Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 116 of 203
Found at i:36677657 original size:10 final size:10
Alignment explanation
Indices: 36677575--36677679 Score: 56
Period size: 10 Copynumber: 10.6 Consensus size: 10
36677565 TTCTTACGAC
*
36677575 TTTATAAAAT
1 TTTATAAATT
*
36677585 TTTATAATTTT
1 TTTATAA-ATT
* *
36677596 TTTTTATATT
1 TTTATAAATT
* *
36677606 TCTATATA-T
1 TTTATAAATT
36677615 TTTAT-AATT
1 TTTATAAATT
*
36677624 TTTTTAAGATT
1 TTTATAA-ATT
*
36677635 TTTATAAAAT
1 TTTATAAATT
*
36677645 TTTATAACTT
1 TTTATAAATT
*
36677655 TTT-TATATT
1 TTTATAAATT
*
36677664 TTT-TACTATT
1 TTTATA-AATT
36677674 TTTATA
1 TTTATA
36677680 TTTTTTCTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
8 1 0.01
9 19 0.26
10 36 0.49
11 17 0.23
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTATAAATT
Found at i:36677675 original size:18 final size:18
Alignment explanation
Indices: 36677654--36677701 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
36677644 TTTTATAACT
36677654 TTTTTATATTTTTTACT-A
1 TTTTTATATTTTTT-CTAA
36677672 TTTTTATATTTTTTCTAA
1 TTTTTATATTTTTTCTAA
36677690 TTTTTA-ATTTTT
1 TTTTTATATTTTT
36677702 AATATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATTTTTTCTAA
Found at i:36677708 original size:9 final size:9
Alignment explanation
Indices: 36677595--36677709 Score: 51
Period size: 10 Copynumber: 12.4 Consensus size: 9
36677585 TTTATAATTT
*
36677595 TTTTTTATA
1 TTTTTAATA
*
36677604 TTTCTATATA
1 TTTTTA-ATA
*
36677614 TTTTATAATT
1 TTTT-TAATA
*
36677624 TTTTTAAGA
1 TTTTTAATA
*
36677633 TTTTTATAAAA
1 -TTTT-TAATA
36677644 TTTTATAACT-
1 TTTT-TAA-TA
36677654 TTTTT-ATA
1 TTTTTAATA
*
36677662 TTTTTTACTA
1 -TTTTTAATA
36677672 TTTTT-ATA
1 TTTTTAATA
**
36677680 TTTTTTCTAA
1 TTTTTAAT-A
36677690 TTTTT-A-A
1 TTTTTAATA
36677697 TTTTTAATA
1 TTTTTAATA
36677706 TTTT
1 TTTT
36677710 ATTTTTATTA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
7 7 0.09
8 9 0.11
9 24 0.29
10 36 0.44
11 6 0.07
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:36681353 original size:21 final size:21
Alignment explanation
Indices: 36681314--36681353 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36681304 ATTATTTTTA
*
36681314 ATATATTTTATGTGTATATGC
1 ATATATTTTATGTGAATATGC
* *
36681335 ATATATTTTTTTTGAATAT
1 ATATATTTTATGTGAATAT
36681354 TCTATTATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (21 bp):
ATATATTTTATGTGAATATGC
Found at i:36686639 original size:15 final size:15
Alignment explanation
Indices: 36686596--36686641 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
36686586 TAAGCAAACC
*
36686596 TATTAATTATAAT-T
1 TATTAATTAAAATAT
*
36686610 TATTAAATAAAAATAT
1 TATT-AATTAAAATAT
36686626 TATTAATTAAAATAT
1 TATTAATTAAAATAT
36686641 T
1 T
36686642 GTTTCGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATTAAAATAT
Found at i:36686796 original size:32 final size:32
Alignment explanation
Indices: 36686760--36686822 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
36686750 TTTTAAACTT
* * *
36686760 ATAAATTGATTATTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTAAATTTAATAACTCATG
*
36686792 ATAAATTAATTAATTAAATTTGATAACTCAT
1 ATAAATTAATTAATTAAATTTAATAACTCAT
36686823 ACTGGTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTAAATTTAATAACTCATG
Found at i:36688692 original size:19 final size:19
Alignment explanation
Indices: 36688668--36688715 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
36688658 TTGTTTAAGT
* *
36688668 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
36688687 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
36688707 -TAATATATT
1 TTAATATATT
36688716 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:36688754 original size:22 final size:20
Alignment explanation
Indices: 36688713--36688756 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
36688703 ATTATAATAT
*
36688713 ATTATTATTTTGAATCTATC
1 ATTATTATTTTAAATCTATC
*
36688733 ATTATTATATTATAAATTTATC
1 ATTATTAT-TT-TAAATCTATC
36688755 AT
1 AT
36688757 GTTTTATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATTATTTTAAATCTATC
Found at i:36689075 original size:29 final size:29
Alignment explanation
Indices: 36689043--36689109 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
36689033 ATTTTATCTC
* *
36689043 TTTCAA-ATATTTTAACATTTTTTAATTTA
1 TTTCAACATATTTCAACA-TTGTTAATTTA
* *
36689072 TTTCAACTTATTTCAATATTGTTAATTTA
1 TTTCAACATATTTCAACATTGTTAATTTA
*
36689101 TTTTAACAT
1 TTTCAACAT
36689110 TTTAATTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTCAACATATTTCAACATTGTTAATTTA
Found at i:36689116 original size:18 final size:19
Alignment explanation
Indices: 36689079--36689116 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
36689069 TTATTTCAAC
*
36689079 TTATTTCAATATTGTTAAT
1 TTATTTCAACATTGTTAAT
*
36689098 TTATTTTAACATT-TTAAT
1 TTATTTCAACATTGTTAAT
36689116 T
1 T
36689117 CATATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (19 bp):
TTATTTCAACATTGTTAAT
Found at i:36690368 original size:19 final size:17
Alignment explanation
Indices: 36690344--36690379 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
36690334 GATTAGTTTC
36690344 CAATTCAACAAATTCGATT
1 CAATTCAA-AAATT-GATT
36690363 CAATTCAAAAATTGATT
1 CAATTCAAAAATTGATT
36690380 GTTGCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
CAATTCAAAAATTGATT
Found at i:36696586 original size:24 final size:26
Alignment explanation
Indices: 36696559--36696620 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
36696549 TGGCTCGTAT
* *
36696559 AAGCTTCCCGTTA-ATGGCTCTC-TG
1 AAGCTTCCCGTTACATGACTCACATG
*
36696583 AAGCTTCCCATTACATGACTCACATG
1 AAGCTTCCCGTTACATGACTCACATG
36696609 AA-CTTCCCGTTA
1 AAGCTTCCCGTTA
36696621 TATAGCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 16 0.50
26 4 0.12
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (26 bp):
AAGCTTCCCGTTACATGACTCACATG
Found at i:36701399 original size:18 final size:18
Alignment explanation
Indices: 36701364--36701397 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36701354 TTTTGAATGG
*
36701364 AATATACATTTTATTTTA
1 AATATACATATTATTTTA
36701382 AATATA-ATATTATTTT
1 AATATACATATTATTTT
36701398 TATTTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATACATATTATTTTA
Found at i:36704831 original size:54 final size:54
Alignment explanation
Indices: 36704751--36704865 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
36704741 TCGTAATAGG
*
36704751 ACACACGGACGTGTCCTAGCCTGTGTGTCT-GACCGTGCAACACACTGACTTGAC
1 ACACACGGACGTGTCCTAGCCTGTGTGT-TAGACCGTACAACACACTGACTTGAC
* ** * * * *
36704805 ACACACGGTCGTGTTGTAGGCC-GTGTGTTAGCCCGTATAACTCACTGACTTGAG
1 ACACACGGACGTGTCCTA-GCCTGTGTGTTAGACCGTACAACACACTGACTTGAC
36704859 ACACACG
1 ACACACG
36704866 ACTATGTCGC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.02
54 47 0.92
55 3 0.06
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (54 bp):
ACACACGGACGTGTCCTAGCCTGTGTGTTAGACCGTACAACACACTGACTTGAC
Found at i:36705678 original size:40 final size:40
Alignment explanation
Indices: 36705634--36705774 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
36705624 ACGGATGTGC
* * *
36705634 ACAGGGGCATGTATGTGTATTCAAGGGTATCAAAGTGCAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* * * *
36705674 ACAGGTGCACGCATGTGCATTCAGGGGTATCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* *
36705714 ACAGTGGCATGTATGTGCATTC-AGGAGTACCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGG-GTATCGAAGTACAA
* **
36705754 ACATGGGCAAATATGTGCATT
1 ACAGGGGCATGTATGTGCATT
36705775 TAGGGGCACT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.02
40 81 0.98
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.23
Consensus pattern (40 bp):
ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
Found at i:36712598 original size:15 final size:15
Alignment explanation
Indices: 36712578--36712608 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36712568 GACCGGTTAA
36712578 AAGCCCTGTTAACTG
1 AAGCCCTGTTAACTG
36712593 AAGCCCTGTTAACTG
1 AAGCCCTGTTAACTG
36712608 A
1 A
36712609 TGCACCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (15 bp):
AAGCCCTGTTAACTG
Found at i:36715672 original size:29 final size:29
Alignment explanation
Indices: 36715639--36715700 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
36715629 AAAAACGGAG
36715639 TTAGATCGTGGAAAAGAAAAAGTA-CTAGA
1 TTAGATCGTGGAAAAGAAAAAGTATC-AGA
36715668 TTAGATCGTGGAAAAGAAAAAGTATCAGA
1 TTAGATCGTGGAAAAGAAAAAGTATCAGA
36715697 TTAG
1 TTAG
36715701 TAGTTTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (29 bp):
TTAGATCGTGGAAAAGAAAAAGTATCAGA
Found at i:36716216 original size:24 final size:24
Alignment explanation
Indices: 36716184--36716242 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
