Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold111
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: 1194829
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 272571 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:267 original size:53 final size:52
Alignment explanation
Indices: 163--288 Score: 166
Period size: 53 Copynumber: 2.4 Consensus size: 52
153 AGATAATGAG
*
163 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGAGAAATAAAATCGGA
* *
215 GTTGGAGTATCCTTGATTAAAG-GAAAAATTGGTGTTTTGA-AAATAAAATCGGA
1 GTTGGAGTATCCTCGATT---GTGAAAAATTGGTATTTTGAGAAATAAAATCGGA
* *
268 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCTCGATTGTG
289 GAGAATTGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
50 1 0.02
51 1 0.02
52 17 0.27
53 28 0.44
54 16 0.25
55 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGAGAAATAAAATCGGA
Found at i:2675 original size:13 final size:13
Alignment explanation
Indices: 2657--2682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2647 ACAAAGATCT
2657 ATGTATCGATACA
1 ATGTATCGATACA
2670 ATGTATCGATACA
1 ATGTATCGATACA
2683 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2797 original size:21 final size:22
Alignment explanation
Indices: 2773--2830 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
2763 ATTGGGACCC
* *
2773 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
2794 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
2815 TGTATCGATACATTTG
1 TGTATCGATACATTTG
2831 GAAATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:5016 original size:31 final size:32
Alignment explanation
Indices: 4947--5016 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
4937 TTTTATAAGG
*
4947 TAACACTCCATGTCAGTATATCTCTAATGCCGA
1 TAACATTCCATGTCAGTATATCTCTAATGCC-A
* *
4980 AAACATTCCATGTCAGTATCTCTC-AAGTGCC-
1 TAACATTCCATGTCAGTATATCTCTAA-TGCCA
5011 TAACAT
1 TAACAT
5017 AGAATTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 5 0.16
32 2 0.06
33 25 0.78
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (32 bp):
TAACATTCCATGTCAGTATATCTCTAATGCCA
Found at i:9452 original size:20 final size:20
Alignment explanation
Indices: 9424--9473 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
9414 AATGAAAATA
* *
9424 TATCGATACATTTTTCATTG
1 TATCAATACATTTTCCATTG
9444 TATCAATACA--TTCCATTG
1 TATCAATACATTTTCCATTG
9462 TATCAATACATT
1 TATCAATACATT
9474 CTAGGGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (20 bp):
TATCAATACATTTTCCATTG
Found at i:9462 original size:18 final size:18
Alignment explanation
Indices: 9439--9474 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9429 ATACATTTTT
9439 CATTGTATCAATACATTC
1 CATTGTATCAATACATTC
9457 CATTGTATCAATACATTC
1 CATTGTATCAATACATTC
9475 TAGGGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (18 bp):
CATTGTATCAATACATTC
Found at i:16756 original size:32 final size:31
Alignment explanation
Indices: 16696--16863 Score: 138
Period size: 32 Copynumber: 5.5 Consensus size: 31
16686 CGATATTAGG
* * *
16696 TTTAGAAGGGTTACCACTAA-CTCGTGTGGGC
1 TTTAGAAAGGTTGCCACCAACCT-GTGTGGGC
**
16727 TTTAGAGAAGGTTGCCACCAATTTGTGTGGGC
1 TTTAGA-AAGGTTGCCACCAACCTGTGTGGGC
*
16759 TTTA-AAAGGGTTGCCACCGACCTGTGTGGGC
1 TTTAGAAA-GGTTGCCACCAACCTGTGTGGGC
*
16790 TTTAGAAGAGGTTGCCACCGA-CT-TGTGGGC
1 TTTAGAA-AGGTTGCCACCAACCTGTGTGGGC
* *
16820 TTTAAAAAGG-TGCCACTAA-CT-TGTGGG-
1 TTTAGAAAGGTTGCCACCAACCTGTGTGGGC
*
16847 TTTTGAAAAGG-TGCCAC
1 TTTAG-AAAGGTTGCCAC
16864 TGACTTGTGG
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.03
28 26 0.22
29 3 0.03
30 15 0.13
31 33 0.28
32 37 0.31
33 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (31 bp):
TTTAGAAAGGTTGCCACCAACCTGTGTGGGC
Found at i:16774 original size:31 final size:31
Alignment explanation
Indices: 16696--16844 Score: 144
Period size: 32 Copynumber: 4.8 Consensus size: 31
16686 CGATATTAGG
* * * *
16696 TTTAGAAGGGTTACCACTAACTCGTGTGGGC
1 TTTAAAAGGGTTGCCACCAACTTGTGTGGGC
*
16727 TTTAGAGAA-GGTTGCCACCAATTTGTGTGGGC
1 TTTA-A-AAGGGTTGCCACCAACTTGTGTGGGC
* *
16759 TTTAAAAGGGTTGCCACCGACCTGTGTGGGC
1 TTTAAAAGGGTTGCCACCAACTTGTGTGGGC
* *
16790 TTTAGAAGAGGTTGCCACCGAC-T-TGTGGGC
1 TTTAAAAG-GGTTGCCACCAACTTGTGTGGGC
* *
16820 TTTAAAAAGG-TGCCACTAACTTGTG
1 TTTAAAAGGGTTGCCACCAACTTGTG
16845 GGTTTTGAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
28 8 0.08
29 3 0.03
30 17 0.17
31 33 0.33
32 36 0.36
33 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (31 bp):
TTTAAAAGGGTTGCCACCAACTTGTGTGGGC
Found at i:16842 original size:28 final size:28
Alignment explanation
Indices: 16752--17310 Score: 479
Period size: 28 Copynumber: 19.7 Consensus size: 28
16742 CACCAATTTG
* *
16752 TGTGGGCTTTAAAAGGGTTGCCACCGACCT
1 TGTGGGCTTTAAAAAGG-TGCCACTGA-CT
* *
16782 GTGTGGGCTTTAGAAGAGGTTGCCACCGACT
1 -TGTGGGCTTTA-AAAAGG-TGCCACTGACT
*
16813 TGTGGGCTTTAAAAAGGTGCCACTAACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* *
16841 TGTGGGTTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* *
16869 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* * * * *
16897 TGCGAGCTTT-GAGAGGATGCCACTAACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
** * *
16925 TACGGGCTTTGAAAAGGTGCCACTGACA
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* *
16953 TGTGGGCTTT-GAAAGGTGCCACTGGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* *
16980 TGTGGGCTTTGAAAAGAGTTGCCATTGACT
1 TGTGGGCTTT-AAAA-AGGTGCCACTGACT
** * * *
17010 TGAAGGCTCT-GAAAGGATGCCAATGACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
* *
17038 TATGGGCTTT-GAAAGGTGCCACT-AGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGA-CT
**
17065 TGTGGG-TTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
* *
17093 TGCGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* ** *
17121 TGTAGGC-TTCGAAAGGTGCCACTGGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* * *
17148 TGTGGGATTT-GAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
*
17176 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
* * * *
17204 TATGGGCCTTGAAAGGGTGCCACT-AGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGA-CT
*
17232 TATGGGCTTTGAAAAAGGTTGCCACTGACT
1 TGTGGGCTTT-AAAAAGG-TGCCACTGACT
17262 TGTGGGCTTTGAAAAAGGTTGCCACTGACT
1 TGTGGGCTTT-AAAAAGG-TGCCACTGACT
*
17292 TGTGGGCTTTGAAAAGGTG
1 TGTGGGCTTTAAAAAGGTG
17311 TCGTATTGAC
Statistics
Matches: 443, Mismatches: 66, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.01
27 77 0.17
28 221 0.50
29 36 0.08
30 77 0.17
31 14 0.03
32 14 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTAAAAAGGTGCCACTGACT
Found at i:17135 original size:83 final size:83
Alignment explanation
Indices: 16720--17310 Score: 616
Period size: 83 Copynumber: 6.9 Consensus size: 83
16710 CACTAACTCG
* * * *
16720 TGTGGGCTTTAGAGAAGGTTGCCACCAATTTGTGTGGGCTTT-AAAAGGGTTGCCACCGACCTGT
1 TGTGGGCTTT-GA-AAGGATGCCACTAA-CT-TGTGGGCTTTGAAAA-GG-TGCCACTGA-CT-T
*
16784 GTGGGCTTTAGAAGAGGTTGCCAC-CGACT
58 GTGGGCTTT-GAA-AGG-TGCCACTAG-CT
* *
16813 TGTGGGCTTTAAAAAGG-TGCCACTAACTTGTGGGTTTTGAAAAGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTT-GAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
*
16877 TTGAAAAGATGCCACT-GACT
65 TTG-AAAGGTGCCACTAG-CT
* * * ** *
16897 TGCGAGCTTTGAGAGGATGCCACTAACTTACGGGCTTTGAAAAGGTGCCACTGACATGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
*
16962 TGAAAGGTGCCACTGGCT
66 TGAAAGGTGCCACTAGCT
* * * ** * * *
16980 TGTGGGCTTTGAAAAGAGTTGCCATTGACTTGAAGGCTCTG-AAAGGATGCCAATGACTTATGGG
1 TGTGGGCTTTG-AAAG-GATGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGG
17044 CTTTGAAAGGTGCCACTAGCT
63 CTTTGAAAGGTGCCACTAGCT
* * * *
17065 TGTGGGTTTTGAAAGGATGCCACTGACTTGCGGGCTTTGAAAAGGTGCCACTGACTTGTAGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* *
17130 CGAAAGGTGCCACTGGCT
66 TGAAAGGTGCCACTAGCT
* * *
17148 TGTGGGATTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCCT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
17213 TGAAAGGGTGCCACTAGCT
66 TGAAA-GGTGCCACTAGCT
* * *
17232 TATGGGCTTTGAAAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGGTTGCCACTGACTTGTGG
1 TGTGGGCTTTG--AAAGGATGCCACTAACTTGTGGGCTTTG-AAAAGG-TGCCACTGACTTGTGG
17297 GCTTTGAAAAGGTG
62 GCTTTG-AAAGGTG
17311 TCGTATTGAC
Statistics
Matches: 429, Mismatches: 54, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
83 141 0.33
84 103 0.24
85 64 0.15
86 38 0.09
87 8 0.02
88 32 0.07
89 14 0.03
90 5 0.01
91 8 0.02
92 4 0.01
93 12 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (83 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
TGAAAGGTGCCACTAGCT
Found at i:26835 original size:13 final size:13
Alignment explanation
Indices: 26817--26858 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
26807 AATTTCATCA
26817 TGTATCGATACAT
1 TGTATCGATACAT
*
26830 TGTATCGATACAA
1 TGTATCGATACAT
26843 TGTATCGATACAT
1 TGTATCGATACAT
26856 TGT
1 TGT
26859 CCCATGTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26852 original size:26 final size:23
Alignment explanation
Indices: 26793--26874 Score: 84
Period size: 26 Copynumber: 3.7 Consensus size: 23
26783 CCGTTACAAG
*
26793 CAATGTATCGATACAAT-TTCAT
1 CAATGTATCGATACATTGTTCAT
26815 C-ATGTATCGATACATTGTATCGAT
1 CAATGTATCGATACATTGT-TC-AT
26839 ACAATGTATCGATACATTG-TC--
1 -CAATGTATCGATACATTGTTCAT
*
26860 CCATGTATCGATACA
1 CAATGTATCGATACA
26875 AACAGTGGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
20 14 0.26
21 14 0.26
22 2 0.04
23 2 0.04
24 4 0.08
25 1 0.02
26 16 0.30
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (23 bp):
CAATGTATCGATACATTGTTCAT
Found at i:26930 original size:20 final size:20
Alignment explanation
Indices: 26904--26958 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
26894 CTGCCAATCT
*
26904 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAG
26923 CTATGTATCGATACAA-TGAG
1 C-ATGTATCGATACAATTGAG
26943 CATGTATCGATACAAT
1 CATGTATCGATACAAT
26959 GTATCGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:26962 original size:13 final size:13
Alignment explanation
Indices: 26944--26970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26934 TACAATGAGC
26944 ATGTATCGATACA
1 ATGTATCGATACA
26957 ATGTATCGATACA
1 ATGTATCGATACA
26970 A
1 A
26971 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28542 original size:13 final size:12
Alignment explanation
Indices: 28524--28601 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 12
28514 GACCCCTCCC
28524 TTTTTTGTATTTT
1 TTTTTTGT-TTTT
28537 TTTTTTGGTTTTTCT
1 TTTTTT-G-TTTT-T
*
28552 TTTTTTCTTTTT
1 TTTTTTGTTTTT
*
28564 TTTGGTTTTTTTTGCT
1 TTT--TTTGTTTT--T
28580 TTTTTTG-TTTT
1 TTTTTTGTTTTT
28591 TTTTTTGTTTT
1 TTTTTTGTTTT
28602 ACTTTTTGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
11 8 0.15
12 7 0.13
13 13 0.24
14 14 0.26
15 8 0.15
16 4 0.07
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.85
