Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 84 of 141
Found at i:27396953 original size:10 final size:10
Alignment explanation
Indices: 27396916--27396953 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
27396906 GACCTCTCCT
27396916 TTTTCTCTTTC
1 TTTT-TCTTTC
27396927 TTTTTCTTT-
1 TTTTTCTTTC
27396936 TTTCTTCTTTC
1 TTT-TTCTTTC
27396947 TTTTTCT
1 TTTTTCT
27396954 CCTATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:27396985 original size:8 final size:8
Alignment explanation
Indices: 27396966--27397033 Score: 109
Period size: 8 Copynumber: 8.2 Consensus size: 8
27396956 TATTTTTGAC
27396966 TTTGATTTT
1 TTTGA-TTT
27396975 TTTGATTT
1 TTTGATTT
27396983 TTTGATTT
1 TTTGATTT
27396991 TTTGATTT
1 TTTGATTT
27396999 TTTGATTT
1 TTTGATTT
27397007 TTTGATTTT
1 TTTGA-TTT
*
27397016 TTTTATTT
1 TTTGATTT
27397024 TTTGATTT
1 TTTGATTT
27397032 TT
1 TT
27397034 CTTTCGAGTC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
8 44 0.79
9 12 0.21
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (8 bp):
TTTGATTT
Found at i:27396985 original size:24 final size:23
Alignment explanation
Indices: 27396958--27397033 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 23
27396948 TTTTCTCCTA
27396958 TTTTTGA-CTTTGATTTTTTTGAT
1 TTTTTGATCTTTGA-TTTTTTGAT
*
27396981 TTTTTGATTTTTTGATTTTTTGAT
1 TTTTTGA-TCTTTGATTTTTTGAT
* *
27397005 TTTTTGATTTTTTTTATTTTTTGAT
1 TTTTTGA--TCTTTGATTTTTTGAT
27397030 TTTT
1 TTTT
27397034 CTTTCGAGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.15
24 16 0.33
25 25 0.52
ACGTcount: A:0.12, C:0.01, G:0.11, T:0.76
Consensus pattern (23 bp):
TTTTTGATCTTTGATTTTTTGAT
Found at i:27401088 original size:3 final size:3
Alignment explanation
Indices: 27401080--27401193 Score: 139
Period size: 3 Copynumber: 39.3 Consensus size: 3
27401070 NNNNAAGATG
27401080 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
27401128 ATA ATA ATA ATA ATA ATA GT- ATA ATA TTA A-A ATG ATA AT- ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
27401173 A-A ATA ATGA AGA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA A
27401194 AAGTGTTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
2 9 0.09
3 85 0.89
4 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27401409 original size:152 final size:152
Alignment explanation
Indices: 27401227--27401530 Score: 599
Period size: 152 Copynumber: 2.0 Consensus size: 152
27401217 AGAAGTAAAA
27401227 GCAAAAATAAAGGGCGAAATCGAAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAA
1 GCAAAAATAAAGGGCGAAATCGAAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAA
27401292 AAGGGGGACCGAAACTGCAAATAAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTG
66 AAGGGGGACCGAAACTGCAAATAAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTG
27401357 AAGCAAAAATAAAATTATGGGG
131 AAGCAAAAATAAAATTATGGGG
*
27401379 GCAAAAATAAGGGGCGAAATCGAAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAA
1 GCAAAAATAAAGGGCGAAATCGAAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAA
27401444 AAGGGGGACCGAAACTGCAAATAAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTG
66 AAGGGGGACCGAAACTGCAAATAAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTG
27401509 AAGCAAAAATAAAATTATGGGG
131 AAGCAAAAATAAAATTATGGGG
27401531 CTAAATTAAA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (152 bp):
GCAAAAATAAAGGGCGAAATCGAAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAA
AAGGGGGACCGAAACTGCAAATAAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTG
AAGCAAAAATAAAATTATGGGG
Found at i:27401558 original size:152 final size:152
Alignment explanation
Indices: 27401249--27401562 Score: 515
Period size: 152 Copynumber: 2.1 Consensus size: 152
27401239 GGCGAAATCG
27401249 AAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAAAAGGGGGACCGAAACTGCAAAT
1 AAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAAAAGGGGGACCGAAACTGCAAAT
27401314 AAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTGAAGCAAAAATAAAATTATGGGG
66 AAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTGAAGCAAAAATAAAATTATGGGG
* * * ***
27401379 GCAAAAATAAGGGGCGAAATCG
131 GCAAAAATAAGAGACAAAAAAA
27401401 AAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAAAAGGGGGACCGAAACTGCAAAT
1 AAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAAAAGGGGGACCGAAACTGCAAAT
27401466 AAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTGAAGCAAAAATAAAATTAT-GGG
66 AAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTGAAGCAAAAATAAAATTATGGGG
* * *
27401530 GCTAAATTAA-AGATAAAAGAAA
131 GCAAAAATAAGAGACAAAA-AAA
27401552 ATAATAAAAAA
1 A-AATAAAAAA
27401563 GGGCCAAATT
Statistics
Matches: 151, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
150 4 0.03
151 12 0.08
152 135 0.89
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (152 bp):
AAATAAAAAAACAAAAGGGACTAAATCGTGACGCGCGCCAAAAAAGGGGGACCGAAACTGCAAAT
AAACCGAAGCCCCCAAAACGCAGCGCTGCAGTGGACTAAATTGAAGCAAAAATAAAATTATGGGG
GCAAAAATAAGAGACAAAAAAA
Found at i:27404071 original size:6 final size:6
Alignment explanation
Indices: 27404060--27404084 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27404050 GAGAATAAAA
27404060 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
27404085 TTTTATCAAA
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):
AAATTT
Found at i:27404859 original size:21 final size:22
Alignment explanation
Indices: 27404835--27404885 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
27404825 ATATGCTCAG
*
27404835 TATGATCTGTGTTATGATAA-T
1 TATGATCTGTATTATGATAAGT
*
27404856 TATGACCTGTATTATGATAAGT
1 TATGATCTGTATTATGATAAGT
27404878 T-TGATCTG
1 TATGATCTG
27404886 AATCTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (22 bp):
TATGATCTGTATTATGATAAGT
Found at i:27406120 original size:25 final size:26
Alignment explanation
Indices: 27406074--27406125 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
27406064 AAAATGCAAA
27406074 ATATTTATAAAAAAATTC-AAAATTT
1 ATATTTATAAAAAAATTCAAAAATTT
* *
27406099 ATATTT-TTAAAAAATTATAAAAATTT
1 ATATTTATAAAAAAATT-CAAAAATTT
27406125 A
1 A
27406126 AAAATATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTTATAAAAAAATTCAAAAATTT
Found at i:27406121 original size:26 final size:25
Alignment explanation
Indices: 27406074--27406125 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27406064 AAAATGCAAA
*
27406074 ATATTTATAAAAAAATTCAAAATTT
1 ATATTTATAAAAAAATTAAAAATTT
* *
27406099 ATATTTTTAAAAAATTATAAAAATTT
1 ATATTTATAAAAAAAT-TAAAAATTT
27406125 A
1 A
27406126 AAAATATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATTTATAAAAAAATTAAAAATTT
Found at i:27406652 original size:12 final size:12
Alignment explanation
Indices: 27406637--27406678 Score: 70
Period size: 11 Copynumber: 3.7 Consensus size: 12
27406627 ATTTGAAAAT
27406637 TTTTAAAAAGTA
1 TTTTAAAAAGTA
27406649 TTTT-AAAAGTA
1 TTTTAAAAAGTA
27406660 TTTTAAAAA-TA
1 TTTTAAAAAGTA
27406671 TTTTAAAA
1 TTTTAAAA
27406679 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
TTTTAAAAAGTA
Found at i:27408111 original size:40 final size:40
Alignment explanation
Indices: 27408056--27408177 Score: 210
Period size: 40 Copynumber: 3.0 Consensus size: 40
27408046 NNNNNNNNNN
27408056 ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
1 ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
27408096 ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAA
1 ATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAA
* *
27408137 ATT-AAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAA
1 ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
27408176 AT
1 AT
27408178 AAATATATTT
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
39 10 0.13
40 58 0.73
41 11 0.14
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
Found at i:27408168 original size:10 final size:11
Alignment explanation
Indices: 27408061--27408127 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
27408051 NNNNNATTAA
27408061 AAAAAGTATTTT
1 AAAAA-TATTTT
27408073 AAAAATATTTT
1 AAAAATATTTT
27408084 --AAA-A--TT
1 AAAAATATTTT
* **
27408090 AAAAAAATTAA
1 AAAAATATTTT
27408101 AAAAAGTATTTT
1 AAAAA-TATTTT
27408113 AAAAATATTTT
1 AAAAATATTTT
27408124 AAAA
1 AAAA
27408128 TTTAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.05
8 4 0.09
9 4 0.09
11 21 0.48
12 13 0.30
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:27419397 original size:20 final size:19
Alignment explanation
Indices: 27419359--27419406 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
27419349 TTATGTATAT
*
27419359 TTTAATTAATCATATTTTA
1 TTTAATTAATCATAATTTA
*
27419378 GTTTAATTAATCTTAATTTA
1 -TTTAATTAATCATAATTTA
*
27419398 CTTAATTAA
1 TTTAATTAA
27419407 GCTTGACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAATTAATCATAATTTA
Found at i:27421282 original size:5 final size:5
Alignment explanation
Indices: 27421272--27421300 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27421262 TATTAAATAT
27421272 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
27421301 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:27421862 original size:12 final size:12
Alignment explanation
Indices: 27421845--27421878 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27421835 TGGCCCGCCC
27421845 ATATTAATTTTT
1 ATATTAATTTTT
*
27421857 ATATTATTTTTT
1 ATATTAATTTTT
27421869 ATA-TAATTTT
1 ATATTAATTTT
27421879 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:27423727 original size:31 final size:27
Alignment explanation
Indices: 27423662--27423730 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
27423652 ATTGAGGTGT
*
27423662 AAATTAAAGTTAAGTTTATTTAGATAC
1 AAATTAAAGTTAAGTTTATTTAGACAC
* *
27423689 AAGTTAAAGATTAAGGGCTTTATTTGGACAC
1 AAATTAAAG-TTAA--G-TTTATTTAGACAC
27423720 AAATTAAAGTT
1 AAATTAAAGTT
27423731 TAAAAAGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.24
28 4 0.12
30 3 0.09
31 19 0.56
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (27 bp):
AAATTAAAGTTAAGTTTATTTAGACAC
Found at i:27425419 original size:73 final size:71
Alignment explanation
Indices: 27425293--27425434 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 71
27425283 TCGGGTTTAG
*
27425293 AAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTTTTCTTAATTCCTGAGATCGTTTAAAAAC
1 AAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTTTTCTTAATTCCCGAGATCGTTT-AAAAC
