Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 26 of 318
Found at i:9879661 original size:478 final size:479
Alignment explanation
Indices: 9878756--9879662 Score: 1672
Period size: 479 Copynumber: 1.9 Consensus size: 479
9878746 AAGCTCATGT
9878756 TGTAACGCCCCGTACCCGAGACCGTTGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCAT
1 TGTAACGCCCCGTACCCGAGACCGTTGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCAT
*
9878821 TACTTAAACAGCTCATACAATTCATTTTAAAATTTCCAGACAAGCTGGTTAACTGCATCACAGTC
66 TACTTAAACAGCTCATACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTC
* *
9878886 GCTTTAAAAATCATATCTCGAGTTCCTAAACTTGAAATCCAATTCCGTAAATTTTTCCTGAAACT
131 GCTTTAAAAATCATATCTCGAGTTCCGAAACTCGAAATCCAATTCCGTAAATTTTTCCTGAAACT
*
9878951 AGACTCATATATCTATCTAGTAATTTTTTTCTATAATGCAAGTTTTGCAAATTATTCGATTTAGT
196 AGACTCATATATCTATCTAGTAATTTTTTTCTAGAATGCAAGTTTTGCAAATTATTCGATTTAGT
9879016 CCCTAATTTCAATTTAAGCACTTTATGCATAAAATTCCTTCACGAAATTTTCACACAATCATGCA
261 CCCTAATTTCAATTTAAGCACTTTATGCATAAAATTCCTTCACGAAATTTTCACACAATCATGCA
*
9879081 ATCATATCATAGACCATAAAATAATCATAAAATAATTATTTCTATCTCGGATTTTGTGGTCACGA
326 ATCATATCATAGACCATAAAATAATCATAAAATAATTATTTATATCTCGGATTTTGTGGTCACGA
*
9879146 AATCACTATTCCGACTAGGCCCAAAATCAGAATATTACAACTCTCCCCTCCTTTAGGGATTTTCG
391 AACCACTATTCCGACTAGGCCCAAAATCAGAATATTACAACTCTCCCCTCCTTTAGGGATTTTCG
9879211 TCCCCGAAAATCTTACCAGCTAAA
456 TCCCCGAAAATCTTACCAGCTAAA
* ** *
9879235 TGTAACGCCCCGTACCCGAGACTGTTTTCGGAGTTGAACACGAGGTGTTAACGGACTTAATTCAT
1 TGTAACGCCCCGTACCCGAGACCGTTGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCAT
9879300 TACTTAAACAGCTCATACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTC
66 TACTTAAACAGCTCATACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTC
*
9879365 GCTTTAAAAATCATATCTCGAGTTTCGAAACTCGAAATCCAATTCCGTAAATTTTTCCTGAAACT
131 GCTTTAAAAATCATATCTCGAGTTCCGAAACTCGAAATCCAATTCCGTAAATTTTTCCTGAAACT
*
9879430 AGACTCATATATCTATCTAGTAA-TTTTTTCTAGAATGCAAGTTTTTCAAATTATTCGATTTAGT
196 AGACTCATATATCTATCTAGTAATTTTTTTCTAGAATGCAAGTTTTGCAAATTATTCGATTTAGT
*
9879494 CCCTAATTTCAATTTAAGCACTTTATGCATAAAATTCCTTCACGAAATTTTCACGCAATCATGCA
261 CCCTAATTTCAATTTAAGCACTTTATGCATAAAATTCCTTCACGAAATTTTCACACAATCATGCA
*
9879559 ATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTATATCTCGGATTTTGTGGTCACGA
326 ATCATATCATAGACCATAAAATAATCATAAAATAATTATTTATATCTCGGATTTTGTGGTCACGA
*
9879624 AACCACTATTCCGACTAGGCCCAAAATCAGGATATTACA
391 AACCACTATTCCGACTAGGCCCAAAATCAGAATATTACA
9879663 CATGTGAACT
Statistics
Matches: 413, Mismatches: 15, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
478 203 0.49
479 210 0.51
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (479 bp):
TGTAACGCCCCGTACCCGAGACCGTTGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCAT
TACTTAAACAGCTCATACAATTCATTTTAAAATTTCCAGACAAGCTGGCTAACTGCATCACAGTC
GCTTTAAAAATCATATCTCGAGTTCCGAAACTCGAAATCCAATTCCGTAAATTTTTCCTGAAACT
AGACTCATATATCTATCTAGTAATTTTTTTCTAGAATGCAAGTTTTGCAAATTATTCGATTTAGT
CCCTAATTTCAATTTAAGCACTTTATGCATAAAATTCCTTCACGAAATTTTCACACAATCATGCA
ATCATATCATAGACCATAAAATAATCATAAAATAATTATTTATATCTCGGATTTTGTGGTCACGA
AACCACTATTCCGACTAGGCCCAAAATCAGAATATTACAACTCTCCCCTCCTTTAGGGATTTTCG
TCCCCGAAAATCTTACCAGCTAAA
Found at i:9880930 original size:34 final size:34
Alignment explanation
Indices: 9880887--9880957 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
9880877 TAAAAAGATA
9880887 GTAATTACTAGTACTTTTAGTCCTCGTGGATACG
1 GTAATTACTAGTACTTTTAGTCCTCGTGGATACG
9880921 GTAATTACTAGTACTTTTAGTCCTCGTGGATACG
1 GTAATTACTAGTACTTTTAGTCCTCGTGGATACG
9880955 GTA
1 GTA
9880958 TTTCTGGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (34 bp):
GTAATTACTAGTACTTTTAGTCCTCGTGGATACG
Found at i:9881228 original size:124 final size:124
Alignment explanation
Indices: 9881008--9881256 Score: 471
Period size: 124 Copynumber: 2.0 Consensus size: 124
9880998 CGCTTGCCTT
*
9881008 AGTTGAATTTTTAGTTAGTTTCAGGACCATCAACTAAGTAACAGGAAACTCATACGAGCTGTATA
1 AGTTGAATTTTTAGTTAGTTTCAGGACCATCAACTAAGTAACAGGAAACTCATACGAGCTCTATA
9881073 TCGGGAAGTTCTTGCAAGCCCAATATCAGGAAGCTCAAGAGAGTTGTGGTGTATCCGCA
66 TCGGGAAGTTCTTGCAAGCCCAATATCAGGAAGCTCAAGAGAGTTGTGGTGTATCCGCA
*
9881132 AGTTGAATTTTTAGTTAGTTTTAGGACCATCAACTAAGTAACAGGAAACTCATACGAGCTCTATA
1 AGTTGAATTTTTAGTTAGTTTCAGGACCATCAACTAAGTAACAGGAAACTCATACGAGCTCTATA
*
9881197 TCGGGAAGTTCTTGCAAGCCTAATATCAGGAAGCTCAAGAGAGTTGTGGTGTATCCGCA
66 TCGGGAAGTTCTTGCAAGCCCAATATCAGGAAGCTCAAGAGAGTTGTGGTGTATCCGCA
9881256 A
1 A
9881257 CACATGCAGG
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 122 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (124 bp):
AGTTGAATTTTTAGTTAGTTTCAGGACCATCAACTAAGTAACAGGAAACTCATACGAGCTCTATA
TCGGGAAGTTCTTGCAAGCCCAATATCAGGAAGCTCAAGAGAGTTGTGGTGTATCCGCA
Found at i:9883350 original size:3 final size:3
Alignment explanation
Indices: 9883342--9883384 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
9883332 TTAGATGCTC
* *
9883342 TCT TCT TCT TCT TCT CCT CCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
9883385 TTTTCCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:9888884 original size:17 final size:19
Alignment explanation
Indices: 9888864--9888907 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
9888854 TGAATTTCTT
9888864 TTTTTTTAATA-TTCA-TA
1 TTTTTTTAATATTTCATTA
*
9888881 TTTTTTTATTATTTCATTA
1 TTTTTTTAATATTTCATTA
9888900 TATTTTTT
1 T-TTTTTT
9888908 TGACCCCTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 3 0.13
20 6 0.26
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTTAATATTTCATTA
Found at i:9889049 original size:20 final size:19
Alignment explanation
Indices: 9889026--9889077 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
9889016 TGTATTGACC
*
9889026 ATATTAAAATATTGTAAAAT
1 ATATTAAAA-ATAGTAAAAT
9889046 ATATTAAAAATAGTAAAA-
1 ATATTAAAAATAGTAAAAT
9889064 ATTATTTAAAAATA
1 A-TA-TTAAAAATA
9889078 TACAAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 18 0.62
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
ATATTAAAAATAGTAAAAT
Found at i:9889074 original size:30 final size:29
Alignment explanation
Indices: 9889031--9889103 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
9889021 TGACCATATT
*
9889031 AAAATATTGT-AAAATATATTAAAAATAGTA
1 AAAATATT-TAAAAATATA-CAAAAATAGTA
*
9889061 AAAATTATTTAAAAATATACAAAAATTGTA
1 AAAA-TATTTAAAAATATACAAAAATAGTA
9889091 AAGAATATTTAAA
1 AA-AATATTTAAA
9889104 TTACTAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 24 0.63
31 14 0.37
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATATTTAAAAATATACAAAAATAGTA
Found at i:9889115 original size:30 final size:31
Alignment explanation
Indices: 9889041--9889125 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
9889031 AAAATATTGT
** *
9889041 AAAATATATTAAAAATAGTAAAAATTATTTA
1 AAAATATAAAAAAAATTGTAAAAATTATTTA
*
9889072 AAAATAT-ACAAAAATTGTAAAGAA-TATTT-
1 AAAATATAAAAAAAATTGTAAA-AATTATTTA
*
9889101 AAATTACTAAAAAAAATTGTAAAAA
1 AAAATA-TAAAAAAAATTGTAAAAA
9889126 AAATATTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.11
30 19 0.41
31 22 0.48
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (31 bp):
AAAATATAAAAAAAATTGTAAAAATTATTTA
Found at i:9889154 original size:34 final size:31
Alignment explanation
Indices: 9889113--9889182 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 31
9889103 ATTACTAAAA
* *
9889113 AAAATTGTAAAAAAAATATTGTTAGAAACATTTT
1 AAAATTGTAAAAAAAA-ATTATTA-AAA-ATTAT
9889147 AAAATTGTAAAAAAAAATTATTAAAAATTAT
1 AAAATTGTAAAAAAAAATTATTAAAAATTAT
9889178 AAAAT
1 AAAAT
9889183 ATTATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 9 0.26
32 3 0.09
33 6 0.18
34 16 0.47
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (31 bp):
AAAATTGTAAAAAAAAATTATTAAAAATTAT
Found at i:9889159 original size:33 final size:32
Alignment explanation
Indices: 9889113--9889182 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
9889103 ATTACTAAAA
* * *
9889113 AAAATTGTAAAAAAAATATTGTTAGAAACATTTT
1 AAAATTGTAAAAAAAAAATTATTA-AAA-ATTAT
9889147 AAAATTGT-AAAAAAAAATTATTAAAAATTAT
1 AAAATTGTAAAAAAAAAATTATTAAAAATTAT
9889178 AAAAT
1 AAAAT
9889183 ATTATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 3 0.09
33 13 0.39
34 8 0.24
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (32 bp):
AAAATTGTAAAAAAAAAATTATTAAAAATTAT
Found at i:9889172 original size:10 final size:10
Alignment explanation
Indices: 9889159--9889206 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
9889149 AATTGTAAAA
9889159 AAAAATTATT
1 AAAAATTATT
9889169 AAAAATTA-T
1 AAAAATTATT
9889178 AAAATATTATT
1 AAAA-ATTATT
* **
9889189 TAAAATTAAA
1 AAAAATTATT
9889199 AAAAATTA
1 AAAAATTA
9889207 ACTTCAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 5 0.16
10 23 0.72
11 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:9889186 original size:20 final size:20
Alignment explanation
Indices: 9889156--9889206 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9889146 TAAAATTGTA
9889156 AAAAAAAATTATTAAAAATT
1 AAAAAAAATTATTAAAAATT
* * *
9889176 ATAAAATATTATTTAAAATT
1 AAAAAAAATTATTAAAAATT
9889196 AAAAAAAATTA
1 AAAAAAAATTA
9889207 ACTTCAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAAATTATTAAAAATT
Found at i:9889455 original size:20 final size:21
Alignment explanation
Indices: 9889405--9889461 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
9889395 TAAATGCCAC
9889405 TTATTCACAA-TTTTTAATAA
1 TTATTCACAATTTTTTAATAA
**
9889425 TTATTTGCAATTTTTTAATAA
1 TTATTCACAATTTTTTAATAA
9889446 TT-TTCACAATTTTTTA
1 TTATTCACAATTTTTTA
9889462 TGATCTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATTCACAATTTTTTAATAA
Found at i:9889530 original size:21 final size:20
Alignment explanation
Indices: 9889467--9889541 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
9889457 TTTTATGATC
* *
9889467 TTTACAAATTTTAAATAGTGT
1 TTTAC-AATTTTAAATACTTT
* *
9889488 TTTATAATTTTTAATAACTTT
1 TTTACAATTTTAAAT-ACTTT
9889509 TTTACAATTTTAAAATA-TTT
1 TTTACAATTTT-AAATACTTT
*
9889529 TTAACAATATTTA
1 TTTACAAT-TTTA
9889542 TTTTTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 20 0.45
21 21 0.48
22 3 0.07
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTACAATTTTAAATACTTT
Found at i:9889581 original size:20 final size:20
Alignment explanation
Indices: 9889411--9889586 Score: 80
Period size: 20 Copynumber: 8.8 Consensus size: 20
9889401 CCACTTATTC
* *
9889411 ACAATTTTTAATAATTATTT
1 ACAATTTTTAATATTTTTTT
* * *
9889431 GCAATTTTTTAATA-ATTTTC
1 ACAA-TTTTTAATATTTTTTT
* *
9889451 ACAATTTTT--TATGATCTTT
1 ACAATTTTTAATAT-TTTTTT
* * *
