indices: 109681--109707 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109671 ACATTATGCT
109681 TTGTATCGATACA
1 TTGTATCGATACA
109694 TTGTATCGATACA
1 TTGTATCGATACA
109707 T
1 T
109708 GCTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:109803 original size:21 final size:21
Alignment explanation
Indices: 109756--109810 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
109746 CTACCACTGT
109756 TTGTATCGATACATGGGACAA
1 TTGTATCGATACATGGGACAA
*
109777 -TGTATCGATACATGATGA-AA
1 TTGTATCGATACATG-GGACAA
109797 TTGTATCGATACAT
1 TTGTATCGATACAT
109811 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGGGACAA
Found at i:111387 original size:3 final size:3
Alignment explanation
Indices: 111379--111403 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
111369 CAATGAAGAG
111379 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
111404 GTGACTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:118490 original size:19 final size:19
Alignment explanation
Indices: 118465--118521 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
118455 TTGTATCGAT
*
118465 ACATTGTATTGATACATGC
1 ACATTGTATCGATACATGC
* * *
118484 TCATTGTATCAATACATGG
1 ACATTGTATCGATACATGC
118503 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
118522 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:118589 original size:13 final size:13
Alignment explanation
Indices: 118571--118619 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
118561 CATGAGATAA
118571 TGTATCGATACAT
1 TGTATCGATACAT
118584 TGTATCGATACA-
1 TGTATCGATACAT
118596 TG-AT-GA-A-AT
1 TGTATCGATACAT
118605 TGTATCGATACAT
1 TGTATCGATACAT
118618 TG
1 TG
118620 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:118592 original size:33 final size:34
Alignment explanation
Indices: 118550--118619 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
118540 CTACCACTGT
118550 TTGTATCGATACATGA-GATAA-TGTATCGATACA
1 TTGTATCGATACATGATGA-AATTGTATCGATACA
118583 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATTGTATCGATACA
118617 TTG
1 TTG
118620 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGATGAAATTGTATCGATACA
Found at i:120997 original size:153 final size:152
Alignment explanation
Indices: 120836--121379 Score: 698
Period size: 153 Copynumber: 3.6 Consensus size: 152
120826 CAAAACCTAG
* * *
120836 AAAATAAATTGAATTTTCTAAAACTAATTTAAGATAAATTAAATAATAATATTTAAAGAATTTTG
1 AAAATAAATTGAATTTT-TAAAACTAATTTAATATAAATTAAACAATAATATTTAAAGAATTTTA
* * *
120901 AAAATTATAAACTTAAAAAAATCCTACTGGAAAAATTTATAGAGTAGAAAACTCCATATTTCGGT
65 AAAATTATAAACTTAGAAAAATCCTAC-GGAAAAATTTATAGAGTAGAAAACTCCGTATTTTGGT
*
120966 AACAGAAAAAATT-TTGAACTCAT
129 AACAGAAAAAATTCTTAAACTCAT
120989 AAAATAAATTGAATTTTCTAAAACTAATTTAATATAAATTAAACAATAATATTTAAAGAATTTTA
1 AAAATAAATTGAATTTT-TAAAACTAATTTAATATAAATTAAACAATAATATTTAAAGAATTTTA
* * * *
121054 AAAATTATAAACTTAGGAAAATCCTACAGGAGAAATATATGGAGTAGAAAACTCCGTATTTTGGT
65 AAAATTATAAACTTAGAAAAATCCTAC-GGAAAAATTTATAGAGTAGAAAACTCCGTATTTTGGT
* *
121119 AATAG-AAAAATTCCTAAACTCAT
129 AACAGAAAAAATTCTTAAACTCAT
* * * * * *
121142 ACAATAAATTAAAATTTTTAAAACTAATTTAATATGAATTAAAAAATAATATTTGAAGAATTTTG
1 AAAATAAATT-GAATTTTTAAAACTAATTTAATATAAATTAAACAATAATATTTAAAGAATTTTA
** * ** ** *
121207 AAAATTATACGCTTAGAAAAATCTTACCAAAAAATTTATAGAGTAGAAAACTTTGTATTTTGATA
65 AAAATTATAAACTTAGAAAAATCCTACGGAAAAATTTATAGAGTAGAAAACTCCGTATTTTGGTA
* * *
121272 GC-GAAAAAATTCTAAAACTTAT
130 ACAGAAAAAATTCTTAAACTCAT
* * * * *
