Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 103 of 120
Found at i:29761262 original size:19 final size:19
Alignment explanation
Indices: 29761224--29761263 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29761214 GGTTTTATGA
* **
29761224 TTCGAGTTTAGGGTTTAGG
1 TTCGAGGTTAGGGTCAAGG
29761243 TTCGAGGTTAGGGTCAAGG
1 TTCGAGGTTAGGGTCAAGG
29761262 TT
1 TT
29761264 TTGGGTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.38, T:0.38
Consensus pattern (19 bp):
TTCGAGGTTAGGGTCAAGG
Found at i:29761876 original size:17 final size:17
Alignment explanation
Indices: 29761854--29761886 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29761844 AAAATTTTCA
*
29761854 TTTAAATTTTTAAATTT
1 TTTAAAATTTTAAATTT
29761871 TTTAAAATTTTAAATT
1 TTTAAAATTTTAAATT
29761887 AATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAAATTTTAAATTT
Found at i:29761962 original size:22 final size:20
Alignment explanation
Indices: 29761926--29761988 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
29761916 TTAAAAACGA
*
29761926 TAAAATTTTAATTTAATTTT
1 TAAAATTATAATTTAATTTT
* * *
29761946 TAATAATTATACTTTTACTATTA
1 TAA-AATTATA-ATTTAAT-TTT
29761969 TAAAATTATAATTTAATTTT
1 TAAAATTATAATTTAATTTT
29761989 GATCTCCCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.15
21 11 0.33
22 12 0.36
23 5 0.15
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAATTATAATTTAATTTT
Found at i:29764722 original size:292 final size:292
Alignment explanation
Indices: 29764191--29764738 Score: 965
Period size: 292 Copynumber: 1.9 Consensus size: 292
29764181 CGAAAGGGAG
*
29764191 TGCTTATATGATTCTGATTTGTAGTCTTGCAATGGAGCAAAGGCTTGATGATGCCATTGATGTTG
1 TGCTTATATGATTCTGATTTGTAGTCTTGCAAGGGAGCAAAGGCTTGATGATGCCATTGATGTTG
*
29764256 TTTACGATATGTTGGAAAATTCGATGGCGCCGGATTTATTGACTTATAAGACCGTATTGGAAGAG
66 TTTAAGATATGTTGGAAAATTCGATGGCGCCGGATTTATTGACTTATAAGACCGTATTGGAAGAG
*
29764321 TTGTGTAGGAGAGGGAAGAGTAATGATGCTTTTGAATTGCTCGAGGAGTGGAAGAAGAGGGATTT
131 TTGTGTAGGAGAGGGAAGAGTAATGATGCTTTTGAATTGCTCAAGGAGTGGAAGAAGAGGGATTT
* * * *
29764386 GTCTATGGGCCAAAAGAATTATCGCATTTTGGTGAATGCCTTGCATTGTAAGAATCGAGAATGAC
196 GTCTATGGGCCAAAAGAATTACCGCATTTTGATGAATACCTTGCATTGTAAGAATCAAGAATGAC
29764451 CGGTCTCTATGGTCCAAAAACGAAGTGGTTCT
261 CGGTCTCTATGGTCCAAAAACGAAGTGGTTCT
*
29764483 TGCTTATATGATTCTGATTTGTAG-CATTGCAAGGGAGCAAAGGCTTGATGATGCTATTGATGTT
1 TGCTTATATGATTCTGATTTGTAGTC-TTGCAAGGGAGCAAAGGCTTGATGATGCCATTGATGTT
**
29764547 GTTTAAGATATGTTGGAAAATTCGATGGCGCCTTATTTATTGACTTATAAGACCGTATTGGAAGA
65 GTTTAAGATATGTTGGAAAATTCGATGGCGCCGGATTTATTGACTTATAAGACCGTATTGGAAGA
*
29764612 GTTGTGTAGTG-GAGGGAAGAGTAATGATGCTTTTGAATTGCTCAAGGATTGGAAGAAGAGGGAT
130 GTTGTGTAG-GAGAGGGAAGAGTAATGATGCTTTTGAATTGCTCAAGGAGTGGAAGAAGAGGGAT
29764676 TTGTCTATGGGCCAAAAGAATTACCGCATTTTGATGAATACCTTGCATTGTAAGAATCAAGAA
194 TTGTCTATGGGCCAAAAGAATTACCGCATTTTGATGAATACCTTGCATTGTAAGAATCAAGAA
29764739 CGAATTTTCT
Statistics
Matches: 243, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
291 1 0.00
292 241 0.99
293 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (292 bp):
TGCTTATATGATTCTGATTTGTAGTCTTGCAAGGGAGCAAAGGCTTGATGATGCCATTGATGTTG
TTTAAGATATGTTGGAAAATTCGATGGCGCCGGATTTATTGACTTATAAGACCGTATTGGAAGAG
TTGTGTAGGAGAGGGAAGAGTAATGATGCTTTTGAATTGCTCAAGGAGTGGAAGAAGAGGGATTT
GTCTATGGGCCAAAAGAATTACCGCATTTTGATGAATACCTTGCATTGTAAGAATCAAGAATGAC
CGGTCTCTATGGTCCAAAAACGAAGTGGTTCT
Found at i:29767199 original size:25 final size:23
Alignment explanation
Indices: 29767149--29767194 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
29767139 GGTTTTTTTT
*
29767149 TTTTTTTTTTAATATTAATATAA
1 TTTTTTATTTAATATTAATATAA
29767172 TTTTTTATTTAATATTAATATAA
1 TTTTTTATTTAATATTAATATAA
29767195 AATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTTTATTTAATATTAATATAA
Found at i:29772667 original size:18 final size:18
Alignment explanation
Indices: 29772644--29772682 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
29772634 TTGATTAAAC
29772644 TGATTAAATCAGTTGGAT
1 TGATTAAATCAGTTGGAT
29772662 TGATTAAATCAGTTGGAT
1 TGATTAAATCAGTTGGAT
29772680 TGA
1 TGA
29772683 AAATAGATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (18 bp):
TGATTAAATCAGTTGGAT
Found at i:29774744 original size:17 final size:18
Alignment explanation
Indices: 29774712--29774752 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
29774702 TCCGAAAAAT
29774712 CTATTATCAAAAAATAGAA
1 CTATTATC-AAAAATAGAA
29774731 CTATTATC-AAAATAGAA
1 CTATTATCAAAAATAGAA
29774748 CTATT
1 CTATT
29774753 TTCATTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (18 bp):
CTATTATCAAAAATAGAA
Found at i:29776220 original size:19 final size:19
Alignment explanation
Indices: 29776193--29776238 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29776183 CATAAATATT
* * *
29776193 TTTTTAATTATTATTTAGA
1 TTTTAAATTAATATTTAAA
29776212 TTTTAAATTAATATTTAAA
1 TTTTAAATTAATATTTAAA
*
29776231 TTTAAAAT
1 TTTTAAAT
29776239 GATTTAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAAATTAATATTTAAA
Found at i:29778485 original size:15 final size:15
Alignment explanation
Indices: 29778461--29778493 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29778451 CAGCCTTGAC
29778461 TTTTATTTTT-ATTT
1 TTTTATTTTTAATTT
29778475 TTTTAATTTTTAATTT
1 TTTT-ATTTTTAATTT
29778491 TTT
1 TTT
29778494 CTGTCACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTAATTT
Found at i:29781566 original size:2 final size:2
Alignment explanation
Indices: 29781561--29781590 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29781551 AAAAAGATAC
29781561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29781591 TCATACAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29786514 original size:21 final size:20
Alignment explanation
Indices: 29786481--29786523 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
29786471 CCCTATTAAT
29786481 ATGAAAAAAAAATAACTATTA
1 ATGAAAAAAAAATAAC-ATTA
** *
29786502 ATGAAAACCAAATAGCATTA
1 ATGAAAAAAAAATAACATTA
29786522 AT
1 AT
29786524 TTTAGCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (20 bp):
ATGAAAAAAAAATAACATTA
Found at i:29793142 original size:6 final size:6
Alignment explanation
Indices: 29793131--29793155 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29793121 TAATTTAATC
29793131 ATTATA ATTATA ATTATA ATTATA A
1 ATTATA ATTATA ATTATA ATTATA A
29793156 ACTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:29799686 original size:22 final size:22
Alignment explanation
Indices: 29799661--29799704 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29799651 AAAATATATC
*
29799661 ATTAATTTTTTTAAAAAATTAA
1 ATTAATTTGTTTAAAAAATTAA
* *
29799683 ATTAATTTGTTTATATAATTAA
1 ATTAATTTGTTTAAAAAATTAA
29799705 TGACTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTAATTTGTTTAAAAAATTAA
Found at i:29799813 original size:18 final size:18
Alignment explanation
Indices: 29799780--29799814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29799770 ATCTTTATTA
* *
29799780 AGTTTTTATATTTTTTTG
1 AGTTTTTAAATATTTTTG
29799798 AGTTTTTAAATATTTTT
1 AGTTTTTAAATATTTTT
29799815 ATAAAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
AGTTTTTAAATATTTTTG
Found at i:29800536 original size:24 final size:23
Alignment explanation
Indices: 29800493--29800539 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
29800483 ATGTTCTAGA
* *
29800493 AAATTTTTAATTTTTTTAAATAT
1 AAATTTTGAATTTTTATAAATAT
29800516 AAATTTTAGAATTTTTATAAATAT
1 AAATTTT-GAATTTTTATAAATAT
29800540 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AAATTTTGAATTTTTATAAATAT
Found at i:29807000 original size:11 final size:11
Alignment explanation
Indices: 29806986--29807038 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
29806976 TGTTGTTTTG
29806986 TTATTATTTCA
1 TTATTATTTCA
*
29806997 TTATTATTTTA
1 TTATTATTTCA
* *
29807008 TTATCATTTCT
1 TTATTATTTCA
*
29807019 TTATTATATT-G
1 TTATTAT-TTCA
29807030 TTATTATTT
1 TTATTATTT
29807039 TATTGTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 2 0.06
11 31 0.89
12 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (11 bp):
TTATTATTTCA
Found at i:29807006 original size:22 final size:22
Alignment explanation
Indices: 29806981--29807038 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
29806971 TTTGTTGTTG
29806981 TTTTGTTATTATTTCATTATTA
1 TTTTGTTATTATTTCATTATTA
* * *
29807003 TTTTATTATCATTTCTTTATTA
1 TTTTGTTATTATTTCATTATTA
*
29807025 TATTGTTATTATTT
1 TTTTGTTATTATTT
29807039 TATTGTTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTTGTTATTATTTCATTATTA
Found at i:29807062 original size:18 final size:18
Alignment explanation
Indices: 29807039--29807088 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
29807029 GTTATTATTT
29807039 TATTGTTAATTGTTT-TGA
1 TATTGTTAATT-TTTGTGA
**
29807057 TATTGTATAATTTTTGTTT
1 TATTGT-TAATTTTTGTGA
29807076 TATTGTTAATTTT
1 TATTGTTAATTTT
29807089 ACTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (18 bp):
TATTGTTAATTTTTGTGA
Found at i:29807228 original size:14 final size:13
Alignment explanation
Indices: 29807198--29807248 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
29807188 AATTATTTTA
29807198 ATATTTTT-TATT
1 ATATTTTTATATT
*
29807210 GTATTTGTTATATT
1 ATATTT-TTATATT
*
29807224 ATATTTTTTAAATT
1 ATA-TTTTTATATT
29807238 -TATTTTTATAT
1 ATATTTTTATAT
29807249 AAGAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 13 0.41
13 4 0.12
14 12 0.38
15 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (13 bp):
ATATTTTTATATT
Found at i:29810190 original size:28 final size:30
Alignment explanation
Indices: 29810150--29810205 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
29810140 ACGTAAAATT
* *
29810150 TAAAATATAAAAAGTAAAATACTAAATTCC
1 TAAAATATAAAAAATAAAAAACTAAATTCC
29810180 TAAAA-AT-AAAAATAAAAAACTAAATT
1 TAAAATATAAAAAATAAAAAACTAAATT
29810206 ATAAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 2 0.08
30 5 0.21
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (30 bp):
TAAAATATAAAAAATAAAAAACTAAATTCC
Found at i:29810599 original size:30 final size:30
Alignment explanation
Indices: 29810565--29810626 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
29810555 CAATAAGGTC
29810565 CTTCCATTATTAAAATTGCTAATATAACAA
1 CTTCCATTATTAAAATTGCTAATATAACAA
29810595 CTTCCATTATTAAAATTGCTAATATAACAA
1 CTTCCATTATTAAAATTGCTAATATAACAA
29810625 CT
1 CT
29810627 AAATGAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (30 bp):
CTTCCATTATTAAAATTGCTAATATAACAA
Found at i:29814268 original size:20 final size:18
Alignment explanation
Indices: 29814232--29814281 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
29814222 ACTTTTAGAC
29814232 ATAAAT-AATAAAATA-T
1 ATAAATAAATAAAATATT
*
29814248 A-AATATTAATAAAATATT
1 ATAA-ATAAATAAAATATT
29814266 ATAAATAAATAAAATA
1 ATAAATAAATAAAATA