9889470 ACAAATTTTAAATAGTGTTTT
1 AC-AATTTTTAATATTTTTTT
* *
9889491 ATAATTTTTAATAACTTTTTT
1 ACAATTTTTAAT-ATTTTTTT
* *
9889512 ACAA-TTTTAAAATATTTTTA
1 ACAATTTTTAATAT-TTTTTT
*
9889532 ACAA-TATT--TATTTTTTT
1 ACAATTTTTAATATTTTTTT
* *
9889549 A-AAGTTCTAATATTTTTTT
1 ACAATTTTTAATATTTTTTT
9889568 ACAATTTTTTATATATTTT
1 ACAA-TTTTTA-ATATTTT
9889587 AAATATTCTT
Statistics
Matches: 115, Mismatches: 27, Indels: 26
0.68 0.16 0.15
Matches are distributed among these distances:
16 2 0.02
17 10 0.09
18 2 0.02
19 22 0.19
20 44 0.38
21 26 0.23
22 9 0.08
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (20 bp):
ACAATTTTTAATATTTTTTT
Found at i:9904187 original size:42 final size:42
Alignment explanation
Indices: 9904140--9904513 Score: 412
Period size: 42 Copynumber: 8.9 Consensus size: 42
9904130 GTTTACAAAC
* * *
9904140 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGCA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
9904182 AAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
9904224 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
9904266 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * * *
9904308 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
9904350 AAAAACGCCGCTAAATAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
9904392 GAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ****
9904435 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
9904476 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
9904514 TTATACAAAA
Statistics
Matches: 290, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
41 39 0.13
42 217 0.75
43 34 0.12
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:9904906 original size:21 final size:21
Alignment explanation
Indices: 9904838--9904908 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
9904828 TTTTGCTCTG
* *
9904838 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
9904859 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
9904880 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
9904901 CTCTGCTT
1 CTCTGCTT
9904909 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:9906895 original size:11 final size:9
Alignment explanation
Indices: 9906847--9907305 Score: 81
Period size: 7 Copynumber: 53.0 Consensus size: 9
9906837 AATTGCAATG
9906847 GTAAGTTAT
1 GTAAGTTAT
9906856 GTAAGTTAT
1 GTAAGTTAT
9906865 GTAAGTTAAAT
1 GTAAGTT--AT
9906876 GT-A-TTAT
1 GTAAGTTAT
9906883 GTAAGTTAAAT
1 GTAAGTT--AT
9906894 GTAAG-T-T
1 GTAAGTTAT
9906901 GTAAGTTAT
1 GTAAGTTAT
*
9906910 -TATGTATTAT
1 GTAAG--TTAT
9906920 GTAAG-T-T
1 GTAAGTTAT
9906927 GTAAGTTAT
1 GTAAGTTAT
* *
9906936 -TATGTATTGT
1 GTAAG--TTAT
9906946 GTAAG-T-T
1 GTAAGTTAT
9906953 GTAAGTTAT
1 GTAAGTTAT
* *
9906962 -TATGTATTGT
1 GTAAG--TTAT
9906972 GTAAG-T-T
1 GTAAGTTAT
9906979 GTAAGTTAAAT
1 GTAAGTT--AT
9906990 GT-A-TTAT
1 GTAAGTTAT
9906997 GTAAGTTAAAT
1 GTAAGTT--AT
9907008 GT-A-TTAT
1 GTAAGTTAT
9907015 GTAAG-T-T
1 GTAAGTTAT
9907022 GTAAGTTAAAT
1 GTAAGTT--AT
9907033 GT-A-TTAT
1 GTAAGTTAT
9907040 GTAAG-T-T
1 GTAAGTTAT
9907047 GTAAGTTAAAT
1 GTAAGTT--AT
9907058 GT-A-TTAT
1 GTAAGTTAT
9907065 GTAAG-T-T
1 GTAAGTTAT
9907072 GTAAGTTAT
1 GTAAGTTAT
*
9907081 -TATGTATTAT
1 GTAAG--TTAT
9907091 GTAAG-T-T
1 GTAAGTTAT
9907098 GTAAGTTAT
1 GTAAGTTAT
* *
9907107 -TATGTATTGT
1 GTAAG--TTAT
9907117 GTAAG-T-T
1 GTAAGTTAT
9907124 GTAAGTTAT
1 GTAAGTTAT
* *
9907133 -TATGTATTGT
1 GTAAG--TTAT
9907143 GTAAG-T-T
1 GTAAGTTAT
9907150 GTAAGTTAT
1 GTAAGTTAT
* *
9907159 -TATGTATTGT
1 GTAAG--TTAT
9907169 GTAAG-T-T
1 GTAAGTTAT
9907176 GTAAGTTAAAT
1 GTAAGTT--AT
9907187 GT-A-TTAT
1 GTAAGTTAT
*
9907194 GTCAGTTAAAT
1 GTAAGTT--AT
9907205 GT-A-TTAT
1 GTAAGTTAT
9907212 GTAAG-T-T
1 GTAAGTTAT
9907219 GTAAGTTAAAT
1 GTAAGTT--AT
9907230 GT-A-TTAT
1 GTAAGTTAT
9907237 GTAAG-T-T
1 GTAAGTTAT
9907244 GTAAGTTAT
1 GTAAGTTAT
*
9907253 -TATGTATTAT
1 GTAAG--TTAT
*
9907263 GTAAGTAAT
1 GTAAGTTAT
9907272 GTAAGTTAAAT
1 GTAAGTT--AT
9907283 GT-A-TTAT
1 GTAAGTTAT
9907290 GTAAG-T-T
1 GTAAGTTAT
9907297 GTAAGTTAT
1 GTAAGTTAT
9907306 TATGTATTAT
Statistics
Matches: 337, Mismatches: 23, Indels: 180
0.62 0.04 0.33
Matches are distributed among these distances:
7 120 0.36
8 60 0.18
9 58 0.17
10 37 0.11
11 62 0.18
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9906926 original size:26 final size:26
Alignment explanation
Indices: 9906892--9907315 Score: 568
Period size: 26 Copynumber: 17.1 Consensus size: 26
9906882 TGTAAGTTAA
9906892 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
9906918 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9906944 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
9906970 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
9906995 ATGTAAG-T-T-A---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907013 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907038 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
9907063 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
9907089 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907115 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907141 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
9907167 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907192 ATGTCAG-T-T-A---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907210 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
9907235 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
9907261 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
9907288 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
9907314 AT
1 AT
9907316 TTAATAAAAT
Statistics
Matches: 367, Mismatches: 12, Indels: 38
0.88 0.03 0.09
Matches are distributed among these distances:
18 27 0.07
19 4 0.01
20 2 0.01
21 2 0.01
22 2 0.01
23 2 0.01
24 4 0.01
25 107 0.29
26 193 0.53
27 15 0.04
28 9 0.02
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:9907185 original size:197 final size:198
Alignment explanation
Indices: 9906892--9907315 Score: 780
Period size: 197 Copynumber: 2.1 Consensus size: 198
9906882 TGTAAGTTAA
9906892 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
9906957 GTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAAATGTATTATGTAAGTT
66 GTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAAATGTATTATGTAAGTT
*
9907022 GTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGT-TGTAAGTTATTATG
131 GTAAGTTAAATGTATTATGTAAGTTGTAAGTTATAATGTATTATGTAAGTATGTAAGTTA-AATG
9907085 TATT
195 TATT
*
9907089 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
*
9907154 GTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTCAGTTAAATGTATTATGTAAGTT
66 GTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAAATGTATTATGTAAGTT
*
9907219 GTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATG
131 GTAAGTTAAATGTATTATGTAAGTTGTAAGTTATAATGTATTATGTAAGT-ATGTAAGTTAAATG
9907284 TATT
195 TATT
9907288 ATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGTTGTAAGTTATTATGTATTAT
9907316 TTAATAAAAT
Statistics
Matches: 219, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
197 161 0.74
198 15 0.07
199 34 0.16
200 9 0.04
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.47
Consensus pattern (198 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
GTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTAAATGTATTATGTAAGTT
GTAAGTTAAATGTATTATGTAAGTTGTAAGTTATAATGTATTATGTAAGTATGTAAGTTAAATGT
ATT
Found at i:9907435 original size:73 final size:73
Alignment explanation
Indices: 9907352--9907575 Score: 439
Period size: 73 Copynumber: 3.1 Consensus size: 73
9907342 ACATTACTAA
9907352 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
9907417 TATTTTTT
66 TATTTTTT
9907425 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
9907490 TATTTTTTT
66 TA-TTTTTT
9907499 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
9907564 TATTTTTT
66 TATTTTTT
9907572 TATA
1 TATA
9907576 TTTTATTTTA
Statistics
Matches: 150, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
73 77 0.51
74 73 0.49
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:9907484 original size:41 final size:41
Alignment explanation
Indices: 9907437--9907558 Score: 118
Period size: 41 Copynumber: 3.2 Consensus size: 41
9907427 TAATTATTAA
9907437 TAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTT
1 TAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTT
** * * * *
9907478 TAATA-TT--CCACAT---ATTTT-TTTT-ATAAT-TATTAA
1 TAATATTTAATAAAATAACATTTTATTTTAATAGTCAATT-T
9907511 TAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTT
1 TAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTT
9907552 TAATATT
1 TAATATT
9907559 CCACATATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 20
0.65 0.13 0.22
Matches are distributed among these distances:
32 3 0.05
33 9 0.15
34 6 0.10
35 5 0.08
36 3 0.05
38 3 0.05
39 5 0.08
40 6 0.10
41 16 0.27
42 3 0.05
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (41 bp):
TAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTT
Found at i:9907540 original size:40 final size:41
Alignment explanation
Indices: 9907414--9907540 Score: 123
Period size: 40 Copynumber: 3.3 Consensus size: 41
9907404 TTAATATTCC
9907414 ACATATTT-TTTTATAATTATTAATAATATTTAATAAAATA
1 ACATATTTATTTTATAATTATTAATAATATTTAATAAAATA
* * * *
9907454 ACAT-TTTA-TTT-TAA-TAGT--CAAT-TTTAAT--ATTCC
1 ACATATTTATTTTATAATTATTAATAATATTTAATAAAAT-A
*
9907487 ACATATTTTTTTTATAATTATTAATAATATTTAATAAAATA
1 ACATATTTATTTTATAATTATTAATAATATTTAATAAAATA
9907528 ACAT-TTTATTTTA
1 ACATATTTATTTTA
9907541 ATAGTCAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 22
0.67 0.10 0.22
Matches are distributed among these distances:
32 2 0.03
33 4 0.06
34 9 0.14
35 6 0.09
36 3 0.05
37 6 0.09
38 3 0.05
39 9 0.14
40 18 0.27
41 4 0.06
42 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.52
Consensus pattern (41 bp):
ACATATTTATTTTATAATTATTAATAATATTTAATAAAATA
Found at i:9907540 original size:74 final size:74
Alignment explanation
Indices: 9907352--9907572 Score: 435
Period size: 74 Copynumber: 3.0 Consensus size: 74
9907342 ACATTACTAA
9907352 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
9907417 TA-TTTTTT
66 TATTTTTTT
9907425 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
9907490 TATTTTTTT
66 TATTTTTTT
9907499 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
9907564 TATTTTTTT
66 TATTTTTTT
9907573 ATATTTTATT
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 67 0.46
74 80 0.54
