Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 38 of 182
Found at i:14436608 original size:56 final size:56
Alignment explanation
Indices: 14436461--14436609 Score: 174
Period size: 56 Copynumber: 2.7 Consensus size: 56
14436451 GCCCGAACAG
* * * * *
14436461 CTCGTCATCCCCTTGTTCGCTTGATGTCCACAACTCGCCTTATCCCGCGTCCATAG
1 CTCGTCATCCCCTTGTTCGCCTGATGTCCACAGCTTGCCTTATCCCGCGTCCACAA
* * * *
14436517 CTCGCCATCCCCTTG-TCTGCCTGATGTCCATAGCTTGCCTTCTCCCGCGTTCACAA
1 CTCGTCATCCCCTTGTTC-GCCTGATGTCCACAGCTTGCCTTATCCCGCGTCCACAA
* * *
14436573 CTCGTCATCCCTTTGTTCACCCGATGTCCACAGCTTG
1 CTCGTCATCCCCTTGTTCGCCTGATGTCCACAGCTTG
14436610 ACATCTCCTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
55 2 0.03
56 73 0.95
57 2 0.03
ACGTcount: A:0.13, C:0.40, G:0.16, T:0.31
Consensus pattern (56 bp):
CTCGTCATCCCCTTGTTCGCCTGATGTCCACAGCTTGCCTTATCCCGCGTCCACAA
Found at i:14445945 original size:29 final size:29
Alignment explanation
Indices: 14445902--14445958 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
14445892 TTTTTTTTCT
* * * *
14445902 AATTTGGTACTTAAATTTTTTATATATTC
1 AATTTGATACCTAAATTTATTAAATATTC
14445931 AATTTGATACCTAAATTTATTAAATATT
1 AATTTGATACCTAAATTTATTAAATATT
14445959 ATAAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (29 bp):
AATTTGATACCTAAATTTATTAAATATTC
Found at i:14446200 original size:30 final size:31
Alignment explanation
Indices: 14446148--14446222 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 31
14446138 CCCCAAAAAG
*
14446148 TTTAAGTACCAACTTAAAAAAAAATATCAAA
1 TTTAAGTACCAAATTAAAAAAAAATATCAAA
*
14446179 TTTAGGTACCAAATT-AAAAAAAATATCAAA
1 TTTAAGTACCAAATTAAAAAAAAATATCAAA
*
14446209 TTTAAGAACCAAAT
1 TTTAAGTACCAAAT
14446223 GTTATATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 27 0.68
31 13 0.32
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (31 bp):
TTTAAGTACCAAATTAAAAAAAAATATCAAA
Found at i:14448159 original size:20 final size:17
Alignment explanation
Indices: 14448109--14448155 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
14448099 AATTTTAATA
*
14448109 TAAATATTCAATATTAT
1 TAAAAATTCAATATTAT
14448126 TAAAAATTCAATATTAT
1 TAAAAATTCAATATTAT
14448143 TAAAAATTCAATA
1 TAAAAATTCAATA
14448156 ATATAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAATTCAATATTAT
Found at i:14448305 original size:20 final size:20
Alignment explanation
Indices: 14448277--14448316 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14448267 TTGGGGGTAA
*
14448277 AGGGTGAAAAGAAAAAGTTT
1 AGGGAGAAAAGAAAAAGTTT
*
14448297 AGGGAGAAAATAAAAAGTTT
1 AGGGAGAAAAGAAAAAGTTT
14448317 TGAAGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.20
Consensus pattern (20 bp):
AGGGAGAAAAGAAAAAGTTT
Found at i:14448788 original size:18 final size:17
Alignment explanation
Indices: 14448747--14448781 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14448737 TATTCGAGTT
14448747 ATTCGAATTTGAAGCTCA
1 ATTCG-ATTTGAAGCTCA
14448765 ATTCGATTTGAA-CTCA
1 ATTCGATTTGAAGCTCA
14448781 A
1 A
14448782 AATTCGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (17 bp):
ATTCGATTTGAAGCTCA
Found at i:14450671 original size:24 final size:26
Alignment explanation
Indices: 14450639--14450699 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
14450629 GTATGTTGTT
* *
14450639 TATTTATTTTTTTTGA-TTT-ATAAA
1 TATTAATTTTTGTTGATTTTGATAAA
*
14450663 TATTAATTTTTGTTGATTTTGATTAA
1 TATTAATTTTTGTTGATTTTGATAAA
14450689 T-TTAATTTTTG
1 TATTAATTTTTG
14450700 ATTAATGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.44
25 13 0.41
26 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (26 bp):
TATTAATTTTTGTTGATTTTGATAAA
Found at i:14450693 original size:25 final size:23
Alignment explanation
Indices: 14450640--14450699 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
14450630 TATGTTGTTT
*
14450640 ATTT-ATTTTTTTTGATTTATAA
1 ATTTAATTTTTGTTGATTTATAA
*
14450662 ATATTAATTTTTGTTGATTTTGATTA
1 AT-TTAATTTTTGTTGA-TTT-ATAA
14450688 ATTTAATTTTTG
1 ATTTAATTTTTG
14450700 ATTAATGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 10 0.31
25 13 0.41
26 5 0.16
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (23 bp):
ATTTAATTTTTGTTGATTTATAA
Found at i:14450851 original size:29 final size:29
Alignment explanation
Indices: 14450791--14450867 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
14450781 TTGTTTAAAG
*
14450791 GTATGTTTATCTTTTA--TTTTTTGATTGT
1 GTATGTTTAT-TTTTATGTTTTTTGATTAT
*
14450819 -TATGTTTATTTTTATGTTTTTTTATTAT
1 GTATGTTTATTTTTATGTTTTTTGATTAT
*
14450847 GTATGTTTTTTTTTATGTTTT
1 GTATGTTTATTTTTATGTTTT
14450868 GTTTGAAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.12
27 9 0.21
28 10 0.23
29 19 0.44
ACGTcount: A:0.14, C:0.01, G:0.12, T:0.73
Consensus pattern (29 bp):
GTATGTTTATTTTTATGTTTTTTGATTAT
Found at i:14450862 original size:16 final size:17
Alignment explanation
Indices: 14450831--14450864 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14450821 TGTTTATTTT
14450831 TATGTTTTTTTATTATG
1 TATGTTTTTTTATTATG
14450848 TATGTTTTTTT-TTATG
1 TATGTTTTTTTATTATG
14450864 T
1 T
14450865 TTTGTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (17 bp):
TATGTTTTTTTATTATG
Found at i:14450870 original size:17 final size:17
Alignment explanation
Indices: 14450823--14450871 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
14450813 GATTGTTATG
*
14450823 TTTATTTTTATGTTTTTT
1 TTTATGTTT-TGTTTTTT
*
14450841 TATTATG-TATGTTTTTT
1 T-TTATGTTTTGTTTTTT
14450858 TTTATGTTTTGTTT
1 TTTATGTTTTGTTT
14450872 GAAAGGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 2 0.08
19 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (17 bp):
TTTATGTTTTGTTTTTT
Found at i:14450887 original size:30 final size:29
Alignment explanation
Indices: 14450822--14450905 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 29
14450812 TGATTGTTAT
* *
14450822 GTTTATTTTTATGTTTTTTTATTATGTATG
1 GTTT-TTTTTATGTTTTTTTATAAGGTATG
*
14450852 TTTTTTTTTATGTTTTGTTTGA-AAGGTATG
1 GTTTTTTTTATGTTTT-TTT-ATAAGGTATG
14450882 GTTTTTGATTGTTATGTTTTTTTA
1 G-TTTT--TT-TTATGTTTTTTTA
14450906 ATATGTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
29 12 0.27
30 12 0.27
31 5 0.11
32 1 0.02
33 5 0.11
34 9 0.20
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (29 bp):
GTTTTTTTTATGTTTTTTTATAAGGTATG
Found at i:14452128 original size:51 final size:51
Alignment explanation
Indices: 14452060--14452161 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
14452050 CAATAACTTA
* *
14452060 AATAAAAACTTTCAAATAATTCAATAATCATTTTATAACTTTTTTAAAATT
1 AATAAAAACTTTCAAATAACTCAATAATCATTTTACAACTTTTTTAAAATT
* * * * * *
14452111 AATAAAAACTTTTAAATAGCTCGATGATTATTTTACAATTTTTTTAAAATT
1 AATAAAAACTTTCAAATAACTCAATAATCATTTTACAACTTTTTTAAAATT
14452162 GAATGGCCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (51 bp):
AATAAAAACTTTCAAATAACTCAATAATCATTTTACAACTTTTTTAAAATT
Found at i:14455228 original size:22 final size:20
Alignment explanation
Indices: 14455203--14455243 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
14455193 ATATATCCAT
14455203 TATAAATTTAAATATATAATTC
1 TATAAATTTAAA-ATA-AATTC
*
14455225 TATATATTTAAAATAAATT
1 TATAAATTTAAAATAAATT
14455244 TCAATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATTTAAAATAAATTC
Found at i:14457232 original size:25 final size:24
Alignment explanation
Indices: 14457178--14457232 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
14457168 AAAATATCAT
14457178 AAATTCTTTAAAAAATTCTTAAAA
1 AAATTCTTTAAAAAATTCTTAAAA
* *
14457202 ATAATTTTTTAGAAAATATT-TTAGAA
1 A-AATTCTTTA-AAAA-ATTCTTAAAA
14457228 AAATT
1 AAATT
14457233 AAAATATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 12 0.46
26 10 0.38
27 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATTCTTTAAAAAATTCTTAAAA
Found at i:14463110 original size:3 final size:3
Alignment explanation
Indices: 14463102--14463133 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14463092 ATTTTATTCT
14463102 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14463134 TTCTTCCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14463695 original size:14 final size:14
Alignment explanation
Indices: 14463654--14463699 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
14463644 TAAAATTCGA
*
14463654 AAAATATAAAAACT
1 AAAATATAAAAATT
14463668 AAAA-ATAATGAAATT
1 AAAATATAA--AAATT
14463683 AAAATATAAAAATT
1 AAAATATAAAAATT
14463697 AAA
1 AAA
14463700 TCCATAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 4 0.14
14 12 0.43
15 8 0.29
16 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:14463864 original size:18 final size:19
Alignment explanation
Indices: 14463837--14463873 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14463827 TATACTTACA
14463837 AATTTGTAAT-TTTTTTAT
1 AATTTGTAATATTTTTTAT
*
14463855 AATTTTTAATATTTTTTAT