27425358 TTGAGGA
65 TTGAGGA
* *
27425365 AAAATGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTT-TTAATTCCCGAGATTGTTTAAAA
1 AAAA-GGGATCATGCCCAGTAAGTTAGAACACGATCT-TTTCTTAATTCCCGAGATCGTTTAAAA
27425429 CTTGAG
64 CTTGAG
27425435 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 14 0.22
73 48 0.74
74 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (71 bp):
AAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
TGAGGA
Found at i:27427119 original size:13 final size:13
Alignment explanation
Indices: 27427080--27427121 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
27427070 CCTAGGGTAG
27427080 TGGGT-TTAGGTT
1 TGGGTATTAGGTT
*
27427092 TGGGTATTAGATT
1 TGGGTATTAGGTT
* *
27427105 TGGGTCTTTGGTT
1 TGGGTATTAGGTT
27427118 TGGG
1 TGGG
27427122 AATTTGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (13 bp):
TGGGTATTAGGTT
Found at i:27427182 original size:3 final size:3
Alignment explanation
Indices: 27427174--27427217 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
27427164 GGGCTTGTAC
27427174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27427218 GAGTACAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27428832 original size:29 final size:29
Alignment explanation
Indices: 27428800--27428864 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
27428790 ATTCGTTTTT
*
27428800 TAAAAAAT-ATTAATAA-AATAACAAGATAA
1 TAAAAAATCA-TAAAAATAATAACAAGA-AA
*
27428829 T-AAAAATCATAAAAATAATAACAATAAA
1 TAAAAAATCATAAAAATAATAACAAGAAA
27428857 TAAAAAAT
1 TAAAAAAT
27428865 TAAAGCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (29 bp):
TAAAAAATCATAAAAATAATAACAAGAAA
Found at i:27428842 original size:9 final size:9
Alignment explanation
Indices: 27428802--27428862 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
27428792 TCGTTTTTTA
*
27428802 AAAAATATT
1 AAAAATAAT
*
27428811 AATAA-AAT
1 AAAAATAAT
27428819 AACAAGATAAT
1 AA-AA-ATAAT
*
27428830 AAAAATCAT
1 AAAAATAAT
27428839 AAAAATAAT
1 AAAAATAAT
*
27428848 AACAATAAAT
1 AAAAAT-AAT
27428858 AAAAA
1 AAAAA
27428863 ATTAAAGCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 4 0.10
9 22 0.54
10 10 0.24
11 5 0.12
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:27430497 original size:89 final size:89
Alignment explanation
Indices: 27430239--27430509 Score: 375
Period size: 89 Copynumber: 3.1 Consensus size: 89
27430229 CTAGATGCGA
*
27430239 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
*
27430304 AATACATGAAGACAAGATCTGTCAT
66 AATACATGAAGACAAGATCTG-CTT
* * * * * * * * * * *
27430329 T-TTCGATCTACTTCA-CGCCAATACGTGAAGACAAGATCTGCTACCTTTGATCTATTTCATGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
27430392 AATACATGAAGACAAGATCTGCTT
66 AATACATGAAGACAAGATCTGCTT
*
27430416 TCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
* *
27430481 AATACATGAAGACAAGATCTACTA
66 AATACATGAAGACAAGATCTGCTT
27430505 TCTTC
1 TCTTC
27430510 AGCCTGCTCC
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
87 3 0.02
88 70 0.46
89 78 0.51
90 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
AATACATGAAGACAAGATCTGCTT
Found at i:27430507 original size:44 final size:44
Alignment explanation
Indices: 27430238--27430509 Score: 276
Period size: 44 Copynumber: 6.1 Consensus size: 44
27430228 ACTAGATGCG
* * *** * *
27430238 ATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATATGTT
1 ATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCT
* *
27430283 ATCTTCGATATACTTCACGCTAATACATGAAGACAAGATCTG-T
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* *
27430326 CATTTTCGATCTACTTCACGCCAATACGTGAAGACAAGATCTGCT
1 -ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* * * *
27430371 ACCTTTGATCTATTTCATGCCAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* * * *** * *
27430415 TTCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATATGTT
1 ATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCT
* * *
27430460 ATCTTCGATATACTTCACGCTAATACATGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
27430504 ATCTTC
1 ATCTTC
27430510 AGCCTGCTCC
Statistics
Matches: 185, Mismatches: 39, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
43 1 0.01
44 133 0.72
45 51 0.28
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
Found at i:27430639 original size:43 final size:42
Alignment explanation
Indices: 27430503--27430830 Score: 172
Period size: 43 Copynumber: 7.5 Consensus size: 42
27430493 CAAGATCTAC
* *
27430503 TATCTTCAGCCTGCTCCGC-ACAACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCCA-GGAGGCAAGGCTGG
* ** * * * *** * **
27430545 TGTCTTTGATCTGCTTCACTGTCAATGAAGGAAGGCAAGACCTAC
1 TATCTTCAACCTGCTCCACT-ACAACCCAGG-AGGCAAG-GCTGG
*
27430590 TATCTTCAACCAGCTCCACTACAACCCGAGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCC-AGGAGGCAAGGCTGG
* * * * *** ** *
27430633 TATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATTTGC
1 TATCTTCAACCTGCTCCACT-ACAACCCAGG-AGGCAAG-GCTGG
27430678 TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCCA-GGAGGCAAGGCTGG
* * * * *** * * *
27430721 TATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGTAAGATCTGC
1 TATCTTCAACCTGCTCCACT-ACAACCCAGG-AGGCAAG-GCTGG
* *
27430766 TATCTTCAACCTACTCCACTACGACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCCA-GGAGGCAAGGCTGG
* * *
27430809 TATCTTCGATCTGCTCCGCTAC
1 TATCTTCAACCTGCTCCACTAC
27430831 TGCTTAGGGA
Statistics
Matches: 199, Mismatches: 74, Indels: 25
0.67 0.25 0.08
Matches are distributed among these distances:
42 12 0.06
43 65 0.33
44 61 0.31
45 61 0.31
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (42 bp):
TATCTTCAACCTGCTCCACTACAACCCAGGAGGCAAGGCTGG
Found at i:27430644 original size:88 final size:88
Alignment explanation
Indices: 27430483--27430823 Score: 492
Period size: 88 Copynumber: 3.9 Consensus size: 88
27430473 TTCACGCTAA
* * * * * *
27430483 TACATGAAGACAAGATCTACTATCTTCAGCCTGCTCCGC-ACAACCCAGGGAGGCAAGGCTGGTG
1 TACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
* *
27430547 TCTTTGATCTGCTTCACTGTCAA
66 TCTTCGATCTGCTTCACTGTCAG
*
27430570 TGA-AGGAAGGCAAGACCTACTATCTTCAACCAGCTCCACTACAACCC-GAGGAGGCAAGGCTGG
1 T-ACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAG-GGAGGCAAGGCTGG
27430633 TATCTTCGATCTGCTTCACTGTCAG
64 TATCTTCGATCTGCTTCACTGTCAG
* * *
27430658 TACAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
27430723 TCTTCGATCTGCTTCACTGTCAG
66 TCTTCGATCTGCTTCACTGTCAG
* * *
27430746 TACAGGAAGGTAAGATCTGCTATCTTCAACCTA-CTCCACTACGACCCAGGGAGGCAAGGCTGGT
1 TACAGGAAGGCAAGATCTACTATCTTCAACC-AGCTCCACTACAACCCAGGGAGGCAAGGCTGGT
27430810 ATCTTCGATCTGCT
65 ATCTTCGATCTGCT
27430824 CCGCTACTGC
Statistics
Matches: 231, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
87 33 0.14
88 197 0.85
89 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (88 bp):
TACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
TCTTCGATCTGCTTCACTGTCAG
Found at i:27430669 original size:44 final size:43
Alignment explanation
Indices: 27430528--27430830 Score: 178
Period size: 44 Copynumber: 6.9 Consensus size: 43
27430518 CCGCACAACC
* * * * *
27430528 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCAATGA
1 CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACAAT-A
* ** * * * **
27430573 -AGGAAGGCAAGACCTACTATCTTCAACCAGCTCCACTACAACC
1 CAGGAAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACAATA
* * *
27430616 CGAGG-AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTA
1 C-AGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACAATA
** * * * **
27430660 CAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACAATA
* * * *
27430704 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTA
1 CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACAATA
* * * * * * * **
27430748 CAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCACTACGACC
1 CAGGAAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACAATA
* *
27430792 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTAC
1 CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACTAC
27430831 TGCTTAGGGA
Statistics
Matches: 184, Mismatches: 66, Indels: 18
0.69 0.25 0.07
Matches are distributed among these distances:
43 61 0.33
44 66 0.36
45 57 0.31
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (43 bp):
CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACAATA
Found at i:27430904 original size:176 final size:175
Alignment explanation
Indices: 27430722--27431068 Score: 550
Period size: 176 Copynumber: 2.0 Consensus size: 175
27430712 CAAGGCTGGT
*
27430722 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCACTA
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTA
* * *
27430787 CGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
66 CCACCCAGGGAGACAAGGCTAGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
*
27430852 TAATTTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTTACA
131 TAA-TTTTAACCGATTCCACTGCTGTCCAGGGAGATAGGATTTACA
* * * * *
27430898 ATCTTCGATCTGCTTCACTGTCAGTATAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCTCTG
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTA
** * *
27430963 CCACTGAGGGAGATAAGGCTAGTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
66 CCACCCAGGGAGACAAGGCTAGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
*
27431028 TAATTTTAACCGATTCCAGTGCTGTCCAGGGAGATAGGATT
131 TAATTTTAACCGATTCCACTGCTGTCCAGGGAGATAGGATT
27431069 CTCAATCCTC
Statistics
Matches: 156, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
175 36 0.23
176 120 0.77
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (175 bp):
ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTA
CCACCCAGGGAGACAAGGCTAGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
TAATTTTAACCGATTCCACTGCTGTCCAGGGAGATAGGATTTACA
Found at i:27431215 original size:218 final size:218
Alignment explanation
Indices: 27430864--27431467 Score: 913
Period size: 218 Copynumber: 2.8 Consensus size: 218
27430854 ATTTTTAACC
* * **** * * *
27430864 TATTCCACTGCTGTCCAGGGAGATAGGATTTACAATCTTCGATCTGCTTCACTGTCAGTATAGGA
1 TATTCCACTGCTGACCAGGGAGATAAGA-TTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGG
* * * * **
27430929 AGGCAAGATCTGCTATCTTTAACCTGCTCCT-CTGCCACTGAGGGAGATAAGGCTAGTGTCTTCG
65 AGGCAAGATCTGCTATCTTTAGCCT-ATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCG
*
27430993 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCAGTGCTGTCCAGG
129 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCACTGCTGTCCAGG
27431058 GAGATAGGATTCTCAATCCTCAACT
194 GAGATAGGATTCTCAATCCTCAACT
27431083 TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
1 TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
* *
27431148 GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGTAGGCAAGGCTAGTATCTTCGAT
66 GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
* ** *
27431213 CTGTTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACTTATTCCACTGCTGTCTAGGGA
131 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCACTGCTGTCCAGGGA
27431278 GATAGGATTCTCAATCCTCAACT
196 GATAGGATTCTCAATCCTCAACT
* *
27431301 TATTCCACTGCTGACTAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGAGA
1 TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
* * **
27431366 GGCAAGATCTGCTATCTTCAGCATGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
66 GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
* *
27431431 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
131 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAAT
27431468 CTTCAATCTA
Statistics
Matches: 351, Mismatches: 33, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
217 3 0.01
218 322 0.92
219 26 0.07
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (218 bp):
TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCACTGCTGTCCAGGGA
GATAGGATTCTCAATCCTCAACT
Found at i:27431281 original size:43 final size:43
Alignment explanation
Indices: 27431229--27431329 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 43
27431219 CGCTACTGCT
* * * *
27431229 TAGGGAGATAAGATCTGTAAT-TTTAACTTATTCCACTGCTGTC
1 TAGGGAGATAAGATCT-CAATCCTCAACTTATTCCACTGCTGAC
*
27431272 TAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGCTGAC
1 TAGGGAGATAAGA-TCTCAATCCTCAACTTATTCCACTGCTGAC
27431316 TAGGGAGATAAGAT
1 TAGGGAGATAAGAT
27431330 TGGTTTTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 16 0.32
44 34 0.68
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
TAGGGAGATAAGATCTCAATCCTCAACTTATTCCACTGCTGAC
Found at i:27432792 original size:8 final size:7
Alignment explanation
Indices: 27432773--27432812 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
27432763 CCTTGGCCTC
27432773 TCTTTTT
1 TCTTTTT
27432780 TCTTTTT
1 TCTTTTT
27432787 TGC-TTTT
1 T-CTTTTT
27432794 TC-TTTT
1 TCTTTTT
27432800 TCTTTTT
1 TCTTTTT
27432807 T-TTTTT
1 TCTTTTT
27432813 GAAAAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.39
7 18 0.58
8 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:27432795 original size:14 final size:14
Alignment explanation
Indices: 27432776--27432813 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
27432766 TGGCCTCTCT
27432776 TTTTTCTTTTTTGC
1 TTTTTCTTTTTTGC
27432790 TTTTTC-TTTTT-C
1 TTTTTCTTTTTTGC
27432802 TTTTT-TTTTTTG
1 TTTTTCTTTTTTG
27432814 AAAAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTGC
Found at i:27437271 original size:29 final size:29
Alignment explanation
Indices: 27437239--27437303 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
27437229 ATTCGTTTTT
*
27437239 TAAAAAAT-ATTAATAA-AATAACAAGATAA
1 TAAAAAATCA-TAAAAATAATAACAAGA-AA
*
27437268 T-AAAAATCATAAAAATAATAACAATAAA
1 TAAAAAATCATAAAAATAATAACAAGAAA
27437296 TAAAAAAT
1 TAAAAAAT
27437304 TAAAGCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (29 bp):
TAAAAAATCATAAAAATAATAACAAGAAA
Found at i:27437281 original size:9 final size:9
Alignment explanation
Indices: 27437241--27437301 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
27437231 TCGTTTTTTA
*
27437241 AAAAATATT
1 AAAAATAAT
*
27437250 AATAA-AAT
1 AAAAATAAT
27437258 AACAAGATAAT
1 AA-AA-ATAAT
*
27437269 AAAAATCAT
1 AAAAATAAT
27437278 AAAAATAAT
1 AAAAATAAT
*
27437287 AACAATAAAT
1 AAAAAT-AAT
27437297 AAAAA
1 AAAAA
27437302 ATTAAAGCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 4 0.10
9 22 0.54
10 10 0.24
11 5 0.12
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:27450324 original size:113 final size:113
Alignment explanation
Indices: 27449896--27450407 Score: 479
Period size: 112 Copynumber: 4.5 Consensus size: 113
27449886 AGCGCATCGT
* ** * *
27449896 TTTGGTCTTGATGTATACTAGAATTAGTGGCG-ATTATGATAAAACGCCGCTAAAGGA-AGTATT
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCA-TAAGGGAAAACGCCGCTAAAGCATACTATT
* **
27449959 AGCGGCGCATTGTCGA-AAGCGCCGCAAAA-ATCTTAACGAAAACGCATCG
65 AGCGGCGC-TT-TCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
* * * * * * *
27450008 TTTTGTCTCGCTGTATATTAGCATTAGTGGCGCTTACA---AAAACCCGCCGCTAAAGCA-AGTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATA-AGGGAAAA--CGCCGCTAAAGCATACTA
* * * * * *
27450069 TTAGCGGCGCTTACAAAAAGCGCCGCTATATATGTTAACCAAAACGCAGAG
63 TTAGCGGCGCTTTCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
* * * * * * * *
27450120 TTTGGTCTAGAGGTACATTAGAATTTGTGGCGCTTAAGGGAAAACGCCACTAAAGCATAATATTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATACTATTA
* *
27450185 GCGGCGTTTTGTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
66 GCGGCGCTTT-CGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
* * * *
27450234 TTTGGTATTGAGGTATACTAGAATTAGTGGCGCA-AAGGGAACACGCCGCTAAGGCATACTATTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATACTATTA
* * *
27450298 GCGGCGCGTTTGGAGAAGCGCCGCAAAATTTCGTAACCAAAACGCA-ACG
66 GCGGCGC-TTTCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGA-G
* **
27450347 TTTTTGTCTTGATGTATAC-AGTAATTAGTGGCGCATACTGGAAAACGCCGCTAAAGCATAC
1 -TTTGGTCTTGATGTATACTAG-AATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAC
27450408 AAAATATGCT
Statistics
Matches: 330, Mismatches: 54, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
110 6 0.02
111 14 0.04
112 113 0.34
113 81 0.25
114 95 0.29
115 21 0.06
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (113 bp):
TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATACTATTA
GCGGCGCTTTCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
Found at i:27450558 original size:200 final size:199
Alignment explanation
Indices: 27450220--27450606 Score: 512
Period size: 200 Copynumber: 1.9 Consensus size: 199
27450210 AAATATCTTA
27450220 ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTA
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTA
* * * * *
27450285 AGGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATTTCGTAACCAAAACGCAACGTTT
66 AAGAATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAACGTTT
* * *
27450350 TTGTCTTGATGTATACAGTAATTAGTGGCG-CATACTG-GAAAACGCCGCTAAAGCATACAAAAT
131 TAGTCTTGATGTATACAGGAATTAGTGGCGTC-CAC-GAGAAAACGCCGCTAAAGCATACAAAAT
27450413 ATGCTC
194 ATGCTC
* * * * * *
27450419 ACCAAAACGTAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAGA-ACGCCGC
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGC-AAAGGGA-ACACGCCGC
* * * * *
27450483 TAAAGAATACTATTAGCGGCATGTTTTGAGAAGCGCCGCAAAATATATTAACCAAAGCGCAGC-T
64 TAAAGAATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAACGT
* *
27450547 TTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACGAGAAATCGCCGCTAAAGCATA
129 TTT-AGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAAGCATA
27450607 GTATTAGCAG
Statistics
Matches: 162, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
199 48 0.30
200 112 0.69
201 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (199 bp):
ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTA
AAGAATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAACGTTT
TAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAAGCATACAAAATAT
GCTC
Found at i:27450671 original size:115 final size:114
Alignment explanation
Indices: 27450419--27450671 Score: 282
Period size: 115 Copynumber: 2.2 Consensus size: 114
27450409 AAATATGCTC
* * * * *
27450419 ACCAAAACGTAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAGAACGCCGCT
1 ACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTCACGAGAGAACGCCGCT
*
27450484 AAAGAATACTATTAGCGGCATGTTTTGAGAAGCGCCGCAAAATATATTA
66 AAAGAATACTATTAGCGGCATGTTTTGAAAAGCGCCGCAAAATATATTA
* * * *
27450533 ACCAAAGCGCAG-CTTTTAAGTCTTGATGTATACTGGAATTAGTGGCG-TCCACGAGA-AATCGC
1 ACCAAAACGCAGAGTTTT--GTCTTGAGGTATACTAGAATTAGTGGCGCT-CACGAGAGAA-CGC
* * * *
27450595 CGCTAAAGCATAGTATTAGCAGCGC-T-TTTTGAAAAGCGCCGGAAAATATCTTA
62 CGCTAAAGAATACTATTAGC-G-GCATGTTTTGAAAAGCGCCGCAAAATATATTA
27450648 ACCAAAACGCAGAGTTTTGGTCTT
1 ACCAAAACGCAGAGTTTT-GTCTT
27450672 AACCATGCAT
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
113 4 0.03
114 13 0.11
115 90 0.78
116 6 0.05
117 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTCACGAGAGAACGCCGCT
AAAGAATACTATTAGCGGCATGTTTTGAAAAGCGCCGCAAAATATATTA
Found at i:27451608 original size:14 final size:15
Alignment explanation
Indices: 27451589--27451623 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
27451579 ACACTTGTAT
*
27451589 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTAG
27451603 GGATTTAAGGTTTAG
1 GGATTTAAGGTTTAG
27451618 GGATTT
1 GGATTT
27451624 TGAGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTAG
Found at i:27453488 original size:12 final size:12
Alignment explanation
Indices: 27453471--27453509 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
27453461 TTTTACTTCA
27453471 TTTAACAGAATG
1 TTTAACAGAATG
27453483 TTTAACAGAATG
1 TTTAACAGAATG
27453495 TTTAACAGAATG
1 TTTAACAGAATG
27453507 TTT
1 TTT
27453510 TACTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTTAACAGAATG
Found at i:27455773 original size:21 final size:20
Alignment explanation
Indices: 27455747--27455798 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
27455737 CGACAACTTA
*
27455747 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
27455768 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
27455789 AAGCAGAGGT
1 AAGCAGAGGT
27455799 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.46, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:27456325 original size:41 final size:42
Alignment explanation
Indices: 27456238--27456337 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 42
27456228 CGTTAAATAA
* * * *
27456238 CATGTTCTTTC-GCGGCACTTAATAAAAAACGCCACTGAAGAT
1 CATGTTC-TTCAGCGGCGCTTAAGAAAAAACGCCACTAAAGAC
*
27456280 CATGTTCTTCAGCGGCGCTT-AGAAAAAACGCCGCTAAAGAC
1 CATGTTCTTCAGCGGCGCTTAAGAAAAAACGCCACTAAAGAC
*
27456321 CATGTTCTTTAGCGGCG
1 CATGTTCTTCAGCGGCG
