Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005313.1 Hibiscus syriacus cultivar Beakdansim tig00012028_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 182071
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
File 1 of 2
Found at i:3082 original size:45 final size:47
Alignment explanation
Indices: 2983--3092 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 47
2973 ATCGGTACAC
*
2983 TAGGGGTGCATCGATGCATAAAATACATTCGATGTTTCAAACAAGCCT
1 TAGGAGTGCATCGATGCATAAAATACATTCGATGTTTCAAACAA-CCT
* ** *
3031 T--GAGTGCATCGATGCATAAAATGCATTCGATG-TTCAAATTA-TT
1 TAGGAGTGCATCGATGCATAAAATACATTCGATGTTTCAAACAACCT
3074 TAGGAGTGCATCGATGCAT
1 TAGGAGTGCATCGATGCAT
3093 GCCTTGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
43 2 0.04
45 23 0.42
46 29 0.53
48 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (47 bp):
TAGGAGTGCATCGATGCATAAAATACATTCGATGTTTCAAACAACCT
Found at i:4913 original size:29 final size:32
Alignment explanation
Indices: 4874--4940 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 32
4864 TATCTCTTTA
4874 TTTTTGTTTTAACTTATTAA-ATATTT-TTTT
1 TTTTTGTTTTAACTTATTAATATATTTATTTT
*
4904 TTTTTG-TTTAATTTATTAATATATTTATTTT
1 TTTTTGTTTTAACTTATTAATATATTTATTTT
4935 TATTTT
1 T-TTTT
4941 TATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 12 0.36
31 5 0.15
32 4 0.12
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (32 bp):
TTTTTGTTTTAACTTATTAATATATTTATTTT
Found at i:4924 original size:28 final size:30
Alignment explanation
Indices: 4870--4935 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
4860 AAATTATCTC
*
4870 TTTA-TTTTTGTTTTAACTTATTAAATATT
1 TTTATTTTTTGTTTTAACTTATTAAATATA
* *
4899 TTTTTTTTTTG-TTTAATTTATT-AATATA
1 TTTATTTTTTGTTTTAACTTATTAAATATA
4927 TTTATTTTT
1 TTTATTTTT
4936 ATTTTTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 13 0.41
29 13 0.41
30 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (30 bp):
TTTATTTTTTGTTTTAACTTATTAAATATA
Found at i:4952 original size:2 final size:2
Alignment explanation
Indices: 4941--4976 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4931 TTTTTATTTT
4941 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4977 CTTTATCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5084 original size:31 final size:32
Alignment explanation
Indices: 5034--5099 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
5024 ATATATTTAA
5034 ATATTGTACTATTAATTT-AA-TATAAAAATAT
1 ATATTGTACTATTAATTTAAATTA-AAAAATAT
* * *
5065 ATATTTTACTCTTATTTTAAATTAAAAAATAT
1 ATATTGTACTATTAATTTAAATTAAAAAATAT
5097 ATA
1 ATA
5100 ATATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 15 0.50
32 13 0.43
33 2 0.07
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (32 bp):
ATATTGTACTATTAATTTAAATTAAAAAATAT
Found at i:5164 original size:28 final size:28
Alignment explanation
Indices: 5120--5175 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
5110 ATATTTTTAA
* *
5120 AATTTAAGATAATAATAAAATATATTTT
1 AATTTAAAATAAGAATAAAATATATTTT
5148 AATTTAAAATAAGAATAAAATATATTTT
1 AATTTAAAATAAGAATAAAATATATTTT
5176 TAAGTAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (28 bp):
AATTTAAAATAAGAATAAAATATATTTT
Found at i:5395 original size:30 final size:29
Alignment explanation
Indices: 5330--5397 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
5320 AAATTATCTC
* *
5330 TTTATTTTTGTTTTAACTTATTAAATATT
1 TTTATTTTTGTCTTAACTTATTAAATATG
*
5359 TTTATTTTTGTCTTAATTTATTAAATATAG
1 TTTATTTTTGTCTTAACTTATTAAATAT-G
5389 TTTATTTTT
1 TTTATTTTT
5398 ATTTTGATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTATTTTTGTCTTAACTTATTAAATATG
Found at i:5618 original size:28 final size:29
Alignment explanation
Indices: 5561--5653 Score: 118
Period size: 28 Copynumber: 3.2 Consensus size: 29
5551 ATAATATTTT
* *
5561 AATATATTTTTAAAATTTAAGATAATAATAA
1 AATATATTTTT--AATTTAAAATAAGAATAA
5592 AATATA-TTTTAATTTAAAATAAGAATAA
1 AATATATTTTTAATTTAAAATAAGAATAA
*
5620 AATATATTTTTAA-GTAAAGATAAGAATAA
1 AATATATTTTTAATTTAAA-ATAAGAATAA
5649 AATAT
1 AATAT
5654 TATGTATATT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 26 0.46
29 21 0.37
30 4 0.07
31 6 0.11
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (29 bp):
AATATATTTTTAATTTAAAATAAGAATAA
Found at i:5619 original size:454 final size:458
Alignment explanation
Indices: 4722--5636 Score: 1682
Period size: 454 Copynumber: 2.0 Consensus size: 458
4712 GGGACCCTTG
4722 AGTGAAATAATGCAAGTCAAACCATTGAGCCAAGATAACCATTTGACATATTTTGGACAACAAAT
1 AGTGAAATAATGCAAGTCAAACCATTGAGCCAAGATAACCATTTGACATATTTTGGACAACAAAT
* *
4787 GGTATATATCTTGTATATTAGTATGTAAATTCTTTACTCAAAATTAATAATATGTTATATATCTT
66 GGTATATATATTGTATATTAGTATGTAAATGCTTTACTCAAAATTAATAATATGTTATATATCTT
*
4852 AAAATTTAAAATTATCTCTTTATTTTTGTTTTAACTTATTAAATATTTTTTTTTTTTGTTTAATT
131 AAAATTTAAAATTATCTCTTTATTTTTGTTTTAACTTATTAAATATTTTTTATTTTTGTTTAATT
*
4917 TATTAATATATTTATTTTTATTTTTATAATATATATATATATATATATATATATATATATCTTTA
196 TATTAATATATTTATTTTTA-TTTTAT-AGATATATATATATATATATATATATATATATCTTTA
4982 TCATCACGTAAAAATATATTTTGTTAAATATCTTTACTTGAAATATATTTAAATATTGTACTATT
259 TCATCACGTAAAAATATATTTTGTTAAATATCTTTACTTGAAATATATTTAAATATTGTACTATT
5047 AATTTAATATAAAAATATATATTTTACTCTTATTTTAAATTAAAAAATATATAATATTTTAATAT
324 AATTTAATATAAAAATATATATTTTACTCTTATTTTAAATTAAAAAATATATAATATTTTAATAT
5112 ATTTTTAAAATTTAAGATAATAATAAAATATATTTTAATTTAAAATAAGAATAAAATATATTTTT
389 ATTTTTAAAATTTAAGATAATAATAAAATATATTTTAATTTAAAATAAGAATAAAATATATTTTT
5177 AAGTA
454 AAGTA
5182 AGTGAAATAATGCAAGTCAAACCATTGAGCCAAGATAACCATTTGACATATTTTGGACAACAAAT
1 AGTGAAATAATGCAAGTCAAACCATTGAGCCAAGATAACCATTTGACATATTTTGGACAACAAAT
5247 GGTATATATATTGTATATTAGTATGTAAATGCTTTACTCAAAATTAATAATATGTTATATATCTT
66 GGTATATATATTGTATATTAGTATGTAAATGCTTTACTCAAAATTAATAATATGTTATATATCTT
5312 AAAATTTAAAATTATCTCTTTATTTTTGTTTTAACTTATTAAATA-TTTTTATTTTTGTCTTAAT
131 AAAATTTAAAATTATCTCTTTATTTTTGTTTTAACTTATTAAATATTTTTTATTTTTGT-TTAAT
5376 TTATTAAATATAGTTTATTTTTA-TTT-T-GATATA-A-ATATATATATATATATAT-TATCTTT
195 TTATT-AATATA-TTTATTTTTATTTTATAGATATATATATATATATATATATATATATATCTTT
5435 ATCATCACGTAAAAATATATTTTGTTAAATATCTTTACTTGAAATATATTTAAATATTGTACTAT
258 ATCATCACGTAAAAATATATTTTGTTAAATATCTTTACTTGAAATATATTTAAATATTGTACTAT
* *
5500 TAATTTAATATAAAAATATATATTTTACTCTTTTTTTAAATTAAAACATATATAATATTTTAATA
323 TAATTTAATATAAAAATATATATTTTACTCTTATTTTAAATTAAAAAATATATAATATTTTAATA
5565 TATTTTTAAAATTTAAGATAATAATAAAATATATTTTAATTTAAAATAAGAATAAAATATATTTT
388 TATTTTTAAAATTTAAGATAATAATAAAATATATTTTAATTTAAAATAAGAATAAAATATATTTT
5630 TAAGTA
453 TAAGTA
5636 A
1 A
5637 AGATAAGAAT
Statistics
Matches: 446, Mismatches: 6, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
454 207 0.46
455 18 0.04
456 1 0.00
457 5 0.01
459 13 0.03
460 186 0.42
461 6 0.01
462 10 0.02
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (458 bp):
AGTGAAATAATGCAAGTCAAACCATTGAGCCAAGATAACCATTTGACATATTTTGGACAACAAAT
GGTATATATATTGTATATTAGTATGTAAATGCTTTACTCAAAATTAATAATATGTTATATATCTT
AAAATTTAAAATTATCTCTTTATTTTTGTTTTAACTTATTAAATATTTTTTATTTTTGTTTAATT
TATTAATATATTTATTTTTATTTTATAGATATATATATATATATATATATATATATATCTTTATC
ATCACGTAAAAATATATTTTGTTAAATATCTTTACTTGAAATATATTTAAATATTGTACTATTAA
TTTAATATAAAAATATATATTTTACTCTTATTTTAAATTAAAAAATATATAATATTTTAATATAT
TTTTAAAATTTAAGATAATAATAAAATATATTTTAATTTAAAATAAGAATAAAATATATTTTTAA
GTA
Found at i:5642 original size:29 final size:29
Alignment explanation
Indices: 5561--5653 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
5551 ATAATATTTT
* *
5561 AATATATTTTTAAAATTTAAGATAATAATAA
1 AATATATTTTT--AATTAAAGATAAGAATAA
5592 AATATA-TTTTAATTTAAA-ATAAGAATAA
1 AATATATTTTTAA-TTAAAGATAAGAATAA
*
5620 AATATATTTTTAAGTAAAGATAAGAATAA
1 AATATATTTTTAATTAAAGATAAGAATAA
5649 AATAT
1 AATAT
5654 TATGTATATT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
28 21 0.38
29 25 0.45
30 4 0.07
31 6 0.11
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (29 bp):
AATATATTTTTAATTAAAGATAAGAATAA
Found at i:5664 original size:36 final size:37
Alignment explanation
Indices: 5621--5702 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
5611 TAAGAATAAA
* *
5621 ATATATTTTTAAGTAAAGATAAGAATAAAATAT-TAT
1 ATATATTTTTAAATAAAAATAAGAATAAAATATATAT
* * * *
5657 GTATATTTTTAAATAAAAATGAGAGTAATATATATAT
1 ATATATTTTTAAATAAAAATAAGAATAAAATATATAT
5694 ATATATTTT
1 ATATATTTT
5703 ATTTTAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 27 0.71
37 11 0.29
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (37 bp):
ATATATTTTTAAATAAAAATAAGAATAAAATATATAT
Found at i:5703 original size:36 final size:35
Alignment explanation
Indices: 5593--5703 Score: 90
Period size: 36 Copynumber: 3.3 Consensus size: 35
5583 TAATAATAAA
* *
5593 ATATATTTTAATTTAAAATAAGAAT--AA-A--AT
1 ATATATTTTAAATAAAAATAAGAATAAAATATTAT
* *
5623 ATAT-TTTTAAGTAAAGATAAGAATAAAATATTAT
1 ATATATTTTAAATAAAAATAAGAATAAAATATTAT
* * * *
5657 GTATATTTTTAAATAAAAATGAGAGTAATATATATAT
1 ATATA-TTTTAAATAAAAATAAGAATAAAATAT-TAT
5694 ATATATTTTA
1 ATATATTTTA
5704 TTTTAAATTA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
29 17 0.27
30 4 0.06
31 2 0.03
32 1 0.02
34 5 0.08
36 27 0.43
37 7 0.11
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (35 bp):
ATATATTTTAAATAAAAATAAGAATAAAATATTAT
Found at i:7771 original size:20 final size:19
Alignment explanation
Indices: 7739--7791 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
7729 ACAGTGCTGC
7739 AGTGTACGATGCACTACTA
1 AGTGTACGATGCACTACTA
7758 AGTGTACTGATGCACTACTA
1 AGTGTAC-GATGCACTACTA
7778 A-TGTACCGATGCAC
1 AGTGTA-CGATGCAC
7792 AAAACATCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (19 bp):
AGTGTACGATGCACTACTA
Found at i:7836 original size:21 final size:21
Alignment explanation
Indices: 7811--7852 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7801 AATATAAATT
*
7811 GTGTATCGATGCACAGCTACA
1 GTGTACCGATGCACAGCTACA
*
7832 GTGTACCGATGCACTGCTACA
1 GTGTACCGATGCACAGCTACA
7853 AAACTTCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (21 bp):
GTGTACCGATGCACAGCTACA
Found at i:8416 original size:22 final size:22
Alignment explanation
Indices: 8391--8451 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
8381 GGCATGTGAA
*
8391 ATTTG-CCCTGAAGGACCTATGT
1 ATTTGTCCC-GAAGGACCTATAT
*
8413 ATTTGTCCCGAAGGACCTCTAT
1 ATTTGTCCCGAAGGACCTATAT
*
8435 ATTTGTCCCGAATGACC
1 ATTTGTCCCGAAGGACC
8452 ACGTAAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATAT
Found at i:9949 original size:29 final size:30
Alignment explanation
Indices: 9897--9972 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 30
9887 TTTTTTTAAT
*
9897 ATTAAAACAAAAATAAACTATATTTAATAA
1 ATTAAAACAAAAATAAACAATATTTAATAA
*
9927 ATTAAGACAAAAATAAA-AATATTTAATAA
1 ATTAAAACAAAAATAAACAATATTTAATAA
*
9956 GTTAAAACAAAAATAAA
1 ATTAAAACAAAAATAAA
9973 GAGATAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (30 bp):
ATTAAAACAAAAATAAACAATATTTAATAA
Found at i:18418 original size:34 final size:34
Alignment explanation
Indices: 18380--18444 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
18370 GTCTCTGCTT
18380 ATTCTTTAT-ATTTATTTATTTTG-ATTATTTTTCA
1 ATTCTTT-TCATTT-TTTATTTTGTATTATTTTTCA
*
18414 ATTCTTTTCATTTTTTATTTTGTTTTATTTT
1 ATTCTTTTCATTTTTTATTTTGTATTATTTT
18445 AACTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.72
Consensus pattern (34 bp):
ATTCTTTTCATTTTTTATTTTGTATTATTTTTCA
Found at i:18733 original size:2 final size:2
Alignment explanation
Indices: 18726--18756 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18716 TAAAAATAAT
18726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18757 TCTATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31313 original size:22 final size:23
Alignment explanation
Indices: 31271--31322 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
31261 GAGTCGAGGG
* ** *
31271 TTTCATAGGTCTTTCGGGACATA
1 TTTCATAGGTCCTTCAAGACAAA
31294 -TTCATAGGTCCTTCAAGACAAA
1 TTTCATAGGTCCTTCAAGACAAA
31316 TTTCATA
1 TTTCATA
31323 TGCCCCTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (23 bp):
TTTCATAGGTCCTTCAAGACAAA
Found at i:46386 original size:16 final size:15
Alignment explanation