1 AATTTGTAATATTTTTTAT
14463874 TGAAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
AATTTGTAATATTTTTTAT
Found at i:14465299 original size:3 final size:3
Alignment explanation
Indices: 14465291--14465331 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14465281 TATAATTACA
14465291 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14465332 ATAATTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14465767 original size:21 final size:21
Alignment explanation
Indices: 14465743--14465782 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14465733 TTATCATACA
14465743 TAAAA-TATAAAATTTAAATAT
1 TAAAACTATAAAA-TTAAATAT
*
14465764 TAAAACTATCAAATTAAAT
1 TAAAACTATAAAATTAAAT
14465783 TTTCTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAACTATAAAATTAAATAT
Found at i:14488744 original size:29 final size:30
Alignment explanation
Indices: 14488680--14488744 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
14488670 TAGGAGCTAT
* **
14488680 ATCAAA-TTAATCCTTTTATTATTAAATTT
1 ATCAAATTTAATCCTTTTACTATTAAATAA
*
14488709 AT-TAATTTAATCCTTTTACTATTAAA-AA
1 ATCAAATTTAATCCTTTTACTATTAAATAA
14488737 ATCAAATT
1 ATCAAATT
14488745 AGAATCGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (30 bp):
ATCAAATTTAATCCTTTTACTATTAAATAA
Found at i:14492488 original size:19 final size:18
Alignment explanation
Indices: 14492464--14492521 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 18
14492454 GGTTTCTGTC
14492464 AATTTTAAATATTTAAAAT
1 AATTTTAAA-ATTTAAAAT
14492483 AATTTTTAAAATTTAAAAT
1 AA-TTTTAAAATTTAAAAT
14492502 -ATTTATAAAAATTTTAAAAT
1 AATTT-T-AAAA-TTTAAAAT
14492522 TTATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 15 0.43
20 15 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTAAAATTTAAAAT
Found at i:14492504 original size:28 final size:28
Alignment explanation
Indices: 14492464--14492570 Score: 94
Period size: 28 Copynumber: 3.8 Consensus size: 28
14492454 GGTTTCTGTC
*
14492464 AATTTTAAATATTTAAAATAATTTTTAA
1 AATTTAAAATATTTAAAATAATTTTTAA
14492492 AATTTAAAATATTTATAAA-AA-TTTTAA
1 AATTTAAAATATTTA-AAATAATTTTTAA
* * * *
14492519 AATTT-ATATTTTTAAAAAAATTATATAA
1 AATTTAAAATATTTAAAATAATT-TTTAA
* *
14492547 AAATTAAAAAATTTATAAAATAAT
1 AATTTAAAATA-TT-TAAAATAAT
14492571 CATTTTAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.05
26 9 0.14
27 12 0.19
28 24 0.38
29 5 0.08
30 2 0.03
31 8 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTTAAAATATTTAAAATAATTTTTAA
Found at i:14492555 original size:20 final size:18
Alignment explanation
Indices: 14492476--14492566 Score: 76
Period size: 18 Copynumber: 4.9 Consensus size: 18
14492466 TTTTAAATAT
* *
14492476 TTAAAATAATTTTTAAAAT
1 TTAAAA-AATTTATAAAAA
*
14492495 TTAAAATATTTATAAAAA
1 TTAAAAAATTTATAAAAA
** ***
14492513 TTTTAAAATTTAT-ATTT
1 TTAAAAAATTTATAAAAA
14492530 TTAAAAAAATTATATAAAAA
1 TT-AAAAAATT-TATAAAAA
14492550 TTAAAAAATTTATAAAA
1 TTAAAAAATTTATAAAA
14492567 TAATCATTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
17 3 0.05
18 32 0.58
19 17 0.31
20 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAAAATTTATAAAAA
Found at i:14492566 original size:9 final size:9
Alignment explanation
Indices: 14492464--14492567 Score: 63
Period size: 9 Copynumber: 11.3 Consensus size: 9
14492454 GGTTTCTGTC
14492464 AATTT-TAA
1 AATTTATAA
*
14492472 ATATTTAAAA
1 A-ATTTATAA
*
14492482 TAATTTTTAA
1 -AATTTATAA
14492492 AATTTA-AA
1 AATTTATAA
14492500 ATATTTATAAA
1 A-ATTTAT-AA
14492511 AATTT-TAA
1 AATTTATAA
14492519 AATTTAT-A
1 AATTTATAA
** *
14492527 TTTTTAAAAA
1 AATTT-ATAA
14492537 AATTATATAA
1 AATT-TATAA
* *
14492547 AAATTAAAA
1 AATTTATAA
14492556 AATTTATAA
1 AATTTATAA
14492565 AAT
1 AAT
14492568 AATCATTTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
8 15 0.21
9 31 0.43
10 21 0.29
11 5 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTTATAA
Found at i:14493792 original size:30 final size:30
Alignment explanation
Indices: 14493758--14493827 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 30
14493748 AAAAAAGTCC
14493758 ATATTATTTT-TTTAAT-TTTAAAAAATATTT
1 ATATTATTTTATTTAATATTT-AAAAAT-TTT
*
14493788 ATATTATTTTAATTTAATATTTAATAATTTT
1 ATATTATTTT-ATTTAATATTTAAAAATTTT
14493819 ATA-TATTTT
1 ATATTATTTT
14493828 GTATATAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 16 0.44
31 6 0.17
32 11 0.31
33 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
ATATTATTTTATTTAATATTTAAAAATTTT
Found at i:14502836 original size:29 final size:31
Alignment explanation
Indices: 14502804--14502862 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
14502794 ATATACATAT
* *
14502804 ATTT-AATATT-TAATAATATATATATTAAA
1 ATTTAAATATTATAAAAATAAATATATTAAA
*
14502833 ATTTAAATATTATAAAAATAAATATTTTAA
1 ATTTAAATATTATAAAAATAAATATATTAA
14502863 TTATATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 6 0.24
31 15 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTTAAATATTATAAAAATAAATATATTAAA
Found at i:14504849 original size:28 final size:28
Alignment explanation
Indices: 14504809--14504864 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14504799 GGCAACCGCC
14504809 TCCACACCCCCTGGATCCATCCCTGAAT
1 TCCACACCCCCTGGATCCATCCCTGAAT
14504837 TCCACACCCCCTGGATCCATCCCTGAAT
1 TCCACACCCCCTGGATCCATCCCTGAAT
14504865 ACAGGGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.46, G:0.11, T:0.21
Consensus pattern (28 bp):
TCCACACCCCCTGGATCCATCCCTGAAT
Found at i:14509998 original size:13 final size:13
Alignment explanation
Indices: 14509980--14510005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14509970 ACTGAATGAA
14509980 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
14509993 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
14510006 CATGCAAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:14514955 original size:20 final size:19
Alignment explanation
Indices: 14514919--14514961 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
14514909 TATTTTTGTT
* * *
14514919 TTTTTATACTTTTATATAG
1 TTTTTATACATTAATATAC
14514938 TTTTTATACAATTAATATAC
1 TTTTTATAC-ATTAATATAC
14514958 TTTT
1 TTTT
14514962 AAAATGTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTATACATTAATATAC
Found at i:14515521 original size:43 final size:44
Alignment explanation
Indices: 14515469--14515553 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
14515459 TAAACATATT
14515469 TTATATATTACTATAATTA-AT-TAT-TTTTAAA-CTATATATTTCA
1 TTATATATTA-TAT-ATTACATCTATATTTTAAATCTATA-ATTTCA
*
14515512 TTATTTATTATATATTACATCTATATTTTAAATCTATAATTT
1 TTATATATTATATATTACATCTATATTTTAAATCTATAATTT
14515554 TGGTGTGACA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
41 4 0.11
42 5 0.14
43 12 0.32
44 11 0.30
45 5 0.14
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (44 bp):
TTATATATTATATATTACATCTATATTTTAAATCTATAATTTCA
Found at i:14531774 original size:23 final size:24
Alignment explanation
Indices: 14531721--14531776 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
14531711 TAAATAATAT
*
14531721 ATATAATATATATTTTTTTGAATT
1 ATATAATATATATTTTTTTGAATC
* *
14531745 GTTTAATATA-ATTTTTTAT-AATC
1 ATATAATATATATTTTTT-TGAATC
14531768 ATATAATAT
1 ATATAATAT
14531777 GCTATAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
ATATAATATATATTTTTTTGAATC
Found at i:14537272 original size:39 final size:39
Alignment explanation
Indices: 14537229--14537313 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
14537219 CATATCTCAC
**
14537229 TTTCTTCTAGTTCACACA-CGTCCTTCTCTTTCTTCTCCT
1 TTTCTTCTAGTTCACA-AGCGTCCTTCAATTTCTTCTCCT
* * *
14537268 TTTCTTCTCGTTCACAAGCTTCCTTCAATTTCTTCTCTT
1 TTTCTTCTAGTTCACAAGCGTCCTTCAATTTCTTCTCCT
14537307 TTTCTTC
1 TTTCTTC
14537314 CTGCTCAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.03
39 39 0.98
ACGTcount: A:0.11, C:0.33, G:0.05, T:0.52
Consensus pattern (39 bp):
TTTCTTCTAGTTCACAAGCGTCCTTCAATTTCTTCTCCT
Found at i:14544820 original size:5 final size:5
Alignment explanation
Indices: 14544810--14544835 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14544800 CGCTCTTTCT
14544810 TTGCC TTGCC TTGCC TTGCC TTGCC T
1 TTGCC TTGCC TTGCC TTGCC TTGCC T
14544836 GATAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.19, T:0.42
Consensus pattern (5 bp):
TTGCC
Found at i:14545714 original size:17 final size:19
Alignment explanation
Indices: 14545675--14545714 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
14545665 TTTAATTTTT
*
14545675 TATTTTTAAAATTCTAAGA
1 TATTTTGAAAATTCTAAGA
14545694 -ATTTTGAAAATTC-AA-A
1 TATTTTGAAAATTCTAAGA
14545710 TATTT
1 TATTT
14545715 ATTTTACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.05
17 6 0.32
18 12 0.63
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
TATTTTGAAAATTCTAAGA
Found at i:14552551 original size:46 final size:50
Alignment explanation