27456338 TTTTTGTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 36 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
CATGTTCTTCAGCGGCGCTTAAGAAAAAACGCCACTAAAGAC
Found at i:27459166 original size:21 final size:21
Alignment explanation
Indices: 27459142--27459183 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27459132 AAGCATATTA
*
27459142 CTTTCATATGGCATACACCAT
1 CTTTCATATGGCACACACCAT
27459163 CTTTCATATGGCACACACCAT
1 CTTTCATATGGCACACACCAT
27459184 GAATGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (21 bp):
CTTTCATATGGCACACACCAT
Found at i:27469349 original size:26 final size:26
Alignment explanation
Indices: 27469320--27469374 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
27469310 ATATTTTCTT
* *
27469320 AAAATTTTATCAAGGGCAAAATCGTC
1 AAAATTTTACCAAGGGCAAAACCGTC
* *
27469346 AAAATTTTACCAGGGGTAAAACCGTC
1 AAAATTTTACCAAGGGCAAAACCGTC
27469372 AAA
1 AAA
27469375 GTTTGCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (26 bp):
AAAATTTTACCAAGGGCAAAACCGTC
Found at i:27478787 original size:127 final size:130
Alignment explanation
Indices: 27478650--27478915 Score: 362
Period size: 127 Copynumber: 2.1 Consensus size: 130
27478640 TTTATAATTA
27478650 ATTTTTAATATATTAGCT-TCCTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATC
1 ATTTTTAATATATTAGCTCT-CTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATC
*** * * * *
27478714 AAGTTCAATTCCT-TT-T-TTGAACAT-ATTTGTAATTTTTATTTCATTTTATTTTAAGCTTTTT
65 AAGTTCAATTCCTCTTCTAAAAAAAATAATTTGTAATTTTTATTACATGTTATTTCAAGCTTTTT
27478775 T
130 T
* * *
27478776 CATTTTTAATATATTAGCTCTCTTGGTTAAATGGTTAAATAATAATGATTTTATTTTTAAATCTC
1 -ATTTTTAATATATTAGCTCTCTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATC
* *
27478841 AGGTTCAATTCCTCTTCTAAAAAAAATACATTTGTAATTTTTATTACATGTTGTTTCAAGCTTTT
65 AAGTTCAATTCCTCTTCTAAAAAAAATA-ATTTGTAATTTTTATTACATGTTATTTCAAGCTTTT
27478906 TT
129 TT
27478908 ATTTTTAA
1 ATTTTTAA
27478916 ATAATAAATA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
127 71 0.59
128 3 0.02
129 1 0.01
130 4 0.03
131 8 0.07
132 34 0.28
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (130 bp):
ATTTTTAATATATTAGCTCTCTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATCA
AGTTCAATTCCTCTTCTAAAAAAAATAATTTGTAATTTTTATTACATGTTATTTCAAGCTTTTTT
Found at i:27482867 original size:132 final size:131
Alignment explanation
Indices: 27482716--27483416 Score: 868
Period size: 132 Copynumber: 5.4 Consensus size: 131
27482706 GATCTGAAAT
* * * *
27482716 CTTCAATCTACT-CACTGTAACCGCAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTC
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACT-AC
* * * * *
27482780 TATGCAGGAAGGTAAGATCTGCAATCTTTAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTA
65 TATG-AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGA-TAGAATTA
27482844 CTGG
128 CTGG
* *
27482848 CTTCAATGTACT-CACTGTAA-CTACAGGGAGGTAAAATTCACCATCTTTGATCTGTTCCACTAC
1 CTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTAC
* * * *
27482911 TGCTTAGGGAGAAAATATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGA-AGTAGAATTA
65 T-ATGAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGA-TAGAATTA
27482975 CTGG
128 CTGG
* *
27482979 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
* * * ** *
27483044 GCTTG-GGGAGACAAGATCTGAAATC-TCTAATCCATTCCACTGTTGCCC-GTGGAGATAGAGTT
66 --ATGAGGGAGATAAGATCTGAAATCTTC-AATCTATTCCACTACTGCCCAG-GGAGATAGAATT
*
27483106 ACTTG
127 ACTGG
* * ** *
27483111 TTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATTCATTATCTTCGATTTGCTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
* * *
27483176 ACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTACTGCCCAGGGAGATAGAATTACT
66 A-TGAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACT
27483241 GG
130 GG
* *
27483243 CTTCAATGTACTCCACTGTAACCTCAGTGAGGTAAAA-TCTGCCATCTTCGATCTGCTCCACTAC
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTC-ACCATCTTCGATCTGCTCCACTAC
* *
27483307 --TG-GGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTACTGCCCAGGGAGATAGAATTACT
65 TATGAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACT
27483369 GG
130 GG
* *
27483371 CTTCAATGTACTCCACTGTAACCTCAGGAAGGTAAAATCCACCATC
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATC
27483417 AACCTGTTCC
Statistics
Matches: 500, Mismatches: 55, Indels: 32
0.85 0.09 0.05
Matches are distributed among these distances:
128 102 0.20
129 2 0.00
131 77 0.15
132 313 0.63
133 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (131 bp):
CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
ATGAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACTG
G
Found at i:27483586 original size:87 final size:88
Alignment explanation
Indices: 27483424--27483587 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 88
27483414 ATCAACCTGT
* * * *
27483424 TCCACTGCAACCGAGGGAGGTAAGGCTGGTATCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGC
1 TCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTACTTCGCTGTCAATGCAGGAAGGC
*
27483489 AAGATTTGCTATCTTTAACTTGC
66 AAGATCTGCTATCTTTAACTTGC
* * * ** * *
27483512 TCCACTACAACTGAGGGAGGCAAGGCT-TTATTTTTGATCTACTTTGCTGTCGATGCAGGAAGGC
1 TCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTACTTCGCTGTCAATGCAGGAAGGC
27483576 AAGATCTGCTAT
66 AAGATCTGCTAT
27483588 TTTCACTGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 40 0.62
88 24 0.38
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (88 bp):
TCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTACTTCGCTGTCAATGCAGGAAGGC
AAGATCTGCTATCTTTAACTTGC
Found at i:27484836 original size:7 final size:7
Alignment explanation
Indices: 27484826--27484868 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
27484816 TCTATTTTAT
27484826 TTTTTCA
1 TTTTTCA
27484833 TTTTTCA
1 TTTTTCA
27484840 TTTTTCA
1 TTTTTCA
27484847 -TTTTCA
1 TTTTTCA
27484853 TCTTTTCA
1 T-TTTTCA
27484861 TTTTTCA
1 TTTTTCA
27484868 T
1 T
27484869 CTCATCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 21 0.62
8 7 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTCA
Found at i:27484869 original size:15 final size:15
Alignment explanation
Indices: 27484827--27484880 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
27484817 CTATTTTATT
27484827 TTTTCATTTTTCAT-
1 TTTTCATTTTTCATC
27484841 TTTTCA-TTTTCATC
1 TTTTCATTTTTCATC
27484855 TTTTCATTTTTCATC
1 TTTTCATTTTTCATC
**
27484870 TCATCATTTTT
1 TTTTCATTTTT
27484881 TTACGACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 7 0.19
14 12 0.33
15 17 0.47
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCATTTTTCATC
Found at i:27484879 original size:21 final size:21
Alignment explanation
Indices: 27484830--27484879 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
27484820 TTTTATTTTT
*
27484830 TCAT-TTTTCATTTTTCATTT
1 TCATCTTTTCATTTTTCATTC
27484850 TCATCTTTTCATTTTTCA-TC
1 TCATCTTTTCATTTTTCATTC
27484870 TCATCATTTT
1 TCATC-TTTT
27484880 TTTACGACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATCTTTTCATTTTTCATTC
Found at i:27487766 original size:13 final size:13
Alignment explanation
Indices: 27487748--27487773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27487738 TGTTCAATTT
27487748 TTTACTAGAAAAC
1 TTTACTAGAAAAC
27487761 TTTACTAGAAAAC
1 TTTACTAGAAAAC
27487774 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:27495145 original size:41 final size:41
Alignment explanation
Indices: 27495074--27495235 Score: 157
Period size: 41 Copynumber: 4.0 Consensus size: 41
27495064 TGAAAATAAG
* * * *
27495074 ATGTTTCAGACTTTACGTCCAAG-AGTCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGT-CTAGCAGGCTTGATGCCGGTGAA
*
27495115 ATGTTTCAGACTTTATGTCTAGTAGGCTTGATGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
* ** *
27495156 TTACTTCAGACTTTATATCTAGCAGGCTTTG-TGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
* * * * * *
27495197 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
27495236 TTTTAAACAA
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 5 0.05
41 91 0.92
42 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
Found at i:27496972 original size:22 final size:23
Alignment explanation
Indices: 27496930--27496973 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
27496920 TCATGATTGA
* *
27496930 AGATTCTCATTTGATTTCTTTGG
1 AGATTATCATGTGATTTCTTTGG
27496953 AGATTATCATGTG-TTTCTTTG
1 AGATTATCATGTGATTTCTTTG
27496974 TTTCTTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (23 bp):
AGATTATCATGTGATTTCTTTGG
Found at i:27505372 original size:69 final size:66
Alignment explanation
Indices: 27505297--27505475 Score: 173
Period size: 69 Copynumber: 2.6 Consensus size: 66
27505287 AAATGAATTG
* * * *
27505297 GATAATTTACAATAAATAATATATAATAAATTTGAAATAATA-ATACATATAAAATTTAAAAATT
1 GATAATTTA-AATAAAT-ATACATGATAAATTTAAAATAATACATACA-AT-AAATTTAAAAATA
*
27505361 TTGAT
62 TTAAT
* **
27505366 GATAATTCTAGAAT-AATCATACGTGATAAATCCAAAATAATAGCATACAATAAATTTAAAAATA
1 GATAATT-TA-AATAAAT-ATACATGATAAATTTAAAATAATA-CATACAATAAATTTAAAAATA
27505430 TTAAT
62 TTAAT
*
27505435 GATAAATTTGAAATAGATATACATGATAAATTTAAAATAAT
1 GAT-AATTT-AAATAAATATACATGATAAATTTAAAATAAT
27505476 GTTAACAATA
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
69 71 0.79
70 14 0.16
71 5 0.06
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.34
Consensus pattern (66 bp):
GATAATTTAAATAAATATACATGATAAATTTAAAATAATACATACAATAAATTTAAAAATATTAA
T
Found at i:27505546 original size:24 final size:24
Alignment explanation
Indices: 27505433--27505547 Score: 78
Period size: 24 Copynumber: 4.9 Consensus size: 24
27505423 AAAAATATTA
* * *
27505433 ATGATAAATTTGAAATAGAT-ATAC
1 ATGATAAATCTAAAATA-ATAAAAC
* **
27505457 ATGATAAATTTAAAATAATGTTAAC
1 ATGATAAATCTAAAATAAT-AAAAC
* *
27505482 A--ATAAATATAAAATAATAATA-
1 ATGATAAATCTAAAATAATAAAAC
* *
27505503 TTGATAAATC-ACAAACAATAAAAC
1 ATGATAAATCTA-AAATAATAAAAC
27505527 ATGATAAATCTAAAATAATAA
1 ATGATAAATCTAAAATAATAA
27505548 TATACAATAC
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
22 2 0.03
23 32 0.45
24 33 0.46
25 4 0.06
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
ATGATAAATCTAAAATAATAAAAC
Found at i:27506393 original size:23 final size:22
Alignment explanation
Indices: 27506367--27506411 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27506357 AGATTAAATC
27506367 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTAC-AAATCTTATCT