36716174 GCTATCCGGT
*
36716184 GCTACCCGTTAATTGCTCTTCGGA
1 GCTACCCGTTAATTACTCTTCGGA
*
36716208 GCTACCCGTTAATTACTCTTTGGA
1 GCTACCCGTTAATTACTCTTCGGA
36716232 GCTACCCGTTA
1 GCTACCCGTTA
36716243 TAGCCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.34
Consensus pattern (24 bp):
GCTACCCGTTAATTACTCTTCGGA
Found at i:36716253 original size:24 final size:22
Alignment explanation
Indices: 36716184--36716269 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 22
36716174 GCTATCCGGT
* *
36716184 GCTACCCGTTAATTGCTCTTCGGA
1 GCTACCCGTT-A-TACTCTTTGGA
36716208 GCTACCCGTTAATTACTCTTTGGA
1 GCTACCCGTT-A-TACTCTTTGGA
*
36716232 GCTACCCGTTATAGCCTTTTTGTGA
1 GCTACCCGTTATA--CTCTTTG-GA
*
36716257 GCTTCCCGTTATA
1 GCTACCCGTTATA
36716270 TTGCCCGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 38 0.69
25 14 0.25
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (22 bp):
GCTACCCGTTATACTCTTTGGA
Found at i:36716324 original size:24 final size:24
Alignment explanation
Indices: 36716254--36716324 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
36716244 AGCCTTTTTG
* ***
36716254 TGAGCTTCCCGTTATATTGCCCGGA
1 TGAGCTTCCCGTTATAGTG-CTTAA
* *
36716279 TAAGCTTCCCGTTACAAG-GCTTAA
1 TGAGCTTCCCGTTA-TAGTGCTTAA
36716303 TGAGCTTCCCGTTATAGTGCTT
1 TGAGCTTCCCGTTATAGTGCTT
36716325 GAGAGAAAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.53
25 14 0.39
26 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (24 bp):
TGAGCTTCCCGTTATAGTGCTTAA
Found at i:36720621 original size:13 final size:13
Alignment explanation
Indices: 36720605--36720634 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36720595 TTTTTACATT
*
36720605 TTAATTTTCTTAG
1 TTAATTTACTTAG
36720618 TTAATTTACTTAG
1 TTAATTTACTTAG
36720631 TTAA
1 TTAA
36720635 AATCTAGTTT
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:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:36721464 original size:20 final size:20
Alignment explanation
Indices: 36721436--36721473 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36721426 ATACTTAAAC
36721436 AAAAAGTAT-TGATATCTTAT
1 AAAAAGTATCT-ATATCTTAT
*
36721456 AAAAGGTATCTATATCTT
1 AAAAAGTATCTATATCTT
36721474 TGCACAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAAAGTATCTATATCTTAT
Found at i:36731660 original size:21 final size:22
Alignment explanation
Indices: 36731613--36731661 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
36731603 TCGCCATCTT
36731613 CTTCAACACTACTATTTAAACC
1 CTTCAACACTACTATTTAAACC
* * * *
36731635 TTTCATCACT-CTCTTTTAACC
1 CTTCAACACTACTATTTAAACC
36731656 CTTCAA
1 CTTCAA
36731662 TAGATGCATC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTTCAACACTACTATTTAAACC
Found at i:36731796 original size:48 final size:47
Alignment explanation
Indices: 36731703--36731806 Score: 136
Period size: 48 Copynumber: 2.2 Consensus size: 47
36731693 CTCACCACCC
*
36731703 TCACCACCTTCACTGCCAACAACCTCAACACCCTCCCCACCTAAACTT
1 TCACCACC-TCACTGCCAACAACCTCAACACCCTCCCCACCTAAACCT
* * **
36731751 TCACCACTCTCACTGCCAGCAACCTTAACACCCTCCCCATTTAAACCT
1 TCACCAC-CTCACTGCCAACAACCTCAACACCCTCCCCACCTAAACCT
*
36731799 TCAACACC
1 TCACCACC
36731807 CTCAACACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
47 1 0.02
48 47 0.96
49 1 0.02
ACGTcount: A:0.29, C:0.48, G:0.03, T:0.20
Consensus pattern (47 bp):
TCACCACCTCACTGCCAACAACCTCAACACCCTCCCCACCTAAACCT
Found at i:36732779 original size:28 final size:29
Alignment explanation
Indices: 36732661--36732785 Score: 87
Period size: 29 Copynumber: 4.4 Consensus size: 29
36732651 TCAAAAATTG
*** *
36732661 AAAACCCTAAACAAAAGCCCCCAAAATCA
1 AAAACCCTAAACAAAAATTCCCAAACTCA
* * *
36732690 AAATACCCT--A-AAAAATCCCCAAAATTA
1 AAA-ACCCTAAACAAAAATTCCCAAACTCA
* * * * * *
36732717 AAATCCTTAATCGAAAATTCCCAAATTCG
1 AAAACCCTAAACAAAAATTCCCAAACTCA
*
36732746 ACAA-CCTAAACAAAAATTCCCAAACTCA
1 AAAACCCTAAACAAAAATTCCCAAACTCA
36732774 AAAACCCTAAAC
1 AAAACCCTAAAC
36732786 CGAAATAATA
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.04
27 17 0.24
28 23 0.32
29 24 0.33
30 5 0.07
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (29 bp):
AAAACCCTAAACAAAAATTCCCAAACTCA
Found at i:36732941 original size:2 final size:2
Alignment explanation
Indices: 36732934--36732958 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36732924 TTCACTGTCT
36732934 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
36732959 TGATTAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:36740284 original size:21 final size:22
Alignment explanation
Indices: 36740259--36740304 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36740249 TCAAAAGTTG
36740259 AAAAAT-TATATTTTAAAATAAT
1 AAAAATATATA-TTTAAAATAAT
* *
36740281 AAAAATATATATTTGAAATTAT
1 AAAAATATATATTTAAAATAAT
36740303 AA
1 AA
36740305 TGCGAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAAATATATATTTAAAATAAT
Found at i:36748006 original size:20 final size:20
Alignment explanation
Indices: 36747981--36748046 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
36747971 TAATGGAAAG
36747981 AAATCAAAGGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
* * * **
36748001 AAATCAATGTAATG-GAAAG
1 AAATCAAAGGATTGAGAATC
*
36748020 AAATCAAAAGATTGAGAATC
1 AAATCAAAGGATTGAGAATC
36748040 AAATCAA
1 AAATCAA
36748047 TGTAAACAAG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCAAAGGATTGAGAATC
Found at i:36748024 original size:39 final size:39
Alignment explanation
Indices: 36747970--36748051 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
36747960 AAGCAAAACA
*
36747970 GTAATGGAAAGAAATCAAAGGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
36748009 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
36748048 GTAA
1 GTAA
36748052 ACAAGATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:36748025 original size:19 final size:19
Alignment explanation
Indices: 36747969--36748027 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
36747959 GAAGCAAAAC
36747969 AGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
* * **
36747988 AGGATTGAGAATCAAATCAA
1 AGTAATG-GAAAGAAATCAA
*
36748008 TGTAATGGAAAGAAATCAA
1 AGTAATGGAAAGAAATCAA
36748027 A
1 A
36748028 AGATTGAGAA
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (19 bp):
AGTAATGGAAAGAAATCAA
Found at i:36748241 original size:3 final size:3
Alignment explanation
Indices: 36748233--36748258 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36748223 TTTTATTTAT
36748233 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
36748259 TTCTCCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36748935 original size:48 final size:48
Alignment explanation
Indices: 36748881--36749040 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 48
36748871 TTTTTAAGTT
*
36748881 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
** * * *
36748929 TATATATGTACGTA-TATATATAAT-ACTTTCTATACATATTT-TATAATTTCTATA
1 TATATATGTAATTATTAT-TTTTATGA--TT-TAT--ATATTTAT-TAA-CT-TATA
* * * *
36748983 TATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
36749031 TATATATGTA
1 TATATATGTA
36749041 CGTATATATT
Statistics
Matches: 84, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
47 4 0.05
48 29 0.35
49 3 0.04
50 12 0.14
51 2 0.02
52 11 0.13
53 2 0.02
54 17 0.20
55 4 0.05
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (48 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTAACTTATA
Found at i:36748967 original size:20 final size:20
Alignment explanation
Indices: 36748944--36748994 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
36748934 ATGTACGTAT
*
36748944 ATATATAATACTTTCTATAC
1 ATATATAATAATTTCTATAC
* * *
36748964 ATATTTTATAATTTCTATAT
1 ATATATAATAATTTCTATAC
36748984 ATATAT-ATAAT
1 ATATATAATAAT
36748995 CATTATCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATAATAATTTCTATAC
Found at i:36754149 original size:17 final size:17
Alignment explanation
Indices: 36754120--36754156 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
36754110 ATATATATAT
36754120 ATTTAAAATTT-AATTA
1 ATTTAAAATTTAAATTA
36754136 ATTTAAATATTTAAATTA
1 ATTTAAA-ATTTAAATTA
36754154 ATT
1 ATT
36754157 GAGTCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAAATTTAAATTA
Found at i:36757712 original size:68 final size:68
Alignment explanation
Indices: 36757603--36757739 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
36757593 GCTTCTAATA
*
36757603 ATACTGGCTCCATACCTGCTTATAGGCCATCGTCTTCTAATCGAGGGCGTGGGAGAGGGCGCTTT
1 ATACTGGCTCCATACCTGCTTATAGGCCATCGTCTTCTAATCGAGGGCGTGGGAGAGGGCGCTCT
36757668 GCT
66 GCT
36757671 ATACTGGCTCCATACCTGCTTATAGGCCATCGTCTTCTAATCGAGGGCGTGGGAGAGGGCGCTCT
1 ATACTGGCTCCATACCTGCTTATAGGCCATCGTCTTCTAATCGAGGGCGTGGGAGAGGGCGCTCT
36757736 GCT
66 GCT