Indices: 46365--46394 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46355 CGTATGCTTC
46365 CCCTTTTTCTCTTTTT
1 CCCTTTTTC-CTTTTT
46381 CCCTTTTTCCTTTT
1 CCCTTTTTCCTTTT
46395 GTCCAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CCCTTTTTCCTTTTT
Found at i:50512 original size:2 final size:2
Alignment explanation
Indices: 50505--50554 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
50495 ATGGATTGCT
*
50505 TA TA TA TA AA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50548 TA TA TA T
1 TA TA TA T
50555 TTAGTATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:50805 original size:13 final size:13
Alignment explanation
Indices: 50781--50835 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
50771 AATGACGCGC
*
50781 AATGAGCGTCATA
1 AATGCGCGTCATA
*
50794 AATGCGCATCATA
1 AATGCGCGTCATA
*
50807 AATGCGTGTCATA
1 AATGCGCGTCATA
*
50820 AATGCACGTCATA
1 AATGCGCGTCATA
50833 AAT
1 AAT
50836 TTATGACGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:51491 original size:23 final size:23
Alignment explanation
Indices: 51472--51524 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
51462 AGTACTTTGT
51472 TGCATTTCTACGCGGCACTTCGG
1 TGCATTTCTACGCGGCACTTCGG
*
51495 TGCATTTCTACGTGGCACTTCGG
1 TGCATTTCTACGCGGCACTTCGG
51518 TGCATTT
1 TGCATTT
51525 TATACGAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.13, C:0.26, G:0.25, T:0.36
Consensus pattern (23 bp):
TGCATTTCTACGCGGCACTTCGG
Found at i:58543 original size:23 final size:23
Alignment explanation
Indices: 58484--58544 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
58474 TTTATATGGA
*
58484 ACTTCAGTGCATTTCTACGCGGC
1 ACTTCAGTGCATTTTTACGCGGC
** *
58507 ACTTTGGTGCATTTTTACGTGGC
1 ACTTCAGTGCATTTTTACGCGGC
*
58530 ACTTCAGTGTATTTT
1 ACTTCAGTGCATTTT
58545 ATATGAGTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (23 bp):
ACTTCAGTGCATTTTTACGCGGC
Found at i:60517 original size:21 final size:21
Alignment explanation
Indices: 60493--60552 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
60483 GAAGAAAATG
*
60493 AAAAAGAAAATGAAAAGGAAA
1 AAAAAGAAAATGAAAACGAAA
*
60514 AAAAAGAAAAAGAAAAACGAAA
1 AAAAAGAAAATG-AAAACGAAA
60536 AACGAAA-AAAATGAAAA
1 AA--AAAGAAAATGAAAA
60553 AAAGAGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 11 0.33
22 14 0.42
23 5 0.15
24 3 0.09
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAATGAAAACGAAA
Found at i:60553 original size:7 final size:6
Alignment explanation
Indices: 60484--60544 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
60474 AAAAAACAAG
* * *
60484 AAGAAA ATGAAA AAGAAA ATG-AA AAG-GA AA-AAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
60529 AACGAAA AACGAAA AA
1 AA-GAAA AA-GAAA AA
60545 AATGAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
5 10 0.22
6 23 0.50
7 13 0.28
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:60564 original size:28 final size:27
Alignment explanation
Indices: 60471--60565 Score: 70
Period size: 29 Copynumber: 3.4 Consensus size: 27
60461 ACACTTGAAG
* *
60471 AGAAAAAAACAAGAAGAAAATG--AAAA
1 AGAAAAAAA-ACGAAAAAAATGAAAAAA
* *
60497 AGAAAATGAAAAGGAAAAAAAAGAAAAAGA
1 AGAAAA--AAAACGAAAAAAATGAAAAA-A
60527 A-AAACGAAAAACGAAAAAAATGAAAAAA
1 AGAAA--AAAAACGAAAAAAATGAAAAAA
60555 AGAGAAAAAAA
1 AGA-AAAAAAA
60566 ATAAAGGAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
26 6 0.11
27 9 0.16
28 10 0.18
29 25 0.45
30 4 0.07
31 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (27 bp):
AGAAAAAAAACGAAAAAAATGAAAAAA
Found at i:61778 original size:47 final size:46
Alignment explanation
Indices: 61684--61801 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 46
61674 ACAGATCTCT
* * *
61684 TCATCACGTAGGAGCCGTG---TCAACCTTAGATAACTTGTCATAC
1 TCATCACGTAGGAACCGTGTTATCATCCTTAGATAACGTGTCATAC
* *
61727 TCATCACGTAGGAACCGTGTTATCATCCTTTAGATAACGTGTCGTCC
1 TCATCACGTAGGAACCGTGTTATCATCC-TTAGATAACGTGTCATAC
* *
61774 TCATCACGTAGGTACTGTGTTATCATCC
1 TCATCACGTAGGAACCGTGTTATCATCC
61802 ATAAAGATGG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 18 0.28
46 5 0.08
47 41 0.64
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (46 bp):
TCATCACGTAGGAACCGTGTTATCATCCTTAGATAACGTGTCATAC
Found at i:65739 original size:21 final size:21
Alignment explanation
Indices: 65688--65740 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
65678 ATTATTACTA
*
65688 TCGCAATGCGATTTTCTAATT
1 TCGCAATGCGATTTTCCAATT
**
65709 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
65730 TCGCAATGCGA
1 TCGCAATGCGA
65741 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:65755 original size:20 final size:21
Alignment explanation
Indices: 65730--65781 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65720 TTTTCCCAAT
*
65730 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
65750 TCGCAATGCAAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
65771 TCGCAATGCGA
1 TCGCAATGCGA
65782 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:65825 original size:21 final size:21
Alignment explanation
Indices: 65791--65863 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
65781 ATACTGACTA
*
65791 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCCTAAT
* * *
65812 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCCTAAT
**
65832 TCGCGTTGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCCTAAT
65853 TCGCAATGCGA
1 TCGCAATGCGA
65864 ATATGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCTAAT
Found at i:65884 original size:41 final size:41
Alignment explanation
Indices: 65715--65967 Score: 135
Period size: 41 Copynumber: 6.2 Consensus size: 41
65705 AATTTCGCGT
* *
65715 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATATGTAAATCGCAA
* * *** * *
65756 TGCAAATTTGGAAAATCGCAATGCG-ATACTG-ACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATA-TGTA-AATCGCAA
* * * * * **
65797 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATATGTAAATCGCAA
*
65838 TGCGATTTTCCTAATTCGCAATGCGAATATGTAAATCACAA
1 TGCGATTTTCCTAATTCGCAATGCGAATATGTAAATCGCAA
* *** * *
65879 CGCGA-TTAAGTAAATT-GCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCCT-AATTCGCAATGCGAA-TATGTAAATCGCAA
* * * * *
65920 TGCGGA--TACGTAAATCGCAATGCGAATCTG-ACTATCGCAA
1 TGC-GATTTTCCTAATTCGCAATGCGAATATGTA-AATCGCAA
65960 TGCGATTT
1 TGCGATTT
65968 ACATAGCGCC
Statistics
Matches: 158, Mismatches: 41, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
39 3 0.02
40 36 0.23
41 114 0.72
42 3 0.02
43 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATATGTAAATCGCAA
Found at i:65903 original size:20 final size:20
Alignment explanation
Indices: 65853--65944 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
65843 TTTTCCTAAT
* *
65853 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGATTAAGTAAA
* *
65873 TCACAACGCGATTAAGTAAA
1 TCGCAATGCGATTAAGTAAA
* * *
65893 TTGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTAAGTAAA
*
65914 TCGCAATGCGGA-TACGTAAA
1 TCGCAATGC-GATTAAGTAAA
65934 TCGCAATGCGA
1 TCGCAATGCGA
65945 ATCTGACTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.03
20 38 0.66
21 17 0.29
22 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGATTAAGTAAA
Found at i:66532 original size:19 final size:20
Alignment explanation
Indices: 66490--66544 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
66480 TAGTTTCGAG
66490 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGCGGA
**
66510 AATGACTATCGCAACGC-GA
1 AATGAAAATCGCAACGCGGA
66529 AATGAAAATCGCAACG
1 AATGAAAATCGCAACG
66545 AGATAATCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGGA
Found at i:66668 original size:20 final size:19
Alignment explanation
Indices: 66570--66681 Score: 101
Period size: 19 Copynumber: 6.1 Consensus size: 19
66560 GAAACCAAAA
*
66570 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
66589 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
66603 TCTCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
66622 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
66641 TCCGCGTTGCGATTTTAATT
1 T-CGCGTTGCGATTTTCATT
*
66661 CTCTCGTTGCGA-TTTCATT
1 -TCGCGTTGCGATTTTCATT
66680 TC
1 TC
66682 AACCAAAATA
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
18 2 0.03
19 32 0.43
20 24 0.32
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:68512 original size:17 final size:17
Alignment explanation
Indices: 68482--68514 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68472 GTTGCTGCCA
68482 ATTCTGTTAAACTGTGT
1 ATTCTGTTAAACTGTGT
68499 ATTCT-TTAACACTGTG
1 ATTCTGTTAA-ACTGTG
68515 AAGTTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTCTGTTAAACTGTGT
Found at i:68558 original size:94 final size:94
Alignment explanation
Indices: 68368--68672 Score: 476
Period size: 94 Copynumber: 3.3 Consensus size: 94
68358 TAGATTGCTT
* *
68368 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
68429 ATTTGTCTTTGGTTTTGTCTTTCGGTTG-A
66 ATTTGTCTTT-GTTTTATCTTTTGGTTGAA
*
68458 AGTAAATTTATTCGGTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
68523 ATTTGTCTTTGTTTTATCTTTTAGTTGAA
66 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
* *
68552 ATTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68617 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTATCTTTTGGTTGAA
* *
68646 AGTAAATTTGTTCGTTTGCTGCCAATT
1 AGTAAATTTATTCGGTTGCTGCCAATT
68673 GAAACTATTC
Statistics
Matches: 198, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
90 34 0.17
92 3 0.02
93 16 0.08
94 145 0.73
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTATCTTTTGGTTGAA
Found at i:69141 original size:21 final size:21
Alignment explanation
Indices: 69117--69183 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
69107 TCATTCCTCG
69117 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
69138 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCATTCA
69159 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
69180 AGAG
1 AGAG
69184 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:69141 original size:42 final size:42
Alignment explanation
Indices: 69065--69183 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
69055 GACTCGCATG
* * * * * * *
69065 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
*
69107 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* *
69149 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCATTCAAGAG
69184 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.06
42 59 0.91
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
Found at i:70550 original size:14 final size:14
Alignment explanation
Indices: 70531--70566 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
70521 ATTGTTTAAT
70531 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
70545 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
70559 TGATTTGT
1 TGATTTGT
70567 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:70695 original size:19 final size:17
Alignment explanation
Indices: 70673--70785 Score: 73
Period size: 14 Copynumber: 6.8 Consensus size: 17
70663 AAAAATGACT
70673 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAA-GAAA
*
70692 ATCGCAA-CG--AGAGA
1 ATCGCAAGCGAAAGAAA
70706 ATCGCAACGCGAAAAGAAA
1 ATCGCAA-GCG-AAAGAAA
*
70725 ATCGCAA-CG--AGAGA
1 ATCGCAAGCGAAAGAAA
70739 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAA-GAAA
*
70758 ATCGCAA-CG--ACAAA
1 ATCGCAAGCGAAAGAAA
70772 ATCGCAACGCGAAA
1 ATCGCAA-GCGAAA
70786 CTAAATTCGC
Statistics
Matches: 75, Mismatches: 5, Indels: 29
0.69 0.05 0.27
Matches are distributed among these distances:
14 31 0.41
15 2 0.03
16 6 0.08
17 6 0.08
18 2 0.03
19 28 0.37
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (17 bp):
ATCGCAAGCGAAAGAAA
Found at i:70718 original size:33 final size:33
Alignment explanation
Indices: 70673--70785 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
70663 AAAAATGACT
*
70673 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
70706 ATCGCAACGCGAAAAGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
70739 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
70772 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