* * *
27506390 TCTACGATTGCATATCTTATCT
1 TCTAAGATTACAAATCTTATCT
27506412 AAGATTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACAAATCTTATCT
Found at i:27506417 original size:19 final size:19
Alignment explanation
Indices: 27506390--27506443 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
27506380 AATCTTATCT
* *
27506390 TCTACGATTGCATATCTTA
1 TCTAAGATTGCATATCATA
27506409 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27506428 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
27506444 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27515597 original size:19 final size:21
Alignment explanation
Indices: 27515573--27515613 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
27515563 AAAGTTAACT
*
27515573 ACAATTTAGAA-C-TTTAGAA
1 ACAATTTAAAATCATTTAGAA
27515592 ACAATTTAAAATCATTTAGAA
1 ACAATTTAAAATCATTTAGAA
27515613 A
1 A
27515614 TGGTTCAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (21 bp):
ACAATTTAAAATCATTTAGAA
Found at i:27516162 original size:19 final size:21
Alignment explanation
Indices: 27516135--27516189 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
27516125 ATTTAACCCT
*
27516135 AAACTTTTATAAAATATT-A-
1 AAACATTTATAAAATATTAAC
27516154 AAACATTTA-AAAAT-TTAAC
1 AAACATTTATAAAATATTAAC
*
27516173 AAATATTTAT-AAATATT
1 AAACATTTATAAAATATT
27516190 TATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 6 0.20
19 20 0.67
20 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACATTTATAAAATATTAAC
Found at i:27521707 original size:15 final size:15
Alignment explanation
Indices: 27521687--27521717 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27521677 AAAATAACAT
27521687 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
27521702 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
27521717 A
1 A
27521718 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:27533511 original size:35 final size:35
Alignment explanation
Indices: 27533465--27533536 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
27533455 ACAAACTTGG
**
27533465 GATAAGCTCAAGCAGGTTTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
27533500 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
27533535 GA
1 GA
27533537 AAGATGATAG
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:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (35 bp):
GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
Found at i:27534894 original size:44 final size:44
Alignment explanation
Indices: 27534814--27534897 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
27534804 CATCCATGCT
* *
27534814 AACTGCGAACTCTGAGCTCACCAGAAGATGCAAGCTCACCTGTG
1 AACTACGAACTCTGAGCTCACCAAAAGATGCAAGCTCACCTGTG
* *
27534858 AACTACGAACTGTGAGCTCACCAAAATG-TGCGAGCTCACC
1 AACTACGAACTCTGAGCTCACCAAAA-GATGCAAGCTCACC
27534898 AACATTGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (44 bp):
AACTACGAACTCTGAGCTCACCAAAAGATGCAAGCTCACCTGTG
Found at i:27534911 original size:17 final size:17
Alignment explanation
Indices: 27534868--27534931 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
27534858 AACTACGAAC
*
27534868 TGTGAGCTCACCAAAAT
1 TGTGAGCTCACCAACAT
*
27534885 GTGCGAGCTCACCAACAT
1 -TGTGAGCTCACCAACAT
27534903 TGTGAGCTCACCAAGCA-
1 TGTGAGCTCACCAA-CAT
*
27534920 TGAGAGCTCACC
1 TGTGAGCTCACC
27534932 TACAAGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (17 bp):
TGTGAGCTCACCAACAT
Found at i:27536077 original size:23 final size:23
Alignment explanation
Indices: 27536051--27536099 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
27536041 TGTGTAACTT
*
27536051 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
27536074 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
27536097 TTC
1 TTC
27536100 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:27540289 original size:23 final size:23
Alignment explanation
Indices: 27540263--27540311 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
27540253 TGTGTAACTT
*
27540263 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
27540286 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
27540309 TTC
1 TTC
27540312 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:27552077 original size:21 final size:21
Alignment explanation
Indices: 27552052--27552098 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27552042 GCAGTAACAG
*
27552052 ACATCAAAAAGCTACAATTCC
1 ACATCAAAAAGCTACAAATCC
* * *
27552073 ACATCAGAAAGTTTCAAATCC
1 ACATCAAAAAGCTACAAATCC
27552094 ACATC
1 ACATC
27552099 CTCTTACACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.28, G:0.06, T:0.21
Consensus pattern (21 bp):
ACATCAAAAAGCTACAAATCC
Found at i:27581726 original size:15 final size:15
Alignment explanation
Indices: 27581706--27581735 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27581696 GAATCCTATA
27581706 CTTACTATATCATAT
1 CTTACTATATCATAT
27581721 CTTACTATATCATAT
1 CTTACTATATCATAT
27581736 TGTTTATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTACTATATCATAT
Found at i:27583029 original size:138 final size:138
Alignment explanation
Indices: 27582853--27583105 Score: 400
Period size: 138 Copynumber: 1.8 Consensus size: 138
27582843 AAAAAGAATT
* *
27582853 ATTTCCATGTCTTTTATATTTTGACTGAAATCAATTAATATAACTGTTTATATTAATAAATTCAG
1 ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCAG
* * * *
27582918 TGATATATATACAATTAATATTTTGTATGAATCAAATTTATATATTAATTATATTCTTTCTAAAA
66 TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATATATTAATTATATTCTTTCTAAAA
27582983 TAATATTA
131 TAATATTA
* *
27582991 ATTTCCATGTCTTTTATATTTTGA-TCAAAATTAATTAATATAACTATTTATATTAATAAATTCG
1 ATTTCCATGTCTTTTATATTTTGACT-AAAATCAATTAATATAACTATTTATATTAATAAATTCA
* *
27583055 GTAAAATATATAGAATTAATATTTTGCATTAATCAAATTCATATATTAATT
65 GTAAAATATATACAATTAATATTTTGCATGAATCAAATTCATATATTAATT
27583106 TTATCTATGT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 103 0.99
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (138 bp):
ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCAG
TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATATATTAATTATATTCTTTCTAAAA
TAATATTA
Found at i:27600035 original size:16 final size:16
Alignment explanation
Indices: 27600025--27600067 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
27600015 CCATAATAGT
27600025 CACATATCAT-ATAAA
1 CACATATCATAATAAA
*
27600040 CACATATCATAATACA
1 CACATATCATAATAAA
27600056 CACATATTCATA
1 CACATA-TCATA
27600068 TTTTAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (16 bp):
CACATATCATAATAAA
Found at i:27600045 original size:15 final size:15
Alignment explanation
Indices: 27600025--27600068 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
27600015 CCATAATAGT
27600025 CACATATCATATAAA
1 CACATATCATATAAA
*
27600040 CACATATCATAATACA
1 CACATATCAT-ATAAA
27600056 CACATATTCATAT
1 CACATA-TCATAT
27600069 TTTAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:27601753 original size:15 final size:15
Alignment explanation
Indices: 27601733--27601761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27601723 GAATCGAGTT
27601733 GAGTCAAAAAATTTC
1 GAGTCAAAAAATTTC
27601748 GAGTCAAAAAATTT
1 GAGTCAAAAAATTT
27601762 GAATTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (15 bp):
GAGTCAAAAAATTTC
Found at i:27602140 original size:31 final size:29
Alignment explanation
Indices: 27602105--27602169 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
27602095 TAAACTGAAA
*
27602105 AACTTAATTTTTTATTTGAGTTGATCCAGAT
1 AACTTAA--TTTTATTCGAGTTGATCCAGAT
*
27602136 AACTTGATTTTATTCGAGTTGATCCAGAT
1 AACTTAATTTTATTCGAGTTGATCCAGAT
27602165 AACTT
1 AACTT
27602170 GATTAACTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 26 0.81
31 6 0.19
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (29 bp):
AACTTAATTTTATTCGAGTTGATCCAGAT
Found at i:27602156 original size:29 final size:29
Alignment explanation
Indices: 27602114--27602173 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
27602104 AAACTTAATT
*
27602114 TTTTATTTGAGTTGATCCAGATAACTTGA
1 TTTTATTCGAGTTGATCCAGATAACTTGA
27602143 TTTTATTCGAGTTGATCCAGATAACTTGA
1 TTTTATTCGAGTTGATCCAGATAACTTGA
27602172 TT
1 TT
27602174 AACTCAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (29 bp):
TTTTATTCGAGTTGATCCAGATAACTTGA
Found at i:27612774 original size:15 final size:16
Alignment explanation
Indices: 27612754--27612784 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27612744 AGCTCACTAT
27612754 TTTTGTA-AGCTCGCA
1 TTTTGTAGAGCTCGCA
27612769 TTTTGTAGAGCTCGCA
1 TTTTGTAGAGCTCGCA
27612785 CATTTGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (16 bp):
TTTTGTAGAGCTCGCA
Found at i:27618094 original size:29 final size:29
Alignment explanation
Indices: 27618052--27618109 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
27618042 AACAGACAAT
* *
27618052 AATATGTGGCATCCTAGTCAACTTTCCAA
1 AATATGTGACATCCAAGTCAACTTTCCAA
*
27618081 AATATGTGACATCCAAGTTAACTTTCCAA
1 AATATGTGACATCCAAGTCAACTTTCCAA
27618110 TTGGGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (29 bp):
AATATGTGACATCCAAGTCAACTTTCCAA
Found at i:27618822 original size:2 final size:2
Alignment explanation
Indices: 27618815--27618841 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27618805 AGTAAAATGG
27618815 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27618842 CAAATACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27620309 original size:15 final size:15
Alignment explanation
Indices: 27620289--27620319 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27620279 AAAACAACAT
27620289 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
27620304 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
27620319 A
1 A
27620320 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:27630030 original size:27 final size:27
Alignment explanation
Indices: 27630000--27630056 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
27629990 CTGCTAAATG
*
27630000 GAGTTTGGACTGCTCATATG-GAGAATT
1 GAGTTTGAACTGCTCATA-GAGAGAATT
* *
27630027 GAGTTTGAATTGGTCATAGAGAGAATT
1 GAGTTTGAACTGCTCATAGAGAGAATT
27630054 GAG
1 GAG
27630057 GAGGGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.30, C:0.07, G:0.32, T:0.32
Consensus pattern (27 bp):
GAGTTTGAACTGCTCATAGAGAGAATT
Found at i:27630623 original size:27 final size:27
Alignment explanation