121294 AAAATAAATTGAAATTTTAAAACTGATTTAATACAAATTAAACAATAACATTTGAAGAATTTTAA
1 AAAATAAATTGAATTTTTAAAACTAATTTAATATAAATTAAACAATAATATTTAAAGAATTTTAA
*
121359 AAATTATAAACTGAGAAAAAT
66 AAATTATAAACTTAGAAAAAT
121380 ACCAACAAAA
Statistics
Matches: 339, Mismatches: 49, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
151 66 0.19
152 61 0.18
153 206 0.61
154 6 0.02
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.33
Consensus pattern (152 bp):
AAAATAAATTGAATTTTTAAAACTAATTTAATATAAATTAAACAATAATATTTAAAGAATTTTAA
AAATTATAAACTTAGAAAAATCCTACGGAAAAATTTATAGAGTAGAAAACTCCGTATTTTGGTAA
CAGAAAAAATTCTTAAACTCAT
Found at i:121420 original size:304 final size:306
Alignment explanation
Indices: 120838--121420 Score: 764
Period size: 304 Copynumber: 1.9 Consensus size: 306
120828 AAACCTAGAA
* *
120838 AATAAATTGAATTTTCTAAAACTAATTTAAGATAAATTAAATAATAATATTTAAAGAATTTTGAA
1 AATAAATTAAATTTTCTAAAACTAATTTAAGATAAATTAAAAAATAATATTTAAAGAATTTTGAA
** *
120903 AATTATAAACTTAAAAAAATCCTACTGGAAAAATTTATAGAGTAGAAAACTCCATATTTCGGTAA
66 AATTATAAACTTAAAAAAATCCTACTCAAAAAATTTATAGAGTAGAAAACTCCATATTTCGATAA
** * *
120968 CAGAAAAAATTTTGAACTCATAAAATAAATTGAATTTTCTAAAACTAATTTAATATAAATTAAAC
131 CAGAAAAAATTTAAAACTCATAAAATAAATTGAAATTTCTAAAACTAATTTAATACAAATTAAAC
* * * * * * ***
121033 AATAATATTTAAAGAATTTTAAAAATTATAAACTTAGGAAAATCCTACAGGAGAAATATATGGAG
196 AATAACATTTAAAGAATTTTAAAAATTATAAACTGAGAAAAATCCAACAGAAAAAATATACAAAG
*
121098 TAGAAAACTCCGTATTTTGGTAATAGAAAAATTCCTAAACTCATAC
261 TAGAAAACTCCATATTTTGGTAATAGAAAAATTCCTAAACTCATAC
* * *
121144 AATAAATTAAAATTTT-TAAAACTAATTTAATATGAATTAAAAAATAATATTTGAAGAATTTTGA
1 AATAAATT-AAATTTTCTAAAACTAATTTAAGATAAATTAAAAAATAATATTTAAAGAATTTTGA
** * * *** *
121208 AAATTATACGCTTAGAAAAATCTTAC-CAAAAAATTTATAGAGTAGAAAACTTTGTATTTTGATA
65 AAATTATAAACTTAAAAAAATCCTACTCAAAAAATTTATAGAGTAGAAAACTCCATATTTCGATA
* * *
121272 GC-GAAAAAATTCTAAAACTTATAAAATAAATTGAAATTT-TAAAACTGATTTAATACAAATTAA
130 ACAGAAAAAATT-TAAAACTCATAAAATAAATTGAAATTTCTAAAACTAATTTAATACAAATTAA
* *
121335 ACAATAACATTTGAAGAATTTTAAAAATTATAAACTGAGAAAAATACCAACA-AAAAAATTTACA
194 ACAATAACATTTAAAGAATTTTAAAAATTATAAACTGAGAAAAAT-CCAACAGAAAAAATATACA
*
121399 AAGTCA-AAAACTTCATATTTTG
258 AAGT-AGAAAACTCCATATTTTG
121421 AAAATAAAAA
Statistics
Matches: 237, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
304 96 0.41
305 61 0.26
306 74 0.31
307 6 0.03
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (306 bp):
AATAAATTAAATTTTCTAAAACTAATTTAAGATAAATTAAAAAATAATATTTAAAGAATTTTGAA
AATTATAAACTTAAAAAAATCCTACTCAAAAAATTTATAGAGTAGAAAACTCCATATTTCGATAA
CAGAAAAAATTTAAAACTCATAAAATAAATTGAAATTTCTAAAACTAATTTAATACAAATTAAAC
AATAACATTTAAAGAATTTTAAAAATTATAAACTGAGAAAAATCCAACAGAAAAAATATACAAAG
TAGAAAACTCCATATTTTGGTAATAGAAAAATTCCTAAACTCATAC
Found at i:122628 original size:33 final size:33
Alignment explanation
Indices: 122591--122701 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
122581 TTGATCAAGA
* *
122591 TGAAACCATCACGTCAACAAATGATGACTACGG
1 TGAAACCATCAAGTCAACAAATGATGACTAAGG
* *
122624 TGAAACC-T-AAGTCAA-AAAGGTTGACTAAGG
1 TGAAACCATCAAGTCAACAAATGATGACTAAGG
* * *
122654 TGAAACCATCATGTCAACAAATGATGACTATGA
1 TGAAACCATCAAGTCAACAAATGATGACTAAGG
122687 TGAAACC-T-AAGTCAA
1 TGAAACCATCAAGTCAA
122702 AAAGAGGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
30 19 0.29
31 13 0.20
32 8 0.12
33 25 0.38
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (33 bp):
TGAAACCATCAAGTCAACAAATGATGACTAAGG
Found at i:122745 original size:65 final size:65