70786 CTAAATTCGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:70837 original size:33 final size:33
Alignment explanation
Indices: 70795--70921 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
70785 ACTAAATTCG
* * *
70795 CGTTGCGATTTTCATTTTGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
70828 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
70861 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
70894 CGTTGCGATTTTCATTTCGCATTACGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
70922 AGTCATTTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:70852 original size:19 final size:19
Alignment explanation
Indices: 70830--70941 Score: 91
Period size: 19 Copynumber: 6.4 Consensus size: 19
70820 GATTCCCTCG
70830 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
70849 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
70863 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
70882 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
70896 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* ** *
70915 TTACGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
70935 TTGCGAT
1 TTGCGAT
70942 AGACATTAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 12 0.16
16 14 0.19
17 14 0.19
19 24 0.33
20 9 0.12
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:70868 original size:14 final size:14
Alignment explanation
Indices: 70816--70903 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
70806 TCATTTTGCT
*
70816 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
70830 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
70847 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
70863 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
70880 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
70896 TTGCGATT
1 TTGCGATT
70904 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:70943 original size:20 final size:20
Alignment explanation
Indices: 70894--70987 Score: 59
Period size: 20 Copynumber: 4.7 Consensus size: 20
70884 GCGATTCTCT
**
70894 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
* *
70913 CATTACGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
70933 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
70952 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
70974 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
70988 AATGATTGCC
Statistics
Matches: 56, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
19 16 0.29
20 25 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:73266 original size:12 final size:12
Alignment explanation
Indices: 73249--73273 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73239 TCTTCGGGGA
73249 CTTTTTCTTCTT
1 CTTTTTCTTCTT
73261 CTTTTTCTTCTT
1 CTTTTTCTTCTT
73273 C
1 C
73274 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:74367 original size:21 final size:21
Alignment explanation
Indices: 74341--74437 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
74331 CGAAAGTCAG
74341 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
* *
74362 TATCGCGTTGCGA--TAGTCAG
1 TATCGCGTTGCGATTTTGT-AT
* * **
74382 TATCGCATTACGATTTTCCA-
1 TATCGCGTTGCGATTTTGTAT
* *
74402 AATTCGCATTGCGATTTTGTAT
1 TA-TCGCGTTGCGATTTTGTAT
*
74424 TATCACGTTGCGAT
1 TATCGCGTTGCGAT
74438 AGTCAGTATC
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
19 3 0.05
20 13 0.23
21 39 0.68
22 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (21 bp):
TATCGCGTTGCGATTTTGTAT
Found at i:74395 original size:20 final size:20
Alignment explanation
Indices: 74246--74387 Score: 187
Period size: 20 Copynumber: 7.0 Consensus size: 20
74236 TGTATTATGT
* *
74246 CGTTGCGATAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
74266 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
74286 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
74306 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
74326 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
** *
74346 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
*
74367 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
74387 C
1 C
74388 ATTACGATTT
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
19 3 0.03
20 93 0.83
21 14 0.12
22 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:74397 original size:41 final size:41
Alignment explanation
Indices: 74282--74398 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 41
74272 GAAAGTCAGA
* * * ** *
74282 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGA--AAGTCAGT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTACGATTTTGT-ATT
* *
74322 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
*
74363 ATCGCGTTGCGATAGTCAGTATCGCATTACGATTTT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTACGATTTT
74399 CCAAATTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 31 0.46
41 35 0.51
42 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCGTTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
Found at i:74414 original size:41 final size:41
Alignment explanation
Indices: 74246--74416 Score: 114
Period size: 40 Copynumber: 4.2 Consensus size: 41
74236 TGTATTATGT
* * * *** *
74246 CGTTGCGATAGTCAGAATCGCGTTGCGAAAGTCAGA-ATCG
1 CGTTGCGATAGTCAGTATCGCATTACGATTTTCAAATATCG
* * * * *** *
74286 CGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTC-AGTATCG
1 CGTTGCGATAGTCAGTATCGCATTACGATTTTCAAATATCG
* * * ** *
74326 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTCAGTATCGCATTACGATTTTCAAATATCG
74367 CGTTGCGATAGTCAGTATCGCATTACGATTTTCCAAAT-TCG
1 CGTTGCGATAGTCAGTATCGCATTACGATTTT-CAAATATCG
*
74408 CATTGCGAT
1 CGTTGCGAT
74417 TTTGTATTAT
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 64 0.57
41 46 0.41
42 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
CGTTGCGATAGTCAGTATCGCATTACGATTTTCAAATATCG
Found at i:74434 original size:62 final size:61
Alignment explanation
Indices: 74343--74479 Score: 220
Period size: 62 Copynumber: 2.2 Consensus size: 61
74333 AAAGTCAGTA
* *
74343 TCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTACGATTTTCCAAAT
1 TCGCATTGCGATTTTGTATTATCACGTTGCGATAGTCAGTATCGCATTACGA-TTTCCAAAT
* *
74405 TCGCATTGCGATTTTGTATTATCACGTTGCGATAGTCAGTATCGCATTGCGATTTCTAAAT
1 TCGCATTGCGATTTTGTATTATCACGTTGCGATAGTCAGTATCGCATTACGATTTCCAAAT
*
74466 TTGCATTGCGATTT
1 TCGCATTGCGATTT
74480 ACTTATTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 21 0.30
62 49 0.70
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (61 bp):
TCGCATTGCGATTTTGTATTATCACGTTGCGATAGTCAGTATCGCATTACGATTTCCAAAT
Found at i:74491 original size:20 final size:20
Alignment explanation
Indices: 74446--74496 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
74436 ATAGTCAGTA
74446 TCGCATTGCGATTTCTAAAT
1 TCGCATTGCGATTTCTAAAT
* *
74466 TTGCATTGCGATTTACT-TAT
1 TCGCATTGCGATTT-CTAAAT
74486 TCGCATTGCGA
1 TCGCATTGCGA
74497 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTCTAAAT
Found at i:74538 original size:21 final size:22
Alignment explanation
Indices: 74486--74538 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
74476 ATTTACTTAT
74486 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
74507 TCGCAAAGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
74528 TCGCATTGCGA
1 TCGCATTGCGA
74539 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:81960 original size:22 final size:22
Alignment explanation
Indices: 81935--81984 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
81925 AAAACGTTCC
81935 TAAAGATAGAGGAAACATGCCA
1 TAAAGATAGAGGAAACATGCCA
* **
81957 TAAAGGTAGAGGAAATGTGCCA
1 TAAAGATAGAGGAAACATGCCA
81979 TAAAGA
1 TAAAGA
81985 CAAAGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.26, T:0.16
Consensus pattern (22 bp):
TAAAGATAGAGGAAACATGCCA
Found at i:83106 original size:44 final size:43
Alignment explanation
Indices: 83051--83205 Score: 143
Period size: 44 Copynumber: 3.4 Consensus size: 43
83041 TAAAAGAGAG
* * *
83051 ATAAATAAAAATGAAGAAACTATTAAATTTTAAAATAAATTTAAA
1 ATAAA-AAAAATGAAGAAAATATTAAATTTTAAAAGAAA-TAAAA
*
83096 ATAAAAAAAATGAAGAAAATATTAATTTTTAAAAGAAATAAAA
1 ATAAAAAAAATGAAGAAAATATTAAATTTTAAAAGAAATAAAA
* * *
83139 ATAAAATAAAATAAAAAGAGAAAGAAATGTTAAATTTTAGAAGAAATAAAA
1 ATAAAA-AAAAT-----GA-AGA-AAATATTAAATTTTAAAAGAAATAAAA
83190 AT--AAAAAATGAAGAAA
1 ATAAAAAAAATGAAGAAA
83206 GTGTTAAAGG
Statistics
Matches: 93, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 12 0.13
44 35 0.38
45 5 0.05
48 5 0.05
49 4 0.04
50 2 0.02
51 26 0.28
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (43 bp):
ATAAAAAAAATGAAGAAAATATTAAATTTTAAAAGAAATAAAA
Found at i:83161 original size:48 final size:50
Alignment explanation
Indices: 83063--83195 Score: 136
Period size: 51 Copynumber: 2.7 Consensus size: 50
83053 AAATAAAAAT
** *
83063 GAAGAAACTATTAAATTTT---A-AAATAAATTTAAAATAAAAAAAATGAA
1 GAAGAAA-TATTAAATTTTAAAAGAAATAAAAATAAAATAAAAAAAAAGAA
*
83110 G-A-AAATATTAATTTTTAAAAGAAATAAAAATAAAATAAAATAAAAAG-A
1 GAAGAAATATTAAATTTTAAAAGAAATAAAAATAAAATAAAA-AAAAAGAA
* *
83158 GAAAGAAATGTTAAATTTTAGAAGAAATAAAAATAAAA
1 G-AAGAAATATTAAATTTTAAAAGAAATAAAAATAAAA
83196 AATGAAGAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
44 10 0.14
45 3 0.04
46 1 0.01
47 2 0.03
48 19 0.27
49 5 0.07
50 1 0.01
51 30 0.42
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (50 bp):
GAAGAAATATTAAATTTTAAAAGAAATAAAAATAAAATAAAAAAAAAGAA
Found at i:84367 original size:18 final size:18
Alignment explanation
Indices: 84337--84387 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
84327 AACCTAAAAT
* *
84337 AATAAAAGA-AAAATAGG
1 AATAAAAAATAAAATAGA
84354 AATAAAAAATAAAAT-GA
1 AATAAAAAATAAAATAGA
84371 AATAAATAAATAAAATA
1 AATAAA-AAATAAAATA
84388 AATATGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.18
Consensus pattern (18 bp):
AATAAAAAATAAAATAGA
Found at i:84438 original size:14 final size:14
Alignment explanation
Indices: 84421--84457 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
84411 AAAACTATAT
84421 AATATATTTTCAAA
1 AATATATTTTCAAA
*
84435 AATATGTTTTCAAA
1 AATATATTTTCAAA
84449 AATTATATT
1 AA-TATATT
84458 ATATGTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (14 bp):
AATATATTTTCAAA
Found at i:84534 original size:37 final size:39
Alignment explanation
Indices: 84476--84664 Score: 233
Period size: 39 Copynumber: 4.9 Consensus size: 39
84466 CAAAAATCGT
* *
84476 TTTTTAAATAACTATATA-T-TATACGTTTTCAAAAGTA
1 TTTTAAAAAAACTATATATTATATACGTTTTCAAAAGTA
*
84513 TTTAAAAAAAACTATATATTATATACGTTTTTCAAAAGTA
1 TTTTAAAAAAACTATATATTATATACG-TTTTCAAAAGTA
* * * ** *
84553 TTTTTAAAAAATTATATATTATATACGTTTTCTAATTTT
1 TTTTAAAAAAACTATATATTATATACGTTTTCAAAAGTA
* *
84592 TTTTAAAAAAACTATATATTATATACGTTTTCAAAAATG
1 TTTTAAAAAAACTATATATTATATACGTTTTCAAAAGTA
*
84631 TTTT--CAAAACTATATATTATATACGTTTTCAAAA
1 TTTTAAAAAAACTATATATTATATACGTTTTCAAAA
84665 CTATATATTA
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 44 0.33
38 1 0.01
39 51 0.39
40 36 0.27
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (39 bp):
TTTTAAAAAAACTATATATTATATACGTTTTCAAAAGTA
Found at i:84579 original size:79 final size:76
Alignment explanation
Indices: 84476--84664 Score: 249
Period size: 79 Copynumber: 2.5 Consensus size: 76
84466 CAAAAATCGT
*
84476 TTTTTAAATAACTATATA-T-TATACGTTTTCAAAAGTATTTAAAAAAAACTATATATTATATAC
1 TTTTTAAAAAACTATATATTATATACGTTTTCAAAAGTATTTAAAAAAAACTATATATTATATAC
84539 GTTTTTCAAAAGTA
66 G-TTTTCAAAA--A
* * ** * *
84553 TTTTTAAAAAATTATATATTATATACGTTTTCTAATTTTTTTTAAAAAAACTATATATTATATAC
1 TTTTTAAAAAACTATATATTATATACGTTTTCAAAAGTATTTAAAAAAAACTATATATTATATAC
84618 GTTTTCAAAAA
66 GTTTTCAAAAA
*
84629 TGTTTT-CAAAACTATATATTATATACGTTTTCAAAA
1 T-TTTTAAAAAACTATATATTATATACGTTTTCAAAA
84665 CTATATATTA
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
76 28 0.29
77 20 0.20
78 10 0.10
79 40 0.41
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (76 bp):
TTTTTAAAAAACTATATATTATATACGTTTTCAAAAGTATTTAAAAAAAACTATATATTATATAC
GTTTTCAAAAA
Found at i:84676 original size:23 final size:25