Indices: 27630583--27630820 Score: 329
Period size: 27 Copynumber: 8.9 Consensus size: 27
27630573 GTTATAACCA
* * *
27630583 AAATACCTCTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
27630610 AAATACCCCCATAGGGTAGAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
27630637 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
27630664 AAATACCCTCATAGGATAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
27630691 AAATA-CCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
27630717 AAATGCCCCTATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
27630744 AAATA-CCCCATAGGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
27630770 AAATACCCCCATAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
27630797 AAATA-CCCCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
27630821 TATTATACCC
Statistics
Matches: 186, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 64 0.34
27 122 0.66
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:27630731 original size:53 final size:53
Alignment explanation
Indices: 27630583--27630821 Score: 343
Period size: 53 Copynumber: 4.5 Consensus size: 53
27630573 GTTATAACCA
* * *
27630583 AAATACCTCTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAGAATGACCA
1 AAATACC-CCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
* * * *
27630637 AAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGATAAAATGACTG
1 AAATA-CCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
* * *
27630691 AAATACCCCATAGGGTAAAATGACTGAAATGCCCCTATAGGGTAAAATAACCG
1 AAATACCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
* * *
27630744 AAATACCCCATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCG
1 AAATACCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
27630797 AAATACCCCATAGGGTAAAATGACT
1 AAATACCCCATAGGGTAAAATGACT
27630822 ATTATACCCC
Statistics
Matches: 162, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
53 111 0.69
54 49 0.30
55 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (53 bp):
AAATACCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCG
Found at i:27630744 original size:80 final size:80
Alignment explanation
Indices: 27630576--27630817 Score: 346
Period size: 80 Copynumber: 3.0 Consensus size: 80
27630566 TTACACTGTT
* * *
27630576 ATAACCAAAATA-CCTCTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAGAATGACCAAAA
1 ATAACCGAAATACCCTC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAA
27630640 TACCCCCATAGGGTAAA
65 TA-CCCCATAGGGTAAA
* * *
27630657 ATGACCGAAATACCCTCATAGGATAAAATGACTGAAATA-CCCCATAGGGTAAAATGACTGAAAT
1 ATAACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAAT
*
27630721 GCCCCTATAGGGTAAA
66 ACCCC-ATAGGGTAAA
* * *
27630737 ATAACCGAAATACCC-CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCGAAAT
1 ATAACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAAT
27630801 ACCCCATAGGGTAAA
66 ACCCCATAGGGTAAA
27630816 AT
1 AT
27630818 GACTATTATA
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
79 36 0.25
80 73 0.51
81 31 0.22
82 4 0.03
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (80 bp):
ATAACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAAT
ACCCCATAGGGTAAA
Found at i:27633395 original size:4 final size:4
Alignment explanation
Indices: 27633386--27633437 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
27633376 AAAGTCTAAT
27633386 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
27633434 TGTA
1 TGTA
27633438 CTGAAATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:27634842 original size:2 final size:2
Alignment explanation
Indices: 27634830--27634866 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
27634820 CTACTATGCC
27634830 AT AT A- AT 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 AT AT AT AT
27634867 TATCACATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27641728 original size:119 final size:119
Alignment explanation
Indices: 27641507--27641744 Score: 340
Period size: 119 Copynumber: 2.0 Consensus size: 119
27641497 CTAATACTAG
*
27641507 GCGATAATACGTGGTCAAATCGATAACTACTATTCGGCCGGCGTGTGCATAAAAAATAATTTTCT
1 GCGATAATACGTGGTCAAATCGATAACTACTATTCGGCCGACGTGTGCATAAAAAATAATTTTCT
*
27641572 AAAACAACTTTAAAGGTGCGATTTTACCTACATGCGAATAGTGTCAGTTATAAT
66 AAAACAACTTTAAAGGTGCGATTTTACCTACAAGCGAATAGTGTCAGTTATAAT
* * * *
27641626 GCGATATTATGTGGTCAAATCGATAAC-AGCTA-TCTGGTCGACGTGTGCGTAAAAAATAATTTT
1 GCGATAATACGTGGTCAAATCGATAACTA-CTATTC-GGCCGACGTGTGCATAAAAAATAATTTT
* *
27641689 CTAAAACAA-TATTAAAGGTGCGATTTTAACC-GCAAGCGAATAGTGTCAGTTGTAAT
64 CTAAAACAACT-TTAAAGGTGCGATTTT-ACCTACAAGCGAATAGTGTCAGTTATAAT
27641745 ATTTATAGTG
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
118 4 0.04
119 100 0.93
120 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (119 bp):
GCGATAATACGTGGTCAAATCGATAACTACTATTCGGCCGACGTGTGCATAAAAAATAATTTTCT
AAAACAACTTTAAAGGTGCGATTTTACCTACAAGCGAATAGTGTCAGTTATAAT
Found at i:27644693 original size:13 final size:13
Alignment explanation
Indices: 27644677--27644702 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27644667 TTATTTACCA
27644677 AAATTATTATAAT
1 AAATTATTATAAT
27644690 AAATTATTATAAT
1 AAATTATTATAAT
27644703 TATGATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:27646968 original size:18 final size:18
Alignment explanation
Indices: 27646947--27646981 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27646937 ATTTTTTGGC
*
27646947 AAAATTACATAATAACAA
1 AAAATTACATAAAAACAA
*
27646965 AAAATTATATAAAAACA
1 AAAATTACATAAAAACA
27646982 CATAACCAAA
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:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATTACATAAAAACAA
Found at i:27649106 original size:40 final size:40
Alignment explanation
Indices: 27649051--27649212 Score: 324
Period size: 40 Copynumber: 4.0 Consensus size: 40
27649041 TCGATACATT
27649051 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
1 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
27649091 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
1 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
27649131 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
1 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
27649171 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
1 TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
27649211 TC
1 TC
27649213 TAGATTCCAT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (40 bp):
TCACAAGATTGACTTGTGGGAGACACCCGAAGAAGATTTA
Found at i:27650103 original size:14 final size:16
Alignment explanation
Indices: 27650079--27650111 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
27650069 TCCGAAGATA
27650079 ATAGATAA-TTTTTAC
1 ATAGATAATTTTTTAC
27650094 ATAG-TAATTTTTTAC
1 ATAGATAATTTTTTAC
27650109 ATA
1 ATA
27650112 AATCATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
ATAGATAATTTTTTAC
Found at i:27656696 original size:16 final size:16
Alignment explanation
Indices: 27656677--27656707 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27656667 AATTTTGGGA
*
27656677 AAAATAAATTAAAATT
1 AAAATAAAATAAAATT
27656693 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
27656708 AAACAATCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAAATAAAATT
Found at i:27656700 original size:5 final size:5
Alignment explanation
Indices: 27656677--27656710 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
27656667 AATTTTGGGA
*
27656677 AAAAT AAATT AAAATT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAA
27656711 CAATCCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:27667423 original size:41 final size:41
Alignment explanation
Indices: 27667377--27667459 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
27667367 AATATTTTAT
**
27667377 CTTATCTTTTAGTAATTTATTAGAATAAGGGAATTATTTTC
1 CTTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTC
*
27667418 CTTATCTTTTAGTAGTTTATTAGAATAAGAAAATTATTTTC
1 CTTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTC
27667459 C
1 C
27667460 CAAATAGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (41 bp):
CTTATCTTTTAGTAATTTATTAGAATAAGAAAATTATTTTC
Found at i:27673271 original size:178 final size:174
Alignment explanation
Indices: 27672969--27673329 Score: 501
Period size: 178 Copynumber: 2.0 Consensus size: 174
27672959 GTATTCAGAT
27672969 ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACATGTGA
1 ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACA-GTGA
* * *
27673034 CATTTAATACAAAGGAAATGAAAGAAGGTATATCAGCAGCATTAAAAAGGAAAGAGATAAGAAGC
65 CATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAAGAAGC
* *
27673099 GAACACAACTG-CCTAATATCAAGGGAAACAAATAAAAAGGAGAA
130 AAACACAACTGACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
* *
27673143 ATTAGATGAAGCTCAATCAAAAGCAATATGAATAAAATAATGAAGACCATTTTATAAGCCAAAAC
1 ATTAGACGAAGCTCAATCAAAAGCAATATGAAT---A-AA--AAGACCACTTTATAAGCCAAAAC
*
27673208 A-TGACATTTAATACAAAAGAAATGAAAGAAGGCATACCAGTAGCATTAAAAAGGAAAGAGATAA
60 AGTGACATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAA
**
27673272 GGGGCAAACACAACTGTCAACTACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
125 GAAGCAAACACAACTG------ACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
27673328 AT
1 AT
27673330 CTAGTACACA
Statistics
Matches: 164, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
174 32 0.20
177 1 0.01
178 74 0.45
180 23 0.14
185 34 0.21
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (174 bp):
ATTAGACGAAGCTCAATCAAAAGCAATATGAATAAAAAGACCACTTTATAAGCCAAAACAGTGAC
ATTTAATACAAAAGAAATGAAAGAAGGCATACCAGCAGCATTAAAAAGGAAAGAGATAAGAAGCA
AACACAACTGACCTAATACCAAGGGAAACAAATAAAAAGGAGAA
Found at i:27679575 original size:17 final size:17
Alignment explanation
Indices: 27679553--27679585 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27679543 TTTGAAAAAG
27679553 GATAAATTCTTAATTTT
1 GATAAATTCTTAATTTT
*
27679570 GATAAATTTTTAATTT
1 GATAAATTCTTAATTT
27679586 AGTCCTTAAA
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:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
GATAAATTCTTAATTTT
Found at i:27685154 original size:15 final size:17
Alignment explanation
Indices: 27685126--27685161 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
27685116 TCTTTCTGTT
27685126 TTTTCTACTCTTT-CAA
1 TTTTCTACTCTTTCCAA
27685142 TTTTCTA-TCTTTCCAA
1 TTTTCTACTCTTTCCAA
27685158 TTTT
1 TTTT