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:28556 original size:18 final size:18
Alignment explanation
Indices: 28533--28608 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 18
28523 CTTTTTTGTA
28533 TTTTTTTTTTGGTTTTTC
1 TTTTTTTTTTGGTTTTTC
28551 TTTTTTTCTTT--TTTTT-
1 TTTTTTT-TTTGGTTTTTC
** * *
28567 GGTTTTTTTTGCTTTTTT
1 TTTTTTTTTTGGTTTTTC
* *
28585 TGTTTTTTTTTTGTTTTAC
1 T-TTTTTTTTTGGTTTTTC
28604 TTTTT
1 TTTTT
28609 GAGGACGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
15 3 0.07
16 5 0.11
17 10 0.22
18 11 0.24
19 16 0.36
ACGTcount: A:0.01, C:0.05, G:0.09, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTGGTTTTTC
Found at i:28601 original size:9 final size:9
Alignment explanation
Indices: 28524--28594 Score: 65
Period size: 9 Copynumber: 7.7 Consensus size: 9
28514 GACCCCTCCC
28524 TTTTTTGTAT
1 TTTTTTGT-T
28534 TTTTTT-TT
1 TTTTTTGTT
*
28542 TGGTTTTTCTT
1 T--TTTTTGTT
28553 TTTTTCT-TT
1 TTTTT-TGTT
*
28562 TTTTTGGTT
1 TTTTTTGTT
*
28571 TTTTTTGCT
1 TTTTTTGTT
28580 TTTTTTGTT
1 TTTTTTGTT
28589 TTTTTT
1 TTTTTT
28595 TTGTTTTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
8 2 0.04
9 35 0.67
10 12 0.23
11 3 0.06
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:35341 original size:13 final size:13
Alignment explanation
Indices: 35323--35379 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
35313 CATAAAGTGT
35323 TGTATCGATACAA
1 TGTATCGATACAA
*
35336 TGTATCGATATATAA
1 TGTATCG--ATACAA
35351 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
35368 TGTATCGATACA
1 TGTATCGATACA
35380 TAAGTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 19 0.53
15 5 0.14
17 5 0.14
19 7 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:35358 original size:32 final size:32
Alignment explanation
Indices: 35303--35398 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
35293 TTCAACGATC
35303 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
35336 TGTATCGATATATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
35368 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
35399 TAAGTTTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:35360 original size:19 final size:19
Alignment explanation
Indices: 35303--35417 Score: 119
Period size: 19 Copynumber: 6.6 Consensus size: 19
35293 TTCAACGATC
35303 TGTATCGATACATAAAGTGT
1 TGTATCGATACAT-AAGTGT
35323 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
35336 TGTATCGATATATAAGTGT
1 TGTATCGATACATAAGTGT
35355 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
35368 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
35387 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
35406 TGTATCGATACA
1 TGTATCGATACA
35418 ATGTAAGCTA
Statistics
Matches: 80, Mismatches: 3, Indels: 25
0.74 0.03 0.23
Matches are distributed among these distances:
13 21 0.26
15 4 0.05
17 4 0.05
19 40 0.50
20 11 0.14
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:35478 original size:13 final size:13
Alignment explanation
Indices: 35460--35484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35450 ATTACTCAAA
35460 TGTATCGATACAT
1 TGTATCGATACAT
35473 TGTATCGATACA
1 TGTATCGATACA
35485 CTGATCTTTG
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:35549 original size:52 final size:52
Alignment explanation
Indices: 35493--35621 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
35483 CACTGATCTT
*
35493 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
35545 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
35597 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
35622 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:43933 original size:33 final size:33
Alignment explanation
Indices: 43896--44064 Score: 161
Period size: 33 Copynumber: 5.3 Consensus size: 33
43886 CCCACGGCTC
*
43896 AGTGGCATCTTTCCTTCTTAAAGTCCATAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * *** *
43929 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
43959 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * *** *
43992 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
44022 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
44055 AGTGGCATCT
1 AGTGGCATCT
44065 CTTTCCAAAT
Statistics
Matches: 101, Mismatches: 29, Indels: 12
0.71 0.20 0.08
Matches are distributed among these distances:
30 35 0.35
31 10 0.10
32 10 0.10
33 46 0.46
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (33 bp):
AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
Found at i:43965 original size:30 final size:30
Alignment explanation
Indices: 43929--44031 Score: 116
Period size: 30 Copynumber: 3.3 Consensus size: 30
43919 TCCATAATTT
43929 AGTGGCATCTCTTTCCAAAGCCCACGGCTC
1 AGTGGCATCTCTTTCCAAAGCCCACGGCTC
* * * *** *
43959 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
43992 AGTGGCATCTCTTTCCAAAGCCCACGGCTC
1 AGTGGCATCTCTTTCCAAAGCCCACGGCTC
44022 AGTGGCATCT
1 AGTGGCATCT
44032 TTCCTTCTTA
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
30 28 0.50
31 5 0.09
32 5 0.09
33 18 0.32
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.29
Consensus pattern (30 bp):
AGTGGCATCTCTTTCCAAAGCCCACGGCTC
Found at i:44118 original size:34 final size:33
Alignment explanation
Indices: 44074--44740 Score: 485
Period size: 34 Copynumber: 20.3 Consensus size: 33
44064 TCTTTCCAAA
*
44074 TCCACGACTCCGTGGCACCTTTTTCTTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTT-AAAG
* *
44108 TCTACAACTCCGTGGCA-C--TCT-TTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
* * *
44137 CCCACAACTCCGTGGCGCTCTTTTTCCTTCT-AAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAG
* ** * *
44171 CCCACAACTCTATGGCACTATTTTTCCTTCT-AAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAG
* *
44205 TCCACAACACCGTGACACC----T-TTTT-AAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
* * *
44232 CCCACAACTCCGTGGCACTTTTTTTCCTTCT-AAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAG
44266 TCCACAACTCCGTGGCACCTTTTTCTTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTTC-TTTTAAAG
* *
44300 CCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAG
* * *
44336 TCCACAACTCTGTGGCACCTTGTTCCTTTTTAAG
1 TCCACAACTCCGTGGCACCTT-TTTCTTTTAAAG
* *
44370 TCCACGACTCTGTGGCACC---TTCTTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTT-AAAG
* * *
44401 CCCATAACTCCGTGGCAGTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTT--CTTTTAAAG
* *
44437 TCCACAACCCCGTGGCACCTTGTTCGTTTT-AAG
1 TCCACAACTCCGTGGCACCTTTTTC-TTTTAAAG
* * *
44470 TCCACGACTCCGTGGCACC--TTCCTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
* *
44501 TCCGCGACTCCGTGGCACC---TTCTTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTT-AAAG
*
44532 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAG
*
44568 TCCACAAC-CCTGTGGCACCTTGTTCCTTTT-AAG
1 TCCACAACTCC-GTGGCACCTT-TTTCTTTTAAAG
* * *
44601 TCCACGACTCCGTGGCACC--TTCCTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
* *
44632 TCCGCGACTCCGTGGCACC---TTCTTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCTTTT-AAAG
*
44663 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAG
* *
44699 -CCTACAACTCCGTGGCACCTTGTTCTTTTTAAG
1 TCC-ACAACTCCGTGGCACCTTTTTCTTTTAAAG
44732 TCCACAACT
1 TCCACAACT
44741 TTGTGGCATC
Statistics
Matches: 517, Mismatches: 68, Indels: 97
0.76 0.10 0.14
Matches are distributed among these distances:
27 21 0.04
29 19 0.04
30 30 0.06
31 101 0.20
32 5 0.01
33 64 0.12
34 142 0.27
35 35 0.07
36 84 0.16
37 16 0.03
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (33 bp):
TCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
Found at i:44123 original size:63 final size:63
Alignment explanation
Indices: 43872--44715 Score: 407
Period size: 63 Copynumber: 13.0 Consensus size: 63
43862 AATTCTTCAA
** * * * * * **
43872 ATCTC-TTCTCAAAGCCCACGGCTCAGTGGCATC-TTTCCTTCTTAAAGTCCATAATTTAGTGGC
1 ATCTCTTTC-CAAAGCCCACAACTCCGTGGCACCTTTTTCTT-TTAAAGTCCACAACTCCGTGGC
** * * * * **
43935 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACAACTCCGTGGCACCTTTTTCTT-TTAAAGTCCACAACTCCGTGGC
** * * * * **
43998 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACAACTCCGTGGCACCTTTTTCTT-TTAAAGTCCACAACTCCGTGGC
* * *
44061 ATCTCTTTCCAAA-TCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCTACAACTCCGTGGC
1 ATCTCTTTCCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGTCCACAACTCCGTGGC
** * * * **
44124 A-CTCTTTTTAAAGCCCACAACTCCGTGGCGCTCTTTTTCCTTCT-AAGCCCACAACTCTATGGC
1 ATCTCTTTCCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGTCCACAACTCCGTGGC
* * * * * * *
44187 ACTATTTTTCCTTCTAAGTCCACAACACCGTGACACC----T-TTTT-AAGCCCACAACTCCGTG
1 A-TCTCTTT-C--CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTG
44246 GC
62 GC
* * * * * *
44248 ACTTTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGT
1 A-TCTCTTT-C--CAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGTCCACAACTCCGT
44313 GGC
61 GGC
* * * * * * *
44316 ACTCTTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACCTTGTTCCTTTTTAAGTCCACGACTCT
1 A-TCTCTTT-CC----AAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGTCCACAACTCC
44381 GTGGC
59 GTGGC
* * * * *
44386 ACCTTCTTTTCAAAGCCCATAACTCCGTGGCAGTCTTTTTCCCTTTTAAAGTCCACAACCCCGTG
1 ATC-TCTTTCCAAAGCCCACAACTCCGTGGCA-CCTTTTT--CTTTTAAAGTCCACAACTCCGTG
44451 GC
62 GC
* ** * * * * * *
44453 ACCT-TGTTCGTTTTAAGTCCACGACTCCGTGGCACC--TTCCTTTCAAAGTCCGCGACTCCGTG
1 ATCTCT-TTC---CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTG
44515 GC
62 GC
* *
44517 ACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAAC-CCTGT
1 ATC-TCTTTCCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGTCCACAACTCC-GT
44581 GGC
61 GGC
* * * * * * * *
44584 ACCT-TGTTCCTTTTAAGTCCACGACTCCGTGGCACC--TTCCTTTCAAAGTCCGCGACTCCGTG
1 ATCTCT-TTCC---AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTG
44646 GC
62 GC
* *
44648 ACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAG-CCTACAACTCCGT
1 ATC-TCTTTCCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGTCC-ACAACTCCGT
44712 GGC
61 GGC
44715 A
1 A
44716 CCTTGTTCTT
Statistics
Matches: 637, Mismatches: 92, Indels: 100
0.77 0.11 0.12
Matches are distributed among these distances:
61 54 0.08
62 64 0.10
63 191 0.30
64 55 0.09
65 44 0.07
66 21 0.03
67 71 0.11
68 47 0.07
69 38 0.06
70 49 0.08
71 3 0.00
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.32
Consensus pattern (63 bp):
ATCTCTTTCCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGC
Found at i:44236 original size:27 final size:27
Alignment explanation
Indices: 44201--44255 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
44191 TTTTTCCTTC
*
44201 TAAGTCCACAACACCGTGACACCTTTT
1 TAAGCCCACAACACCGTGACACCTTTT
* * *
44228 TAAGCCCACAACTCCGTGGCACTTTTT
1 TAAGCCCACAACACCGTGACACCTTTT
44255 T
1 T
44256 TCCTTCTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (27 bp):