Indices: 14552473--14552584 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
14552463 ACTAATTATA
* *
14552473 TGGTGTAATACTAGTTATGCACATTGAC-A-A-TATTT-TAGTTATAATG
1 TGGTGTACTACTAATTATGCACATTGACAATATTATTTGTAGTTATAATG
* * * *
14552519 TTGTGTACTACTAATTATGTAC-TTGGATAATATTATTTGTAGTTATCATG
1 TGGTGTACTACTAATTATGCACATT-GACAATATTATTTGTAGTTATAATG
*
14552569 TGGTGTACTAGTAATT
1 TGGTGTACTACTAATT
14552585 TATAACATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.04
46 20 0.38
47 1 0.02
48 1 0.02
49 5 0.09
50 24 0.45
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (50 bp):
TGGTGTACTACTAATTATGCACATTGACAATATTATTTGTAGTTATAATG
Found at i:14557181 original size:14 final size:14
Alignment explanation
Indices: 14557162--14557189 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14557152 GTGGCTTATT
14557162 AGAAATCACAATAA
1 AGAAATCACAATAA
14557176 AGAAATCACAATAA
1 AGAAATCACAATAA
14557190 GTAGAGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (14 bp):
AGAAATCACAATAA
Found at i:14568421 original size:30 final size:26
Alignment explanation
Indices: 14568341--14568427 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 26
14568331 ACTTGACACA
*
14568341 TTTTTTTAATTGGGTACTTAAACTTT
1 TTTTTTTAATTTGGTACTTAAACTTT
* * *
14568367 TTTTATTCAATTTGCTACTCAAACTTAACAT
1 TTTT-TTTAATTTGGTACTTAAACTT----T
14568398 TTTTTTTAATTTGGTACTTAAACTTT
1 TTTTTTTAATTTGGTACTTAAACTTT
14568424 TTTT
1 TTTT
14568428 GGACCCAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
26 9 0.18
27 17 0.35
30 18 0.37
31 5 0.10
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.56
Consensus pattern (26 bp):
TTTTTTTAATTTGGTACTTAAACTTT
Found at i:14568461 original size:58 final size:56
Alignment explanation
Indices: 14568318--14568479 Score: 164
Period size: 57 Copynumber: 2.8 Consensus size: 56
14568308 TTAATATAAT
* **
14568318 ATTTGATACCTGAACTTGACACATTTTTTTAATTGGGTACTTAAACTTTTTTTATTCA
1 ATTTGATACCTGAACTTG--ACATTTTTTTAATTTGGTACTTAAACTTTTTTTACCCA
* * *
14568376 ATTTGCTA-CTCAAACTTAACATTTTTTTTAATTTGGTACTTAAACTTTTTTTGGACCCA
1 ATTTGATACCT-GAACTTGACA-TTTTTTTAATTTGGTACTTAAACTTTTTTT--ACCCA
* * *
14568435 ATTTGGTACCTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAA
1 ATTTGATACCTGAACTTGACATTTTTT--TAATTTGGTACTTAAA
14568480 TTTGTTAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
56 3 0.03
57 31 0.36
58 18 0.21
59 17 0.20
60 17 0.20
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (56 bp):
ATTTGATACCTGAACTTGACATTTTTTTAATTTGGTACTTAAACTTTTTTTACCCA
Found at i:14568718 original size:29 final size:29
Alignment explanation
Indices: 14568678--14568754 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
14568668 GAATCCCAAA
*
14568678 AAATTTAAGTACCAATTTAAAAAAATATC
1 AAATTTAAGTACCAAATTAAAAAAATATC
* * *
14568707 AAGTTTACGTACTAAATTAAAAAAATATC
1 AAATTTAAGTACCAAATTAAAAAAATATC
* *
14568736 AAATTTAAATAACAAATTA
1 AAATTTAAGTACCAAATTA
14568755 GACTAAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (29 bp):
AAATTTAAGTACCAAATTAAAAAAATATC
Found at i:14568788 original size:35 final size:34
Alignment explanation
Indices: 14568724--14568789 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
14568714 CGTACTAAAT
* *
14568724 TAAAAAAATATCAAATTTAAATAACAAATTAGAC
1 TAAAAAAATATCAAATTCAAATAAAAAATTAGAC
14568758 TAAAAAAATAT-AAATATCAAATTAAAAAATTA
1 TAAAAAAATATCAAAT-TCAAA-TAAAAAATTA
14568790 AATTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 15 0.54
35 9 0.32
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (34 bp):
TAAAAAAATATCAAATTCAAATAAAAAATTAGAC
Found at i:14568805 original size:13 final size:13
Alignment explanation
Indices: 14568729--14568805 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
14568719 TAAATTAAAA
14568729 AAATATCAAATTT
1 AAATATCAAATTT
*
14568742 AAATAACAAA-TT
1 AAATATCAAATTT
* ** *
14568754 AGACTAAAAAAATAT
1 A-AAT-ATCAAATTT
*
14568769 AAATATCAAATTA
1 AAATATCAAATTT
* *
14568782 AAAAATTAAATTT
1 AAATATCAAATTT
14568795 AAATATCAAAT
1 AAATATCAAAT
14568806 ATTATATTAA
Statistics
Matches: 47, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
12 3 0.06
13 35 0.74
14 7 0.15
15 2 0.04
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (13 bp):
AAATATCAAATTT
Found at i:14572023 original size:3 final size:3
Alignment explanation
Indices: 14572015--14572046 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14572005 AAACCTCCAC
14572015 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14572047 TTACTTAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14583438 original size:15 final size:17
Alignment explanation
Indices: 14583418--14583455 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
14583408 TTACATTTTG
14583418 AATAATTCGATT-AAT-
1 AATAATTCGATTCAATA
*
14583433 AATAATTCGGTTCAATA
1 AATAATTCGATTCAATA
14583450 AATAAT
1 AATAAT
14583456 CGAATCAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 3 0.15
17 6 0.30
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAATTCGATTCAATA
Found at i:14589502 original size:18 final size:18
Alignment explanation
Indices: 14589476--14589517 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
14589466 AGAAATTTTG
*
14589476 ATTTTTAATTTTTTAAA-
1 ATTTTTAATGTTTTAAAC
14589493 ATTTTATAATGTTTTAAAC
1 ATTTT-TAATGTTTTAAAC
14589512 ATTTTT
1 ATTTTT
14589518 TTCAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 12 0.55
19 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTTAATGTTTTAAAC
Found at i:14589595 original size:18 final size:19
Alignment explanation
Indices: 14589559--14589596 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14589549 ATATACTTTG
*
14589559 AATTTTTAAAAGATTTTAT
1 AATTTTTAAAAGATATTAT
*
14589578 AATTTTT-AAGGATATTAT
1 AATTTTTAAAAGATATTAT
14589596 A
1 A
14589597 TAATTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
AATTTTTAAAAGATATTAT
Found at i:14590337 original size:107 final size:107
Alignment explanation
Indices: 14590149--14590358 Score: 323
Period size: 107 Copynumber: 2.0 Consensus size: 107
14590139 TTTTTTGTAT
* * * *
14590149 TATCTATGATATGAACTACCAATATGATCCAATCTAAGACCTTACACTTTCCAATTGATTGTTAT
1 TATCTATAATATGAACTACCAATATGATCCAACCCAAGACCTTACACTCTCCAATTGATTGTTAT
* *
14590214 AATCATTATTAATTATTTCATGAAATATATTTATTACACATG
66 AACCATTATTAATTATTTCATAAAATATATTTATTACACATG
*
14590256 TATCTATAATATGAACTACTAATATTG-TCCAACCCAAGACCTTACACTCTCCAATTGATTGTTA
1 TATCTATAATATGAACTACCAATA-TGATCCAACCCAAGACCTTACACTCTCCAATTGATTGTTA
* *
14590320 TAACCATTATTATTTATTTCGTAAAATATATTTATTACA
65 TAACCATTATTAATTATTTCATAAAATATATTTATTACA
14590359 TATGGATTTG
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 91 0.98
108 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (107 bp):
TATCTATAATATGAACTACCAATATGATCCAACCCAAGACCTTACACTCTCCAATTGATTGTTAT
AACCATTATTAATTATTTCATAAAATATATTTATTACACATG
Found at i:14602061 original size:22 final size:20
Alignment explanation
Indices: 14602009--14602070 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
14601999 AAATAGTAGT
* *
14602009 AACATAATAATGAAATAAC-
1 AACAAAATAATGAAAAAACA
*
14602028 AACAAAACAATGAAAAAACA
1 AACAAAATAATGAAAAAACA
*
14602048 ATAGCAAAATAATGGAAAAACA
1 A-A-CAAAATAATGAAAAAACA
14602070 A
1 A
14602071 CAGTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 16 0.46
20 1 0.03
21 1 0.03
22 17 0.49
ACGTcount: A:0.68, C:0.11, G:0.08, T:0.13
Consensus pattern (20 bp):
AACAAAATAATGAAAAAACA
Found at i:14602458 original size:15 final size:17
Alignment explanation
Indices: 14602438--14602477 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
14602428 ATATAATTGA
14602438 ATAAGTAATTA-AAATT
1 ATAAGTAATTATAAATT
*
14602454 A-AAGT-AGTATAAATT
1 ATAAGTAATTATAAATT
14602469 ATAAGTAAT
1 ATAAGTAAT
14602478 AGTATAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 5
0.73 0.08 0.19
Matches are distributed among these distances:
14 3 0.16
15 10 0.53
16 5 0.26
17 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (17 bp):
ATAAGTAATTATAAATT
Found at i:14603276 original size:18 final size:18
Alignment explanation
Indices: 14603250--14603286 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14603240 TAAGCGTGTT
*
14603250 TATTTTTCTATTTAAGAG
1 TATTCTTCTATTTAAGAG
*
14603268 TATTCTTCTATTTGAGAG
1 TATTCTTCTATTTAAGAG
14603286 T
1 T
14603287 TGAGTAGACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTCTTCTATTTAAGAG
Found at i:14604968 original size:17 final size:19
Alignment explanation
Indices: 14604948--14604986 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
14604938 AAAATAAATT
*
14604948 ATATTTATTT-CTAA-AAA
1 ATATATATTTACTAATAAA
14604965 ATATATATTTACTAATAAA
1 ATATATATTTACTAATAAA
14604984 ATA
1 ATA
14604987 CGAAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATATTTACTAATAAA
Found at i:14608459 original size:34 final size:34
Alignment explanation
