Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 108 of 132
Found at i:32784208 original size:15 final size:14
Alignment explanation
Indices: 32784183--32784223 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
32784173 ATGTGAAGAA
32784183 TATTATTTAAAATTAT
1 TATT-TTTAAAATT-T
32784199 TATTTTTAAAA-TT
1 TATTTTTAAAATTT
32784212 TATTTTTAAAAT
1 TATTTTTAAAAT
32784224 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 7 0.29
16 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTTAAAATTT
Found at i:32784279 original size:16 final size:16
Alignment explanation
Indices: 32784233--32784282 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
32784223 TAAAATTGAA
32784233 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
32784250 A-A--AATAATAAATT
1 ATATTAATAATTTATT
32784263 ATATTAATAATTTATT
1 ATATTAATAATTTATT
32784279 ATAT
1 ATAT
32784283 GATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:32784299 original size:26 final size:26
Alignment explanation
Indices: 32784231--32784300 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
32784221 AATAAAATTG
32784231 AAATATTAAATAATTTATTAAAATAAT
1 AAATA-TAAATAATTTATTAAAATAAT
* *
32784258 AAATTATATTAATAATTTATT-ATATGATT
1 AAA-TATA--AATAATTTATTAAAAT-AAT
32784287 AAATATAAATAATT
1 AAATATAAATAATT
32784301 AAATATGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 9 0.24
29 16 0.43
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
AAATATAAATAATTTATTAAAATAAT
Found at i:32790650 original size:25 final size:25
Alignment explanation
Indices: 32790590--32790643 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
32790580 CGAAGTACTT
* * *
32790590 AACAGAAGCTCATAAGTGCTGGGGA
1 AACAGAAGCACGTAAGTACTGGGGA
32790615 AACAGAAGCACGTAAGTACT-GGGA
1 AACAGAAGCACGTAAGTACTGGGGA
32790639 AACAG
1 AACAG
32790644 TAGGCACACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.41, C:0.17, G:0.30, T:0.13
Consensus pattern (25 bp):
AACAGAAGCACGTAAGTACTGGGGA
Found at i:32790673 original size:22 final size:22
Alignment explanation
Indices: 32790638--32790711 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
32790628 AAGTACTGGG
*
32790638 AAACAGTAGGCACACACAGTGCT
1 AAACAG-AAGCACACACAGTGCT
*
32790661 GAACAGAAGCACACACAGTGCT
1 AAACAGAAGCACACACAGTGCT
* *
32790683 TAACAGAAGCACACATAGTGCT
1 AAACAGAAGCACACACAGTGCT
32790705 AAACAGA
1 AAACAGA
32790712 GAGCGCGCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 41 0.89
23 5 0.11
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.12
Consensus pattern (22 bp):
AAACAGAAGCACACACAGTGCT
Found at i:32803125 original size:27 final size:27
Alignment explanation
Indices: 32803075--32803126 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
32803065 TAATATAAAA
*
32803075 ATAATAATAATAATAAAATTAAATATT
1 ATAATAATAATAATAAAATAAAATATT
*
32803102 ATAATAATATTAGATAAAA-AAAATA
1 ATAATAATAATA-ATAAAATAAAATA
32803127 AATTAAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAATAATAATAATAAAATAAAATATT
Found at i:32812006 original size:2 final size:2
Alignment explanation
Indices: 32811999--32812031 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32811989 TCTTTAATTG
32811999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32812032 AATGAGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32813369 original size:15 final size:15
Alignment explanation
Indices: 32813351--32813404 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
32813341 AAAATAATAA
32813351 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
32813366 AATTTATAATTTATAA-
1 AATTTA-AATTTA-AAT
32813382 AATTTTAAA-TT-AAT
1 AA-TTTAAATTTAAAT
32813396 AATATTAAA
1 AAT-TTAAA
32813405 ATTATACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.09
14 7 0.21
15 8 0.24
16 10 0.29
17 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTAAATTTAAAT
Found at i:32813408 original size:15 final size:16
Alignment explanation
Indices: 32813339--32813408 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 16
32813329 ATGACTTCTC
32813339 TTAAAA-TAATAAAAT
1 TTAAAATTAATAAAAT
* *
32813354 TTAAATTTAA-ATAAT
1 TTAAAATTAATAAAAT
* *
32813369 TTATAATTTATAAAAT
1 TTAAAATTAATAAAAT
* *
32813385 TTTAAATTAATAATA-
1 TTAAAATTAATAAAAT
32813400 TTAAAATTA
1 TTAAAATTA
32813409 TACTTTTAAC
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
15 24 0.57
16 18 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATTAATAAAAT
Found at i:32817239 original size:3 final size:3
Alignment explanation
Indices: 32817233--32817265 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
32817223 TATTATTTAC
*
32817233 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32817266 TAAGTTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:32817240 original size:12 final size:12
Alignment explanation
Indices: 32817223--32817265 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
32817213 TTTCTTTTAG
32817223 TATTATT-TACAT
1 TATTATTAT-CAT
*
32817235 TATTATTATTAT
1 TATTATTATCAT