TAAGCCCACAACACCGTGACACCTTTT
Found at i:44248 original size:61 final size:63
Alignment explanation
Indices: 44167--44343 Score: 214
Period size: 61 Copynumber: 2.7 Consensus size: 63
44157 TTTTTCCTTC
*
44167 TAAGCCCACAACTCTATGGCACTATTTTTCCTTCTAAGTCCACAACACCGTGACA-C-CTTTT
1 TAAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAGTCCACAACACCGTGACACCTCTTTT
* * * *
44228 TAAGCCCACAACTCCGTGGCACTTTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTT
1 TAAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAGTCCACAACACCGTGACACC----TCTT
44293 TT
62 TT
* *
44295 TAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGTCCACAAC
1 T-AAGCCCACAACTCTGTGGCACTATTTTT-CCTTCT-AAGTCCACAAC
44344 TCTGTGGCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
61 50 0.51
62 1 0.01
67 6 0.06
68 26 0.26
69 5 0.05
70 11 0.11
ACGTcount: A:0.23, C:0.33, G:0.11, T:0.33
Consensus pattern (63 bp):
TAAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAGTCCACAACACCGTGACACCTCTTTT
Found at i:44282 original size:95 final size:97
Alignment explanation
Indices: 44074--44680 Score: 348
Period size: 95 Copynumber: 6.2 Consensus size: 97
44064 TCTTTCCAAA
* * * * * *
44074 TCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCTACAACTCCGTGGCACTCTTTTTAAAGCC
1 TCCACAACTCCGTGGCACATTTTTCTCTTCAAAGTCCACAACACCGTGACACTCTTTTTAAAGCC
*
44139 CACAACTCCGTGGCGCTCTTTTTCCTTCTAAG
66 CACAACTCCGTGGCACTCTTTTTCCTTCTAAG
* ** *
44171 CCCACAACTCTATGGCACTATTTTTC-CTTCTAAGTCCACAACACCGTGACAC-CTTTTT-AAGC
1 TCCACAACTCCGTGGCAC-ATTTTTCTCTTCAAAGTCCACAACACCGTGACACTCTTTTTAAAGC
*
44233 CCACAACTCCGTGGCACTTTTTTTCCTTCTAAG
65 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAG
* * * * * * *
44266 TCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TCCACAACTCCGTGGCACATTTTTCTCTTCAAAGTCCACAACACCGTGACACTC----T---TTT
* * * *
44331 TAAAGTCCACAACTCTGTGGCAC-CTTGTTCCTTTTTAAG
59 TAAAGCCCACAACTCCGTGGCACTCTTTTTCC-TTCTAAG
* * * * * * * * *
44370 TCCACGACTCTGTGGCAC---CTTCTTTTCAAAGCCCATAACTCCGTGGCAGTCTTTTTCCCTTT
1 TCCACAACTCCGTGGCACATTTTTCTCTTCAAAGTCCACAACACCGTGACA--C----T-CTTTT
* * * * *
44432 TAAAGTCCACAACCCCGTGGCAC-CTTGTTCGTTTTAAG
59 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAG
* * * * * * * *
44470 TCCACGACTCCGTGGCAC--CTTCCT-TTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTCAAAG
1 TCCACAACTCCGTGGCACATTTTTCTCTTCAAAGTCCACAACACCGTGACA-C-TCTTTTTAAAG
*
44532 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAG
64 CCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAG
* * ** * * *
44568 TCCACAAC-CCTGTGGCACCTTGTTC-CTTTTAAGTCCACGACTCCGTGGCAC-CTTCCTTTCAA
1 TCCACAACTCC-GTGGCACATTTTTCTCTTCAAAGTCCACAACACCGTGACACTCTT--TTT-AA
* * * * *
44630 AGTCCGCGACTCCGTGGCAC-CTTCTT--TTCAAAG
62 AGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAG
*
44663 CCCACAACTCCGTGGCAC
1 TCCACAACTCCGTGGCAC
44681 TCTTTTTCCC
Statistics
Matches: 412, Mismatches: 67, Indels: 64
0.76 0.12 0.12
Matches are distributed among these distances:
94 6 0.01
95 110 0.27
96 18 0.04
97 45 0.11
98 23 0.06
99 9 0.02
100 87 0.21
101 60 0.15
103 11 0.03
104 41 0.10
107 1 0.00
108 1 0.00
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.32
Consensus pattern (97 bp):
TCCACAACTCCGTGGCACATTTTTCTCTTCAAAGTCCACAACACCGTGACACTCTTTTTAAAGCC
CACAACTCCGTGGCACTCTTTTTCCTTCTAAG
Found at i:44509 original size:31 final size:31
Alignment explanation
Indices: 44255--44680 Score: 266
Period size: 31 Copynumber: 13.0 Consensus size: 31
44245 GGCACTTTTT
* *
44255 TTCC-TTCTAAGTCCACAACTCCGTGGCACC
1 TTCCTTTCAAAGTCCACGACTCCGTGGCACC
* * * * *
44285 TTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 ---TTCCTTTCAAAGTCCACGACTCCGTGGCAC-C
* * *
44320 TTTTTCCCTTTTAAAGTCCACAACTCTGTGGCACC
1 ---TT-CCTTTCAAAGTCCACGACTCCGTGGCACC
** *
44355 TTGTTCCTTTTTAAGTCCACGACTCTGTGGCACC
1 ---TTCCTTTCAAAGTCCACGACTCCGTGGCACC
* * ** *
44389 TTCTTTTCAAAGCCCATAACTCCGTGGCAGTCTTT
1 TTCCTTTCAAAGTCCACGACTCCGTGGCA--C--C
* * *
44424 TTCCCTTTTAAAGTCCACAACCCCGTGGCACC
1 TT-CCTTTCAAAGTCCACGACTCCGTGGCACC
* *
44456 TTGTTCGTTT-TAAGTCCACGACTCCGTGGCACC
1 ---TTCCTTTCAAAGTCCACGACTCCGTGGCACC
*
44489 TTCCTTTCAAAGTCCGCGACTCCGTGGCACC
1 TTCCTTTCAAAGTCCACGACTCCGTGGCACC
* * *
44520 TTCTTTTCAAAGCCCACAACTCCGTGGCACTC
1 TTCCTTTCAAAGTCCACGACTCCGTGGCAC-C
* *
44552 TTTTTCCCTTTTAAAGTCCACAAC-CCTGTGGCACC
1 ---TT-CCTTTCAAAGTCCACGACTCC-GTGGCACC
*
44587 TTGTTCCTTT-TAAGTCCACGACTCCGTGGCACC
1 ---TTCCTTTCAAAGTCCACGACTCCGTGGCACC
*
44620 TTCCTTTCAAAGTCCGCGACTCCGTGGCACC
1 TTCCTTTCAAAGTCCACGACTCCGTGGCACC
* * *
44651 TTCTTTTCAAAGCCCACAACTCCGTGGCAC
1 TTCCTTTCAAAGTCCACGACTCCGTGGCAC
44681 TCTTTTTCCC
Statistics
Matches: 326, Mismatches: 47, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
30 13 0.04
31 116 0.36
32 1 0.00
33 42 0.13
34 60 0.18
35 24 0.07
36 70 0.21
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (31 bp):
TTCCTTTCAAAGTCCACGACTCCGTGGCACC
Found at i:44516 original size:131 final size:131
Alignment explanation
Indices: 44074--44736 Score: 788
Period size: 131 Copynumber: 5.0 Consensus size: 131
44064 TCTTTCCAAA
* * * *
44074 TCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCTACAACTCCGTGGCA-C-TCTTTTTAAAG
1 TCCACGACTCCGTGGCACC---TTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
* * * * *
44137 CCCACAACTCCGTGGCGCTCTTTTT-CCTTCT-AAGCCCACAACTCTATGGCACTATTTTTCCTT
63 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTTCCTT
*
44200 CTAAG
127 TTAAG
* * * * * * * *
44205 TCCACAACACCGTGACACCTT--TTT--AAGCCCACAACTCCGTGGCACTTTTTTTCCTTCTAAG
1 TCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCAC-CTTCTT--TTCAAAG
* * *
44266 TCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
63 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTT-CCT
44329 TTTAAAG
126 TTT-AAG
* * ** *
44336 TCCACAACTCTGTGGCACCTTGTTCCTTTTTAAGTCCACGACTCTGTGGCACCTTCTTTTCAAAG
1 TCCACGACTCCGTGGCACC---TTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAG
* * * * * *
44401 CCCATAACTCCGTGGCAGTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCGTTT
63 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTT
44466 TAAG
128 TAAG
*
44470 TCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTCAAAGCCC
1 TCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCC
* *
44535 ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCTGTGGCACCTTGTTCCTTTTAA
66 ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTTTAA
44600 G
131 G
*
44601 TCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTCAAAGCCC
1 TCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCC
* * *
44666 ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCTACAACTCCGTGGCACCTTGTTCTTTTTAA
66 ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTTTAA
44731 G
131 G
44732 TCCAC
1 TCCAC
44737 AACTTTGTGG
Statistics
Matches: 466, Mismatches: 49, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
124 18 0.04
126 3 0.01
127 3 0.01
128 12 0.03
129 47 0.10
130 5 0.01
131 270 0.58
134 22 0.05
135 26 0.06
136 14 0.03
137 28 0.06
138 18 0.04
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (131 bp):
TCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCC
ACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTTTAA
G
Found at i:44799 original size:33 final size:33
Alignment explanation
Indices: 44757--45022 Score: 384
Period size: 33 Copynumber: 8.2 Consensus size: 33
44747 CATCTTTCAC
*
44757 CCTT-TCTAAAGCCCACATAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
44789 CTTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
44821 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAAA
44855 CCTTCTC-AAAGCCCACACAAGTCGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
44886 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAAA
*
44920 CCTTCTC-AAAACCCACACAAGTCGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
44951 CCCTCTCTAAAGCCCACACAAGTTGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
44983 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAAA
45017 CCTTCT
1 CCTTCT
45023 AAGCCCAATA
Statistics
Matches: 211, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
31 13 0.06
32 78 0.37
33 105 0.50
34 15 0.07
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:44893 original size:65 final size:66
Alignment explanation
Indices: 44760--45029 Score: 435
Period size: 65 Copynumber: 4.2 Consensus size: 66
44750 CTTTCACCCT
* * *
44760 TTCTAAAGCCCACATAAGTCGGTGGCAAACTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
44825 C
66 C
44826 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCTT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
44890 C
66 C
* *
44891 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAACCCACACAAGTCGGTGGCAACCCT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
44955 C
66 C
* *
44956 -TCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACC--
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
45018 C
66 C
45019 TTCT-AAGCCCA
1 TTCTAAAGCCCA
45030 ATATAGCTGG
Statistics
Matches: 194, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
63 8 0.04
64 36 0.19
65 117 0.60
66 33 0.17
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (66 bp):
TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
C
Found at i:44979 original size:97 final size:97
Alignment explanation
Indices: 44755--45022 Score: 418
Period size: 97 Copynumber: 2.7 Consensus size: 97
44745 GGCATCTTTC
* *
44755 ACCCTTTCTAAAGCCCACATAAGTCGGTGGCAAACTT-TCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCC-TTCTAAAGCCCACACAAGTCGGTGGCAACCTTCT-TCTAAAGCCCACACAAGTCGGTGGC
*
44819 AA-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
64 AACCCTTC-TCTAAAACCCACACAAGTCGGTGGCA
44853 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
44918 ACCCTTCTC-AAAACCCACACAAGTCGGTGGCA
65 ACCCTTCTCTAAAACCCACACAAGTCGGTGGCA
*
44950 ACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCATTC-TCTAAAGCCCACACAAGTCGGTGGC
1 ACCCT-TCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCACACAAGTCGGTGGC
45014 AACCCTTCT
64 AACCCTTCT
45023 AAGCCCAATA
Statistics
Matches: 161, Mismatches: 4, Indels: 11
0.91 0.02 0.06
Matches are distributed among these distances:
97 90 0.56
98 65 0.40
99 6 0.04
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (97 bp):
ACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
CCCTTCTCTAAAACCCACACAAGTCGGTGGCA
Found at i:45180 original size:92 final size:92
Alignment explanation
Indices: 45017--45662 Score: 814
Period size: 92 Copynumber: 7.0 Consensus size: 92
45007 CGGTGGCAAC
* * *
45017 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
45082 TAGCTGGCCTTAAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
** * *
45110 CCTCCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
45175 AGCTGGCCTTGAATCAGCACATTAGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