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Found at i:9907740 original size:13 final size:13
Alignment explanation
Indices: 9907722--9907792 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
9907712 ATTTATAATT
9907722 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
9907735 ATTTAAGTAACAT
1 ATTTAAGTAATAA
9907748 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
9907761 ATTTAAGTAACAT
1 ATTTAAGTAATAA
9907774 ATTTAAGTAATAA
1 ATTTAAGTAATAA
9907787 ATTTAA
1 ATTTAA
9907793 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:9907751 original size:26 final size:26
Alignment explanation
Indices: 9907721--9907792 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
9907711 TATTTATAAT
9907721 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
9907747 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
9907773 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
9907793 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:9907823 original size:40 final size:40
Alignment explanation
Indices: 9907764--9907987 Score: 351
Period size: 40 Copynumber: 5.5 Consensus size: 40
9907754 GTAATAAATT
** *
9907764 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
9907804 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
9907844 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTT---T-AGTAATAAATTTAAACAAATTTTAG
9907888 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
9907928 TAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA-G
9907968 TAAGTAATGTATTTTAGTAA
1 TAAGTAATGTATTTTAGTAA
9907988 GTAATGTATT
Statistics
Matches: 172, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
39 4 0.02
40 128 0.74
41 1 0.01
43 1 0.01
44 38 0.22
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (40 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:9907883 original size:84 final size:81
Alignment explanation
Indices: 9907764--9907987 Score: 364
Period size: 84 Copynumber: 2.8 Consensus size: 81
9907754 GTAATAAATT
**
9907764 TAAGTAACATATTTAAG-TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 TAAGTAATGTATTTAAGATAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAA
9907828 TTTAAACAAATTTTAG
66 TTTAAACAAATTTTAG
9907844 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAT
1 TAAGTAATGTATTTAAG--A-TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAT
9907909 AAATTTAAACAAATTTTAG
63 AAATTTAAACAAATTTTAG
*
9907928 TAAGTAATGTATTTTAGA-AATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAA
1 TAAGTAATGTATTTAAGATAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAA
9907988 GTAATGTATT
Statistics
Matches: 136, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
79 4 0.03
80 52 0.38
82 1 0.01
84 79 0.58
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (81 bp):
TAAGTAATGTATTTAAGATAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAA
TTTAAACAAATTTTAG
Found at i:9907908 original size:124 final size:124
Alignment explanation
Indices: 9907764--9907992 Score: 388
Period size: 124 Copynumber: 1.8 Consensus size: 124
9907754 GTAATAAATT
*
9907764 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAAATAAAT
*
9907829 TTAAACAAATTT-TAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAG
66 TTAAACAAATTTAT-GTAAGTAATGTATTTAAGTAAGTAATAAATTTAAACAAATTTTAG
** *
9907888 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAAATAAAT
1 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAAATAAAT
*
9907953 TTAAACAAATTTATGTAAGTAATGTATTTTAGTAAGTAAT
66 TTAAACAAATTTATGTAAGTAATGTATTTAAGTAAGTAAT
9907993 GTATTTTAGT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 97 0.99
125 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (124 bp):
TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAAATAAAT
TTAAACAAATTTATGTAAGTAATGTATTTAAGTAAGTAATAAATTTAAACAAATTTTAG
Found at i:9907942 original size:57 final size:57
Alignment explanation
Indices: 9907881--9908070 Score: 234
Period size: 57 Copynumber: 3.6 Consensus size: 57
9907871 ATTTAAACAA
9907881 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
* *
9907938 ATTTTAG-AAATAA---A-TTTA--AACAAATTT-----A----T-GTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
*
9907978 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
9908035 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
9908071 CATTCAATCG
Statistics
Matches: 111, Mismatches: 5, Indels: 34
0.74 0.03 0.23
Matches are distributed among these distances:
40 18 0.16
41 6 0.05
44 1 0.01
45 5 0.05
47 8 0.07
50 8 0.07
52 5 0.05
53 1 0.01
56 6 0.05
57 53 0.48
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:9907987 original size:17 final size:17
Alignment explanation
Indices: 9907962--9908061 Score: 103
Period size: 17 Copynumber: 5.5 Consensus size: 17
9907952 TTTAAACAAA
9907962 TTTATGTAAGTAATGTAT
1 TTTA-GTAAGTAATGTAT
9907980 TTTAGTAAGTAATGTAT
1 TTTAGTAAGTAATGTAT
*
9907997 TTTAGTAA-TAAATTTAAACAAAT
1 TTTAGTAAGT-AATGT------AT
*
9908020 TTTAGTAAGTAATTTAT
1 TTTAGTAAGTAATGTAT
9908037 TTTAGTAAGTAATGTAT
1 TTTAGTAAGTAATGTAT
9908054 TTTAGTAA
1 TTTAGTAA
9908062 TAAATTTAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
16 1 0.01
17 51 0.71
18 4 0.06
23 15 0.21
24 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (17 bp):
TTTAGTAAGTAATGTAT
Found at i:9908031 original size:124 final size:121
Alignment explanation
Indices: 9907738--9908070 Score: 357
Period size: 124 Copynumber: 2.8 Consensus size: 121
9907728 GTAATAAATT
* * ** *
9907738 TAAGTAACATATTTAAGTAATAAATTTAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTA
1 TAAGTAA-TTATTTTAGTAATAAATTTAAACAA-ATTTTTAAGTAATAAATTTAAACAAATTTTA
*
9907803 GTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAG
64 GTAAGTAATGTATTTTAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAG
* * * * ** *
9907861 TAATTAATAAATTTA--AACAAATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATT
1 TAAGTAATTATTTTAGTAATAAA-TTTA--AACAAAT-T-TTTAAGTAATAAATTTAAACAAATT
*
9907924 TTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAG
61 TTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTAAG
9907985 TAAGTAATGTATTTTAGTAATAAATTTAAACAAA-TTTT-AGTAAGT-AATTT------ATTTTA
1 TAAGTAAT-TATTTTAGTAATAAATTTAAACAAATTTTTAAGTAA-TAAATTTAAACAAATTTTA
*
9908041 GTAAGTAATGTATTTTAGTAATAAATTTAA
64 GTAAGTAATGTATTTTAGAAATAAATTTAA
9908071 CATTCAATCG
Statistics
Matches: 180, Mismatches: 20, Indels: 29
0.79 0.09 0.13
Matches are distributed among these distances:
114 35 0.19
120 15 0.08
121 8 0.04
122 7 0.04
123 12 0.07
124 89 0.49
125 5 0.03
126 4 0.02
127 5 0.03
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (121 bp):
TAAGTAATTATTTTAGTAATAAATTTAAACAAATTTTTAAGTAATAAATTTAAACAAATTTTAGT
AAGTAATGTATTTTAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAG
Found at i:9911413 original size:84 final size:83
Alignment explanation
Indices: 9911306--9911506 Score: 321
Period size: 84 Copynumber: 2.4 Consensus size: 83
9911296 ATTAACACCG
9911306 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTT-G-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
*
9911371 TCGTGGTCTGGAATTGCATT
64 TCATGGTCTGGAATTGCATT
*
9911391 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTT-GAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
9911456 CATGGTCTGGAATTGCATT
65 CATGGTCTGGAATTGCATT
* * *
9911475 ATTTGTGGCATTTTCTTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTT-TGAAAAACGCCACTAAA
9911507 AGTTTAACTA
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
84 92 0.84
85 17 0.16
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (83 bp):
TTTTGTGGCGTTTTTGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTTC
ATGGTCTGGAATTGCATT
Found at i:9911908 original size:12 final size:12
Alignment explanation
Indices: 9911891--9911916 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9911881 TTAAAATAGC
9911891 ACGACCTCTTTT
1 ACGACCTCTTTT
9911903 ACGACCTCTTTT
1 ACGACCTCTTTT
9911915 AC
1 AC
9911917 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
ACGACCTCTTTT
Found at i:9912772 original size:112 final size:112
Alignment explanation
Indices: 9912529--9913231 Score: 1210
Period size: 112 Copynumber: 6.3 Consensus size: 112
9912519 AACACCTAGA
* *
9912529 TTAGCGGCGCTTTACAAAAAACGCCACTAA-TGCCCCCCCAAAGGACACAAAACGGCACCGTCTG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTG
* * * * * ** *
9912593 GGAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
65 GGTGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCT
9912642 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
*
9912707 GTGTATTATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
9912754 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
9912819 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
9912866 TTAGCGGCGCTTTGCAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
* *
9912931 GTGTATTATTTGCGGCGTTATTTATAAACGCCGCTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
9912978 TTAGCGGCGCTTTACAATAAATGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
*
9913043 GTGTATTGTTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
9913090 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
9913155 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
* **
9913202 TTAGCGGCGCTTTTCCTTAAACGCCACTAA
1 TTAGCGGCGCTTTACAATAAACGCCACTAA
9913232 TGCTCACTCT
Statistics
Matches: 566, Mismatches: 23, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
112 489 0.86
113 76 0.13
114 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
Found at i:9913224 original size:40 final size:40
Alignment explanation
Indices: 9913179--9913295 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
9913169 GCGTTATCTA
**
9913179 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
9913219 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
* * *
9913259 TAAACGCCGCTATTGCTCACTCTTTACCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
9913296 GCTCCAAACG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
Found at i:9913510 original size:52 final size:52
Alignment explanation
Indices: 9913428--9913558 Score: 176
Period size: 52 Copynumber: 2.5 Consensus size: 52
9913418 GACGAAAAAT
* *
9913428 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGACATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGA-CATAGCTGGGCTATGACATCGGTACA
* * *
9913480 ATGTGATAATGTGACTCCGTATAAGACATAGCTGGGTTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACATAGCTGGGCTATGACATCGGTACA
*
9913532 ATGTGATAATGTGATTCCGTATAAGAC