29814282 AGGCGAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 3 0.10
17 9 0.31
18 13 0.45
19 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAAATAAAATATT
Found at i:29816786 original size:19 final size:19
Alignment explanation
Indices: 29816762--29816799 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29816752 AAATAGGATC
29816762 TAATGTTATTTTTATAATT
1 TAATGTTATTTTTATAATT
*
29816781 TAATGTTGTTTTTATAATT
1 TAATGTTATTTTTATAATT
29816800 GAATTATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TAATGTTATTTTTATAATT
Found at i:29818883 original size:35 final size:35
Alignment explanation
Indices: 29818837--29818908 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
29818827 CAATACCCAA
29818837 TCGGCAATCAATTTTTTTCTTTGTAACCTCAATTC
1 TCGGCAATCAATTTTTTTCTTTGTAACCTCAATTC
* *
29818872 TCGGCATTCAATTTTTTTCTTTGTAACCTCGATTC
1 TCGGCAATCAATTTTTTTCTTTGTAACCTCAATTC
29818907 TC
1 TC
29818909 TATGATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.47
Consensus pattern (35 bp):
TCGGCAATCAATTTTTTTCTTTGTAACCTCAATTC
Found at i:29821895 original size:14 final size:14
Alignment explanation
Indices: 29821860--29821939 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 14
29821850 AAATATTTTG
29821860 AAATTAAAAAATA-
1 AAATTAAAAAATAT
**
29821873 AAAAAAAAAAATAT
1 AAATTAAAAAATAT
*
29821887 AAATTAAAATATAT
1 AAATTAAAAAATAT
*
29821901 GTAA-T-AAAAATATT
1 -AAATTAAAAAATA-T
*
29821915 AAATTAAGAAAT-T
1 AAATTAAAAAATAT
29821928 ACAATTAAAAAA
1 A-AATTAAAAAA
29821940 CATTAAAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
13 21 0.41
14 23 0.45
15 7 0.14
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (14 bp):
AAATTAAAAAATAT
Found at i:29843435 original size:17 final size:17
Alignment explanation
Indices: 29843391--29843435 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
29843381 AAACATTAGT
*
29843391 AATGTTTTTATCTCAAA
1 AATGTTTTTGTCTCAAA
*
29843408 AGTGTTTTTTGTCTCAAA
1 AATG-TTTTTGTCTCAAA
29843426 AATGTTTTTG
1 AATGTTTTTG
29843436 AGAAGCGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (17 bp):
AATGTTTTTGTCTCAAA
Found at i:29846503 original size:88 final size:88
Alignment explanation
Indices: 29846400--29846615 Score: 231
Period size: 88 Copynumber: 2.4 Consensus size: 88
29846390 TTAATGGTGT
* * * *
29846400 AAAAAGTCTTT-AAATTTTTTCAAGAAAAGTAATTAAGTTTATGTTTTTTTTTTCATTCAATTGG
1 AAAAAGT-TTTCAAATTTTTTCAAAAAAAGTAATTAAGTTTAT-ATTTTTTTTACACTCAATTGG
*
29846464 GTACTTGAAC-TCAAAATGCATAAA
64 GTACTTAAACTTCAAAATGCATAAA
** * *
29846488 AAAAAGTTTTCAAATTTTTTCAAAAAAAACAATTAAGCCCTTATATTTTTTTTACACTCAATTTG
1 AAAAAGTTTTCAAATTTTTTCAAAAAAAGTAATTAAG--TTTATATTTTTTTTACACTCAATTGG
*
29846553 GTATTTAAACTTTCAAAATGCATAAA
64 GTACTTAAAC-TTCAAAATGCATAAA
* * * **
29846579 AAAGA-TTCTCAAAATTTTAAAAAAAAAGTAATTAAGT
1 AAAAAGTTTTCAAATTTTTTCAAAAAAAGTAATTAAGT
29846616 CCCTGATTTT
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
87 3 0.03
88 30 0.29
89 25 0.24
90 29 0.28
91 18 0.17
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (88 bp):
AAAAAGTTTTCAAATTTTTTCAAAAAAAGTAATTAAGTTTATATTTTTTTTACACTCAATTGGGT
ACTTAAACTTCAAAATGCATAAA
Found at i:29846627 original size:90 final size:90
Alignment explanation
Indices: 29846424--29846629 Score: 224
Period size: 89 Copynumber: 2.3 Consensus size: 90
29846414 TTTTTTCAAG
*** * * *
29846424 AAAAGTAATTAAGTTTATG-TTTTTTTTTTCATTCAATTGGGTACTTGAACTCAAAATGCATAAA
1 AAAAGTAATTAAGTCCCTGATTTTTTTTTACACTCAATTGGGTACTTAAACTCAAAATGCATAAA
* * *
29846488 AAAAAGTTTTCAAATTTTTTCAAAA
66 AAAAAGTTCTCAAATATTTTAAAAA
* * * *
29846513 AAAA-CAATTAAG-CCCTTATATTTTTTTTACACTCAATTTGGTATTTAAACTTTCAAAATGCAT
1 AAAAGTAATTAAGTCCCTGAT-TTTTTTTTACACTCAATTGGGTACTTAAAC--TCAAAATGCAT
*
29846576 AAAAAAGA-TTCTCAAA-ATTTTAAAAA
63 AAAAAAAAGTTCTCAAATATTTTAAAAA
29846602 AAAAGTAATTAAGTCCCTGATTTTTTTT
1 AAAAGTAATTAAGTCCCTGATTTTTTTT
29846630 CTAGAATACT
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
87 1 0.01
88 8 0.08
89 41 0.43
90 21 0.22
91 24 0.25
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (90 bp):
AAAAGTAATTAAGTCCCTGATTTTTTTTTACACTCAATTGGGTACTTAAACTCAAAATGCATAAA
AAAAAGTTCTCAAATATTTTAAAAA
Found at i:29846742 original size:10 final size:9
Alignment explanation
Indices: 29846704--29846864 Score: 80
Period size: 9 Copynumber: 17.3 Consensus size: 9
29846694 GACATGTGGC
*
29846704 AAAAATGAT
1 AAAAATTAT
29846713 AAAAA-TA-
1 AAAAATTAT
*
29846720 AAAAATAAT
1 AAAAATTAT
*
29846729 AAAAGTTAT
1 AAAAATTAT
29846738 AAAAATTATT
1 AAAAATTA-T
**
29846748 AAATTTTTAT
1 AAA-AATTAT
*
29846758 AAAAATATAA
1 AAAAAT-TAT
29846768 AAAACATT-T
1 AAAA-ATTAT
**
29846777 AAATTTTATT
1 AAAAATTA-T
*
29846787 AAAAATTAA
1 AAAAATTAT
29846796 AAAATATTAT
1 AAAA-ATTAT
**
29846806 AAAAATCGT
1 AAAAATTAT
29846815 AAAAATTAT
1 AAAAATTAT
29846824 -AAAATATAT
1 AAAAAT-TAT
* *
29846833 AGAAATATAGA
1 AAAAAT-TA-T
29846844 AAAAATTA-
1 AAAAATTAT
29846852 AAAAATTTAT
1 AAAAA-TTAT
29846862 AAA
1 AAA
29846865 GTCGTAAGAA
Statistics
Matches: 114, Mismatches: 24, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
7 5 0.04
8 14 0.12
9 43 0.38
10 42 0.37
11 10 0.09
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29846759 original size:29 final size:26
Alignment explanation
Indices: 29846727--29846804 Score: 68
Period size: 29 Copynumber: 2.8 Consensus size: 26
29846717 ATAAAAAATA
29846727 ATAAAAGTTATAAAAATTATTAAATTTTT
1 ATAAAA-TTATAAAAA-TATTAAA-TTTT
* *
29846756 ATAAAAATATAAAAAACATTTAAATTTT
1 ATAAAATTAT-AAAAATA-TTAAATTTT
29846784 ATTAAAAATTA-AAAAATATTA
1 A-T-AAAATTATAAAAATATTA
29846805 TAAAAATCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
27 3 0.07
28 15 0.37
29 17 0.41
30 6 0.15
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (26 bp):
ATAAAATTATAAAAATATTAAATTTT
Found at i:29846783 original size:28 final size:29
Alignment explanation
Indices: 29846746--29846808 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
29846736 ATAAAAATTA
29846746 TTAAATTTTTA-TAAAAATATAAAAAACAT
1 TTAAATTTTTATTAAAAAT-TAAAAAACAT
*
29846775 TTAAA-TTTTATTAAAAATTAAAAAATAT
1 TTAAATTTTTATTAAAAATTAAAAAACAT
29846803 TATAAA
1 T-TAAA
29846809 AATCGTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TTAAATTTTTATTAAAAATTAAAAAACAT
Found at i:29846808 original size:29 final size:29
Alignment explanation
Indices: 29846757--29846864 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
29846747 TAAATTTTTA
* * *
29846757 TAAAAATATAAAAAACATT-TAAATTTTAT
1 TAAAAAT-TAAAAAATATTATAAATTATAG
* *
29846786 TAAAAATTAAAAAATATTATAAA-AATCG
1 TAAAAATTAAAAAATATTATAAATTATAG
* *
29846814 TAAAAATTATAAAATA-TATAGAAATATAG
1 TAAAAATTAAAAAATATTATA-AATTATAG
*
29846843 AAAAAATTAAAAAAT-TTATAAA
1 TAAAAATTAAAAAATATTATAAA
29846865 GTCGTAAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 4 0.06
28 30 0.46
29 31 0.48
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
TAAAAATTAAAAAATATTATAAATTATAG
Found at i:29846877 original size:28 final size:27
Alignment explanation
Indices: 29846787--29846879 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 27
29846777 AAATTTTATT
29846787 AAAAATTAAAAAATATTATAAAAATCGT-
1 AAAAATTAAAAAAT-TTAT-AAAATCGTA
* * *
29846815 AAAAATTATAAAATATATAGAAAT-ATAGA
1 AAAAATTAAAAAATTTATA-AAATCGT--A
*
29846844 AAAAATTAAAAAATTTATAAAGTCGTA
1 AAAAATTAAAAAATTTATAAAATCGTA
29846871 AGAAAATTA
1 A-AAAATTA
29846880 TAGAAAAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
26 2 0.04
27 9 0.17
28 23 0.44
29 18 0.35
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.28
Consensus pattern (27 bp):
AAAAATTAAAAAATTTATAAAATCGTA
Found at i:29846894 original size:40 final size:39
Alignment explanation
Indices: 29846833--29846925 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
29846823 TAAAATATAT
* *
29846833 AGAAATATAGAAAAAATT-AAAAAATTTATAAAGTCGTAAGA
1 AGAATTATAG-AAAAATTAAAAAAATATA-AAAGTCGTAA-A
*
29846874 A-AATTATAGAAAAATGTAAAAAAATATAAAATTCGTAAA
1 AGAATTATAGAAAAAT-TAAAAAAATATAAAAGTCGTAAA
29846913 AGAATTATA-AAAA
1 AGAATTATAGAAAA
29846926 TTATCGTACT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
39 12 0.26
40 24 0.52
41 10 0.22
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (39 bp):
AGAATTATAGAAAAATTAAAAAAATATAAAAGTCGTAAA
Found at i:29846904 original size:9 final size:9
Alignment explanation
Indices: 29846787--29846904 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 9
29846777 AAATTTTATT
29846787 AAAAAT-TA
1 AAAAATATA
29846795 AAAAATATTA
1 AAAAATA-TA
*
29846805 TAAAAATCGTA
1 -AAAAAT-ATA
*
29846816 AAAATTATA
1 AAAAATATA
*
29846825 AAATATATA
1 AAAAATATA
* *
29846834 GAAATATAGA
1 -AAAAATATA
29846844 AAAAAT-TA
1 AAAAATATA
*
29846852 AAAAATTTA
1 AAAAATATA
* * *
29846861 TAAAGTCGTA
1 AAAAAT-ATA
29846871 AGAAAATTATA
1 A-AAAA-TATA
*
29846882 GAAAAATGTAA
1 -AAAAATAT-A
29846893 AAAAATATA
1 AAAAATATA
29846902 AAA
1 AAA
29846905 TTCGTAAAAG
Statistics
Matches: 83, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
8 13 0.16
9 24 0.29
10 26 0.31
11 18 0.22
12 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:29847152 original size:11 final size:11
Alignment explanation
Indices: 29847136--29847161 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29847126 AAGTTTACAA
29847136 TTTTTTCTAAT
1 TTTTTTCTAAT
29847147 TTTTTTCTAAT
1 TTTTTTCTAAT
29847158 TTTT
1 TTTT
29847162 AATAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTCTAAT
Found at i:29847200 original size:21 final size:19
Alignment explanation
Indices: 29847154--29847202 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
29847144 AATTTTTTTC
29847154 TAATTTTTAATAAATTATA
1 TAATTTTTAATAAATTATA
*
29847173 TATTTTTTAATTAAAATT-TAA
1 TAATTTTTAA-T-AAATTAT-A
29847194 TAATTTTTA
1 TAATTTTTA
29847203 TAATTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 9 0.36
20 2 0.08
21 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTTTTAATAAATTATA
Found at i:29851933 original size:21 final size:21
Alignment explanation
Indices: 29851899--29851939 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
29851889 TTACCCCAAA
*
29851899 CCCCTAAACATTTTTATTTTTC
1 CCCCAAAACA-TTTTATTTTTC
29851921 CCCCAAAAC-TTTTATTTTT
1 CCCCAAAACATTTTATTTTT
29851940 TCCTTTCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (21 bp):
CCCCAAAACATTTTATTTTTC
Found at i:29852547 original size:38 final size:37
Alignment explanation
Indices: 29852477--29852551 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
29852467 CAATTTCATA
*
29852477 TTTTATCTTTAAAATAATTTTTTATTAAAAAATCACAT
1 TTTTATATTTAAAATAATTTTTTATTAAAAAAT-ACAT
* **
29852515 TTTTATATTTAATAT-ATTTTTTAATTTCAAAATACAT
1 TTTTATATTTAAAATAATTTTTT-ATTAAAAAATACAT
29852552 AATGACAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (37 bp):
TTTTATATTTAAAATAATTTTTTATTAAAAAATACAT
Found at i:29855010 original size:45 final size:45