36757739 A
1 A
36757740 ACTCAAGAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (68 bp):
ATACTGGCTCCATACCTGCTTATAGGCCATCGTCTTCTAATCGAGGGCGTGGGAGAGGGCGCTCT
GCT
Found at i:36760418 original size:62 final size:62
Alignment explanation
Indices: 36760344--36760467 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
36760334 TACTCATGGT
36760344 TTATGTTGATGACATTGTTCTTACAGGCAGTTCGGATCATGATATGGCAGATGTTGTTCTTC
1 TTATGTTGATGACATTGTTCTTACAGGCAGTTCGGATCATGATATGGCAGATGTTGTTCTTC
*
36760406 TTATGTTGATGACATTGTTTTTACAGGCAGTTCGGATCATGATATGGCAGATGTTGTTCTTC
1 TTATGTTGATGACATTGTTCTTACAGGCAGTTCGGATCATGATATGGCAGATGTTGTTCTTC
36760468 AGCTGCATAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (62 bp):
TTATGTTGATGACATTGTTCTTACAGGCAGTTCGGATCATGATATGGCAGATGTTGTTCTTC
Found at i:36764981 original size:25 final size:25
Alignment explanation
Indices: 36764950--36765024 Score: 69
Period size: 32 Copynumber: 2.7 Consensus size: 25
36764940 AAGATATTCG
*
36764950 AAATATTTTAATATAATTTAATATA
1 AAATATTTTAATATAATTTAAAATA
36764975 AAATATTTAATTTCAAAATATAATTTAAAATA
1 AAATA--T--TTT---AATATAATTTAAAATA
*
36765007 AAATATTTGAATATAATT
1 AAATATTTTAATATAATT
36765025 ATATTAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
25 14 0.34
27 1 0.02
28 2 0.05
29 3 0.07
30 1 0.02
32 20 0.49
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AAATATTTTAATATAATTTAAAATA
Found at i:36765054 original size:14 final size:14
Alignment explanation
Indices: 36765019--36765047 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36765009 ATATTTGAAT
36765019 ATAATTATATTAAA
1 ATAATTATATTAAA
36765033 ATAATTATATTAAA
1 ATAATTATATTAAA
36765047 A
1 A
36765048 ATATTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTATATTAAA
Found at i:36765740 original size:12 final size:12
Alignment explanation
Indices: 36765723--36765748 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36765713 CTTTTCCCTT
36765723 CCATCGGTTCTG
1 CCATCGGTTCTG
36765735 CCATCGGTTCTG
1 CCATCGGTTCTG
36765747 CC
1 CC
36765749 GTCGCTTAAT
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:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:36769122 original size:10 final size:10
Alignment explanation
Indices: 36769007--36769123 Score: 80
Period size: 10 Copynumber: 11.6 Consensus size: 10
36768997 AAAAATAATA
*
36769007 AAAAACTTAT
1 AAAAATTTAT
*
36769017 AAATA-TTAT
1 AAAAATTTAT
* *
36769026 AAAAAATTCT
1 AAAAATTTAT
*
36769036 AATAATTTATT
1 AAAAATTTA-T
*
36769047 AAAACTTTAT
1 AAAAATTTAT
36769057 -AAAA-TTATT
1 AAAAATTTA-T
36769066 AAAATATATT-T
1 AAAA-AT-TTAT
*
36769077 AAAATTTTAT
1 AAAAATTTAT
36769087 AAAAGATTTAT
1 AAAA-ATTTAT
* *
36769098 AAACATTCAT
1 AAAAATTTAT
36769108 AAAAATTTAT
1 AAAAATTTAT
36769118 AAAAAT
1 AAAAAT
36769124 AATAAATTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
8 3 0.04
9 14 0.17
10 42 0.51
11 22 0.27
13 2 0.02
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:36769140 original size:17 final size:16
Alignment explanation
Indices: 36769106--36769138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36769096 ATAAACATTC
36769106 ATAAAAATTTATAAAA
1 ATAAAAATTTATAAAA
36769122 ATAATAAA-TTATAAAA
1 ATAA-AAATTTATAAAA
36769138 A
1 A
36769139 ATGTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATTTATAAAA
Found at i:36772936 original size:13 final size:13
Alignment explanation
Indices: 36772918--36772942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36772908 CAAATAGTGT
36772918 ATAAATATATATC
1 ATAAATATATATC
36772931 ATAAATATATAT
1 ATAAATATATAT
36772943 ATGTATGGAC
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATATATC
Found at i:36773142 original size:3 final size:3
Alignment explanation
Indices: 36773134--36773181 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
36773124 ATGTATAGGT
* * *
36773134 ATA ATA ATA GTA ATA ATA ATA CTA ATA AT- ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36773181 A
1 A
36773182 CAAAAATAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36773178 original size:17 final size:17
Alignment explanation
Indices: 36773134--36773180 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
36773124 ATGTATAGGT
*
36773134 ATAATAATAGTAATAATA
1 ATAATAATAAT-ATAATA
*
36773152 ATACTAATAATATAATA
1 ATAATAATAATATAATA
*
36773169 ATAATGATAATA
1 ATAATAATAATA
36773181 ACAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
ATAATAATAATATAATA
Found at i:36774231 original size:50 final size:49
Alignment explanation
Indices: 36774174--36774333 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 49
36774164 GCCGTCGTAA
36774174 CTTCAATCTATTCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTATTCCACTGCA-CACTAAGGGAGTAAGATTCGCCGTTGTGG
* ** * * * *** * * *
36774224 CTTCAATCTTTTTAAATTGCA-ATGTCAAGGAAACCAGATTTGCCGTCGTGA
1 CTTCAATC-TATTCCACTGCACA-CT-AAGGGAGTAAGATTCGCCGTTGTGG
* *
36774275 CTTCAATCTGTTCCACTGCACTACTAAGGGAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTATTCCACTGCAC-ACTAAGGGAGTAAGATTCGCCGTTGTGG
36774325 CTTCAATCT
1 CTTCAATCT
36774334 TTTTAAATTA
Statistics
Matches: 80, Mismatches: 25, Indels: 10
0.70 0.22 0.09
Matches are distributed among these distances:
49 1 0.01
50 43 0.54
51 35 0.44
52 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (49 bp):
CTTCAATCTATTCCACTGCACACTAAGGGAGTAAGATTCGCCGTTGTGG
Found at i:36774295 original size:101 final size:101
Alignment explanation
Indices: 36774120--36774438 Score: 514
Period size: 101 Copynumber: 3.2 Consensus size: 101
36774110 GGAGTAAGAT
* *
36774120 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAACTTCAATCTAT
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
36774185 TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
66 TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
* **
36774221 TGGCTTCAATCTTTTTAAATTGCAATGTCAAGGAAACCAGATTTGCCGTCGTGACTTCAATCTGT
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
* *
36774286 TCCACTGCACTACTAAGGGAGTAAGATCCGCCGTTG
66 TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
* *
36774322 TGGCTTCAATCTTTTTAAATTACAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTTAATCTGT
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
* * *
36774387 TCTACTGCACCGCT-AGGGAAGTAAGATTCGCCATTG
66 TCCACTGCACCACTAAGGG-AGTAAGATTCGCCGTTG
36774423 TGGCTTCAATCTTTTT
1 TGGCTTCAATCTTTTT
36774439 CACTGTAATG
Statistics
Matches: 200, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 4 0.02
101 196 0.98
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (101 bp):
TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGACTTCAATCTGT
TCCACTGCACCACTAAGGGAGTAAGATTCGCCGTTG
Found at i:36774355 original size:50 final size:50
Alignment explanation
Indices: 36774120--36774384 Score: 180
Period size: 51 Copynumber: 5.2 Consensus size: 50
36774110 GGAGTAAGAT
36774120 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACCAGATCCGCCGTCG
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAA-CAGATCCGCCGTCG
** * ** * * * * * *
36774171 TAACTTCAATC-TATTCCACTGCACCA-CTAAGGGAGTA-AGATTCGCCGTTG
1 TGGCTTCAATCTTTTTAAATTGCA--ATGTCAGGGA-AACAGATCCGCCGTCG
* **
36774221 TGGCTTCAATCTTTTTAAATTGCAATGTCAAGGAAACCAGATTTGCCGTCG
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAA-CAGATCCGCCGTCG
* * ** * * * * * *
36774272 TGACTTCAATC-TGTTCCACTGCACTACTAAGGGAGTA-AGATCCGCCGTTG
1 TGGCTTCAATCTTTTTAAATTGCAAT-GTCAGGGA-AACAGATCCGCCGTCG
*
36774322 TGGCTTCAATCTTTTTAAATTACAATGTCAGGGAAACCAGATCCGCCGTCG
1 TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAA-CAGATCCGCCGTCG
* *
36774373 TGACTTTAATCT
1 TGGCTTCAATCT
36774385 GTTCTACTGC
Statistics
Matches: 153, Mismatches: 49, Indels: 24
0.68 0.22 0.11
Matches are distributed among these distances:
49 3 0.02
50 68 0.44
51 79 0.52
52 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (50 bp):
TGGCTTCAATCTTTTTAAATTGCAATGTCAGGGAAACAGATCCGCCGTCG
Found at i:36777294 original size:12 final size:12
Alignment explanation
Indices: 36777277--36777303 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36777267 AGGCTAAGGT
36777277 AGCCAACGCATC
1 AGCCAACGCATC
36777289 AGCCAACGCATC
1 AGCCAACGCATC
36777301 AGC
1 AGC
36777304 TATCTGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.41, G:0.19, T:0.07
Consensus pattern (12 bp):
AGCCAACGCATC
Found at i:36779466 original size:23 final size:23
Alignment explanation
Indices: 36779432--36779503 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
36779422 TGAACAAAAT
*
36779432 ATGATTATGAAATA-AATAAAAGA
1 ATGATTATGAAAAAGAAT-AAAGA
36779455 ATGATGTA-GAAAAAGAATAAAGA
1 ATGAT-TATGAAAAAGAATAAAGA
*
36779478 ATAATTACTCGAAAAAGAATGAAAGA
1 ATGATTA-T-GAAAAAGAAT-AAAGA
36779504 CTACTGGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 2 0.05
