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 26 of 182
Found at i:10629594 original size:29 final size:29
Alignment explanation
Indices: 10629421--10629620 Score: 97
Period size: 29 Copynumber: 6.8 Consensus size: 29
10629411 ACATCTGGGA
* ** *
10629421 GTAAAAAGGTAATTTTGGAAGTGTCG-GG
1 GTAAAAATGTAATTTTAAAAGTTTCGAGG
* **
10629449 GTCAAAAATGGAATTTTTGGAAG-TTC-AGG
1 GT-AAAAATGTAA-TTTTAAAAGTTTCGAGG
* *** *
10629478 GTTAAAATGTAATTTTTGGTAGTTTAG-GG
1 GTAAAAATGTAA-TTTTAAAAGTTTCGAGG
* * **
10629507 GCAAAATTGTAATTTCTGGAAG-TTCGAGG
1 GTAAAAATGTAATTT-TAAAAGTTTCGAGG
**
10629536 GTAAAAATGTAATTTTTGTAAG-TTCGAGG
1 GTAAAAATGTAA-TTTTAAAAGTTTCGAGG
**
10629565 GTAAAAATGTAATTTTAAAAGTTTTTAGG
1 GTAAAAATGTAATTTTAAAAGTTTCGAGG
*
10629594 GTTAAAAATATAATTTTAGAAAAGTTT
1 G-TAAAAATGTAATTTT--AAAAGTTT
10629621 GGGGGTCAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
28 32 0.23
29 74 0.53
30 26 0.19
32 8 0.06
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
GTAAAAATGTAATTTTAAAAGTTTCGAGG
Found at i:10629602 original size:30 final size:30
Alignment explanation
Indices: 10629562--10629620 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
10629552 TGTAAGTTCG
*
10629562 AGGGTAAAAATGTAATTTT-AAAAGTTTTT
1 AGGGTAAAAATATAATTTTAAAAAGTTTTT
10629591 AGGGTTAAAAATATAATTTTAGAAAAGTTT
1 AGGG-TAAAAATATAATTTTA-AAAAGTTT
10629621 GGGGGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 14 0.54
32 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (30 bp):
AGGGTAAAAATATAATTTTAAAAAGTTTTT
Found at i:10631712 original size:29 final size:29
Alignment explanation
Indices: 10631653--10631719 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
10631643 TGGACATTTT
* *
10631653 AAATTTATAATAATATTAAATTAAAATTA
1 AAATTTAAAATAATATTAAATTAAAAGTA
* *
10631682 AAATTTAAAATAA-ATTTAATTTCAAAGTA
1 AAATTTAAAATAATA-TTAAATTAAAAGTA
*
10631711 AATTTTAAA
1 AAATTTAAA
10631720 TGGTTTGGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATTTAAAATAATATTAAATTAAAAGTA
Found at i:10632403 original size:92 final size:91
Alignment explanation
Indices: 10632315--10632986 Score: 976
Period size: 92 Copynumber: 7.3 Consensus size: 91
10632305 ATTTGGTATC
* **
10632315 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTGTA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10632380 ACTTCAAGAGGATAGGAATTTG-GTATC
66 ACTTCAAGAGGATAGGAA-TTGAGT-TT
*
10632407 GAAGTTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
10632472 ACTTCAAGAGGATAGGAATTGATGTTTTT
66 ACTTCAAGAGGATAGGAATTGA-G--TTT
* * *
10632501 TAAACTTCATCTTGCTCTTACTGCAACTTCAGAGAGATAAAGACTTGCTATCC-A--TTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* *
10632563 ACTTCAAGAGGATTGGAATTAATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* * * *
10632590 GAAACTTCATCTTACTCTTACTACAACTTTAGAGAGATAAAAACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* *
10632655 ACTTCAAGAGGATGGGAACTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* * *
10632682 GAACCTTCATCTTGTTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10632747 ATTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* * *
10632774 AAAGCTTCATCTTACTCTTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
10632839 ACTTCAAGAGGATAAGG-ATTGATGTTT
66 ACTTCAAGAGGAT-AGGAATTGA-GTTT
*
10632866 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10632931 ACTTCAAGAGGATAGGGATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
*
10632958 GAAGCTTTATCTTGCTCTTACTACAACTT
1 GAAGCTTCATCTTGCTCTTACTACAACTT
10632987 TAGACCTTTC
Statistics
Matches: 532, Mismatches: 39, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
89 51 0.10
90 1 0.00
91 36 0.07
92 388 0.73
93 5 0.01
94 50 0.09
95 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (91 bp):
GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
ACTTCAAGAGGATAGGAATTGAGTTT
Found at i:10632835 original size:40 final size:39
Alignment explanation
Indices: 10632791--10632940 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
10632781 CATCTTACTC
*
10632791 TTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACT
1 TTACTACAACTTCA-AGAGATAAAGACTTGCTATCCAACT
* **
10632831 TTACTACAACTTCAAGAGGATAAGGATTGATGTTTGAAGCTTCATCTTACT
1 TTACTACAACTTCAAGA-GATAA--A--GA--CTT---GC-T-ATCCAACT
10632882 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACT
1 -TTACTACAACTTCA-AGAGATAAAGACTTGCTATCCAACT
10632923 TTACTACAACTTCAAGAG
1 TTACTACAACTTCAAGAG
10632941 GATAGGGATT
Statistics
Matches: 89, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
39 7 0.08
40 32 0.36
41 6 0.07
42 2 0.02
43 2 0.02
44 2 0.02
46 4 0.04
48 2 0.02
49 2 0.02
50 2 0.02
51 6 0.07
52 19 0.21
53 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (39 bp):
TTACTACAACTTCAAGAGATAAAGACTTGCTATCCAACT
Found at i:10633067 original size:50 final size:51
Alignment explanation
Indices: 10632986--10633153 Score: 137
Period size: 50 Copynumber: 3.3 Consensus size: 51
10632976 TACTACAACT
*
10632986 TTAGACCTTTCCCTTCGTGTCTTCTGAGGTACACGATCCGCCGTTGC-GAC
1 TTAGACCTTTCCCTTCGTATCTTCTGAGGTACACGATCCGCCGTTGCGGAC
* * ** * * *
10633036 TTAGACCTTTCCCTTTTGTATCTT-TGCGGTACTGGATTCTCCGTTGCGGTC
1 TTAGACCTTTCCC-TTCGTATCTTCTGAGGTACACGATCCGCCGTTGCGGAC
* * * * * * * *
10633087 TTAGATCTTTCCCGTCGTGT-TTTTGTGGTACTA-GATCCGTCGTTGTGGTC
1 TTAGACCTTTCCCTTCGTATCTTCTGAGGTAC-ACGATCCGCCGTTGCGGAC
*
10633137 TTAGATCTTTCCCTTCG
1 TTAGACCTTTCCCTTCG
10633154 AATTTCATGT
Statistics
Matches: 95, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
49 2 0.02
50 71 0.75
51 22 0.23
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.40
Consensus pattern (51 bp):
TTAGACCTTTCCCTTCGTATCTTCTGAGGTACACGATCCGCCGTTGCGGAC
Found at i:10639164 original size:6 final size:6
Alignment explanation
Indices: 10639155--10639208 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
10639145 TACAATAATA
* *
10639155 TTAAAT TTAAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
10639199 TTAATT TTAA
1 TTAAAT TTAA
10639209 TTTCAAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.10
5 10 0.25
6 26 0.65
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:10639170 original size:11 final size:11
Alignment explanation
Indices: 10639155--10639223 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
10639145 TACAATAATA
10639155 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
10639166 TTAAATTCAAAC
1 TTAAATT-AAAT
10639178 TTAAATTAAAT
1 TTAAATTAAAT
10639189 TTAAA-TAAAT
1 TTAAATTAAAT
* *
10639199 TTAATTTTAAT
1 TTAAATTAAAT
*
10639210 TTCAAAGTAAAT
1 TT-AAATTAAAT
10639222 TT
1 TT
10639224 TAAAATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 11 0.23
11 22 0.46
12 15 0.31
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:10639171 original size:5 final size:5
Alignment explanation
Indices: 10639154--10639204 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
10639144 TTACAATAAT
*
10639154 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTTAA A-TAA ATTTA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA ATTAA
10639202 ATT
1 ATT
10639205 TTAATTTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
4 4 0.10
5 18 0.45
6 16 0.40
7 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:10649393 original size:166 final size:165
Alignment explanation
Indices: 10649193--10649708 Score: 766
Period size: 168 Copynumber: 3.1 Consensus size: 165
10649183 TCGAGGATGA
* *
10649193 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACAAATAAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
*
10649258 AACAATCAGCAGTTGACCAGCTCACAGGCTGGATTAGACTTCAATTTTACAGGTCATCAAATAGT
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCAAATAGT
*
10649323 ACATCTTCCAGACCATGTCCAATGCCAGGGTGATAG
131 TCATCTTCCAGACCATGTCCAATGCCAGGGTG-TAG
* * *
10649359 GAGGACAACATCCATCACAACAGATACAAGCATCAGCTCCGCATACCAATTCAGCACCAATGAGT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
* *
10649424 AAACAATCAGCAGTTGACCAGCTCACAGGCTTGGCTTAGACTTCAATTTTACAGGTCGTCTGAAT
66 -AACAATCAGCAGTTGACCAGCTCACAGGC-TGGCTTAGACTTCAATTTTACAGGTCATC-AAAT
* *
10649489 AGTTCATCTTCCAAACCATGTCCAATGCCAGGG-GTTTG
128 AGTTCATCTTCCAGACCATGTCCAATGCCAGGGTG-TAG
* *
10649527 AAGGACAACATCCATCACAACAGATTCAAGCATCAACTCCGCATACAAATTCAGCACCAATGAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
*
10649592 AACGATCAGCAGTTGACCAGCTCAC-GGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCAT-CAAATAG
10649656 TTCATCTTCCGGAGTCCAGACCATGTCCAATGCCAGAGGTGTAG
130 TTCATC-T------TCCAGACCATGTCCAATGCCAG-GGTGTAG
10649700 GAGGACAAC
1 GAGGACAAC
10649709 CATCATCTTC
Statistics
Matches: 314, Mismatches: 23, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
165 38 0.12
166 65 0.21
167 53 0.17
168 90 0.29
169 34 0.11
172 21 0.07
173 12 0.04
174 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (165 bp):
GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCAAATAGT
TCATCTTCCAGACCATGTCCAATGCCAGGGTGTAG
Found at i:10654630 original size:28 final size:29
Alignment explanation
Indices: 10654599--10654659 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
10654589 AAAATGAGAC
10654599 TTTTAGA-TGCCCGAGGGC-AAAATGGTAA
1 TTTTAGACT-CCCGAGGGCAAAAATGGTAA
* *
10654627 TTTTGGACTCTCGAGGGCAAAAATGGTAA
1 TTTTAGACTCCCGAGGGCAAAAATGGTAA
10654656 TTTT
1 TTTT
10654660 GGAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (29 bp):
TTTTAGACTCCCGAGGGCAAAAATGGTAA
Found at i:10654810 original size:30 final size:29
Alignment explanation
Indices: 10654774--10654989 Score: 192
Period size: 29 Copynumber: 7.3 Consensus size: 29
10654764 AAAAGGGAAA
*
10654774 TTTGGAAGTGTCGGGGTCAAAAATGGAATT
1 TTTGGAAGT-TCGGGGTCAAAAATGTAATT
* *
10654804 TTTGGAAGTTTGGGGTTAAAAATGTAATT
1 TTTGGAAGTTCGGGGTCAAAAATGTAATT
* * *
10654833 TTTGGTAGTTTAGGGG-CAAAAATGTAATA
1 TTTGGAAG-TTCGGGGTCAAAAATGTAATT
10654862 TTTGGAAGTTCGAGGGT-AAAAATGTAATT
1 TTTGGAAGTTCG-GGGTCAAAAATGTAATT
*
10654891 TTTGTAAGTTCGAGGG-C-AAAATGTAATT
1 TTTGGAAGTTCG-GGGTCAAAAATGTAATT
** ** *
10654919 TTTAAAAGTTTTAGGGTTAAAAATGTAATT
1 TTTGGAAG-TTCGGGGTCAAAAATGTAATT
*
10654949 TTAGAGAAGTTCGGGGGTC-AAAAT-TAAATT
1 TTTG-GAAGTTC-GGGGTCAAAAATGT-AATT
10654979 TTTGGACAGTT
1 TTTGGA-AGTT
10654990 TAGGGACCTC
Statistics
Matches: 152, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
28 23 0.15
29 76 0.50
30 46 0.30
31 7 0.05
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
TTTGGAAGTTCGGGGTCAAAAATGTAATT
Found at i:10654824 original size:58 final size:58
Alignment explanation
Indices: 10654762--10654871 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 58
10654752 CATCTGGGAG
* *
10654762 TAAAAAGGGAA-ATTTGGAAGTGTCGGGGTCAAAAATGGAATTTTTGGAAGTTTGGGGT
1 TAAAAAGGGAATATTTGGAAGTGTAGGGG-CAAAAATGGAATATTTGGAAGTTTGGGGT
* * * * * *
10654820 TAAAAATGTAATTTTTGGTAGTTTAGGGGCAAAAATGTAATATTTGGAAGTT
1 TAAAAAGGGAATATTTGGAAGTGTAGGGGCAAAAATGGAATATTTGGAAGTT