Alignment explanation
Indices: 122478--123023 Score: 466
Period size: 65 Copynumber: 8.4 Consensus size: 65
122468 TATAAATTTA
* * * *
122478 AAAGG-TGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAAC
* ** * ***
122542 TTAAAAGG-TGACTAGGGCAAAACCTAAGTTAAAAAGAGGTTGA-TCAAGATGAAACCATCACGT
1 ---AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACT-AAGGCAAAACCATCACGT
122605 CAAC
62 CAAC
* * ** *
122609 AAATGATGACTACGGTGAAACCTAAGTC-AAAA-AGGTTGACTAAGGTGAAACCATCATGTCAAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAAC
* * * * * * * *
122672 AAATGATGACTATGATGAAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATTACATTAAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAAC
* * * * * *
122737 AAAGGATGACCAAGGT-AAATCCTAAGGT-GAAAAGAAGTTGAAT-AGAGCAAAACCATGACATC
1 AAAGGATGACTAAGGTGAAA-CCTAA-GTCAAAAAGAGGTTGACTAAG-GCAAAACCATCACGTC
*
122799 AAT
63 AAC
* * * * * *
122802 AAAAGATGACCAAGATAAAACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATCACGTCAAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAAC
* * ** * **
122867 AAAGGATGACTAAGGTGAAACCTAAGTC-AAAAGAAGTTGACTAGGGTGAAATCATCACGTTGAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAAC
* * * * *
122931 AAAGGATGAC-CAGGATGGAACCTAAGTCAAAAAGAGGTTGATTAGGGCAAAACCGTCACGTCAA
1 AAAGGATGACTAAGG-TGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAA
122995 C
65 C
* *
122996 AAAAAGG-TGACTAGGGTAAAACCTAAGT
1 --AAAGGATGACTAAGGTGAAACCTAAGT
123024 TGAAAAGAAG
Statistics
Matches: 395, Mismatches: 68, Indels: 33
0.80 0.14 0.07
Matches are distributed among these distances:
63 56 0.14
64 69 0.17
65 186 0.47
66 21 0.05
67 63 0.16
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (65 bp):
AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACTAAGGCAAAACCATCACGTCAAC
Found at i:122845 original size:32 final size:31
Alignment explanation
Indices: 122808--122907 Score: 94
Period size: 33 Copynumber: 3.1 Consensus size: 31
122798 CAATAAAAGA
*
122808 TGACCAAGATAAAACCTAAGTCGAAAAGAGGT
1 TGACCAAGGTAAAACCTAAGTC-AAAAGAGGT
* * *
122840 TGACCAAGGCAAAACCATCACGTCAACAA-AGGA
1 TGACCAAGGTAAAACC-T-AAGTCAA-AAGAGGT
* * *
122873 TGACTAAGGTGAAACCTAAGTCAAAAGAAGT
1 TGACCAAGGTAAAACCTAAGTCAAAAGAGGT
122904 TGAC
1 TGAC
122908 TAGGGTGAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
30 2 0.04
31 12 0.22
32 15 0.28
33 19 0.35
34 6 0.11
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (31 bp):
TGACCAAGGTAAAACCTAAGTCAAAAGAGGT
Found at i:123633 original size:76 final size:74
Alignment explanation
Indices: 123468--123648 Score: 184
Period size: 76 Copynumber: 2.4 Consensus size: 74
123458 TGGTTTTCAC
* * * * *
123468 AATTTCCTATCAATAGCCAAAACGAATTAATGACAAGTTGGAAAAAAAAACACAATGGGGAATAT
1 AATTTCC-ATCAATAGCCAAAACAAATTGATGACAAGCTGCAAAAAAAAACACAATGGAGAATAT
*
123533 ATGTTTCTAA
65 ATGCTTCTAA
** * * * * *
123543 AATTTTTATTAATAGTCGAAACAAATTGATGACAAGCTGCAGGAAAAGAACA-ACATGGAGAATA
1 AATTTCCATCAATAGCCAAAACAAATTGATGACAAGCTGCA-AAAAAAAACACA-ATGGAGAATA
*
123607 TGTGACTTCTAA
64 TATG-CTTCTAA
*
123619 AATTTCCATCAATAGCCAAAACAAGTTGAT
1 AATTTCCATCAATAGCCAAAACAAATTGAT
123649 AATGGCCTAA
Statistics
Matches: 83, Mismatches: 20, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
74 28 0.34
75 25 0.30
76 30 0.36
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (74 bp):
AATTTCCATCAATAGCCAAAACAAATTGATGACAAGCTGCAAAAAAAAACACAATGGAGAATATA
TGCTTCTAA
Found at i:123696 original size:76 final size:75