Alignment explanation
Indices: 84630--84682 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
84620 TTTCAAAAAT
84630 GTTTTCAAAACTATATATTATATAC
1 GTTTTCAAAACTATATATTATATAC
84655 GTTTTCAAAACTATATATTATATAC
1 GTTTTCAAAACTATATATTATATAC
84680 GTT
1 GTT
84683 ATATATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (25 bp):
GTTTTCAAAACTATATATTATATAC
Found at i:89015 original size:10 final size:9
Alignment explanation
Indices: 88990--89014 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
88980 CAATATGAAG
88990 GAAAAAATT
1 GAAAAAATT
88999 GAAAAAATT
1 GAAAAAATT
89008 GAAAAAA
1 GAAAAAA
89015 AGAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (9 bp):
GAAAAAATT
Found at i:89062 original size:24 final size:24
Alignment explanation
Indices: 89001--89062 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
88991 AAAAAATTGA
89001 AAAAATTGAAAAAA-A-G-AAAAAG
1 AAAAA-TGAAAAAATAGGAAAAAAG
**
89023 AAAAATGTTAAAATAGGAAAAAAG
1 AAAAATGAAAAAATAGGAAAAAAG
89047 AAAAA-GAAAAAGATAG
1 AAAAATGAAAAA-ATAG
89063 AAATGAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 6 0.19
22 6 0.19
23 5 0.16
24 15 0.47
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (24 bp):
AAAAATGAAAAAATAGGAAAAAAG
Found at i:89076 original size:30 final size:29
Alignment explanation
Indices: 88992--89076 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 29
88982 ATATGAAGGA
*
88992 AAAAATTGAAAAAATTGAAAAAAAGAAAAAG
1 AAAAA-TGATAAAA-TGAAAAAAAGAAAAAG
* *
89023 AAAAATGTTAAAATAGGAAAAAAGAAAAAG
1 AAAAATGATAAAAT-GAAAAAAAGAAAAAG
89053 AAAAA-GATAGAAATGAAATAAAAG
1 AAAAATGATA-AAATGAAA-AAAAG
89077 TTAAAAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 7 0.15
30 34 0.74
31 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (29 bp):
AAAAATGATAAAATGAAAAAAAGAAAAAG
Found at i:90402 original size:33 final size:32
Alignment explanation
Indices: 90365--90459 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 32
90355 AGTATACTAA
*
90365 TAAACTATATAATATATATTTCAAAAACA-TCTT
1 TAAACTATATATTATAT-TTTCAAAAACAGT-TT
* **
90398 TAAACCATATATTATATTTTTTAAAACAGTTT
1 TAAACTATATATTATATTTTCAAAAACAGTTT
90430 TCCAAACTATATATTATAGTTTTTCAAAAA
1 T--AAACTATATATTATA--TTTTCAAAAA
90460 ATGATTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
32 12 0.24
33 16 0.32
34 14 0.28
36 8 0.16
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (32 bp):
TAAACTATATATTATATTTTCAAAAACAGTTT
Found at i:90447 original size:34 final size:32
Alignment explanation
Indices: 90365--90516 Score: 96
Period size: 36 Copynumber: 4.5 Consensus size: 32
90355 AGTATACTAA
* *
90365 TAAACTATATAATATATATTTCAAAAACATCTT
1 TAAACTATATATTATAT-TTTTAAAAACATCTT
* *
90398 TAAACCATATATTATATTTTTTAAAACAGT-TT
1 TAAACTATATATTATATTTTTAAAAACA-TCTT
*
90430 TCCAAACTATATATTATAGTTTTTCAAAAA-ATGATT
1 T--AAACTATATATTATA-TTTTT-AAAAACAT-CTT
* * **
90466 TAAAAAC-ATTATATCAGTTTTTTTAAAATGAT-TT
1 T--AAACTA-TATATTA-TATTTTTAAAAACATCTT
90500 TAAACTATATATTATAT
1 TAAACTATATATTATAT
90517 AAATTTTTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
31 2 0.02
32 22 0.23
33 17 0.18
34 18 0.19
35 11 0.12
36 24 0.25
37 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (32 bp):
TAAACTATATATTATATTTTTAAAAACATCTT
Found at i:90627 original size:34 final size:34
Alignment explanation
Indices: 90399--90679 Score: 182
Period size: 36 Copynumber: 7.9 Consensus size: 34
90389 AAACATCTTT
* * **
90399 AAACCATATATTATATTTTTT-AAAACAGTTTTCC
1 AAACTATATATTATATTTTTTCAAAA-TGTTTTAA
* *
90433 AAACTATATATTATAGTTTTTCAAAAAATGATTTAA
1 AAACTATATATTATATTTTTTC--AAAATGTTTTAA
*
90469 AAAC-AT-TA-TATCAGTTTTTTTAAAATGATTTT--
1 AAACTATATATTAT-A-TTTTTTCAAAATG-TTTTAA
* * *
90501 AAACTATATATTATATAAATTTTT--AATTTTTTTTA
1 AAACTATATATTATAT---TTTTTCAAAATGTTTTAA
* *
90536 AAACTATATTTTATATAAGTTTTTTCAAAAGGTTTTAAA
1 AAACTATA-TAT-TAT-A-TTTTTTCAAAATGTTTT-AA
* *
90575 GAAACTATATATTATATATTTTTTCAAAATGATTTCA
1 -AAACTATATA-T-TATATTTTTTCAAAATGTTTTAA
*
90612 AAACTATATATTATATAAGTTTTCAAAATGTTTTAA
1 AAACTATATATTATAT--TTTTTCAAAATGTTTTAA
* *
90648 AAACTATATATTATATATCTTCAAAATGTTTT
1 AAACTATATATTATATTTTTTCAAAATGTTTT
90680 TTTAAAAATT
Statistics
Matches: 197, Mismatches: 25, Indels: 50
0.72 0.09 0.18
Matches are distributed among these distances:
32 4 0.02
33 16 0.08
34 50 0.25
35 19 0.10
36 61 0.31
37 8 0.04
38 22 0.11
39 4 0.02
40 13 0.07
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (34 bp):
AAACTATATATTATATTTTTTCAAAATGTTTTAA
Found at i:90706 original size:111 final size:108
Alignment explanation
Indices: 90473--90679 Score: 256
Period size: 112 Copynumber: 1.9 Consensus size: 108
90463 ATTTAAAAAC
* * * * * *
90473 ATTATATCAGTTTTTTTAAAATGATTTTAAACTATATATTATATAAATTTTTAATTTTTTTTAAA
1 ATTATAT-A-TTTTTTCAAAATGATTTAAAACTATATATTATATAAATTTTAAAATGTTTTAAAA
* *
90538 ACTATATTTTATATAAGTTTTTTCAAAAGGTTTTAAAGAAACTATAT
64 ACTATATATTATATAA--TTCTTCAAAAGGTTTTAAAGAAACTATAT
*
90585 ATTATATATTTTTTCAAAATGATTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAA
1 ATTATATATTTTTTCAAAATGATTT-AAAACTATATATTATATAAATTTT-AAAATGTTTTAAAA
*
90650 ACTATATATTATAT-A-TCTTCAAAATGTTTT
64 ACTATATATTATATAATTCTTCAAAAGGTTTT
90680 TTTAAAAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
108 13 0.16
110 16 0.19
111 24 0.29
112 30 0.36
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (108 bp):
ATTATATATTTTTTCAAAATGATTTAAAACTATATATTATATAAATTTTAAAATGTTTTAAAAAC
TATATATTATATAATTCTTCAAAAGGTTTTAAAGAAACTATAT
Found at i:91766 original size:84 final size:83
Alignment explanation
Indices: 91256--92195 Score: 878
Period size: 84 Copynumber: 11.4 Consensus size: 83
91246 ATTTTATTGA
* * * * *
91256 CAGATAACCCTTCTTG-CTTTGAGCTATGCTGTAAATGATGTGCATTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGAC-TTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGA
91320 ACTCGAAGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * *
91336 CAGATAACCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATT-GAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGTGTAGTCGA
*
91400 ACTCAAAGGTCTTTGTTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * * * *
91419 CAGATAACCCTTCTAGCCCTGAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGA
*
91484 ACTCGAGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * * *
91500 CAGATAGCCCTTCTAGCCTTAAGCTATACTGCAAATGATGTTCGTT-GAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
* *
91564 CTCAAAGGTCTTTGTTAG
66 CTCGAAGGTCTTTGTTGG
* * * * * * * *
91582 CATATAACCCTTCTAGCCTTGAGTTATGCTTCAAATGATGTGCTCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGC-CTTGGAGCTGAGTGTAGTCGA
*
91647 ACTCGAGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * * *
91663 CAGATAGCCCTTCTCGACTTAAGCTATACTACAAATAATGTGCCTTGGAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
*
91728 CTTGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTT-GTTGG
* * *
91747 CAGATAACCCTTCTTGACTTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAATCG
1 CAGATAACCCTTCTAGAC-TTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCG
* *
91812 AACTTGAGGGTC--T-TTGG
64 AACTCGAAGGTCTTTGTTGG
* * * * * *
91829 CAGATAGCCCTTTTCA-ACTTAAGTTATACTGCAAATGATGTGCCTTGCAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCT-AGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGA
91893 ACTCGAAGGTCTTTGGTTGG
65 ACTCGAAGGTCTTT-GTTGG
* * * * * *** * *
91913 TAGATAACCCTTCTTGATTTAAGTTATGTTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGA
* *
91978 ACTTGAGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* *
91994 CAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGCT-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATG-TGCCTTGGAGCTGAGTGTAGTCGA
* *
92058 ACTTGAAGGTCTTTGGTTGA
65 ACTCGAAGGTCTTT-GTTGG
* * *
92078 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
*
92143 CTCGAAGG-CTTTTGTTGA
66 CTCGAAGGTC-TTTGTTGG
* * * *
92161 CAGATAATCCTTCTAGCCTTGAGTTATGCTGCAAA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAA
92196 ATGTTGTCCT
Statistics
Matches: 706, Mismatches: 122, Indels: 61
0.79 0.14 0.07
Matches are distributed among these distances:
79 22 0.03
80 142 0.20
81 142 0.20
82 64 0.09
83 83 0.12
84 179 0.25
85 46 0.07
86 28 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
CTCGAAGGTCTTTGTTGG
Found at i:92016 original size:165 final size:164
Alignment explanation
Indices: 91256--92147 Score: 1150
Period size: 165 Copynumber: 5.4 Consensus size: 164
91246 ATTTTATTGA
* * * * * * * *
91256 CAGATAACCCTTCTTG-CTTTGAGCTATGCTGTAAATGATGTG-CATTGGAGCTGAGCGTAGTCG
1 CAGATAACCCTTCTTGAC-TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * * * * *
91319 AACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCATTG
65 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATGTGCC-TTG
* * *
91384 AGCTGAGTGTAATCGAACTCAAAGGTCTTT-GTTGG
129 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
* * * * *
91419 CAGATAACCCTTCTAGCCCTGAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * *
91484 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTAAGCTATACTGCAAATGATGTTCGTTGAG
66 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATGTGCCTTGAG
* * *
91549 CTGAGCGTAGTCAAACTCAAAGGTCTTT-GTTAG
131 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
* * * * * *
91582 CATATAACCCTTCTAGCCTTGAGTTATGCTTCAAATGATGTGCTCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * *
91647 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAATAATGTGCCTTGGA
66 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATGTGCCTT-GA
* *
91712 GTTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGG
130 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
* *
91747 CAGATAACCCTTCTTGACTTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAATCG
1 CAGATAACCCTTCTTGAC-TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * *
91812 AACTTGAGGGTCTTTGGCAGATAGCCCTTTTCA-ACTTAAGTTATACTGCAAATGATGTGCCTTG
65 AACTCGAGGGTCTTTGGCAGATAGCCCTTCT-AGACTTAAGCTATACTGCAAATGATGTGCCTTG
91876 CAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
129 -AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
* * * * *
91913 TAGATAACCCTTCTTGATTTAAGTTATGTTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* *
91978 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGCT-CCTTGG
66 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATG-TGCCTT-G
* *
92042 AGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGA
129 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
* * * *
92078 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGTGTAGTCGA
1 CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
92142 ACTCGA
66 ACTCGA
92148 AGGCTTTTGT
Statistics
Matches: 644, Mismatches: 75, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
163 185 0.29
164 121 0.19
165 189 0.29
166 149 0.23
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (164 bp):
CAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
ACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATACTGCAAATGATGTGCCTTGAG
CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
Found at i:93435 original size:83 final size:86
Alignment explanation
Indices: 93330--93550 Score: 261
Period size: 95 Copynumber: 2.5 Consensus size: 86
93320 GTCTAGCTGG
*
93330 ATCCATAAAGCTGGGGCATTTAACCAATTGCTCTAGAGGGACAG-TTTA-AT-ATATAAACACCT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTTATATAATATAAACACCT
* * *
93392 TTATCAGGTTAGCTGAATCTT
66 TTATCAAGCTAGCTGAATATT
*
93413 ATCCATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGGGACAACTCAAGCTTTATTGTATAAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTC-TAGAGGG---A--C-AGCTTTA---TATAAT
* *
93477 ATAATCACCTTTATCAAGCTAGCTGCATATT
56 ATAAACACCTTTATCAAGCTAGCTGAATATT
93508 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACA
93551 ACTCAAGCTT
Statistics
Matches: 116, Mismatches: 8, Indels: 22
0.79 0.05 0.15
Matches are distributed among these distances:
82 1 0.01
83 36 0.31
86 1 0.01
88 1 0.01
89 3 0.03
90 5 0.04
92 1 0.01
94 2 0.02
95 65 0.56