Indices: 14608417--14608538 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 34
14608407 TATATTATAT
14608417 ACTA-TATTTTTTATATTAGCAATGTATTTTTTA
1 ACTATTATTTTTTATATTAGCAATGTATTTTTTA
* * *
14608450 ACTATTATTTTTATAATAATT-GAAATAAATAATATATATTA
1 ACTATTATTTTT-T-AT-ATTAGCAAT--GT-AT-T-TTTTA
14608491 TA-TAATATATTTTTTATATTAGCAATGTATTTTTTA
1 -ACT-AT-TATTTTTTATATTAGCAATGTATTTTTTA
14608527 ACTATTATTTTT
1 ACTATTATTTTT
14608539 ATAATAATTG
Statistics
Matches: 69, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
33 4 0.06
34 14 0.20
35 4 0.06
36 11 0.16
37 4 0.06
38 3 0.04
39 3 0.04
40 4 0.06
41 11 0.16
42 4 0.06
43 7 0.10
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (34 bp):
ACTATTATTTTTTATATTAGCAATGTATTTTTTA
Found at i:14608480 original size:77 final size:77
Alignment explanation
Indices: 14608389--14608583 Score: 363
Period size: 77 Copynumber: 2.5 Consensus size: 77
14608379 ATTAGGTAAT
* *
14608389 TAATCGAAATAAATAATATATATTATATACTATATTTTTTATATTAGCAATGTATTTTTTAACTA
1 TAATTGAAATAAATAATATATATTATATAATATATTTTTTATATTAGCAATGTATTTTTTAACTA
14608454 TTATTTTTATAA
66 TTATTTTTATAA
14608466 TAATTGAAATAAATAATATATATTATATAATATATTTTTTATATTAGCAATGTATTTTTTAACTA
1 TAATTGAAATAAATAATATATATTATATAATATATTTTTTATATTAGCAATGTATTTTTTAACTA
14608531 TTATTTTTATAA
66 TTATTTTTATAA
14608543 TAATTGAAATAAATAATATATATTATATAATATATATTTTT
1 TAATTGAAATAAATAATATATATTATATAATATAT-TTTTT
14608584 TGAACTATTA
Statistics
Matches: 115, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
77 110 0.96
78 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (77 bp):
TAATTGAAATAAATAATATATATTATATAATATATTTTTTATATTAGCAATGTATTTTTTAACTA
TTATTTTTATAA
Found at i:14609995 original size:22 final size:22
Alignment explanation
Indices: 14609960--14610004 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14609950 TAACCCAAAA
* *
14609960 GTCAACGGTTAACGGGTTAACG
1 GTCAACGGTCAACGGGTCAACG
*
14609982 GTCAATGGTCAACGGGTCAACG
1 GTCAACGGTCAACGGGTCAACG
14610004 G
1 G
14610005 ATTGGGTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (22 bp):
GTCAACGGTCAACGGGTCAACG
Found at i:14613937 original size:21 final size:21
Alignment explanation
Indices: 14613898--14613938 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14613888 CCCTTACAGG
* *
14613898 TTGTGAATCATCACTCATGAT
1 TTGTAAATCATCACCCATGAT
*
14613919 TTGTAAATCATCCCCCATGA
1 TTGTAAATCATCACCCATGA
14613939 AAAAATTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (21 bp):
TTGTAAATCATCACCCATGAT
Found at i:14627492 original size:15 final size:15
Alignment explanation
Indices: 14627460--14627493 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
14627450 ACATTATATT
14627460 TATTTCTAAAAAATA
1 TATTTCTAAAAAATA
14627475 TATTTACTAATAAAATA
1 TATTT-CTAA-AAAATA
14627492 TA
1 TA
14627494 AAATCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTTCTAAAAAATA
Found at i:14628459 original size:23 final size:18
Alignment explanation
Indices: 14628408--14628450 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
14628398 AAAAAAGCTT
14628408 AAAACAACATAAAATAAA
1 AAAACAACATAAAATAAA
14628426 AAAACAACATAAAATAAA
1 AAAACAACATAAAATAAA
14628444 AAAACAA
1 AAAACAA
14628451 ATGTGCATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (18 bp):
AAAACAACATAAAATAAA
Found at i:14635604 original size:5 final size:5
Alignment explanation
Indices: 14635594--14635624 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
14635584 AAATGAATCG
14635594 AAATA AAATA AAATA AAATA AAAT- AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
14635625 GGTATCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:14638077 original size:29 final size:30
Alignment explanation
Indices: 14638034--14638092 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
14638024 AAATTGAATC
14638034 AAATCAAAATTTCATATATAAAATTACACA
1 AAATCAAAATTTCATATATAAAATTACACA
* * * *
14638064 AAATTAAAA-TTCATCTATAACATTGCACA
1 AAATCAAAATTTCATATATAAAATTACACA
14638093 TTAAACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTACACA
Found at i:14640878 original size:15 final size:15
Alignment explanation
Indices: 14640835--14640871 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14640825 TCTAAATTAC
14640835 ATAATAT-ATA-AAA
1 ATAATATAATATAAA
14640848 ATAATATAATATAAA
1 ATAATATAATATAAA
*
14640863 ATATTATAA
1 ATAATATAA
14640872 ACTAAAAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATATAATATAAA
Found at i:14648997 original size:10 final size:10
Alignment explanation
Indices: 14648982--14649011 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14648972 TACTTGTAAA
14648982 TATAATGTGC
1 TATAATGTGC
14648992 TATAATGTGC
1 TATAATGTGC
*
14649002 TAAAATGTGC
1 TATAATGTGC
14649012 AGTTGGTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (10 bp):
TATAATGTGC
Found at i:14649989 original size:30 final size:31
Alignment explanation
Indices: 14649922--14649996 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
14649912 CTATGATTTC
*
14649922 AGTGACTGTTTTGTCACTTTTCGATAACGTT
1 AGTGACTGTTTTGTCAATTTTCGATAACGTT
14649953 AGTGACTGTTTTGTCATATTTTC-A-AA-GTT
1 AGTGACTGTTTTGTCA-ATTTTCGATAACGTT
14649982 GAGTGACTGTTTTGT
1 -AGTGACTGTTTTGT
14649997 TAAATGTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 3 0.07
30 16 0.39
31 17 0.41
32 5 0.12
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (31 bp):
AGTGACTGTTTTGTCAATTTTCGATAACGTT
Found at i:14650676 original size:17 final size:18
Alignment explanation
Indices: 14650654--14650688 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14650644 AAAAAGAATC
*
14650654 ATTTTT-AAATATTATTT
1 ATTTTTCAAATATAATTT
14650671 ATTTTTCAAATATAATTT
1 ATTTTTCAAATATAATTT
14650689 TTTACATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTCAAATATAATTT
Found at i:14653212 original size:30 final size:30
Alignment explanation
Indices: 14653178--14653261 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 30
14653168 ACATAAATAT
*
14653178 ATTTTTATGATATTAAAATATAATTTCATA
1 ATTTTTAAGATATTAAAATATAATTTCATA
* * * *
14653208 ATTTTTAAAATATTAAATTA-AATTTTATC
1 ATTTTTAAGATATTAAAATATAATTTCATA
* *
14653237 ATTTTTAAGAGA-TAAAATGTAATTT
1 ATTTTTAAGATATTAAAATATAATTT
14653262 TATTTTTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 5 0.11
29 22 0.50
30 17 0.39
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
ATTTTTAAGATATTAAAATATAATTTCATA
Found at i:14653502 original size:15 final size:14
Alignment explanation
Indices: 14653482--14653529 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
14653472 TAAATTTAAA
14653482 AATAATGATAAAAAT
1 AATAAT-ATAAAAAT
14653497 AATAATTTATTAAAAAT
1 AATAA--TA-TAAAAAT
14653514 AAATAATATAAAAAT
1 -AATAATATAAAAAT
14653529 A
1 A
14653530 TTCAATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.03
15 12 0.41
16 3 0.10
17 8 0.28
18 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AATAATATAAAAAT
Found at i:14666448 original size:56 final size:56
Alignment explanation
Indices: 14666362--14666474 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
14666352 ACCAAGAAGA
14666362 ATTAGATGGTATAATGAATTATATACTTTTAATTTTGAAGTTTTATATGTTAAAGG
1 ATTAGATGGTATAATGAATTATATACTTTTAATTTTGAAGTTTTATATGTTAAAGG
14666418 ATTAGATGGTATAATGAATTATATACTTTTAATTTTGAAGTTTTATATGTTAAAGG
1 ATTAGATGGTATAATGAATTATATACTTTTAATTTTGAAGTTTTATATGTTAAAGG
14666474 A
1 A
14666475 ACTGACAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (56 bp):
ATTAGATGGTATAATGAATTATATACTTTTAATTTTGAAGTTTTATATGTTAAAGG
Found at i:14666673 original size:17 final size:17
Alignment explanation
Indices: 14666651--14666724 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
14666641 CAATGAGATA
14666651 TAAATTTAGTTTT-AAGT
1 TAAATTTA-TTTTAAAGT
*
14666668 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAAGT
*** * *
14666685 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAAGT
* *
14666702 TAAATTTATTATAAATT
1 TAAATTTATTTTAAAGT
14666719 TAAATT
1 TAAATT
14666725 AGATAAACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
16 4 0.09
17 42 0.91
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAAGT
Found at i:14667529 original size:16 final size:15
Alignment explanation
Indices: 14667451--14667530 Score: 62
Period size: 16 Copynumber: 5.5 Consensus size: 15
14667441 TAAATGCTAC
* *
14667451 TAATAATATTATTAT
1 TAATAATATTAATAA
14667466 TAAT-A-ATT-ATAA
1 TAATAATATTAATAA
*
14667478 TAATAA-A-TAATAC
1 TAATAATATTAATAA
* *
14667491 CAATAAATATTAATGA
1 TAAT-AATATTAATAA
14667507 TAATAATGATTAATAA
1 TAATAAT-ATTAATAA
14667523 TAATAATA
1 TAATAATA
14667531 ATAGCATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
12 7 0.14
13 11 0.22
14 3 0.06
15 9 0.18
16 21 0.41
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
TAATAATATTAATAA
Found at i:14667531 original size:35 final size:35