23 19 0.46
24 5 0.12
25 10 0.24
26 5 0.12
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.21
Consensus pattern (23 bp):
ATGATTATGAAAAAGAATAAAGA
Found at i:36786771 original size:3 final size:3
Alignment explanation
Indices: 36786763--36786821 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
36786753 ATGTATAGGT
* * *
36786763 ATA ATA ATA GTA ATA ATA ATA CTA ATA AT- ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
36786810 ACA AAA ATA ATA
1 ATA ATA ATA ATA
36786822 GCAGCTTAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36786807 original size:17 final size:17
Alignment explanation
Indices: 36786763--36786809 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
36786753 ATGTATAGGT
*
36786763 ATAATAATAGTAATAATA
1 ATAATAATAAT-ATAATA
*
36786781 ATACTAATAATATAATA
1 ATAATAATAATATAATA
*
36786798 ATAATGATAATA
1 ATAATAATAATA
36786810 ACAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
ATAATAATAATATAATA
Found at i:36793371 original size:9 final size:9
Alignment explanation
Indices: 36793359--36793454 Score: 51
Period size: 10 Copynumber: 10.9 Consensus size: 9
36793349 GTAGAGATTT
36793359 TAATTTTTA
1 TAATTTTTA
36793368 TAA-TTTTA
1 TAATTTTTA
*
36793376 T--TTATTA
1 TAATTTTTA
*
36793383 TAATATTTA
1 TAATTTTTA
*
36793392 TAATATATTA
1 TAAT-TTTTA
*
36793402 TTATTCTTTA
1 TAATT-TTTA
*
36793412 TAAGTTTATA
1 TAA-TTTTTA
*
36793422 TCAATTTTAA
1 T-AATTTTTA
36793432 T-A-TTTTA
1 TAATTTTTA
*
36793439 -AATTTTAA
1 TAATTTTTA
36793447 TAATTTTT
1 TAATTTTT
36793455 CTGATATATA
Statistics
Matches: 63, Mismatches: 14, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
7 10 0.16
8 11 0.17
9 18 0.29
10 20 0.32
11 4 0.06
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (9 bp):
TAATTTTTA
Found at i:36793375 original size:15 final size:16
Alignment explanation
Indices: 36793355--36793391 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
36793345 GATTGTAGAG
36793355 ATTTTAATTT-TTATA
1 ATTTTAATTTATTATA
36793370 ATTTT-ATTTATTATA
1 ATTTTAATTTATTATA
36793385 ATATTTA
1 AT-TTTA
36793392 TAATATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 12 0.63
16 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTATTATA
Found at i:36793444 original size:15 final size:16
Alignment explanation
Indices: 36793424--36793453 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36793414 AGTTTATATC
36793424 AATTTTAAT-ATTTTA
1 AATTTTAATAATTTTA
36793439 AATTTTAATAATTTT
1 AATTTTAATAATTTT
36793454 TCTGATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTAATAATTTTA
Found at i:36796581 original size:32 final size:32
Alignment explanation
Indices: 36796538--36796614 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
36796528 CAAAATAAAT
**
36796538 TATGAAAAGTTACGAATGTGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
36796570 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
36796602 GATGAAAAGTTAC
1 TATGAAAAGTTAC
36796615 ACACATGCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:36801090 original size:32 final size:32
Alignment explanation
Indices: 36801047--36801123 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
36801037 CAAAATAAAT
** *
36801047 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
36801079 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
36801111 GATGAAAAGTTAC
1 TATGAAAAGTTAC
36801124 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:36806137 original size:20 final size:21
Alignment explanation
Indices: 36806098--36806137 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
36806088 ATGATGACAC
* *
36806098 GGATGTAATTTTGTATTGAGT
1 GGATGTAATTTAGTAATGAGT
36806119 GGAT-TAATTTAGTAATGAG
1 GGATGTAATTTAGTAATGAG
36806138 GTGTGTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (21 bp):
GGATGTAATTTAGTAATGAGT
Found at i:36810580 original size:40 final size:40
Alignment explanation
Indices: 36810536--36810614 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
36810526 TCGACCACGT
*
36810536 GCACATAGTGTGTGATATTCTCGAGTATCCAATATTATTA
1 GCACATAGTGTGTGAGATTCTCGAGTATCCAATATTATTA
*
36810576 GCACATAGTGTGTGAGATTCTCGAGTGTCCAATATTATT
1 GCACATAGTGTGTGAGATTCTCGAGTATCCAATATTATT
36810615 CTAGTGGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (40 bp):
GCACATAGTGTGTGAGATTCTCGAGTATCCAATATTATTA
Found at i:36819130 original size:24 final size:24
Alignment explanation
Indices: 36819087--36819136 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
36819077 ATATAAATTG
*
36819087 TAAATATTTGTAAACAATAACTAT
1 TAAATATTTGTAAACAATAACCAT
36819111 TAAATATTAT-TAAA-ATATAACCAT
1 TAAATATT-TGTAAACA-ATAACCAT
36819135 TA
1 TA
36819137 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 21 0.91
25 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATTTGTAAACAATAACCAT
Found at i:36822610 original size:18 final size:18
Alignment explanation
Indices: 36822587--36822628 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36822577 GTAACATTTT
* *
36822587 AAAACTTTAATAGTTGTG
1 AAAACTTTAACAATTGTG
*
36822605 AAAACTTTAACAATTTTG
1 AAAACTTTAACAATTGTG
36822623 AAAACT
1 AAAACT
36822629 AATGCTCGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
AAAACTTTAACAATTGTG
Found at i:36828845 original size:14 final size:14
Alignment explanation
Indices: 36828792--36828846 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
36828782 AAATTGAATC
36828792 AAATTAACATATATA
1 AAATT-ACATATATA
*
36828807 AAATTCTACA-AAATCA
1 AAA-T-TACATATAT-A
36828823 AAA-TACATATATA
1 AAATTACATATATA
36828836 AAATTACATAT
1 AAATTACATAT
36828847 TATGCAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.24
14 10 0.30
15 6 0.18
16 8 0.24
17 1 0.03
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATTACATATATA
Found at i:36832668 original size:24 final size:24
Alignment explanation
Indices: 36832636--36832684 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
36832626 CAGGAAATAA
36832636 CCCATTATTTCATAACCTTAGATT
1 CCCATTATTTCATAACCTTAGATT
36832660 CCCATTATTTCATAACCTTAGATT
1 CCCATTATTTCATAACCTTAGATT
36832684 C
1 C
36832685 TAGCTCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.41
Consensus pattern (24 bp):
CCCATTATTTCATAACCTTAGATT
Found at i:36841117 original size:20 final size:19
Alignment explanation
Indices: 36841062--36841106 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
36841052 CATTTCGTTG
*
36841062 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
36841083 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
36841102 AGCTC
1 AGCTC
36841107 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:36843321 original size:25 final size:25
Alignment explanation
Indices: 36843203--36843321 Score: 80
Period size: 25 Copynumber: 4.7 Consensus size: 25
36843193 ATTCGGGAAT
36843203 GCTCATACGAG-CATATAAACGAGAA
1 GCTCATACGAGCCATAT-AACGAGAA
* * *
36843228 GCTCTCTCTCGAGCCATATAA-AAGGAA
1 GCTC-AT-ACGAGCCATATAACGA-GAA
** * *
36843255 GCTCATGTGAGCCATGTAACGGGAA
1 GCTCATACGAGCCATATAACGAGAA
* * * *
36843280 GCTTATCCGGGCTATATAACGAGAA
1 GCTCATACGAGCCATATAACGAGAA
*
36843305 GCTCATAAGAGCCATAT
1 GCTCATACGAGCCATAT
36843322 TTAGGAAACT
Statistics
Matches: 68, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
25 47 0.69
26 3 0.04
27 13 0.19
28 5 0.07
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCCATATAACGAGAA
Found at i:36843366 original size:25 final size:25
Alignment explanation
Indices: 36843338--36843391 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
36843328 AACTTCGGAT
* *
36843338 AGCCATATATCGGGAAGTTCAAGCG
1 AGCCATATATCGGGAAGATCAAGAG
*
36843363 AGCC--ATATCGGGAAGATCTAGAG
1 AGCCATATATCGGGAAGATCAAGAG
36843386 AGCCAT
1 AGCCAT
36843392 TAATCAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 20 0.83
25 4 0.17
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
AGCCATATATCGGGAAGATCAAGAG
Found at i:36843374 original size:23 final size:23
Alignment explanation
Indices: 36843344--36843391 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
36843334 GGATAGCCAT
* *
36843344 ATATCGGGAAGTTCAAGCGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
*
36843367 ATATCGGGAAGATCTAGAGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
36843390 AT
1 AT
36843392 TAATCAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (23 bp):
ATATCGGGAAGATCAAGAGAGCC
Found at i:36843441 original size:26 final size:26
Alignment explanation
Indices: 36843384--36843433 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
36843374 GAAGATCTAG
36843384 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* *
36843410 AGAGCCTTTAATCAGGAAGCTCAC
1 AGAGCCATTAATCAAGAAGCTCAC
36843434 GACAAGCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:36846997 original size:51 final size:50