96 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (86 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTTATATAATATAAACACCT
TTATCAAGCTAGCTGAATATT
Found at i:93545 original size:95 final size:95
Alignment explanation
Indices: 93380--93569 Score: 301
Period size: 95 Copynumber: 2.0 Consensus size: 95
93370 ACAGTTTAAT
* * *
93380 ATATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCC
1 ATATAAACACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCC
93445 TTAGAGGGACAACTCAAGCTTTATTGTATA
66 TTAGAGGGACAACTCAAGCTTTATTGTATA
* * *
93475 ATATAATCACCTTTATCAAGCTAGCTGCATATTATCCATAAAGCTGGGGCGTTTAACCAATTG-C
1 ATATAAACACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCC
*
93539 TCTAGAGGGACAACTCAAGCTTTATTTTATA
66 T-TAGAGGGACAACTCAAGCTTTATTGTATA
93570 TAAATAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 2 0.02
95 85 0.98
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (95 bp):
ATATAAACACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCC
TTAGAGGGACAACTCAAGCTTTATTGTATA
Found at i:96176 original size:23 final size:23
Alignment explanation
Indices: 96113--96187 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
96103 TATGGACATT
*
96113 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTCCGGTGCA
* *
96134 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTCCGGTGCA
* * * *
96157 ATTATATGTGGTACTTCGGTGTA
1 ATTATATGCGGCACTCCGGTGCA
96180 ATTATATG
1 ATTATATG
96188 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
21 5 0.12
23 38 0.88
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (23 bp):
ATTATATGCGGCACTCCGGTGCA
Found at i:99764 original size:21 final size:21
Alignment explanation
Indices: 99738--99780 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
99728 TTTCTAGGCT
* *
99738 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
99759 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
99780 A
1 A
99781 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:101129 original size:30 final size:29
Alignment explanation
Indices: 101090--101148 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
101080 GAGAATTTAC
* *
101090 ATGAACTACGTGATTACATGCATATGTGA
1 ATGAACTACGAGATTACATGAATATGTGA
* *
101119 ATGAAGCTACGAGCTTATATGAATATGTGA
1 ATGAA-CTACGAGATTACATGAATATGTGA
101149 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (29 bp):
ATGAACTACGAGATTACATGAATATGTGA
Found at i:101413 original size:23 final size:23
Alignment explanation
Indices: 101378--101463 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
101368 ATTATTATAT
101378 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
**
101401 GGCACTAAAGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
101424 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
101447 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
101464 ATATGAGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:105755 original size:21 final size:21
Alignment explanation
Indices: 105700--105777 Score: 97
Period size: 20 Copynumber: 3.7 Consensus size: 21
105690 AGACAAAAGA
*
105700 AATCGGTACCCCCTGGAGGGGGG
1 AATCTGTACCCCCT-G-GGGGGG
*
105723 AATCTGT-TCCCCTGGGGGGG
1 AATCTGTACCCCCTGGGGGGG
*
105743 AATATGTACCCCCT-GGGGGG
1 AATCTGTACCCCCTGGGGGGG
105763 AATCTGTACCCCCTG
1 AATCTGTACCCCCTG
105778 AACAATATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
20 31 0.65
21 6 0.12
22 5 0.10
23 6 0.12
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.21
Consensus pattern (21 bp):
AATCTGTACCCCCTGGGGGGG
Found at i:110029 original size:19 final size:20
Alignment explanation
Indices: 109993--110039 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
109983 TTTCTTTCTT
*
109993 TTTCAAAATTTCATTTTTGC
1 TTTCAAAATCTCATTTTTGC
*
110013 TTTCAAAATCT-ATTTTTGT
1 TTTCAAAATCTCATTTTTGC
110032 TTTCAAAA
1 TTTCAAAA
110040 GAAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTCAAAATCTCATTTTTGC
Found at i:111355 original size:20 final size:20
Alignment explanation
Indices: 111313--111417 Score: 138
Period size: 21 Copynumber: 5.1 Consensus size: 20
111303 CTGTTAAATA
* *
111313 GGGGGGAATCGGTAGCCCTCT
1 GGGGGGAATCTGTA-CCCCCT
*
111334 GGGGGGAATCTGTTCCCCCT
1 GGGGGGAATCTGTACCCCCT
* *
111354 GGGGGGAATCGGTACCCCTT
1 GGGGGGAATCTGTACCCCCT
111374 GGGGGGGAATCTGTACCCCCT
1 -GGGGGGAATCTGTACCCCCT
111395 GGGGGGGAATCTGTACCCCCT
1 -GGGGGGAATCTGTACCCCCT
111416 GG
1 GG
111418 ACAATCTGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
20 24 0.32
21 51 0.68
ACGTcount: A:0.13, C:0.27, G:0.40, T:0.20
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:111363 original size:41 final size:42
Alignment explanation
Indices: 111313--111413 Score: 152
Period size: 41 Copynumber: 2.4 Consensus size: 42
111303 CTGTTAAATA
* *
111313 GGGGGGAATCGGTAGCCCTCT-GGGGGGAATCTGTTCCCCCT-
1 GGGGGGAATCGGTACCCCT-TGGGGGGGAATCTGTACCCCCTG
111354 GGGGGGAATCGGTACCCCTTGGGGGGGAATCTGTACCCCCTG
1 GGGGGGAATCGGTACCCCTTGGGGGGGAATCTGTACCCCCTG
*
111396 GGGGGGAATCTGTACCCC
1 GGGGGGAATCGGTACCCC
111414 CTGGACAATC
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.02
41 37 0.67
42 17 0.31
ACGTcount: A:0.14, C:0.27, G:0.40, T:0.20
Consensus pattern (42 bp):
GGGGGGAATCGGTACCCCTTGGGGGGGAATCTGTACCCCCTG
Found at i:113983 original size:38 final size:36
Alignment explanation
Indices: 113933--114125 Score: 189
Period size: 36 Copynumber: 5.2 Consensus size: 36
113923 TTTTAAACGA
113933 TTTT-AAACTATATATTATATAATATTTCAAAAATGTT
1 TTTTAAAACTATATATTATATAAT-TTTC-AAAATGTT
* *
113970 TTTTAAAACTATATTTTATATAAGTTTTTTCAAAAGGTT
1 TTTTAAAACTATATATTATATAA---TTTTCAAAATGTT
** * *
114009 TTAAAGAAACTATATATTATATATTTTTTCAAAATG-A
1 TTTTA-AAACTATATATTATATA-ATTTTCAAAATGTT
*
114046 TTTCAAAACTATATATTATATAAGTTTTCAAAATG--
1 TTTTAAAACTATATATTATATAA-TTTTCAAAATGTT
*
114081 TTTTAAAAATCATATATTATAT-ATTTTCAAAATGTTT
1 TTTTAAAACT-ATATATTATATAATTTTCAAAATG-TT
114118 TTTTAAAA
1 TTTTAAAA
114126 AAATTATATA
Statistics
Matches: 132, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
34 11 0.08
35 9 0.07
36 39 0.30
37 15 0.11
38 27 0.20
39 10 0.08
40 20 0.15
41 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (36 bp):
TTTTAAAACTATATATTATATAATTTTCAAAATGTT
Found at i:114062 original size:36 final size:35
Alignment explanation
Indices: 113847--114114 Score: 167
Period size: 36 Copynumber: 7.5 Consensus size: 35
113837 AACCATATAT
* *
113847 TATATTTTTT-AAAATAGTTTTCCAAACTATATA-T-
1 TATATTTTTTCAAAAT-GATTT-AAAACTATATATTA
* *
113881 TATAGTTTTTCAAAAAAATGATTTAAAAATAT-TA-TA
1 TATATTTTTTC---AAAATGATTTAAAACTATATATTA
*** * *
113917 TCGGTTTTTT--AAACGATTTTAAACTATATATTA
1 TATATTTTTTCAAAATGATTTAAAACTATATATTA
* * * *
113950 TATAATATTTCAAAAATGTTTTTTAAAACTATATTTTA
1 TATATTTTTTC-AAAATG--ATTTAAAACTATATATTA
* *
113988 TATAAGTTTTTTCAAAAGGTTTTAAAGAAACTATATATTA
1 TAT-A-TTTTTTCAAAATGATTT--A-AAACTATATATTA
114028 TATATTTTTTCAAAATGATTTCAAAACTATATATTA
1 TATATTTTTTCAAAATGATTT-AAAACTATATATTA
** * *
114064 TATAAGTTTTCAAAATGTTTTAAAAATCATATATTA
1 TATATTTTTTCAAAATGATTTAAAACT-ATATATTA
114100 TATA--TTTTCAAAATG
1 TATATTTTTTCAAAATG
114115 TTTTTTTAAA
Statistics
Matches: 185, Mismatches: 31, Indels: 36
0.73 0.12 0.14
Matches are distributed among these distances:
31 14 0.08
32 2 0.01
33 7 0.04
34 20 0.11
35 8 0.04
36 59 0.32
37 9 0.05
38 38 0.21
39 8 0.04
40 20 0.11
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (35 bp):
TATATTTTTTCAAAATGATTTAAAACTATATATTA
Found at i:116933 original size:17 final size:17
Alignment explanation
Indices: 116913--116963 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
116903 TTATGGGTTA
116913 TAAATTTTAATTATATT
1 TAAATTTTAATTATATT
116930 TAAATCATTTAA-T-TATT
1 TAAAT--TTTAATTATATT
116947 TAAATTTAATAATTATA
1 TAAATTT--TAATTATA
116964 AATTAGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 2 0.07
17 17 0.61
18 2 0.07
19 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTTAATTATATT
Found at i:120306 original size:21 final size:21
Alignment explanation
Indices: 120282--120321 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
120272 CATGACTTTG
*
120282 GTCATGCTTAGTTAATTTTTT
1 GTCATGCTTAGCTAATTTTTT
120303 GTCATGCTTAGCTAATTTT
1 GTCATGCTTAGCTAATTTT
120322 CTTTTAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (21 bp):
GTCATGCTTAGCTAATTTTTT
Found at i:122516 original size:21 final size:21
Alignment explanation
Indices: 122492--122541 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
122482 TACAACCTAT
122492 GAAAAATTGGTTGCATACCAA
1 GAAAAATTGGTTGCATACCAA
** * *
122513 GAAAAGCTGGTTGCATCCCAT
1 GAAAAATTGGTTGCATACCAA
122534 GAAAAATT
1 GAAAAATT
122542 CCAAAGCCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (21 bp):
GAAAAATTGGTTGCATACCAA
Found at i:128122 original size:90 final size:89
Alignment explanation
Indices: 127965--128141 Score: 282
Period size: 90 Copynumber: 2.0 Consensus size: 89
127955 CCTAACACAC
* *
127965 CCTTTTACAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTTAAATTAATTAAATATATA
1 CCTTTTACAGCCAAGTTACCCTAACCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATA
* *
128030 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATTAAAATTAAATAAT
* * *
128054 CCTTTTATATCCAAGTTACCCTAACCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTACAGCCAAGTTACCCTAACCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATAT
128119 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
128142 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 32 0.40
90 48 0.60
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (89 bp):
CCTTTTACAGCCAAGTTACCCTAACCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATA
TTTAATTAATTAAAATTAAATAAT
Found at i:131605 original size:17 final size:17
Alignment explanation
Indices: 131570--131613 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
131560 ATGTTTTAGG
*
131570 ATATTATTTTAAATATT
1 ATATTATATTAAATATT
* *
131587 ATATTATATTATATTTT
1 ATATTATATTAAATATT
*
131604 ATCTTATATT
1 ATATTATATT
131614 TGTTTTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTATATTAAATATT
Found at i:135183 original size:3 final size:3
Alignment explanation
Indices: 135175--135207 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
135165 TTATATTTTA
135175 ATT ATT ATT ATT ATT ATT -TAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
135208 TACATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:135198 original size:15 final size:15
Alignment explanation
Indices: 135180--135209 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
135170 TTTTAATTAT
135180 TATTATTATTATTTA
1 TATTATTATTATTTA
135195 TATTATTATTATTTA
1 TATTATTATTATTTA
135210 CATTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATTATTATTTA
Found at i:136725 original size:15 final size:14
Alignment explanation
Indices: 136705--136744 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
136695 TATATACGTG
136705 TATATATATTACTA
1 TATATATATTACTA
*
136719 TTATATATATTATTA
1 -TATATATATTACTA
136734 TATATTATATT
1 TATA-TATATT
136745 TCATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATATATTACTA
Found at i:136744 original size:12 final size:13
Alignment explanation
Indices: 136707--136744 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
136697 TATACGTGTA
136707 TATATATTACTAT
1 TATATATTACTAT
*
136720 TATATA-TATTAT
1 TATATATTACTAT
136732 TATATATTA-TAT
1 TATATATTACTAT
136744 T
1 T
136745 TCATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATATTACTAT
Found at i:139018 original size:15 final size:14
Alignment explanation
Indices: 138985--139021 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
138975 GGATCAACAT
138985 TTTTGCATC-TGCA
1 TTTTGCATCTTGCA
138998 -TTTGCATCTTTGCA
1 TTTTGCATC-TTGCA
139012 TTTTGCATCT
1 TTTTGCATCT
139022 GTATTCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTGCATCTTGCA
Found at i:140404 original size:28 final size:27
Alignment explanation
Indices: 140304--140406 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 27
140294 AAGAGAACAT
140304 AAAAACAAAGAGA-AAATA-AGC-AAAGA
1 AAAAACAAAGA-ACAAA-AGAGCAAAAGA
* * *
140330 AGAAACAAAGAGCAAAA-AGAATTAAAGAA
1 AAAAACAAAGAACAAAAGAGCA--AAAG-A