Alignment explanation
Indices: 14667463--14667531 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
14667453 ATAATATTAT
* *
14667463 TATTAATAATTATAATAATAAATAATACCAATAAA
1 TATTAATAATAATAATAATAAATAATAACAATAAA
* * * *
14667498 TATTAATGATAATAATGATTAATAATAATAATAA
1 TATTAATAATAATAATAATAAATAATAACAATAA
14667532 TAGCATTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (35 bp):
TATTAATAATAATAATAATAAATAATAACAATAAA
Found at i:14667544 original size:3 final size:3
Alignment explanation
Indices: 14667451--14667533 Score: 58
Period size: 3 Copynumber: 26.7 Consensus size: 3
14667441 TAAATGCTAC
* * * * * *
14667451 TAA TAA TAT TAT TAT TAA TAA TTA TAA TAA TAAA TAA TAC CAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA
* * *
14667498 TAT TAA TGA TAA TAA TGAT TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
14667534 GCATTAATAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
3 55 0.87
4 8 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:14668542 original size:16 final size:17
Alignment explanation
Indices: 14668512--14668548 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
14668502 GTTTAAAATT
14668512 TTTAATTAATTAAATTTA
1 TTTAATTAA-TAAATTTA
14668530 TTTAATTAA-AAATTTA
1 TTTAATTAATAAATTTA
14668546 TTT
1 TTT
14668549 TCATTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTAATAAATTTA
Found at i:14668730 original size:29 final size:29
Alignment explanation
Indices: 14668666--14668721 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
14668656 ACAAAATACT
**
14668666 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGACA
*
14668695 AACATAAGTGACTAAAATGTAACATGA
1 AACATAAGTGACTAAAACGTAACATGA
14668722 GATAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGACA
Found at i:14670618 original size:31 final size:35
Alignment explanation
Indices: 14670583--14670656 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
14670573 GTTTGCACTT
14670583 AAATAT-AGT-TATA-T-ATTTGGAAAAATTAATA
1 AAATATAAGTATATAGTCATTTGGAAAAATTAATA
* *
14670614 AAATATAATTATATAGTCATTTGGAAAATTTAATA
1 AAATATAAGTATATAGTCATTTGGAAAAATTAATA
*
14670649 AAAAATAA
1 AAATATAA
14670657 ACAGTCTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 6 0.17
32 2 0.06
33 4 0.11
34 1 0.03
35 23 0.64
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.36
Consensus pattern (35 bp):
AAATATAAGTATATAGTCATTTGGAAAAATTAATA
Found at i:14675476 original size:2 final size:2
Alignment explanation
Indices: 14675469--14675499 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14675459 TGTACTTAAT
14675469 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
14675500 TAGTGTTTTT
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:14676161 original size:20 final size:20
Alignment explanation
Indices: 14676136--14676215 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 20
14676126 AAAGAAAATC
*
14676136 AAAATAATTTTCAAAAATTT
1 AAAATAATTTTAAAAAATTT
* *
14676156 AAAATATTTTTAAAAAATTC
1 AAAATAATTTTAAAAAATTT
14676176 AAAATTTATATTTTAAAAAATTAT
1 AAAA--TA-ATTTTAAAAAATT-T
*
14676200 AAAA-AA-TCTAAAAAAT
1 AAAATAATTTTAAAAAAT
14676216 ATATAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 9 0.18
20 22 0.44
21 1 0.02
22 2 0.04
23 12 0.24
24 4 0.08
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTAAAAAATTT
Found at i:14684614 original size:11 final size:11
Alignment explanation
Indices: 14684597--14684637 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
14684587 TTGTTTTTTC
14684597 ATTATTTTACT
1 ATTATTTTACT
* *
14684608 ATCATTTTGCT
1 ATTATTTTACT
*
14684619 ATTATATTACT
1 ATTATTTTACT
14684630 ATTATTTT
1 ATTATTTT
14684638 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (11 bp):
ATTATTTTACT
Found at i:14684645 original size:22 final size:22
Alignment explanation
Indices: 14684597--14684638 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14684587 TTGTTTTTTC
*
14684597 ATTATTTTACTATCATTTTGCT
1 ATTATATTACTATCATTTTGCT
*
14684619 ATTATATTACTATTATTTTG
1 ATTATATTACTATCATTTTG
14684639 TTGTTATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (22 bp):
ATTATATTACTATCATTTTGCT
Found at i:14687981 original size:21 final size:20
Alignment explanation
Indices: 14687955--14687995 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14687945 TATAATTTTA
14687955 TAATTATATT-AAATTATATTT
1 TAATTAT-TTCAAA-TATATTT
14687976 TAATTATTTCAAATATATTT
1 TAATTATTTCAAATATATTT
14687996 ATTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTATTTCAAATATATTT
Found at i:14697589 original size:30 final size:31
Alignment explanation
Indices: 14697550--14697607 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
14697540 ATGAAATGAT
*
14697550 AGAAAAAATAAATAAAA-ATCATAATTTTAA
1 AGAAAAAATAAATAAAATATCAAAATTTTAA
* *
14697580 AGAAGAAATATATAAAATATCAAAATTT
1 AGAAAAAATAAATAAAATATCAAAATTT
14697608 AAAATTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (31 bp):
AGAAAAAATAAATAAAATATCAAAATTTTAA
Found at i:14714198 original size:25 final size:24
Alignment explanation
Indices: 14714170--14714225 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
14714160 ATTCTACTAT
14714170 TTTCTA-TAGAAAGAAAAAAAATTA
1 TTTCTACTA-AAAGAAAAAAAATTA
* *
14714194 CTTTCCTACTAAAAGTAAGAAAATTA
1 -TTT-CTACTAAAAGAAAAAAAATTA
14714220 TTTCTA
1 TTTCTA
14714226 ATTTTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.11
25 6 0.22
26 16 0.59
27 2 0.07
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (24 bp):
TTTCTACTAAAAGAAAAAAAATTA
Found at i:14718536 original size:41 final size:38
Alignment explanation
Indices: 14718436--14718539 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
14718426 TTCGAAGCAA
* *
14718436 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
14718473 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
14718511 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
14718540 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:14718660 original size:13 final size:13
Alignment explanation
Indices: 14718642--14718680 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
14718632 ACAATTCATA
14718642 TCACTTTCAATTT
1 TCACTTTCAATTT
*
14718655 TCACTTTC-ACTT
1 TCACTTTCAATTT
14718667 TCACTTTCAATTT
1 TCACTTTCAATTT
14718680 T
1 T
14718681 GATCACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.54
Consensus pattern (13 bp):
TCACTTTCAATTT
Found at i:14718664 original size:6 final size:6
Alignment explanation
Indices: 14718642--14718675 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
14718632 ACAATTCATA
*
14718642 TCACTT TCAATTT TCACTT TCACTT TCACTT TCA
1 TCACTT TC-ACTT TCACTT TCACTT TCACTT TCA
14718676 ATTTTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (6 bp):
TCACTT
Found at i:14724763 original size:3 final size:3
Alignment explanation
Indices: 14724742--14724795 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
14724732 CTTTAAAGAG
* * *
14724742 ATT ATT GTT ATT GTT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14724790 ATT ATT
1 ATT ATT
14724796 TGTTGAAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14727307 original size:29 final size:29
Alignment explanation
Indices: 14727261--14727322 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
14727251 TTATAGATAT
14727261 AGATACAGTCATGCCACAAATACAGTAAC
1 AGATACAGTCATGCCACAAATACAGTAAC
* * * *
14727290 AGATATAGTCATGTCACAGATACAGTTAC
1 AGATACAGTCATGCCACAAATACAGTAAC
14727319 AGAT
1 AGAT
14727323 GCAAACATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (29 bp):
AGATACAGTCATGCCACAAATACAGTAAC
Found at i:14727833 original size:41 final size:43
Alignment explanation
Indices: 14727788--14727934 Score: 111
Period size: 55 Copynumber: 3.2 Consensus size: 43
14727778 TGTATCAGCT
*
14727788 CGTGTGCC-CTAAAACAATAT-G-CACAGACCCTAACACACGCC
1 CGTGTGCCTCT-AAACAATATAGACACACACCCTAACACACGCC
* * *
14727829 CGTGTGCCTCTAAATAGTATAGACACACACCCTAACACATGCC
1 CGTGTGCCTCTAAACAATATAGACACACACCCTAACACACGCC
*
14727872 CATGTGCTAGCCCGTATGCCTCCAAACAGTATAGACACACACCCTAACACACGCC
1 C--GTG-T-G-CC---T--CT--AAACAATATAGACACACACCCTAACACACGCC
14727927 CGTGTGCC
1 CGTGTGCC
14727935 AACTTGTGTG
Statistics
Matches: 85, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
41 15 0.18
42 3 0.04
43 19 0.22
45 3 0.04
46 1 0.01
47 1 0.01
48 2 0.02
50 2 0.02
51 2 0.02
52 1 0.01
53 5 0.06
55 31 0.36
ACGTcount: A:0.31, C:0.36, G:0.16, T:0.18
Consensus pattern (43 bp):
CGTGTGCCTCTAAACAATATAGACACACACCCTAACACACGCC
Found at i:14727864 original size:43 final size:46
Alignment explanation
Indices: 14727809--14727935 Score: 125
Period size: 55 Copynumber: 2.6 Consensus size: 46
14727799 AAACAATATG
* *
14727809 CACAGACCCTAACACACGCCCGTGTGCC-T-CT-AAATAGTATAGA
1 CACACACCCTAACACACGCCCGTGTGCCATCCTCAAACAGTATAGA
*
14727852 CACACACCCTAACACATGCCCATGTGCTAGCCCGTATGCCTCCAAACAGTATAGA