1 ATGTGATAATGTGACTCCGTATAAGAC
9913559 CATGTCTGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
51 4 0.06
52 58 0.82
53 9 0.13
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (52 bp):
ATGTGATAATGTGACTCCGTATAAGACATAGCTGGGCTATGACATCGGTACA
Found at i:9917057 original size:16 final size:17
Alignment explanation
Indices: 9917026--9917058 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9917016 TCTAAAGTAG
9917026 TTTGAATATCAAAATATA
1 TTTGAATA-CAAAATATA
9917044 TTTGAATA-AAAATAT
1 TTTGAATACAAAATAT
9917059 CAGTTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTGAATACAAAATATA
Found at i:9927582 original size:21 final size:21
Alignment explanation
Indices: 9927557--9927597 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9927547 ATATCCATAA
*
9927557 CCAGGATAACTTGGCATGTAG
1 CCAGGATAACCTGGCATGTAG
*
9927578 CCAGGGTAACCTGGCATGTA
1 CCAGGATAACCTGGCATGTA
9927598 TCCATATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (21 bp):
CCAGGATAACCTGGCATGTAG
Found at i:9929121 original size:4 final size:4
Alignment explanation
Indices: 9929112--9929155 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
9929102 AATGCTGATG
9929112 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9929156 TGCATAGATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:9930311 original size:19 final size:18
Alignment explanation
Indices: 9930241--9930356 Score: 70
Period size: 21 Copynumber: 5.8 Consensus size: 18
9930231 ATTCTAGAAA
*
9930241 ATTTTTAATTTTTTAACT
1 ATTTTTAATTTTTTAAAT
*
9930259 TTCTTTATATATTTTTTAGAAT
1 AT-TTT-TA-ATTTTTTA-AAT
9930281 ATTTTTGAAATTTTTATAAAT
1 ATTTTT--AATTTTT-TAAAT
**
9930302 ATTTTTAATTTTAAAAAAT
1 ATTTTTAATTTT-TTAAAT
* *
9930321 AATTTGAATTTTTTAAAATT
1 ATTTTTAATTTTTT-AAA-T
9930341 ATTTTATATATTTTTT
1 ATTTT-TA-ATTTTTT
9930357 GTTGATAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
18 1 0.01
19 26 0.35
20 8 0.11
21 27 0.36
22 13 0.17
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTTAATTTTTTAAAT
Found at i:9930708 original size:15 final size:16
Alignment explanation
Indices: 9930682--9930713 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9930672 ATTGAAATTT
9930682 TAAAATATAAAAAATA
1 TAAAATATAAAAAATA
9930698 TAAAA-ATAAAAAATA
1 TAAAATATAAAAAATA
9930713 T
1 T
9930714 CAACTTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAATATAAAAAATA
Found at i:9938571 original size:25 final size:24
Alignment explanation
Indices: 9938537--9938694 Score: 176
Period size: 25 Copynumber: 6.5 Consensus size: 24
9938527 GACTTCAGCA
9938537 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGA-TATTAGCACGCCAG
* **
9938562 TGCTTTCTGATTATTAATACGCCAG
1 TGCTCTCTGA-TATTAGCACGCCAG
9938587 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTG-ATATTAGCACGCCAG
* *
9938612 TGCTCTCTGATATATAGCACGTCAA
1 TGCTCTCTGATAT-TAGCACGCCAG
****
9938637 TGCTCTCTG--ATTAGCACATTTG
1 TGCTCTCTGATATTAGCACGCCAG
9938659 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATA-TTAGCACGCCAG
9938684 TGCTCTCTGAT
1 TGCTCTCTGAT
9938695 TAGCACATTT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
22 16 0.14
23 2 0.02
24 5 0.04
25 88 0.79
26 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (24 bp):
TGCTCTCTGATATTAGCACGCCAG
Found at i:9938662 original size:22 final size:22
Alignment explanation
Indices: 9938610--9938736 Score: 87
Period size: 22 Copynumber: 5.5 Consensus size: 22
9938600 TTAGCACGCC
* *
9938610 AGTGCTCTCTGATATATAGCACGTC
1 AGTGCTCTCTG--AT-TAGCACATT
*
9938635 AATGCTCTCTGATTAGCACATT
1 AGTGCTCTCTGATTAGCACATT
* ***
9938657 TGTGCTCTCTGATATTTAGCACGCC
1 AGTGCTCTCTG--A-TTAGCACATT
9938682 AGTGCTCTCTGATTAGCACATT
1 AGTGCTCTCTGATTAGCACATT
* *
9938704 TGTGCTCTTTG-TATAGCAC-TT
1 AGTGCTCTCTGAT-TAGCACATT
9938725 CAGTGCTCTCTG
1 -AGTGCTCTCTG
9938737 TTCATTAGTG
Statistics
Matches: 81, Mismatches: 16, Indels: 13
0.74 0.15 0.12
Matches are distributed among these distances:
21 3 0.04
22 47 0.58
23 3 0.04
24 1 0.01
25 27 0.33
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (22 bp):
AGTGCTCTCTGATTAGCACATT
Found at i:9938665 original size:47 final size:47
Alignment explanation
Indices: 9938611--9938736 Score: 186
Period size: 47 Copynumber: 2.7 Consensus size: 47
9938601 TAGCACGCCA
*
9938611 GTGCTCTCTGATATATAGCACGTCAATGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATATAGCACGTCAGTGCTCTCTGATTAGCACATTT
* *
9938658 GTGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATATAGCACGTCAGTGCTCTCTGATTAGCACATTT
* *
9938705 GTGCTCT-T--TGTATAGCACTTCAGTGCTCTCTG
1 GTGCTCTCTGATATATAGCACGTCAGTGCTCTCTG
9938737 TTCATTAGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
44 20 0.28
46 1 0.01
47 51 0.71
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (47 bp):
GTGCTCTCTGATATATAGCACGTCAGTGCTCTCTGATTAGCACATTT
Found at i:9939831 original size:79 final size:79
Alignment explanation
Indices: 9939736--9939893 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
9939726 TCTGTCCGTG
9939736 AAAAAGAAAGATGATATCGTCGAAGATAAGACAAAGTCTGTATAATTTATTTCGATATGAATGAA
1 AAAAAGAAAGATGATATCGTCGAAGATAAGACAAAGTCTGTATAATTTATTTCGATATGAATGAA
9939801 ATTCTTACTTAATA
66 ATTCTTACTTAATA
9939815 AAAAAGAAAGATGATATCGTCGAAGATAAGACAAAGTCTGTATAATTTATTTCGATATGAATGAA
1 AAAAAGAAAGATGATATCGTCGAAGATAAGACAAAGTCTGTATAATTTATTTCGATATGAATGAA
9939880 ATTCTTACTTAATA
66 ATTCTTACTTAATA
9939894 GTTATCTGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (79 bp):
AAAAAGAAAGATGATATCGTCGAAGATAAGACAAAGTCTGTATAATTTATTTCGATATGAATGAA
ATTCTTACTTAATA
Found at i:9942158 original size:17 final size:17
Alignment explanation
Indices: 9942136--9942170 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9942126 TTAAATTTTC
9942136 TCTTTTCTCCCTTTCTT
1 TCTTTTCTCCCTTTCTT
**
9942153 TCTTTTCTTTCTTTCTT
1 TCTTTTCTCCCTTTCTT
9942170 T
1 T
9942171 TTCTCCCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TCTTTTCTCCCTTTCTT
Found at i:9942162 original size:13 final size:13
Alignment explanation
Indices: 9942146--9942171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9942136 TCTTTTCTCC
9942146 CTTTCTTTCTTTT
1 CTTTCTTTCTTTT
9942159 CTTTCTTTCTTTT
1 CTTTCTTTCTTTT
9942172 TCTCCCCTGC
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTCTTTCTTTT
Found at i:9942208 original size:33 final size:31
Alignment explanation
Indices: 9942139--9942208 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
9942129 AATTTTCTCT
* * * * *
9942139 TTTCTCCCTTTCTTTCTTTTCTTTCTTTCTT
1 TTTCTCCCCTGCTCTCTTTTCTTTCATTCTG
9942170 TTTCTCCCCTGCTCTCTGTTTCGTTTCATTCTG
1 TTTCTCCCCTGCTCTCT-TTTC-TTTCATTCTG
9942203 TTTCTC
1 TTTCTC
9942209 TTCTATCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 14 0.44
32 4 0.12
33 14 0.44
ACGTcount: A:0.01, C:0.31, G:0.06, T:0.61
Consensus pattern (31 bp):
TTTCTCCCCTGCTCTCTTTTCTTTCATTCTG
Found at i:9969504 original size:38 final size:38
Alignment explanation
Indices: 9969452--9969525 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
9969442 TTTACCCCAC
* * *
9969452 ACTTGCTTTTAAAAGAATCTTTTAACATTCTCCAATCG
1 ACTTGCTCTGAAAAGAATCTTATAACATTCTCCAATCG
*
9969490 ACTTGCTCTGAAAAGCATCTTATAACATTCTCCAAT
1 ACTTGCTCTGAAAAGAATCTTATAACATTCTCCAAT
9969526 TGCCAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (38 bp):
ACTTGCTCTGAAAAGAATCTTATAACATTCTCCAATCG
Found at i:9973291 original size:15 final size:15
Alignment explanation
Indices: 9973271--9973301 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9973261 CCTATGCTTT
9973271 GACATATATTTACAG
1 GACATATATTTACAG
9973286 GACATATATTTACAG
1 GACATATATTTACAG
9973301 G
1 G
9973302 CGAGGGAATT
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:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (15 bp):
GACATATATTTACAG
Found at i:9979706 original size:21 final size:21
Alignment explanation
Indices: 9979680--9979720 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9979670 AGACGAGCAA
* *
9979680 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9979701 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9979721 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9991830 original size:16 final size:17
Alignment explanation
Indices: 9991814--9991847 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9991804 TAGTGAAATA
9991814 TTAAAAAATATATATATT
1 TTAAAAAATATATATA-T
9991832 TTAAAAAATATATATA
1 TTAAAAAATATATATA
9991848 ACAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAAATATATATAT
Found at i:9994595 original size:18 final size:18
Alignment explanation
Indices: 9994554--9994596 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9994544 CTAACAATAG
9994554 AGATTAATTTAAAAAATT
1 AGATTAATTTAAAAAATT
* *
9994572 ATATTAA-TTAAAATACTT
1 AGATTAATTTAAAA-AATT
9994590 AGATTAA
1 AGATTAA
9994597 AGTGACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (18 bp):
AGATTAATTTAAAAAATT
Found at i:10001847 original size:2 final size:2
Alignment explanation
Indices: 10001840--10001865 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10001830 TTATGTTTCG
10001840 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
10001866 GATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10011132 original size:21 final size:23
Alignment explanation
Indices: 10011108--10011152 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10011098 TTTTTATTGA
10011108 TTTA-TTCTTGA-CATGAAATTT
1 TTTATTTCTTGATCATGAAATTT
* *
10011129 TTTATTTCTTTATCATGGAATTT
1 TTTATTTCTTGATCATGAAATTT
10011152 T
1 T
10011153 CCTAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 10 0.50
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (23 bp):
TTTATTTCTTGATCATGAAATTT
Found at i:10017604 original size:12 final size:12
Alignment explanation
Indices: 10017584--10017615 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10017574 TAGCCCGTAC
10017584 ATATATATATCT
1 ATATATATATCT
*
10017596 ATATCTATATCT
1 ATATATATATCT
10017608 ATATATAT
1 ATATATAT
10017616 CTTCTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATATATCT
Found at i:10028126 original size:60 final size:60
Alignment explanation
Indices: 10028033--10028154 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
10028023 TAATGTTGGG
* * *
10028033 TAGATGACGACTTCAAGCCTCGCCATATTGTCCTAAGAACTCTCAATGACAACCTCTACA
1 TAGATGACAACTTCAAGCCTCGCCACATTGTCCTAAAAACTCTCAATGACAACCTCTACA
* * * *
10028093 TAGATTACAACTTCAGGGCTCGCCACATTGTCCTAAAAACTCTCAATGACATCCTCTACA
1 TAGATGACAACTTCAAGCCTCGCCACATTGTCCTAAAAACTCTCAATGACAACCTCTACA
10028153 TA
1 TA
10028155 ACATATCATC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (60 bp):