Alignment explanation
Indices: 123616--123858 Score: 279
Period size: 76 Copynumber: 3.2 Consensus size: 75
123606 ATGTGACTTC
* * ** ** *
123616 TAAAATTTCCATCAATAGCCAAAACAAGTTGATAATGGCCTAAAGAAGAAGAACATGATGGGGAA
1 TAAAATTTCCATCAACAACCAAAACAAACTGATAAAAGCTTAAA-AAGAAGAACATGATGGGGAA
123681 TATGTTGTTTT
65 TATGTTGTTTT
** * * *
123692 TAAAATTTTTATCAACAACCAAAACAAACTGATAACAGCTTGAAAAAGAAGAACATAATGGGAAA
1 TAAAATTTCCATCAACAACCAAAACAAACTGATAAAAGCTT-AAAAAGAAGAACATGATGGGGAA
*
123757 TATGTTGTTTC
65 TATGTTGTTTT
** * * * *
123768 TAAAATTTTTATCAACAACTAAAACAAAACTGATAAAAACTTAAAAAAGAAAAACATGATAGGGA
1 TAAAATTTCCATCAACAACCAAAAC-AAACTGATAAAAGCTT-AAAAAGAAGAACATGATGGGGA
123833 ATATGTTGTTTT
64 ATATGTTGTTTT
123845 TAAAATTTCCATCA
1 TAAAATTTCCATCA
123859 GCTTAAAAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
76 84 0.59
77 58 0.41
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (75 bp):
TAAAATTTCCATCAACAACCAAAACAAACTGATAAAAGCTTAAAAAGAAGAACATGATGGGGAAT
ATGTTGTTTT
Found at i:123842 original size:77 final size:75
Alignment explanation
Indices: 123656--123852 Score: 286
Period size: 76 Copynumber: 2.6 Consensus size: 75
123646 GATAATGGCC
*
123656 TAAAGAAGAAGAACATGATGGGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAAC
1 TAAAAAAGAAGAACATGAT-GGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAAC
* *
123721 TGATAACAGCT
65 TGATAAAAACT
* * * *
123732 TGAAAAAGAAGAACATAATGGGAAATATGTTGTTTCTAAAATTTTTATCAACAACTAAAACAAAA
1 TAAAAAAGAAGAACATGATGGG-AATATGTTGTTTTTAAAATTTTTATCAACAACCAAAAC-AAA
123797 CTGATAAAAACT
64 CTGATAAAAACT
*
123809 TAAAAAAGAAAAACATGATAGGGAATATGTTGTTTTTAAAATTT
1 TAAAAAAGAAGAACATGAT-GGGAATATGTTGTTTTTAAAATTT
123853 CCATCAGCTT
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
75 3 0.03
76 52 0.49
77 49 0.46
78 3 0.03
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (75 bp):
TAAAAAAGAAGAACATGATGGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAACT
GATAAAAACT
Found at i:125402 original size:111 final size:111
Alignment explanation
Indices: 125205--125530 Score: 412
Period size: 111 Copynumber: 2.9 Consensus size: 111
125195 CTCTGGCTAG
* * *
125205 CTCAAAAATTTCAGAACTAATAGGATGCAT-CCC-ATTTTCCTAGG-TACGAATGGATCTGGTCG
1 CTCAAAAATTTCAAAACTAATAGGATGCATGCCCTATTTTCCTAGGCT-CGAATGGATCAGGTTG
* * *
125267 TATAAAATATGAATTTTTTAAAAATTAGACAAATTTGATGTCGTTGT
65 TATAAAATATGAATTTTTTGAAAATCAGACAAATTTGATGTCATTGT
* * * * *
125314 CTCAAAAATTTCAAAACTAATAAGATACATGCCCTATTTTCTTAGGCTCAAATGGATCAGGTTGC
1 CTCAAAAATTTCAAAACTAATAGGATGCATGCCCTATTTTCCTAGGCTCGAATGGATCAGGTTGT
** *
125379 ATAAAATATGAATTTGATGAAAATCAGA-AAGATTTGATGTCATTTT
66 ATAAAATATGAATTTTTTGAAAATCAGACAA-ATTTGATGTCATTGT
* *
125425 CTCAAAAATTTCAAAACTAATAGGATGTATG-CCTCATTTTCCTAGGCAT-GAATGGATCAAGTT
1 CTCAAAAATTTCAAAACTAATAGGATGCATGCCCT-ATTTTCCTAGGC-TCGAATGGATCAGGTT
*
125488 GTATAAAATATGAATTTCTTTGAAAATCAAACAAATTTGATGT
64 GTATAAAATATGAATTT-TTTGAAAATCAGACAAATTTGATGT
125531 TCTTTCAAGT
Statistics
Matches: 185, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
109 27 0.15
110 8 0.04
111 127 0.69
112 21 0.11
113 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (111 bp):
CTCAAAAATTTCAAAACTAATAGGATGCATGCCCTATTTTCCTAGGCTCGAATGGATCAGGTTGT
ATAAAATATGAATTTTTTGAAAATCAGACAAATTTGATGTCATTGT
Found at i:126466 original size:21 final size:20
Alignment explanation
Indices: 126440--126494 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
126430 TACAACTAAA
126440 TTTTCTTGTTGTTTTTCCTTT
1 TTTTCTTGTT-TTTTTCCTTT