10654872 CGAGGGTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
58 30 0.70
59 13 0.30
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (58 bp):
TAAAAAGGGAATATTTGGAAGTGTAGGGGCAAAAATGGAATATTTGGAAGTTTGGGGT
Found at i:10656492 original size:11 final size:11
Alignment explanation
Indices: 10656476--10656531 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
10656466 TTATAATAAT
10656476 ATTAAATTTAA
1 ATTAAATTTAA
*
10656487 ATTAAATTCAA
1 ATTAAATTTAA
10656498 ACTTAAA-TTAA
1 A-TTAAATTTAA
10656509 ATTAAAATTTAA
1 ATT-AAATTTAA
*
10656521 AATAAATTTAA
1 ATTAAATTTAA
10656532 TTTCAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.05
11 26 0.67
12 11 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10656493 original size:5 final size:5
Alignment explanation
Indices: 10656476--10656533 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
10656466 TTATAATAAT
*
10656476 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTAAA ATTTAA AATAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA ATT-AA A-TTAA ATTAA
*
10656526 ATTTA ATT
1 ATTAA ATT
10656534 TCAAAGTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 24 0.53
6 17 0.38
7 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:10656503 original size:17 final size:17
Alignment explanation
Indices: 10656483--10656528 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10656473 AATATTAAAT
*
10656483 TTAAATTAAATTCAAAC
1 TTAAATTAAATTAAAAC
*
10656500 TTAAATTAAATTAAAAT
1 TTAAATTAAATTAAAAC
*
10656517 TTAAAATAAATT
1 TTAAATTAAATT
10656529 TAATTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATTAAATTAAAAC
Found at i:10656531 original size:28 final size:29
Alignment explanation
Indices: 10656480--10656552 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 29
10656470 AATAATATTA
* *
10656480 AATTTAAA-TTAAATTCAAACTTAAATTA
1 AATTAAAATTTAAAATCAAACTTAAATTA
* *
10656508 AATTAAAATTTAAAAT-AAATTTAATTTCA
1 AATTAAAATTTAAAATCAAACTTAAATT-A
* *
10656537 AAGTAAATTTTAAAAT
1 AATTAAAATTTAAAAT
10656553 GGTTTGGGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (29 bp):
AATTAAAATTTAAAATCAAACTTAAATTA
Found at i:10656543 original size:17 final size:16
Alignment explanation
Indices: 10656463--10656546 Score: 60
Period size: 17 Copynumber: 5.0 Consensus size: 16
10656453 GGACATTTTA
* *
10656463 AATTTATAATAATATTA
1 AATTTAAAATAA-ATTT
* *
10656480 AATTTAAATTAAATTCA
1 AATTTAAAATAAATT-T
* * *
10656497 AACTTAAATTAAATTAA
1 AATTTAAAATAAATT-T
10656514 AATTTAAAATAAATTT
1 AATTTAAAATAAATTT
*
10656530 AATTTCAAAGTAAATTT
1 AATTT-AAAATAAATTT
10656547 TAAAATGGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
16 8 0.14
17 49 0.86
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (16 bp):
AATTTAAAATAAATTT
Found at i:10656544 original size:34 final size:34
Alignment explanation
Indices: 10656479--10656545 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
10656469 TAATAATATT
* *
10656479 AAATTTAAATTAAATTCAAACTTAAATTAAATTA
1 AAATTTAAAATAAATTCAAACTTAAAGTAAATTA
* *
10656513 AAATTTAAAATAAATT-TAATTTCAAAGTAAATT
1 AAATTTAAAATAAATTCAAACTT-AAAGTAAATT
10656546 TTAAAATGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (34 bp):
AAATTTAAAATAAATTCAAACTTAAAGTAAATTA
Found at i:10657248 original size:92 final size:91
Alignment explanation
Indices: 10657147--10657816 Score: 972
Period size: 92 Copynumber: 7.3 Consensus size: 91
10657137 ATTTGGTATC
* * *
10657147 GAAGCTTCATCTTGTTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTGCA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10657212 ACTTCAAGAGGATAGGAATTTG-GTATC
66 ACTTCAAGAGGATAGGAA-TTGAGT-TT
*
10657239 GAAGTTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
10657304 ACTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* *
10657331 GAAACTTCATCTTGCTCTTACTGCAACTTCAGAGAGATAAAGACTTGCTATCC-A--TTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* *
10657393 ACTTCAAGAGGATTGGAATTAATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* * * * *
10657420 GAAACTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAAACTTACTATCCAACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10657485 ACTTCAAGAGGATGGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* * *
10657512 GAACCTTCATTTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10657577 ATTTCAAGAGGATAGGAATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
* * * *
10657604 AAAGCTTCATCTTACTCTTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACTTTATTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
10657669 ACTTCAAGAGGATAAGG-ATTGATGTTT
66 ACTTCAAGAGGAT-AGGAATTGA-GTTT
* * *
10657696 GAAGCTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCCACTTTACTACA
1 GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
*
10657761 ACTTCAAGAGGATAGGGATTGATGTTT
66 ACTTCAAGAGGATAGGAATTGA-GTTT
*
10657788 GAAGCTTTATCTTGCTCTTACTACAACTT
1 GAAGCTTCATCTTGCTCTTACTACAACTT
10657817 TAGACCTTTC
Statistics
Matches: 530, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
89 81 0.15
90 1 0.00
91 7 0.01
92 436 0.82
93 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (91 bp):
GAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
ACTTCAAGAGGATAGGAATTGAGTTT
Found at i:10657638 original size:273 final size:275
Alignment explanation
Indices: 10657151--10657816 Score: 1022
Period size: 273 Copynumber: 2.4 Consensus size: 275
10657141 GGTATCGAAG
** * * *
10657151 CTTCATCTTGTTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTGCAACTT
1 CTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* * *
10657216 CAAGAGGATAGGAATT--TGGTATCGAAGTTTCATCTTGCTCTTACTACAACTTCAGAGAGATAA
66 CAAGAGGATGGGAATTGAT-GT-TTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAA
10657279 AGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTT
129 AGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTT
* *
10657344 GCTCTTACTGCAACTTCAGAGAGATAAAGACTTGCTATCC-A-TTACTACAACTTCAAGAGGAT-
194 ACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTACTACAACTTCAAGAGGATA
*
10657406 TGGAATTAATGTTTGAAA
259 AGG-ATTAATGTTTGAAA
* *
10657424 CTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAAACTTACTATCCAACTTTACTACAACTT
1 CTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
10657489 CAAGAGGATGGGAATTGATGTTTGAACCTTCATTTTGCTCTTACTACAACTTCAGAGAGATAAAG
66 CAAGAGGATGGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
* *
10657554 ACTTGCTATCCAACTTTACTGCAATTTCAAGAGGATAGGAATTGATGTTT-AAAGCTTCATCTTA
131 ACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAA-CTTCATCTTA
* *
10657618 CTCTTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACTTTATTACAACTTCAAGAGGATA
195 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC-TTACTACAACTTCAAGAGGATA
* *
10657683 AGGATTGATGTTTGAAG
259 AGGATTAATGTTTGAAA
*
10657700 CTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCCACTTTACTACAACTT
1 CTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
*
10657765 CAAGAGGATAGGG-ATTGATGTTTGAAGCTTTATCTTGCTCTTACTACAACTT
66 CAAGAGGAT-GGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTT
10657817 TAGACCTTTC
Statistics
Matches: 358, Mismatches: 27, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
272 3 0.01
273 207 0.58
274 3 0.01
275 1 0.00
276 139 0.39
277 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (275 bp):
CTTCATCTTACTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
CAAGAGGATGGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
ACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTAC
TCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTACTACAACTTCAAGAGGATAAG
GATTAATGTTTGAAA
Found at i:10657919 original size:50 final size:50
Alignment explanation
Indices: 10657852--10657978 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 50
10657842 AGGTACACAG
* * ** ** *
10657852 TCCGCCGTTGC-GACTTAGACCTTTCCTTTTTTATCTTTGTGGTACTGGA
1 TCCGCCGTTGCGGTCTTAGATCTTTCCCGTCGTATCTTTATGGTACTGGA
* * * *
10657901 TTCTCCGTTGCGGTCTTAGATCTTTCCCGTCGTGTTTTTATGGTACTGGA
1 TCCGCCGTTGCGGTCTTAGATCTTTCCCGTCGTATCTTTATGGTACTGGA
*
10657951 TCCGCCGTTGTGGTCTTAGATCTTTCCC
1 TCCGCCGTTGCGGTCTTAGATCTTTCCC
10657979 TTCGAATTTC
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
49 9 0.14
50 54 0.86
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (50 bp):
TCCGCCGTTGCGGTCTTAGATCTTTCCCGTCGTATCTTTATGGTACTGGA
Found at i:10658914 original size:12 final size:13
Alignment explanation
Indices: 10658866--10658915 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 13
10658856 GACCTCTCCT
10658866 TTTTTCTATT-TTG
1 TTTTTCT-TTCTTG
10658879 TTTTTC-TTCTTG
1 TTTTTCTTTCTTG
10658891 TTTTTGCATTTCTT-
1 TTTTT-C-TTTCTTG
10658905 TTTTTCTTTCT
1 TTTTTCTTTCT
10658916 CTTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.06
12 13 0.39
13 8 0.24
14 5 0.15
15 5 0.15
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTCTTTCTTG
Found at i:10664629 original size:29 final size:28
Alignment explanation
Indices: 10664599--10664793 Score: 116
Period size: 29 Copynumber: 6.7 Consensus size: 28
10664589 GAAACATCCG
10664599 GGGGT-AAAATGATAATTTTGGAAGTGTC
1 GGGGTAAAAATGATAATTTTGGAAGT-TC
*
10664627 GGGGTCAAAAATGGA-ATTTTTGGAAGTTC
1 GGGGT-AAAAAT-GATAATTTTGGAAGTTC
* *
10664656 AGGGTTAAAAATG-TAATTTTTGGAAGTTT
1 -GGGGTAAAAATGATAA-TTTTGGAAGTTC
* * *
10664685 GAGGGTAAAAAAG-TAATTGTTAGAAGTTTT
1 G-GGGTAAAAATGATAATT-TTGGAAG-TTC
* *
10664715 AGGGTCAAAAATG-TAATTTTTGAATGTTC
1 GGGGT-AAAAATGATAATTTTGGAA-GTTC
* *
10664744 GGGGGCAAAAATG-TAATTTTTAGAAGTTTC
1 -GGGGTAAAAATGATAA-TTTTGGAAG-TTC
*
10664774 GAGGTTAAAAATG-TAATTTT
1 G-GGGTAAAAATGATAATTTT
10664794 CAAAAGTTTT
Statistics
Matches: 136, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
28 10 0.07
29 64 0.47
30 60 0.44
31 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (28 bp):
GGGGTAAAAATGATAATTTTGGAAGTTC
Found at i:10664648 original size:30 final size:29
Alignment explanation
Indices: 10664604--10664862 Score: 193
Period size: 30 Copynumber: 8.7 Consensus size: 29
10664594 ATCCGGGGGT
10664604 AAAATGATAA-TTTTGGAAGTGTCGGGGTCA
1 AAAATG-TAATTTTTGGAAGT-TCGGGGTCA
* * *
10664634 AAAATGGAATTTTTGGAAGTTCAGGGTTA
1 AAAATGTAATTTTTGGAAGTTCGGGGTCA
*
10664663 AAAATGTAATTTTTGGAAGTTTGAGGGT-A
1 AAAATGTAATTTTTGGAAGTTCG-GGGTCA
* * * **
10664692 AAAAAGTAATTGTTAGAAGTTTTAGGGTCA
1 AAAATGTAATTTTTGGAAG-TTCGGGGTCA
*
10664722 AAAATGTAATTTTT-GAATGTTCGGGGGCA
1 AAAATGTAATTTTTGGAA-GTTCGGGGTCA
* * *
10664751 AAAATGTAATTTTTAGAAGTTTCGAGGTTA
1 AAAATGTAATTTTTGGAAG-TTCGGGGTCA
*** * * *
10664781 AAAATGTAATTTTCAAAAGTTTTGAGGTTA
1 AAAATGTAATTTTTGGAAG-TTCGGGGTCA
* *
10664811 AATATGTAATTTTGGAGAAGTTCGAGGGTC-
1 AAAATGTAATTTTTG-GAAGTTCG-GGGTCA
**
10664841 AAAATACAATTTTTGGATAGTT
1 AAAATGTAATTTTTGGA-AGTT
10664863 TAGGGACCTT
Statistics