1 CACACACCCTAACACACGCCC--GTG-T-G-CC--AT-CCT-CAAACAGTATAGA
14727907 CACACACCCTAACACACGCCCGTGTGCCA
1 CACACACCCTAACACACGCCCGTGTGCCA
14727936 ACTTGTGTGC
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
43 19 0.28
45 3 0.04
46 1 0.01
47 1 0.01
48 3 0.04
50 2 0.03
51 2 0.03
52 1 0.01
53 5 0.07
55 31 0.46
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.17
Consensus pattern (46 bp):
CACACACCCTAACACACGCCCGTGTGCCATCCTCAAACAGTATAGA
Found at i:14727910 original size:55 final size:55
Alignment explanation
Indices: 14727826--14727972 Score: 204
Period size: 55 Copynumber: 2.7 Consensus size: 55
14727816 CCTAACACAC
* * * *
14727826 GCCCGTGTGCCTCTAAATAGTATAGACACACACCCTAACACATGCCCATGTGCTA
1 GCCCGTGTGCCTCCAAACAGTATAGACACACACCCTAACACACGCCCATGTGCCA
* *
14727881 GCCCGTATGCCTCCAAACAGTATAGACACACACCCTAACACACGCCCGTGTGCCA
1 GCCCGTGTGCCTCCAAACAGTATAGACACACACCCTAACACACGCCCATGTGCCA
* ** *
14727936 ACTTGTGTGCCTTCAAACAGTATAGACACACACCCTA
1 GCCCGTGTGCCTCCAAACAGTATAGACACACACCCTA
14727973 GACATACCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 81 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.20
Consensus pattern (55 bp):
GCCCGTGTGCCTCCAAACAGTATAGACACACACCCTAACACACGCCCATGTGCCA
Found at i:14732021 original size:24 final size:24
Alignment explanation
Indices: 14731992--14732037 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
14731982 ATCTAATAAA
*
14731992 ATAAAAGTTAATTAATTAAAAAAT
1 ATAAAAGTTAATTAAATAAAAAAT
*
14732016 ATAAAATTTAATTAAATAAAAA
1 ATAAAAGTTAATTAAATAAAAA
14732038 TACATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAAAAGTTAATTAAATAAAAAAT
Found at i:14733879 original size:18 final size:18
Alignment explanation
Indices: 14733853--14733887 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14733843 CATTATATAA
*
14733853 TTTGATTTTTTTTGTAAT
1 TTTGATTTTCTTTGTAAT
*
14733871 TTTGCTTTTCTTTGTAA
1 TTTGATTTTCTTTGTAA
14733888 CGCTGTTACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTGATTTTCTTTGTAAT
Found at i:14734586 original size:22 final size:22
Alignment explanation
Indices: 14734560--14734615 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
14734550 ATATTCAAAC
* *
14734560 AATAACAACAAAATGGTAGTAA
1 AATAATAACAAAATGGTAATAA
* **
14734582 TATAATAGTAAAATGGTAATAA
1 AATAATAACAAAATGGTAATAA
14734604 AATAATAACAAA
1 AATAATAACAAA
14734616 CAATAGTGAG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (22 bp):
AATAATAACAAAATGGTAATAA
Found at i:14734874 original size:22 final size:21
Alignment explanation
Indices: 14734849--14734891 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
14734839 TGGTAGTAAT
* *
14734849 ATAATAGTAAAATGATAACAAA
1 ATAACAGTAAAAT-ACAACAAA
*
14734871 ATAACATTAAAATACAACAAA
1 ATAACAGTAAAATACAACAAA
14734892 CAATAGTGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (21 bp):
ATAACAGTAAAATACAACAAA
Found at i:14747986 original size:28 final size:28
Alignment explanation
Indices: 14747953--14748009 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
14747943 CCAAGTTATC
*
14747953 GATATGTGGAAGTCTTTGTGATTATTCT
1 GATATGTGGAAGCCTTTGTGATTATTCT
* *
14747981 GATATGTGGAAGCCTTTGTGGTTGTTCT
1 GATATGTGGAAGCCTTTGTGATTATTCT
14748009 G
1 G
14748010 TTACGTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.09, G:0.30, T:0.44
Consensus pattern (28 bp):
GATATGTGGAAGCCTTTGTGATTATTCT
Found at i:14748087 original size:30 final size:30
Alignment explanation
Indices: 14748053--14748126 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
14748043 TACATGTGCA
** * *
14748053 CCTTAGTGGCGGGAATCTATTATATGAGAG
1 CCTTAGTGGCGAAAATCTAGTACATGAGAG
*
14748083 CCTTAGTGGCGAAAATCTAGTACATGTGAG
1 CCTTAGTGGCGAAAATCTAGTACATGAGAG
* *
14748113 CCTTTGTGGTGAAA
1 CCTTAGTGGCGAAA
14748127 CCTGTTATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (30 bp):
CCTTAGTGGCGAAAATCTAGTACATGAGAG
Found at i:14749857 original size:5 final size:5
Alignment explanation
Indices: 14749847--14749894 Score: 69
Period size: 5 Copynumber: 9.4 Consensus size: 5
14749837 AGATCACTGT
* *
14749847 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTGC TTTGC TTTGCC TT
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTT-CC TT
14749895 GTTTTGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 37 0.93
6 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.06, T:0.60
Consensus pattern (5 bp):
TTTCC
Found at i:14759651 original size:4 final size:4
Alignment explanation
Indices: 14759642--14759723 Score: 103
Period size: 4 Copynumber: 20.5 Consensus size: 4
14759632 ATAACTGCGA
* * *
14759642 TATT TATT TATA TATT TATT TAGT TATT TATT TATT CT-CT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT -TATT TATT TATT
* *
14759690 TATG TATT TATT TATT TATT TATT TATT TTTT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TA
14759724 CATCACAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
3 1 0.02
4 64 0.97
5 1 0.02
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:14762904 original size:24 final size:25
Alignment explanation
Indices: 14762850--14762904 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
14762840 GTAAAAATGC
14762850 ATAAAAATTAACAACAAAAATATCA
1 ATAAAAATTAACAACAAAAATATCA
** *
14762875 GCAAAAA-TAATAACAAAAATAGT-A
1 ATAAAAATTAACAACAAAAATA-TCA
14762899 ATAAAA
1 ATAAAA
14762905 CACTAAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (25 bp):
ATAAAAATTAACAACAAAAATATCA
Found at i:14765750 original size:24 final size:25
Alignment explanation
Indices: 14765723--14765776 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
14765713 ACTTGACATC
14765723 ATCTTCCTCCTCCT-CATCATC-CTT
1 ATCTTCC-CCTCCTGCATCATCACTT
*
14765747 ATCTTCCCCTGCTGCATCATCACTT
1 ATCTTCCCCTCCTGCATCATCACTT
*
14765772 CTCTT
1 ATCTT
14765777 TCTCTTAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 14 0.54
25 7 0.27
ACGTcount: A:0.13, C:0.43, G:0.04, T:0.41
Consensus pattern (25 bp):
ATCTTCCCCTCCTGCATCATCACTT
Found at i:14765845 original size:3 final size:3
Alignment explanation
Indices: 14765839--14765872 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
14765829 TCCTCTTCTA
*
14765839 CAT CAT CAT CAT CAT CAT CAT CAT CGT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
14765873 TTCTTCTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.03, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:14767580 original size:6 final size:6
Alignment explanation
Indices: 14767557--14767605 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
14767547 TCATTATCTA
* * * * *
14767557 CCTCTT CCTCCT CTTCAT CCTCAT CCTCAT CCTCAT CATCAT CATCAT
1 CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT CCTCAT
14767605 C
1 C
14767606 TACGCCATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
CCTCAT
Found at i:14767982 original size:18 final size:18
Alignment explanation
Indices: 14767955--14767989 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14767945 ATCATCCTCA
*
14767955 TCCTCATCCTCTTCATCT
1 TCCTCATCCTCCTCATCT
*
14767973 TCCTCTTCCTCCTCATC
1 TCCTCATCCTCCTCATC
14767990 ATCCGACTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.49, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCTCATCCTCCTCATCT
Found at i:14772923 original size:18 final size:18
Alignment explanation
Indices: 14772887--14772921 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14772877 TTTACATATA
14772887 AAAATAATAATTATATTT
1 AAAATAATAATTATATTT
*
14772905 AAAATAATTATT-TATTT
1 AAAATAATAATTATATTT
14772922 TATAATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAATAATAATTATATTT
Found at i:14773444 original size:26 final size:26
Alignment explanation
Indices: 14773392--14773444 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14773382 TACTCTTTTT
* *
14773392 AAAAAAAAACTATTTTTCTAAATTAA
1 AAAAAAAAACTATTTTACTAAACTAA
*
14773418 AAAAAAAAACCTATTTTAC-CAACTAA
1 AAAAAAAAA-CTATTTTACTAAACTAA
14773444 A
1 A
14773445 TTTTTTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAAAAAAACTATTTTACTAAACTAA
Found at i:14779696 original size:21 final size:21
Alignment explanation
Indices: 14779672--14779724 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
14779662 GAAATTTAAA
14779672 ACAAACATAATGATG-AGAGTT
1 ACAAACATAATGA-GAAGAGTT
*
14779693 ACAAA-ACTTATGAGAAGAGTT
1 ACAAACA-TAATGAGAAGAGTT
14779714 ACAAACATAAT
1 ACAAACATAAT
14779725 ATTTTGTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (21 bp):
ACAAACATAATGAGAAGAGTT
Found at i:14781100 original size:59 final size:59
Alignment explanation
Indices: 14780915--14781110 Score: 193
Period size: 59 Copynumber: 3.3 Consensus size: 59
14780905 GGGTTTTTAG
* * *
14780915 GGGTAAAATGGTAATTTTTTGTGAAATCGAGGCTAAAAATGGAATTTA-GAAAGTTT-A
1 GGGTAAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTAGGAAAGTTTGA
* ** * * * * *