* **
126461 TTTTCTTTTTTTTTTGGTTT
1 TTTTCTTGTTTTTTTCCTTT
*
126481 TTTTTTTGTTTTTT
1 TTTTCTTGTTTTTT
126495 AAAAATCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (20 bp):
TTTTCTTGTTTTTTTCCTTT
Found at i:126472 original size:11 final size:11
Alignment explanation
Indices: 126458--126494 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
126448 TTGTTTTTCC
*
126458 TTTTTTTCTTT
1 TTTTTTTGTTT
126469 TTTTTTTGGTTT
1 TTTTTTT-GTTT
126481 TTTTTTTGTTT
1 TTTTTTTGTTT
126492 TTT
1 TTT
126495 AAAAATCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:128706 original size:19 final size:20
Alignment explanation
Indices: 128679--128729 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
128669 ACAATTCAGT
128679 ATGTATCGATACCAAG-AAC
1 ATGTATCGATACCAAGCAAC
* * *
128698 ATGTGTCGATACTAAGCAAT
1 ATGTATCGATACCAAGCAAC
128718 ATGTATCGATAC
1 ATGTATCGATAC
128730 ATCTGGGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACCAAGCAAC
Found at i:135834 original size:3 final size:3
Alignment explanation
Indices: 135826--135850 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
135816 CGAGTCAACT
135826 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
135851 TGATGGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:136609 original size:34 final size:35
Alignment explanation
Indices: 136571--136637 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
136561 CCTTACAACA
136571 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
136605 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
136638 AATTACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:137115 original size:13 final size:13
Alignment explanation
Indices: 137097--137122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
137087 AATTTTTTTG
137097 TGTATCGATACAT
1 TGTATCGATACAT
137110 TGTATCGATACAT
1 TGTATCGATACAT
137123 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:137861 original size:21 final size:21
Alignment explanation
Indices: 137818--137863 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
137808 TAATTCACGC
* *
137818 ATTCTCCCCCATTTATTAATA
1 ATTCTCCCCCATTAATCAATA
137839 ATTCTCCCCC-TTAATCAAGTA
1 ATTCTCCCCCATTAATCAA-TA
137860 ATTC
1 ATTC
137864 ATATCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTCTCCCCCATTAATCAATA
Found at i:138950 original size:13 final size:13
Alignment explanation
Indices: 138932--138956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138922 ACTGAAGTAA
138932 TGTATCGATACAT
1 TGTATCGATACAT
138945 TGTATCGATACA
1 TGTATCGATACA
138957 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:140565 original size:84 final size:84
Alignment explanation
Indices: 140477--140641 Score: 208
Period size: 84 Copynumber: 2.0 Consensus size: 84
140467 CATTTTCCAC
* * * * * *
140477 TTGCAACTCATTTC-TTTTCTCCTCTATTTCATTTATTTTCTTTTTAAAAGAAAT-ATTTTCTAA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAA-AAATCATTCTCTAA
140540 ACTCATTGATTTATTTTCATT
64 ACTCATTGATTTATTTTCATT
* * *
140561 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAAAATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
*
140626 TTATTGATTTATTTTC
66 TCATTGATTTATTTTC
140642 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 8 0.12
84 61 0.88
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
TCATTGATTTATTTTCATT
Found at i:141054 original size:21 final size:21
Alignment explanation
Indices: 141030--141071 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