27685162 GTGTCCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTCTACTCTTTCCAA
Found at i:27688838 original size:46 final size:46
Alignment explanation
Indices: 27688771--27688868 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
27688761 TTGTACCTAT
27688771 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
1 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
27688817 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
1 TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
27688863 -TGTATG
1 TTGTATG
27688869 AACCTTTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 6 0.12
46 46 0.88
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (46 bp):
TTGTATGGGTTGATATAATATCTATCACAAATGAATATTGATAGTG
Found at i:27689255 original size:44 final size:44
Alignment explanation
Indices: 27689201--27689321 Score: 110
Period size: 39 Copynumber: 2.9 Consensus size: 44
27689191 CATCCACGTC
27689201 AGCGCGTTGTCAGGAGATAAAGCAGGAAAACGCTTCCTCAAGGA
1 AGCGCGTTGTCAGGAGATAAAGCAGGAAAACGCTTCCTCAAGGA
* * ** * * **
27689245 AGCGCTTTGTCCA--CG-TGGA-CA-GAAAACGCGTCC-CACGTC
1 AGCGCGTTGT-CAGGAGATAAAGCAGGAAAACGCTTCCTCAAGGA
*
27689284 AGCGCGTTGTCAGGAGATAAAGCAGGAAAGCGCTTCCT
1 AGCGCGTTGTCAGGAGATAAAGCAGGAAAACGCTTCCT
27689322 TGAGGAAACA
Statistics
Matches: 56, Mismatches: 14, Indels: 14
0.67 0.17 0.17
Matches are distributed among these distances:
38 2 0.04
39 12 0.21
40 12 0.21
41 4 0.07
42 4 0.07
43 11 0.20
44 9 0.16
45 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (44 bp):
AGCGCGTTGTCAGGAGATAAAGCAGGAAAACGCTTCCTCAAGGA
Found at i:27689499 original size:97 final size:97
Alignment explanation
Indices: 27689408--27689930 Score: 817
Period size: 97 Copynumber: 5.4 Consensus size: 97
27689398 TTTAGATTTG
* *
27689408 AGGG-TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAA
1 AGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAA
27689472 ATTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
65 ATTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
* * * *
27689505 AGAGTTTTTAAGAAAAAAATCAAATAAATTAGAGTTTAGGGTTACTTGAGTAAATTAATTATAAA
1 AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA
27689570 TTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
66 TTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
*
27689602 AGGGTTTTTAA-GAAAAAATCAAATAAATTAGGGTTTGGAGTTACTTGAGTAAATTAATTATAAA
1 AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA
*
27689666 --TT-AAAAAATATATATTAGGGTTTAGTGTTT
66 TTTTAAAAAAAT-TAGATTAGGGTTTAGTGTTT
*
27689696 AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTGTAAA
1 AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA
* *
27689761 TTTAAAAAAAATTAGATAAGGGTTTAGTGTTT
66 TTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
* * * *
27689793 AGGGTTTTTAAAGAAAAAATCAAATACATTTGGGTTTGGGGTTATTTGAGTAAATTAATTATAAA
1 AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA
*
27689858 TTTTAAAAAAATTAGATTAGAGTTTAGTGTTT
66 TTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
* *
27689890 AAGG-TTTCAAGG-AAAAATCAAATAAATTAGGGTTTGGGGTT
1 AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTT
27689931 TAGAGTTACT
Statistics
Matches: 392, Mismatches: 28, Indels: 14
0.90 0.06 0.03
Matches are distributed among these distances:
93 7 0.02
94 32 0.08
95 78 0.20
96 55 0.14
97 206 0.53
98 14 0.04
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.37
Consensus pattern (97 bp):
AGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAA
TTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
Found at i:27689717 original size:191 final size:191
Alignment explanation
Indices: 27689408--27689930 Score: 795
Period size: 191 Copynumber: 2.7 Consensus size: 191
27689398 TTTAGATTTG
*
27689408 AGGG-TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAA
1 AGGGTTTTTAA-G-AAAAAATCAAATAAATTAGGGTTT-GGGTTACTTGAGTAAATTAATTATAA
* *
27689472 ATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGAGTTTTTAAGAAAAAAATCAAATAAATTAG
63 A-TTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAG
* * * *
27689537 AGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTT
127 GGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAAAATTAGATAAGGGTTTAGTGTTT
27689602 AGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTGGAGTTACTTGAGTAAATTAATTATAAA-
1 AGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTGG-GTTACTTGAGTAAATTAATTATAAAT
*
27689666 TT-AAAAAATATATATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGG
65 TTAAAAAAAT-TAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGG
*
27689730 TTTGGGGTTACTTGAGTAAATTAATTGTAAATTTAAAAAAAATTAGATAAGGGTTTAGTGTTT
129 TTTGGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAAAATTAGATAAGGGTTTAGTGTTT
* * *
27689793 AGGGTTTTTAAAGAAAAAATCAAATACATTTGGGTTTGGGGTTATTTGAGTAAATTAATTATAAA
1 AGGGTTTTT-AAGAAAAAATCAAATAAATTAGGGTTT-GGGTTACTTGAGTAAATTAATTATAAA
* * *
27689858 TTTTAAAAAAATTAGATTAGAGTTTAGTGTTTAAGG-TTTCAAGG-AAAAATCAAATAAATTAGG
64 -TTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGG
27689921 GTTTGGGGTT
128 GTTTGGGGTT
27689931 TAGAGTTACT
Statistics
Matches: 305, Mismatches: 16, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
190 7 0.02
191 120 0.39
192 80 0.26
193 57 0.19
194 28 0.09
195 13 0.04
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.37
Consensus pattern (191 bp):
AGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTGGGTTACTTGAGTAAATTAATTATAAATT
TAAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTT
TGGGGTTACTTGAGTAAATTAATTATAAATTTAAAAAAAATTAGATAAGGGTTTAGTGTTT
Found at i:27690192 original size:126 final size:125
Alignment explanation
Indices: 27689962--27690380 Score: 644
Period size: 126 Copynumber: 3.3 Consensus size: 125
27689952 TTTGTTAATT
*
27689962 TAAAA-AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAAATTTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAAT-AATTTGAGAAG
* *
27690026 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTAC
65 ACGTTTCTGAGAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTAC
* * *
27690087 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTTCTGAAAAAGTAATTCTAAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATT-TGAGAAG
*
27690152 ACGTTTCTGAGAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCAATT-TCAGCAAAAGTAC
65 ACGTTTCTGAGAAAATAGTGTCAAAAACGCTTCAAGCAGGATGC-ATTGTCAGCAAAAGTAC
* * * *
27690213 TGAAAGAAGCTCCCACGTGGATGCTCTTTTGTTACAGTAGTTTCTGAAAAAATAATTTTGAGAAA
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAA-TTTGAGAAG
* * * *
27690278 ATGTTTCTAAGTAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTAC
65 ACGTTTCTGAGAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTAC
*
27690339 TAAAAGAAGCTCCCACGTGGACGCTATTTTGCTACAGTAGTT
1 TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
27690381 CCAATTTGGC
Statistics
Matches: 266, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
125 11 0.04
126 250 0.94
127 5 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (125 bp):
TAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTGAGAAGA
CGTTTCTGAGAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTAC
Found at i:27694085 original size:30 final size:30
Alignment explanation
Indices: 27694051--27694113 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
27694041 TTGAAGTATC
* *
27694051 GGGCCCGGTGACTGTGTGGGTGCTGTTGCT
1 GGGCCCGGTGACTGTATGGGTGCTGTTGAT
* * *
27694081 GGGCCTGGTGATTGTATGGGTGTTGTTGAT
1 GGGCCCGGTGACTGTATGGGTGCTGTTGAT
27694111 GGG
1 GGG
27694114 TCTGCGTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.06, C:0.13, G:0.48, T:0.33
Consensus pattern (30 bp):
GGGCCCGGTGACTGTATGGGTGCTGTTGAT
Found at i:27697242 original size:103 final size:103
Alignment explanation
Indices: 27696999--27697253 Score: 323
Period size: 103 Copynumber: 2.5 Consensus size: 103
27696989 CACTAAGAAA
* * ** * * * *
27696999 TTTTTTATTGATTTTAGTGTTTCCACATGAAGAGGCGACACCCAAAAAGTAAAAAAAAAATTATT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAATTAAAAAAAAAATTATT
*
27697064 GGTGTCACCACATTTAGAGTTAGCACCAGCGAAATAAT
66 GGTGCCACCACATTTAGAGTTAGCACCAGCGAAATAAT
* * *
27697102 TTTTTTACTGATTTTGGTGCCTCTACATAAAGAGGCGGCACCGAAAAATTCAAAAAAAAATTTGT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAATT-AAAAAAAAAATTAT
* * * * *
27697167 TGGTGCCGCCACATTTAGAGTTGGCATCAGGGAAA-ATT
65 TGGTGCCACCACATTTAGAGTTAGCACCAGCGAAATAAT
**
27697205 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCATTGAAAAAT
1 TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAAT
27697254 GTGATAGCCC
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
103 89 0.68
104 42 0.32
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (103 bp):
TTTTTTACTGATTTTGGTGCCTCTACATGAAGAGGCGGCACCGAAAAATTAAAAAAAAAATTATT
GGTGCCACCACATTTAGAGTTAGCACCAGCGAAATAAT
Found at i:27700262 original size:21 final size:21
Alignment explanation
Indices: 27700238--27700277 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27700228 ACCTTTTCTA
*
27700238 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
27700259 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
27700278 CGTTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:27701694 original size:34 final size:34
Alignment explanation
Indices: 27701640--27701726 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
27701630 AGCATTTAAT
* * * * *
27701640 TATGCTTTTAACAGAACAATA-CGATATCAATTAG
1 TATGCTTATAACAGATCAATATAGATA-CAAATAA
* *
27701674 TATGCTTATAACAGCTCAATATAGTTACAAATAA
1 TATGCTTATAACAGATCAATATAGATACAAATAA
27701708 TATGCTTATAACAGATCAA
1 TATGCTTATAACAGATCAA
27701727 CTCAATACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (34 bp):
TATGCTTATAACAGATCAATATAGATACAAATAA
Found at i:27702653 original size:11 final size:11
Alignment explanation
Indices: 27702633--27702666 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27702623 AATATGGTGT
*
27702633 AAAGAGAATAG
1 AAAGAGAATAA
*
27702644 AAAGAAAATAA
1 AAAGAGAATAA
27702655 AAAGAGAATAA
1 AAAGAGAATAA
27702666 A
1 A
27702667 TAAAAGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (11 bp):
AAAGAGAATAA
Found at i:27706974 original size:16 final size:16
Alignment explanation
Indices: 27706953--27707009 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
27706943 TTCAATTTTA
27706953 AAAATAATCTAAATTT
1 AAAATAATCTAAATTT
27706969 AAAATAATCTAAATTT
1 AAAATAATCTAAATTT