14780972 GGGAATAAAACGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTTG-
1 GGG--TAAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTAGGAAAGTTTGA
* * * *
14781032 GAGGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGGAAA-TTTGA
1 G-GGTAAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTA-GGAAAGTTTGA
14781092 GGGTAAAACGGTAATTTTT
1 GGGTAAAACGGTAATTTTT
14781111 TAAAGTTTTG
Statistics
Matches: 108, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
57 3 0.03
59 88 0.81
60 15 0.14
61 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (59 bp):
GGGTAAAACGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTAGGAAAGTTTGA
Found at i:14781123 original size:30 final size:30
Alignment explanation
Indices: 14781087--14781467 Score: 365
Period size: 30 Copynumber: 12.7 Consensus size: 30
14781077 TTTAGGGAAA
* *
14781087 TTTGAGGGT-AAAACGGTAATTTTTTAAAGT
1 TTTGAGGGTCAAAA-TGTAATTTTTAAAAGT
*
14781117 TTTGA-GGTCAAAATGTAATTTTGAAAAAGT
1 TTTGAGGGTCAAAATGTAATTTT-TAAAAGT
*
14781147 TTAG-GGGTCAAAATGTAATTTTTAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
* *
14781177 TTT-AGGGTCAAAGTGTAATTTTGGAAAAGT
1 TTTGAGGGTCAAAATGTAATTTT-TAAAAGT
14781207 TTT-AGGGTCAAAATGTAATTTTTAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
* * *
14781237 TTTG-GGGTTAAAATATAATTTTCAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
* *
14781267 TTTG-GGGTCAAAATATAGTTTTTAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
* * *
14781297 TTT-AAGGTCAAAATATAATTTTGGAAAAGT
1 TTTGAGGGTCAAAATGTAATTTT-TAAAAGT
* * *
14781327 TTAG-GGGTTAAAATGTAATTTTCAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
*
14781357 TTT-AGGGTCAAAATATAATTTTTGAAAAGT
1 TTTGAGGGTCAAAATGTAATTTTT-AAAAGT
*
14781387 TTAG-GGGTCAAAATGTAATTTTTAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
* *
14781417 TTTG-GGGTCAAAATATAATTTTCAGAAAGT
1 TTTGAGGGTCAAAATGTAATTTTTA-AAAGT
*
14781447 TTTG-GGGTCGAAATGTAATTT
1 TTTGAGGGTCAAAATGTAATTT
14781468 CTGGACAATT
Statistics
Matches: 300, Mismatches: 35, Indels: 32
0.82 0.10 0.09
Matches are distributed among these distances:
29 15 0.05
30 282 0.94
31 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
TTTGAGGGTCAAAATGTAATTTTTAAAAGT
Found at i:14781186 original size:60 final size:60
Alignment explanation
Indices: 14781102--14781467 Score: 488
Period size: 60 Copynumber: 6.1 Consensus size: 60
14781092 GGGTAAAACG
* *
14781102 GTAATTTTT-TAAAGTTTT-GAGGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAAT
1 GTAATTTTTAGAAAGTTTTAG-GGTCAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAAT
* * *
14781161 GTAATTTTTAGAAAGTTTTAGGGTCAAAGTGTAATTTTGGAAAAGTTTTA-GGGTCAAAAT
1 GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAAAAG-TTTAGGGGTCAAAAT
* * * * *
14781221 GTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTCAGAAAGTTTTGGGGTCAAAAT
1 GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAAT
* * * * *
14781281 ATAGTTTTTAGAAAGTTTTAAGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAAT
1 GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAAT
*
14781341 GTAATTTTCAGAAAGTTTTAGGGTCAAAATATAATTTTTG-AAAAGTTTAGGGGTCAAAAT
1 GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAA-TTTTGAAAAAGTTTAGGGGTCAAAAT
* * * * *
14781401 GTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTTTCAGAAAGTTTTGGGGTCGAAAT
1 GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAAT
14781461 GTAATTT
1 GTAATTT
14781468 CTGGACAATT
Statistics
Matches: 269, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
59 16 0.06
60 243 0.90
61 10 0.04
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (60 bp):
GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAAAAGTTTAGGGGTCAAAAT
Found at i:14781218 original size:90 final size:90
Alignment explanation
Indices: 14781112--14781472 Score: 458
Period size: 90 Copynumber: 4.0 Consensus size: 90
14781102 GTAATTTTTT
* *
14781112 AAAGTTTT-GAGGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTTTTAGAAAG
1 AAAGTTTTAG-GGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAATTTTCAGAAAG
* *
14781176 TTTTAGGGTCAAAGTGTAATTTTGGA
65 TTTTAGGGTCAAAATATAATTTTGGA
* * * *
14781202 AAAGTTTTAGGGTCAAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTCAGAAAGT
1 AAAGTTTTAGGGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAATTTTCAGAAAGT
* * *
14781267 TTTGGGGTCAAAATATAGTTTT-TA
66 TTTAGGGTCAAAATATAATTTTGGA
* * * * *
14781291 GAAAGTTTTAAGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTCAGAAAG
1 -AAAGTTTTAGGGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAATTTTCAGAAAG
*
14781356 TTTTAGGGTCAAAATATAATTTTTGA
65 TTTTAGGGTCAAAATATAATTTTGGA
* * *
14781382 AAAG-TTTAGGGGTCAAAATGTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTTTCAGAAAG
1 AAAGTTTTA-GGGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAATTTTCAGAAAG
* * *
14781446 TTTTGGGGTCGAAATGTAATTTCTGGA
65 TTTTAGGGTCAAAATATAATTT-TGGA
14781473 CAATTTAGAG
Statistics
Matches: 233, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
89 5 0.02
90 223 0.96
91 5 0.02
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (90 bp):
AAAGTTTTAGGGTCAAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAATTTTCAGAAAGT
TTTAGGGTCAAAATATAATTTTGGA
Found at i:14783277 original size:20 final size:20
Alignment explanation
Indices: 14783239--14783277 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14783229 CAGGGCATGG
*
14783239 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
14783259 TGGAGC-TGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
14783278 CAGCATAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:14783441 original size:11 final size:11
Alignment explanation
Indices: 14783427--14783511 Score: 73
Period size: 11 Copynumber: 7.5 Consensus size: 11
14783417 TTAATTTTAT
14783427 TTTAAATTAAA
1 TTTAAATTAAA
*
14783438 TTTAAAGTAAA
1 TTTAAATTAAA
14783449 TTTAAATTATTAAA
1 TTT-AA--ATTAAA
*
14783463 TTTAAATTTAA
1 TTTAAATTAAA
**
14783474 GATAAATTAAAA
1 TTTAAATT-AAA
14783486 TTTAAA-TAAA
1 TTTAAATTAAA
* *
14783496 TTTAAAATCAA
1 TTTAAATTAAA
14783507 TTTAA
1 TTTAA
14783512 CTCCAAATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
10 9 0.15
11 33 0.55
12 8 0.13
13 2 0.03
14 8 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:14783442 original size:6 final size:6
Alignment explanation
Indices: 14783427--14783501 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
14783417 TTAATTTTAT
*
14783427 TTTAAA -TTAAA TTTAAA -GTAAA TTTAAA TTATTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -T-TTAAA TTTAAA TTTAA-A
*
14783476 --TAAA TTAAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14783502 ATCAATTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
4 5 0.09
5 12 0.21
6 31 0.55
7 3 0.05
8 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:14783503 original size:17 final size:16
Alignment explanation
Indices: 14783429--14783501 Score: 89
Period size: 17 Copynumber: 4.6 Consensus size: 16
14783419 AATTTTATTT
14783429 TAAA-TTAAATTTAAA
1 TAAATTTAAATTTAAA
*
14783444 GTAAATTTAAA-TT-AT
1 -TAAATTTAAATTTAAA
14783459 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
*
14783476 TAAATTAAAATTTAAA
1 TAAATTTAAATTTAAA
14783492 TAAATTTAAA
1 TAAATTTAAA
14783502 ATCAATTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 17 0.35
17 19 0.39
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:14784008 original size:68 final size:68
Alignment explanation
Indices: 14783899--14784791 Score: 1372
Period size: 68 Copynumber: 13.1 Consensus size: 68
14783889 ACTCGTTATC
** *
14783899 CAATTTCAAGAGGG-TGATATTGCTCTTACTTCATTTTCAGAGAAGAAGACGTGTTATCCACTCT
1 CAATTTCAAG-GGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCT
14783963 ACTT
65 ACTT
*
14783967 CAATTTCAAGGGGATGACGCTGCTCTTACTTCAATTTCAGAGATA-AAGAC-TCGTTATCCACTC
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-AGAAGACGT-GTTATCCACTC
14784030 TACTT
64 TACTT
*
14784035 CAATTTCAAGGGGATGACGTTGCTCTTGCTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
14784100 CTT
66 CTT
* *
14784103 CAATTTCAAGGGGATGACGTTGCTCTTATTTCAATTTCAGAGATA-AAGACATGTTATCCACTCT
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-AGAAGACGTGTTATCCACTCT
14784167 ACTT
65 ACTT
* *
14784171 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
14784236 CTT
66 CTT
* * *
14784239 CAATTTCAAGGGGATGACGTTGCTTTTACTTTAATTTCGGAGATA-AAGAC-TCGTTATCCACTC
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-AGAAGACGT-GTTATCCACTC
14784302 TACTT
64 TACTT
* * * *
14784307 TAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTTTCCACTCTA
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
14784372 CTT
66 CTT
* * * *
14784375 CAATTTCAAGGGGATGACGTTGCTCTTATTTCAATTTCAGAGATA-AAGACATGTTATGCATTCT
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-AGAAGACGTGTTATCCACTCT