Matches: 187, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
29 77 0.41
30 104 0.56
31 6 0.03
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTCGGGGTCA
Found at i:10664667 original size:59 final size:59
Alignment explanation
Indices: 10664604--10664793 Score: 219
Period size: 59 Copynumber: 3.2 Consensus size: 59
10664594 ATCCGGGGGT
* *
10664604 AAAATGATAATTTTGGAAGTGTCGGGGTCAAAAATGGAATTTTTGGAAG-TTCAGGGTTA
1 AAAATG-TAATTTTGGAAGTGTCGGGGTCAAAAATGTAATTTTTAGAAGTTTCAGGGTTA
* * * * *
10664663 AAAATGTAATTTTTGGAAGT-TTGAGGGT-AAAAAAGTAATTGTTAGAAGTTTTAGGGTCA
1 AAAATGTAA-TTTTGGAAGTGTCG-GGGTCAAAAATGTAATTTTTAGAAGTTTCAGGGTTA
* *
10664722 AAAATGTAATTTTTGAA-TGTTCGGGGGCAAAAATGTAATTTTTAGAAGTTTC-GAGGTTA
1 AAAATGTAATTTTGGAAGTG-TCGGGGTCAAAAATGTAATTTTTAGAAGTTTCAG-GGTTA
10664781 AAAATGTAATTTT
1 AAAATGTAATTTT
10664794 CAAAAGTTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
57 1 0.01
58 32 0.29
59 77 0.70
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTGGAAGTGTCGGGGTCAAAAATGTAATTTTTAGAAGTTTCAGGGTTA
Found at i:10666098 original size:22 final size:24
Alignment explanation
Indices: 10666058--10666103 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10666048 TTTACTATTA
10666058 TTATTATATTAAATCTA-TTAATAT
1 TTATTATA-TAAATCTATTTAATAT
*
10666082 TTATTATA-AAATGTATTTAATA
1 TTATTATATAAATCTATTTAATA
10666104 CTCCTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTATATAAATCTATTTAATAT
Found at i:10666723 original size:20 final size:20
Alignment explanation
Indices: 10666698--10666739 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10666688 AATAGCCTCT
10666698 GTTTGGGGTTTGACCTTAGG
1 GTTTGGGGTTTGACCTTAGG
10666718 GTTTGGGGTTTGACCTTAGG
1 GTTTGGGGTTTGACCTTAGG
10666738 GT
1 GT
10666740 ACTGTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.10, C:0.10, G:0.40, T:0.40
Consensus pattern (20 bp):
GTTTGGGGTTTGACCTTAGG
Found at i:10666901 original size:6 final size:6
Alignment explanation
Indices: 10666892--10666945 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
10666882 TACAATAATA
* *
10666892 TTAAAT TTAAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
10666936 TTAAAT TTAA
1 TTAAAT TTAA
10666946 TTTCAAAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.10
5 10 0.24
6 27 0.66
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:10666907 original size:11 final size:11
Alignment explanation
Indices: 10666892--10666960 Score: 70
Period size: 11 Copynumber: 6.2 Consensus size: 11
10666882 TACAATAATA
10666892 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
10666903 TTAAATTCAAAC
1 TTAAATT-AAAT
10666915 TTAAATTAAAT
1 TTAAATTAAAT
10666926 TTAAA-TAAAT
1 TTAAATTAAAT
*
10666936 TTAAATTTAAT
1 TTAAATTAAAT
*
10666947 TTCAAAGTAAAT
1 TT-AAATTAAAT
10666959 TT
1 TT
10666961 TAAAATGGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
10 12 0.24
11 22 0.44
12 16 0.32
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:10678612 original size:147 final size:148
Alignment explanation
Indices: 10678324--10678616 Score: 525
Period size: 147 Copynumber: 2.0 Consensus size: 148
10678314 GCTTAATTCT
10678324 CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
1 CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
* *
10678389 AACAAGAAAAGGAGACCACCCAGATGAAGAGCAGCTGAAAATTATTCATAAGAAAACAGGGAGAA
66 AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
10678454 GAAATGCACGAGAAATCG
131 GAAATGCACGAGAAATCG
* *
10678472 CTCGAGTGCTAAGCGACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACGTTAAA
1 CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
* *
10678537 AACAAG-AAAGGAGACCACCCAGATGAAGAACAGCTGCAAATTATTCACAAGAAAACCGGGAGAA
66 AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
10678601 GAAATGCACGAGAAAT
131 GAAATGCACGAGAAAT
10678617 ATATAAACAA
Statistics
Matches: 139, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
147 70 0.50
148 69 0.50
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (148 bp):
CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
GAAATGCACGAGAAATCG
Found at i:10687940 original size:21 final size:21
Alignment explanation
Indices: 10687900--10687941 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10687890 TTGATCGATG
*
10687900 GCTTAGCATGCAGCATGAAGA
1 GCTTACCATGCAGCATGAAGA
10687921 GCTTACCA-GCAGCATGGAAGA
1 GCTTACCATGCAGCAT-GAAGA
10687942 ATTAGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (21 bp):
GCTTACCATGCAGCATGAAGA
Found at i:10690187 original size:20 final size:21
Alignment explanation
Indices: 10690144--10690187 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
10690134 ACTTTCATCA
*
10690144 TTAAGCCTTAATTAAACATTT
1 TTAAGCCTTAATTAAACATAT
* *
10690165 TTAA-CCTTTATTAAACCTAT
1 TTAAGCCTTAATTAAACATAT
10690185 TTA
1 TTA
10690188 TAAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAGCCTTAATTAAACATAT
Found at i:10694236 original size:40 final size:40
Alignment explanation
Indices: 10694188--10694337 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
10694178 AATCCCTATC
10694188 CTCT-TGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
1 CTCTCTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
** *
10694227 CTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAATCCTTAT
1 CTCTCTGAAGTTGTAGTAA-AGTTGGAT--AG---C-AA-GTC--T--TTAT
10694279 C-CTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
1 CTCTC-TGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
*
10694319 CTCTCTGAAGATGTAGTAA
1 CTCTCTGAAGTTGTAGTAA
10694338 GAGTAAGATG
Statistics
Matches: 89, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
39 4 0.04
40 32 0.36
41 9 0.10
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
48 2 0.02
49 2 0.02
50 1 0.01
51 9 0.10
52 19 0.21
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (40 bp):
CTCTCTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
Found at i:10694299 original size:92 final size:92
Alignment explanation
Indices: 10694142--10694811 Score: 1073
Period size: 92 Copynumber: 7.3 Consensus size: 92
10694132 GAAAGGTCTA
* *
10694142 AAGTTGTAGTAAGAGCAAGATAAAGCTTCAAACATCAATCCCTATCCTCTTGAAGTTGTAGTAAA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
10694207 GTTGGATAGCAAGTCTTTATCTCTCTG
66 GTTGGATAGCAAGTCTTTATCTCTCTG
*
10694234 AAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAA-TCCTTATCCTCTTGAAGTTGTAGTAA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCC-TATCCTCTTGAAGTTGTAGTAA
10694298 AGTTGGATAGCAAGTCTTTATCTCTCTG
65 AGTTGGATAGCAAGTCTTTATCTCTCTG
* * * * *
10694326 AAGATGTAGTAAGAGTAAGATGAAGCTTTAAACATCAATTCCTATCCTCTTGAAATTGCAGTAAA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
10694391 GTTGGATAGCAAGTCTTTATCTCTCTG
66 GTTGGATAGCAAGTCTTTATCTCTCTG
* *
10694418 AAGTTGTAGTAAGAGCAAGATGAAGGTTCAAACATCAATTCCCATCCTCTTGAAGTTGTAGTAAA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
*
10694483 GTTGGATAGCAAGTTTTTATCTCTCTG
66 GTTGGATAGCAAGTCTTTATCTCTCTG
* * * *
10694510 AAGTTGTAGTAAGAGTAAGATGAAGTTTCAAACATTAATTCCAATCCTCTTGAAGTTGTAGT-AA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
10694574 --TGGATAGCAAGTCTTTATCTCTCTG
66 GTTGGATAGCAAGTCTTTATCTCTCTG
* *
10694599 AAGTTGCAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
10694664 GTTGGATAGCAAGTCTTTATCTCTCTG
66 GTTGGATAGCAAGTCTTTATCTCTCTG
* * *
10694691 AAGTTGTAGTAAGAGCAAGATGAAACTTCGATAC--CAAATTCCTATCCTCTTGAAGTTGCAGTA
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTC-AAACATC-AATTCCTATCCTCTTGAAGTTGTAGTA
*
10694754 AAGTTGGATAACAAGTCTTTATCTCTCTG
64 AAGTTGGATAGCAAGTCTTTATCTCTCTG
*
10694783 AAGTTGTAGTAAAAGCAAGATGAAGCTTC
1 AAGTTGTAGTAAGAGCAAGATGAAGCTTC
10694812 GATACCAAAT
Statistics
Matches: 539, Mismatches: 32, Indels: 14
0.92 0.05 0.02
Matches are distributed among these distances:
89 82 0.15
90 2 0.00
91 5 0.01
92 444 0.82
93 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (92 bp):
AAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
GTTGGATAGCAAGTCTTTATCTCTCTG
Found at i:10695443 original size:11 final size:11
Alignment explanation
Indices: 10695427--10695482 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
10695417 TACTTTGAAA
*
10695427 TTAAATTTATT
1 TTAAATTTAAT
10695438 TTAAATTTTAAT
1 TTAAA-TTTAAT
10695450 TT-AATTTAAGT
1 TTAAATTTAA-T
*
10695461 TTGAATTTAAT
1 TTAAATTTAAT
10695472 TTAAATTTAAT
1 TTAAATTTAAT
10695483 ATTATTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
10 5 0.12
11 21 0.52
12 14 0.35
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:10695450 original size:17 final size:17
Alignment explanation
Indices: 10695430--10695496 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
10695420 TTTGAAATTA
*
10695430 AATTTATTTTAAATTTT
1 AATTTAATTTAAATTTT
* *
10695447 AATTTAATTTAAGTTTG
1 AATTTAATTTAAATTTT
10695464 AATTTAATTTAAA-TTT
1 AATTTAATTTAAATTTT
10695480 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
10695497 AAAATGTCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.19
17 32 0.76
18 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
AATTTAATTTAAATTTT
Found at i:10695452 original size:5 final size:5
Alignment explanation
Indices: 10695425--10695482 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
10695415 TTTACTTTGA
* *
10695425 AATTA AATTT ATTTT AAATTTT AATTT AATTT AAGTTT GAATTT AATTT
1 AATTT AATTT AATTT -AA-TTT AATTT AATTT AA-TTT -AATTT AATTT
10695474 AAATTT AAT
1 -AATTT AAT
10695483 ATTATTATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 26 0.58
6 14 0.31
7 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:10695458 original size:28 final size:29
Alignment explanation
Indices: 10695406--10695482 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
10695396 GGCCCAAACC
* * *
10695406 ATTTTAAAATTTACTTTGAAATTAAATTT-
1 ATTTTAAATTTTAATTT-AATTTAAATTTG
*
10695435 ATTTTAAATTTTAATTTAATTTAAGTTTG
1 ATTTTAAATTTTAATTTAATTTAAATTTG
* *
10695464 AATTT-AATTTAAATTTAAT
1 ATTTTAAATTTTAATTTAAT
10695483 ATTATTATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (29 bp):
ATTTTAAATTTTAATTTAATTTAAATTTG
Found at i:10696329 original size:28 final size:28
Alignment explanation
Indices: 10696269--10696330 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
10696259 AATACGTTTT
* * *
10696269 ATAATAAATATTAATGGTGTTAATATTT
1 ATAATAAATATTAATGATGTTAATAATA
*
10696297 CTAATAAATATTAATAGAT-TTAATAATA
1 ATAATAAATATTAAT-GATGTTAATAATA
10696325 ATAATA
1 ATAATA
10696331 GTAAATTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (28 bp):
ATAATAAATATTAATGATGTTAATAATA
Found at i:10697626 original size:60 final size:58
Alignment explanation
Indices: 10697533--10697757 Score: 217
Period size: 57 Copynumber: 3.9 Consensus size: 58
10697523 CCCTAGAGGT
* * *
10697533 CCCTAAACTGTCCAAAAATTATATTTTGACCCTCGAACTTCTCTAAAATTACAATTTTAA