Alignment explanation
Indices: 29854941--29855031 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
29854931 TATTGGTTTC
*
29854941 TTTTCTCACTGTTTTTGAATCCAATCCTTATGAGAGATAATATAT
1 TTTTCTCACTGTTTTCGAATCCAATCCTTATGAGAGATAATATAT
* *
29854986 TTTTGTCACTGTTTTCGAATCCAATCCTTGTGAGAGATAATATAT
1 TTTTCTCACTGTTTTCGAATCCAATCCTTATGAGAGATAATATAT
29855031 T
1 T
29855032 AGAAATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTTCTCACTGTTTTCGAATCCAATCCTTATGAGAGATAATATAT
Found at i:29859748 original size:21 final size:22
Alignment explanation
Indices: 29859717--29859757 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
29859707 AAAATTATAT
*
29859717 TGCTATTTTTTTGCTGTTTTAG
1 TGCTATTTTTTTACTGTTTTAG
29859739 TGCT-TTTTTTTACTGTTTT
1 TGCTATTTTTTTACTGTTTT
29859758 GATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.07, C:0.10, G:0.15, T:0.68
Consensus pattern (22 bp):
TGCTATTTTTTTACTGTTTTAG
Found at i:29859769 original size:12 final size:12
Alignment explanation
Indices: 29859754--29859805 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
29859744 TTTTTTACTG
*
29859754 TTTTGATATTAT
1 TTTTGATGTTAT
29859766 TTTT-ACTGTTAT
1 TTTTGA-TGTTAT
*
29859778 TTTTGTTGTTAT
1 TTTTGATGTTAT
* *
29859790 TTTTGCTGCTAT
1 TTTTGATGTTAT
29859802 TTTT
1 TTTT
29859806 ATTGTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 1 0.03
12 33 0.97
ACGTcount: A:0.13, C:0.06, G:0.12, T:0.69
Consensus pattern (12 bp):
TTTTGATGTTAT
Found at i:29859826 original size:44 final size:43
Alignment explanation
Indices: 29859786--29859912 Score: 164
Period size: 44 Copynumber: 2.9 Consensus size: 43
29859776 ATTTTTGTTG
29859786 TTATTTTTGCTGCTATTTTTATTGTTTTTGTTGTTGTTTTGCTA
1 TTATTTTTGCTGCTATTTTTATTGTTTTT-TTGTTGTTTTGCTA
* * * *
29859830 TTATTTTTGCTACTATTTTTGTTGTTTTTATTGTTATTTTGCAA
1 TTATTTTTGCTGCTATTTTTATTGTTTTT-TTGTTGTTTTGCTA
* * *
29859874 TTATTTTTGCTGTTACTTTGATTGTTGTTTTTGTTGTTT
1 TTATTTTTGCTGCTATTTTTATTGTT-TTTTTGTTGTTT
29859913 GGATGTTATT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 68 0.96
45 3 0.04
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (43 bp):
TTATTTTTGCTGCTATTTTTATTGTTTTTTTGTTGTTTTGCTA
Found at i:29859849 original size:24 final size:23
Alignment explanation
Indices: 29859754--29859851 Score: 78
Period size: 24 Copynumber: 4.3 Consensus size: 23
29859744 TTTTTTACTG
* *
29859754 TTTTGATATTATTTTTACTGTTAT
1 TTTTG-TATTATTTTTGCTGCTAT
*
29859778 TTTTGTTGTTATTTTTGCTGCTA-
1 TTTTG-TATTATTTTTGCTGCTAT
* *
29859801 TTTT-TATTGTTTTTGTTG-T-T
1 TTTTGTATTATTTTTGCTGCTAT
*
29859821 GTTTTGCTATTATTTTTGCTACTAT
1 -TTTTG-TATTATTTTTGCTGCTAT
29859846 TTTTGT
1 TTTTGT
29859852 TGTTTTTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
20 1 0.02
21 15 0.26
23 16 0.28
24 25 0.43
25 1 0.02
ACGTcount: A:0.12, C:0.06, G:0.13, T:0.68
Consensus pattern (23 bp):
TTTTGTATTATTTTTGCTGCTAT
Found at i:29860845 original size:5 final size:6
Alignment explanation
Indices: 29860828--29860853 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
29860818 TAAAAAAATT
29860828 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
29860854 TCAATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:29864225 original size:9 final size:11
Alignment explanation
Indices: 29864199--29864227 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
29864189 TTATTTATAA
29864199 AATATTTTTTT
1 AATATTTTTTT
29864210 AATATTTTTTT
1 AATATTTTTTT
29864221 AAT-TTTT
1 AATATTTT
29864228 AAACATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:29873655 original size:29 final size:30
Alignment explanation
Indices: 29873619--29873675 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
29873609 TTTAGAGCTC
29873619 AAAAAGG-CAA-ACATACATATTGCTATAA
1 AAAAAGGCCAATACATACATATTGCTATAA
*
29873647 AAAAGAGGCCAATATATACATATTGCTAT
1 AAAA-AGGCCAATACATACATATTGCTAT
29873676 CACCCTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 3 0.12
30 3 0.12
31 15 0.60
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (30 bp):
AAAAAGGCCAATACATACATATTGCTATAA
Found at i:29879315 original size:11 final size:11
Alignment explanation
Indices: 29879301--29879325 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29879291 ACCTAAAGTC
29879301 ATTAAATTATT
1 ATTAAATTATT
29879312 ATTAAATTATT
1 ATTAAATTATT
29879323 ATT
1 ATT
29879326 TTGATCAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTAAATTATT
Found at i:29881921 original size:14 final size:13
Alignment explanation
Indices: 29881890--29881924 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
29881880 AAAATAAGTC
29881890 TAAAAAATTAAAA
1 TAAAAAATTAAAA
*
29881903 TAAAAAATTAATA
1 TAAAAAATTAAAA
29881916 TGAAAAAAT
1 T-AAAAAAT
29881925 CGAGAACGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:29883144 original size:24 final size:25
Alignment explanation
Indices: 29883116--29883167 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
29883106 AGAAATAATC
29883116 TTTCAATTAAACTCT-ATTTATTTG
1 TTTCAATTAAACTCTGATTTATTTG
*
29883140 TTTCAATTAAACTTTGATTTATTTG
1 TTTCAATTAAACTCTGATTTATTTG
29883165 TTT
1 TTT
29883168 GAGTCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTCAATTAAACTCTGATTTATTTG
Found at i:29885160 original size:24 final size:24
Alignment explanation
Indices: 29885092--29885152 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
29885082 AGAAATAATC
*
29885092 TTTCAATTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
29885116 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
29885140 TTTCAATTAAACT
1 TTTCAATTAAACT
29885153 TTATTTATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.51
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:29886923 original size:18 final size:18
Alignment explanation
Indices: 29886900--29886936 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29886890 TTTGTGATCA
29886900 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
29886918 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
29886936 A
1 A
29886937 TATGAATTGT
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:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:29891288 original size:29 final size:29
Alignment explanation
Indices: 29891246--29891304 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
29891236 ATAAGAATGA
29891246 CGTGAAATTACAGTTTCATACAATCCCTT
1 CGTGAAATTACAGTTTCATACAATCCCTT
*
29891275 CGTGGAATTACAGTTTCATACAATCCCTT
1 CGTGAAATTACAGTTTCATACAATCCCTT
29891304 C
1 C
29891305 TCTGAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (29 bp):
CGTGAAATTACAGTTTCATACAATCCCTT
Found at i:29894717 original size:18 final size:17
Alignment explanation
Indices: 29894694--29894727 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
29894684 GACTTGAGTC
29894694 TAATATATTTTGATTTAA
1 TAATATATTTT-ATTTAA
*
29894712 TAATATGTTTTATTTA
1 TAATATATTTTATTTA
29894728 TTATTTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TAATATATTTTATTTAA
Found at i:29895397 original size:29 final size:30
Alignment explanation
Indices: 29895362--29895420 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
29895352 TTTAATTTAA
29895362 TGTGCAATTGTATACAT-AAATTTTGATTT
1 TGTGCAATTGTATACATAAAATTTTGATTT
29895391 TGTGCAATTGTATACATAAAATTTTGATTT
1 TGTGCAATTGTATACATAAAATTTTGATTT
29895421 GATCGAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACATAAAATTTTGATTT
Found at i:29895643 original size:29 final size:30
Alignment explanation
Indices: 29895610--29895673 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
29895600 TAATATCACA
29895610 TGTATAACT-ACATCAAATCAAAGTTCATG
1 TGTATAACTAACATCAAATCAAAGTTCATG
* * * *
29895639 TGTATAATTACACATTAAATTAAAGTTTATG
1 TGTATAACTA-ACATCAAATCAAAGTTCATG
29895670 TGTA
1 TGTA
29895674 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.28
31 21 0.72
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (30 bp):
TGTATAACTAACATCAAATCAAAGTTCATG
Found at i:29896528 original size:22 final size:23
Alignment explanation
Indices: 29896469--29896530 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
29896459 TTAGGGTCGA
29896469 AATTAAATTATAATTTTTACAAT
1 AATTAAATTATAATTTTTACAAT
* *
29896492 AATAAAAATATAATTTTTA-AA-
1 AATTAAATTATAATTTTTACAAT
*
29896513 AGATTAAATTAAAATTTT
1 A-ATTAAATTATAATTTT
29896531 ATTATTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 15 0.45
23 17 0.52
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTAAATTATAATTTTTACAAT
Found at i:29898935 original size:4 final size:4
Alignment explanation
Indices: 29898926--29898950 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29898916 ACCCTAAAAT
29898926 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
29898951 AACAGTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:29905548 original size:14 final size:14
Alignment explanation
Indices: 29905529--29905575 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
29905519 AATTTATTGA
29905529 TTTAATTTTTATAT
1 TTTAATTTTTATAT
*
29905543 TTTAA-TTTGATATT
1 TTTAATTTTTATA-T
* *
29905557 TTTAATTATTATTT
1 TTTAATTTTTATAT
29905571 TTTAA
1 TTTAA
29905576 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 6 0.22
14 17 0.63
15 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:29915564 original size:25 final size:27
Alignment explanation
Indices: 29915515--29915567 Score: 92
Period size: 25 Copynumber: 2.0 Consensus size: 27
29915505 CTTAATCCAG
29915515 TAATTTAAATAAAATTTTTTGAATAAT
1 TAATTTAAATAAAATTTTTTGAATAAT
29915542 TAATTTAAAT-AAA-TTTTTGAATAAT
1 TAATTTAAATAAAATTTTTTGAATAAT
29915567 T
1 T
29915568 CAATAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 13 0.50
26 3 0.12
27 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
TAATTTAAATAAAATTTTTTGAATAAT
Found at i:29917303 original size:31 final size:33
Alignment explanation
Indices: 29917254--29917321 Score: 113
Period size: 31 Copynumber: 2.1 Consensus size: 33
29917244 TAAAAACATC
*
29917254 ATTTCGACTCTTTTTCAAAAGATTGATGGTCAA
1 ATTTCGACTCTTTTTCAAAAGATTGAGGGTCAA
29917287 ATTT-GACTC-TTTTCAAAAGATTGAGGGTCAA
1 ATTTCGACTCTTTTTCAAAAGATTGAGGGTCAA
29917318 ATTT
1 ATTT
29917322 AGTTCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 25 0.74
32 5 0.15
33 4 0.12
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (33 bp):
ATTTCGACTCTTTTTCAAAAGATTGAGGGTCAA
Found at i:29925513 original size:9 final size:9
Alignment explanation
Indices: 29925499--29925536 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
29925489 TCGTTGTTTT
*
29925499 GGAGGTGGC
1 GGAGGAGGC
*
29925508 GGAGGTGGC
1 GGAGGAGGC
29925517 GGAGGAGGC
1 GGAGGAGGC
29925526 GGAGGAGGC
1 GGAGGAGGC
29925535 GG
1 GG
29925537 TGAAGATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.16, C:0.11, G:0.68, T:0.05
Consensus pattern (9 bp):
GGAGGAGGC
Found at i:29929335 original size:15 final size:14
Alignment explanation