45202 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTATGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
45267 AGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
45294 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
45359 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
45386 CCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
45451 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
45478 CCTTCTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTC
1 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* * *
45537 CAATATCGCTGGCCTTGAATCAGCATATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
45570 CCTTTTTCTTTAAGTCCAAT-GCAGCTGGCCTTGAATTAGCACATTGGCA----C--CTTTAAGT
1 -C-----CTTTAAGTCCAATATC-GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* *
45628 CCAATATAGCTGGCCTTGAATCAGCATATTGGCA
59 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
45662 C
1 C
45663 TTTTTCCATC
Statistics
Matches: 508, Mismatches: 35, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
89 1 0.00
91 1 0.00
92 464 0.91
93 3 0.01
94 1 0.00
96 1 0.00
98 37 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:45462 original size:233 final size:231
Alignment explanation
Indices: 45022--45710 Score: 894
Period size: 233 Copynumber: 2.9 Consensus size: 231
45012 GCAACCCTTC
* * * * *
45022 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
* * * * * * *
45087 GGCCTTAAATCAGCACATTGGCACC---TC--CAAGCCCAATATCGCTGGCCTTGAATCAGCATA
60 GGCCTTGAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
* * *
45147 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA---C--CTTT
125 TTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTT
* *
45207 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTT
184 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* *
45255 TATGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
45320 GAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
66 GAATCAGCATATTGGCACCTTT-TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
* *
45385 ACCTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
130 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTAAGTCCAATA
45450 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
194 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
45488 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
* *
45553 GAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGCAGCTGGCCTTGAATTAGCACATTGGC
66 GAATCAGCATATTGGCACC-TTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
*
45618 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTTCCATCTTTAAGTTCA
130 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC---TT-CATCTTTAAGTCCA
* *
45683 ATGTAGCTGGCCTTGAATCAGCACATTG
191 ATATAGCTGGCCTTGAATCAGCATATTG
45711 ACATCTTTTT
Statistics
Matches: 408, Mismatches: 31, Indels: 31
0.87 0.07 0.07
Matches are distributed among these distances:
227 77 0.19
229 2 0.00
231 3 0.01
232 1 0.00
233 281 0.69
234 3 0.01
235 2 0.00
236 39 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (231 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
Found at i:45698 original size:52 final size:54
Alignment explanation
Indices: 45620--45773 Score: 204
Period size: 52 Copynumber: 2.9 Consensus size: 54
45610 ACATTGGCAC
45620 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTCAT
* * * *
45672 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC-TTTTTCTCAT
* * * * *
45727 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
45774 ATCACTTTTC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 38 0.44
53 1 0.01
54 9 0.10
55 38 0.44
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTCAT
Found at i:45831 original size:67 final size:68
Alignment explanation
Indices: 45723--45849 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
45713 ATCTTTTTTC
* * *
45723 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
45787 TCT
66 TCT
* * * *
45790 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
45850 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:45899 original size:53 final size:52
Alignment explanation
Indices: 45802--45993 Score: 161
Period size: 55 Copynumber: 3.6 Consensus size: 52
45792 ATCTTTAAGT
* * * ** *
45802 CCAATATTGCTGGCCTTGAATCAGCATATTGGCA-CCTTCATCATCTTTAAAAC
1 CCAATATCGCTGGCCGTGAATCAGCACATTGGCATTTTTC-TCATC-TTCAAAC
* * * * **
45855 CCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTCAAGT
1 CCAATATCGCTGGCCGTGAATCAGCACATTGGCATTTTTCTCATCTTCAAAC
* * * *
45907 CTAATGTCGCTGACCGTGAATCAGCACATTGACATCCATTTTCTCATCTTCAAAC
1 CCAATATCGCTGGCCGTGAATCAGCACATTGGCAT---TTTTCTCATCTTCAAAC
* * *
45962 CCAATATCGTTGGCCGTGAATCAACATATTGG
1 CCAATATCGCTGGCCGTGAATCAGCACATTGG
45994 TCCTTTTATC
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
52 33 0.29
53 36 0.32
54 3 0.03
55 40 0.36
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (52 bp):
CCAATATCGCTGGCCGTGAATCAGCACATTGGCATTTTTCTCATCTTCAAAC
Found at i:46682 original size:19 final size:19
Alignment explanation
Indices: 46643--46726 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
46633 TTTCAACGAT
46643 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
46663 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
46682 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
46696 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
46714 TTGTATCGATACA
1 TTGTATCGATACA
46727 ATGTAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:46701 original size:13 final size:13
Alignment explanation
Indices: 46683--46707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46673 ACATAAGTGT
46683 TGTATCGATACAA
1 TGTATCGATACAA
46696 TGTATCGATACA
1 TGTATCGATACA
46708 TAAGTTTTGT
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:46705 original size:32 final size:32
Alignment explanation
Indices: 46664--46731 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
46654 CATAAAGTGT
46664 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
46696 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
46728 TGTA
1 TGTA
46732 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:46831 original size:52 final size:52
Alignment explanation
Indices: 46760--46917 Score: 210
Period size: 52 Copynumber: 3.0 Consensus size: 52
46750 TATCGATACA
* *** *
46760 TTACTCAAATGTATCGATACACTGAT-CTTTATATCGATACATGCAGGCAAAT
1 TTACCCAAATGTATCGATACACT-ATAAAATGTATCGATACATGCAGGCAAAT
* * * *
46812 TTGCCCAGATGTATCGATACACTATAAAATGTATCGATACATGCAAGAAAAT
1 TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAAT
*
46864 TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGTAGGCAAAT
1 TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAAT
46916 TT
1 TT
46918 TCATATTTTG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (52 bp):
TTACCCAAATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAAT
Found at i:57031 original size:21 final size:21
Alignment explanation
Indices: 56984--57037 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
56974 GCCTTTTGTT
56984 TGTT-CTGGTTGCTGCTGGCG
1 TGTTGCTGGTTGCTGCTGGCG
*
57004 T-TTGCTGGTTGCTGCT-TCTG
1 TGTTGCTGGTTGCTGCTGGC-G
57024 TGTTGCTGGTTGCT
1 TGTTGCTGGTTGCT
57038 ATTGGTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 12 0.40
ACGTcount: A:0.00, C:0.19, G:0.35, T:0.46
Consensus pattern (21 bp):
TGTTGCTGGTTGCTGCTGGCG
Found at i:57749 original size:21 final size:21
Alignment explanation
Indices: 57725--57765 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57715 CATCATCATT
* *
57725 TTTTTATTTTATAATTTTTAA
1 TTTTGATTTTAGAATTTTTAA
*
57746 TTTTGATTTTAGATTTTTTA
1 TTTTGATTTTAGAATTTTTA
57766 TTTGATGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTGATTTTAGAATTTTTAA
Found at i:57799 original size:29 final size:27
Alignment explanation
Indices: 57767--57820 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
57757 GATTTTTTAT
57767 TTGATGATTTTTTAAATTTTTTTGATTCA
1 TTGAT-ATTTTTTAAA-TTTTTTGATTCA
* *
57796 TTGATTTTTTTTGAATTTTTTGATT
1 TTGATATTTTTTAAATTTTTTGATT
57821 TTTCATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 8 0.35
29 5 0.22
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (27 bp):
TTGATATTTTTTAAATTTTTTGATTCA
Found at i:57804 original size:18 final size:19
Alignment explanation
Indices: 57783--57823 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57773 ATTTTTTAAA
57783 TTTTTTTG-ATTCATTGAT
1 TTTTTTTGAATTCATTGAT
**
57801 TTTTTTTGAATTTTTTGAT
1 TTTTTTTGAATTCATTGAT
57820 TTTT
1 TTTT
57824 CATTATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.02, G:0.10, T:0.73
Consensus pattern (19 bp):
TTTTTTTGAATTCATTGAT
Found at i:60349 original size:13 final size:13
Alignment explanation
Indices: 60331--60356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60321 CAATTTTTTG
60331 TGTATCGATACAT
1 TGTATCGATACAT
60344 TGTATCGATACAT
1 TGTATCGATACAT
60357 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:60435 original size:20 final size:20
Alignment explanation
Indices: 60410--60482 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
60400 TACATCTTTT
60410 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
60430 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
60451 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
60471 ATGTATCGATAC
1 ATGTATCGATAC
60483 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:60457 original size:41 final size:39
Alignment explanation
Indices: 60399--60482 Score: 150
Period size: 41 Copynumber: 2.1 Consensus size: 39
60389 CAAGAAATGT
60399 ATACATCTTTTATGTATCGATACATTGCAACATGTATCG
1 ATACATCTTTTATGTATCGATACATTGCAACATGTATCG
60438 ATACATCATTTTCATGTATCGATACATTGCAACATGTATCG
1 ATACATC-TTTT-ATGTATCGATACATTGCAACATGTATCG
60479 ATAC
1 ATAC
60483 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 7 0.16
40 4 0.09
41 32 0.74
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (39 bp):
ATACATCTTTTATGTATCGATACATTGCAACATGTATCG
Found at i:62952 original size:13 final size:13
Alignment explanation
Indices: 62934--62971 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
62924 ATAATCACCC
62934 TGTATCGATACAG
1 TGTATCGATACAG
*
62947 TGTATCGATACAT
1 TGTATCGATACAG
62960 TGTATCGATACA
1 TGTATCGATACA
62972 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:62985 original size:20 final size:20
Alignment explanation
Indices: 62960--63036 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
62950 ATCGATACAT
62960 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
62980 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
63005 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
63025 TGTATCGATACA
1 TGTATCGATACA
63037 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:66914 original size:21 final size:21
Alignment explanation