Alignment explanation
Indices: 36846942--36847040 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 50
36846932 AATTTAATTA
** * *
36846942 AAAATTTT-ATTTCAAAAAATAAAAATTTTAATGATTTTAACAATAAAATCT
1 AAAATTTTAATTT-AAAAAATAAAAAAATTAA-AATTTTAAAAATAAAATCT
*
36846993 AAAATTTTAAATTTAAAAAGTAAAAAAATTAAAATTTTAAAAATAAAA
1 AAAATTTT-AATTTAAAAAATAAAAAAATTAAAATTTTAAAAATAAAA
36847041 ATAAAAATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 22 0.54
52 15 0.37
53 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (50 bp):
AAAATTTTAATTTAAAAAATAAAAAAATTAAAATTTTAAAAATAAAATCT
Found at i:36847048 original size:51 final size:52
Alignment explanation
Indices: 36846940--36847057 Score: 118
Period size: 51 Copynumber: 2.3 Consensus size: 52
36846930 TGAATTTAAT
** * *
36846940 TAAAAATTTT--ATTTCAAAAAATAAAAATTTTAATGATTTTAACAATAAAA
1 TAAAAATTTTAAATTTCAAAAAATAAAAAAATTAATAATTTTAAAAATAAAA
* *
36846990 TCTAAAATTTTAAATTT-AAAAAGTAAAAAAATTAA-AATTTTAAAAATAAAAA
1 T-AAAAATTTTAAATTTCAAAAAATAAAAAAATTAATAATTTTAAAAAT-AAAA
**
36847042 TAAAAATACTAAATTT
1 TAAAAATTTTAAATTT
36847058 TAAATATACA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
50 1 0.02
51 30 0.55
52 20 0.36
53 4 0.07
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (52 bp):
TAAAAATTTTAAATTTCAAAAAATAAAAAAATTAATAATTTTAAAAATAAAA
Found at i:36850601 original size:140 final size:140
Alignment explanation
Indices: 36850345--36850642 Score: 443
Period size: 140 Copynumber: 2.1 Consensus size: 140
36850335 AATATTTTAA
* *
36850345 TGTCGGCCCAAAAGTATCGGTATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
1 TGTCGGCCCAAAAGTGTCGGCATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
* *
36850410 CATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACA
66 CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
*
36850475 CTAAGGAAAG
131 CTAAGAAAAG
* * * * ** *
36850485 TGTTGGCCCAAAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGTCTTAGG
1 TGTCGGCCCAAAAGTGTCGGCATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
* * *
36850550 TATGCATATCTCAACCCTTATAAAAAGATTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
66 CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
*
36850615 CTTAGAAAAG
131 CTAAGAAAAG
*
36850625 TGTCGGACCAAAAGTGTC
1 TGTCGGCCCAAAAGTGTC
36850643 ATCTTAGGAC
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (140 bp):
TGTCGGCCCAAAAGTGTCGGCATAGTATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTATGTCGGCAAGTCTATCCCAACA
CTAAGAAAAG
Found at i:36850877 original size:43 final size:43
Alignment explanation
Indices: 36850829--36850944 Score: 187
Period size: 43 Copynumber: 2.7 Consensus size: 43
36850819 GTGTTGCTAA
* *
36850829 CTTTAGCAGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
36850872 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAGACCAATAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
36850915 CTTTAGCGGTGCTTTTCCCACAAACGCCGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGC
36850945 CAAAAACATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:36850976 original size:16 final size:16
Alignment explanation
Indices: 36850955--36850985 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36850945 CAAAAACATG
36850955 AATTAAAAAATATTTT
1 AATTAAAAAATATTTT
*
36850971 AATTAAATAATATTT
1 AATTAAAAAATATTT
36850986 ATTTCTATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAAAAATATTTT
Found at i:36851171 original size:18 final size:18
Alignment explanation
Indices: 36851148--36851207 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
36851138 TTAAAACAAG
36851148 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
36851166 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
36851183 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
36851201 TTACATT
1 TTACATT
36851208 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:36855513 original size:53 final size:53
Alignment explanation
Indices: 36855455--36856325 Score: 1733
Period size: 53 Copynumber: 16.4 Consensus size: 53
36855445 TATTATTTTT
36855455 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855508 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855561 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855614 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855667 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855720 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855773 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855826 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855879 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855932 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36855985 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36856038 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36856091 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36856144 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36856197 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
*
36856250 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATCTGTTG
1 CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
36856303 CTTTTATTTATTTATTTATCAAT
1 CTTTTATTTATTTATTTATCAAT
36856326 GTTTTTTTTA
Statistics
Matches: 817, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 817 1.00
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (53 bp):
CTTTTATTTATTTATTTATCAATAAATAGTTACCTATCCATATCAATTTGTTG
Found at i:36856579 original size:21 final size:21
Alignment explanation
Indices: 36856563--36856623 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
36856553 CACTAACTCT
*
36856563 TAACCTCTAACCTCTAACCCC
1 TAACCTCTAACCCCTAACCCC
36856584 TAACCT-TAAACCCCTAA-CCC
1 TAACCTCT-AACCCCTAACCCC
36856604 TAA-CTACTAACCCCTAACCC
1 TAACCT-CTAACCCCTAACCC
36856624 TTAAACCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 17 0.49
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (21 bp):
TAACCTCTAACCCCTAACCCC
Found at i:36856614 original size:34 final size:36
Alignment explanation
Indices: 36856563--36856631 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 36
36856553 CACTAACTCT
36856563 TAACCTCTAACCTCTAACCCCTAA-CCTTAAACCCC
1 TAACCTCTAACCTCTAACCCCTAACCCTTAAACCCC
36856598 TAACC-CTAA-CTACTAACCCCTAACCCTTAAACCC
1 TAACCTCTAACCT-CTAACCCCTAACCCTTAAACCC
36856632 TAAACATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 2 0.06
34 15 0.47
35 15 0.47
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (36 bp):
TAACCTCTAACCTCTAACCCCTAACCCTTAAACCCC
Found at i:36856623 original size:7 final size:7
Alignment explanation
Indices: 36856563--36856634 Score: 58
Period size: 7 Copynumber: 10.4 Consensus size: 7
36856553 CACTAACTCT
*
36856563 TAACCTC
1 TAACCCC
*
36856570 TAACCTC
1 TAACCCC
36856577 TAACCCC
1 TAACCCC
*
36856584 TAA-CCT
1 TAACCCC
36856590 TAAACCCC
1 T-AACCCC
36856598 TAA-CCC
1 TAACCCC
**
36856604 TAACTAC
1 TAACCCC
36856611 TAACCCC
1 TAACCCC
*
36856618 TAACCCT
1 TAACCCC
*
36856625 TAAACCC
1 TAACCCC
36856632 TAA
1 TAA
36856635 ACATTATTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
6 9 0.17
7 40 0.77
8 3 0.06
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:36856800 original size:14 final size:15
Alignment explanation
Indices: 36856781--36856813 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
36856771 CTTAAACTAG
36856781 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
36856795 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
36856810 AATC
1 AATC
36856814 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:36857274 original size:41 final size:41
Alignment explanation
Indices: 36857217--36857491 Score: 363
Period size: 41 Copynumber: 6.7 Consensus size: 41
36857207 AAATGTTTTT
* *
36857217 GCGGCGCTTTTCCAAAAACGCTGGTAAAGGTCT-ATGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGA-GCATTA
*
36857258 GCGGCGCTTTTCCAAAAACGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *** * *
36857299 GTGGCGCTTTTTTTAAAATGCCGCTATAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * * *
36857340 GCGGGGCTTTTTCAAAAACGCCACTAAAGTTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
36857381 GCGGCGCTTTTCCATAAACGCCGCTAAAGGTCTGATCATTT
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
36857422 GTGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *
36857463 GGGGCGCTTTTCCAAAAACGCCACTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
36857492 CCTCGAAAGG
Statistics
Matches: 202, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 201 1.00
42 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
Found at i:36857573 original size:40 final size:39
Alignment explanation
Indices: 36857529--36857663 Score: 119
Period size: 39 Copynumber: 3.4 Consensus size: 39