Indices: 29929311--29929340 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
29929301 TTTTTGAAAA
29929311 AATAATTATTTTAT
1 AATAATTATTTTAT
29929325 AATACATTATTTTAT
1 AATA-ATTATTTTAT
29929340 A
1 A
29929341 TAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AATAATTATTTTAT
Found at i:29954206 original size:22 final size:22
Alignment explanation
Indices: 29954178--29954223 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
29954168 TACCTGAGCT
29954178 GGATTTGGATTCTCCGTAGGGA
1 GGATTTGGATTCTCCGTAGGGA
29954200 GGATTTGGATTCTCCGTAGGGA
1 GGATTTGGATTCTCCGTAGGGA
29954222 GG
1 GG
29954224 GATTCCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.39, T:0.30
Consensus pattern (22 bp):
GGATTTGGATTCTCCGTAGGGA
Found at i:29958391 original size:16 final size:16
Alignment explanation
Indices: 29958372--29958406 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
29958362 ATTTAAACTG
29958372 TTTTTTAAATAAATAT
1 TTTTTTAAATAAATAT
29958388 TTTTTTAAATAAATAT
1 TTTTTTAAATAAATAT
29958404 TTT
1 TTT
29958407 ACCTTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTTAAATAAATAT
Found at i:29974952 original size:51 final size:51
Alignment explanation
Indices: 29974888--29974992 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
29974878 TATATACCAT
* * *
29974888 GTTGAACCGTTAGACCAATTGGTTCCTGGTTGAACCAGCTAGTCCGGTCTG
1 GTTGAACCATTAGACCAATCGGTTCCTGGTTGAACCAGCTAGTCCGATCTG
** *
29974939 GTTGAACCATTAGACCAATCGGTTCCTGGTTGAACTGGCTAGTCTGATCTG
1 GTTGAACCATTAGACCAATCGGTTCCTGGTTGAACCAGCTAGTCCGATCTG
29974990 GTT
1 GTT
29974993 TCAACAACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGAACCATTAGACCAATCGGTTCCTGGTTGAACCAGCTAGTCCGATCTG
Found at i:29974968 original size:28 final size:27
Alignment explanation
Indices: 29974888--29974973 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
29974878 TATATACCAT
*
29974888 GTTGAACCGTTAGACCAATTGGTTCCTG
1 GTTGAACC-TTAGACCAATCGGTTCCTG
* *
29974916 GTTGAACC--AG-CTAGTCCGG-T-CTG
1 GTTGAACCTTAGACCAAT-CGGTTCCTG
29974939 GTTGAACCATTAGACCAATCGGTTCCTG
1 GTTGAACC-TTAGACCAATCGGTTCCTG
29974967 GTTGAAC
1 GTTGAAC
29974974 TGGCTAGTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
23 11 0.24
24 4 0.09
25 4 0.09
26 5 0.11
27 4 0.09
28 18 0.39
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (27 bp):
GTTGAACCTTAGACCAATCGGTTCCTG
Found at i:29980314 original size:29 final size:30
Alignment explanation
Indices: 29980269--29980327 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
29980259 TATGGTTTAA
*
29980269 TGTGCAATTGTACACATG-AATTTTGATTT
1 TGTGCAATTGTACACATGAAATTTTCATTT
*
29980298 TGTGCAATT-TGATACATGAAATTTTCATTT
1 TGTGCAATTGT-ACACATGAAATTTTCATTT
29980328 GATCCAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.58
30 10 0.38
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (30 bp):
TGTGCAATTGTACACATGAAATTTTCATTT
Found at i:29983070 original size:13 final size:13
Alignment explanation
Indices: 29983052--29983091 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
29983042 AGAATAGTAT
29983052 ATTAATATTAATA
1 ATTAATATTAATA
*
29983065 ATTAATAATAATA
1 ATTAATATTAATA
*
29983078 ATTATTATTAATA
1 ATTAATATTAATA
29983091 A
1 A
29983092 AGTATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATATTAATA
Found at i:29984248 original size:6 final size:6
Alignment explanation
Indices: 29984237--29984261 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29984227 AAAAAAATAA
29984237 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
29984262 TTATGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:29993281 original size:22 final size:21
Alignment explanation
Indices: 29993238--29993280 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29993228 GCATTAACTC
29993238 ATGTTTTTATTTTCATGGAAA
1 ATGTTTTTATTTTCATGGAAA
29993259 ATGTTTTTATTTTCATGGAAA
1 ATGTTTTTATTTTCATGGAAA
29993280 A
1 A
29993281 AAAACATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (21 bp):
ATGTTTTTATTTTCATGGAAA
Found at i:30000668 original size:18 final size:16
Alignment explanation
Indices: 30000637--30000670 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
30000627 AATTTTTAGT
30000637 TTAATTGATTTAATTA
1 TTAATTGATTTAATTA
30000653 TTAATTTGATTTTAATTA
1 TTAA-TTGA-TTTAATTA
30000671 AGTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TTAATTGATTTAATTA
Found at i:30001309 original size:33 final size:28
Alignment explanation
Indices: 30001246--30001334 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
30001236 ATTTTTAACT
* * * *
30001246 TTTTAAAATTAGACTTAAATTGAT-AAA
1 TTTTAAAATTAAAATTAAAATAATAAAA
*
30001273 TTTTATAAATATGAACAATTAAATTAATTAAAA
1 TTTTA-AAAT-T-AA-AATTAAAATAA-TAAAA
30001306 TTTTAAAATTAAAATTAAAATAATAAAA
1 TTTTAAAATTAAAATTAAAATAATAAAA
30001334 T
1 T
30001335 ATATAAACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
27 5 0.10
28 10 0.19
29 11 0.21
30 3 0.06
31 10 0.19
32 5 0.10
33 8 0.15
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (28 bp):
TTTTAAAATTAAAATTAAAATAATAAAA
Found at i:30002274 original size:7 final size:7
Alignment explanation
Indices: 30002262--30002299 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
30002252 TGATTTGCAG
30002262 AGATGAA
1 AGATGAA
30002269 AGATGAA
1 AGATGAA
30002276 AGATGAA
1 AGATGAA
30002283 AGATGAA
1 AGATGAA
30002290 AGATGAA
1 AGATGAA
30002297 AGA
1 AGA
30002300 GAAGAGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (7 bp):
AGATGAA
Found at i:30002288 original size:21 final size:21
Alignment explanation
Indices: 30002260--30002307 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
30002250 TTTGATTTGC
30002260 AGAGATGAAAGATGAAAGATGA
1 AGAGATGAAAGATGAAAGA-GA
30002282 A-AGATGAAAGATGAAAGAGA
1 AGAGATGAAAGATGAAAGAGA
30002302 AGAGAT
1 AGAGAT
30002308 AGGATGGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.12
21 21 0.84
22 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.12
Consensus pattern (21 bp):
AGAGATGAAAGATGAAAGAGA
Found at i:30007228 original size:118 final size:118
Alignment explanation
Indices: 30007018--30007254 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
30007008 ATCGGATACA
30007018 AATATTAGGCTTGGTGGACATTTATTTCCAGACAAAGCCTGCTAGCATGCAGTTACGTCTGGCCT
1 AATATTAGGCTTGGTGGACATTTATTTCCAGACAAAGCCTGCTAGCATGCAGTTACGTCTGGCCT
* * *
30007083 ATTTAATGGTCCTTAAAATTGCCCCTATATAATTTTAGAATGACTTAAAAGAG
66 ATTTAATGGTCCTTAAAATTGCACCTATATAAATTTAGAATGACATAAAAGAG
* *
30007136 AATATTAGGCTTGGTGGACATTTATTTCCAGACAAAGCCTGCTAGCATGTAGTTATGTCTGGCCT
1 AATATTAGGCTTGGTGGACATTTATTTCCAGACAAAGCCTGCTAGCATGCAGTTACGTCTGGCCT
*
30007201 ATTTAATGGTCCTTAAAATTGTACCTATATAAATTTAGAATGACATAAAAGAG
66 ATTTAATGGTCCTTAAAATTGCACCTATATAAATTTAGAATGACATAAAAGAG
30007254 A
1 A
30007255 CCTACTATAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (118 bp):
AATATTAGGCTTGGTGGACATTTATTTCCAGACAAAGCCTGCTAGCATGCAGTTACGTCTGGCCT
ATTTAATGGTCCTTAAAATTGCACCTATATAAATTTAGAATGACATAAAAGAG
Found at i:30012797 original size:29 final size:29
Alignment explanation
Indices: 30012755--30012819 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
30012745 TAAGAGCTGG
* * *
30012755 ATCAAATTAGTCCCTCTACTATTAAATAA
1 ATCAAATTAATCCCTATACTATTAAAAAA
* *
30012784 ATCAATTTAATCCCTATGCTATTAAAAAA
1 ATCAAATTAATCCCTATACTATTAAAAAA
*
30012813 ATTAAAT
1 ATCAAAT
30012820 AAACCCAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (29 bp):
ATCAAATTAATCCCTATACTATTAAAAAA
Found at i:30013794 original size:31 final size:31
Alignment explanation
Indices: 30013727--30013796 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
30013717 ATGGTTATTG
* * *
30013727 AATTATTTGAAAGTTTTCATTTGAGTAACTA
1 AATTATTAGAAAGTTTTCATGTAAGTAACTA
* *
30013758 AATTATTAGAAAGTTTTTATGTAAGTCACTA
1 AATTATTAGAAAGTTTTCATGTAAGTAACTA
*
30013789 GATTATTA
1 AATTATTA
30013797 AGTTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (31 bp):
AATTATTAGAAAGTTTTCATGTAAGTAACTA
Found at i:30020149 original size:21 final size:22
Alignment explanation
Indices: 30020109--30020157 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
30020099 TTTATTGGAT
30020109 ATAAATTACATAATATATAAAA
1 ATAAATTACATAATATATAAAA
30020131 ATAAATTACA-AGA-ATATAAAA
1 ATAAATTACATA-ATATATAAAA
30020152 ATAAAT
1 ATAAAT
30020158 CGAATCAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAATTACATAATATATAAAA
Found at i:30042819 original size:83 final size:81
Alignment explanation
Indices: 30042729--30042913 Score: 228
Period size: 86 Copynumber: 2.2 Consensus size: 81
30042719 TCTAAAATCT
** *
30042729 AACTAAATCAACCCCAAAATTTTTCTAGAAATAACTATTCAAAGATCATGAAAAGTCGTCACCTG
1 AACTAAATCAACCCCAAAAAATTTCTAGAAATAACTATTCAAAAATCATGAAAAGTCGTCACCTG
* *
30042794 TACATGTCTCTAACAGCA
66 CACAAG--TCTAACAGCA
* * *
30042812 AACTAAATCAACCCAAAAAGAAAATTTCTAGAAATGACTATTCAAAAATCATGAAAAGTCGTTAC
1 AACTAAATCAACCC--CAA-AAAATTTCTAGAAATAACTATTCAAAAATCATGAAAAGTCGTCAC
* *
30042877 CTGCAGAAGTCTAGCAGCA
63 CTGCACAAGTCTAACAGCA
30042896 AACTAAATCAA-CCCAAAA
1 AACTAAATCAACCCCAAAA
30042914 GATAACTGAC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
80 2 0.02
81 2 0.02
83 16 0.18
84 20 0.23
85 2 0.02
86 46 0.52
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (81 bp):
AACTAAATCAACCCCAAAAAATTTCTAGAAATAACTATTCAAAAATCATGAAAAGTCGTCACCTG
CACAAGTCTAACAGCA
Found at i:30042855 original size:86 final size:84
Alignment explanation
Indices: 30042750--30042913 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 84
30042740 CCCCAAAATT
* * *
30042750 TTTCTAGAAATAACTATTCAAAGATCATGAAAAGTCGTCACCTGTACATGTCTCTAACAGCAAAC
1 TTTCTAGAAATAACTATTCAAAAATCATGAAAAGTCGTCACCTGCACAAG--TCTAACAGCAAAC
30042815 TAAATCAACCCAAAAAGAAAA
64 TAAATCAACCCAAAAAGAAAA
* * * *
30042836 TTTCTAGAAATGACTATTCAAAAATCATGAAAAGTCGTTACCTGCAGAAGTCTAGCAGCAAACTA
1 TTTCTAGAAATAACTATTCAAAAATCATGAAAAGTCGTCACCTGCACAAGTCTAACAGCAAACTA
30042901 AATCAACCCAAAA
66 AATCAACCCAAAA
30042914 GATAACTGAC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
84 27 0.38
86 44 0.62
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.23
Consensus pattern (84 bp):
TTTCTAGAAATAACTATTCAAAAATCATGAAAAGTCGTCACCTGCACAAGTCTAACAGCAAACTA
AATCAACCCAAAAAGAAAA
Found at i:30046710 original size:30 final size:29
Alignment explanation
Indices: 30046634--30046711 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
30046624 TCTATATTTT
*
30046634 CCAAGTTCAAGACCAAAATAGATCTAATTA
1 CCAAGTTCAAGACC-AAATAGACCTAATTA
* * *
30046664 CCCAGTTTAAGTACCAAAT-GAACCTAGTTA
1 CCAAGTTCAAG-ACCAAATAG-ACCTAATTA
30046694 CCAAGTTCAAGAACCAAA
1 CCAAGTTCAAG-ACCAAA
30046712 AATTACATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 1 0.03
30 35 0.90
31 3 0.08
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.22
Consensus pattern (29 bp):
CCAAGTTCAAGACCAAATAGACCTAATTA
Found at i:30054398 original size:16 final size:16