1 CCCTAAACT-TCCAAAAATTACATTTTTACCCTCGAACTTC-CAAAAATTACAATTTTAA
** * **
10697593 CCCTAAAACTTTTAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTGT
1 CCCT-AAACTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTACAATTTTAA
* * * *
10697652 CCCTAAACTTCCAAAAATTACATTTTTGCCACT-AAAC-TACAAAAATTACATTTTTAA
1 CCCTAAACTTCCAAAAATTACATTTTTACC-CTCGAACTTCCAAAAATTACAATTTTAA
** * *
10697709 CCCCGAACTTCCAAAATTTCCATTTTTGA-CC-CGACACTTCC-AAAATTAC
1 CCCTAAACTTCCAAAAATTACATTTTT-ACCCTCGA-ACTTCCAAAAATTAC
10697758 CTTTTTTTCC
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
56 2 0.01
57 51 0.37
58 28 0.20
59 20 0.15
60 31 0.23
61 5 0.04
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTACAATTTTAA
Found at i:10697694 original size:28 final size:28
Alignment explanation
Indices: 10697533--10697763 Score: 180
Period size: 29 Copynumber: 8.0 Consensus size: 28
10697523 CCCTAGAGGT
*
10697533 CCCTAAACTGTCCAAAAATTATA-TTTTG
1 CCCTAAACT-TCCAAAAATTACATTTTTG
* * **
10697561 ACCCTCGAACTTCTCTAAAATTACAATTTTAA
1 -CCCT-AAACTTC-CAAAAATTAC-ATTTTTG
** *
10697593 CCCTAAAACTTTTAAAAATTACATTTTTA
1 CCCT-AAACTTCCAAAAATTACATTTTTG
*
10697622 CCCTCGAACTTCCAAAAATTACATTTTTG
1 CCCT-AAACTTCCAAAAATTACATTTTTG
10697651 TCCCTAAACTTCCAAAAATTACATTTTTG
1 -CCCTAAACTTCCAAAAATTACATTTTTG
* *
10697680 CCACTAAAC-TACAAAAATTACATTTTTAA
1 CC-CTAAACTTCCAAAAATTACATTTTT-G
** * *
10697709 CCCCGAACTTCCAAAATTTCCATTTTTG
1 CCCTAAACTTCCAAAAATTACATTTTTG
* * *
10697737 ACCCGACACTTCC-AAAATTACCTTTTT
1 -CCCTAAACTTCCAAAAATTACATTTTT
10697764 TTCCCCAGAT
Statistics
Matches: 162, Mismatches: 31, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
28 34 0.21
29 91 0.56
30 24 0.15
31 10 0.06
32 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (28 bp):
CCCTAAACTTCCAAAAATTACATTTTTG
Found at i:10697764 original size:86 final size:86
Alignment explanation
Indices: 10697606--10697763 Score: 239
Period size: 86 Copynumber: 1.8 Consensus size: 86
10697596 TAAAACTTTT
* *
10697606 AAAAATTACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTGTCCCTAAACTTCCAAAAATT
1 AAAAATTACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTGACCCGAAACTTCCAAAAATT
10697671 ACATTTTTGCCACTAAACTAC
66 ACATTTTTGCCACTAAACTAC
* * *
10697692 AAAAATTACATTTTTAACCC-CGAACTTCCAAAATTTCCATTTTTGACCCGACACTTCC-AAAAT
1 AAAAATTACATTTTT-ACCCTCGAACTTCCAAAAATTACATTTTTGACCCGAAACTTCCAAAAAT
*
10697755 TACCTTTTT
65 TACATTTTT
10697764 TTCCCCAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 13 0.20
86 48 0.74
87 4 0.06
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (86 bp):
AAAAATTACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTGACCCGAAACTTCCAAAAATT
ACATTTTTGCCACTAAACTAC
Found at i:10711098 original size:27 final size:27
Alignment explanation
Indices: 10711062--10711113 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
10711052 TTTCTTTGAT
*
10711062 ATAAATTATT-TAATATATAAAAATAAA
1 ATAAAATATTATAATAT-TAAAAATAAA
10711089 ATAAAATATTATAATATTAAAAATA
1 ATAAAATATTATAATATTAAAAATA
10711114 GTCTTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAAAATATTATAATATTAAAAATAAA
Found at i:10724443 original size:168 final size:168
Alignment explanation
Indices: 10724132--10724650 Score: 860
Period size: 168 Copynumber: 3.1 Consensus size: 168
10724122 GAAGATGATG
10724132 GTTGTCCTCCTATCACCCCTGGCATTGGACATGGTCTGGACTCCGGAAGATGAACTATTTGGATG
1 GTTGTCCTCCTATCACCCCTGGCATTGGACATGGT-T----T--GGAAGATGAACTATTTGGATG
*
10724197 ACCTGTAAAATTGAAGTCTAAGCCAGCC-GTGAGCTGGTCAACTGCTGATCGTTATTCATTGGTG
59 ACCTGTAAAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTG
10724261 CTGAATTTGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
124 CTGAATTTGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
* * * *
10724306 GTTGTCCTTCAATCACCCCTGGCATTGGACATGGTTTGGAAGATGAACTATTCGGACGACCTGTA
1 GTTGTCCTCCTATCACCCCTGGCATTGGACATGGTTTGGAAGATGAACTATTTGGATGACCTGTA
*
10724371 AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTACTCATTGGTGCTGAATT
66 AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTGCTGAATT
*
10724436 GGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
131 TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
* *
10724474 GTTGTCCTCCTATCACCCCTGGCATTGGACATGGTCTGGAAGATGTACTATTTGGATGACCTGTA
1 GTTGTCCTCCTATCACCCCTGGCATTGGACATGGTTTGGAAGATGAACTATTTGGATGACCTGTA
* * *
10724539 AAATTGAAGTCTAATCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTTATTTGTGCTGAATT
66 AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTGCTGAATT
10724604 TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
131 TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
10724642 GTTGTCCTC
1 GTTGTCCTC
10724651 TCATCCTCGA
Statistics
Matches: 326, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
167 47 0.14
168 244 0.75
169 1 0.00
173 1 0.00
174 33 0.10
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (168 bp):
GTTGTCCTCCTATCACCCCTGGCATTGGACATGGTTTGGAAGATGAACTATTTGGATGACCTGTA
AAATTGAAGTCTAAGCCAGCCTGTGAGCTGGTCAACTGCTGATTGTTATTCATTGGTGCTGAATT
TGTATGCGGAGCTGATGCTTGAATCTGTTGTGATGGAT
Found at i:10727859 original size:146 final size:148
Alignment explanation
Indices: 10727595--10727886 Score: 516
Period size: 146 Copynumber: 2.0 Consensus size: 148
10727585 GCTTAATTCT
10727595 CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
1 CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
* *
10727660 AACAAGAAAAGGAGACCACCCAGATGAAGAGCAGCTGAAAATTATTCATAAGAAAACAGGGAGAA
66 AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
10727725 GAAATGCACGAGAAATCG
131 GAAATGCACGAGAAATCG
* *
10727743 CTCGAGTGCTAAGCGACCAGCAAAG-AAAAAAGAGAACCATAGACTTCCCTGTTTTCACGTTAAA
1 CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
* *
10727807 AACAAG-AAAGGAGACCACCCAGATGAAGAACAGCTGCAAATTATTCACAAGAAAACCGGGAGAA
66 AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
10727871 GAAATGCACGAGAAAT
131 GAAATGCACGAGAAAT
10727887 ATATAAACAA
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
146 70 0.51
147 44 0.32
148 24 0.17
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (148 bp):
CTCGAGTGCTAAGCAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
GAAATGCACGAGAAATCG
Found at i:10737205 original size:21 final size:21
Alignment explanation
Indices: 10737165--10737206 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10737155 TTGATCGATG
*
10737165 GCTTAGCATGCAGCATGAAGA
1 GCTTACCATGCAGCATGAAGA
10737186 GCTTACCA-GCAGCATGGAAGA
1 GCTTACCATGCAGCAT-GAAGA
10737207 ATTAGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (21 bp):
GCTTACCATGCAGCATGAAGA
Found at i:10739454 original size:20 final size:21
Alignment explanation
Indices: 10739411--10739454 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
10739401 ACTTTCATCA
*
10739411 TTAAGCCTTAATTAAACATTT
1 TTAAGCCTTAATTAAACATAT
* *
10739432 TTAA-CCTTTATTAAACCTAT
1 TTAAGCCTTAATTAAACATAT
10739452 TTA
1 TTA
10739455 TAAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAGCCTTAATTAAACATAT
Found at i:10744739 original size:28 final size:28
Alignment explanation
Indices: 10744708--10744797 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
10744698 AAAATGAGAC
*
10744708 TTTTGGATACCCGGGGGCAAAATGGTAA
1 TTTTGGATACCTGGGGGCAAAATGGTAA
* *
10744736 TTTT--AGACTCTTGGGGCAAAATGGTAA
1 TTTTGGATAC-CTGGGGGCAAAATGGTAA
* * *
10744763 TTTTAGACT-CTTGGGGGAAAAATGGTAA
1 TTTTGGA-TACCTGGGGGCAAAATGGTAA
10744791 TTTTGGA
1 TTTTGGA
10744798 AAAATTTAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.06
27 20 0.40
28 25 0.50
29 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (28 bp):
TTTTGGATACCTGGGGGCAAAATGGTAA
Found at i:10744759 original size:27 final size:28
Alignment explanation
Indices: 10744720--10744794 Score: 134
Period size: 27 Copynumber: 2.7 Consensus size: 28
10744710 TTGGATACCC
10744720 GGGGGCAAAATGGTAATTTTAGACTCTT
1 GGGGGCAAAATGGTAATTTTAGACTCTT
10744748 -GGGGCAAAATGGTAATTTTAGACTCTT
1 GGGGGCAAAATGGTAATTTTAGACTCTT
*
10744775 GGGGGAAAAATGGTAATTTT
1 GGGGGCAAAATGGTAATTTT
10744795 GGAAAAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 27 0.60
28 18 0.40
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGGCAAAATGGTAATTTTAGACTCTT
Found at i:10744941 original size:30 final size:30
Alignment explanation
Indices: 10744897--10745185 Score: 243
Period size: 30 Copynumber: 9.7 Consensus size: 30
10744887 ATCCGGGGGT
* *
10744897 AAAATGATAA-TTTTGGAAGTGTCGGGGTCA
1 AAAATG-TAATTTTTGGAAGTTTCGGGGTTA
* *
10744927 AAAATGGAATTTTTGGAAG-TTCGAGGTTA
1 AAAATGTAATTTTTGGAAGTTTCGGGGTTA
*
10744956 AAAATGTAATTTTTGGAAGTTTAGGGG-TA
1 AAAATGTAATTTTTGGAAGTTTCGGGGTTA
*
10744985 AAAATGTATTTTTTGGAAGTTT-GAGGG-TA
1 AAAATGTAATTTTTGGAAGTTTCG-GGGTTA
* * **
10745014 AAAATGTAATTGTTAGAAGTTTTAGGGTTA
1 AAAATGTAATTTTTGGAAGTTTCGGGGTTA
**
10745044 AAAATGTAATTTTT-GAA-TGTTCGGGGGCA
1 AAAATGTAATTTTTGGAAGT-TTCGGGGTTA
* * *
10745073 AAAATGTAATTTTTAGAAGTTTTGAGGTTA
1 AAAATGTAATTTTTGGAAGTTTCGGGGTTA
*** ***
10745103 AAAATGTAATTTTCAAAAGTTTTAAGGTTA
1 AAAATGTAATTTTTGGAAGTTTCGGGGTTA
* * *
10745133 AAAATGTAATTTTGGAGAAG-TTCGGGGGTC
1 AAAATGTAATTTTTG-GAAGTTTCGGGGTTA
**
10745163 AAAATACAATTTTTGGATAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
10745186 AGGGACCTTT
Statistics
Matches: 213, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.01
29 102 0.48
30 103 0.48
31 6 0.03
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTCGGGGTTA
Found at i:10744960 original size:59 final size:58
Alignment explanation
Indices: 10744893--10745184 Score: 243
Period size: 59 Copynumber: 4.9 Consensus size: 58
10744883 AAACATCCGG
* *
10744893 GGGT-AAAATGATAATTTTGGAAGTGTCGGGGTCAAAAATGGAATTTTTGGAAGTTCGA
1 GGGTAAAAATG-TAATTTTGGAAGTTTCGGGGTCAAAAATGTAATTTTTGGAAGTTCGA
* * * *
10744951 GGTTAAAAATGTAATTTTTGGAAGTTTAGGGGT-AAAAATGTATTTTTTGGAAGTTTGA
1 GGGTAAAAATGTAA-TTTTGGAAGTTTCGGGGTCAAAAATGTAATTTTTGGAAGTTCGA
* ** * *
10745009 GGGTAAAAATGTAATTGTTAGAAGTTTTAGGGTTAAAAATGTAATTTTT-GAATGTTCGG
1 GGGTAAAAATGTAATT-TTGGAAGTTTCGGGGTCAAAAATGTAATTTTTGGAA-GTTCGA
* * * * * *** **
10745068 GGGCAAAAATGTAATTTTTAGAAGTTTTGAGGTTAAAAATGTAATTTTCAAAAGTTTTAA
1 GGGTAAAAATGTAA-TTTTGGAAGTTTCGGGGTCAAAAATGTAATTTTTGGAAG-TTCGA
* **
10745128 GGTTAAAAATGTAATTTTGGAGAAG-TTCGGGGGTC-AAAATACAATTTTTGGATAGTT
1 GGGTAAAAATGTAATTTT-G-GAAGTTTC-GGGGTCAAAAATGTAATTTTTGGA-AGTT
10745185 TAGGGACCTT
Statistics
Matches: 190, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
57 2 0.01
58 57 0.30
59 87 0.46
60 34 0.18
61 10 0.05
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (58 bp):
GGGTAAAAATGTAATTTTGGAAGTTTCGGGGTCAAAAATGTAATTTTTGGAAGTTCGA
Found at i:10747229 original size:6 final size:6
Alignment explanation
Indices: 10747220--10747273 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
10747210 TACAATAATA
* *
10747220 TTAAAT TTAAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