36857519 TGGGCTTAGG
* * *
36857529 TTTTTTGCGGCGCTTTTCTAAAAAATGCCGCTAATGCTCA
1 TTTTTAGCGGCG-TTTTCCAAAAAACGCCGCTAATGCTCA
* *
36857569 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTAA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCA
* * ** * * * *
36857608 TCTTTAGCTGCGATTTT-TGAAAAGCGCCACTAATACTTGA
1 TTTTTAGCGGCG-TTTTCCAAAAAACGCCGCTAATGC-TCA
36857648 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
36857664 TTATTCAAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 52 0.66
40 27 0.34
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCA
Found at i:36892088 original size:21 final size:21
Alignment explanation
Indices: 36892062--36892102 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36892052 ATCTGCTCAA
* *
36892062 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
36892083 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
36892103 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:36898801 original size:21 final size:20
Alignment explanation
Indices: 36898764--36898802 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
36898754 ATACTTCTTA
*
36898764 TAAAATGAGGAAAAGAAACC
1 TAAAATAAGGAAAAGAAACC
*
36898784 TAAAATAATGGAATAGAAA
1 TAAAATAA-GGAAAAGAAA
36898803 AACTGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.05, G:0.18, T:0.15
Consensus pattern (20 bp):
TAAAATAAGGAAAAGAAACC
Found at i:36899457 original size:21 final size:21
Alignment explanation
Indices: 36899433--36899473 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36899423 TCAAAAAAGC
36899433 TCTCAAA-CATCTCTCTAAATT
1 TCTCAAAGC-TCTCTCTAAATT
*
36899454 TCTCAAAGCTCTCTTTAAAT
1 TCTCAAAGCTCTCTCTAAAT
36899474 CACAATTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCAAAGCTCTCTCTAAATT
Found at i:36901123 original size:18 final size:18
Alignment explanation
Indices: 36901100--36901143 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36901090 ATGCCAAGTG
* *
36901100 TGTATCCTAGCCTTTATA
1 TGTATCCTAACCCTTATA
*
36901118 TGTATCTTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
36901136 TGTTTCCT
1 TGTATCCT
36901144 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:36902917 original size:223 final size:223
Alignment explanation
Indices: 36902525--36902961 Score: 644
Period size: 223 Copynumber: 2.0 Consensus size: 223
36902515 GCAGGATGTA
** * * * *
36902525 CTGTAGAAAAAGAGCATTTAGGTGGGAGACTTTTTCAGTACTTTTGCTGACAATGCATCCTGCTT
1 CTGTAGAAAAAGAGCATCCAGGTGGAAGACTTTTTCAATACTTTTGCTAACAATGCATCCTACTT
* * *
36902590 GAAGCATTTTTTACCCTTTTTTTCAGAACCATCTTCTCAAAATTATTTTGTCAGAAACTATTGTA
66 GAAGCATTTTTTACACTTTTTTTCAAAACCATCTTCTCAAAATTATTTTGTCAGAAACTACTGTA
* * * * * * *
36902655 GAAAAATAGCGTCCAAATGGGAGCTTTTTTTAGTACTTTTGTTGATAGTGCATCCTTCTTAAAGC
131 GAAAAAGAGCGTCCAAATGAGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTAAAGC
*
36902720 GTTTTTTATCCTATTTTTTCAGAAACGG
196 GTTTTTTACCCTATTTTTTCAGAAACGG
*
36902748 CTGTAGAAAAAGAGTATCCAGGTGGAAG-CATTTTTCAATACTTTTGCTAACAATGCATCCTACT
1 CTGTAGAAAAAGAGCATCCAGGTGGAAGAC-TTTTTCAATACTTTTGCTAACAATGCATCCTACT
36902812 TGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTT-TCAGAAACTACTG
65 TGAAGCATTTTTTACACT-TTTTTTCAAAACCATCTTCTCAAAATTATTTTGTCAGAAACTACTG
** *
36902876 TAGAAAAAGAGCGTCCAGGTGAGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGAA
129 TAGAAAAAGAGCGTCCAAATGAGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTAAA
*
36902941 GCGTTTTTTACCCTTTTTTTT
194 GCGTTTTTTACCCTATTTTTT
36902962 AAATCATATT
Statistics
Matches: 190, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
222 1 0.01
223 158 0.83
224 31 0.16
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (223 bp):
CTGTAGAAAAAGAGCATCCAGGTGGAAGACTTTTTCAATACTTTTGCTAACAATGCATCCTACTT
GAAGCATTTTTTACACTTTTTTTCAAAACCATCTTCTCAAAATTATTTTGTCAGAAACTACTGTA
GAAAAAGAGCGTCCAAATGAGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTAAAGC
GTTTTTTACCCTATTTTTTCAGAAACGG
Found at i:36903153 original size:126 final size:124
Alignment explanation
Indices: 36902731--36903173 Score: 568
Period size: 124 Copynumber: 3.5 Consensus size: 124
36902721 TTTTTTATCC
* ** ** ** *
36902731 TATTTTTTCAGAAACGGCTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAATACTTTTGCT
1 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTTTAGGTGG-AGCTTTTTTCAATACTTTTGCT
* * *
36902796 AACAATGCATCCTACTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAAT
65 GACAATGCATCCTACTTGAAGCGTTTTTTACCCTATTTTTTC-AAACCATCTTCTCAAAAT
* **
36902857 TA-TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGGTGAGAGCTTTTTTCAATACTTTTGCT
1 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTTTAGGTG-GAGCTTTTTTCAATACTTTTGCT
* * * *
36902921 GA-AAGTGCATCCTGCTTGAAGCGTTTTTTACCCT-TTTTTTTAAATCATATTCTCAAAAT
65 GACAA-TGCATCCTACTTGAAGCGTTTTTTACCCTATTTTTTCAAACCATCTTCTCAAAAT
*
36902980 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTTTAGGTGGGAGCTTTTCTCAATACTTTTGCT
1 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTTTAGGT-GGAGCTTTTTTCAATACTTTTGCT
* *
36903045 GACACTGCATCCTACTTGAAGCGTTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAAT
65 GACAATGCATCCTACTTGAAGCGTTTTTTACCCTATTTTTTCA-AACCATCTTCTCAAAAT
* ** * *
36903106 TATTTTTTTAGAAACTACTGTAGAAAAATAATGTTTAGCTAGGAGCTTTTTTCAATACTTTTGTT
1 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTTTAGGT-GGAGCTTTTTTCAATACTTTTGCT
36903171 GAC
65 GAC
36903174 TAGACAAAAA
Statistics
Matches: 281, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
123 18 0.06
124 93 0.33
125 91 0.32
126 79 0.28
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (124 bp):
TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTTTAGGTGGAGCTTTTTTCAATACTTTTGCTG
ACAATGCATCCTACTTGAAGCGTTTTTTACCCTATTTTTTCAAACCATCTTCTCAAAAT
Found at i:36903307 original size:31 final size:32
Alignment explanation
Indices: 36903260--36903328 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
36903250 CCTAAATAAA
** *
36903260 AATTTATTTTTAAAAATCTTTAAACCTTAATTT
1 AATTT-TTTTTAAAAATCCATAAACCCTAATTT
36903293 AATTTTTTTT-AAAATCCATAAACCCTAATTT
1 AATTTTTTTTAAAAATCCATAAACCCTAATTT
36903324 -ATTTT
1 AATTTT
36903329 CTCTAAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 5 0.15
31 18 0.55
32 5 0.15
33 5 0.15
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.51
Consensus pattern (32 bp):
AATTTTTTTTAAAAATCCATAAACCCTAATTT
Found at i:36903336 original size:30 final size:30
Alignment explanation
Indices: 36903280--36903344 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
36903270 TAAAAATCTT
* * *
36903280 TAAACCTTAATTTAATTTTTTTTAAAATCCA
1 TAAACCCTAATTTAATTTTCTCTAAAA-CCA
*
36903311 TAAACCCTAATTT-ATTTTCTCTAAAACCC
1 TAAACCCTAATTTAATTTTCTCTAAAACCA
36903340 TAAAC
1 TAAAC
36903345 TTTAAACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.23
30 11 0.37
31 12 0.40
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (30 bp):
TAAACCCTAATTTAATTTTCTCTAAAACCA
Found at i:36907507 original size:54 final size:54
Alignment explanation
Indices: 36907345--36907507 Score: 202
Period size: 54 Copynumber: 3.0 Consensus size: 54
36907335 GATTTTTAAG
* * *
36907345 GAGTCAAATGTCCAATGAATTCTTGAGAATAGATCCATATTGTGATTCCTATTC
1 GAGTCAAATGTCCAATGATTTCTTGAGAAGAGATCCATATCGTGATTCCTATTC
* * * *
36907399 AAGCCAAATGTCCAATGATTTCTTGAGAAGAGATCTATATCATGATTCCTATTC
1 GAGTCAAATGTCCAATGATTTCTTGAGAAGAGATCCATATCGTGATTCCTATTC
* ** * *
36907453 GAGTCAAACGTCTTATGATTTCTTGAAAAGAGATCCA-AGTCGTAATTCCTATTC
1 GAGTCAAATGTCCAATGATTTCTTGAGAAGAGATCCATA-TCGTGATTCCTATTC
36907507 G
1 G
36907508 TCGAGGAATT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 91 0.99
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (54 bp):
GAGTCAAATGTCCAATGATTTCTTGAGAAGAGATCCATATCGTGATTCCTATTC
Found at i:36908379 original size:21 final size:20
Alignment explanation
Indices: 36908355--36908404 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36908345 GTGTAAAAAC
36908355 AAGAAAAAAATAGAAAAGAAA
1 AAGAAAAAAA-AGAAAAGAAA
** *
36908376 AAGAAATTGAAAGAAAAGAGA
1 AAGAAA-AAAAAGAAAAGAAA
36908397 AAGAAAAA
1 AAGAAAAA
36908405 GAGTGAGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (20 bp):
AAGAAAAAAAAGAAAAGAAA
Found at i:36908392 original size:15 final size:16
Alignment explanation
Indices: 36908355--36908403 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
36908345 GTGTAAAAAC
36908355 AAGAAAA-AAATAGAA
1 AAGAAAAGAAATAGAA
*
36908370 AAGAAAAAGAAATTG-A
1 AAG-AAAAGAAATAGAA
36908386 AAGAAAAGAGAA-AGAA
1 AAGAAAAGA-AATAGAA
36908402 AA
1 AA
36908404 AGAGTGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
17 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (16 bp):
AAGAAAAGAAATAGAA
Found at i:36908665 original size:33 final size:33
Alignment explanation