Indices: 66885--66929 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
66875 AAGTTTTCAT
*
66885 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
66905 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
66927 TTT
1 TTT
66930 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:69162 original size:13 final size:13
Alignment explanation
Indices: 69144--69169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69134 CAATTTTTTG
69144 TGTATCGATACAT
1 TGTATCGATACAT
69157 TGTATCGATACAT
1 TGTATCGATACAT
69170 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:69233 original size:20 final size:20
Alignment explanation
Indices: 69208--69282 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
69198 CTGCCAAGAA
*
69208 ATGTATCGATACATCTTTTT
1 ATGTATCGATACATCTTTTC
***
69228 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCT-TTTC
69248 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATC-TTTTC
69269 ATGTATCGATACAT
1 ATGTATCGATACAT
69283 TGCAACATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.02
20 28 0.62
21 15 0.33
22 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTTTC
Found at i:69283 original size:41 final size:40
Alignment explanation
Indices: 69208--69300 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 40
69198 CTGCCAAGAA
*
69208 ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTCATGTATCGATACATTGCAAC
69248 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTCATGTATCGATACATTGCAAC
69289 ATGTATCGATAC
1 ATGTATCGATAC
69301 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 15 0.29
41 36 0.71
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (40 bp):
ATGTATCGATACATCTTTTCATGTATCGATACATTGCAAC
Found at i:69293 original size:20 final size:20
Alignment explanation
Indices: 69228--69300 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
69218 ACATCTTTTT
69228 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
69248 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
69269 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
69289 ATGTATCGATAC
1 ATGTATCGATAC
69301 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:71585 original size:51 final size:51
Alignment explanation
Indices: 71520--71635 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
71510 AAAAATAATA
71520 GGGTTGGAGTATCCTCGATGGT-AGAAAATCAATGTTTTGGAAATAAAA-TCG
1 GGGTTGGAGTATCCTCGATGGTGA-AAAATCAATGTTTTGGAAATAAAACT-G
* **
71571 GGGTTGGAGTATCCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACTG
1 GGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTTTGGAAATAAAACTG
* *
71622 AGGTTAGAGTATCC
1 GGGTTGGAGTATCC
71636 CCTCGAATTG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 56 0.97
52 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTTTGGAAATAAAACTG
Found at i:71685 original size:69 final size:69
Alignment explanation
Indices: 71574--71711 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
71564 AAAATCGGGG
* * *
71574 TTGGAGTATCCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACTGAGGTT-AGAGTATCCCC
1 TTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGA-AGTATCCCC
71638 TCGAA
65 TCGAA
* *
71643 TTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGGGGTTGAAGTATCCTCT
1 TTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGAAGTATCCCCT
71708 CGAA
66 CGAA
71712 AATAATTGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 62 0.98
70 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (69 bp):
TTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGAAGTATCCCCT
CGAA
Found at i:73529 original size:61 final size:61
Alignment explanation
Indices: 73367--74073 Score: 863
Period size: 61 Copynumber: 11.6 Consensus size: 61
73357 TTTAAGATGG
* * * *
73367 AAAAGGAGAGAGGCGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTATGTGGGCTTT
1 AAAAGGAGA-AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
73429 AAAA-AAGAA-GTGTCCTGCTCTTT-AGGGACTAAAAGGTGCCACCCACTTGTGTGGGCTCT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
73488 AAAAGG-GAAAGACGACTTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAG-AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* ** * * *
73549 GAAAGGA-AA-ATGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
73608 AAAAGGAGAAGGTGTCCTACTCTTTGAGGATTGAAATA-G-GCCACCAACTTGTGTGGGTTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACT-AAA-AGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
73669 AAAAGGAGAAGGCACATCCCGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT
1 AAAAGGAGAAGG--CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
73732 AAAAGGAGAAAGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTTTGTGGGCTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
73793 AAAAGGAGAAGGCATCCTACTCTTTAAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
73854 AAAAGGAGAAGGCGTCCTACTCTTTAAGGAGTGAAAGTTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
73915 AAAAGGAGAAGGCGTCCTGCTTTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGTTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
73976 AAAAGGAGAAGGCATCCTACTCTTTGAGGACTAAAAGGTTCCACCAACTTGTGTGGGCTTT
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
*
74037 AAAAGGAGAAGGCGTCATGCTCTTTGAGGACTAAAAG
1 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAG
74074 AATAAAAGGT
Statistics
Matches: 559, Mismatches: 72, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.00
59 95 0.17
60 7 0.01
61 399 0.71
62 11 0.02
63 46 0.08
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (61 bp):
AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:82871 original size:20 final size:20
Alignment explanation
Indices: 82846--82970 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
82836 TTCTAACTAG
82846 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
82866 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
82897 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * * *
82917 ATATATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
* *
82937 ATGTATCAATACATTAAAAA
1 ATGTATCGATACATTGAAAA
* *
82957 ATATATTGATACAT
1 ATGTATCGATACAT
82971 CTAGGTACTT
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 56 0.70
21 2 0.03
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 2 0.03
31 14 0.17
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:83563 original size:51 final size:51
Alignment explanation
Indices: 83498--83622 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
83488 TCATTTTTAA
* * *
83498 GGGGATACTCCAACCTCATTTTTACTTCCAAAATATTAAATTTTTTATCTC
1 GGGGATACTCCAACCCCATTTTTACTTCCAAAATATTAAAATTTTCATCTC
* * * *
83549 GGGGATATTTCAACCCCGTTTTTACTTTCAAAATATTAAAATTTTCATCTC
1 GGGGATACTCCAACCCCATTTTTACTTCCAAAATATTAAAATTTTCATCTC
* *
83600 GAGGATACTCCAAACCCGATTTT
1 GGGGATACTCC-AACCCCATTTT
83623 CACCAAAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
51 52 0.85
52 9 0.15
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (51 bp):
GGGGATACTCCAACCCCATTTTTACTTCCAAAATATTAAAATTTTCATCTC
Found at i:85600 original size:9 final size:9
Alignment explanation
Indices: 85563--85605 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
85553 TTAAATATCA
85563 AATAAAATT
1 AATAAAATT
*
85572 AATATAA-T
1 AATAAAATT
*
85580 AATTAAATTT
1 AA-TAAAATT
85590 AATAAAATT
1 AATAAAATT
85599 AATAAAA
1 AATAAAA
85606 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 3 0.11
9 22 0.79
10 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AATAAAATT
Found at i:85612 original size:22 final size:25
Alignment explanation
Indices: 85563--85620 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
85553 TTAAATATCA
85563 AATAAAATTAATATAATAATTAAATTT
1 AATAAAATTAATATAATAATT--ATTT
85590 AATAAAATTAATA-AA-AATT-TTT
1 AATAAAATTAATATAATAATTATTT
85612 AA-AAAATTA
1 AATAAAATTA
85621 TCAATGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.23
22 5 0.16
25 4 0.13
26 2 0.06
27 13 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAAAATTAATATAATAATTATTT
Found at i:90135 original size:51 final size:51
Alignment explanation
Indices: 90062--90168 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
90052 CATCTAGAAA
* *
90062 AAAAAGATAGAATGTATTGATACATTGAAAAATGTATCAATACATCTGGGT
1 AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCAATACATCTGGGT
* *
90113 AAAAAGACAGAATGTATCGATACATTGAAGAATGTATCGATACATCTGGGT
1 AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCAATACATCTGGGT
90164 AAAAA
1 AAAAA
90169 TGTGACTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (51 bp):
AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCAATACATCTGGGT
Found at i:90760 original size:20 final size:19
Alignment explanation
Indices: 90735--90805 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
90725 ACCTTGAAAA
90735 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
90755 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
90774 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
90795 GTATCGATACA
1 GTATCGATACA
90806 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:90858 original size:53 final size:53
Alignment explanation
Indices: 90775--90911 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
90765 AGATTGCATA
90775 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
90829 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
90882 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
90912 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:91068 original size:13 final size:13
Alignment explanation
Indices: 91050--91088 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
91040 TCACTATTCA
91050 TGTATCGATACAT
1 TGTATCGATACAT
*
91063 TGTATCGATACAG
1 TGTATCGATACAT
*
91076 CGTATCGATACAT
1 TGTATCGATACAT
91089 CATAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:93161 original size:52 final size:52
Alignment explanation
Indices: 93101--93238 Score: 204
Period size: 52 Copynumber: 2.7 Consensus size: 52
93091 TTACCTACAC
* * * *
93101 GTATCGATACATTGAAGAATGTATCGATACATTTAGGTTAAAAGCCCAAAAT
1 GTATCGATACAATGAAAAATGTATCGATACATTTAAGTTAAAAACCCAAAAT
93153 GTATCGATACAATGAAAAATGTATCGATACATTTAAGTTAAAAACCCAAAAT
1 GTATCGATACAATGAAAAATGTATCGATACATTTAAGTTAAAAACCCAAAAT
** * *
93205 GTATTAATATAATGAAAAATGTATCGATGCATTT
1 GTATCGATACAATGAAAAATGTATCGATACATTT
93239 CCTTTCCATA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (52 bp):
GTATCGATACAATGAAAAATGTATCGATACATTTAAGTTAAAAACCCAAAAT
Found at i:93320 original size:20 final size:20
Alignment explanation
Indices: 93295--93339 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
93285 CATTTCAAAT
93295 ATACATTCACTTATGTATCG
1 ATACATTCACTTATGTATCG
* *
93315 ATACATTCACTTATTTATTG
1 ATACATTCACTTATGTATCG
93335 ATACA
1 ATACA
93340 AATTGTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (20 bp):
ATACATTCACTTATGTATCG
Found at i:95719 original size:27 final size:25