TAGATGACAACTTCAAGCCTCGCCACATTGTCCTAAAAACTCTCAATGACAACCTCTACA
Found at i:10028591 original size:240 final size:243
Alignment explanation
Indices: 10028158--10028609 Score: 703
Period size: 240 Copynumber: 1.9 Consensus size: 243
10028148 CTACATAACA
* *
10028158 TATCATCAGCACTTGGTATTTAGATGTGCTAGGTATGATACAAAACTAAAATTAATAAGTTCTTA
1 TATCATCAACACTTGGTATTTAGATGTGCTAGGTATGACACAAAACTAAAATT-ATAAGTTCTTA
* * *
10028223 GCTCCTTCAAAAGAATGGGGCAACAAAATTCCATATATAATCCAACACTCTTTGATTTTCTAATA
65 GCTCCTTCAAAAGAATAGGGCAACAAAATTCCATACATAATCCAACACTCTTCGATTTTCTAATA
* ** *
10028288 TTTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAATATGTTGTTAGTTCTTATATTTTGAC
130 TTTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAAGATAATGTTAGTTCTTACATTTTGAC
*
10028353 AAAATTTAAGATTTAATTAATCTGAAAATTAAATTTTACTTTTATTATT
195 AAAATTTAAAATTTAATTAATCTGAAAATTAAATTTTACTTTTATTATT
* * *
10028402 TATCATCAACACTTGGTATTTGGATGTGCTAGGTATGACACCAAACT-AAATT-TAAGTTTTTAG
1 TATCATCAACACTTGGTATTTAGATGTGCTAGGTATGACACAAAACTAAAATTATAAGTTCTTAG
**
10028465 CTCCTTCAAAAGCTTAGGGCAACAAAA-TCCATACATAATCCAACACTCTTCGATTTTCTAATAT
66 CTCCTTCAAAAGAATAGGGCAACAAAATTCCATACATAATCCAACACTCTTCGATTTTCTAATAT
* * *
10028529 TTAAATGAAGTTAGAATATAAAATGTAATTTGTTAAAAGATAATGTTATTTTTTACATTTTGACA
131 TTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAAGATAATGTTAGTTCTTACATTTTGACA
*
10028594 TAATTTAAAATTTAAT
196 AAATTTAAAATTTAAT
10028610 CCTTGTACTT
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
240 107 0.57
241 34 0.18
243 5 0.03
244 43 0.23
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (243 bp):
TATCATCAACACTTGGTATTTAGATGTGCTAGGTATGACACAAAACTAAAATTATAAGTTCTTAG
CTCCTTCAAAAGAATAGGGCAACAAAATTCCATACATAATCCAACACTCTTCGATTTTCTAATAT
TTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAAGATAATGTTAGTTCTTACATTTTGACA
AAATTTAAAATTTAATTAATCTGAAAATTAAATTTTACTTTTATTATT
Found at i:10035799 original size:13 final size:13
Alignment explanation
Indices: 10035777--10035807 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10035767 AATATTTGTC
10035777 TTTTTCAAAAACA
1 TTTTTCAAAAACA
*
10035790 TTTTTGAAAAACA
1 TTTTTCAAAAACA
10035803 TTTTT
1 TTTTT
10035808 AAACTATGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (13 bp):
TTTTTCAAAAACA
Found at i:10039235 original size:52 final size:52
Alignment explanation
Indices: 10039159--10039357 Score: 239
Period size: 52 Copynumber: 3.9 Consensus size: 52
10039149 CCATGGCAGC
* *
10039159 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
10039212 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * * *
10039264 ATGTGATATGTGCTACTGTATAAGACCATATCTAGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * *
10039312 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
10039358 TATGTGAAAT
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
46 25 0.20
47 11 0.09
50 2 0.02
52 78 0.62
53 10 0.08
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:10042625 original size:15 final size:15
Alignment explanation
Indices: 10042586--10042665 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
10042576 GTATCTTGGG
*
10042586 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
10042601 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
10042616 TTTCTTTATTTTGGG
1 TTTCTTTATTCTGGA
*
10042631 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
10042646 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
10042660 TTTCTT
1 TTTCTT
10042666 CTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 42 0.79
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:10042646 original size:30 final size:30
Alignment explanation
Indices: 10042577--10042656 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
10042567 CATAGTATCG
* * *
10042577 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* * *
10042607 TAT-TCTGGATTTCTTTATTTTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
10042637 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
10042657 GGTTTTCTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:10042646 original size:45 final size:44
Alignment explanation
Indices: 10042581--10042665 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
10042571 GTATCGTATC
*
10042581 TTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTATT
* * *
10042626 TTGGGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
10042666 CTTATCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 8 0.22
45 28 0.78
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.59
Consensus pattern (44 bp):
TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTATT
Found at i:10045243 original size:52 final size:48
Alignment explanation
Indices: 10045163--10045322 Score: 155
Period size: 46 Copynumber: 3.2 Consensus size: 48
10045153 CATGGCAGCA
* * *
10045163 TGTGAAATGTGATTTCCATATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 TGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
* * * *
10045213 AAATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG
1 ---TGTGATATGTGAT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
* *
10045263 TGTGATATGTGATCCGTATAAGACCATGGCTGGGCTATGGCCTCGGTA-
1 TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGG-AG
10045311 TGTGATATGTGA
1 TGTGATATGTGA
10045323 CTATGTGCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
46 26 0.29
47 12 0.13
48 12 0.13
49 1 0.01
50 2 0.02
51 1 0.01
52 26 0.29
53 10 0.11
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
Found at i:10047886 original size:18 final size:18
Alignment explanation
Indices: 10047859--10047951 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
10047849 TACGATCGTT
*
10047859 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
10047877 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
10047895 TATAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
10047913 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
* *
10047931 TACTGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
10047949 TAC
1 TAC
10047952 AGTAGTTAGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:10049847 original size:21 final size:21
Alignment explanation
Indices: 10049741--10049834 Score: 134
Period size: 21 Copynumber: 4.5 Consensus size: 21
10049731 CCTGATCAGT
** * *
10049741 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
10049762 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
10049783 ATACGACACACGAGGTGCTTG
1 ATACGACACACGAGGTGCCTG
10049804 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
10049825 ATACGACACA
1 ATACGACACA
10049835 TAAAGTGTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:10051317 original size:16 final size:17
Alignment explanation
Indices: 10051282--10051317 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
10051272 CCTAATTCTC
10051282 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
10051298 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
10051313 CCTTC
1 CCTTC
10051318 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:10057195 original size:243 final size:247
Alignment explanation
Indices: 10056838--10057420 Score: 769
Period size: 246 Copynumber: 2.4 Consensus size: 247
10056828 GAGAAATGCC
* * * * *
10056838 TAAATAAAATTAGATTTATGATATAAATGCATAATGGTATTTTAAAGATTATTAAAATCATTATT
1 TAAAT-AAATTAGATTTA-AACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
* * ** *
10056903 ATTATTTTCGATCACTAAAAATAATATACATTTGGCCACGGTAATTAAAATTATC-T-AC-AACA
64 ATTA---TCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCATAACAAAAA
10056965 A-A-ATATATAAGAATATTTTAG-GCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACA
126 ATATATATATAAGAATATTTTAGTGCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACA
* *
10057027 CATATTTTGATCGATAAATTGTTTGAATAAATTCATAATTATATTTTAATTGACCGT
191 CATATTTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
10057084 TAAAATAAATTAGATTTACAACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
1 T-AAATAAATTAGATTTA-AACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
10057149 ATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCTATAACAAAAAAT
64 ATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATC-ATAACAAAAAAT
* * * * *
10057214 ATATATATAAGGATATTTTAGTTAGCCGTTAAAACCGTTATTACTTTCACTCACTAAAATAAACA
128 ATATATATAAGAATATTTTAG-T-GCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACA
*
10057279 CATATTTTGATTGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
191 CATATTTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
* * *
10057336 TAAA-ACA--A-A--T-AAGATAAATGCATAATGACATTTTAACAATGATCATTAAAATCATTAT
1 TAAATAAATTAGATTTAAACATAAATGCATAATGATATTTTAAC---GATCATTAAAATCATTAT
10057394 TATTATCTATCACTAAAAATAATATAT
63 TATTATCTATCACTAAAAATAATATAT
10057421 TTCTACAACA
Statistics
Matches: 302, Mismatches: 22, Indels: 26
0.86 0.06 0.07
Matches are distributed among these distances:
243 69 0.23
245 2 0.01
246 105 0.35
247 9 0.03
248 2 0.01
249 18 0.06
250 2 0.01
251 3 0.01
252 92 0.30
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (247 bp):
TAAATAAATTAGATTTAAACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATTAT
TATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCATAACAAAAAATATA
TATATAAGAATATTTTAGTGCAGTTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACATAT
TTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
Found at i:10061189 original size:21 final size:20
Alignment explanation
Indices: 10061157--10061196 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
10061147 ACCCTAAACT
10061157 TAAATACTAAACCTCAAACCC
1 TAAATACTAAACCT-AAACCC
10061178 TAAATCAC-AAACCTAAACC
1 TAAAT-ACTAAACCTAAACC
10061197 TGAAGCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 11 0.61
22 2 0.11
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAATACTAAACCTAAACCC
Found at i:10084816 original size:107 final size:106
Alignment explanation
Indices: 10084676--10084900 Score: 387
Period size: 107 Copynumber: 2.1 Consensus size: 106
10084666 AATTTTTAAA
* * *
10084676 TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATTTATATTTATCATAAAAAATA
1 TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTAGCATAAAAAACA
10084741 ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
66 ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
* *
10084782 TAAATAATAAATTAAAAGTTGAATTTAAATAGATGATATATTTATCTATATTTAGCATAAAAAAC
1 TAAATAATAAATT-AAAGGTGAATTTAAATAGATGATACATTTATCTATATTTAGCATAAAAAAC
10084847 AATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