Alignment explanation
Indices: 30054377--30054409 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30054367 CTTGGGACTG
30054377 TAGTATGTTATTT-TTT
1 TAGTAT-TTATTTATTT
30054393 TAGTATTTATTTATTT
1 TAGTATTTATTTATTT
30054409 T
1 T
30054410 TTTGGGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (16 bp):
TAGTATTTATTTATTT
Found at i:30063383 original size:4 final size:4
Alignment explanation
Indices: 30063374--30063427 Score: 90
Period size: 4 Copynumber: 13.5 Consensus size: 4
30063364 AGGTACCATT
* *
30063374 TGTA TGTA TGTA TGTA TGTA TGTA TGAA TGTA TGTA TGTA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
30063422 TGTA TG
1 TGTA TG
30063428 CATGGTGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (4 bp):
TGTA
Found at i:30070806 original size:18 final size:18
Alignment explanation
Indices: 30070780--30070856 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 18
30070770 ATCGAAATCA
30070780 AAAAT-AAAACTAAAACC
1 AAAATCAAAACTAAAACC
* **
30070797 GAAATCAAAACTGGAACC
1 AAAATCAAAACTAAAACC
* * *
30070815 TTAAACCAAAACCAAAACC
1 -AAAATCAAAACTAAAACC
* * *
30070834 CAAACCAAAACTAGAACC
1 AAAATCAAAACTAAAACC
30070852 AAAAT
1 AAAAT
30070857 TGAAATCAAA
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
17 4 0.09
18 28 0.62
19 13 0.29
ACGTcount: A:0.60, C:0.25, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAATCAAAACTAAAACC
Found at i:30070836 original size:7 final size:6
Alignment explanation
Indices: 30070817--30070855 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
30070807 CTGGAACCTT
* * *
30070817 AAACCA AAACCA AAACCC AAACCA AAACTA GAACCA AAA
1 AAACCA AAACCA AAACCA AAACCA AAACCA AAACCA AAA
30070856 TTGAAATCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.64, C:0.31, G:0.03, T:0.03
Consensus pattern (6 bp):
AAACCA
Found at i:30070923 original size:13 final size:13
Alignment explanation
Indices: 30070903--30071127 Score: 67
Period size: 13 Copynumber: 17.7 Consensus size: 13
30070893 TCGAAATCGG
30070903 AACCTTAAATTAA
1 AACCTTAAATTAA
* * *
30070916 AA-CTTTAACT-C
1 AACCTTAAATTAA
*
30070927 AACCTTAAATTGA
1 AACCTTAAATTAA
** * *
30070940 AATTTTAACTCAA
1 AACCTTAAATTAA
*
30070953 AACCTTAAATTGA
1 AACCTTAAATTAA
* * *
30070966 AA-CTTTAACT-C
1 AACCTTAAATTAA
*
30070977 AACCTTAAATTGA
1 AACCTTAAATTAA
*
30070990 AA-CTTGAATTAA
1 AACCTTAAATTAA
* *
30071002 AACCCTAAAGTAA
1 AACCTTAAATTAA
* *
30071015 AA-TTTAAAATCATA
1 AACCTT-AAATTA-A
* **
30071029 AACCCTAAACCAA
1 AACCTTAAATTAA
30071042 AA-CTTGAACA-TAA
1 AACCTT-AA-ATTAA
* *
30071055 AACCTTAAACTGA
1 AACCTTAAATTAA
*
30071068 AA-CTTAAACTTGA
1 AACCTTAAA-TTAA
*
30071081 AACCTTAAACTAA
1 AACCTTAAATTAA
**
30071094 AA-CTTGAACCTAA
1 AACCTT-AAATTAA
*
30071107 AACCTTAAACTAA
1 AACCTTAAATTAA
30071120 AA-CTTAAA
1 AACCTTAAA
30071128 ACTTAAACTA
Statistics
Matches: 154, Mismatches: 42, Indels: 33
0.67 0.18 0.14
Matches are distributed among these distances:
11 4 0.03
12 53 0.34
13 75 0.49
14 21 0.14
15 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (13 bp):
AACCTTAAATTAA
Found at i:30070957 original size:50 final size:49
Alignment explanation
Indices: 30070903--30071124 Score: 169
Period size: 52 Copynumber: 4.4 Consensus size: 49
30070893 TCGAAATCGG
* *
30070903 AACCTTAAATTAAAACTTTAACTCAACCTTAAATTGAAATTTTAACTCAA
1 AACCTTAAATTAAAACTTTAACTCAACCTTAAATTGAAACTTGAA-TCAA
* *
30070953 AACCTTAAATTGAAACTTTAACTCAACCTTAAATTGAAACTTGAATTAA
1 AACCTTAAATTAAAACTTTAACTCAACCTTAAATTGAAACTTGAATCAA
* * * * ***
30071002 AACCCTAAAGTAAAA-TTTAAAATCATAAACCCTAAACCAAAACTTGAA-CATAA
1 AACCTTAAATTAAAACTTT--AA-C-TCAACCTTAAATTGAAACTTGAATC--AA
* * * * * * *
30071055 AACCTTAAACTGAAACTTAAACTTGAAACCTTAAACTAAAACTTGAACCTAA
1 AACCTTAAATTAAAACTTTAAC-T-CAACCTTAAATTGAAACTTGAATC-AA
*
30071107 AACCTTAAACTAAAACTT
1 AACCTTAAATTAAAACTT
30071125 AAAACTTAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.02
49 15 0.11
50 44 0.31
51 3 0.02
52 60 0.42
53 15 0.11
54 2 0.01
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (49 bp):
AACCTTAAATTAAAACTTTAACTCAACCTTAAATTGAAACTTGAATCAA
Found at i:30070962 original size:26 final size:24
Alignment explanation
Indices: 30070903--30070994 Score: 148
Period size: 24 Copynumber: 3.8 Consensus size: 24
30070893 TCGAAATCGG
*
30070903 AACCTTAAATTAAAACTTTAACTC
1 AACCTTAAATTGAAACTTTAACTC
*
30070927 AACCTTAAATTGAAATTTTAACTC
1 AACCTTAAATTGAAACTTTAACTC
30070951 AAAACCTTAAATTGAAACTTTAACTC
1 --AACCTTAAATTGAAACTTTAACTC
30070977 AACCTTAAATTGAAACTT
1 AACCTTAAATTGAAACTT
30070995 GAATTAAAAC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
24 40 0.63
26 23 0.37
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (24 bp):
AACCTTAAATTGAAACTTTAACTC
Found at i:30071046 original size:52 final size:53
Alignment explanation
Indices: 30070989--30071129 Score: 171
Period size: 52 Copynumber: 2.7 Consensus size: 53
30070979 CCTTAAATTG
* * * *
30070989 AAACTTGAA-TTAAAACCCTAAAGTAAAATTTAAAATCAT-AAACCCTAAACCA
1 AAACTTGAACATAAAACCTTAAACTAAAACTTAAAA-CATGAAACCCTAAACCA
* * * *
30071041 AAACTTGAACATAAAACCTTAAACTGAAACTT-AAACTTGAAACCTTAAACTA
1 AAACTTGAACATAAAACCTTAAACTAAAACTTAAAACATGAAACCCTAAACCA
*
30071093 AAACTTGAACCTAAAACCTTAAACTAAAACTTAAAAC
1 AAACTTGAACATAAAACCTTAAACTAAAACTTAAAAC
30071130 TTAAACTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 2 0.03
52 53 0.70
53 21 0.28
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.23
Consensus pattern (53 bp):
AAACTTGAACATAAAACCTTAAACTAAAACTTAAAACATGAAACCCTAAACCA
Found at i:30071064 original size:26 final size:26
Alignment explanation
Indices: 30071028--30071215 Score: 130
Period size: 26 Copynumber: 7.2 Consensus size: 26
30071018 TTAAAATCAT
* *
30071028 AAACCCTAAACCAAAACTTGAACATA
1 AAACCTTAAACCAAAACTTAAACATA
** * *
30071054 AAACCTTAAACTGAAACTTAAACTTG
1 AAACCTTAAACCAAAACTTAAACATA
* * *
30071080 AAACCTTAAACTAAAACTTGAACCTA
1 AAACCTTAAACCAAAACTTAAACATA
* *
30071106 AAACCTTAAACTAAAACTTAAA-ACTT
1 AAACCTTAAACCAAAACTTAAACA-TA
* * * **
30071132 AAA-CTAAAAACCTTAAAGC-AAAATTTA
1 AAACCT-TAAACC--AAAACTTAAACATA
* * *
30071159 AAACCTTAAATCAAAACTTGAACGTA
1 AAACCTTAAACCAAAACTTAAACATA
* *
30071185 AAACCCTAAACCAAAACTTAAACCTA
1 AAACCTTAAACCAAAACTTAAACATA
30071211 AAACC
1 AAACC
30071216 ATAGATCGAA
Statistics
Matches: 125, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
25 6 0.05
26 102 0.82
27 11 0.09
28 6 0.05
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.21
Consensus pattern (26 bp):
AAACCTTAAACCAAAACTTAAACATA
Found at i:30071075 original size:20 final size:20
Alignment explanation
Indices: 30071067--30071168 Score: 86
Period size: 20 Copynumber: 5.2 Consensus size: 20
30071057 CCTTAAACTG
*
30071067 AAACTTAAACTTGAAACCTT
1 AAACTTAAACTTAAAACCTT
* * *
30071087 AAACTAAAACTT-GAACCTA
1 AAACTTAAACTTAAAACCTT
30071106 AAACCTTAAAC-TAAAA-CTT
1 AAA-CTTAAACTTAAAACCTT
*
30071125 AAAACTTAAACTAAAAACCTT
1 -AAACTTAAACTTAAAACCTT
* *
30071146 AAAGC-AAAATTTAAAACCTT
1 AAA-CTTAAACTTAAAACCTT
30071166 AAA
1 AAA
30071169 TCAAAACTTG
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.27
20 44 0.67
21 4 0.06
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.25
Consensus pattern (20 bp):
AAACTTAAACTTAAAACCTT
Found at i:30071076 original size:6 final size:6
Alignment explanation
Indices: 30071058--30071136 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
30071048 AACATAAAAC
* * * *
30071058 CTTAAA CTGAAA CTTAAA CTTGAAA CCTTAAA CTAAAA CTTGAAC CTAAAA
1 CTTAAA CTTAAA CTTAAA CTT-AAA -CTTAAA CTTAAA CTT-AAA CTTAAA
*
30071109 CCTTAAA CTAAAA CTTAAAA CTTAAA CT
1 -CTTAAA CTTAAA CTT-AAA CTTAAA CT
30071137 AAAAACCTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 34 0.59
7 21 0.36
8 3 0.05
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (6 bp):
CTTAAA
Found at i:30071130 original size:13 final size:12
Alignment explanation
Indices: 30070906--30071127 Score: 93
Period size: 12 Copynumber: 17.5 Consensus size: 12
30070896 AAATCGGAAC
*
30070906 CTTAAATTAAAA
1 CTTAAACTAAAA
* * *
30070918 CTTTAACTCAAC
1 CTTAAACTAAAA
* *
30070930 CTTAAATTGAAA
1 CTTAAACTAAAA
* *
30070942 TTTTAACTCAAAA
1 CTTAAACT-AAAA
* *
30070955 CCTTAAATTGAAA
1 -CTTAAACTAAAA
* * *
30070968 CTTTAACTCAAC
1 CTTAAACTAAAA
* *
30070980 CTTAAATTGAAA
1 CTTAAACTAAAA
* *
30070992 CTTGAATTAAAA
1 CTTAAACTAAAA
* *
30071004 CCCTAAAGTAAAA
1 -CTTAAACTAAAA
* *
30071017 TTTAAAATCATAAAC
1 CTT-AAA-C-TAAAA
* *
30071032 CCTAAACCAAAA
1 CTTAAACTAAAA
*
30071044 CTTGAACATAAAA
1 CTTAAAC-TAAAA
*
30071057 CCTTAAACTGAAA
1 -CTTAAACTAAAA
*
30071070 CTTAAACTTGAAAC
1 CTTAAAC-T-AAAA
30071084 CTTAAACTAAAA
1 CTTAAACTAAAA
*
30071096 CTTGAACCTAAAA
1 CTT-AAACTAAAA
30071109 CCTTAAACTAAAA
1 -CTTAAACTAAAA
30071122 CTTAAA
1 CTTAAA
30071128 ACTTAAACTA
Statistics
Matches: 151, Mismatches: 47, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
12 75 0.50
13 45 0.30
14 26 0.17
15 5 0.03
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (12 bp):
CTTAAACTAAAA
Found at i:30071135 original size:13 final size:13
Alignment explanation
Indices: 30071040--30071214 Score: 85
Period size: 13 Copynumber: 13.4 Consensus size: 13
30071030 ACCCTAAACC
* *
30071040 AAAACTTGAACAT
1 AAAACTTAAACTT
30071053 AAAACCTTAAAC-T
1 AAAA-CTTAAACTT
*
30071066 GAAACTTAAACTT
1 AAAACTTAAACTT
*
30071079 GAAACCTTAAAC-T
1 -AAAACTTAAACTT
* *
30071092 AAAACTTGAACCT
1 AAAACTTAAACTT
30071105 AAAACCTTAAAC-T
1 AAAA-CTTAAACTT
30071118 AAAACTTAAAACTT
1 AAAACTT-AAACTT
*
30071132 -AAACTAAAAACCTT
1 AAAACT-TAAA-CTT
* * *
30071146 AAAGC-AAAATTT
1 AAAACTTAAACTT
*
30071158 AAAACCTTAAA-TC
1 AAAA-CTTAAACTT
* *
30071171 AAAACTTGAACGT
1 AAAACTTAAACTT
* *
30071184 AAAACCCTAAAC-C
1 AAAA-CTTAAACTT
*
30071197 AAAACTTAAACCT
1 AAAACTTAAACTT
30071210 AAAAC
1 AAAAC
30071215 CATAGATCGA
Statistics
Matches: 126, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
12 35 0.28
13 55 0.44
14 33 0.26
15 3 0.02
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.22
Consensus pattern (13 bp):
AAAACTTAAACTT
Found at i:30071175 original size:33 final size:33
Alignment explanation
Indices: 30071087--30071168 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
30071077 TTGAAACCTT
*
30071087 AAAC-TAAAACTTGAACCT-AAAACCTTAAACTA
1 AAACTTAAAACTT-AAACTAAAAACCTTAAACTA
30071119 AAACTTAAAACTTAAACTAAAAACCTTAAAGC-A
1 AAACTTAAAACTTAAACTAAAAACCTTAAA-CTA
*
30071152 AAATTTAAAACCTTAAA
1 AAACTTAAAA-CTTAAA
30071169 TCAAAACTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
32 8 0.18
33 29 0.66
34 7 0.16
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.23
Consensus pattern (33 bp):
AAACTTAAAACTTAAACTAAAAACCTTAAACTA
Found at i:30071227 original size:26 final size:26
Alignment explanation
Indices: 30071157--30071232 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
30071147 AAGCAAAATT
* * *
30071157 TAAAACCTTAAATCAAAACTTGAACG