Alignment explanation
Indices: 95675--95725 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
95665 AACTAGTTAT
* *
95675 ATTTTAATATTTACTTATGAATAAG
1 ATTTTAATATTTAATTATAAATAAG
95700 ATTTTAATATATTATATTATAAATAA
1 ATTTTAATAT-TTA-ATTATAAATAA
95726 TAATTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
ATTTTAATATTTAATTATAAATAAG
Found at i:96758 original size:21 final size:21
Alignment explanation
Indices: 96732--96778 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
96722 TTCAAGCTTA
96732 ACAAGTAGGAAATTTAAGTTT
1 ACAAGTAGGAAATTTAAGTTT
96753 ACAAGTAGGAAATTTAAGTTT
1 ACAAGTAGGAAATTTAAGTTT
96774 A-AAGT
1 ACAAGT
96779 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ACAAGTAGGAAATTTAAGTTT
Found at i:96788 original size:12 final size:13
Alignment explanation
Indices: 96762--96794 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
96752 TACAAGTAGG
96762 AAATTTAAGTTTA
1 AAATTTAAGTTTA
*
96775 AAGTTTAA-TTTA
1 AAATTTAAGTTTA
96787 AAATTTAA
1 AAATTTAA
96795 AATTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (13 bp):
AAATTTAAGTTTA
Found at i:97019 original size:22 final size:22
Alignment explanation
Indices: 96987--97029 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
96977 TTTCAATTCT
96987 AATTAAAAT-AATAAAATTAAA
1 AATTAAAATAAATAAAATTAAA
*
97008 AATTAAAAATAAATAAATTTAA
1 AATT-AAAATAAATAAAATTAA
97030 TTAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTAAAATAAATAAAATTAAA
Found at i:97392 original size:21 final size:21
Alignment explanation
Indices: 97343--97392 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
97333 TTACTATGAA
* * *
97343 TTTATTGACATGGCTTTTGAT
1 TTTAATGACATAGCATTTGAT
97364 TATT-ATGACATAGCATTTGAT
1 T-TTAATGACATAGCATTTGAT
97385 TTTAATGA
1 TTTAATGA
97393 TGTAGCAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTAATGACATAGCATTTGAT
Found at i:99158 original size:18 final size:17
Alignment explanation
Indices: 99137--99170 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
99127 TAATATTCTA
99137 AATATGAAAAATAACATT
1 AATATGAAAAA-AACATT
*
99155 AATATGATAAAAACAT
1 AATATGAAAAAAACAT
99171 ATAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
AATATGAAAAAAACATT
Found at i:100493 original size:21 final size:21
Alignment explanation
Indices: 100469--100519 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
100459 TTTATAAATT
100469 TATTATTATATTATATTTAA-A
1 TATTATTATATTAT-TTTAATA
*
100490 TATTA-TATA-AATTTTAATA
1 TATTATTATATTATTTTAATA
100509 TATT-TTATATT
1 TATTATTATATT
100520 TACATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 4 0.16
21 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATTATATTATTTTAATA
Found at i:100503 original size:17 final size:16
Alignment explanation
Indices: 100461--100509 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
100451 TATTATTTTT
*
100461 TATAAATTTATTATTA
1 TATAAATTTAATATTA
*
100477 TATTATATTTAAATATTA
1 TA-TAAATTT-AATATTA
100495 TATAAATTTTAATAT
1 TATAAA-TTTAATAT
100510 ATTTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.07
17 14 0.52
18 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAATTTAATATTA
Found at i:100564 original size:23 final size:22
Alignment explanation
Indices: 100512--100564 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
100502 TTTAATATAT
*
100512 TTTATATTTACATTATTTTTAA
1 TTTATATTTACATCATTTTTAA
* *
100534 TATT-TATTCTCCATCATTTTTTA
1 T-TTATATT-TACATCATTTTTAA
100557 TTTATATT
1 TTTATATT
100565 ATTTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATTTACATCATTTTTAA
Found at i:101316 original size:100 final size:100
Alignment explanation
Indices: 101125--101320 Score: 288
Period size: 100 Copynumber: 2.0 Consensus size: 100
101115 AAATTAAATG
* * * *
101125 AATTTGTTAGTATTTTTTTATTTAGAAAAAAATATCTGATTTTGAATTTGAAAAGATGTAATTTT
1 AATTTGTTAGTATCTTTTTATTTAGAAAAAAATATCTGATTTTAAAATTGAAAAAATGTAATTTT
* *
101190 AGTTCTAACTTTGAATTTAATTGCAGATAACCTTC
66 AATTCTAACGTTGAATTTAATTGCAGATAACCTTC
101225 AATTTGTTAGTATCTTTTTATTTAGAAAAAAATGATCTGATTTTAAAATT-AAAGAAATGTAATT
1 AATTTGTTAGTATCTTTTTATTTAGAAAAAAAT-ATCTGATTTTAAAATTGAAA-AAATGTAATT
* *
101289 TTAATTTTAACGTTGAA-TTATTTGCAGATAAC
64 TTAATTCTAACGTTGAATTTAATTGCAGATAAC
101321 AACAGGGAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 49 0.57
101 37 0.43
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (100 bp):
AATTTGTTAGTATCTTTTTATTTAGAAAAAAATATCTGATTTTAAAATTGAAAAAATGTAATTTT
AATTCTAACGTTGAATTTAATTGCAGATAACCTTC
Found at i:101529 original size:1 final size:1
Alignment explanation
Indices: 101523--101551 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
101513 ACAAAAGCCG
101523 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
101552 TTTTCCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:113882 original size:22 final size:22
Alignment explanation
Indices: 113838--113895 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
113828 ACGTCATACA
* * *
113838 TACATTTAATTATATTTACATG
1 TACATTTAGTTAAAGTTACATG
*
113860 TACATTTAGTTAAAGTTATATG
1 TACATTTAGTTAAAGTTACATG
*
113882 TATATTTAGTTAAA
1 TACATTTAGTTAAA
113896 AGGATTGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (22 bp):
TACATTTAGTTAAAGTTACATG
Found at i:113957 original size:20 final size:21
Alignment explanation
Indices: 113932--113978 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
113922 GGGTTACTTT
* *
113932 GTGAAGAGGT-GGTTCTCTTA
1 GTGAAGAGGTAAGTTCCCTTA
*
113952 GTGAAGGGGTAAGTTCCCTTA
1 GTGAAGAGGTAAGTTCCCTTA
113973 GTGAAG
1 GTGAAG
113979 TTTAGTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.23, C:0.11, G:0.36, T:0.30
Consensus pattern (21 bp):
GTGAAGAGGTAAGTTCCCTTA
Found at i:114031 original size:22 final size:22
Alignment explanation
Indices: 113982--114091 Score: 84
Period size: 22 Copynumber: 5.1 Consensus size: 22
113972 AGTGAAGTTT
*
113982 AGTTATATAT--ATTTAGTTAT
1 AGTTATATATACATTTAGTTAA
* * *
114002 AGTGATATGTACATTTATTTAA
1 AGTTATATATACATTTAGTTAA
*
114024 AGTTATATATACACTTAGTTAA
1 AGTTATATATACATTTAGTTAA
* *
114046 TA-TTATATATACATTCAATTAA
1 -AGTTATATATACATTTAGTTAA
* * *
114068 TGTCATATGTAC-TTTCAGTTAA
1 AGTTATATATACATTT-AGTTAA
114090 AG
1 AG
114092 GGTTGGTTTT
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
20 8 0.12
21 2 0.03
22 57 0.84
23 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (22 bp):
AGTTATATATACATTTAGTTAA
Found at i:114318 original size:21 final size:20
Alignment explanation
Indices: 114261--114329 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 20
114251 GTTGATTTTT
*
114261 TTAGTGAAAA-GTTGGATTGC
1 TTAGTGAAAAGGTTGG-TTCC
*
114281 TTTGTGAAAAGGTTGGTTCC
1 TTAGTGAAAAGGTTGGTTCC
114301 ATTAGTGAAAAGGTTGGTTCTC
1 -TTAGTGAAAAGGTTGGTTC-C
114323 TTAGTGA
1 TTAGTGA
114330 GGTTCAGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 12 0.28
21 30 0.70
22 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.29, T:0.38
Consensus pattern (20 bp):
TTAGTGAAAAGGTTGGTTCC
Found at i:119866 original size:163 final size:163
Alignment explanation
Indices: 119518--119896 Score: 420
Period size: 163 Copynumber: 2.3 Consensus size: 163
119508 TAGTTACTAA
* ** * * * ** *
119518 TAAATCAGTTTTCAAAAATTTGTTCATCTTCACGAGTTTTTCATTTTTTCCTTTAAAATTTTCTT
1 TAAATCAGTTTTAAAAAATTCATTAATTTTCATGAGTTTTT-AAATTTT--TTTAAAATTCTCTT
* * * * *
119583 GCTTTCGAAATACGAAGTTTTTTAGTTCGTAAATGTTTTCGAGGGAATTTTTCCTATTTTTAAAT
63 ACTTTCGAAATACGAAGTTTTCTACTCCGTAAATGTTTTAGAGGGAATTTTTCCTATTTTTAAAT
*
119648 TTTAAGATTCATCAAATATTATCACTTAATTCACAT
128 TTTAAAATTCATCAAATATTATCACTTAATTCACAT
*
119684 TAAATCAGTTTTAAAAAATTCATTAATTTTCATGAG-TTTTAAATTTTTTTAAAATTCTCTTATT
1 TAAATCAGTTTTAAAAAATTCATTAATTTTCATGAGTTTTTAAATTTTTTTAAAATTCTCTTACT
* * ** * * *
119748 TTTGAAATACGAAGTTTTCTACTCCGTAAATTTTTTTAG-GGGGTTTTTTCTTGGTTTTTAATTT
66 TTCGAAATACGAAGTTTTCTACTCCGTAAA-TGTTTTAGAGGGAATTTTTCCT-ATTTTTAAATT
* * * *
119812 TTAAAATTCATCAAATATTATTATTTATTTCATAT
129 TTAAAATTCATCAAATATTATCACTTAATTCACAT
* * * *
119847 TAAATCTGTTTTTAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTT
1 TAAATCAGTTTTAAAAAATTCATTAATTTTCATGAGTTTTTAAATTTTTT
119897 CTTTAAAATT
Statistics
Matches: 179, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
162 50 0.28
163 78 0.44
164 17 0.09
165 4 0.02
166 30 0.17
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (163 bp):
TAAATCAGTTTTAAAAAATTCATTAATTTTCATGAGTTTTTAAATTTTTTTAAAATTCTCTTACT
TTCGAAATACGAAGTTTTCTACTCCGTAAATGTTTTAGAGGGAATTTTTCCTATTTTTAAATTTT
AAAATTCATCAAATATTATCACTTAATTCACAT
Found at i:119981 original size:167 final size:163
Alignment explanation
Indices: 119647--120000 Score: 406
Period size: 167 Copynumber: 2.1 Consensus size: 163
119637 TATTTTTAAA
* *
119647 TTTTAAGATTCATCAAATATTATCACTTAATTCACATTAAATCAGTTTTAAAAAATTCATTAATT
1 TTTTAAAATTCATCAAATATTATTACTTAATTCACATTAAATCAGTTTTAAAAAATTCATTAATT
* ** * * *
119712 TTCATGAGTTTTAAATTTTTTTAAAATTCTCTTATTTTTGAAATACGAAGTTTTCTACTCCGTAA
66 TTCATGAGTTTTAAATTTTTTTAAAATTCTCCTATTTCCGAAAAACCAAGTTTTCTACTCCATAA
** * ***
119777 ATTTTTTTAGGGGGTTTTTTCTTGGTTTTTAAT
131 ATCATTTTAGGGGGATTTTTCTTGGTTCAAAAT
* * * * * *
119810 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATCTGTTTTTAAAAATTCATTCATT
1 TTTTAAAATTCATCAAATATTATTACTTAATTCACATTAAATCAGTTTTAAAAAATTCATTAATT
* * * *
119875 TTCATGAGTTTTTGAATTTTTTCTTTAAAATT-TCCCTGTTTCCGAAAAACCTAGTTTTCTATTC
66 TTCATGAG-TTTT-AA-ATTTT-TTTAAAATTCT-CCTATTTCCGAAAAACCAAGTTTTCTACTC
*
119939 CATAAA-CATTTTCGGGGTGATTTTTCTTGGTTCAAAAT
126 CATAAATCATTTTAGGGG-GATTTTTCTTGGTTCAAAAT
*
119977 TTTTAAAATTCATCTAATATTATT
1 TTTTAAAATTCATCAAATATTATT
120001 GTTAAACTCC
Statistics
Matches: 159, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
163 65 0.41
164 4 0.03
165 2 0.01
166 13 0.08
167 75 0.47
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (163 bp):
TTTTAAAATTCATCAAATATTATTACTTAATTCACATTAAATCAGTTTTAAAAAATTCATTAATT
TTCATGAGTTTTAAATTTTTTTAAAATTCTCCTATTTCCGAAAAACCAAGTTTTCTACTCCATAA
ATCATTTTAGGGGGATTTTTCTTGGTTCAAAAT
Found at i:120214 original size:14 final size:15
Alignment explanation
Indices: 120195--120226 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
120185 TAAAATTTTG
120195 TTTTAATTTTTA-AA
1 TTTTAATTTTTATAA
120209 TTTTAATTTTTATAA
1 TTTTAATTTTTATAA
120224 TTT
1 TTT
120227 AATCCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAATTTTTATAA
Found at i:120227 original size:14 final size:14
Alignment explanation
Indices: 120196--120247 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
120186 AAAATTTTGT
120196 TTTAATTTTTA-AA
1 TTTAATTTTTATAA
120209 TTTTAATTTTTATAA
1 -TTTAATTTTTATAA
** *
120224 TTTAATCCTTATTA
1 TTTAATTTTTATAA
120238 -TTAATTTTTA
1 TTTAATTTTTA
120248 CAGTATAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 8 0.25
14 22 0.69
15 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAATTTTTATAA
Found at i:120563 original size:20 final size:19