65 AATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
*
10084889 TAAATAAAAAAT
1 TAAATAATAAAT
10084901 AAGATAAATA
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
106 13 0.12
107 99 0.88
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (106 bp):
TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTAGCATAAAAAACA
ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
Found at i:10106916 original size:41 final size:39
Alignment explanation
Indices: 10106869--10106987 Score: 116
Period size: 41 Copynumber: 3.0 Consensus size: 39
10106859 TTCGACTTCG
*
10106869 AGTCGATGAGACACTGAGTGTCAATTTACTACTTCGGATTA
1 AGTCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTA
* ** * *
10106910 ATTCGATGAGGTATTGGGTGTCAATT-TACTTCGG-TTT
1 AGTCGATGAGACACTGGGTGTCAATTATACTTCGGATTA
* *
10106947 AGCCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 AGTCGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTA
10106988 TCCGATAAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
37 19 0.31
38 12 0.20
40 9 0.15
41 21 0.34
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTATACTTCGGATTA
Found at i:10106965 original size:37 final size:40
Alignment explanation
Indices: 10106872--10106987 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 40
10106862 GACTTCGAGT
* **
10106872 CGATGAGACACTGAGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAAGC
** * *
10106913 CGATGAGGTATTGGGTGTCAA-TT-TACTTCGG-TTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGC
* *
10106950 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTA
10106988 TCCGATAAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
37 21 0.36
38 10 0.17
40 9 0.15
41 19 0.32
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGC
Found at i:10107005 original size:40 final size:38
Alignment explanation
Indices: 10106922--10107011 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 38
10106912 TCGATGAGGT
** *
10106922 ATTGGGTGTC-AATTTACTTCGGTTTAGCCGATGAGAC
1 ATTGGGTGTCAAATTTACTTCGAATTAGCCGATAAGAC
* *
10106959 ACTGGGTGTCAAATTATTACTTCGAATTATCCGATAAGAC
1 ATTGGGTGTCAAA-T-TTACTTCGAATTAGCCGATAAGAC
* *
10106999 GTTGGGTGCCAAA
1 ATTGGGTGTCAAA
10107012 CTTGTGTGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
37 9 0.21
38 2 0.05
39 1 0.02
40 30 0.71
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (38 bp):
ATTGGGTGTCAAATTTACTTCGAATTAGCCGATAAGAC
Found at i:10114307 original size:26 final size:26
Alignment explanation
Indices: 10114271--10114380 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10114261 TGATACAAAT
10114271 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
10114297 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10114323 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10114349 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10114375 TGATAA
1 TGATAA
10114381 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:10117609 original size:39 final size:40
Alignment explanation
Indices: 10117525--10117609 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
10117515 AGTTAATTCA
* * *
10117525 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
10117565 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
10117604 TCAGCA
1 CCAGCA
10117610 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:10117727 original size:44 final size:44
Alignment explanation
Indices: 10117677--10117763 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
10117667 TATTGCACAC
10117677 TTTTCACAATTGGTCATTCGGCCTTATCACATATTCACTTACAT
1 TTTTCACAATTGGTCATTCGGCCTTATCACATATTCACTTACAT
10117721 TTTTCACAATTGGTCATTCGGCCTTATCACATATTCACTTACA
1 TTTTCACAATTGGTCATTCGGCCTTATCACATATTCACTTACA
10117764 CATATATCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (44 bp):
TTTTCACAATTGGTCATTCGGCCTTATCACATATTCACTTACAT
Found at i:10117822 original size:47 final size:46
Alignment explanation
Indices: 10117691--10117885 Score: 175
Period size: 47 Copynumber: 4.3 Consensus size: 46
10117681 CACAATTGGT
* * ** * *
10117691 CATTCGGCCTTATCACA-TATTCAC-TT-ACATTTTTCACAATTGGT
1 CATTCGACCTTATCACATTATACACTTTCACATTCATCAC-ATTAGC
* * * *
10117735 CATTCGGCCTTATCACA-TATTCACTTACACATAT-ATCACATTAAC
1 CATTCGACCTTATCACATTATACACTTTCACAT-TCATCACATTAGC
* *
10117780 CATTCGACCTTATCACATGTATGCACTTTCACATTCATCACATTTGC
1 CATTCGACCTTATCACAT-TATACACTTTCACATTCATCACATTAGC
* * *
10117827 CATTCGGCCTTATCACATATACACACTTTCACATTCATCACATTGGC
1 CATTCGACCTTATCACAT-TATACACTTTCACATTCATCACATTAGC
*
10117874 CATTCGATCTTA
1 CATTCGACCTTA
10117886 AGCTAGATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
44 24 0.19
45 20 0.16
46 9 0.07
47 75 0.59
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.36
Consensus pattern (46 bp):
CATTCGACCTTATCACATTATACACTTTCACATTCATCACATTAGC
Found at i:10117877 original size:94 final size:89
Alignment explanation
Indices: 10117680--10117885 Score: 218
Period size: 94 Copynumber: 2.2 Consensus size: 89
10117670 TGCACACTTT
* * * ** *
10117680 TCACAATTGGTCATTCGGCCTTATCACATATTCACTTACATTTTTCACAATTGGTCATTCGGCCT
1 TCAC-ATTGGCCATTCGACCTTATCACATATGCACTTACATTCATCACAATTGGCCATTCGGCCT
*
10117745 TATCACATATTCACTTACACATATA
65 TATCACATATACACTTACACATATA
** *
10117770 TCACATTAACCATTCGACCTTATCACATGTATGCACTTTCACATTCATCAC-ATTTGCCATTCGG
1 TCACATTGGCCATTCGACCTTATCACA--TATGCAC-TT-ACATTCATCACAATTGGCCATTCGG
*
10117834 CCTTATCACATATACACACTTTCACAT-TCA
62 CCTTATCACATAT--ACACTTACACATAT-A
*
10117864 TCACATTGGCCATTCGATCTTA
1 TCACATTGGCCATTCGACCTTA
10117886 AGCTAGATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
89 19 0.20
90 4 0.04
91 6 0.06
92 26 0.27
93 10 0.11
94 30 0.32
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (89 bp):
TCACATTGGCCATTCGACCTTATCACATATGCACTTACATTCATCACAATTGGCCATTCGGCCTT
ATCACATATACACTTACACATATA
Found at i:10120660 original size:39 final size:39
Alignment explanation
Indices: 10120606--10120685 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
10120596 TTTTAACATG
10120606 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
1 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
10120645 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
1 TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
10120684 TT
1 TT
10120686 TTAGGCAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (39 bp):
TTAGACTTACAATTGGTTGAATTAATGAGGTGAGTATTT
Found at i:10130874 original size:4 final size:4
Alignment explanation
Indices: 10130865--10130890 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10130855 TGATAACATC
10130865 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
10130891 GACAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:10132525 original size:149 final size:149
Alignment explanation
Indices: 10132262--10132551 Score: 492
Period size: 149 Copynumber: 1.9 Consensus size: 149
10132252 TTAGTTCCTG
10132262 GGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTCG
1 GGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTCG
* * *
10132327 ATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTTGT
66 ATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGACATTTCGACAATGAAGTTGTGCTTTTGC
*
10132392 TGATAAAACATAGTTTTTC
131 TGACAAAACATAGTTTTTC
10132411 GGAACAACT-AGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTC
1 GGAACAA-TAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTC
* * * *
10132475 GATTCCCGGCTGGTGCATTTGTTAATTCAGTTTTACGACGTTTTGTCAATGAAGTTGTGCTTTTG
65 GATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGACATTTCGACAATGAAGTTGTGCTTTTG
10132540 CTGACAAAACAT
130 CTGACAAAACAT
10132552 TGACAACTAT
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
149 131 0.99
150 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (149 bp):
GGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTCG
ATTCCCGGCTGGTGCATTTGTTAATTCAATTTTACGACATTTCGACAATGAAGTTGTGCTTTTGC
TGACAAAACATAGTTTTTC
Found at i:10133868 original size:2 final size:2
Alignment explanation
Indices: 10133861--10133891 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10133851 GGGCATTGCG
10133861 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
10133892 CATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:10145818 original size:15 final size:15
Alignment explanation
Indices: 10145787--10145817 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10145777 GCACTTCTTC
10145787 TTCTTTTTTCTTTTT
1 TTCTTTTTTCTTTTT
10145802 TTCTTTTTT-TTTTT
1 TTCTTTTTTCTTTTT
10145816 TT
1 TT
10145818 TTGTTGCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTCTTTTTTCTTTTT
Found at i:10145819 original size:8 final size:8
Alignment explanation
Indices: 10145790--10145818 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10145780 CTTCTTCTTC
10145790 TTTTTTCT
1 TTTTTTCT
10145798 TTTTTTCT
1 TTTTTTCT
10145806 TTTTTT-T
1 TTTTTTCT
10145813 TTTTTT
1 TTTTTT
10145819 TGTTGCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTCT
Found at i:10153430 original size:12 final size:12
Alignment explanation
Indices: 10153413--10153442 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10153403 TCTACTCATC
10153413 AGTGACTCCCTT
1 AGTGACTCCCTT
10153425 AGTGACTCCCTT
1 AGTGACTCCCTT
*
10153437 TGTGAC
1 AGTGAC
10153443 CATGGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (12 bp):
AGTGACTCCCTT
Found at i:10156122 original size:27 final size:26
Alignment explanation
Indices: 10156092--10156145 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
10156082 TCACGCAAGA
* *
10156092 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAAGAAAGAA-AATAAAAAAATC
*
10156119 AGAAAAAGAAAGAAACTAAAAAAATC
1 AGAAAAAGAAAGAAAATAAAAAAATC
10156145 A
1 A
10156146 CCTTTAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.70, C:0.07, G:0.11, T:0.11
Consensus pattern (26 bp):
AGAAAAAGAAAGAAAATAAAAAAATC
Found at i:10158737 original size:5 final size:5
Alignment explanation
Indices: 10158711--10158768 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
10158701 ATGTGTTAAA
* *
10158711 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATTAT ATATT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATA-T-T ATATT ATATT
10158760 ATATT ATAT
1 ATATT ATAT
10158769 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 32 0.71
6 9 0.20
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:10158747 original size:10 final size:9
Alignment explanation
Indices: 10158712--10158769 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
10158702 TGTGTTAAAA
10158712 TATATATAT
1 TATATATAT
*
10158721 TAAAT-TAT