*
140359 AAAAATCAAAGGA-AAAAGAGCAAAAGA
1 AAAAA-CAAAGAACAAAAGAGCAAAAGA
140386 AAAAACAAAGAACAGAAAGAG
1 AAAAACAAAGAACA-AAAGAG
140407 AACAAGGAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
25 3 0.05
26 19 0.32
27 7 0.12
28 14 0.23
29 9 0.15
30 8 0.13
ACGTcount: A:0.71, C:0.08, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAAACAAAGAACAAAAGAGCAAAAGA
Found at i:141386 original size:28 final size:27
Alignment explanation
Indices: 141286--141388 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 27
141276 AAGAGAACAT
141286 AAAAACAAAGAGA-AAATA-AGC-AAAGA
1 AAAAACAAAGA-ACAAA-AGAGCAAAAGA
* * *
141312 AGAAACAAAGAGCAAAA-AGAATTAAAGAA
1 AAAAACAAAGAACAAAAGAGCA--AAAG-A
*
141341 AAAAATCAAAGGA-AAAAGAGCAAAAGA
1 AAAAA-CAAAGAACAAAAGAGCAAAAGA
141368 AAAAACAAAGAACAGAAAGAG
1 AAAAACAAAGAACA-AAAGAG
141389 AACAAGGAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
25 3 0.05
26 19 0.32
27 7 0.12
28 14 0.23
29 9 0.15
30 8 0.13
ACGTcount: A:0.71, C:0.08, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAAACAAAGAACAAAAGAGCAAAAGA
Found at i:141866 original size:982 final size:983
Alignment explanation
Indices: 139962--144849 Score: 9228
Period size: 982 Copynumber: 5.0 Consensus size: 983
139952 AAAAATAATT
139962 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
1 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
* *
140027 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATAATGAACGGCGTTCTTTCATTTA
66 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
140092 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
131 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
*
140157 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTTGCATG
196 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
*
140222 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAAAGTGCAAAGATCATAT
261 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
140287 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
326 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
140352 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
391 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
140417 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
456 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
140482 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
521 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
140547 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
586 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
140612 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
651 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
140677 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
716 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
140742 CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
781 CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
140807 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
846 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
140872 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
911 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
140937 CGATCACA
976 CGATCACA
140945 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
1 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
141010 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
66 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
141075 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
131 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
*
141140 ATTCAACCTTAACCATGGATCACCCTCTACATT-GGGGGCAACTTGGAGGAAATCTGCTCGCATG
196 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
141204 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
261 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
141269 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
326 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
141334 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
391 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
141399 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
456 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
141464 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
521 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
141529 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
586 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
*
141594 AACACTTGTTTGGGCCTATTTATTACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
651 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
141659 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
716 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
141724 CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
781 CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
141789 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
846 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
141854 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
911 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
141919 CGATCACA
976 CGATCACA
141927 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
1 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
141992 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
66 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
142057 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
131 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
142122 ATTCAACCTTAACCATGGATCACCCTCTACATT-GGGGGCAAGTTGGAGGAAATCTGCTCGCATG
196 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
142186 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
261 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
142251 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
326 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
142316 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
391 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
* *
142381 ACAAACAAAGAGTCTCTCGACTCAAATAACACATCAAGCTTCAAATTGTGAGATTGATCAAGCAC
456 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
142446 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
521 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
142511 TTCAAATTGAGCAAGACCAGATTGAAGGAATC----AG-A--GA------G-------A-----A
586 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
142551 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
651 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
*
142616 CTAAAACGTCCATTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
716 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
*
142681 CGCTCATCAGGATTAATATTTTATTTACAAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATA
781 CGCCCATCAGGATTAATATTTTATTTAC-AAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATA
142746 GAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGA
845 GAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGA
*
142811 AGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAG
910 AGATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAG
142876 GCGATCACA
975 GCGATCACA
142885 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
1 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
142950 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
66 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
143015 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
131 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
143080 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
196 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
143145 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
261 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
143210 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
326 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
143275 TAAAGAAAAAAATCAAAGG-AAAAGAGCAAAAG-AAAAACAAAGAACAGAAAGAGAACAAGGAGT
391 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
143338 ACAAAC-AAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
456 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
143402 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
521 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
*
143467 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCATTGGTTCAAATACCCTTA
586 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
* *
143532 AACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTGC
651 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
* *
143597 CTAAAACATCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCC
716 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
* * *
143662 CTCCTATCAGGATTAATATTTTATTTATAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
781 CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
*
143727 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGGAA
846 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
*
143792 GATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
911 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
143857 CGATCACA
976 CGATCACA
143865 C--AAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
1 CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
* *
143928 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGGCGTTATTTCATTTA
66 CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
143993 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
131 TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
144058 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
196 ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
144123 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
261 AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
*
144188 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAATAAACAAAGAGCAAAAAGAAT
326 CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
144253 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
391 TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
144318 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
456 ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
*
144383 AATCACTCTAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
521 AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
144448 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
586 TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
* *
144513 AACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTGC
651 AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
* * * *
144578 CTAAAAAGTCCCTTCTAGTCATACATGGATTTCTAAACAGAAGAGACTATCTTCATATTTCATCC
716 CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
*
144643 CGCCCATCAGGATTGATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
781 CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
*
144708 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGGAA
846 AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
*
144773 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGTAGCTGTTGCATAGGAGG
911 GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
*
144838 TGATCACA
976 CGATCACA
144846 CAAA
1 CAAA
144850 TCCCTTGATA
Statistics
Matches: 3832, Mismatches: 41, Indels: 64
0.97 0.01 0.02
Matches are distributed among these distances:
956 153 0.04
957 193 0.05
958 415 0.11
959 180 0.05
960 2 0.00
961 1 0.00
962 1 0.00
963 2 0.00
969 2 0.00
975 2 0.00
976 1 0.00
977 1 0.00
978 405 0.11
979 13 0.00
980 212 0.06
981 659 0.17
982 1363 0.36
983 227 0.06
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (983 bp):
CAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTATTTATCC
CCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTCTTTCATTTA
TCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTTTTTTCTG
ATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGCTCGCATG
AGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAGATCATAT
CAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAAAAAGAAT
TAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAACAAGGAGT
ACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGATCAAGCAC
AATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATATGAGAAAA
TTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAATACCCTTA
AACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTGC
CTAAAACGTCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATCT
CGCCCATCAGGATTAATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATAG
AGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAAGGAA
GATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAGG
CGATCACA
Found at i:142368 original size:28 final size:27
Alignment explanation
Indices: 142268--142370 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 27
142258 AAGAGAACAT
142268 AAAAACAAAGAGA-AAATA-AGC-AAAGA
1 AAAAACAAAGA-ACAAA-AGAGCAAAAGA
* * *
142294 AGAAACAAAGAGCAAAA-AGAATTAAAGAA
1 AAAAACAAAGAACAAAAGAGCA--AAAG-A
*
142323 AAAAATCAAAGGA-AAAAGAGCAAAAGA
1 AAAAA-CAAAGAACAAAAGAGCAAAAGA
142350 AAAAACAAAGAACAGAAAGAG
1 AAAAACAAAGAACA-AAAGAG
142371 AACAAGGAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
25 3 0.05
26 19 0.32
27 7 0.12
28 14 0.23
29 9 0.15
30 8 0.13
ACGTcount: A:0.71, C:0.08, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAAACAAAGAACAAAAGAGCAAAAGA
Found at i:144075 original size:978 final size:981
Alignment explanation
Indices: 142550--144850 Score: 4326
Period size: 981 Copynumber: 2.3 Consensus size: 981
142540 ATCAGAGAGA
* *
142550 AAACACTTGTTTGGGCCTATTTATCACTTTCCTTCATAACCATGAACCATGTCCTACATTACGTG
1 AAACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTG
* *
142615 CCTAAAACGTCCATTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCAT-
66 CCTAAAACATCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATC
142679 -CTCGCTCATCAGGATTAATATTTTATTTACAAAAAAAAAGGTTTTTTAAAATCTTTAATGCATG
131 CCTC-CT-ATCAGGATTAATATTTTATTTA-AAAAAAAAAGGTTTTTTAAAATCTTTAATGCATG
*
142743 ATAGAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAATGCCTTGAAACCCAAA
193 ATAGAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAA
142808 GGAAGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAG
258 GGAAGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAG
142873 GAGGCGATCACACAAAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCT
323 GAGGCGATCACAC--AAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCT
142938 GAGTATTTATCCCCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACG
386 GAGTATTTATCCCCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACG
*
143003 TTCTTTCATTTATCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATC
451 TTATTTCATTTATCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATC
143068 ATGTTTTTTCTGATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAA
516 ATGTTTTTTCTGATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAA
143133 TCTGCTCGCATGAGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTG
581 TCTGCTCGCATGAGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTG
143198 CAAAGATCATATCAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAG
646 CAAAGATCATATCAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAG
143263 AGCAAAAAGAATTAAAGAAAAAAATCAAAGG-AAAAGAGCAAAAG-AAAAACAAAGAACAGAAAG
711 AGCAAAAAGAATTAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAG
143326 AGAACAAGGAGTACAAAC-AAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGA
776 AGAACAAGGAGTACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGA
143390 TTGATCAAGCACAATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACA
841 TTGATCAAGCACAATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACA
143455 TATATGAGAAAATTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCATTGGTT
906 TATATGAGAAAATTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCATTGGTT
143520 CAAATACCCTT
971 CAAATACCCTT
143531 AAACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTG
1 AAACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTG
143596 CCTAAAACATCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATC
66 CCTAAAACATCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATC
*
143661 CCTCCTATCAGGATTAATATTTTATTTATAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATA
131 CCTCCTATCAGGATTAATATTTTATTTAAAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATA
143726 GAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGGA
196 GAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGGA
143791 AGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAG
261 AGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAG
143856 GCGATCACACAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTA
326 GCGATCACACAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTA
*
143921 TTTATCCCCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGGCGTTATT
391 TTTATCCCCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTATT
143986 TCATTTATCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTT
456 TCATTTATCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTT
144051 TTTTCTGATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGC
521 TTTTCTGATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGC
144116 TCGCATGAGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAG
586 TCGCATGAGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAG
*
144181 ATCATATCAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAATAAACAAAGAGCAA
651 ATCATATCAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAA
144246 AAAGAATTAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAAC
716 AAAGAATTAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAAC
144311 AAGGAGTACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGAT
781 AAGGAGTACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGAT
*
144376 CAAGCACAATCACTCTAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATAT
846 CAAGCACAATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATAT
*
144441 GAGAAAATTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCCTTGGTTCAAAT
911 GAGAAAATTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCATTGGTTCAAAT
144506 ACCCTT
976 ACCCTT
144512 AAACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTG
1 AAACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTG
* *
144577 CCTAAAA-AGTCCCTTCTAGTCATACATGGATTTCTAAACAGAAGAGACTATCTTCATATTTCAT
66 CCTAAAACA-TCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCAT
* * * *
144641 CCCGCCCATCAGGATTGATATTTTATTTACAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGAT
130 CCCTCCTATCAGGATTAATATTTTATTTAAAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGAT
144706 AGAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGG
195 AGAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGG
* *
144771 AAGATTCGAGTTGAAAACCTGAAAAGGCGGCTCGAATATGAAGATTGTGTAGCTGTTGCATAGGA
260 AAGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGA
*
144836 GGTGATCACACAAAT
325 GGCGATCACACAAAT
144851 CCCTTGATAA
Statistics
Matches: 1294, Mismatches: 20, Indels: 12
0.98 0.02 0.01
Matches are distributed among these distances:
978 403 0.31
979 13 0.01
980 213 0.16
981 660 0.51
982 2 0.00
983 3 0.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (981 bp):
AAACACTTGTTTGGGCCTATTTATCCCTTTCTTTCATAACCATGAACCATGTCCTACATTACGTG
CCTAAAACATCCCTTCTAATCATACATGGATTTCTAAACAGAAGAGACTATCTTCAGATTTCATC
CCTCCTATCAGGATTAATATTTTATTTAAAAAAAAAAGGTTTTTTAAAATCTTTAATGCATGATA
GAGAAAAAATAATAAAAGGGGGGCTCAAGACGTAAATTTTGAATAACGCCTTGAAACCCAAAGGA
AGATTCGAGTTGAAAACCTGAAAATGCGGCTCGAATATGAAGATTGTGCAGCTGTTGCATAGGAG
GCGATCACACAAATAATTCTATCATGCATTAATTACATTTTTTTCATGTGAATTATTCCTGAGTA
TTTATCCCCCTGGAGATACCTCTTCTGTAAAGACTTCTGGGTATGAAATGATGAACGACGTTATT
TCATTTATCCCTTCACAAAATGAGAAAATATATCCCTTGTGTCCCCTTTGAGCCTAAATCATGTT
TTTTCTGATTCAACCTTAACCATGGATCACCCTCTACATTGGGGGGCAAGTTGGAGGAAATCTGC
TCGCATGAGTGAAGACATTGATTCAGATGAGATACCAAAAGGTGAACCAAATACAGAGTGCAAAG
ATCATATCAAAGCGAAGAGAACATAAAAACAAAGAGAAAATAAGCAAAGAAGAAACAAAGAGCAA
AAAGAATTAAAGAAAAAAATCAAAGGAAAAAGAGCAAAAGAAAAAACAAAGAACAGAAAGAGAAC
AAGGAGTACAAACAAAGAGTCTCTCGACTCAAATAACGCATCAAGCTTCAAATCGTGAGATTGAT
CAAGCACAATCACTCCAGAATCACTTTACTCGAAGATAATAGAACATCAAGAGAGAGACATATAT
GAGAAAATTCAAATTGAGCAAGACCAGATTGAAGGAATCAGAGAGAATTGATCATTGGTTCAAAT
ACCCTT
Found at i:144296 original size:26 final size:26
Alignment explanation
Indices: 144205--144297 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 26
144195 AAGAGAACAT
144205 AAAAACAAAGAGAAAATA-AGCAAAGA
1 AAAAACAAAGAGAAAA-AGAGCAAAGA
* **
144231 ATAAACAAAGAGCAAAAAGAATTAAAGAA
1 AAAAACAAAGAG-AAAAAG-AGCAAAG-A
144260 AAAAATCAAAG-GAAAAAGAGCAAAAGA
1 AAAAA-CAAAGAGAAAAAGAGC-AAAGA
144287 AAAAACAAAGA
1 AAAAACAAAGA
144298 ACAGAAAGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
26 17 0.31
27 11 0.20
28 15 0.28
29 6 0.11
30 5 0.09
ACGTcount: A:0.72, C:0.08, G:0.15, T:0.05
Consensus pattern (26 bp):
AAAAACAAAGAGAAAAAGAGCAAAGA
Found at i:145580 original size:20 final size:20
Alignment explanation
Indices: 145555--145597 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
145545 TCTAAGAGCC
*
145555 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
145575 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
145595 CAT
1 CAT
145598 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:150535 original size:20 final size:20
Alignment explanation
Indices: 150510--150552 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
150500 TCTAAGAGCC
*
150510 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
150530 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
150550 CAT
1 CAT
150553 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:152962 original size:107 final size:103
Alignment explanation
Indices: 152684--153102 Score: 481
Period size: 107 Copynumber: 4.0 Consensus size: 103
152674 GCTTGAGACA
*
152684 ATTTCTTTCAAAACAAA-TTCGTCTCACTTGAGATATTTTTCCTTTGAGATACAAAATTT-GAAT
1 ATTT-TTT-AAAACAAATTTCGTCTCACTTGAGACATTTTTCCTTTGAGATAC-AAATTTCGAAT
* * * * *
152747 TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGCTT
63 TTGATTCACATTAAACAAAATTAATCTCACTTGAGATTG-TT
* * * ** * *
152789 -TCTCTTAAAACAAACTTCGTCTTGCTTGAGACATTTTTTCCTTTGATATACAAATTTTGAATTT
1 ATTTTTTAAAACAAATTTCGTCTCACTTGAGACA-TTTTTCCTTTGAGATACAAATTTCGAATTT
152853 GATTCAC-TTGAAACAAAATTAATCTCACTTGAGATTGTT
65 GATTCACATT-AAACAAAATTAATCTCACTTGAGATTGTT
**
152892 ATTTTTTAAAAAAAACAAATTTCGTCTCGTTTGAGACATTTTTCCTTTGAGATACAAATTTCGAA
1 ATTTTTT----AAAACAAATTTCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAA
152957 TTTGATTCAC-TTGAAACAAAATTAATCTCACTTGAGATTGTT
62 TTTGATTCACATT-AAACAAAATTAATCTCACTTGAGATTGTT
*
152999 ATTCTTTTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATACAAATTTCGAA
1 A---TTTTTT-AAAACAAATTTCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAA
* *
153064 TTTGTTTTCACATTAAACAAAGA-TGATCTCACTTGAGAT
62 TTTG-ATTCACATTAAACAAA-ATTAATCTCACTTGAGAT
153103 CGTTTTCTCA
Statistics
Matches: 277, Mismatches: 22, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
102 8 0.03
103 27 0.10
104 57 0.21
107 125 0.45
108 51 0.18
109 3 0.01
110 6 0.02
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (103 bp):
ATTTTTTAAAACAAATTTCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTG
ATTCACATTAAACAAAATTAATCTCACTTGAGATTGTT
Found at i:153136 original size:36 final size:36
Alignment explanation
Indices: 153106--153179 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
153096 TTGAGATCGT
* *
153106 TTTCTC-AAAAACAATTTTTGTCTCGTTTGAGACAA
1 TTTCTCTAAAAACAAATGTTGTCTCGTTTGAGACAA
**
153141 TTTCTCTAAAAACAAATGTTGTCTCACTTGAGACAA
1 TTTCTCTAAAAACAAATGTTGTCTCGTTTGAGACAA
153177 TTT
1 TTT
153180 TCCAAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
35 6 0.18
36 28 0.82
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATGTTGTCTCGTTTGAGACAA
Found at i:153513 original size:66 final size:66
Alignment explanation
Indices: 153341--153574 Score: 264
Period size: 64 Copynumber: 3.6 Consensus size: 66
153331 AACAAAATGA
* * * *
153341 AAAAAAAATCTTTGAGTATGTTTCTTTGATAACAAAATTTTGTCACTTTTGAGAAAGTTTCTTTT