141020 ATCCATTTCT
* *
141030 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
141051 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
141072 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:142202 original size:34 final size:35
Alignment explanation
Indices: 142164--142230 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
142154 CCTTACAACA
142164 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
142198 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
142231 AATTACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:142703 original size:13 final size:13
Alignment explanation
Indices: 142685--142710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142675 AATTTTTTTG
142685 TGTATCGATACAT
1 TGTATCGATACAT
142698 TGTATCGATACAT
1 TGTATCGATACAT
142711 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:143448 original size:21 final size:21
Alignment explanation
Indices: 143405--143450 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
143395 TAATTCACGC
* *
143405 ATTCTCCCCCGTTTATTAATA
1 ATTCTCCCCCGTTAATCAATA
143426 ATTCTCCCCC-TTAATCAAGTA
1 ATTCTCCCCCGTTAATCAA-TA
143447 ATTC
1 ATTC
143451 ATATCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.39
Consensus pattern (21 bp):
ATTCTCCCCCGTTAATCAATA
Found at i:144536 original size:13 final size:13
Alignment explanation
Indices: 144518--144542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144508 ACTGAAGTAA
144518 TGTATCGATACAT
1 TGTATCGATACAT
144531 TGTATCGATACA
1 TGTATCGATACA
144543 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:146149 original size:84 final size:84
Alignment explanation
Indices: 146061--146225 Score: 208
Period size: 84 Copynumber: 2.0 Consensus size: 84
146051 CATTTTCCAC
* * * * * *
146061 TTGCAACTCATTTC-TTTTCTCCTCTATTTCATTTATTTTCTTTTTAAAAGAAAT-ATTTTCTAA
1 TTGCAACTC-TTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAA-AAATCATTCTCTAA
146124 ACTCATTGATTTATTTTCATT
64 ACTCATTGATTTATTTTCATT
* * *
146145 TTGCAACTCTTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAAAATCATTCTCTACAC
1 TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
*
146210 TTATTGATTTATTTTC
66 TCATTGATTTATTTTC
146226 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 8 0.12
84 61 0.88
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCTTTCATATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAAAATCATTCTCTAAAC
TCATTGATTTATTTTCATT
Found at i:146637 original size:21 final size:21
Alignment explanation
Indices: 146613--146654 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
146603 ATCCATTTCT
* *
146613 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
146634 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
146655 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:147785 original size:34 final size:35
Alignment explanation
Indices: 147747--147813 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
147737 CCTTACAACA
147747 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
147781 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
147814 AATTACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:148288 original size:13 final size:13
Alignment explanation
Indices: 148270--148295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148260 AATTTTTTTG
148270 TGTATCGATACAT
1 TGTATCGATACAT
148283 TGTATCGATACAT
1 TGTATCGATACAT
148296 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
Done.