Alignment explanation
Indices: 120538--120582 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
120528 GAAAGTGAAG
*
120538 GAAAAATAGAGAA-AAAAAA
1 GAAAAAAAGA-AAGAAAAAA
120557 GATAAAAAAGAAAGAAAAAA
1 GA-AAAAAAGAAAGAAAAAA
120577 GAAAAA
1 GAAAAA
120583 CTAAGGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (19 bp):
GAAAAAAAGAAAGAAAAAA
Found at i:121763 original size:11 final size:11
Alignment explanation
Indices: 121749--121778 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
121739 TTAAAAATTA
121749 AAAAATTAAAT
1 AAAAATTAAAT
*
121760 AAAAATTGAAT
1 AAAAATTAAAT
121771 AAAAATTA
1 AAAAATTA
121779 CTATCATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:122408 original size:154 final size:153
Alignment explanation
Indices: 122007--122455 Score: 487
Period size: 154 Copynumber: 2.9 Consensus size: 153
121997 AGGGGTACTA
** * * ** *
122007 AAGGTATCTTCTAG-GGGTATTTTTATAATTTT-TAGAACCAAGTCCTAAGTCATCACCGAGTCC
1 AAGGTATCCCCTAGAGGGCATTTTCATAATTTTATAGAACTGAGTCCTAGGTCATCACCGAGTCC
* * *
122070 ACTTTTATGCTAAAAGTGGGTATTTAGGATAGGTTCATCCCTTCTATAATCTTTTTCAAGTCCTT
66 TCTTTTATGCT-AAAGTTGGTATTTAGGATAGGTTCATCGCTTCTATAATCTTTTT-AAGTCCTT
* *
122135 TAGGAGTA-CTAGGCATTTCTATGTCG
129 TAGG-GTATCGA-GCACTTCTATGTCG
* * * * *
122161 AAGGTATCCCTTAGGGGGTATTTTCATAATTTTATAGAACTGAGTCCTAGGTCATCACTGGGT-C
1 AAGGTATCCCCTAGAGGGCATTTTCATAATTTTATAGAACTGAGTCCTAGGTCATCACCGAGTCC
* * *
122225 TACTTTTATGCTAAAGGTGAGTATTTAGGATAGGTTCATTGTTTCTATAATCTTTTTAAGTCCTT
66 T-CTTTTATGCTAAAGTTG-GTATTTAGGATAGGTTCATCGCTTCTATAATCTTTTTAAGTCCTT
122290 TACGGGTATCGAGCACTTCTATGTCG
129 TA-GGGTATCGAGCACTTCTATGTCG
* ** *
122316 AAGGTATCCCCTA-AGGGCATTTTCATAATTTTCTAGAA-TCGAGTTTTATGTCATCACCGAGTC
1 AAGGTATCCCCTAGAGGGCATTTTCATAATTTTATAGAACT-GAGTCCTAGGTCATCACCGAGTC
* * * ** * * *
122379 CTCTTTTATGCTGGAAGTTGGCATGTAGGATATATTCACCGCATCTATAATCTTTTTAAGTCTTT
65 CTCTTTTATGCT-AAAGTTGGTATTTAGGATAGGTTCATCGCTTCTATAATCTTTTTAAGTCCTT
122444 TAGGGTATCGAG
129 TAGGGTATCGAG
122456 TATTTTAATA
Statistics
Matches: 249, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
153 11 0.04
154 98 0.39
155 68 0.27
156 72 0.29
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (153 bp):
AAGGTATCCCCTAGAGGGCATTTTCATAATTTTATAGAACTGAGTCCTAGGTCATCACCGAGTCC
TCTTTTATGCTAAAGTTGGTATTTAGGATAGGTTCATCGCTTCTATAATCTTTTTAAGTCCTTTA
GGGTATCGAGCACTTCTATGTCG
Found at i:127357 original size:19 final size:21
Alignment explanation
Indices: 127333--127375 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
127323 GCTCTTGTTA
*
127333 AAAAAAATTT-T-CCTTTGAT
1 AAAAAAATTTCTCCCCTTGAT
127352 AAAAAAATTTCTCCCCTTGAT
1 AAAAAAATTTCTCCCCTTGAT
127373 AAA
1 AAA
127376 CGGTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAAAATTTCTCCCCTTGAT
Found at i:129157 original size:21 final size:21
Alignment explanation
Indices: 129118--129166 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
129108 TTTGTTGACG
*
129118 ATTTTG-ATGAAAAATGAAGT
1 ATTTTGAATGAAAAATGAAGA
129138 ATTTTGAAGTGAAAAA-GAAGA
1 ATTTTGAA-TGAAAAATGAAGA
*
129159 AATTTGAA
1 ATTTTGAA
129167 AGAGATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (21 bp):
ATTTTGAATGAAAAATGAAGA
Found at i:129294 original size:13 final size:13
Alignment explanation
Indices: 129276--129300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
129266 TAGTAACCCT
129276 TGTATCGATACAA
1 TGTATCGATACAA
129289 TGTATCGATACA
1 TGTATCGATACA
129301 TCTTTCAATG
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:129405 original size:20 final size:19
Alignment explanation
Indices: 129380--129432 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
129370 CTATAGACCC
*
129380 TAATTCACATCAAACAAGTA
1 TAATTCACATCAAACAA-AA
129400 TAATTCA-AT-AACACAAAA
1 TAATTCACATCAA-ACAAAA
129418 TAATTACACATCAAA
1 TAATT-CACATCAAA
129433 TTCATCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 10 0.36
21 2 0.07
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.25
Consensus pattern (19 bp):
TAATTCACATCAAACAAAA
Found at i:133815 original size:3 final size:3
Alignment explanation
Indices: 133807--133837 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
133797 TTCGAGTCAC
*
133807 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
133838 GTCTTTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:135550 original size:20 final size:20
Alignment explanation
Indices: 135525--135579 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
135515 CTGCCAGTTT
*
135525 CATGTATCGATACAATTGTA
1 CATGTATCGATACAATTGAA
* *
135545 CATGTATCAATAC-AGTGAA
1 CATGTATCGATACAATTGAA
135564 CATGTATCGATACAAT
1 CATGTATCGATACAAT
135580 GTATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:135583 original size:13 final size:13
Alignment explanation
Indices: 135565--135591 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
135555 TACAGTGAAC
135565 ATGTATCGATACA
1 ATGTATCGATACA
135578 ATGTATCGATACA
1 ATGTATCGATACA
135591 A
1 A
135592 AACATAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:137140 original size:14 final size:14
Alignment explanation
Indices: 137121--137147 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
137111 TACATCTTGC
137121 TTGTATCGATACAA
1 TTGTATCGATACAA
137135 TTGTATCGATACA
1 TTGTATCGATACA
137148 TGATTCATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
TTGTATCGATACAA
Found at i:137164 original size:34 final size:33
Alignment explanation
Indices: 137103--137167 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
137093 CACACCTAGA
*
137103 TGTATCGATACATCTTGCTTGTATCGATACAAT
1 TGTATCGATACATATTGCTTGTATCGATACAAT
137136 TGTATCGATACATGATT-CATTGTATCGATACA
1 TGTATCGATACAT-ATTGC-TTGTATCGATACA
137168 TGACAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 14 0.48
34 15 0.52
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTGTATCGATACAAT
Found at i:137178 original size:19 final size:19
Alignment explanation
Indices: 137131--137189 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
137121 TTGTATCGAT
137131 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
137150 ATTC-ATTGTATCGATACATG
1 A--CAATTGTATCGATACATG
*
137170 ACAATTGTATCGATATATG
1 ACAATTGTATCGATACATG
137189 A
1 A
137190 AACTGGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 1 0.03
19 17 0.47
20 17 0.47
21 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (19 bp):
ACAATTGTATCGATACATG
Found at i:143271 original size:31 final size:29
Alignment explanation
Indices: 143216--143277 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 29
143206 ATTCATGCTT
*
143216 TGTTGTTGAATGAATTTTGATGTTTGTTA
1 TGTTGTTGAATGAATTATGATGTTTGTTA
*
143245 TGTTGTGTGATTGAATTATGCATGTTTGTTA
1 TGTTGT-TGAATGAATTATG-ATGTTTGTTA
143276 TG
1 TG
143278 AATTAGGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.21
30 11 0.38
31 12 0.41
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.53
Consensus pattern (29 bp):
TGTTGTTGAATGAATTATGATGTTTGTTA
Found at i:143540 original size:20 final size:22
Alignment explanation
Indices: 143496--143542 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
143486 AATTTTCCAC
143496 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
143518 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
143538 AAATC
1 AAATC
143543 ATTAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:145257 original size:20 final size:21
Alignment explanation
Indices: 145219--145257 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
145209 ATGTGAAAAT
145219 AAATTTTTATAAAGAGGGAGA
1 AAATTTTTATAAAGAGGGAGA
145240 AAATTTTTATAAAG-GGGA
1 AAATTTTTATAAAGAGGGA
145258 AGATAATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (21 bp):
AAATTTTTATAAAGAGGGAGA
Found at i:145875 original size:13 final size:13
Alignment explanation
Indices: 145857--145896 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
145847 ACATCTTGCT
145857 TTGTATCGATACA
1 TTGTATCGATACA
145870 TTGTATCGATACA
1 TTGTATCGATACA
145883 TTGTATCGATACA
1 TTGTATCGATACA
145896 T
1 T
145897 GTTCATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:145926 original size:20 final size:19
Alignment explanation
Indices: 145880--145938 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
145870 TTGTATCGAT
*
145880 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
*
145899 TCATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
145918 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
145938 A
1 A
145939 ACCTGGCAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:146005 original size:13 final size:13
Alignment explanation
Indices: 145987--146012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
145977 CATGGCACAA
145987 TGTATCGATACAT
1 TGTATCGATACAT
146000 TGTATCGATACAT
1 TGTATCGATACAT
146013 GAAGAACTTA
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:149034 original size:154 final size:153
Alignment explanation
Indices: 148783--149594 Score: 528
Period size: 153 Copynumber: 5.2 Consensus size: 153
148773 AAAAATTACG
* * * * *
148783 AAAATGCCCTTA-GGGATACCTTCGACGTAGAAGTA-CTCGATACCCCTAAAGGACTTAAAAAGG
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACCT-GACA-CCCTAAAGAACTTAAAGAGG
* * * * *
148846 AGTATAAAA-GGATGAACTTATCCTAAAGACCTACCTTCAGCATAAAAGTGGATTCGGTGATAAC
64 ATTAGAAAAGGGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAGTGGATCCGGTGATAAC
*
148910 TTATGACTCGATTCTAAAACAATATC
129 TTAAGACTCGATTCTAAAA-AATATC
* * * *
148936 AAAATGCCCCTAGGGGGTACCTTTGACGTAAAAGTACCTGGCACCCTAAAAAACTTAAAGAGGAT
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACCTGACACCCTAAAGAACTTAAAGAGGAT
* * * * *
149001 TAGAAAAGGGATGAACCTATCTTAAATATCTACCTTC-GACATAAAAGTGGA-CCTAGTAATAAT
66 TAGAAAAGGGATGAACCTATCCTAAATACCTACCTTCAG-CATAAAAGTGGATCC-GGTGATAAC
*
149064 TTAAGACTCGATTCTAAAAAATTACC
129 TTAAGACTCGATTCTAAAAAA-TATC
* * * * *
149090 AACAT-ACCCTAGGGGGTACCTTCGACGTACAAGTACCT-AGCACCCTAAAGAACTTAAAGACGA
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACCTGA-CACCCTAAAGAACTTAAAGAGGA
* * * ** * * **
149153 TTATAAAAGGGATGAACTTAT-CTGAAATATCTACCTTTGGCATAAAAG-CGAACTCGGTGACGA
65 TTAGAAAAGGGATGAACCTATCCT-AAATACCTACCTTCAGCATAAAAGTGGATC-CGGTGATAA
* * ** *
149216 CCTAGGA-TTTAGTTTTAAAAAAT-TAC
128 CTTAAGACTCGA-TTCTAAAAAATAT-C
* * * * * *
149242 GAAAATGCCCTTAAGAGATACCATT-GATGTAAAAGTACCTGATACCTCTAAAGGACTTGAAA-A
1 -AAAATGCCCCTAGGGGATACC-TTCGACGTAAAAGTACCTGACACC-CTAAAGAACTT-AAAGA
* * * *
149305 GGGTTAGCAAAATGGGATGAACCTATCCTAAATGCCCACCTTCAACATAAAAGTGGATCCGGTGA
62 GGATTAG-AAAA-GGGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAGTGGATCCGGTGA
* * * * **
149370 CAACGTAGGACT-TAGTTCTAGGAAAT-TAC
125 TAACTTAAGACTCGA-TTCTAAAAAATAT-C
* * * * * * * *
149399 GAAAA-ACCCCTATGGGTATACCATCAACGTAGAAGTACCCCGTGA-ACCCTAAAGGACCTAAAC
1 -AAAATGCCCCTA-GGGGATACCTTCGACGTAAAAGTA--CC-TGACACCCTAAAGAACTTAAAG
* * * * * ** *** *
149462 A-GATTAGAAATGGGGATGAACCTTTCCTAAATGCCCACATTTGGCATAAAAACAGA-CCTGATG