10747264 TTAAAT TTAA
1 TTAAAT TTAA
10747274 TTTCAAAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.10
5 10 0.24
6 27 0.66
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:10747235 original size:11 final size:11
Alignment explanation
Indices: 10747220--10747288 Score: 70
Period size: 11 Copynumber: 6.2 Consensus size: 11
10747210 TACAATAATA
10747220 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
10747231 TTAAATTCAAAC
1 TTAAATT-AAAT
10747243 TTAAATTAAAT
1 TTAAATTAAAT
10747254 TTAAA-TAAAT
1 TTAAATTAAAT
*
10747264 TTAAATTTAAT
1 TTAAATTAAAT
*
10747275 TTCAAAGTAAAT
1 TT-AAATTAAAT
10747287 TT
1 TT
10747289 TAAAATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
10 12 0.24
11 22 0.44
12 16 0.32
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:10749694 original size:14 final size:15
Alignment explanation
Indices: 10749667--10749695 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10749657 ATTTAAAGCA
10749667 GAAAAAAATAACTTT
1 GAAAAAAATAACTTT
10749682 GAAAAAAAT-ACTTT
1 GAAAAAAATAACTTT
10749696 CATTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (15 bp):
GAAAAAAATAACTTT
Found at i:10766365 original size:17 final size:17
Alignment explanation
Indices: 10766343--10766387 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
10766333 TCAGCCCTTG
10766343 CCAATGGACAAATAATT
1 CCAATGGACAAATAATT
10766360 CCAATGGACAAATAATT
1 CCAATGGACAAATAATT
*
10766377 CCCATGGACAA
1 CCAATGGACAA
10766388 CGGTGAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (17 bp):
CCAATGGACAAATAATT
Found at i:10767186 original size:16 final size:16
Alignment explanation
Indices: 10767165--10767198 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10767155 TCAATTGAAA
10767165 ATTCTCAATCTATGTT
1 ATTCTCAATCTATGTT
10767181 ATTCTCAATCTATGTT
1 ATTCTCAATCTATGTT
10767197 AT
1 AT
10767199 CAAATAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTCTCAATCTATGTT
Found at i:10769040 original size:168 final size:168
Alignment explanation
Indices: 10768762--10769280 Score: 860
Period size: 168 Copynumber: 3.1 Consensus size: 168
10768752 TCGAGGATGA
* *
10768762 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACAAATAAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
*
10768827 AACAATCAGCAGTTGACCAGCTCACAGGCTGGATTAGACTTCAATTTTACAGGTCATCCAAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
*
10768892 TACATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
131 TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
* *
10768930 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACCAATTCAGCACCAATGAGT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
* *
10768995 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCGTCCGAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
* *
10769060 TTCATCTTCCAAACCATGTCCAATGCCAGGGGTGATTG
131 TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
*
10769098 AAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
*
10769163 AACGATCAGCAGTTGACCAGCTCAC-GGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
10769227 TTCATCTTCCGGAGTCCAGACCATGTCCAATGCCAGGGGTGATAG
131 TTCATC-T------TCCAGACCATGTCCAATGCCAGGGGTGATAG
10769272 GAGGACAAC
1 GAGGACAAC
10769281 CATCATCTTC
Statistics
Matches: 325, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
167 43 0.13
168 245 0.75
174 37 0.11
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (168 bp):
GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
Found at i:10781379 original size:146 final size:148
Alignment explanation
Indices: 10781099--10781390 Score: 525
Period size: 146 Copynumber: 2.0 Consensus size: 148
10781089 GCTTAATTCT
10781099 CTCGAGTGCTAAACAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
1 CTCGAGTGCTAAACAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
* *
10781164 AACAAGAAAAGGAGACCACCCAGATGAAGAGCAGCTGAAAATTATTCATAAGAAAACAGGGAGAA
66 AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
10781229 GAAATGCACGAGAAATCG
131 GAAATGCACGAGAAATCG
* *
10781247 CTCGAGTGCT-AACGACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACGTTAAA
1 CTCGAGTGCTAAACAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
*
10781311 AACAAG-AAAGGAGACCACCCAGATGAAGAACAGCTGCAAATTATTCACAAGAAAACAGGGAGAA
66 AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
10781375 GAAATGCACGAGAAAT
131 GAAATGCACGAGAAAT
10781391 ATATAAACAA
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
146 71 0.51
147 58 0.42
148 10 0.07
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (148 bp):
CTCGAGTGCTAAACAACCAGCAAAGAAAAAAAGAGAACCATAGACTTCCCTGTTTTCACATTAAA
AACAAGAAAAGGAGACCACCCAGATGAAGAACAGCTGAAAATTATTCACAAGAAAACAGGGAGAA
GAAATGCACGAGAAATCG
Found at i:10788662 original size:21 final size:21
Alignment explanation
Indices: 10788622--10788663 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10788612 TTGATCGATG
*
10788622 GCTTAGCATGCAGCATGAAGA
1 GCTTACCATGCAGCATGAAGA
10788643 GCTTACCA-GCAGCATGGAAGA
1 GCTTACCATGCAGCAT-GAAGA
10788664 ATTAGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (21 bp):
GCTTACCATGCAGCATGAAGA
Found at i:10790910 original size:20 final size:21
Alignment explanation
Indices: 10790867--10790910 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
10790857 ACTTTCATCA
*
10790867 TTAAGCCTTAATTAAACATTT
1 TTAAGCCTTAATTAAACATAT
* *
10790888 TTAA-CCTTTATTAAACCTAT
1 TTAAGCCTTAATTAAACATAT
10790908 TTA
1 TTA
10790911 TAAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAGCCTTAATTAAACATAT
Found at i:10797209 original size:28 final size:29
Alignment explanation
Indices: 10797178--10797238 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
10797168 AAAATGAGAC
10797178 TTTTAGA-TACTCGAGGGC-AAAATGGTAA
1 TTTTAGACT-CTCGAGGGCAAAAATGGTAA
*
10797206 TTTTGGACTCTCGAGGGCAAAAATGGTAA
1 TTTTAGACTCTCGAGGGCAAAAATGGTAA
10797235 TTTT
1 TTTT
10797239 GGAAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (29 bp):
TTTTAGACTCTCGAGGGCAAAAATGGTAA
Found at i:10797237 original size:29 final size:28
Alignment explanation
Indices: 10797187--10797241 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
10797177 CTTTTAGATA
10797187 CTCGAGGGCAAAATGGTAATTTTGGACT
1 CTCGAGGGCAAAATGGTAATTTTGGACT
10797215 CTCGAGGGCAAAAATGGTAATTTTGGA
1 CTCGAGGGC-AAAATGGTAATTTTGGA
10797242 AAATTTTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (28 bp):
CTCGAGGGCAAAATGGTAATTTTGGACT
Found at i:10797432 original size:58 final size:60
Alignment explanation
Indices: 10797336--10797573 Score: 196
Period size: 58 Copynumber: 4.0 Consensus size: 60
10797326 TAAAACATCT
* * * * *
10797336 GGGGGTAAAAAGGTAA--TTTTGGAAGTGTCG-GGGTCAAAAATGAAATTTTTGGAAG-TTC
1 GGGGTTAAAAATGTAATTTTTTGTAAGT-TCGAGGG-CAAAAATGTAATTTTTGGAAGTTTA
* *
10797394 GGGGTTAAAAATGTAATTTTTTGT-AGTT-TAGTGGCAAAAATGTAATTTTTGGTAGTTTA
1 GGGGTTAAAAATGTAATTTTTTGTAAGTTCGAG-GGCAAAAATGTAATTTTTGGAAGTTTA
* *
10797453 GTGG--AAAAATTGTAA-TTTTTGTAAGTTCGAGGGC-AAAATGTAATTTTTGAAAGTTTTA
1 GGGGTTAAAAA-TGTAATTTTTTGTAAGTTCGAGGGCAAAAATGTAATTTTTGGAAG-TTTA
* * * *
10797511 -GGGTTAAAAATGTAA-TTTTAGAGAAGTTTGAGGGTC-AAAATATAATTTTTGGACAGTTTA
1 GGGGTTAAAAATGTAATTTTTTG-TAAGTTCGAGGG-CAAAAATGTAATTTTTGGA-AGTTTA
10797571 GGG
1 GGG
10797574 ACCTTTAGGG
Statistics
Matches: 148, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
57 31 0.21
58 61 0.41
59 27 0.18
60 25 0.17
61 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.37
Consensus pattern (60 bp):
GGGGTTAAAAATGTAATTTTTTGTAAGTTCGAGGGCAAAAATGTAATTTTTGGAAGTTTA
Found at i:10797569 original size:30 final size:29
Alignment explanation
Indices: 10797338--10797573 Score: 166
Period size: 29 Copynumber: 8.1 Consensus size: 29
10797328 AAACATCTGG
* * *
10797338 GGGTAAAAAGGTAA-TTTTGGAAGTGTCG-
1 GGGTCAAAATGTAATTTTTGGAAGT-TTGA
* *
10797366 GGGTCAAAAATGAAATTTTTGGAAGTTCG-
1 GGGTC-AAAATGTAATTTTTGGAAGTTTGA
* * *
10797395 GGGTTAAAAATGTAATTTTTTGTAGTTT-A
1 GGG-TCAAAATGTAATTTTTGGAAGTTTGA
*
10797424 GTGG-CAAAAATGTAATTTTTGGTAGTTT-A
1 G-GGTC-AAAATGTAATTTTTGGAAGTTTGA
* * *
10797453 GTGG-AAAAATTGTAATTTTTGTAAGTTCGA
1 G-GGTCAAAA-TGTAATTTTTGGAAGTTTGA
* *
10797483 GGG-CAAAATGTAATTTTTGAAAGTTTTA
1 GGGTCAAAATGTAATTTTTGGAAGTTTGA
* *
10797511 GGGTTAAAAATGTAATTTTAGAGAAGTTTGA
1 GGG-TCAAAATGTAATTTTTG-GAAGTTTGA
*
10797542 GGGTCAAAATATAATTTTTGGACAGTTT-A
1 GGGTCAAAATGTAATTTTTGGA-AGTTTGA
10797571 GGG
1 GGG
10797574 ACCTTTAGGG
Statistics
Matches: 171, Mismatches: 25, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
28 28 0.16
29 85 0.50
30 48 0.28
31 10 0.06
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTTGGAAGTTTGA
Found at i:10799632 original size:11 final size:11
Alignment explanation
Indices: 10799616--10799671 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
10799606 TTATAATAAT
10799616 ATTAAATTTAA
1 ATTAAATTTAA
*
10799627 ATTAAATTCAA
1 ATTAAATTTAA
10799638 ACTTAAA-TTAA
1 A-TTAAATTTAA
10799649 ATTAAAATTTAA
1 ATT-AAATTTAA
*
10799661 AATAAATTTAA
1 ATTAAATTTAA
10799672 TTTTAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.05
11 26 0.67
12 11 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10799633 original size:5 final size:5
Alignment explanation
Indices: 10799616--10799673 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
10799606 TTATAATAAT
*
10799616 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTAAA ATTTAA AATAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA ATT-AA A-TTAA ATTAA
*
10799666 ATTTA ATT
1 ATTAA ATT
10799674 TTAAAGTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 24 0.53
6 17 0.38
7 4 0.09
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:10799671 original size:28 final size:30
Alignment explanation
Indices: 10799612--10799692 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
10799602 AAATTTATAA
* *
10799612 TAATATTAAATTTAAA-TTAAATTCAAACT
1 TAATATTAAATTAAAATTTAAAATCAAACT
*
10799641 TAA-ATTAAATTAAAATTTAAAAT-AAATT
1 TAATATTAAATTAAAATTTAAAATCAAACT
* * *
10799669 TAATTTTAAAGTAAATTTTAAAAT
1 TAATATTAAATTAAAATTTAAAAT
10799693 GGTTTGGGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.41
29 26 0.59
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (30 bp):
TAATATTAAATTAAAATTTAAAATCAAACT
Found at i:10799676 original size:17 final size:17
Alignment explanation
Indices: 10799599--10799686 Score: 88
Period size: 17 Copynumber: 5.2 Consensus size: 17
10799589 TAATGGACAT
*
10799599 TTTAAATTTATAAT-AA
1 TTTAAATTTAAAATAAA
*
10799615 TATTAAATTTAAATTAAA
1 T-TTAAATTTAAAATAAA
* * *
10799633 TTCAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
10799650 TTAAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
10799667 TTTAATTTTAAAGTAAA
1 TTTAAATTTAAAATAAA
10799684 TTT
1 TTT
10799687 TAAAATGGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
16 1 0.02