Indices: 36908611--36908684 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
36908601 AGAGCGTGAA
* * *
36908611 AAAAGG-AAGAGAGACTGAAAAAGAAATGAGGG
1 AAAAGGAAAAAGAGACTAAAAAAGAAACGAGGG
*
36908643 AAAAGGAAAAAGAGACTAAAAAAGAAACGAGTG
1 AAAAGGAAAAAGAGACTAAAAAAGAAACGAGGG
36908676 AAAAGGAAA
1 AAAAGGAAA
36908685 GAAAACTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 6 0.16
33 31 0.84
ACGTcount: A:0.62, C:0.04, G:0.28, T:0.05
Consensus pattern (33 bp):
AAAAGGAAAAAGAGACTAAAAAAGAAACGAGGG
Found at i:36914194 original size:45 final size:46
Alignment explanation
Indices: 36914096--36914211 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
36914086 TTTGAGTACT
*
36914096 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
36914142 TTTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
36914187 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
36914212 ATCATATGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
43 12 0.18
44 5 0.08
45 18 0.27
46 31 0.47
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
Found at i:36917409 original size:37 final size:37
Alignment explanation
Indices: 36917358--36917470 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
36917348 ATTCCAAAAA
* *
36917358 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAATTTAATATT
*
36917394 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATATT
* *
36917432 AAAGTTATTATCTTAATA-TTTAAT-TTAATTTAATTTT
1 TAA--TATTATCTTAATAGTTTAATATTAATTTAATATT
36917469 TA
1 TA
36917471 TCTTGTAGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
36 5 0.08
37 37 0.58
38 9 0.14
39 11 0.17
40 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATATT
Found at i:36917531 original size:12 final size:13
Alignment explanation
Indices: 36917501--36917532 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
36917491 TTATTTTAGG
36917501 AATATTTAATATT
1 AATATTTAATATT
36917514 AA-ATTTAATA-T
1 AATATTTAATATT
36917525 AATATTTA
1 AATATTTA
36917533 TCTTGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTTAATATT
Found at i:36925382 original size:11 final size:11
Alignment explanation
Indices: 36925336--36925394 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
36925326 TAACAATTAA
*
36925336 AATTAAAAAAT
1 AATTAAAAATT
36925347 AATTACAATAATT
1 AATTA-AA-AATT
36925360 AA--AAATACATT
1 AATTAAA-A-ATT
*
36925371 ATTTAAAAATT
1 AATTAAAAATT
36925382 AATTAAAAATT
1 AATTAAAAATT
36925393 AA
1 AA
36925395 ATACGTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 4 0.10
11 25 0.62
12 3 0.08
13 8 0.20
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AATTAAAAATT
Found at i:36936706 original size:19 final size:19
Alignment explanation
Indices: 36936671--36936709 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36936661 TTTATTTATG
*
36936671 TTAATTAAGTTAGGTTAAT
1 TTAATTAAGTTAAGTTAAT
36936690 TTAATTAA-TCTAAGTTAAT
1 TTAATTAAGT-TAAGTTAAT
36936709 T
1 T
36936710 AAAGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (19 bp):
TTAATTAAGTTAAGTTAAT
Found at i:36937500 original size:14 final size:14
Alignment explanation
Indices: 36937481--36937509 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36937471 CTTTTAGTAT
36937481 AAATAGACATATAA
1 AAATAGACATATAA
36937495 AAATAGACATATAA
1 AAATAGACATATAA
36937509 A
1 A
36937510 TTTTTCCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AAATAGACATATAA
Found at i:36939365 original size:54 final size:54
Alignment explanation
Indices: 36939280--36939386 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
36939270 ATCTTATTCT
* * * *
36939280 AGAAAACATCATTGTTCAAGGGGAAGCTACTATTTAAGGGGAGACTACTGTTCC
1 AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAAGGGGAGACTACTGTTCC
* *
36939334 AGAAAACACCATTGTTCAACGGGAAGTTACTACTCAGGGGGAGACTACTGTTC
1 AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAAGGGGAGACTACTGTTC
36939387 AAAAGGAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (54 bp):
AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAAGGGGAGACTACTGTTCC
Found at i:36942586 original size:3 final size:3
Alignment explanation
Indices: 36942540--36942566 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36942530 GTCACCACTG
36942540 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
36942567 CTGCCATCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:36946395 original size:31 final size:30
Alignment explanation
Indices: 36946308--36946397 Score: 135
Period size: 31 Copynumber: 2.9 Consensus size: 30
36946298 TTTTTTTGAA
*
36946308 TATTTTCCCCCAAAATTTTACTCCCCCATT
1 TATTTTCCCCCAAAATTTTACTCCCTCATT
*
36946338 TATTTTTCCTCCAAAATTTTACTCCCTCATT
1 TA-TTTTCCCCCAAAATTTTACTCCCTCATT
*
36946369 TATTTTCCCCCCAAAATTTTATTCCCTCA
1 TATTTT-CCCCCAAAATTTTACTCCCTCA
36946398 ACTTTCAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
30 6 0.11
31 48 0.89
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.43
Consensus pattern (30 bp):
TATTTTCCCCCAAAATTTTACTCCCTCATT
Found at i:36958872 original size:29 final size:29
Alignment explanation
Indices: 36958830--36958899 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
36958820 TGTTGGAATT
*
36958830 GGAGAACAGAAGTGAGAG-GGTTATAAGTA
1 GGAGAACCGAAGTGAGAGAGG-TATAAGTA
36958859 GGAGAACCGAAGTGAGAGAGGTATAAGTA
1 GGAGAACCGAAGTGAGAGAGGTATAAGTA
*
36958888 AGAGAACCGAAG
1 GGAGAACCGAAG
36958900 ATGCTATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.43, C:0.07, G:0.37, T:0.13
Consensus pattern (29 bp):
GGAGAACCGAAGTGAGAGAGGTATAAGTA
Found at i:36960384 original size:21 final size:21
Alignment explanation
Indices: 36960354--36960395 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36960344 TTTTTCAAAG
* *
36960354 ATGTGTATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
36960375 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATTAAATTGA
36960396 GCTAAATTCA
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:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:36960841 original size:24 final size:25
Alignment explanation
Indices: 36960754--36960876 Score: 94
Period size: 25 Copynumber: 5.0 Consensus size: 25
36960744 ATCTAGTTAT
* **
36960754 ATGGCTCTCACGAGCTTTTCGA-TA
1 ATGGCTCTCATGAGCTTCCCGATTA
*
36960778 CGTGGCTCTCATGAGCTTCCCGATTA
1 -ATGGCTCTCATGAGCTTCCCGATTA
* * *
36960804 ATGGCTCTCTTGAGCTTCTC-ATTT
1 ATGGCTCTCATGAGCTTCCCGATTA
36960828 ATGGCTCGT-ATGAGCTTCCCGA-TA
1 ATGGCTC-TCATGAGCTTCCCGATTA
* * *
36960852 ATTGTCTCACAAGAGCTTCCC-ATTA
1 A-TGGCTCTCATGAGCTTCCCGATTA
36960877 TACAACTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
24 22 0.28
25 54 0.69
26 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (25 bp):
ATGGCTCTCATGAGCTTCCCGATTA
Found at i:36960868 original size:49 final size:49
Alignment explanation
Indices: 36960780--36960898 Score: 116
Period size: 49 Copynumber: 2.4 Consensus size: 49
36960770 TTTCGATACG
* ** *
36960780 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCTCATTTA
1 TGGCTCTCATGAGCTTCCCGATTAATGGCTCACAAGAGCTTCCCATTTA
*
36960829 TGGCTCGT-ATGAGCTTCCCGA-TAATTGTCTCACAAGAGCTTCCCATTATA
1 TGGCTC-TCATGAGCTTCCCGATTAA-TGGCTCACAAGAGCTTCCCATT-TA
*** *
36960879 CAACTCACATGAGCTTCCCG
1 TGGCTCTCATGAGCTTCCCG
36960899 TTATACAACT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
48 3 0.05
49 36 0.63
50 18 0.32
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (49 bp):
TGGCTCTCATGAGCTTCCCGATTAATGGCTCACAAGAGCTTCCCATTTA
Found at i:36960885 original size:25 final size:25
Alignment explanation
Indices: 36960857--36960926 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
36960847 CGATAATTGT
*
36960857 CTCACAAGAGCTTCCCATTATACAA
1 CTCACATGAGCTTCCCATTATACAA
*
36960882 CTCACATGAGCTTCCCGTTATACAA
1 CTCACATGAGCTTCCCATTATACAA
* *
36960907 CTTACATGAGCTTCCTATTA
1 CTCACATGAGCTTCCCATTA
36960927 CATGGCTTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (25 bp):
CTCACATGAGCTTCCCATTATACAA
Found at i:36963059 original size:332 final size:332
Alignment explanation
Indices: 36962448--36963113 Score: 1251
Period size: 332 Copynumber: 2.0 Consensus size: 332
36962438 TTTCTCAGAT
*
36962448 CATATATGAGCTTATGTATGCTCCAATACTATCCAGAATTTAACTAGGATTAATTTGTAACATTT
1 CATATATGAGCTTATGTATGCTCCAATACTATCCAGAATTTAACTAGGATTAATTTGCAACATTT
36962513 TCAAAATTTCAGTTCAATTATAAATCAAAACAATTCATAGCTCAATTTAGTTATCATAAATCAAT
66 TCAAAATTTCAGTTCAATTATAAATCAAAACAATTCATAGCTCAATTTAGTTATCATAAATCAAT
* *
36962578 AGTCAATCATTATTTATAACATATATGTGAAAATGGAACTTAAATTGGGTTTACGGAACCTTAAA
131 AGTCAATCATTATTCATAACATATATATGAAAATGGAACTTAAATTGGGTTTACGGAACCTTAAA
*
36962643 AATAGTTTGGAAACAACAGGGACTAATCTGAAACAAAATAGAAAAACGTAGAAAAATTTGAAAAC
196 AATAGTTTGGAAACAACAAGGACTAATCTGAAACAAAATAGAAAAACGTAGAAAAATTTGAAAAC
**
36962708 AGGGGTCACACGGCCGTGTGACAGAGCCCAGGCTGTGTGGCTCAGGAACATGGTCATGTGGCCAA