1 TATATATAT
10158729 TAT-TATAT
1 TATATATAT
10158737 TATAGTATA-
1 TATA-TATAT
10158746 T-TATATAT
1 TATATATAT
10158754 TATATTATAT
1 TATA-TATAT
10158764 TATATA
1 TATATA
10158770 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:10158754 original size:17 final size:17
Alignment explanation
Indices: 10158714--10158769 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
10158704 TGTTAAAATA
10158714 TATATATTA-AAT-TAT
1 TATATATTATAATATAT
*
10158729 TATTATATTATAGTATAT
1 TA-TATATTATAATATAT
*
10158747 TATATATTATATTATAT
1 TATATATTATAATATAT
10158764 TATATA
1 TATATA
10158770 AATAAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
15 2 0.06
16 7 0.19
17 22 0.61
18 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATATTATAATATAT
Found at i:10160107 original size:18 final size:19
Alignment explanation
Indices: 10160084--10160122 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10160074 ATATATAGAT
10160084 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
10160102 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
10160121 AT
1 AT
10160123 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:10160472 original size:39 final size:39
Alignment explanation
Indices: 10160362--10160496 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
10160352 GACCTCGAGT
* * * *
10160362 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
* ** ** * *
10160403 CGGTGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
10160441 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
10160480 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
10160497 CCATATTGGT
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
38 17 0.24
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:10160640 original size:18 final size:19
Alignment explanation
Indices: 10160619--10160659 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10160609 AATGAAATGA
10160619 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
10160637 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
10160656 GAAA
1 GAAA
10160660 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:10164354 original size:38 final size:39
Alignment explanation
Indices: 10164280--10164359 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
10164270 GTGAATGATA
10164280 TCAAAAGAAATATTACAATCATTGAATAGAAGAATTAAC
1 TCAAAAGAAATATTACAATCATTGAATAGAAGAATTAAC
* * * *
10164319 TCAAAA-AATTATTACATTCACTT-AATTGAATAATTAAC
1 TCAAAAGAAATATTACAATCA-TTGAATAGAAGAATTAAC
10164357 TCA
1 TCA
10164360 CTCACAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 28 0.78
39 8 0.22
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (39 bp):
TCAAAAGAAATATTACAATCATTGAATAGAAGAATTAAC
Found at i:10165084 original size:114 final size:114
Alignment explanation
Indices: 10164886--10165311 Score: 466
Period size: 114 Copynumber: 3.7 Consensus size: 114
10164876 GTTTACTACC
** * * * * *
10164886 AAGCGCCGCAAAAGCTCTTATCCAAAACGCAGCGCTTTGGTCTTGATGTATAGTAGCCTTAGTGG
1 AAGCGCCGC-AAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* *
10164951 CGCTTATATTCAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAA
65 CGCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
10165001 AAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* * * ** * *
10165065 CGCTTAT-TTAAAAACGCCGCTAACGCATAGTAGTAGCGGCGCTTATTGTA
65 CGCTTATATT-AAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * * * * * * *
10165115 AAGCGTCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
* ** * *
10165179 ACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAA
66 GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
10165228 AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
*
10165292 CGCTTAT-TGGAAAACGCCGC
65 CGCTTATAT-TAAAACGCCGC
10165312 AAAATATTAA
Statistics
Matches: 252, Mismatches: 52, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
112 17 0.07
113 74 0.29
114 117 0.46
115 44 0.17
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
Found at i:10165419 original size:188 final size:188
Alignment explanation
Indices: 10165102--10165504 Score: 689
Period size: 188 Copynumber: 2.1 Consensus size: 188
10165092 TAGTAGTAGC
* * *
10165102 GGCGCTTATTGTAAAGCGTCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
10165167 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
* * *
10165232 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
10165290 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
* * * *
10165355 AGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
*
10165420 GCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
* *
10165478 GGCGCTTATTTGAAAACGCCGCTAAAT
1 GGCGCTTATTGGAAAACGCCGCAAAAT
10165505 CATAGTATTA
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 202 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
Found at i:10165627 original size:113 final size:112
Alignment explanation
Indices: 10165284--10165634 Score: 406
Period size: 113 Copynumber: 3.1 Consensus size: 112
10165274 GTATATTAGG
* *
10165284 ATTAGTGGCGCTTATTGGAAAA-CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCTTATT-GAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGAT
* * *
10165348 GTATACTAGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGA-ATAGT
65 GTATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAA-ACATAGT
** * * *
10165397 ATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATTTC-TTAACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAA-A--ACATTAACCAAAACGCAGCGCTTTGGTCTTG
* * * * *
10165460 AGGTACATTACGA-TTAGTGGCGCTTATTTGAAAACGCCGCTAAATCATAGT
63 ATGTATACTACCAGTT-GTGGCGCTTATTT-AAAACGCCGCTAAAACATAGT
* *
10165511 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCGTTGGTCTTGATG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * *
10165576 TATACTACCAGTTGTGGCGCTTATGGTAAAACGCCGGTAAAACATATT
66 TATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAACATAGT
10165624 ATTAGCGGCGC
1 ATTAGCGGCGC
10165635 GTTGTGGGAA
Statistics
Matches: 197, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 21 0.11
113 82 0.42
114 77 0.39
115 16 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (112 bp):
ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTACCAGTTGTGGCGCTTATTTAAAACGCCGCTAAAACATAGT
Found at i:10165687 original size:17 final size:17
Alignment explanation
Indices: 10165656--10165705 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
10165646 CGCCGCTAGA
*
10165656 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGG
10165672 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
10165689 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
10165706 AAATAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATTATATAATGTAGG
Found at i:10165757 original size:7 final size:7
Alignment explanation
Indices: 10165745--10165821 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
10165735 TTTGAATTCT
10165745 GGTTTAG
1 GGTTTAG
10165752 GGTTTAG
1 GGTTTAG
*
10165759 AGTTTAG
1 GGTTTAG
*
10165766 GGTTTAA
1 GGTTTAG
*
10165773 GGTTTAC
1 GGTTTAG
* *
10165780 GATGTA-
1 GGTTTAG
10165786 GGTTTAG
1 GGTTTAG
* **
10165793 TGTTTTT
1 GGTTTAG
10165800 GGTTTAG
1 GGTTTAG
10165807 GGTTTGAG
1 GGTTT-AG
*
10165815 AGTTTAG
1 GGTTTAG
10165822 TGATTAAGGT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:10167783 original size:11 final size:11
Alignment explanation
Indices: 10167746--10167785 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
10167736 GAATATCTCA
10167746 AACT-ATGGGT
1 AACTAATGGGT
*
10167756 AACTAGTGGGT
1 AACTAATGGGT
10167767 AACTAATGGGT
1 AACTAATGGGT
10167778 AACTAATG
1 AACTAATG
10167786 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:10169150 original size:17 final size:17
Alignment explanation
Indices: 10169128--10169426 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
10169118 GTTAAATTTA
10169128 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
10169145 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
10169162 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
10169185 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
10169202 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
10169219 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
10169242 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
10169259 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
10169282 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
10169299 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
10169316 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
10169329 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
10169343 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
10169360 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
10169383 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
10169400 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
10169417 TTACTAAAAT
1 TTACTAAAAT
10169427 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:10169201 original size:40 final size:40
Alignment explanation
Indices: 10169145--10169308 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
10169135 AATACATTAC
*
10169145 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
10169185 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
10169238 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
10169282 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
10169309 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:10169207 original size:57 final size:57
Alignment explanation
Indices: 10169119--10169268 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
10169109 CGATTGAATG
10169119 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
10169176 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
10169233 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
10169269 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:10169264 original size:97 final size:97
Alignment explanation
Indices: 10169148--10169459 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
10169138 ACATTACTTA
*
10169148 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
10169213 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
10169245 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
10169310 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
10169345 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
10169410 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