17 56 0.93
18 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:10800389 original size:92 final size:91
Alignment explanation
Indices: 10800292--10800957 Score: 993
Period size: 92 Copynumber: 7.3 Consensus size: 91
10800282 GGTATCGAAG
* * *
10800292 CTTCATCTTGTTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTGCAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
10800357 CAAGAGGATAGGAATTTG-GTATCGAAG
66 CAAGAGGATAGGAA-TTGAGT-TTGAAA
* *
10800384 TTTCATCTTGCTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
10800449 CAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGA-GTTTGAAA
*
10800476 CTTCATCTTGCTCTTACTGCAACTTCAGAGAGATAAAGACTTGCTATCC-A--TTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
10800538 CAAGAGGATTGGAATTAATGTTTGAAA
66 CAAGAGGATAGGAATTGA-GTTTGAAA
* *
10800565 CTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
10800630 CAAGAGGATGGGAATTGATGTTTGAAC
66 CAAGAGGATAGGAATTGA-GTTTGAAA
* *
10800657 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCAATTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
10800722 CAAGAGGATAGGAATTGATGTTT-AAA
66 CAAGAGGATAGGAATTGA-GTTTGAAA
* *
10800748 GCTTCATCTTACTCTTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 -CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
10800813 TCAAGAGGATAAGG-ATTGATGTTTGAAA
65 TCAAGAGGAT-AGGAATTGA-GTTTGAAA
*
10800841 CTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
10800906 CAAGAGGATAGGGATTGATGTTTGAAG
66 CAAGAGGATAGGAATTGA-GTTTGAAA
* *
10800933 CTTTATCTTGCTTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTT
10800958 TAGACCTTTC
Statistics
Matches: 532, Mismatches: 33, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
89 83 0.16
90 1 0.00
91 9 0.02
92 431 0.81
93 8 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (91 bp):
CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
CAAGAGGATAGGAATTGAGTTTGAAA
Found at i:10800806 original size:40 final size:39
Alignment explanation
Indices: 10800762--10800911 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
10800752 CATCTTACTC
*
10800762 TTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACT
1 TTACTACAACTTCA-AGAGATAAAGACTTGCTATCCAACT
* **
10800802 TTACTACAACTTCAAGAGGATAAGGATTGATGTTTGAAACTTCATCTTACT
1 TTACTACAACTTCAAGA-GATAA--A--GA--CTTG---C-T-ATCCAACT
10800853 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACT
1 -TTACTACAACTTCA-AGAGATAAAGACTTGCTATCCAACT
10800894 TTACTACAACTTCAAGAG
1 TTACTACAACTTCAAGAG
10800912 GATAGGGATT
Statistics
Matches: 89, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
39 7 0.08
40 32 0.36
41 6 0.07
42 2 0.02
43 1 0.01
44 2 0.02
46 6 0.07
48 2 0.02
49 1 0.01
50 2 0.02
51 6 0.07
52 19 0.21
53 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (39 bp):
TTACTACAACTTCAAGAGATAAAGACTTGCTATCCAACT
Found at i:10801051 original size:50 final size:50
Alignment explanation
Indices: 10800993--10801122 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
10800983 AGGTACACAG
* * *
10800993 TCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTATTTTTGTGGTACTGGA
1 TCCGCCGTTGCGTCTTAGATCTTTCCCTTTCGTATTTTTGTGGTACTGGA
* * * *
10801043 TTCTCCGTTGCGGTCTTAGATCTTTCCC-GTCGTGTTTTTGTGGTACTGGA
1 TCCGCCGTTGC-GTCTTAGATCTTTCCCTTTCGTATTTTTGTGGTACTGGA
*
10801093 TCCGCCGTTGTGGTCTTAGATCTTTCCCTT
1 TCCGCCGTTG-CGTCTTAGATCTTTCCCTT
10801123 CGAATTTCAT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
50 52 0.79
51 14 0.21
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (50 bp):
TCCGCCGTTGCGTCTTAGATCTTTCCCTTTCGTATTTTTGTGGTACTGGA
Found at i:10802057 original size:12 final size:13
Alignment explanation
Indices: 10802009--10802058 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 13
10801999 GACCTCTCCT
10802009 TTTTTCTATT-TTG
1 TTTTTCT-TTCTTG
10802022 TTTTTC-TTCTTG
1 TTTTTCTTTCTTG
10802034 TTTTTGCATTTCTT-
1 TTTTT-C-TTTCTTG
10802048 TTTTTCTTTCT
1 TTTTTCTTTCT
10802059 CTTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.06
12 13 0.39
13 8 0.24
14 5 0.15
15 5 0.15
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTCTTTCTTG
Found at i:10803815 original size:11 final size:12
Alignment explanation
Indices: 10803789--10803816 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10803779 AATGAACGGT
10803789 AAAATGCATGCA
1 AAAATGCATGCA
10803801 AAAATGCATGCA
1 AAAATGCATGCA
10803813 AAAA
1 AAAA
10803817 GTCCTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAATGCATGCA
Found at i:10807792 original size:30 final size:29
Alignment explanation
Indices: 10807749--10808013 Score: 261
Period size: 29 Copynumber: 9.0 Consensus size: 29
10807739 TTGAAACATC
* *
10807749 CGGGGTTAAAATGGTAA-TTTTGGAAGTGT
1 CGGGGTAAAAAT-GTAATTTTTGGAAGTTT
*
10807778 CGGGGTCAAAAATGGAATTTTTGGAAG-TT
1 CGGGGT-AAAAATGTAATTTTTGGAAGTTT
10807807 CGGGGTTAAAAATGTAATTTTTGGAAGTTT
1 CGGGG-TAAAAATGTAATTTTTGGAAGTTT
*
10807837 GGGGGTAAAAATGTAATTTTTGGAAGTTT
1 CGGGGTAAAAATGTAATTTTTGGAAGTTT
* *
10807866 -GAGGGTAAAAATGTAATTGTTAGAAGTTT
1 CG-GGGTAAAAATGTAATTTTTGGAAGTTT
**
10807895 TAGGGTCAAAAATGTAATTTTT-GAA-TGTT
1 CGGGGT-AAAAATGTAATTTTTGGAAGT-TT
*
10807924 CGGGGGTAAAAATGTAATTTTTAGAAGTTT
1 C-GGGGTAAAAATGTAATTTTTGGAAGTTT
* ***
10807954 CGAGGTTAAAAATGTAATTTTCAAAAGTTT
1 CG-GGGTAAAAATGTAATTTTTGGAAGTTT
* * *
10807984 TGAGGTTAAAAATGTAATTTTGGAGAAGTT
1 CG-GGGTAAAAATGTAATTTTTG-GAAGTT
10808014 CAAGGTCAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.01
29 108 0.53
30 89 0.43
31 6 0.03
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
CGGGGTAAAAATGTAATTTTTGGAAGTTT
Found at i:10807800 original size:59 final size:58
Alignment explanation
Indices: 10807737--10807974 Score: 246
Period size: 59 Copynumber: 4.1 Consensus size: 58
10807727 AAAAACGAGA
* * * * *
10807737 TTTTGAAACATCCGGGGTTAAAATGGTAA-TTTTGGAAGTGTCGGGGTCAAAAATGGAAT
1 TTTTGAAA-GTCCGGGGTAAAAAT-GTAATTTTTAGAAGTTTCGGGGTCAAAAATGTAAT
* * * *
10807796 TTTTGGAAGTTCGGGGTTAAAAATGTAATTTTTGGAAGTTTGGGGGT-AAAAATGTAAT
1 TTTTGAAAGTCCGGGG-TAAAAATGTAATTTTTAGAAGTTTCGGGGTCAAAAATGTAAT
* ** * **
10807854 TTTTGGAAGTTTGAGGGTAAAAATGTAATTGTTAGAAGTTTTAGGGTCAAAAATGTAAT
1 TTTTGAAAGTCCG-GGGTAAAAATGTAATTTTTAGAAGTTTCGGGGTCAAAAATGTAAT
* * * *
10807913 TTTTGAATGTTCGGGGGTAAAAATGTAATTTTTAGAAGTTTCGAGGTTAAAAATGTAAT
1 TTTTGAAAG-TCCGGGGTAAAAATGTAATTTTTAGAAGTTTCGGGGTCAAAAATGTAAT
10807972 TTT
1 TTT
10807975 CAAAAGTTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
58 58 0.38
59 93 0.61
60 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (58 bp):
TTTTGAAAGTCCGGGGTAAAAATGTAATTTTTAGAAGTTTCGGGGTCAAAAATGTAAT
Found at i:10808025 original size:59 final size:58
Alignment explanation
Indices: 10807751--10808025 Score: 236
Period size: 59 Copynumber: 4.7 Consensus size: 58
10807741 GAAACATCCG
* * ** * * *
10807751 GGGTTAAAATGGTAATTTTG-GAAGTGTCGGGGTCAAAAATGGAATTTTTGGAAGTTCG-
1 GGGTAAAAAT-GTAATTTTGAGAAGTTTCAAGGT-AAAAATGTAATTTTTGAAAGTTTGA
*** *
10807809 GGGTTAAAAATGTAATTTTTG-GAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTGA
1 GGG-TAAAAATGTAA-TTTTGAGAAGTTTCAAGGTAAAAATGTAATTTTTGAAAGTTTGA
* * * * *
10807868 GGGTAAAAATGTAATTGTT-AGAAGTTTTAGGGTCAAAAATGTAATTTTTGAATGTTCGG
1 GGGTAAAAATGTAATT-TTGAGAAGTTTCAAGGT-AAAAATGTAATTTTTGAAAGTTTGA
* * **
10807927 GGGTAAAAATGTAATTTTTAGAAGTTTCGAGGTTAAAAATGTAATTTTCAAAAGTTTTGA
1 GGGTAAAAATGTAATTTTGAGAAGTTTCAAGG-TAAAAATGTAATTTTTGAAAG-TTTGA
* *
10807987 GGTTAAAAATGTAATTTTGGAGAAG-TTCAAGGTCAAAAT
1 GGGTAAAAATGTAATTTT-GAGAAGTTTCAAGGTAAAAAT
10808026 ACAATTTCTG
Statistics
Matches: 184, Mismatches: 23, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
57 2 0.01
58 55 0.30
59 95 0.52
60 27 0.15
61 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
GGGTAAAAATGTAATTTTGAGAAGTTTCAAGGTAAAAATGTAATTTTTGAAAGTTTGA
Found at i:10810099 original size:6 final size:6
Alignment explanation
Indices: 10810090--10810165 Score: 63
Period size: 6 Copynumber: 13.2 Consensus size: 6
10810080 TACAATAATA
* *
10810090 TTAAAT TTAAAAAT TCAAAC TTAAA- TTAAAT TTAAA- TTAAAT TTAAA-
1 TTAAAT TT--AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
10810137 TTAAA- TTAAA- TTAAAA TTAAAT TAAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
10810166 AATTTAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
5 25 0.42
6 30 0.50
8 5 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:10810126 original size:11 final size:11
Alignment explanation
Indices: 10810089--10810187 Score: 103
Period size: 11 Copynumber: 8.8 Consensus size: 11
10810079 TTACAATAAT
10810089 ATTAAATTTAAAA
1 ATTAAATTT--AA
*
10810102 ATTCAAACTTAA
1 ATT-AAATTTAA
10810114 ATTAAATTTAA
1 ATTAAATTTAA
10810125 ATTAAATTTAA
1 ATTAAATTTAA
10810136 ATTAAA-TTAA
1 ATTAAATTTAA
*
10810146 ATTAAAATTAA
1 ATTAAATTTAA
*
10810157 ATTAAAATT-A
1 ATTAAATTTAA
*
10810167 ATTTAATTTCAA
1 ATTAAATTT-AA
*
10810179 AGTAAATTT
1 ATTAAATTT
10810188 TAAAATGGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
10 18 0.24
11 37 0.49
12 13 0.17
13 3 0.04
14 5 0.07
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10810131 original size:16 final size:16
Alignment explanation
Indices: 10810100--10810187 Score: 90
Period size: 16 Copynumber: 5.4 Consensus size: 16
10810090 TTAAATTTAA
*
10810100 AAATTCAAACTTAAATT
1 AAATTTAAA-TTAAATT
10810117 AAATTTAAATTAAATTT
1 AAATTTAAATTAAA-TT
10810134 AAA-TTAAATTAAATT
1 AAATTTAAATTAAATT
*
10810149 AAAATTAAATTAAAATT
1 AAATTTAAATT-AAATT
* *
10810166 -AATTTAATTTCAAAGT
1 AAATTTAAATT-AAATT
10810182 AAATTT
1 AAATTT
10810188 TAAAATGGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
15 5 0.08
16 34 0.55
17 23 0.37
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (16 bp):
AAATTTAAATTAAATT
Found at i:10810166 original size:6 final size:5
Alignment explanation
Indices: 10810100--10810186 Score: 84
Period size: 5 Copynumber: 16.0 Consensus size: 5
10810090 TTAAATTTAA
10810100 AAATT CAAACTT AAATT AAATTT AAATT AAATTT AAATT AAATT AAATT
1 AAATT -AAA-TT AAATT AAA-TT AAATT AAA-TT AAATT AAATT AAATT
* * *
10810149 AAAATT AAATT AAAATT AATTT AATTT CAAAGT AAATT
1 -AAATT AAATT -AAATT AAATT AAATT -AAATT AAATT
10810187 TTAAAATGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
5 40 0.56
6 29 0.41
7 2 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:10816784 original size:16 final size:17
Alignment explanation
Indices: 10816741--10816788 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
10816731 TATTGAGAAA
10816741 AAAATGTAATACAAAAT
1 AAAATGTAATACAAAAT
**
10816758 AAAAT-TAAATA-ATTAT
1 AAAATGT-AATACAAAAT
10816774 AAAATGTAATACAAA
1 AAAATGTAATACAAA
10816789 TAATGCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAATGTAATACAAAAT
Found at i:10827708 original size:17 final size:17
Alignment explanation
Indices: 10827686--10827730 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