1 TAAAACCATAAATCAAAACTTAAACC
* *
30071183 TAAAACCCTAAACCAAAACTTAAACC
1 TAAAACCATAAATCAAAACTTAAACC
* *
30071209 TAAAACCATAGATCGAAACTTAAA
1 TAAAACCATAAATCAAAACTTAAA
30071233 ATCCTAAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.20
Consensus pattern (26 bp):
TAAAACCATAAATCAAAACTTAAACC
Found at i:30071259 original size:105 final size:105
Alignment explanation
Indices: 30071052--30071259 Score: 244
Period size: 105 Copynumber: 2.0 Consensus size: 105
30071042 AACTTGAACA
* * * * * * *
30071052 TAAAACCTTAAACTGAAACTTAAACTTGAAACCTTAAACTAAAACTTGAACCTAAAACCTTAAAC
1 TAAAACCTTAAACTAAAACTTAAACGTAAAACCCTAAACCAAAACTTAAACCTAAAACCATAAAC
* *
30071117 TAAAACTTAAAACTTAAACTAAAAACCTTAAAGCAAAATT
66 TAAAACTTAAAACCTAAACTAAAAACCTTAAACCAAAATT
* *
30071157 TAAAACCTTAAA-TCAAAACTTGAACGTAAAACCCTAAACCAAAACTTAAACCTAAAACCATAGA
1 TAAAACCTTAAACT-AAAACTTAAACGTAAAACCCTAAACCAAAACTTAAACCTAAAACCATAAA
*
30071221 -TCGAAACTTAAAATCCTAAACT-AAAACAC-TAAACCAAAA
65 CT-AAAACTTAAAA-CCTAAACTAAAAAC-CTTAAACCAAAA
30071260 CTTGAACTTG
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
104 2 0.02
105 77 0.89
106 8 0.09
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.22
Consensus pattern (105 bp):
TAAAACCTTAAACTAAAACTTAAACGTAAAACCCTAAACCAAAACTTAAACCTAAAACCATAAAC
TAAAACTTAAAACCTAAACTAAAAACCTTAAACCAAAATT
Found at i:30071260 original size:85 final size:85
Alignment explanation
Indices: 30071157--30071344 Score: 229
Period size: 85 Copynumber: 2.2 Consensus size: 85
30071147 AAGCAAAATT
*
30071157 TAAAAC-CTTAAATCAAAACTTGAACGTAAAACCCTAAACC-AAAACTTAAAC-CTAAAACCATA
1 TAAAACAC-TAAACCAAAACTTGAACGTAAAACCCTAAACCGAAAA-TTAAACAC-AAAACCATA
* * *
30071219 GATCGAAACTTAAAATCCTAAAC
63 AATCAAAACTTAAAACCCTAAAC
* * * * * *
30071242 TAAAACACTAAACCAAAACTTGAACTTGAAAGCCTAAACCGAAAATTGAACACGAAACCTTAAAT
1 TAAAACACTAAACCAAAACTTGAACGTAAAACCCTAAACCGAAAATTAAACACAAAACCATAAAT
30071307 CAAAACTTAAAACCCTAAAC
66 CAAAACTTAAAACCCTAAAC
*
30071327 TAGAACACTAAACCAAAA
1 TAAAACACTAAACCAAAA
30071345 ACTAAAACCA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
85 83 0.93
86 6 0.07
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.18
Consensus pattern (85 bp):
TAAAACACTAAACCAAAACTTGAACGTAAAACCCTAAACCGAAAATTAAACACAAAACCATAAAT
CAAAACTTAAAACCCTAAAC
Found at i:30071278 original size:26 final size:25
Alignment explanation
Indices: 30071244--30071314 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
30071234 TCCTAAACTA
**
30071244 AAACACTAAACCAAAACTTGAACTTG
1 AAAC-CTAAACCAAAACTTGAACACG
30071270 AAAGCCTAAACCGAAAA-TTGAACACG
1 AAA-CCTAAACC-AAAACTTGAACACG
*
30071296 AAACCTTAAATCAAAACTT
1 AAACC-TAAACCAAAACTT
30071315 AAAACCCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 6 0.16
26 27 0.71
27 5 0.13
ACGTcount: A:0.51, C:0.23, G:0.08, T:0.18
Consensus pattern (25 bp):
AAACCTAAACCAAAACTTGAACACG
Found at i:30071351 original size:33 final size:34
Alignment explanation
Indices: 30071308--30071412 Score: 133
Period size: 33 Copynumber: 3.1 Consensus size: 34
30071298 ACCTTAAATC
*
30071308 AAAACTTAAAACCCTAAACTAGAACACTAAACCA
1 AAAACTTAAAACCCTAAACTAAAACACTAAACCA
* *
30071342 AAAAC-TAAAACCATAAACTAAAACACTAAATC-
1 AAAACTTAAAACCCTAAACTAAAACACTAAACCA
* *
30071374 AAAACTTAAAAACCTAAACCTTAAAATACTAAACCA
1 AAAACTTAAAACCCTAAA-C-TAAAACACTAAACCA
30071410 AAA
1 AAA
30071413 TCCTAACCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 5 0.08
33 34 0.57
34 6 0.10
35 12 0.20
36 3 0.05
ACGTcount: A:0.60, C:0.23, G:0.01, T:0.16
Consensus pattern (34 bp):
AAAACTTAAAACCCTAAACTAAAACACTAAACCA
Found at i:30071371 original size:13 final size:13
Alignment explanation
Indices: 30071336--30071365 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30071326 CTAGAACACT
*
30071336 AAACCAAAAACTA
1 AAACCATAAACTA
30071349 AAACCATAAACTA
1 AAACCATAAACTA
30071362 AAAC
1 AAAC
30071366 ACTAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (13 bp):
AAACCATAAACTA
Found at i:30071418 original size:13 final size:13
Alignment explanation
Indices: 30071402--30071470 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
30071392 CCTTAAAATA
*
30071402 CTAAACCAAAATC
1 CTAAACCAAAACC
30071415 CT-AACCATAAACC
1 CTAAACCA-AAACC
30071428 CTAAACCAAAACC
1 CTAAACCAAAACC
*
30071441 CT-AACCTTAAACC
1 CTAAACC-AAAACC
* *
30071454 TTAAACTAAAA-C
1 CTAAACCAAAACC
30071466 CTAAA
1 CTAAA
30071471 ACCGTAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 14 0.30
13 24 0.52
14 8 0.17
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (13 bp):
CTAAACCAAAACC
Found at i:30071438 original size:26 final size:25
Alignment explanation
Indices: 30071402--30071469 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
30071392 CCTTAAAATA
30071402 CTAAACCAAAATCCTAACCATAAACC
1 CTAAACCAAAA-CCTAACCATAAACC
*
30071428 CTAAACCAAAACCCTAACCTTAAACC
1 CTAAACCAAAA-CCTAACCATAAACC
* *
30071454 TTAAACTAAAACCTAA
1 CTAAACCAAAACCTAA
30071470 AACCGTAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 5 0.13
26 33 0.87
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (25 bp):
CTAAACCAAAACCTAACCATAAACC
Found at i:30071466 original size:20 final size:21
Alignment explanation
Indices: 30071443--30071487 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
30071433 CCAAAACCCT
* *
30071443 AACCTTAAACCTTAAAC-TAA
1 AACCTAAAACCGTAAACTTAA
30071463 AACCTAAAACCGTAAACTTAA
1 AACCTAAAACCGTAAACTTAA
30071484 AACC
1 AACC
30071488 GAAACCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCTAAAACCGTAAACTTAA
Found at i:30071484 original size:14 final size:13
Alignment explanation
Indices: 30071462--30071569 Score: 57
Period size: 14 Copynumber: 8.3 Consensus size: 13
30071452 CCTTAAACTA
30071462 AAACCTAAAACCG
1 AAACCTAAAACCG
*
30071475 TAAACTTAAAACCG
1 -AAACCTAAAACCG
*
30071489 AAACC-AAAACCAA
1 AAACCTAAAACC-G
30071502 AAACC-AAAACCCG
1 AAACCTAAAA-CCG
* *
30071515 AAA---GAAACCA
1 AAACCTAAAACCG
*
30071525 AAATCC-AAAATCG
1 AAA-CCTAAAACCG
* *
30071538 ATACCTAAAACATG
1 AAACCTAAAAC-CG
30071552 AAACCTAAAACCTG
1 AAACCTAAAACC-G
30071566 AAAC
1 AAAC
30071570 TCGAAACTCG
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
10 5 0.07
11 3 0.04
12 8 0.11
13 26 0.36
14 30 0.42
ACGTcount: A:0.56, C:0.27, G:0.06, T:0.10
Consensus pattern (13 bp):
AAACCTAAAACCG
Found at i:30071506 original size:33 final size:32
Alignment explanation
Indices: 30071430--30071503 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
30071420 CATAAACCCT
* * *
30071430 AAACCAAAACCCTAACCTTAAACCTTAAACTA
1 AAACCAAAACCCTAAACTTAAACCTGAAACCA
*
30071462 AAACCTAAAACCGTAAACTTAAAACC-GAAACCA
1 AAACC-AAAACCCTAAACTT-AAACCTGAAACCA
30071495 AAACCAAAA
1 AAACCAAAA
30071504 ACCAAAACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 9 0.25
33 22 0.61
34 5 0.14
ACGTcount: A:0.55, C:0.28, G:0.03, T:0.14
Consensus pattern (32 bp):
AAACCAAAACCCTAAACTTAAACCTGAAACCA
Found at i:30071764 original size:33 final size:33
Alignment explanation
Indices: 30071682--30071757 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
30071672 TCCTAAATCC
*
30071682 TAAA-CCTAACCTTAAACCTTAAATCAAAAACA
1 TAAACCCTAACCTTAAACCTTAAATAAAAAACA
*
30071714 TAAACCATAACCTTAAACCTTAAATAAAAAACA
1 TAAACCCTAACCTTAAACCTTAAATAAAAAACA
30071747 TAAACCCTAAC
1 TAAACCCTAAC
30071758 TCTAAACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (33 bp):
TAAACCCTAACCTTAAACCTTAAATAAAAAACA
Found at i:30071784 original size:7 final size:7
Alignment explanation
Indices: 30071774--30072914 Score: 210
Period size: 7 Copynumber: 174.7 Consensus size: 7
30071764 CTTTAAGTCC
30071774 TAAACCT
1 TAAACCT
30071781 TAAA-CT
1 TAAACCT
*
30071787 TAAACCA
1 TAAACCT
30071794 T-AACCT
1 TAAACCT
*
30071800 TATA--T
1 TAAACCT
*
30071805 T-AACCC
1 TAAACCT
30071811 TAAA-CT
1 TAAACCT
30071817 TAAA-CT
1 TAAACCT
*
30071823 CCAAATCC-
1 -TAAA-CCT
*
30071831 TAAACTT
1 TAAACCT
*
30071838 TAAACTT
1 TAAACCT
*
30071845 TAAACCC
1 TAAACCT
*
30071852 TAAACCA
1 TAAACCT
30071859 T-AACCT
1 TAAACCT
30071865 TAAACC-
1 TAAACCT
30071871 T-AA-CT
1 TAAACCT
*
30071876 TTAA-CT
1 TAAACCT
*
30071882 CT-AACCC
1 -TAAACCT
30071889 TAAA-CT
1 TAAACCT
*
30071895 ATAAACCC
1 -TAAACCT
*
30071903 T-AATCT
1 TAAACCT
30071909 T-AACCT
1 TAAACCT
*
30071915 TAAA-TT
1 TAAACCT
30071921 TAAACCT
1 TAAACCT
30071928 TAAACCT
1 TAAACCT
*
30071935 TAAAAACCA
1 T--AAACCT
*
30071944 TAAAAC-
1 TAAACCT
*
30071950 T-AACTT
1 TAAACCT
*
30071956 TAAACTT
1 TAAACCT
30071963 TAAA-CT
1 TAAACCT
*
30071969 TAAACAT
1 TAAACCT
*
30071976 T-AACAT
1 TAAACCT
30071982 TAAACCT
1 TAAACCT
30071989 TAAACCT
1 TAAACCT
30071996 T-AA-CT
1 TAAACCT
30072001 CT-AACAC-
1 -TAAAC-CT
*
30072008 T-AACCC
1 TAAACCT
*
30072014 T-AACCA
1 TAAACCT
30072020 TAAACCCT
1 TAAA-CCT
30072028 TAAA-CT
1 TAAACCT
*
30072034 AAAACCT
1 TAAACCT
*
30072041 T-AACCC
1 TAAACCT
30072047 T-AACCT
1 TAAACCT
30072053 TAAACCT
1 TAAACCT
* *
30072060 AACCCAAGCT
1 TA---AACCT
*
30072070 TTAACCT
1 TAAACCT
30072077 TAAA--T
1 TAAACCT
*
30072082 TACACCT
1 TAAACCT
30072089 TAAACCCT
1 TAAA-CCT
30072097 TAAA-CT
1 TAAACCT
30072103 TAAACAC-
1 TAAAC-CT
30072110 TAAACCT
1 TAAACCT
30072117 T-AACCT
1 TAAACCT
*
30072123 TAAATCT
1 TAAACCT
30072130 TAAACC-
1 TAAACCT
* *
30072136 CAAACCC
1 TAAACCT
30072143 T-AACCT
1 TAAACCT
*
30072149 T-AA-CA
1 TAAACCT
30072154 TAAACC-
1 TAAACCT
*
30072160 TAAACCC
1 TAAACCT
30072167 T-AACCT
1 TAAACCT
30072173 T-AACCT
1 TAAACCT
30072179 TAAACC-
1 TAAACCT
*
30072185 T-AACCC
1 TAAACCT
30072191 T-AA-CT
1 TAAACCT
*
30072196 CT-AATCT
1 -TAAACCT
30072203 TAAACCT
1 TAAACCT
30072210 TAAACC-
1 TAAACCT
30072216 TAAA--T
1 TAAACCT
* *
30072221 CAACACCA
1 TAA-ACCT
30072229 TAAA-CT
1 TAAACCT
*
30072235 ATAAACCA
1 -TAAACCT
*
30072243 T-AACCC
1 TAAACCT
**
30072249 TAAA-AA
1 TAAACCT
*
30072255 T-AACCA
1 TAAACCT
30072261 T-AACCT
1 TAAACCT
30072267 T-AA-CT
1 TAAACCT
*
30072272 TTAACCT
1 TAAACCT
* *
30072279 TAATCCC
1 TAAACCT
30072286 TAAA-CT
1 TAAACCT
*
30072292 TAAATC-
1 TAAACCT
* *
30072298 AAAACCA
1 TAAACCT
*
30072305 TAAACCC
1 TAAACCT
*
30072312 T-AACCC
1 TAAACCT
*
30072318 T-AACCC
1 TAAACCT
30072324 T-AACCT
1 TAAACCT
30072330 TAAAAACC-
1 T--AAACCT
*
30072338 TAAACCC
1 TAAACCT
*
30072345 T-AACCA
1 TAAACCT
30072351 TAAACCT
1 TAAACCT
30072358 TAACCAACC-
1 T-A--AACCT
*
30072367 T-AACCA
1 TAAACCT
30072373 T-AACCT
1 TAAACCT
30072379 TAAACCT
1 TAAACCT
30072386 TAAA--T
1 TAAACCT
*
30072391 AATAACCT
1 TA-AACCT
*
30072399 T-AACCC
1 TAAACCT
30072405 T-AACCTT
1 TAAACC-T
30072412 TAAA--T
1 TAAACCT
30072417 TATAAGCCT
1 TA-AA-CCT
*
30072426 TAAACCC
1 TAAACCT
30072433 TAAA-C-
1 TAAACCT
30072438 TATAACCT
1 TA-AACCT
30072446 T-AA-CT
1 TAAACCT
*
30072451 CT-AACCA
1 -TAAACCT
30072458 T-AA-CT
1 TAAACCT
*
30072463 CTAAACCC
1 -TAAACCT
30072471 T-AACCT
1 TAAACCT
30072477 TAAA-CT
1 TAAACCT
30072483 TAAA--T
1 TAAACCT
* *
30072488 CAAAACT