261 AGGGGTCACACAACCGTGTGACAGAGCCCAGGCTGTGTGGCTCAGGAACATGGTCATGTGGCCAA
36962773 CCGTGTA
326 CCGTGTA
* *
36962780 CATATATGAGCTTATGTCTGCTCTAATACTATCCAGAATTTAACTAGGATTAATTTGCAACATTT
1 CATATATGAGCTTATGTATGCTCCAATACTATCCAGAATTTAACTAGGATTAATTTGCAACATTT
36962845 TCAAAATTTCAGTTCAATTATAAATCAAAACAATTCATAGCTCAATTTAGTTATCATAAATCAAT
66 TCAAAATTTCAGTTCAATTATAAATCAAAACAATTCATAGCTCAATTTAGTTATCATAAATCAAT
36962910 AGTCAATCATTATTCATAACATATATATGAAAATGGAACTTAAATTGGGTTTACGGAACCTTAAA
131 AGTCAATCATTATTCATAACATATATATGAAAATGGAACTTAAATTGGGTTTACGGAACCTTAAA
36962975 AATAGTTTGGAAACAACAAGGACTAATCTGAAACAAAATAGAAAAACGTAGAAAAATTTGAAAAC
196 AATAGTTTGGAAACAACAAGGACTAATCTGAAACAAAATAGAAAAACGTAGAAAAATTTGAAAAC
*
36963040 AGGGGTCACACAACCGTGTGACAGAGCCCAGGCTGTGTGGCTCAGGAACATGGTCGTGTGGCCAA
261 AGGGGTCACACAACCGTGTGACAGAGCCCAGGCTGTGTGGCTCAGGAACATGGTCATGTGGCCAA
36963105 CCGTGTA
326 CCGTGTA
36963112 CA
1 CA
36963114 ATTCGAAGTG
Statistics
Matches: 325, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
332 325 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (332 bp):
CATATATGAGCTTATGTATGCTCCAATACTATCCAGAATTTAACTAGGATTAATTTGCAACATTT
TCAAAATTTCAGTTCAATTATAAATCAAAACAATTCATAGCTCAATTTAGTTATCATAAATCAAT
AGTCAATCATTATTCATAACATATATATGAAAATGGAACTTAAATTGGGTTTACGGAACCTTAAA
AATAGTTTGGAAACAACAAGGACTAATCTGAAACAAAATAGAAAAACGTAGAAAAATTTGAAAAC
AGGGGTCACACAACCGTGTGACAGAGCCCAGGCTGTGTGGCTCAGGAACATGGTCATGTGGCCAA
CCGTGTA
Found at i:36974671 original size:24 final size:23
Alignment explanation
Indices: 36974644--36974703 Score: 57
Period size: 27 Copynumber: 2.4 Consensus size: 23
36974634 CAAGGATTTA
36974644 TCTTTTTTCTGCTCTTCTGCTTCC
1 TCTTTTTTCTGCTCTTCTGCTT-C
** *
36974668 TCTTGTTTCTTCTTTTCTTTTGCTTC
1 TC-T-TTT-TTCTGCTCTTCTGCTTC
36974694 TCTTTTTTCT
1 TCTTTTTTCT
36974704 TTTTCTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
23 4 0.13
24 5 0.17
25 2 0.07
26 6 0.20
27 13 0.43
ACGTcount: A:0.00, C:0.27, G:0.07, T:0.67
Consensus pattern (23 bp):
TCTTTTTTCTGCTCTTCTGCTTC
Found at i:36974712 original size:24 final size:27
Alignment explanation
Indices: 36974656--36974712 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 27
36974646 TTTTTTCTGC
*
36974656 TCTTCTGCTTCCTCTTGTTTCTTCTTT
1 TCTTTTGCTTCCTCTTGTTTCTTCTTT
*
36974683 TCTTTTGCTT-CTCTTTTTTC-T-TTT
1 TCTTTTGCTTCCTCTTGTTTCTTCTTT
36974707 TCTTTT
1 TCTTTT
36974713 TGAGCATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 1 0.04
26 9 0.32
27 9 0.32
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (27 bp):
TCTTTTGCTTCCTCTTGTTTCTTCTTT
Found at i:36978434 original size:21 final size:20
Alignment explanation
Indices: 36978378--36978434 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
36978368 TTGCTAAAGT
*
36978378 TTTAATGTCAAACTTCAATGA
1 TTTAAT-TCAAATTTCAATGA
***
36978399 TTTAAGTTGTTATTTCAATGCA
1 TTTAA-TTCAAATTTCAATG-A
36978421 TTTAATTCAAATTT
1 TTTAATTCAAATTT
36978435 ACTATTTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTAATTCAAATTTCAATGA
Found at i:36985905 original size:24 final size:24
Alignment explanation
Indices: 36985854--36985905 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
36985844 AGTGGTCAAT
* *
36985854 TCTACTTCTACATCTACTATTAGG
1 TCTACTTCTACATCTACTACTAGA
* * *
36985878 TCTACTTCTCCATCTACTGCTATA
1 TCTACTTCTACATCTACTACTAGA
36985902 TCTA
1 TCTA
36985906 TAGCTAAGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (24 bp):
TCTACTTCTACATCTACTACTAGA
Found at i:37005959 original size:12 final size:12
Alignment explanation
Indices: 37005942--37005971 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37005932 TCAAGCTGTT
37005942 ACACGGCCTAGC
1 ACACGGCCTAGC
*
37005954 ACACGGCCTGGC
1 ACACGGCCTAGC
37005966 ACACGG
1 ACACGG
37005972 ATGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:37008833 original size:16 final size:16
Alignment explanation
Indices: 37008812--37008860 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
37008802 ATTTCTGGTA
*
37008812 ACAACAGAAATCAAAT
1 ACAACAGAAATCGAAT
*
37008828 ACAACAGAAATTGAAT
1 ACAACAGAAATCGAAT
*
37008844 ACAATAGAAATCGAAT
1 ACAACAGAAATCGAAT
37008860 A
1 A
37008861 AATTCTATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.59, C:0.14, G:0.10, T:0.16
Consensus pattern (16 bp):
ACAACAGAAATCGAAT
Found at i:37009036 original size:78 final size:78
Alignment explanation
Indices: 37008876--37009318 Score: 662
Period size: 78 Copynumber: 5.7 Consensus size: 78
37008866 TATTGAATGG
* * *
37008876 CAGGAA-AAGAATCCTAAAA-TAGAATTATTCAATTGA-TTTCTGTTTGAAACAAAAAAAACCAA
1 CAGGAATAA-AATCCTAAAACAAG-ATTGTTCAATTGATTTTCTGTTTGAAAC---AAAAATCAA
* * *
37008938 ACAAATCTTGTTAAATGA
61 ACAAATCCTATTAAACGA
* *
37008956 CAGGAATAAAATCTTGAAACAA-ATTTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAA
1 CAGGAATAAAATCCTAAAACAAGA-TTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAA
37009020 ATCCTATTAAACGA
65 ATCCTATTAAACGA
37009034 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAA
1 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAA
37009099 TCCTATTAAACGA
66 TCCTATTAAACGA
37009112 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAA
1 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAA
37009177 TCCTATTAAACGA
66 TCCTATTAAACGA
*
37009190 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATTAAACAAA
1 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAA
* *
37009255 TCCTGTTAAACAA
66 TCCTATTAAACGA
* * * *
37009268 CAAGAAT-AAATCCTGAAACAGGATTGTTCAATTGAATTTCTGTTTGAAACA
1 CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACA
37009319 GAATACAATT
Statistics
Matches: 341, Mismatches: 17, Indels: 13
0.92 0.05 0.04
Matches are distributed among these distances:
77 41 0.12
78 256 0.75
79 2 0.01
80 25 0.07
81 17 0.05
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (78 bp):
CAGGAATAAAATCCTAAAACAAGATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAA
TCCTATTAAACGA
Found at i:37013306 original size:15 final size:16
Alignment explanation
Indices: 37013275--37013307 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
37013265 ATTTGGTAAG
*
37013275 GAAGAAAAGTGAGAGA
1 GAAGAAAAGTAAGAGA
37013291 GAAGAAAA-TAAGAGA
1 GAAGAAAAGTAAGAGA
37013306 GA
1 GA
37013308 TAATCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (16 bp):
GAAGAAAAGTAAGAGA
Found at i:37017130 original size:6 final size:6
Alignment explanation
Indices: 37017119--37017146 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37017109 CGTTTTGTTC
37017119 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
37017147 TTCGAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:37037212 original size:28 final size:25
Alignment explanation
Indices: 37037162--37037224 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 25
37037152 ACACACATTA
37037162 AAATATAAAAAATAAAAATATATAT
1 AAATATAAAAAATAAAAATATATAT
* *
37037187 ATATATAAAAATTCAGAAAATTATATAT
1 AAATATAAAAAAT-A-AAAA-TATATAT
*
37037215 AAAAATAAAA
1 AAATATAAAA
37037225 TTTACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 4 0.13
28 15 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAATATAAAAAATAAAAATATATAT
Found at i:37037234 original size:28 final size:26
Alignment explanation
Indices: 37037160--37037234 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 26
37037150 ATACACACAT
*
37037160 TAAAATATAAAAAAT-AAAAATATATA
1 TAAAA-ATAAAAATTCAAAAATATATA
* *
37037186 TATATATAAAAATTCAGAAAATTATATA
1 TAAAAATAAAAATTCA-AAAA-TATATA
*
37037214 TAAAAATAAAATTTACAAAAA
1 TAAAAATAAAAATT-CAAAAA
37037235 ATACGATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 8 0.21
26 4 0.10
27 4 0.10
28 21 0.54
29 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (26 bp):
TAAAAATAAAAATTCAAAAATATATA
Found at i:37037302 original size:8 final size:8
Alignment explanation
Indices: 37037281--37037314 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
37037271 ATTATTACAA
37037281 AAAAATAT
1 AAAAATAT
37037289 AAAAAATTAT
1 -AAAAA-TAT
37037299 AAAAATAT
1 AAAAATAT
37037307 AAAAATAT
1 AAAAATAT
37037315 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.46
9 10 0.42
10 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:37037356 original size:23 final size:23
Alignment explanation
Indices: 37037295--37037364 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
37037285 ATATAAAAAA
*
37037295 TTATAAAAATATAAAAATATTTTT
1 TTAT-AAAATTTAAAAATATTTTT
* *
37037319 TTAAAAAAGTTTAAAGAT-TTTTT
1 TTATAAAA-TTTAAAAATATTTTT
37037342 TTATAAAATTCTAAAAAGTATTT
1 TTATAAAATT-TAAAAA-TATTT
37037365 AAATTTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 21 0.57
24 11 0.30
25 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (23 bp):
TTATAAAATTTAAAAATATTTTT
Done.