1 AAAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTT
153406 G
66 G
* *
153407 --AAAGAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTT
1 AAAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTT
153470 G
66 G
* * ** * * *
153471 AAAAAAAATCTTTAAGTCTGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTGAGACAATTTCTCT
1 AAAAAAAATCTTTGAGTATGTTTCTT-TGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTT
153535 T-
65 TG
153536 AAAACAAACATCTTTGAG-ATTGTTTCCTTTG-AAACAAAA
1 AAAA-AAA-ATCTTTGAGTA-TGTTT-CTTTGAAAACAAAA
153575 CCTATCTTTG
Statistics
Matches: 142, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
64 58 0.41
65 6 0.04
66 54 0.38
67 20 0.14
68 2 0.01
69 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (66 bp):
AAAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTTT
G
Found at i:153604 original size:63 final size:57
Alignment explanation
Indices: 153528--153679 Score: 171
Period size: 63 Copynumber: 2.5 Consensus size: 57
153518 TTTGAGACAA
*
153528 TTTCTCTTAAAACAAACATCTTTGAGATTGTTTCCTTTGAAACAAAACCTATCTTTGAGTTAG
1 TTTCTCTTGAAACAAA-ATCTTTGAG-TTGTTTCCTTTGAAACAAAA---ATCTTTGAGTT-G
* * *
153591 TTTCTCTTGAAACAAAAGTCTGTGAGTTGTTTCTTTTGAAATAAAAATCTTTGAGTTG
1 TTTCTCTTGAAACAAAA-TCTTTGAGTTGTTTCCTTTGAAACAAAAATCTTTGAGTTG
* *
153649 TTTCTTTTGAAA-AAATTCTTTGAGTCTGTTT
1 TTTCTCTTGAAACAAAATCTTTGAGT-TGTTT
153680 TTTTAACCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
56 8 0.10
57 8 0.10
58 12 0.15
59 11 0.14
62 19 0.24
63 22 0.28
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (57 bp):
TTTCTCTTGAAACAAAATCTTTGAGTTGTTTCCTTTGAAACAAAAATCTTTGAGTTG
Found at i:153622 original size:29 final size:29
Alignment explanation
Indices: 153528--153679 Score: 148
Period size: 29 Copynumber: 5.1 Consensus size: 29
153518 TTTGAGACAA
* *
153528 TTTCTCTTAAAACAAACATCTTTGAGATTG
1 TTTCTCTTGAAACAAAAATCTTTGAG-TTG
153558 TTTC-CTTTGAAACAAAACCTATCTTTGAGTTAG
1 TTTCTC-TTGAAACAAAA---ATCTTTGAGTT-G
* *
153591 TTTCTCTTGAAACAAAAGTCTGTGAGTTG
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
* *
153620 TTTCTTTTGAAATAAAAATCTTTGAGTTG
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
* *
153649 TTTCTTTTG-AA-AAAATTCTTTGAGTCTG
1 TTTCTCTTGAAACAAAAATCTTTGAGT-TG
153677 TTT
1 TTT
153680 TTTTAACCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
27 13 0.12
28 7 0.07
29 36 0.34
30 22 0.21
32 2 0.02
33 25 0.24
34 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (29 bp):
TTTCTCTTGAAACAAAAATCTTTGAGTTG
Found at i:153756 original size:29 final size:30
Alignment explanation
Indices: 153721--153778 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
153711 ATTTCGTGAA
153721 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATCTTTGAGTTCATTTCTTTTGAAACC
**
153750 AAAATCTTTGAGTTTGTTTCTTTTGAAAC
1 AAAATCTTTGAGTTCATTTCTTTTGAAAC
153779 AAAGTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (30 bp):
AAAATCTTTGAGTTCATTTCTTTTGAAACC
Found at i:153781 original size:29 final size:29
Alignment explanation
Indices: 153528--153781 Score: 143
Period size: 29 Copynumber: 8.6 Consensus size: 29
153518 TTTGAGACAA
* * *
153528 TTTCTCTTAAAACAAACATCTTTGAGATTG
1 TTTCTTTTGAAACAAA-ATCTTTGAGTTTG
* *
153558 TTTCCTTTGAAACAAAACCTATCTTTGAGTTAG
1 TTTCTTTTGAAAC-AAA---ATCTTTGAGTTTG
* *
153591 TTTCTCTTGAAACAAAAGTCTGTGAG-TTG
1 TTTCTTTTGAAACAAAA-TCTTTGAGTTTG
*
153620 TTTCTTTTGAAATAAAAATCTTTGAG-TTG
1 TTTCTTTTGAAA-CAAAATCTTTGAGTTTG
* *
153649 TTTCTTTTGAAA-AAATTCTTTGAGTCTG
1 TTTCTTTTGAAACAAAATCTTTGAGTTTG
* * *
153677 TTT-TTTT-AACCAAAGT-TTT--GTTTC
1 TTTCTTTTGAAACAAAATCTTTGAGTTTG
**
153701 TCTTAAGACAATTTCGTG-AA-AAAATCTTTGAG-TCA
1 T-TT----C--TTT--TGAAACAAAATCTTTGAGTTTG
153736 TTTCTTTTGAAACCAAAATCTTTGAGTTTG
1 TTTCTTTTGAAA-CAAAATCTTTGAGTTTG
153766 TTTCTTTTGAAACAAA
1 TTTCTTTTGAAACAAA
153782 GTTTTGTCTC
Statistics
Matches: 174, Mismatches: 25, Indels: 51
0.70 0.10 0.20
Matches are distributed among these distances:
24 4 0.02
25 2 0.01
26 7 0.04
27 21 0.12
28 8 0.05
29 52 0.30
30 35 0.20
31 3 0.02
32 6 0.03
33 26 0.15
34 7 0.04
35 2 0.01
36 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (29 bp):
TTTCTTTTGAAACAAAATCTTTGAGTTTG
Found at i:153806 original size:20 final size:21
Alignment explanation
Indices: 153762--153806 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
153752 AATCTTTGAG
* *
153762 TTTGTTTCTTTTGAAACAAAGT
1 TTTGTCTCTCTTGAAAC-AAGT
153784 TTTGTCTCTCTTGAAAC-AGT
1 TTTGTCTCTCTTGAAACAAGT
153804 TTT
1 TTT
153807 TCGTGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
22 15 0.71
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (21 bp):
TTTGTCTCTCTTGAAACAAGT
Found at i:153845 original size:91 final size:86
Alignment explanation
Indices: 153633--153857 Score: 260
Period size: 91 Copynumber: 2.5 Consensus size: 86
153623 CTTTTGAAAT
* *
153633 AAAAATCTTTGAGT-TGTTTCTTTTGAAAAAATTCTTTGAGTCTGTTTTTTTAACCAAAGTTTTG
1 AAAAATCTTTGAGTCTG-TTCTTTTGAAAAAA-TCTTTGAGTTTGTTTTTTTAAACAAAGTTTTG
*
153697 TTTCTCTTAAGACAATTTCGTGA
64 TCTCTCTTAAGACAATTTCGTGA
153720 AAAAATCTTTGAGTCAT-TTCTTTTGAAACCAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAGT
1 AAAAATCTTTGAGTC-TGTTCTTTTG-AA--AAAATCTTTGAGTTTGTTT-TTTT-AAACAAAGT
*
153784 TTTGTCTCTCTTGAA-ACAGTTTTTCGTGA
60 TTTGTCTCTCTT-AAGACA--ATTTCGTGA
*
153813 GAAAAATCTTTGAGTCTGTTCCTTTTG-AAAAATCTTTGAGATTGT
1 -AAAAATCTTTGAGTCTGTT-CTTTTGAAAAAATCTTTGAGTTTGT
153858 GTCTCTTAAC
Statistics
Matches: 120, Mismatches: 5, Indels: 22
0.82 0.03 0.15
Matches are distributed among these distances:
87 22 0.18
88 2 0.02
89 15 0.12
90 8 0.07
91 38 0.32
92 2 0.02
93 10 0.08
94 17 0.14
95 6 0.05
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (86 bp):
AAAAATCTTTGAGTCTGTTCTTTTGAAAAAATCTTTGAGTTTGTTTTTTTAAACAAAGTTTTGTC
TCTCTTAAGACAATTTCGTGA
Found at i:154173 original size:43 final size:41
Alignment explanation
Indices: 154074--154313 Score: 139
Period size: 40 Copynumber: 5.5 Consensus size: 41
154064 CTAGAGATTG
* * *
154074 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCT-G--A
1 CCAG-ACTCCTCATCACGTAGGAGCCGTGTCA-CCCCTAGATA
*
154114 CCAGATCTCTTCATCACGTAGGAGCCGTGTCACCCCTAGATAA
1 CCAGA-CTCCTCATCACGTAGGAGCCGTGTCACCCCTAGAT-A
* * * *
154157 CCAGACATCCTCATCACGTAGGAACCATGTTATTGCCCTTCCTAAAGATGG
1 CCAGAC-TCCTCATCACGTAGGAGCCGTGTCA----CC--CCT--AGAT-A
* * * *
154208 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCG--A
1 CCAG-ACTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATA
* *
154248 CCAGATCTCCTCATCGCGTAGGAGTCGTGTCACCCCTAGATAA
1 CCAGA-CTCCTCATCACGTAGGAGCCGTGTCACCCCTAGAT-A
* *
154291 CCAGCCGTCCTCATCGCGTAGGA
1 CCAGAC-TCCTCATCACGTAGGA
154314 ACCGAGTTAT
Statistics
Matches: 157, Mismatches: 23, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
39 6 0.04
40 61 0.39
42 2 0.01
43 49 0.31
45 3 0.02
47 3 0.02
49 3 0.02
51 28 0.18
52 2 0.01
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (41 bp):
CCAGACTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATA
Found at i:154414 original size:135 final size:134
Alignment explanation
Indices: 154063--154423 Score: 539
Period size: 134 Copynumber: 2.7 Consensus size: 134
154053 AATCATTATC
* * *
154063 CCTAGAGATTGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCT-GACCAGATCTCTTCA
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATC-CCTCGACCAGATCTCCTCA
* **
154127 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGACATCCTCATCACGTAGGAACCATGTTATTG
65 TCACGTAGGATCCGTGTCACCCCTAGATAACCAGACATCCTCATCACGTAGGAACCATGTTATCA
154192 CCCTT
130 CCCTT
154197 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATCTCCTCAT
* * * *
154262 CGCGTAGGAGT-CGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGA-GTTATC
66 CACGTAGGA-TCCGTGTCACCCCTAGATAACCAGACATCCTCATCACGTAGGAACC-ATGTTATC
154325 ACCCTT
129 ACCCTT
* *
154331 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCGACCAGATGTCCTCA
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATCTCCTCA
* *
154396 TCATGTAGGATCCGTGTCACCCTTAGAT
65 TCACGTAGGATCCGTGTCACCCCTAGAT
154424 GACTCGAACT
Statistics
Matches: 207, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
133 3 0.01
134 131 0.63
135 73 0.35
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCTCGACCAGATCTCCTCAT
CACGTAGGATCCGTGTCACCCCTAGATAACCAGACATCCTCATCACGTAGGAACCATGTTATCAC
CCTT
Found at i:158348 original size:35 final size:35
Alignment explanation
Indices: 158302--158374 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
158292 ACATACACAC
* *
158302 TATGATCATAGATTCATTTTAAGTCCTATGGTGTT
1 TATGATCATAGATGCATTTTAAGTACTATGGTGTT
158337 TATGATCATAGATGCATTTTAAGTACTATGGTGTT
1 TATGATCATAGATGCATTTTAAGTACTATGGTGTT
158372 TAT
1 TAT
158375 TGTGATAGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (35 bp):
TATGATCATAGATGCATTTTAAGTACTATGGTGTT
Found at i:161387 original size:14 final size:15
Alignment explanation
Indices: 161368--161405 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
161358 CACAACATTG
161368 AATATAATACAAAA-
1 AATATAATACAAAAC
*
161382 AATATAACACAAAAC
1 AATATAATACAAAAC
161397 AATTATAAT
1 AA-TATAAT
161406 TACTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 2 0.10
16 5 0.25
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (15 bp):
AATATAATACAAAAC
Found at i:164461 original size:24 final size:24
Alignment explanation
Indices: 164412--164461 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
164402 AAATTAGATC
*
164412 ATAAAATTAAATTCATATTATTAT
1 ATAAAATTAAATTCATATTATCAT
164436 ATAAAATTAAGAATTC-TA-TATCAT
1 ATAAAATT-A-AATTCATATTATCAT
164460 AT
1 AT
164462 TATATGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 15 0.65
25 3 0.13
26 5 0.22
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (24 bp):
ATAAAATTAAATTCATATTATCAT
Found at i:167413 original size:25 final size:24
Alignment explanation
Indices: 167375--167441 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
167365 ATGGTACTTT
* * *
167375 TAAATAGAACAAAAAATGTACAAAA
1 TAAATAAAAGAAAAAA-ATACAAAA
*
167400 TAAATAAAAGAAAATAAATACAGAA
1 TAAATAAAAGAAAA-AAATACAAAA
167425 TATAA-AAAAGAAAAAAA
1 TA-AATAAAAGAAAAAAA
167442 CCAAGGAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.08
25 29 0.81
26 4 0.11
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.15
Consensus pattern (24 bp):
TAAATAAAAGAAAAAAATACAAAA
Found at i:167483 original size:20 final size:19
Alignment explanation
Indices: 167455--167515 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
167445 AGGAGAGGAA
*
167455 AAATAAAATAATAAAAAAAC
1 AAATTAAATAA-AAAAAAAC
*
167475 AAATTAAATAAAAAAATAC
1 AAATTAAATAAAAAAAAAC
* * * *
167494 AAAATAAAGAAATAGAAAC
1 AAATTAAATAAAAAAAAAC
167513 AAA
1 AAA
167516 AGAAAGGGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 24 0.71
20 10 0.29
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (19 bp):
AAATTAAATAAAAAAAAAC
Found at i:167607 original size:2 final size:2
Alignment explanation
Indices: 167600--167626 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
167590 GAAAATGCAA
167600 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
167627 AAAATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:167687 original size:21 final size:24
Alignment explanation
Indices: 167662--167715 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 24
167652 AAAAAAGAGG
167662 AAAATAAATA-AATA-A-ATAAAT
1 AAAATAAATACAATATATATAAAT
*
167683 AAAATAAATACAATATATATGAAT
1 AAAATAAATACAATATATATAAAT
167707 ATAAATAAA
1 A-AAATAAA
167716 ATGTTAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 10 0.36
22 4 0.14
23 1 0.04
24 6 0.21
25 7 0.25
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAATACAATATATATAAAT
Found at i:167715 original size:4 final size:4
Alignment explanation
Indices: 167663--167697 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
167653 AAAAAGAGGA
167663 AAAT AAAT AAAT AAAT AAAT AAAAT AAAT ACAAT A
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT A
167698 TATATGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 21 0.72
5 8 0.28
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Done.