1 TAAACCT
30072495 ATAAACCT
1 -TAAACCT
30072503 T-AACCT
1 TAAACCT
30072509 TAAACCT
1 TAAACCT
*
30072516 TAAATAC-
1 TAAA-CCT
30072523 T-AACCT
1 TAAACCT
30072529 TAAA-CT
1 TAAACCT
30072535 TAAACC-
1 TAAACCT
**
30072541 TAAATAT
1 TAAACCT
30072548 T-AACCT
1 TAAACCT
30072554 TAAACCT
1 TAAACCT
30072561 TAAACCT
1 TAAACCT
30072568 TAAACC-
1 TAAACCT
*
30072574 T-AACCC
1 TAAACCT
* *
30072580 T-GACCA
1 TAAACCT
30072586 TAAACC-
1 TAAACCT
30072592 TAAA-CT
1 TAAACCT
*
30072598 TTAACAC-
1 TAAAC-CT
*
30072605 T-AACAT
1 TAAACCT
30072611 CTAAACC-
1 -TAAACCT
30072618 TAAACCT
1 TAAACCT
*
30072625 TAAACCC
1 TAAACCT
*
30072632 TAAACCC
1 TAAACCT
*
30072639 TAAACCC
1 TAAACCT
*
30072646 TAAACCC
1 TAAACCT
30072653 TAAACCT
1 TAAACCT
30072660 TAAACC-
1 TAAACCT
* *
30072666 CAACCCT
1 TAAACCT
30072673 T-AA-CT
1 TAAACCT
30072678 T-AACCT
1 TAAACCT
*
30072684 T-AACCC
1 TAAACCT
30072690 T-AA-CT
1 TAAACCT
30072695 CTAAACC-
1 -TAAACCT
30072702 T-AA-CT
1 TAAACCT
**
30072707 CCAA-CT
1 TAAACCT
*
30072713 CT-AACTT
1 -TAAACCT
30072720 TAAACCT
1 TAAACCT
30072727 TAAACCT
1 TAAACCT
30072734 TAAACCT
1 TAAACCT
30072741 TAAACC-
1 TAAACCT
30072747 T-AACC-
1 TAAACCT
30072752 -AAACCT
1 TAAACCT
30072758 TAAACC-
1 TAAACCT
*
30072764 TCAACCT
1 TAAACCT
30072771 T-AA-CT
1 TAAACCT
30072776 TGAAACCT
1 T-AAACCT
30072784 TAAA--T
1 TAAACCT
* *
30072789 TAAATCA
1 TAAACCT
*
30072796 CAAATCC-
1 TAAA-CCT
30072803 TAAACC-
1 TAAACCT
*
30072809 AAAACCTT
1 TAAACC-T
30072817 AATAGATACCT
1 --TA-A-ACCT
30072828 TAAACC-
1 TAAACCT
30072834 TAAACCT
1 TAAACCT
*
30072841 TAAACCA
1 TAAACCT
30072848 TAAA-CT
1 TAAACCT
* *
30072854 TTAACAT
1 TAAACCT
*
30072861 TAAATCT
1 TAAACCT
*
30072868 TAAACCC
1 TAAACCT
*
30072875 TAAACTT
1 TAAACCT
30072882 TAAACCT
1 TAAACCT
30072889 T-AACCT
1 TAAACCT
30072895 TAAACCCT
1 TAAA-CCT
*
30072903 AAAACCT
1 TAAACCT
30072910 TAAAC
1 TAAAC
30072915 ACTAAACCCT
Statistics
Matches: 862, Mismatches: 131, Indels: 282
0.68 0.10 0.22
Matches are distributed among these distances:
4 3 0.00
5 76 0.09
6 344 0.40
7 358 0.42
8 50 0.06
9 17 0.02
10 9 0.01
11 2 0.00
12 3 0.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:30071792 original size:13 final size:13
Alignment explanation
Indices: 30071774--30072905 Score: 133
Period size: 13 Copynumber: 87.8 Consensus size: 13
30071764 CTTTAAGTCC
30071774 TAAACCTTAAACT
1 TAAACCTTAAACT
* *
30071787 TAAACCATAACCTT
1 TAAACCTTAAAC-T
*
30071801 ATATTAACCCTAAACT
1 -TA--AACCTTAAACT
* *
30071817 TAAA-CTCCAAATCC
1 TAAACCT-TAAA-CT
*
30071831 TAAACTTTAAACTT
1 TAAACCTTAAAC-T
*
30071845 TAAACCCTAAAC-
1 TAAACCTTAAACT
* *
30071857 CATAACCTTAAACC
1 TA-AACCTTAAACT
*
30071871 T-AA-CTTTAACT
1 TAAACCTTAAACT
*
30071882 CT-AACCCTAAACT
1 -TAAACCTTAAACT
* *
30071895 ATAAACCCTAATCT
1 -TAAACCTTAAACT
*
30071909 T-AACCTTAAATT
1 TAAACCTTAAACT
30071921 TAAACCTTAAACCT
1 TAAACCTTAAA-CT
* *
30071935 TAAA----AACCA
1 TAAACCTTAAACT
*
30071944 TAAAAC-T-AACTT
1 TAAACCTTAAAC-T
*
30071956 TAAACTTTAAACT
1 TAAACCTTAAACT
*
30071969 TAAACATT-AACAT
1 TAAACCTTAAAC-T
30071982 TAAACCTTAAACCT
1 TAAACCTTAAA-CT
30071996 T-AA-CTCTAACAC-
1 TAAACCT-TAA-ACT
* * *
30072008 T-AACCCTAACCA
1 TAAACCTTAAACT
30072020 TAAACCCTTAAACT
1 TAAA-CCTTAAACT
* * *
30072034 AAAACCTTAACCC
1 TAAACCTTAAACT
*
30072047 T-AACCTTAAACC
1 TAAACCTTAAACT
* *
30072059 T-AACC-CAAGCT
1 TAAACCTTAAACT
*
30072070 TTAACCTTAAA-T
1 TAAACCTTAAACT
*
30072082 TACACCTTAAACCCT
1 TAAACCTTAAA--CT
*
30072097 TAAA-CTTAAACAC
1 TAAACCTTAAAC-T
*
30072110 TAAACCTTAACCT
1 TAAACCTTAAACT
* *
30072123 TAAATCTTAAACC
1 TAAACCTTAAACT
* * *
30072136 CAAACCCTAACCT
1 TAAACCTTAAACT
* *
30072149 T-AA-CATAAACC
1 TAAACCTTAAACT
* *
30072160 TAAACCCTAACCT
1 TAAACCTTAAACT
*
30072173 T-AACCTTAAACC
1 TAAACCTTAAACT
*
30072185 T-AACCCT-AACT
1 TAAACCTTAAACT
*
30072196 CT-AATCTTAAACCT
1 -TAAACCTTAAA-CT
30072210 TAAACC-TAAA-T
1 TAAACCTTAAACT
* *
30072221 CAACACCATAAACT
1 TAA-ACCTTAAACT
* * *
30072235 ATAAACCATAACCC
1 -TAAACCTTAAACT
** * *
30072249 TAAA-AATAACCA
1 TAAACCTTAAACT
30072261 T-AACCTT-AACT
1 TAAACCTTAAACT
* * *
30072272 TTAACCTTAATCCC
1 TAAACCTTAA-ACT
30072286 TAAA-CTTAAA-T
1 TAAACCTTAAACT
* * *
30072297 CAAAACCATAAACCC
1 -TAAACCTTAAA-CT
* * *
30072312 T-AACCCTAACCC
1 TAAACCTTAAACT
*
30072324 T-AACCTTAAAAACC
1 TAAACCTT--AAACT
* * *
30072338 TAAACCCTAACCA
1 TAAACCTTAAACT
*
30072351 TAAACCTTAACCAACC
1 TAAACCTT-A--AACT
* *
30072367 T-AACCATAACCT
1 TAAACCTTAAACT
30072379 TAAACCTTAAA-T
1 TAAACCTTAAACT
* * *
30072391 AATAACCTTAACCC
1 TA-AACCTTAAACT
30072405 T-AACCTTTAAA-T
1 TAAACC-TTAAACT
*
30072417 TATAAGCCTTAAACCC
1 TA-AA-CCTTAAA-CT
*
30072433 TAAA-CTATAACCT
1 TAAACCT-TAAACT
* *
30072446 T-AA-CTCTAACCA
1 TAAACCT-TAAACT
*
30072458 T-AA-CTCTAAACCC
1 TAAACCT-TAAA-CT
30072471 T-AACCTTAAACT
1 TAAACCTTAAACT
* *
30072483 TAAATC-AAAACT
1 TAAACCTTAAACT
*
30072495 ATAAACCTTAACCT
1 -TAAACCTTAAACT
30072509 TAAACCTTAAA--
1 TAAACCTTAAACT
30072520 TACTAACCTTAAACT
1 TA--AACCTTAAACT
30072535 TAAACC-TAAA-T
1 TAAACCTTAAACT
*
30072546 ATTAACCTTAAACCT
1 -TAAACCTTAAA-CT
*
30072561 TAAACCTTAAACC
1 TAAACCTTAAACT
* * * *
30072574 T-AACCCTGACCA
1 TAAACCTTAAACT
30072586 TAAACC-TAAACT
1 TAAACCTTAAACT
*
30072598 TTAACAC-T-AACAT
1 TAAAC-CTTAAAC-T
30072611 CTAAACC-TAAACCT
1 -TAAACCTTAAA-CT
* *
30072625 TAAACCCTAAACCC
1 TAAACCTTAAA-CT
* *
30072639 TAAACCCTAAACCC
1 TAAACCTTAAA-CT
*
30072653 TAAACCTTAAACC
1 TAAACCTTAAACT
* *
30072666 CAACCCTT-AACT
1 TAAACCTTAAACT
* *
30072678 T-AACCTTAACCC
1 TAAACCTTAAACT
*
30072690 T-AA-CTCTAAACC
1 TAAACCT-TAAACT
**
30072702 T-AA-CTCCAACT
1 TAAACCTTAAACT
*
30072713 CT-AACTTTAAACCT
1 -TAAACCTTAAA-CT
30072727 TAAACCTTAAACCT
1 TAAACCTTAAA-CT
30072741 TAAACC-T-AAC-
1 TAAACCTTAAACT
* *
30072751 CAAACCTTAAACC
1 TAAACCTTAAACT
*
30072764 TCAACCTT-AACT
1 TAAACCTTAAACT
30072776 TGAAACCTTAAA-T
1 T-AAACCTTAAACT
* ** *
30072789 TAAATCACAAATCC
1 TAAACCTTAAA-CT
*
30072803 TAAACC-AAAACCT
1 TAAACCTTAAA-CT
** *
30072816 TAATA-GAT-ACCT
1 TAA-ACCTTAAACT
30072828 TAAACC-TAAACCT
1 TAAACCTTAAA-CT
*
30072841 TAAACCATAAACT
1 TAAACCTTAAACT
* *
30072854 TTAACATTAAATCT
1 TAAACCTTAAA-CT
*
30072868 TAAACCCTAAACTT
1 TAAACCTTAAAC-T
*
30072882 TAAACCTTAACCT
1 TAAACCTTAAACT
*
30072895 TAAACCCTAAA
1 TAAACCTTAAA
30072906 ACCTTAAACA
Statistics
Matches: 819, Mismatches: 188, Indels: 224
0.67 0.15 0.18
Matches are distributed among these distances:
9 5 0.01
10 7 0.01
11 47 0.06
12 218 0.27
13 295 0.36
14 203 0.25
15 30 0.04
16 6 0.01
17 8 0.01
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAACCTTAAACT
Found at i:30071855 original size:78 final size:77
Alignment explanation
Indices: 30071755--30071938 Score: 214
Period size: 78 Copynumber: 2.4 Consensus size: 77
30071745 CATAAACCCT
* **
30071755 AACTCTAAACTTTAAGTCCTAAACCTTAAACTTAAACCATAACCTTATA-T-TAACCCTAAACT-
1 AACTTTAAACTTTAAACCCTAAACCTTAAACTTAAACC-TAACCTTA-ACTCTAACCCTAAACTA
30071817 TAAACTCCAAATCCTA
64 TAAAC-CCAAAT-CTA
* * *
30071833 AACTTTAAACTTTAAACCCTAAACCATAACCTTAAACCTAACTTTAACTCTAACCCTAAACTATA
1 AACTTTAAACTTTAAACCCTAAACCTTAAACTTAAACCTAACCTTAACTCTAACCCTAAACTATA
* *
30071898 AACCCTAATCTT
66 AACCCAAATCTA
* *
30071910 AACCTTAAA-TTTAAACCTTAAACCTTAAA
1 AACTTTAAACTTTAAACCCTAAACCTTAAA
30071939 AACCATAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
76 18 0.20
77 18 0.20
78 50 0.55
79 5 0.05
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.30
Consensus pattern (77 bp):
AACTTTAAACTTTAAACCCTAAACCTTAAACTTAAACCTAACCTTAACTCTAACCCTAAACTATA
AACCCAAATCTA
Found at i:30072117 original size:20 final size:20
Alignment explanation
Indices: 30071774--30072914 Score: 206
Period size: 20 Copynumber: 57.6 Consensus size: 20
30071764 CTTTAAGTCC
*
30071774 TAAACCTTAAACTTAAACCA
1 TAAACCTTAAACTTAAACCT
* *
30071794 T-AACCTTATA-TT-AACCC
1 TAAACCTTAAACTTAAACCT
*
30071811 TAAA-CTTAAACTCCAAATCC-
1 TAAACCTTAAACT-TAAA-CCT
* *
30071831 TAAACTTTAAACTTTAAACCC
1 TAAACCTTAAAC-TTAAACCT
* *
30071852 TAAACCATAACCTTAAACC-
1 TAAACCTTAAACTTAAACCT
* *
30071871 T-AA-CTTTAACTCT-AACCC
1 TAAACCTTAAACT-TAAACCT
* *
30071889 TAAA-CTATAAACCCT-AATCT
1 TAAACCT-TAAA-CTTAAACCT
*
30071909 T-AACCTTAAATTTAAACCT
1 TAAACCTTAAACTTAAACCT
* *
30071928 TAAACCTTAAAAACCATAAAAC-
1 TAAACCTT--AAA-CTTAAACCT
*
30071950 T-AACTTTAAACTTTAAA-CT
1 TAAACCTTAAAC-TTAAACCT
*
30071969 TAAACATT-AACATTAAACCT
1 TAAACCTTAAAC-TTAAACCT
30071989 TAAACCTT-AACTCT-AACAC-
1 TAAACCTTAAACT-TAAAC-CT
* * *
30072008 T-AACCCTAACCATAAACCCT
1 TAAACCTTAAACTTAAA-CCT
* *
30072028 TAAA-CTAAAACCTT-AACCC
1 TAAACCTTAAA-CTTAAACCT
* *
30072047 T-AACCTTAAACCTAACCCAAGCT
1 TAAACCTTAAA-CTTA---AACCT
* *
30072070 TTAACCTTAAA-TTACACCT
1 TAAACCTTAAACTTAAACCT
30072089 TAAACCCTTAAACTTAAACAC-
1 TAAA-CCTTAAACTTAAAC-CT
* *
30072110 TAAACCTTAACCTTAAATCT
1 TAAACCTTAAACTTAAACCT
* *
30072130 TAAACC-CAAACCCT-AACCT
1 TAAACCTTAAA-CTTAAACCT
* * *
30072149 T-AA-CATAAACCTAAACCC
1 TAAACCTTAAACTTAAACCT
*
30072167 T-AACCTTAACCTTAAACC-
1 TAAACCTTAAACTTAAACCT
* *
30072185 T-AACCCT-AACTCT-AATCT
1 TAAACCTTAAACT-TAAACCT
*
30072203 TAAACCTTAAACCTAAA--T
1 TAAACCTTAAACTTAAACCT
* * *
30072221 CAACACCATAAACTATAAACCA
1 TAA-ACCTTAAACT-TAAACCT
* ** *
30072243 T-AACCCTAAAAAT-AACCA
1 TAAACCTTAAACTTAAACCT
*
30072261 T-AACCTT-AACTTTAACCT
1 TAAACCTTAAACTTAAACCT
* * *
30072279 TAATCCCTAAACTTAAATC-
1 TAAACCTTAAACTTAAACCT
* * * *
30072298 AAAACCATAAACCCT-AACCC
1 TAAACCTTAAA-CTTAAACCT
* *
30072318 T-AACCCTAACCTTAAAAACC-
1 TAAACCTTAAACTT--AAACCT
* * *
30072338 TAAACCCTAACCATAAACCT
1 TAAACCTTAAACTTAAACCT
* *
30072358 TAACCAACC-TAACCAT-AACCT
1 T-A--AACCTTAAACTTAAACCT
*
30072379 TAAACCTTAAA-TAATAACCT
1 TAAACCTTAAACTTA-AACCT
30072399 TAACCCTAACCTTTAAA-TTATAAGCCT
1 T-A----AACC-TTAAACTTA-AA-CCT
*
30072426 TAAACCCTAAAC-TATAACCT
1 TAAACCTTAAACTTA-AACCT
* *
30072446 T-AA-CTCTAACCAT-AA-CT
1 TAAACCT-TAAACTTAAACCT
* *
30072463 CTAAACCCTAACCTTAAA-CT
1 -TAAACCTTAAACTTAAACCT
* *
30072483 TAAATC-AAAACTATAAACCT
1 TAAACCTTAAACT-TAAACCT
*
30072503 T-AACCTTAAACCTTAAATAC-
1 TAAACCTTAAA-CTTAAA-CCT
30072523 T-AACCTTAAACTTAAACC-
1 TAAACCTTAAACTTAAACCT
** *
30072541 TAAATATTAACCTTAAACCT
1 TAAACCTTAAACTTAAACCT
* *
30072561 TAAACCTTAAACCTAACCCTGACCA
1 TAAACCTTAAACTTAA-----ACCT
*
30072586 TAAACC-TAAACTTTAACAC-
1 TAAACCTTAAACTTAAAC-CT
* *
30072605 T-AACATCTAAACCTAAACCT
1 TAAACCT-TAAACTTAAACCT
* * *
30072625 TAAACCCTAAACCCTAAACCC
1 TAAACCTTAAA-CTTAAACCT
*
30072646 TAAACCCTAAACCTTAAACC-
1 TAAACCTTAAA-CTTAAACCT
* *
30072666 CAACCCTT-AACTT-AACCT
1 TAAACCTTAAACTTAAACCT
*
30072684 T-AACCCT-AACTCTAAACC-
1 TAAACCTTAAACT-TAAACCT
** *
30072702 T-AA-CTCCAACTCT-AACTT
1 TAAACCTTAAACT-TAAACCT
30072720 TAAACCTTAAACCTTAAACCT
1 TAAACCTTAAA-CTTAAACCT
*
30072741 TAAACC-T-AAC-CAAACCT
1 TAAACCTTAAACTTAAACCT
* *
30072758 TAAACCTCAACCTT-AA-CT
1 TAAACCTTAAACTTAAACCT
* *