* **
27706985 AAAATAACCTAAAGCT
1 AAAATAATCTAAATTT
27707001 AAAATAATC
1 AAAATAATC
27707010 CATCATCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATAATCTAAATTT
Found at i:27708167 original size:396 final size:397
Alignment explanation
Indices: 27707424--27708217 Score: 1581
Period size: 396 Copynumber: 2.0 Consensus size: 397
27707414 ATTATTTGGA
27707424 TATTGTATAACTCTTATTTTATTATTAATTTTGCTACTTTTTAAGAGTCATTTGCTTGTTAAGTT
1 TATTGTATAACTCTTATTTTATTATTAATTTTGCTACTTTTTAAGAGTCATTTGCTTGTTAAGTT
27707489 GCACCTATATTAAGATTATTTAAGCATAACTATTAAATACTTTTTTTAAATTTATTTTCAATTAT
66 GCACCTATATTAAGATTATTTAAGCATAACTATTAAATACTTTTTTTAAATTTATTTTCAATTAT
27707554 TGAGAAACATTTATTTTTAATATTTTAGTGTATTATATGTATTATATTTTTAAAATTTGTTTTTA
131 TGAGAAACATTTATTTTTAATATTTTAGTGTATTATATGTATTATATTTTTAAAATTTGTTTTTA
27707619 TATAAAAAAATCTAAAAATTTTGAATACAGACGGGCCAAGTCGGGCTTAGGTTTAGAATTTTTAA
196 TATAAAAAAATCTAAAAATTTTGAATACAGACGGGCCAAGTCGGGCTTAGGTTTAGAATTTTTAA
27707684 TTTGGACCGGGCTTGAACAAAATTTTAAATCATTTTAAGGATGGGTGAGGCTGGGCCTGAAAAAC
261 TTTGGACCGGGCTTGAACAAAATTTTAAATCATTTTAAGGATGGGTGAGGCTGGGCCTGAAAAAC
27707749 AAGCCTAAAATTTTGTATCTATCCAACCCATGATCGATTCTAGATCCAACCCAATTATCTATGCT
326 AAGCCTAAAATTTTGTATCTATCCAACCCATGATCGATTCTAGATCCAACCCAATTATCTATGCT
27707814 TTAGCTT
391 TTAGCTT
27707821 TATTGTATAA-TCTTATTTTATTATTAATTTTGCTACTTTTTAAGAGTCATTTGCTTGTTAAGTT
1 TATTGTATAACTCTTATTTTATTATTAATTTTGCTACTTTTTAAGAGTCATTTGCTTGTTAAGTT
27707885 GCACCTATATTAAGATTATTTAAGCATAACTATTAAATACTTTTTTTAAATTTATTTTCAATTAT
66 GCACCTATATTAAGATTATTTAAGCATAACTATTAAATACTTTTTTTAAATTTATTTTCAATTAT
27707950 TGAGAAACATTTATTTTTAATATTTTAGTGTATTATATGTATTATATTTTTAAAATTTGTTTTTA
131 TGAGAAACATTTATTTTTAATATTTTAGTGTATTATATGTATTATATTTTTAAAATTTGTTTTTA
27708015 TATAAAAAAATCTAAAAATTTTGAATACAGACGGGCCAAGTCGGGCTTAGGTTTAGAATTTTTAA
196 TATAAAAAAATCTAAAAATTTTGAATACAGACGGGCCAAGTCGGGCTTAGGTTTAGAATTTTTAA
27708080 TTTGGACCGGGCTTGAACAAAATTTTAAATCATTTTAAGGATGGGTGAGGCTGGGCCTGAAAAAC
261 TTTGGACCGGGCTTGAACAAAATTTTAAATCATTTTAAGGATGGGTGAGGCTGGGCCTGAAAAAC
27708145 AAGCCTAAAATTTTGTATCTATCCAACCCATGATCGATTCTAGATCCAACCCAATTATCTATGCT
326 AAGCCTAAAATTTTGTATCTATCCAACCCATGATCGATTCTAGATCCAACCCAATTATCTATGCT
27708210 TTAGCTT
391 TTAGCTT
27708217 T
1 T
27708218 GACTAAAACG
Statistics
Matches: 397, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
396 387 0.97
397 10 0.03
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (397 bp):
TATTGTATAACTCTTATTTTATTATTAATTTTGCTACTTTTTAAGAGTCATTTGCTTGTTAAGTT
GCACCTATATTAAGATTATTTAAGCATAACTATTAAATACTTTTTTTAAATTTATTTTCAATTAT
TGAGAAACATTTATTTTTAATATTTTAGTGTATTATATGTATTATATTTTTAAAATTTGTTTTTA
TATAAAAAAATCTAAAAATTTTGAATACAGACGGGCCAAGTCGGGCTTAGGTTTAGAATTTTTAA
TTTGGACCGGGCTTGAACAAAATTTTAAATCATTTTAAGGATGGGTGAGGCTGGGCCTGAAAAAC
AAGCCTAAAATTTTGTATCTATCCAACCCATGATCGATTCTAGATCCAACCCAATTATCTATGCT
TTAGCTT
Found at i:27709129 original size:29 final size:29
Alignment explanation
Indices: 27709086--27709141 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
27709076 GATTTTCTTT
* *
27709086 TTTAATAGTATAGGGATTAAATTGATCCA
1 TTTAATAGTAAAGGGACTAAATTGATCCA
*
27709115 TTTAATAGTAAAGGGACTAATTTGATC
1 TTTAATAGTAAAGGGACTAAATTGATC
27709142 TAGTCCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTAATAGTAAAGGGACTAAATTGATCCA
Found at i:27721720 original size:16 final size:16
Alignment explanation
Indices: 27721699--27721730 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27721689 TAACTATTTA
27721699 AACTTTAGCTAATAAG
1 AACTTTAGCTAATAAG
27721715 AACTTTAGCTAATAAG
1 AACTTTAGCTAATAAG
27721731 CTCAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
AACTTTAGCTAATAAG
Found at i:27724744 original size:16 final size:17
Alignment explanation
Indices: 27724707--27724744 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27724697 TCATGAATAT
*
27724707 ATATTTTTTTGTTTTTA
1 ATATTTTTTTGTATTTA
27724724 A-ATTTTTTT-TATTTA
1 ATATTTTTTTGTATTTA
27724739 ATATTT
1 ATATTT
27724745 AGTAATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 12 0.63
17 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATATTTTTTTGTATTTA
Found at i:27732829 original size:22 final size:23
Alignment explanation
Indices: 27732799--27732842 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
27732789 CTTCCACAGA
*
27732799 ATATGATTTTAGTGT-CACAAATT
1 ATATGATTTGA-TGTACACAAATT
27732822 ATAT-ATTTGATGTACACAAAT
1 ATATGATTTGATGTACACAAAT
27732843 AACATACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 12 0.63
23 4 0.21
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (23 bp):
ATATGATTTGATGTACACAAATT
Found at i:27737088 original size:16 final size:15
Alignment explanation
Indices: 27737067--27737096 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27737057 ATGAATATTT
27737067 AAAATTAATAAAATAG
1 AAAATTAA-AAAATAG
27737083 AAAATTAAAAAATA
1 AAAATTAAAAAATA
27737097 TAGGGCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATTAAAAAATAG
Found at i:27739381 original size:21 final size:21
Alignment explanation
Indices: 27739355--27739395 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27739345 GACGAGTAAC
27739355 AGATCAGACAAATCATATCAT
1 AGATCAGACAAATCATATCAT
* * *
27739376 AGATCATACATATCGTATCA
1 AGATCAGACAAATCATATCA
27739396 CACCATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (21 bp):
AGATCAGACAAATCATATCAT
Found at i:27740863 original size:25 final size:24
Alignment explanation
Indices: 27740818--27740865 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
27740808 GTCATTAAGG
* *
27740818 TTACCAATTCCAGCTCTTATGAGC
1 TTACCAATACCAGCTCGTATGAGC
27740842 TTACCAATACTCAGCTCGTATGAG
1 TTACCAATAC-CAGCTCGTATGAG
27740866 ATTATCGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (24 bp):
TTACCAATACCAGCTCGTATGAGC
Found at i:27746578 original size:38 final size:38
Alignment explanation
Indices: 27746535--27746622 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
27746525 GTGCTTAGAG
* *
27746535 CTAGTCAAATAACGACGATTTCAATTGTGTGCCCAACA
1 CTAGTCAGATAACGACGATTTCAATTGTGTACCCAACA
* *
27746573 TTAGTCAGATAATGACGATTTCAATTGTGTACCCAACA
1 CTAGTCAGATAACGACGATTTCAATTGTGTACCCAACA
27746611 CTAGTCAGATAA
1 CTAGTCAGATAA
27746623 ACCAACAGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (38 bp):
CTAGTCAGATAACGACGATTTCAATTGTGTACCCAACA
Found at i:27746776 original size:36 final size:40
Alignment explanation
Indices: 27746640--27746773 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
27746630 GAGATTTGCG
27746640 CTAGTCGGATAAACCGACGAGATCGAATGTGTGCCCAGCA
1 CTAGTCGGATAAACCGACGAGATCGAATGTGTGCCCAGCA
* **
27746680 TTAGTCGGATAAATGGACGAGATCGAATGTGTGCCC-GACA
1 CTAGTCGGATAAACCGACGAGATCGAATGTGTGCCCAG-CA
* * *
27746720 GTAGTCGAATAAACCGAC-A-AT-G-ATTTGTGCCCAGCA
1 CTAGTCGGATAAACCGACGAGATCGAATGTGTGCCCAGCA
27746756 CTAGTCGGATAAACCGAC
1 CTAGTCGGATAAACCGAC
27746774 AATTACATAC
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
36 27 0.33
37 2 0.02
38 2 0.02
39 2 0.02
40 49 0.60
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.20
Consensus pattern (40 bp):
CTAGTCGGATAAACCGACGAGATCGAATGTGTGCCCAGCA
Found at i:27748725 original size:19 final size:19
Alignment explanation
Indices: 27748684--27748745 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
27748674 ATTGAATTTG
* * *
27748684 AAAATTGGACTTGAGATCG
1 AAAATTGGACTCGAGAACC
27748703 AAAATTGGACTCGAGAACC
1 AAAATTGGACTCGAGAACC
*
27748722 AAAAATTGAGAC-CGAGACCC
1 -AAAATTG-GACTCGAGAACC
27748742 AAAA
1 AAAA
27748746 CTAGTTGAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 20 0.54
20 14 0.38
21 3 0.08
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (19 bp):
AAAATTGGACTCGAGAACC
Found at i:27748728 original size:20 final size:20
Alignment explanation
Indices: 27748684--27748745 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
27748674 ATTGAATTTG
* * *
27748684 AAAATTGGACTTGAG-ATCG
1 AAAATTGGACTCGAGAACCA
27748703 AAAATTGGACTCGAGAACCA
1 AAAATTGGACTCGAGAACCA
*
27748723 AAAATTGAGAC-CGAGACCCA
1 AAAATTG-GACTCGAGAACCA
27748743 AAA
1 AAA
27748746 CTAGTTGAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 14 0.38
20 20 0.54
21 3 0.08
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (20 bp):
AAAATTGGACTCGAGAACCA
Found at i:27749389 original size:31 final size:31
Alignment explanation
Indices: 27749342--27749451 Score: 125
Period size: 31 Copynumber: 3.5 Consensus size: 31
27749332 AAAAAAATAT
*
27749342 TATTTTAATAAATTTAATATTTATCTTGATAG
1 TATTTT-ATTAATTTAATATTTATCTTGATAG
* * *
27749374 TATTTTATTAATTTAATATTAAT-GTGAGA-
1 TATTTTATTAATTTAATATTTATCTTGATAG
** *
27749403 TATTAAATTTGATTTAATATTTATCTTGATAG
1 TATTTTA-TTAATTTAATATTTATCTTGATAG
27749435 TATTTTATTAATTTAAT
1 TATTTTATTAATTTAAT
27749452 GTTAGTAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
29 5 0.08
30 18 0.29
31 28 0.45
32 11 0.18
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (31 bp):
TATTTTATTAATTTAATATTTATCTTGATAG
Found at i:27762290 original size:27 final size:28
Alignment explanation
Indices: 27762222--27762292 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
27762212 AACCCCGTGA
* *
27762222 CAAGTGGTATCCGAG-CTAGATTCAAAC
1 CAAGTGGTATCCAAGCCAAGATTCAAAC
* *
27762249 CAAGTAAGTATCCAAGCCAAG-TTCGAAC
1 CAAGT-GGTATCCAAGCCAAGATTCAAAC
27762277 CAAGTGGTATCCAAGC
1 CAAGTGGTATCCAAGC
27762293 TGTTGGTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 15 0.41
28 19 0.51
29 3 0.08
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (28 bp):
CAAGTGGTATCCAAGCCAAGATTCAAAC
Found at i:27762327 original size:29 final size:29
Alignment explanation
Indices: 27762269--27762333 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
27762259 TCCAAGCCAA
* *
27762269 GTTCGAACCAAGTGGTATCCAAGCTGTTG
1 GTTCGAACCAAGTGATATCCAAGCTATTG
** *
27762298 GTTCGAACCAAGTGATATCTGAGTTATTG
1 GTTCGAACCAAGTGATATCCAAGCTATTG
27762327 GTTCGAA
1 GTTCGAA
27762334 GGCACCGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (29 bp):
GTTCGAACCAAGTGATATCCAAGCTATTG
Found at i:27775381 original size:24 final size:24
Alignment explanation
Indices: 27775354--27775403 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
27775344 TTTTCTTCTT
*
27775354 TTAA-CTTTTAACTTTTCATCTTTC
1 TTAATCTTTTAACATTT-ATCTTTC
* *
27775378 TTAATTTTTTACCATTTATCTTTC
1 TTAATCTTTTAACATTTATCTTTC
27775402 TT
1 TT
27775404 TTAACCCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (24 bp):
TTAATCTTTTAACATTTATCTTTC
Done.