10169443 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
10169460 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:10169306 original size:57 final size:60
Alignment explanation
Indices: 10169245--10169369 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
10169235 AAATTTATTT
10169245 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
10169302 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
10169363 CTAAAAT
1 CTAAAAT
10169370 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:10169377 original size:101 final size:100
Alignment explanation
Indices: 10169140--10169442 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
10169130 ACTAAAATAC
*
10169140 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
10169205 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
10169241 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
10169303 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
10169338 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
10169403 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
10169439 ATTA
1 ATTA
10169443 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:10169386 original size:40 final size:43
Alignment explanation
Indices: 10169294--10169409 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
10169284 ACTAAAATAC
*
10169294 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
10169338 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
10169380 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
10169410 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:10169413 original size:57 final size:57
Alignment explanation
Indices: 10169338--10169459 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
10169328 GTTTAAATTT
* *
10169338 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
10169395 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
10169452 GTTACTTA
1 ATTACTTA
10169460 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:10169449 original size:13 final size:13
Alignment explanation
Indices: 10169431--10169501 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
10169421 TAAAATTTGT
10169431 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
10169444 TTAAATATGTTAC
1 TTAAATTTATTAC
10169457 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
10169470 TTAAATATGTTAC
1 TTAAATTTATTAC
10169483 TTAAATTTATTAC
1 TTAAATTTATTAC
10169496 TTAAAT
1 TTAAAT
10169502 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:10169467 original size:26 final size:26
Alignment explanation
Indices: 10169431--10169502 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
10169421 TAAAATTTGT
10169431 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
10169457 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
10169483 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
10169503 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:10169731 original size:73 final size:73
Alignment explanation
Indices: 10169648--10169797 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
10169638 TAAAATAAAA
10169648 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
10169713 TTAATAAT
66 TTAATAAT
10169721 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
10169786 TTAATAAT
66 TTAATAAT
10169794 TATA
1 TATA
10169798 TTAGTAATGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:10169764 original size:38 final size:38
Alignment explanation
Indices: 10169649--10169765 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
10169639 AAAATAAAAT
10169649 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
10169687 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
10169722 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
10169760 ATAAAA
1 ATAAAA
10169766 TGTTATTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 13 0.22
35 12 0.21
36 1 0.02
37 1 0.02
38 18 0.31
39 13 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:10169862 original size:19 final size:19
Alignment explanation
Indices: 10169838--10170064 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
10169828 TATTAAATAA
10169838 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
10169857 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
10169875 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
10169891 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
10169910 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
10169935 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* *
10169953 GACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* *
10169971 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
10169985 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
10170004 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
10170023 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
10170037 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
10170056 TACATAATA
1 TACATAATA
10170065 CATAATAACT
Statistics
Matches: 161, Mismatches: 19, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 10 0.06
16 14 0.09
17 11 0.07
18 43 0.27
19 52 0.32
21 1 0.01
22 6 0.04
23 1 0.01
25 15 0.09
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:10169876 original size:18 final size:18
Alignment explanation
Indices: 10169853--10169974 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
10169843 AATAACTTAC
10169853 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
10169871 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
10169889 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
10169906 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
10169929 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
* *
10169949 GACTGACATAATACATTT
1 AACTTACATAATACATTT
10169967 AACTTACA
1 AACTTACA
10169975 ACTTACACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 33 0.41
19 11 0.14
20 7 0.09
21 1 0.01
23 1 0.01
24 1 0.01
25 15 0.19
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:10169917 original size:26 final size:26
Alignment explanation
Indices: 10169834--10170239 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
10169824 ATTTTATTAA
10169834 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
10169860 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
10169887 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
10169913 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
10169938 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
10169956 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
10169981 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
10170007 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
10170033 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
10170059 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
10170085 ATAATACAT-TTAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
10170110 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
10170136 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
10170162 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
10170187 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
10170212 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
10170238 AT
1 AT
10170240 TTAACTTACA
Statistics
Matches: 343, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
20 3 0.01
23 3 0.01
25 113 0.33
26 188 0.55
27 15 0.04
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:10170085 original size:19 final size:19
Alignment explanation
Indices: 10170011--10170141 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
10170001 ACTTACATAA
10170011 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
10170030 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
10170049 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
10170063 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
10170082 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
10170100 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
10170114 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
10170133 TACATAATA
1 TACATAATA
10170142 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:10170115 original size:77 final size:76
Alignment explanation
Indices: 10169958--10170239 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
10169948 TGACTGACAT
* * *
10169958 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
10170023 TACAACTTACAC
65 TACAACTTACAC
10170035 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
10170100 TGCAACTTACAC
65 TACAACTTACAC
10170112 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
10170177 TACAACTTACAC
65 TACAACTTACAC
*
10170189 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
10170240 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:10170247 original size:11 final size:10
Alignment explanation
Indices: 10170231--10170284 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
10170221 AATAACTTAC
10170231 AACTTACATTT
1 AACTTACA-TT
10170242 AACTTACA-T
1 AACTTACATT
10170251 AA--TACATTT
1 AACTTACA-TT
10170260 AACTTACA-T
1 AACTTACATT
10170269 AACTTACA-T
1 AACTTACATT
10170278 AACTTAC
1 AACTTAC
10170285 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:10170268 original size:18 final size:18
Alignment explanation
Indices: 10170205--10170270 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
10170195 TTTAACTTAC
*
10170205 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
10170224 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
10170242 AACTTACATAATACATTT
1 AACTTACATAATACATTT
10170260 AACTTACATAA
1 AACTTACATAA
10170271 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:10170280 original size:18 final size:18
Alignment explanation
Indices: 10170120--10170284 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
10170110 ACAATACATA
10170120 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
10170136 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
10170155 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
10170169 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
10170187 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
10170205 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
10170222 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
10170238 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
10170256 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
10170276 ATAACTTAC
1 ATAACTTAC
10170285 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Done.