30072776 TGAAACCTTAAA-TTAAATCA
1 T-AAACCTTAAACTTAAACCT
* **
30072796 CAAATCC-TAAACCAAAACCTT
1 TAAA-CCTTAAACTTAAACC-T
*
30072817 AATAGATACCTTAAACCTAAACCT
1 --TA-A-ACCTTAAACTTAAACCT
* * *
30072841 TAAACCATAAACTTTAACAT
1 TAAACCTTAAACTTAAACCT
* * *
30072861 TAAATCTTAAACCCTAAACTT
1 TAAACCTTAAA-CTTAAACCT
*
30072882 TAAACCTTAACCTTAAACCCT
1 TAAACCTTAAACTTAAA-CCT
*
30072903 AAAACCTTAAAC
1 TAAACCTTAAAC
30072915 ACTAAACCCT
Statistics
Matches: 834, Mismatches: 160, Indels: 253
0.67 0.13 0.20
Matches are distributed among these distances:
17 62 0.07
18 98 0.12
19 212 0.25
20 222 0.27
21 145 0.17
22 21 0.03
23 14 0.02
24 20 0.02
25 25 0.03
26 11 0.01
27 4 0.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAACCTTAAACTTAAACCT
Found at i:30072141 original size:102 final size:100
Alignment explanation
Indices: 30071975--30072182 Score: 235
Period size: 102 Copynumber: 2.0 Consensus size: 100
30071965 AACTTAAACA
*
30071975 TTAACATTAAACCTTAAACCTTAACTCTAACACTAACCCTAACCATAAACCCTTAAACTAAAACC
1 TTAA-ATTAAACCTTAAACCTTAACTCTAACACTAACCCTAACCATAAACCCTTAAACCAAAACC
* * *
30072040 TTAACCCTAACCTTAAACCT-AACCC-AAGCTTTAACC
65 CTAACCCTAA-CATAAACCTAAACCCTAA-CCTTAACC
* * * * *
30072076 TTAAATTACACCTTAAACCCTTAAACT-TAAACACTAAACCTTAACCTTAAA-TCTTAAACCCAA
1 TTAAATTAAACCTTAAA-CCTT-AACTCT-AACACT-AACCCTAACCATAAACCCTTAAACCAAA
*
30072139 ACCCTAACCTTAACATAAACCTAAACCCTAACCTTAACC
62 ACCCTAACCCTAACATAAACCTAAACCCTAACCTTAACC
30072178 TTAAA
1 TTAAA
30072183 CCTAACCCTA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
100 12 0.13
101 17 0.19
102 47 0.52
103 15 0.16
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.25
Consensus pattern (100 bp):
TTAAATTAAACCTTAAACCTTAACTCTAACACTAACCCTAACCATAAACCCTTAAACCAAAACCC
TAACCCTAACATAAACCTAAACCCTAACCTTAACC
Found at i:30072152 original size:6 final size:6
Alignment explanation
Indices: 30072036--30072774 Score: 73
Period size: 6 Copynumber: 116.5 Consensus size: 6
30072026 CTTAAACTAA
* * * *
30072036 AACCTT AACCCT AACCTT AAACC-T AACC-C AAGCTTT AACCTT AA-ATT
1 AACCTT AACCTT AACCTT -AACCTT AACCTT AA-CCTT AACCTT AACCTT
* * *
30072083 ACACCTT AAACCCTT AAACTT AAACACTA AACCTT AACCTT AAATCTT
1 A-ACCTT -AA-CCTT AACCTT -AAC-CTT AACCTT AACCTT -AACCTT
** * * * * *
30072131 AAACCCA AACCCT AACCTT AACATA AACCTA AACCCT AACCTT AACCTT
1 -AACCTT AACCTT AACCTT AACCTT AACCTT AACCTT AACCTT AACCTT
* * * * * *
30072180 AAACC-T AACCCT AA-CTCT AATCTT AAACCTT AAACCTA AATC-A ACACCAT
1 -AACCTT AACCTT AACCT-T AACCTT -AACCTT -AACCTT AACCTT A-ACCTT
* * * *** * *
30072230 AAACTAT AAACCAT AACCCT AAAAAT AACCAT AACCTT AACTTT AACCTT
1 AACCT-T -AACCTT AACCTT AACCTT AACCTT AACCTT AACCTT AACCTT
* * * ** * * * *
30072280 AATCCCT AAACTT AAATCAA AACCATA AACCCT AACCCT AACCCT AACCTT
1 AA-CCTT AACCTT -AACCTT AACC-TT AACCTT AACCTT AACCTT AACCTT
* * * *
30072331 AAAAACCTA AACCCT AACCATA AACCTT AACC-- AACC-T AACCAT AACCTT
1 ---AACCTT AACCTT AACC-TT AACCTT AACCTT AACCTT AACCTT AACCTT
* * **
30072380 AAACCTT AA-ATAAT AACCTT AACCCT AACCTTT AAATTAT AAGCCTT
1 -AACCTT AACCT--T AACCTT AACCTT AACC-TT AACCT-T AA-CCTT
* * * * *
30072427 AAACCCT AAACTAT AACCTT AA-CTCT AACCAT AACTCTA AACCCT AACCTT
1 -AACCTT AACCT-T AACCTT AACCT-T AACCTT AAC-CTT AACCTT AACCTT
* * * * *
30072478 AAACTT AA-ATCA AAACTAT AAACCTT AACCTT AAACCTT AA-ATACT
1 AACCTT AACCT-T AACCT-T -AACCTT AACCTT -AACCTT AACCT--T
* * **
30072524 AACCTT AAACTT AAACCTA AATATT AACCTT AAACCTT AAACCTT AAACC-T
1 AACCTT AACCTT -AACCTT AACCTT AACCTT -AACCTT -AACCTT -AACCTT
* * * * * * *
30072575 AACCCT GACCATA AACCTA AACTTT AACAC-T AACATCTA AACCTA AACCTT
1 AACCTT AACC-TT AACCTT AACCTT AAC-CTT AAC--CTT AACCTT AACCTT
* * * * *
30072626 AAACCCTA AACCCTA AACCCTA AACCCTA AACCTT AAACC-C AACCCTT
1 -AA-CCTT AA-CCTT AA-CCTT AA-CCTT AACCTT -AACCTT AA-CCTT
* * * *
30072674 AA-CTT AACCTT AACCCT AACTCTA AACC-T AA-CTCC AA-CTCT AACTTT
1 AACCTT AACCTT AACCTT AAC-CTT AACCTT AACCT-T AACCT-T AACCTT
* *
30072721 AAACCTT AAACCTT AAACCTT AAACC-T AACC-A AACCTT AAACCTC AACCTT
1 -AACCTT -AACCTT -AACCTT -AACCTT AACCTT AACCTT -AACCTT AACCTT
30072772 AAC
1 AAC
30072775 TTGAAACCTT
Statistics
Matches: 544, Mismatches: 122, Indels: 134
0.68 0.15 0.17
Matches are distributed among these distances:
4 5 0.01
5 46 0.08
6 270 0.50
7 193 0.35
8 25 0.05
9 5 0.01
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.25
Consensus pattern (6 bp):
AACCTT
Found at i:30072164 original size:24 final size:26
Alignment explanation
Indices: 30072009--30072764 Score: 171
Period size: 26 Copynumber: 29.7 Consensus size: 26
30071999 CTCTAACACT
*
30072009 AACCCTAACCATAAACCCTTAAA-CTAA
1 AACCCTAACCTTAAA-CCTTAAACCT-A
* *
30072036 AACCTTAACCCT-AACCTTAAACCT-
1 AACCCTAACCTTAAACCTTAAACCTA
* * * * *
30072060 AACCCAAGCTTTAAC-CTTAAA-TTA
1 AACCCTAACCTTAAACCTTAAACCTA
* *
30072084 CACCTTAAACCCTTAAA-CTTAAACACTA
1 AACCCT-AA-CCTTAAACCTTAAAC-CTA
* * *
30072112 AACCTTAACCTTAAATCTTAAACCCA
1 AACCCTAACCTTAAACCTTAAACCTA
*
30072138 AACCCTAACCTT-AA-CATAAACCTA
1 AACCCTAACCTTAAACCTTAAACCTA
30072162 AACCCTAACCTT-AACCTTAAACCT-
1 AACCCTAACCTTAAACCTTAAACCTA
*
30072186 AACCCTAA-CTCT-AATCTTAAACCTTA
1 AACCCTAACCT-TAAACCTTAAACC-TA
* * * *
30072212 AA-CCTAA-ATCAACACCATAAACTATA
1 AACCCTAACCTTAA-ACCTTAAAC-CTA
* * **
30072238 AACCATAACCCTAAA-AAT-AACC-A
1 AACCCTAACCTTAAACCTTAAACCTA
* * *
30072261 TAACCTTAA-CTTTAACCTTAATCCCTA
1 -AACCCTAACCTTAAACCTTAA-ACCTA
* * * *
30072288 AA-CTTAA-ATCAAAACCATAAACCCT-
1 AACCCTAACCT-TAAACCTTAAA-CCTA
*
30072313 AACCCTAACCCT-AACCTTAAAAACCTA
1 AACCCTAACCTTAAACCTT--AAACCTA
*
30072340 AACCCTAACCATAAACCTTAACCAACCT-
1 AACCCTAACCTTAAACCTT-A--AACCTA
*
30072368 AACCATAACCTTAAACCTTAAA--TAA
1 AACCCTAACCTTAAACCTTAAACCT-A
* * *
30072393 TAACCTTAACCCT-AACCTTTAAA-TTA
1 -AACCCTAACCTTAAACC-TTAAACCTA
* * *
30072419 TAAGCCTTAAACCCTAAA-C-TATAACCTT
1 -AA-CCCT-AACCTTAAACCTTA-AACCTA
* *
30072447 AACTCTAACCAT-AACTC-TAAACCCT-
1 AACCCTAACCTTAAAC-CTTAAA-CCTA
* * * * *
30072472 AACCTTAAACTTAAATC-AAAACTATA
1 AACCCTAACCTTAAACCTTAAAC-CTA
*
30072498 AACCTTAACCTTAAACCTTAAA--T-
1 AACCCTAACCTTAAACCTTAAACCTA
30072521 -A--CTAACCTTAAA-CTTAAACCTA
1 AACCCTAACCTTAAACCTTAAACCTA
***
30072543 AATATTAACCTTAAACCTTAAACCTTA
1 AACCCTAACCTTAAACCTTAAACC-TA
* * *
30072570 AA-CCTAACCCT-GACCATAAACCTA
1 AACCCTAACCTTAAACCTTAAACCTA
** *
30072594 AACTTTAACAC-T-AACATCTAAACCTA
1 AACCCTAAC-CTTAAACCT-TAAACCTA
* * *
30072620 AACCTTAAACCCTAAACCCTAAACCCTA
1 AACCCT-AACCTTAAACCTTAAA-CCTA
* * *
30072648 AACCCTAAACCTTAAACC-CAACCCTT
1 AACCCT-AACCTTAAACCTTAAACCTA
* *
30072674 AA-CTTAACCTTA-ACCCT-AACTCTA
1 AACCCTAACCTTAAACCTTAAAC-CTA
** *
30072698 AA-CCTAA-CTCCAA-CTCT-AACTTTA
1 AACCCTAACCTTAAACCT-TAAAC-CTA
*
30072722 AACCTTAAACCTTAAACCTTAAACCT-
1 AACCCT-AACCTTAAACCTTAAACCTA
*
30072748 AA-CCAAACCTTAAACCT
1 AACCCTAACCTTAAACCT
30072765 CAACCTTAAC
Statistics
Matches: 551, Mismatches: 105, Indels: 149
0.68 0.13 0.19
Matches are distributed among these distances:
19 6 0.01
20 10 0.02
21 1 0.00
22 1 0.00
23 18 0.03
24 110 0.20
25 101 0.18
26 155 0.28
27 74 0.13
28 68 0.12
29 7 0.01
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (26 bp):
AACCCTAACCTTAAACCTTAAACCTA
Found at i:30072240 original size:76 final size:75
Alignment explanation
Indices: 30072152--30072348 Score: 209
Period size: 76 Copynumber: 2.6 Consensus size: 75
30072142 CTAACCTTAA
* * *
30072152 CATAAACCTAAACCCTAACCTTAACCTTAAACCTAACCCTAACTCTAATCTTAAACCTTAAACCT
1 CATAAACCTAAACCCTAACCCTAACCTTAAACCTAACCCTAACTCTAACCTTAAACCCTAAACCT
*
30072217 AAATCAACAC
66 AAATCAAAAC
* * *** * * *
30072227 CATAAACTATAAACCATAACCCTAAAAAT-AACCATAACCTTAACTTTAACCTTAATCCCTAAAC
1 CATAAAC-CTAAACCCTAACCCTAACCTTAAACC-TAACCCTAACTCTAACCTTAAACCCTAAAC
*
30072291 TTAAATCAAAAC
64 CTAAATCAAAAC
30072303 CATAAACCCT-AACCCTAACCCTAACCTTAAAAACCTAAACCCTAAC
1 CATAAA-CCTAAACCCTAACCCTAACCTT--AAACCT-AACCCTAAC
30072349 CATAAACCTT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
75 25 0.26
76 57 0.59
77 2 0.02
78 12 0.12
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (75 bp):
CATAAACCTAAACCCTAACCCTAACCTTAAACCTAACCCTAACTCTAACCTTAAACCCTAAACCT
AAATCAAAAC
Found at i:30072750 original size:57 final size:57
Alignment explanation
Indices: 30072497--30072637 Score: 64
Period size: 57 Copynumber: 2.5 Consensus size: 57
30072487 TCAAAACTAT
* * **
30072497 AAACCTT-AACCTTAAACCTTAAATACTAACCTTAAA-CTTAAACCTAAATATTAACCTT-
1 AAACCTTAAACCTTAAACCTTAAA-CCTAACC--AAACCTTAAACCTCAACCTTAA-CTTG
* * * *
30072555 AAACCTTAAACCTTAAACC-TAACCCTGACCATAAACC-TAAACTTTAACAC-TAACATCT-
1 AAACCTTAAACCTTAAACCTTAAACCTAACC--AAACCTTAAACCTCAAC-CTTAAC-T-TG
*
30072613 AAACC-TAAACCTTAAACCCTAAACC
1 AAACCTTAAACCTTAAACCTTAAACC
30072638 CTAAACCCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
56 1 0.01
57 34 0.50
58 22 0.32
59 11 0.16
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (57 bp):
AAACCTTAAACCTTAAACCTTAAACCTAACCAAACCTTAAACCTCAACCTTAACTTG
Found at i:30076454 original size:30 final size:29
Alignment explanation
Indices: 30076420--30076493 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
30076410 ATTTTTTAGG
* *
30076420 AATTTAGGGTTAAAATTGAAATTTTTGAAA
1 AATTTAGGGTTAAAATCG-AACTTTTGAAA
* *
30076450 AATTT-GGGATTAAAGTCGAACTTTTGGAA
1 AATTTAGGG-TTAAAATCGAACTTTTGAAA
*
30076479 AA-TTAGGGGTAAAAT
1 AATTTAGGGTTAAAAT
30076494 GGTAGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 7 0.19
29 17 0.47
30 12 0.33
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.35
Consensus pattern (29 bp):
AATTTAGGGTTAAAATCGAACTTTTGAAA
Found at i:30076531 original size:29 final size:29
Alignment explanation
Indices: 30076499--30076594 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
30076489 AAAATGGTAG
* *
30076499 TTTTTGGAAGTTCGGGGGCAAAAATATGA
1 TTTTTGGAAGTTCGAGGGCAAAAATATAA
* *
30076528 TTTTTGGAAGTTTGAGGGCAAAAATGTAA
1 TTTTTGGAAGTTCGAGGGCAAAAATATAA
* ** *
30076557 TTTTTGAGAA-CTCGAGGGTTAAAATGTAA
1 TTTTTG-GAAGTTCGAGGGCAAAAATATAA
30076586 TTTTTGGAA
1 TTTTTGGAA
30076595 AGCTTGGGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 3 0.05
29 52 0.90
30 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
TTTTTGGAAGTTCGAGGGCAAAAATATAA
Found at i:30076604 original size:29 final size:29
Alignment explanation
Indices: 30076548--30076653 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
30076538 TTTGAGGGCA
*
30076548 AAAATGTAATTTTT-GAGAA-CTCGAGGGTT
1 AAAATGTAATTTTTGGA-AAGCTTG-GGGTT
30076577 AAAATGTAATTTTTGGAAAGCTTGGGGTT
1 AAAATGTAATTTTTGGAAAGCTTGGGGTT
* * *
30076606 AAAATGTAA-TTTTGGATAGTTTAGGGTT
1 AAAATGTAATTTTTGGAAAGCTTGGGGTT
* *
30076634 CAAAATGTGATTTATGGAAA
1 -AAAATGTAATTTTTGGAAA
30076654 ATTCAAGGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 16 0.24
29 38 0.58
30 12 0.18
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAAGCTTGGGGTT
Done.