14784439 ACTT
65 ACTT
* *
14784443 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
14784508 CTT
66 CTT
* *
14784511 CAATTTCAAGGGGATGACGTTGCTCTTATTTCAATTTCAGAGATA-AAGACATGTTATCCACTCT
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-AGAAGACGTGTTATCCACTCT
14784575 ACTT
65 ACTT
* *
14784579 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
14784644 CTT
66 CTT
* *
14784647 CAATTTCAAGGGGATGACGTTTCTCTTACTTCAATTTCAGAGATA-AAGACATGTTATCCACTCT
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-AGAAGACGTGTTATCCACTCT
14784711 ACTT
65 ACTT
* *
14784715 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
14784780 CTT
66 CTT
14784783 CAATTTCAA
1 CAATTTCAA
14784792 ACGGATTGGA
Statistics
Matches: 753, Mismatches: 55, Indels: 34
0.89 0.07 0.04
Matches are distributed among these distances:
67 6 0.01
68 743 0.99
69 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (68 bp):
CAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
CTT
Found at i:14784044 original size:136 final size:136
Alignment explanation
Indices: 14783899--14784791 Score: 1567
Period size: 136 Copynumber: 6.6 Consensus size: 136
14783889 ACTCGTTATC
* * *
14783899 CAATTTCAAGAGGG-TGATATTGCTCTTACTTCATTTTCAGAGAAGAAGACGTGTTATCCACTCT
1 CAATTTCAAG-GGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCT
*
14783963 ACTTCAATTTCAAGGGGATGACGCTGCTCTTACTTCAATTTCAGAGATAAAGAC-TCGTTATCCA
65 ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACAT-GTTATCCA
14784027 CTCTACTT
129 CTCTACTT
* * *
14784035 CAATTTCAAGGGGATGACGTTGCTCTTGCTTCAATTTCAGAGAAGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
*
14784100 CTTCAATTTCAAGGGGATGACGTTGCTCTTATTTCAATTTCAGAGATAAAGACATGTTATCCACT
66 CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACT
14784165 CTACTT
131 CTACTT
14784171 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
* * *
14784236 CTTCAATTTCAAGGGGATGACGTTGCTTTTACTTTAATTTCGGAGATAAAGAC-TCGTTATCCAC
66 CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACAT-GTTATCCAC
14784300 TCTACTT
130 TCTACTT
* *
14784307 TAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTTTCCACTCTA
1 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
* * *
14784372 CTTCAATTTCAAGGGGATGACGTTGCTCTTATTTCAATTTCAGAGATAAAGACATGTTATGCATT
66 CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACT
14784437 CTACTT
131 CTACTT
14784443 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
*
14784508 CTTCAATTTCAAGGGGATGACGTTGCTCTTATTTCAATTTCAGAGATAAAGACATGTTATCCACT
66 CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACT
14784573 CTACTT
131 CTACTT
14784579 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
*
14784644 CTTCAATTTCAAGGGGATGACGTTTCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACT
66 CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACT
14784709 CTACTT
131 CTACTT
*
14784715 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTA
1 CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
14784780 CTTCAATTTCAA
66 CTTCAATTTCAA
14784792 ACGGATTGGA
Statistics
Matches: 725, Mismatches: 28, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
135 4 0.01
136 719 0.99
137 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (136 bp):
CAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAGGAAGACGTGTTATCCACTCTA
CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACT
CTACTT
Found at i:14792869 original size:4 final size:4
Alignment explanation
Indices: 14792860--14792888 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
14792850 CATGTGATGC
14792860 GAAT GAAT GAAT GAAT GAAT GAAT GAAT G
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT G
14792889 CAAAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:14796597 original size:59 final size:58
Alignment explanation
Indices: 14796514--14796715 Score: 183
Period size: 59 Copynumber: 3.4 Consensus size: 58
14796504 AATTTGGGTT
* * *
14796514 TTTAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTGGAAAG
1 TTTAGGAGTAAAACGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTGGAAAG
* * * * ** * *
14796572 TTTAAGGAATAAAACGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAG
1 TTT-AGGAGTAAAACGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAA-TTTGGAAAG
* * * * * *
14796632 -TTCGGAGGCAAAACGGTGAGTTTTGGTAAAATCGGGGTTAAAAATGGGATTTAGGGAAG
1 TTTAGGA-GTAAAACGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTT-GGAAAG
*
14796691 TTTGAGG-GTAAAATGGTAATTTTTG
1 TTT-AGGAGTAAAACGGTAATTTTTG
14796716 AAAGTTTTGG
Statistics
Matches: 109, Mismatches: 29, Indels: 11
0.73 0.19 0.07
Matches are distributed among these distances:
58 9 0.08
59 87 0.80
60 11 0.10
61 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (58 bp):
TTTAGGAGTAAAACGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTGGAAAG
Found at i:14796735 original size:30 final size:30
Alignment explanation
Indices: 14796688--14797027 Score: 388
Period size: 30 Copynumber: 11.4 Consensus size: 30
14796678 GGATTTAGGG
*
14796688 AAGTTTGAGGGT-AAAATGGTAATTTTT-GA
1 AAGTTTTAGGGTCAAAAT-GTAATTTTTAGA
* * * *
14796717 AAGTTTTGGGGTTAAAATGTAATTTTGAAA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
*
14796747 AAGTTTAAGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
* * *
14796777 AAGTTTTGGGGTCAAAGTGTAA-TTTTGGAA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAG-A
*
14796807 AAGTTTTAGGGTTAAAATGTAATTTTTAGA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
* *
14796837 AAGTTTT-GGGTCAAAATATAA-TTTTGGAA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAG-A
14796866 AAG-TTTAGGGGTCAAAATGTAATTTTTAGA
1 AAGTTTTA-GGGTCAAAATGTAATTTTTAGA
*
14796896 AAGTTTTAGGGTCAAAATATAATTTTTAGA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
* * *
14796926 AAGTTTTAGGGTCAAAATATAATTTTGAAA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
* * *
14796956 AAGTTTAAGGGTTAAAATGTCATTTTTAGA
1 AAGTTTTAGGGTCAAAATGTAATTTTTAGA
* * *
14796986 AAGTTTT-GAGGTCAAAATATAATTTTCAGC
1 AAGTTTTAG-GGTCAAAATGTAATTTTTAGA
14797016 AAGTTTTAGGGT
1 AAGTTTTAGGGT
14797028 TGAAATATAA
Statistics
Matches: 263, Mismatches: 37, Indels: 21
0.82 0.12 0.07
Matches are distributed among these distances:
28 8 0.03
29 40 0.15
30 200 0.76
31 15 0.06
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
AAGTTTTAGGGTCAAAATGTAATTTTTAGA
Found at i:14796982 original size:90 final size:90
Alignment explanation
Indices: 14796688--14797040 Score: 428
Period size: 90 Copynumber: 3.9 Consensus size: 90
14796678 GGATTTAGGG
* * * * * *
14796688 AAGTTTGAGGGT-AAAATGGTAATTTTT-GAAAGTTTTGGGGTTAAAATGTAATTTTGAAAAAGT
1 AAGTTTAAGGGTCAAAAT-GTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGT
* * * *
14796751 TTAAGGGTCAAAATGTAATTTTTAGA
65 TTTAGGGTCAAAATATAATTTTGAAA
** * * * *
14796777 AAGTTTTGGGGTCAAAGTGTAA-TTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTTAGAAAGT
1 AAGTTTAAGGGTCAAAATGTAATTTTTAG-AAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGT
*
14796841 TTT-GGGTCAAAATATAATTTTGGAA
65 TTTAGGGTCAAAATATAATTTTGAAA
*
14796866 AAGTTTAGGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGTT
1 AAGTTTAAGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGTT
14796931 TTAGGGTCAAAATATAATTTTGAAA
66 TTAGGGTCAAAATATAATTTTGAAA
* * * *
14796956 AAGTTTAAGGGTTAAAATGTCATTTTTAGAAAGTTTT-GAGGTCAAAATATAATTTTCAGCAAGT
1 AAGTTTAAGGGTCAAAATGTAATTTTTAGAAAGTTTTAG-GGTCAAAATATAATTTTTAGAAAGT
**
14797020 TTTAGGGTTGAAATATAATTT
65 TTTAGGGTCAAAATATAATTT
14797041 CTGGACAATT
Statistics
Matches: 234, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
88 4 0.02
89 90 0.38
90 140 0.60
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (90 bp):
AAGTTTAAGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGTT
TTAGGGTCAAAATATAATTTTGAAA
Found at i:14798843 original size:20 final size:20
Alignment explanation
Indices: 14798805--14798843 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14798795 CAGGGCATGG
*
14798805 TGGAGCTTGGTGGTGGCAGA
1 TGGAGCTTGGTGGTAGCAGA
14798825 TGGAGC-TGGTGGTCAGCAG
1 TGGAGCTTGGTGGT-AGCAG
14798844 CAGCATAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.13, G:0.49, T:0.23
Consensus pattern (20 bp):
TGGAGCTTGGTGGTAGCAGA
Found at i:14799010 original size:6 final size:6
Alignment explanation
Indices: 14798993--14799068 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
14798983 TTAATTTTAT
*
14798993 TTTAAA TTTAAA TTTAAA -GTAAA TTTAAA TTATTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -T-TTAAA TTTAAA TTTAA-A
*
14799043 --TAAA TTAAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14799069 ATCAATTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 5 0.09
5 7 0.12
6 38 0.66
7 3 0.05
8 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (6 bp):
TTTAAA
Done.