10827676 TCAGCCCTTG
10827686 CCAATGGACAAATAATT
1 CCAATGGACAAATAATT
10827703 CCAATGGACAAATAATT
1 CCAATGGACAAATAATT
*
10827720 CCCATGGACAA
1 CCAATGGACAA
10827731 CGGTGAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (17 bp):
CCAATGGACAAATAATT
Found at i:10828529 original size:16 final size:16
Alignment explanation
Indices: 10828508--10828541 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10828498 TCAATTGAAA
10828508 ATTCTCAATCTATGTT
1 ATTCTCAATCTATGTT
10828524 ATTCTCAATCTATGTT
1 ATTCTCAATCTATGTT
10828540 AT
1 AT
10828542 CAAATAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTCTCAATCTATGTT
Found at i:10830383 original size:168 final size:168
Alignment explanation
Indices: 10830105--10830623 Score: 860
Period size: 168 Copynumber: 3.1 Consensus size: 168
10830095 TCGAGGATGA
* *
10830105 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACAAATAAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
*
10830170 AACAATCAGCAGTTGACCAGCTCACAGGCTGGATTAGACTTCAATTTTACAGGTCATCCAAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
*
10830235 TACATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
131 TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
* *
10830273 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACCAATTCAGCACCAATGAGT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
* *
10830338 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCGTCCGAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
* *
10830403 TTCATCTTCCAAACCATGTCCAATGCCAGGGGTGATTG
131 TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
*
10830441 AAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
*
10830506 AACGATCAGCAGTTGACCAGCTCAC-GGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
10830570 TTCATCTTCCGGAGTCCAGACCATGTCCAATGCCAGGGGTGATAG
131 TTCATC-T------TCCAGACCATGTCCAATGCCAGGGGTGATAG
10830615 GAGGACAAC
1 GAGGACAAC
10830624 CATCATCTTC
Statistics
Matches: 325, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
167 43 0.13
168 245 0.75
174 37 0.11
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (168 bp):
GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCCGCATACAAATTCAGCACCAATGAAT
AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCAAATAG
TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
Found at i:10840440 original size:168 final size:168
Alignment explanation
Indices: 10840162--10840680 Score: 797
Period size: 168 Copynumber: 3.1 Consensus size: 168
10840152 GTCGAGGTGA
* * * *
10840162 GAGGACAACATCCATCACAACAGATTCAATCATCAGCTCTGCATTCTAATTCAGCACAAATGAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCTGCATACAAATTCAGCACCAATGAAT
* *
10840227 AACAATCAGCAGTTGACCAGCTCACAGGCTGGATTAGACTTCAATTTTACAGGTTATCCGAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCGAATAG
*
10840292 TACATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
131 TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
* *
10840330 GAGGACAACATCCATCACAACAGATTCAAGCATCAACTCTGCATACAAATTCAGCACCAATGAGT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCTGCATACAAATTCAGCACCAATGAAT
*
10840395 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCGTCCGAATAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCGAATAG
* *
10840460 TTCATCTTCCACACCATGTCCAATGCCAGGGGTGATTG
131 TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
* * **
10840498 AAGGACAACATCCATAACAACAGATTCAAGCATCAGCTCCACATACAAATTCAGCACCAATGAAT
1 GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCTGCATACAAATTCAGCACCAATGAAT
* * *
10840563 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCGATTTTACAGGTCAT-CAAAAAG
66 AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCGAATAG
10840627 TTCATCTTCCAGAGTCCAGACCATGTCCAATGCCAGGGGTGATAG
131 TTCATC-T------TCCAGACCATGTCCAATGCCAGGGGTGATAG
10840672 GAGGACAAC
1 GAGGACAAC
10840681 CATCATCTTC
Statistics
Matches: 319, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
167 11 0.03
168 271 0.85
174 37 0.12
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (168 bp):
GAGGACAACATCCATCACAACAGATTCAAGCATCAGCTCTGCATACAAATTCAGCACCAATGAAT
AACAATCAGCAGTTGACCAGCTCACAGGCTGGCTTAGACTTCAATTTTACAGGTCATCCGAATAG
TTCATCTTCCAGACCATGTCCAATGCCAGGGGTGATAG
Found at i:10845612 original size:24 final size:24
Alignment explanation
Indices: 10845580--10845625 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10845570 TCATTTAATT
*
10845580 TAATCGAACATGTTCATGAACATA
1 TAATCGAACATGTTCACGAACATA
*
10845604 TAATTGAACATGTTCACGAACA
1 TAATCGAACATGTTCACGAACA
10845626 ATGTTAATGA
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:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:10845655 original size:15 final size:15
Alignment explanation
Indices: 10845635--10845668 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10845625 AATGTTAATG
10845635 AATAATAAACAAATA
1 AATAATAAACAAATA
*
10845650 AATAATAAATAAATA
1 AATAATAAACAAATA
10845665 AATA
1 AATA
10845669 CACATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAACAAATA
Found at i:10846184 original size:22 final size:22
Alignment explanation
Indices: 10846147--10846212 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
10846137 AGGTCAAAAT
10846147 TAAA-TTATAATTTTTATAATAG
1 TAAATTTATAA-TTTTATAATAG
* **
10846169 TAAATTTATAATTTTATCATTT
1 TAAATTTATAATTTTATAATAG
*
10846191 TAATAGTTTATATTTTTATAAT
1 TAA-A-TTTATAATTTTATAAT
10846213 TTTTGAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 15 0.42
23 7 0.19
24 14 0.39
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
TAAATTTATAATTTTATAATAG
Found at i:10846256 original size:29 final size:31
Alignment explanation
Indices: 10846202--10846266 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
10846192 AATAGTTTAT
* *
10846202 ATTTTTATAATTTTTGAATGATTAAATTA-A
1 ATTTTTATAATTTTGGAATGATTAAAATACA
*
10846232 ATTTTTATCATTTTAGGAA-GA-TAAAATACA
1 ATTTTTATAATTTT-GGAATGATTAAAATACA
10846262 ATTTT
1 ATTTT
10846267 ATTTACTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.20
30 21 0.70
31 3 0.10
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (31 bp):
ATTTTTATAATTTTGGAATGATTAAAATACA
Found at i:10849619 original size:17 final size:17
Alignment explanation
Indices: 10849593--10849626 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10849583 TAAGAAATCT
10849593 TAAATTT-AAAATAATA
1 TAAATTTAAAAATAATA
10849609 TAAATTTTAAAAATAATA
1 TAAA-TTTAAAAATAATA
10849627 ATACGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 3 0.19
18 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAAATAATA
Found at i:10855977 original size:20 final size:19
Alignment explanation
Indices: 10855939--10855977 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10855929 AATGATATTC
* *
10855939 TTTATTTTATTTTATTTTT
1 TTTATTTTATTATACTTTT
10855958 TTTACTTTTATTATACTTTT
1 TTTA-TTTTATTATACTTTT
10855978 CTATTCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTTATTATACTTTT
Found at i:10855989 original size:19 final size:19
Alignment explanation
Indices: 10855967--10856006 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10855957 TTTTACTTTT
*
10855967 ATTATACTTTTCT-ATTCTA
1 ATTAAACTTTT-TGATTCTA
10855986 ATTAAACTTTTTGATTCTA
1 ATTAAACTTTTTGATTCTA
10856005 AT
1 AT
10856007 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTAAACTTTTTGATTCTA
Found at i:10856936 original size:18 final size:19
Alignment explanation
Indices: 10856905--10856947 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
10856895 TATCATGTCA
*
10856905 TAAATAAAATATAAATAAT
1 TAAATAAAACATAAATAAT
*
10856924 TAAA-AAAACATAAATTAT
1 TAAATAAAACATAAATAAT
10856942 TAAATA
1 TAAATA
10856948 TATCAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATAAAACATAAATAAT
Found at i:10860067 original size:9 final size:9
Alignment explanation
Indices: 10860053--10860107 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
10860043 TCTTTAGAAT
10860053 TTTTTAAAA
1 TTTTTAAAA
*
10860062 TTTTTATAA
1 TTTTTAAAA
10860071 TTTTTAAAA
1 TTTTTAAAA
* *
10860080 TATATAAAA
1 TTTTTAAAA
10860089 -TTTTAAAA
1 TTTTTAAAA
*
10860097 TTTTAAAAA
1 TTTTTAAAA
10860106 TT
1 TT
10860108 ATTTTGAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:10860097 original size:8 final size:8
Alignment explanation
Indices: 10860054--10860104 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
10860044 CTTTAGAATT
10860054 TTTTAAAA
1 TTTTAAAA
*
10860062 TTTTTATAAT
1 -TTTTA-AAA
10860072 TTTTAAAA
1 TTTTAAAA
*
10860080 TATATAAAA
1 T-TTTAAAA
10860089 TTTTAAAA
1 TTTTAAAA
10860097 TTTTAAAA
1 TTTTAAAA
10860105 ATTATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 17 0.47
9 17 0.47
10 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:10860126 original size:19 final size:20
Alignment explanation
Indices: 10860088--10860134 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10860078 AATATATAAA
*
10860088 ATTTTAAAATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
*
10860108 ATTTTGAAA-TTTGAAAATT
1 ATTTTGAAATTTTAAAAATT
*
10860127 GTTTTGAA
1 ATTTTGAA
10860135 TTTCTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:10860527 original size:9 final size:9
Alignment explanation
Indices: 10860513--10860576 Score: 74
Period size: 10 Copynumber: 6.6 Consensus size: 9
10860503 ATTTATTTAT
10860513 ATATTATTA
1 ATATTATTA
10860522 ATATTATTTA
1 ATATTA-TTA
10860532 TATATTATTA
1 -ATATTATTA
10860542 ATATTATTTA
1 ATATTA-TTA
*
10860552 TATATTATTCT
1 -ATATTATT-A
10860563 ATATTATTA
1 ATATTATTA
10860572 ATATT
1 ATATT
10860577 TTTTAATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
9 17 0.35
10 19 0.40
11 12 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATTATTA
Found at i:10860530 original size:20 final size:20
Alignment explanation
Indices: 10860505--10860618 Score: 119
Period size: 20 Copynumber: 5.7 Consensus size: 20
10860495 CTTTATATAT
10860505 TTATTTATATATTATTAATA
1 TTATTTATATATTATTAATA
10860525 TTATTTATATATTATTAATA
1 TTATTTATATATTATTAATA
*
10860545 TTATTTATATATTATTCTATA
1 TTATTTATATATTATT-AATA
* *
10860566 TTATTAATAT-TTTTTAATTTA
1 TTATTTATATATTATTAA--TA
10860587 TATAATTTATATA-TATTAA-A
1 T-T-ATTTATATATTATTAATA
*
10860607 -TATATATATATT
1 TTATTTATATATT
10860619 TAAATGATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 16
0.78 0.07 0.16
Matches are distributed among these distances:
17 8 0.10
18 2 0.03
19 1 0.01
20 41 0.51
21 15 0.19
22 1 0.01
23 12 0.15
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTTATATATTATTAATA
Found at i:10860575 original size:50 final size:50
Alignment explanation
Indices: 10860496--10860602 Score: 139
Period size: 50 Copynumber: 2.1 Consensus size: 50
10860486 GCATATTTTC
10860496 TTTATATATTTATTTATATATTATTAATATTATTTATATATTAT-TAATATTA
1 TTTATATATTTATTTATATATTATTAATATTATTTA-AT-TTATATAAT-TTA
* *