61 AGGATTAGAAA-AGGGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAGTGGATCC-GGTG
* * * *
149525 ACAACCTAAAACTTGATTCTAGAAAAATCATC
124 ATAACTTAAGACTCGATTCTA-AAAAAT-ATC
149557 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACC
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACC
149595 CAATACCTCT
Statistics
Matches: 519, Mismatches: 103, Indels: 72
0.75 0.15 0.10
Matches are distributed among these distances:
152 7 0.01
153 152 0.29
154 118 0.23
155 24 0.05
156 70 0.13
157 115 0.22
158 24 0.05
159 6 0.01
160 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (153 bp):
AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACCTGACACCCTAAAGAACTTAAAGAGGAT
TAGAAAAGGGATGAACCTATCCTAAATACCTACCTTCAGCATAAAAGTGGATCCGGTGATAACTT
AAGACTCGATTCTAAAAAATATC
Found at i:151413 original size:28 final size:27
Alignment explanation
Indices: 151353--151415 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
151343 TTTCTTTTTG
*
151353 CTTGCTTTCTGGTTTATTTCTCTCACTT
1 CTTG-TTTCTGGTTTATTTCTCTCACTC
* * *
151381 TTTGTTTGCTGGTTTTTTTCTTTCACTC
1 CTTGTTT-CTGGTTTATTTCTCTCACTC
151409 CTTGTTT
1 CTTGTTT
151416 TCTCTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.05, C:0.21, G:0.13, T:0.62
Consensus pattern (27 bp):
CTTGTTTCTGGTTTATTTCTCTCACTC
Found at i:151645 original size:15 final size:14
Alignment explanation
Indices: 151606--151663 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 14
151596 AGCTGCTTGC
151606 TTTGCTATCTTTCTTG
1 TTTGCT-TCTTT-TTG
151622 TCGTTGCTTCTTTGTTG
1 T--TTGCTTCTTT-TTG
151639 TTTGCTTCTTTTCTG
1 TTTGCTTCTTTT-TG
151654 TTTGCTTCTT
1 TTTGCTTCTT
151664 CGGCTACAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 1 0.03
15 22 0.58
16 1 0.03
17 9 0.24
18 5 0.13
ACGTcount: A:0.02, C:0.19, G:0.16, T:0.64
Consensus pattern (14 bp):
TTTGCTTCTTTTTG
Found at i:153490 original size:86 final size:86
Alignment explanation
Indices: 153400--153563 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 86
153390 GTAGTCAGGC
* * *
153400 CAACAAGGGATGAAAAAGGATTAT-CTT-AGAATAAACCAACAGGTAGATAAAAGATGCAAAGGT
1 CAACAAAGAATGAAAAA-GATT-TGCTTGAGAATAAACCAACAGGTAGATAAAAGATACAAAGGT
153463 TGACCTAGGTTAAACTGAGAAGT
64 TGACCTAGGTTAAACTGAGAAGT
* * *
153486 CAACAAAGAATGAAAAAGATTTGCTTGGGACTAAGCCAACAGGTAGATAAAAGATACAAAGGTTG
1 CAACAAAGAATGAAAAAGATTTGCTTGAGAATAAACCAACAGGTAGATAAAAGATACAAAGGTTG
*
153551 ACCTGGGTTAAAC
66 ACCTAGGTTAAAC
153564 CAACAAGTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 1 0.01
85 7 0.10
86 61 0.88
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (86 bp):
CAACAAAGAATGAAAAAGATTTGCTTGAGAATAAACCAACAGGTAGATAAAAGATACAAAGGTTG
ACCTAGGTTAAACTGAGAAGT
Found at i:153568 original size:42 final size:42
Alignment explanation
Indices: 153431--153568 Score: 102
Period size: 42 Copynumber: 3.2 Consensus size: 42
153421 TATCTTAGAA
* *
153431 TAAACCAACAGGTAGATAAAAGATGCAAAGGTTGACCTAGGT
1 TAAACCAACAGGTAGATAAAAGATACAAAGGTTGACCTGGGT
** * * * * * * *
153473 TAAACTGAGAAGTCA-A-CAAAGAATGAAAAAGATTTG-CTTGGGAC
1 TAAACCAACAGGT-AGATAAAAG-AT-ACAAAG-GTTGACCTGGG-T
*
153517 TAAGCCAACAGGTAGATAAAAGATACAAAGGTTGACCTGGGT
1 TAAACCAACAGGTAGATAAAAGATACAAAGGTTGACCTGGGT
153559 TAAACCAACA
1 TAAACCAACA
153569 AGTCAATAAA
Statistics
Matches: 66, Mismatches: 22, Indels: 16
0.63 0.21 0.15
Matches are distributed among these distances:
41 4 0.06
42 24 0.36
43 20 0.30
44 14 0.21
45 4 0.06
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (42 bp):
TAAACCAACAGGTAGATAAAAGATACAAAGGTTGACCTGGGT
Found at i:153855 original size:159 final size:157
Alignment explanation
Indices: 153565--153879 Score: 371
Period size: 159 Copynumber: 2.0 Consensus size: 157
153555 GGGTTAAACC
* * * * *
153565 AACAAGTCAATAAATGATAAAAAAGTACCTAAGATCAAGCTGATAGGTGAATAAAGGATAAAAAG
1 AACAAGTCAACAAAAGATAAAAAAGTACCTAAGACCAAGCCGACAGGTGAATAAAGGATAAAAAG
* * * ** * * * *
153630 TTGATTGGGATTAAACCGATGAGTCAATAAGGGATAAAGGATTTATCTGAGACTGGGTCGATGGG
66 TTAACTAGGATTAAACCGACAAGTCAATAAGGGATAAAGGATTTATCAGAGACTAGCTCGAAGGG
*
153695 TAAACAAAGGATAAAGAAGTTAATCGA
131 TAAACAAAGGATAAAAAAGTTAATCGA
* * *
153722 AACAAGTTAACAAAAGATAAAAGGAAGTACCTCAGACCAAGCCGACAGGTGAATGAAGGATAAAA
1 AACAAGTCAACAAAAGATAAAA--AAGTACCTAAGACCAAGCCGACAGGTGAATAAAGGATAAAA
* * * * * *
153787 AGTTAACTAGGATTAAATCGGCAAGTCAACTGAGGGATTAAGGATTTCTCAG-GACTAGCTTGAA
64 AGTTAACTAGGATTAAACCGACAAGTCAA-TAAGGGATAAAGGATTTATCAGAGACTAGCTCGAA
*
153851 GGGTAAACAAAGGATAAAAAAGTTGATCG
128 GGGTAAACAAAGGATAAAAAAGTTAATCG
153880 GAGACTAAGC
Statistics
Matches: 130, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
157 19 0.15
159 93 0.72
160 18 0.14
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (157 bp):
AACAAGTCAACAAAAGATAAAAAAGTACCTAAGACCAAGCCGACAGGTGAATAAAGGATAAAAAG
TTAACTAGGATTAAACCGACAAGTCAATAAGGGATAAAGGATTTATCAGAGACTAGCTCGAAGGG
TAAACAAAGGATAAAAAAGTTAATCGA
Found at i:154010 original size:43 final size:43
Alignment explanation
Indices: 153962--154174 Score: 170
Period size: 43 Copynumber: 5.0 Consensus size: 43
153952 AAAGCTTGAT
* * *
153962 TGGAGACTGAGCTAATAGGTCACCATAAGAATAATGGGTTTAC
1 TGGAGACTGAGCTGACAGGTCACCATAAGGATAATGGGTTTAC
* * * *
154005 TGGAGACTGAGTTGACAGGT-A-AATAATGGATAA-AGGTTGAC
1 TGGAGACTGAGCTGACAGGTCACCATAA-GGATAATGGGTTTAC
* *
154046 TAGAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACC
1 TGGAGACTGAGCTGACAGGTCACCATAAGGATAATGGGTTTA-C
* * * * * * *
154090 TGGGGATTGAGCCGACAAGT-A-AATCATGGATGAA--GGTTGAC
1 TGGAGACTGAGCTGACAGGTCACCAT-AAGGAT-AATGGGTTTAC
* *
154131 TAGAGACTTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTAC
1 TGGAGAC-TGAGCTGACAGGTCACCATAAGGATAATGGGTTTAC
154175 CGGGGACTAA
Statistics
Matches: 127, Mismatches: 31, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
41 33 0.26
42 32 0.25
43 36 0.28
44 26 0.20
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (43 bp):
TGGAGACTGAGCTGACAGGTCACCATAAGGATAATGGGTTTAC
Found at i:154169 original size:170 final size:168
Alignment explanation
Indices: 153880--154202 Score: 416
Period size: 170 Copynumber: 1.9 Consensus size: 168
153870 AAGTTGATCG
*
153880 GAGACTAAGCTGACAAGTCACCAAAGAGAGAAGGGGTTTACCGAGGATTGAGCCGACACGTAAAT
1 GAGACTAAGCTGACAAGTCACCAAAGAGAGAAGGGGTTTACCGAGGATTGAGCCGACAAGTAAAT
* * * *
153945 AATGGATAAAGCTTGATTGGAGACTGAGCTAATAGGTCACCATAAGAATAATGGGTTTACTGGAG
66 AATGGATAAAGCTTGACTAGAGACTGAGCTAACAGGTCACCATAAGAATAATGGGTTTACCGGAG
* ** *
154010 ACTGAGTTGACAGGTAAATAATGGATAAAGGTTGACTA
131 ACTAAGCCGACAAGTAAATAATGGATAAAGGTTGACTA
* * * *
154048 GAGACTGAGCTGACAGGTCACCATAAG-G-GTAATGGGTTTACCTGGGGATTGAGCCGACAAGTA
1 GAGACTAAGCTGACAAGTCACCA-AAGAGAG-AAGGGGTTTACC-GAGGATTGAGCCGACAAGTA
* * * * **
154111 AATCATGGATGAAGGTTGACTAGAGACTTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACC
63 AATAATGGATAAAGCTTGACTAGAGAC-TGAGCTAACAGGTCACCATAAGAATAATGGGTTTACC
*
154176 GGGGACTAAGCCGACAAGTAAATAATG
127 GGAGACTAAGCCGACAAGTAAATAATG
154203 AGTGAAGGTT
Statistics
Matches: 131, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
167 1 0.01
168 33 0.25
169 43 0.33
170 54 0.41
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (168 bp):
GAGACTAAGCTGACAAGTCACCAAAGAGAGAAGGGGTTTACCGAGGATTGAGCCGACAAGTAAAT
AATGGATAAAGCTTGACTAGAGACTGAGCTAACAGGTCACCATAAGAATAATGGGTTTACCGGAG
ACTAAGCCGACAAGTAAATAATGGATAAAGGTTGACTA
Found at i:154212 original size:85 final size:84
Alignment explanation
Indices: 153880--154202 Score: 398
Period size: 84 Copynumber: 3.8 Consensus size: 84
153870 AAGTTGATCG
* * * * * *
153880 GAGACTAAGCTGACAAGTCACCA-AAGAGAG-AAGGGGTTTACCGAGGATTGAGCCGACACGTAA
1 GAGACTGAGCTGACAGGTCACCATAAG-G-GTAATGGGTTTACCGGGGACTGAGCCGACAAGTAA
* * *
153943 ATAATGGATAAAGCTTGATTG
64 ATAATGGATAAAGGTTGACTA
* * ** * * ** *
153964 GAGACTGAGCTAATAGGTCACCATAAGAATAATGGGTTTACTGGAGACTGAGTTGACAGGTAAAT
1 GAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGGGGACTGAGCCGACAAGTAAAT
154029 AATGGATAAAGGTTGACTA
66 AATGGATAAAGGTTGACTA
*
154048 GAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCTGGGGATTGAGCCGACAAGTAAA
1 GAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACC-GGGGACTGAGCCGACAAGTAAA
* *
154113 TCATGGATGAAGGTTGACTA
65 TAATGGATAAAGGTTGACTA
*
154133 GAGACTTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGGGGACTAAGCCGACAAGTAAA
1 GAGAC-TGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGGGGACTGAGCCGACAAGTAAA
154198 TAATG
65 TAATG
154203 AGTGAAGGTT
Statistics
Matches: 203, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
84 99 0.49
85 67 0.33
86 37 0.18
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (84 bp):
GAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACCGGGGACTGAGCCGACAAGTAAAT
AATGGATAAAGGTTGACTA
Found at i:154313 original size:43 final size:43
Alignment explanation
Indices: 154227--154340 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
154217 CTCAAGATTG
*
154227 AGTCGATGGGCAAATGAAGAGATAAAGAAATCTCCCGCATCTA
1 AGTCGACGGGCAAATGAAGAGATAAAGAAATCTCCCGCATCTA
* **
154270 AGTCGACGGGCAAAT-AA-AGTATAAAGAAGGTCTCCCGGGTCTA
1 AGTCGACGGGCAAATGAAGAG-ATAAAGAA-ATCTCCCGCATCTA
* * *
154313 AG-CTGACAGGCAGATGAA-AGATGAAGAA
1 AGTC-GACGGGCAAATGAAGAGATAAAGAA
154341 GCCTCTTGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.03
42 11 0.18
43 43 0.72
44 4 0.07
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (43 bp):
AGTCGACGGGCAAATGAAGAGATAAAGAAATCTCCCGCATCTA
Found at i:154472 original size:43 final size:43
Alignment explanation
Indices: 154421--154531 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
154411 ACAAAAAATG
*
154421 AAGAAGTCTCTAAGGTCTAAGCCGATAGGCAGATGATTGATAA
1 AAGAAGTCTCTAGGGTCTAAGCCGATAGGCAGATGATTGATAA
* * *
154464 AAGAAGTCTCTCGGGTATAAGCTGATAGGCAGATGATTGATAA
1 AAGAAGTCTCTAGGGTCTAAGCCGATAGGCAGATGATTGATAA
* * *
154507 AGGAAGTCTTTTGGGTCTAAGCCGA
1 AAGAAGTCTCTAGGGTCTAAGCCGA
154532 CGGGCAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (43 bp):
AAGAAGTCTCTAGGGTCTAAGCCGATAGGCAGATGATTGATAA
Found at i:154567 original size:42 final size:42
Alignment explanation
Indices: 154521--154699 Score: 129
Period size: 42 Copynumber: 4.4 Consensus size: 42
154511 AGTCTTTTGG
* *
154521 GTCTAAGCCGACGGGCAAATGGTGGATGAAGAAGTCTCCCGA
1 GTCTAAGCCGACAGGCAAATGGTGGATGAAGAAGTCTCCCAA
* * *
154563 GTCTAAGCCGA-ATG-AAA-----GATGAAGAAGTCTCTCGA
1 GTCTAAGCCGACAGGCAAATGGTGGATGAAGAAGTCTCCCAA
* ** * * * * * **
154598 GTCTAAGCTGATGGGCAGACGGTTGATAAACAAAGTCTTTCAA
1 GTCTAAGCCGACAGGCAAATGGTGGATGAA-GAAGTCTCCCAA
* * * *
154641 GACTGAGCCGATAGGCAAATAGTGGATGAAGAAGTCTCCCAA
1 GTCTAAGCCGACAGGCAAATGGTGGATGAAGAAGTCTCCCAA
154683 GTCTAAGCCGACAGGCA
1 GTCTAAGCCGACAGGCA
154700 GACGAAAGAT
Statistics
Matches: 103, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
35 27 0.26
36 1 0.01
37 2 0.02
40 3 0.03
41 1 0.01
42 39 0.38
43 30 0.29
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (42 bp):
GTCTAAGCCGACAGGCAAATGGTGGATGAAGAAGTCTCCCAA
Done.