10860548 TTTATATA-TTA-TTCTATATTATTAATATTTTTTAATTTATATAATTTA
1 TTTATATATTTATTTATATATTATTAATATTATTTAATTTATATAATTTA
*
10860596 TATATAT
1 TTTATAT
10860603 TAAATATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 13 0.25
49 6 0.12
50 21 0.41
51 3 0.06
52 8 0.16
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (50 bp):
TTTATATATTTATTTATATATTATTAATATTATTTAATTTATATAATTTA
Found at i:10860614 original size:15 final size:16
Alignment explanation
Indices: 10860594--10860623 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10860584 TTATATAATT
10860594 TATATATA-TTAAATA
1 TATATATATTTAAATA
10860609 TATATATATTTAAAT
1 TATATATATTTAAAT
10860624 GATAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATATATTTAAATA
Found at i:10860801 original size:21 final size:21
Alignment explanation
Indices: 10860761--10860799 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10860751 AAATCATGGA
10860761 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
*
10860782 TAAATTCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
10860800 TCGTAGGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:10871281 original size:7 final size:7
Alignment explanation
Indices: 10871265--10871295 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
10871255 GCTTCAAAAC
10871265 AATT-CA
1 AATTCCA
10871271 AATTCCA
1 AATTCCA
10871278 AATTCCA
1 AATTCCA
10871285 AATTCCA
1 AATTCCA
10871292 AATT
1 AATT
10871296 AACGTCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTCCA
Found at i:10883015 original size:23 final size:24
Alignment explanation
Indices: 10882982--10883028 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
10882972 TAGAAATATA
10882982 AAAATTTAAAAAGT-ATTTAAAATT
1 AAAATTTAAAAA-TAATTTAAAATT
10883006 AAAA-TTAAAAATAATTTAAAATT
1 AAAATTTAAAAATAATTTAAAATT
10883029 TATGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.05
23 17 0.77
24 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAATTTAAAAATAATTTAAAATT
Found at i:10883067 original size:27 final size:27
Alignment explanation
Indices: 10883006--10883067 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
10882996 ATTTAAAATT
* *
10883006 AAAATTAAAAATAATTTAAAATTTATG
1 AAAATTATAAATAATTTAAAATTTATA
10883033 AAAA-TATAAA-AATTTCCAAAATTT-TA
1 AAAATTATAAATAATTT--AAAATTTATA
10883059 AAAATTATA
1 AAAATTATA
10883068 TTATTTACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 15 0.50
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAATTATAAATAATTTAAAATTTATA
Found at i:10887106 original size:107 final size:108
Alignment explanation
Indices: 10886984--10887203 Score: 302
Period size: 111 Copynumber: 2.0 Consensus size: 108
10886974 TCTGTGTTTT
* *
10886984 TTGGTATGGTATTTGATCTT-ATATAGTCTCACTTATGAATC-TGTTTTTTTCGATTC-TATGTG
1 TTGGTATGGTATTTGAT-TTCATATACTCTCACTTATGAATCTTGTTTTTTTCAATTCGT-TGTG
* *
10887046 TTGGTGTAGTGGTTCAAGTTTGAATTTTTAATCAAGTTTACATTC
64 TTGGTGTAGTGGTTCAAGCTTGAATTTTTAATCAAGTTAACATTC
* * * *
10887091 TTGGTATGGTATTTGATTTCATATTCTCTCGCTTATTAATCTTTTTTTTTTTTTCAATTCGTTGT
1 TTGGTATGGTATTTGATTTCATATACTCTCACTTATGAATC---TTGTTTTTTTCAATTCGTTGT
10887156 GTTGGTGTAGTGGTTCAAGCTTGAATTTTTAATCAAGTTAACATTC
63 GTTGGTGTAGTGGTTCAAGCTTGAATTTTTAATCAAGTTAACATTC
10887202 TT
1 TT
10887204 TTTAGAACAA
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
106 2 0.02
107 34 0.34
111 62 0.63
112 1 0.01
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.51
Consensus pattern (108 bp):
TTGGTATGGTATTTGATTTCATATACTCTCACTTATGAATCTTGTTTTTTTCAATTCGTTGTGTT
GGTGTAGTGGTTCAAGCTTGAATTTTTAATCAAGTTAACATTC
Found at i:10898398 original size:22 final size:22
Alignment explanation
Indices: 10898354--10898399 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10898344 TACTAAGTAT
**
10898354 TGATAACAGTTATTTGTTGAAG
1 TGATAACAGTTATTTGTAAAAG
10898376 TGATGAACA-TTATTTGTAAAAG
1 TGAT-AACAGTTATTTGTAAAAG
10898398 TG
1 TG
10898400 CGTTTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (22 bp):
TGATAACAGTTATTTGTAAAAG
Found at i:10902609 original size:20 final size:22
Alignment explanation
Indices: 10902580--10902626 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
10902570 TTTTTTATTT
10902580 AAAT-TATTAA-TTAT-AATTA
1 AAATATATTAACTTATCAATTA
*
10902599 AAATATATTAACTTATCAATTC
1 AAATATATTAACTTATCAATTA
10902621 AAATAT
1 AAATAT
10902627 TATAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 6 0.25
21 4 0.17
22 10 0.42
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATATATTAACTTATCAATTA
Found at i:10904470 original size:21 final size:21
Alignment explanation
Indices: 10904430--10904477 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
10904420 TATTAAACAT
*
10904430 TTTAAAAATATCAAAAAAT-A
1 TTTAAAAATATAAAAAAATAA
10904450 TTTAAAAA-ATAAAAATTAATAA
1 TTTAAAAATATAAAAA--AATAA
10904472 TTTAAA
1 TTTAAA
10904478 TTTGCCTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
20 8 0.33
21 3 0.12
22 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTAAAAATATAAAAAAATAA
Found at i:10913075 original size:20 final size:20
Alignment explanation
Indices: 10913050--10913098 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
10913040 CCTCCCTTAA
*
10913050 ATTATTTTATTTATAAGATT
1 ATTATTTTATTTATAAAATT
10913070 ATTATTTTATTTATAAAATT
1 ATTATTTTATTTATAAAATT
10913090 ATTATTTTA
1 ATTATTTTA
10913099 ATAAATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAAATT
Found at i:10913102 original size:17 final size:17
Alignment explanation
Indices: 10913048--10913103 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 17
10913038 TTCCTCCCTT
*
10913048 AAATTATT-TTATTTATA
1 AAATTATTATT-TTAATA
*
10913065 AGATTATTATTTTATTTATA
1 AAATTATTATTTTA---ATA
10913085 AAATTATTATTTTAATA
1 AAATTATTATTTTAATA
10913102 AA
1 AA
10913104 TAATTTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 14 0.44
18 2 0.06
20 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATTATTATTTTAATA
Found at i:10915178 original size:20 final size:20
Alignment explanation
Indices: 10915153--10915216 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
10915143 TGATGATTTT
10915153 AATAATTTTATATTTTAAAA
1 AATAATTTTATATTTTAAAA
* **
10915173 AATAATTTTAAATTGATTTTAA
1 AATAATTTTATATT--TTAAAA
10915195 AATAATTTTAATAATTTTAAAA
1 AATAATTTT-AT-ATTTTAAAA
10915217 TCATTTATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 13 0.38
22 17 0.50
23 1 0.03
24 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AATAATTTTATATTTTAAAA
Found at i:10915193 original size:11 final size:11
Alignment explanation
Indices: 10915171--10915222 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
10915161 TATATTTTAA
10915171 AAAATAATTTT
1 AAAATAATTTT
* *
10915182 AAATTGATTTT
1 AAAATAATTTT
10915193 AAAATAATTTT
1 AAAATAATTTT
10915204 --AATAATTTT
1 AAAATAATTTT
*
10915213 AAAATCATTT
1 AAAATAATTT
10915223 ATTGATATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 9 0.26
11 25 0.74
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:10915199 original size:22 final size:20
Alignment explanation
Indices: 10915153--10915222 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 20
10915143 TGATGATTTT
10915153 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTT--AA
*
10915173 AATAATTTTAAATTGATTTTAA
1 AATAATTTT-AA-TAATTTTAA
10915195 AATAATTTTAATAATTTTAA
1 AATAATTTTAATAATTTTAA
*
10915215 AATCATTT
1 AATAATTT
10915223 ATTGATATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 24 0.55
21 2 0.05
22 12 0.27
23 1 0.02
24 5 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
AATAATTTTAATAATTTTAA
Found at i:10917010 original size:55 final size:55
Alignment explanation
Indices: 10916891--10916995 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
10916881 ACTGTTTCTT
* * * * *
10916891 CTTCTTTTGAATTGATTGTTTATATGTTTGAATGGATTGTTATGTTGGAAAACTA
1 CTTCTTTTGAATCGATTGTTTATATGATTAAATCGATTATTATGTTGGAAAACTA
*
10916946 CTTCTTTTGAATCGATTGTTTATATGATTAAATCTATTATTATGTTGGAA
1 CTTCTTTTGAATCGATTGTTTATATGATTAAATCGATTATTATGTTGGAA
10916996 TACCGTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (55 bp):
CTTCTTTTGAATCGATTGTTTATATGATTAAATCGATTATTATGTTGGAAAACTA
Found at i:10918470 original size:17 final size:18
Alignment explanation
Indices: 10918444--10918477 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10918434 GTTTAATTTT
10918444 ATATAATTTT-TTTAAAA
1 ATATAATTTTATTTAAAA
*
10918461 ATATATTTTTATTTAAA
1 ATATAATTTTATTTAAA
10918478 GTTTTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATAATTTTATTTAAAA
Found at i:10919012 original size:58 final size:57
Alignment explanation
Indices: 10918950--10919068 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 57
10918940 AAAATGAGTT
*
10918950 GTTTATGAGTAATATTT-AAGAATAAAATTATATTTG-GATTTAAAAATATTTGGGTTTA
1 GTTTATAAGT-ATATTTGAAGAAT-AAATTATATTTGAG-TTTAAAAATATTTGGGTTTA
* *
10919008 GTTTATAAGTGTTTTTGAAGAATAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
1 GTTTATAAGTATATTTGAAGAATAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
10919065 GTTT
1 GTTT
10919069 GTTGATGGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (57 bp):
GTTTATAAGTATATTTGAAGAATAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
Found at i:10919330 original size:23 final size:23
Alignment explanation
Indices: 10919287--10919331 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10919277 AAAAAAATTC
**
10919287 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
10919310 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
10919332 ATTTGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:10922143 original size:77 final size:76
Alignment explanation
Indices: 10922016--10922167 Score: 241
Period size: 77 Copynumber: 2.0 Consensus size: 76
10922006 ATCAATACAG
**
10922016 AAGCCTTATCATTAGCTGAAGCAAAACATGTACACTTGGCAAAAGCAAGTTCTAGTGCAAAAGTT
1 AAGCCTTATCATTAGCTGAAGCAAAACATGTACACTTGGCAAAAGCAAGTT-TAGTGCAAAAAAT
10922081 GTCACCACCCAA
65 GTCACCACCCAA
** *
10922093 AAGCCTTATCATTAGCTGAAGCAAAACATGTATGCTTGGCCAAAGCAAGTTTAGTGCAAAAAATG
1 AAGCCTTATCATTAGCTGAAGCAAAACATGTACACTTGGCAAAAGCAAGTTTAGTGCAAAAAATG
*
10922158 TTACCACCCA
66 TCACCACCCA
10922168 TACTATGATA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 21 0.30
77 48 0.70
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (76 bp):
AAGCCTTATCATTAGCTGAAGCAAAACATGTACACTTGGCAAAAGCAAGTTTAGTGCAAAAAATG
TCACCACCCAA
Found at i:10926031 original size:18 final size:18
Alignment explanation
Indices: 10926010--10926046 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10926000 TTTTTGAAAA
*
10926010 TATAAATTTTGGAATTTT
1 TATAAATATTGGAATTTT
*
10926028 TATAAATATTGTAATTTT
1 TATAAATATTGGAATTTT
10926046 T
1 T
10926047 GCTGAGAGAG
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:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (18 bp):
TATAAATATTGGAATTTT
Done.