32817247 TATTATTATCAT
1 TATTATTATCAT
32817259 TATTATT
1 TATTATT
32817266 TAAGTTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 27 0.96
13 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:32817273 original size:12 final size:12
Alignment explanation
Indices: 32817223--32817274 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
32817213 TTTCTTTTAG
32817223 TATTATT-TACAT
1 TATTATTATA-AT
*
32817235 TATTATTATTAT
1 TATTATTATAAT
*
32817247 TATTATTATCAT
1 TATTATTATAAT
32817259 TATTATT-TAAGT
1 TATTATTATAA-T
32817271 TATT
1 TATT
32817275 GATTGAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 2 0.06
12 32 0.91
13 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (12 bp):
TATTATTATAAT
Found at i:32819400 original size:20 final size:19
Alignment explanation
Indices: 32819368--32819407 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
32819358 ATTTTCCATA
* *
32819368 AATTTATTTTTAATTAAAT
1 AATTTATTCTTAAATAAAT
32819387 AATTTAATTCTTAAATAAAT
1 AATTT-ATTCTTAAATAAAT
32819407 A
1 A
32819408 GTTTCAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTATTCTTAAATAAAT
Found at i:32827569 original size:25 final size:25
Alignment explanation
Indices: 32827554--32827606 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
32827544 AATAGCATAT
32827554 ATCTTTAAAATTTTTAAAGAATTAA
1 ATCTTTAAAATTTTTAAAGAATTAA
32827579 ATCTTTAAAATTTTTAAAGAATTAA
1 ATCTTTAAAATTTTTAAAGAATTAA
32827604 ATC
1 ATC
32827607 AAATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (25 bp):
ATCTTTAAAATTTTTAAAGAATTAA
Found at i:32830970 original size:20 final size:21
Alignment explanation
Indices: 32830932--32830983 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
32830922 CTTTTTAAGT
*
32830932 CAATTTTTTATTTGGAAAAAA
1 CAATTTTTTATTTGCAAAAAA
* *
32830953 CAATTTTTTCTTT-CAAAAAG
1 CAATTTTTTATTTGCAAAAAA
32830973 CAATTTATTTA
1 CAATTT-TTTA
32830984 AGAATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (21 bp):
CAATTTTTTATTTGCAAAAAA
Found at i:32832092 original size:17 final size:16
Alignment explanation
Indices: 32832047--32832095 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
32832037 AGGATGAGAA
* *
32832047 TAAATTTTTAATTAAA
1 TAAAATTTTAATTAAT
32832063 T-AAA-TTTAATTAAT
1 TAAAATTTTAATTAAT
32832077 TAAAATTTTAAATTAAT
1 TAAAATTTT-AATTAAT
32832094 TA
1 TA
32832096 TGGCACTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.36
15 5 0.18
16 4 0.14
17 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAATTTTAATTAAT
Found at i:32832171 original size:103 final size:103
Alignment explanation
Indices: 32831992--32832198 Score: 414
Period size: 103 Copynumber: 2.0 Consensus size: 103
32831982 GCAATCCTAC
32831992 ATGGCACTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAACTAGGATGAGAATAAATTTTTA
1 ATGGCACTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAACTAGGATGAGAATAAATTTTTA
32832057 ATTAAATAAATTTAATTAATTAAAATTTTAAATTAATT
66 ATTAAATAAATTTAATTAATTAAAATTTTAAATTAATT
32832095 ATGGCACTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAACTAGGATGAGAATAAATTTTTA
1 ATGGCACTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAACTAGGATGAGAATAAATTTTTA
32832160 ATTAAATAAATTTAATTAATTAAAATTTTAAATTAATT
66 ATTAAATAAATTTAATTAATTAAAATTTTAAATTAATT
32832198 A
1 A
32832199 CAACTGAAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (103 bp):
ATGGCACTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAACTAGGATGAGAATAAATTTTTA
ATTAAATAAATTTAATTAATTAAAATTTTAAATTAATT
Found at i:32832195 original size:17 final size:16
Alignment explanation
Indices: 32832150--32832198 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
32832140 AGGATGAGAA
* *
32832150 TAAATTTTTAATTAAA
1 TAAAATTTTAATTAAT
32832166 T-AAA-TTTAATTAAT
1 TAAAATTTTAATTAAT
32832180 TAAAATTTTAAATTAAT
1 TAAAATTTT-AATTAAT
32832197 TA
1 TA
32832199 CAACTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.36
15 5 0.18
16 4 0.14
17 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAATTTTAATTAAT
Found at i:32835318 original size:30 final size:29
Alignment explanation
Indices: 32835272--32835719 Score: 405
Period size: 30 Copynumber: 15.0 Consensus size: 29
32835262 GTAAGTCCCT
*
32835272 AAAATTGTCCAGAAATTACATTTTAACCCC
1 AAAATTTTCCA-AAATTACATTTTAACCCC
* * *
32835302 AAAATTTTCTAAAAATTACATTTTGACCACT
1 AAAATTTTC-CAAAATTACATTTTAACC-CC
* * *
32835333 AAACTTTTCCAAAGTTATATTTTAACCCC
1 AAAATTTTCCAAAATTACATTTTAACCCC
* * * * *
32835362 TAAACTTTTCTAAAATTATATTTTGACCTC
1 -AAAATTTTCCAAAATTACATTTTAACCCC
* *
32835392 AAAACTTTTCCAAAATTACATTTTGACCTC
1 AAAA-TTTTCCAAAATTACATTTTAACCCC
* *
32835422 AAAACTTTTCCAAAATTATATTTTGACCCC
1 AAAA-TTTTCCAAAATTACATTTTAACCCC
* * *
32835452 AAAACTTTCTAAAAATTACATTTTGACCCC
1 AAAATTTTC-CAAAATTACATTTTAACCCC
* * *
32835482 TAAACTTTTCCAAAATTATATTTTAACTCCT
1 -AAAATTTTCCAAAATTACATTTTAAC-CCC
* * *
32835513 AAACTTTTCCAAAATTATATTTTAACCCT
1 AAAATTTTCCAAAATTACATTTTAACCCC
**
32835542 AAAACTTTTCCAAAATTACATTTTAACCTTG
1 AAAA-TTTTCCAAAATTACATTTTAACC-CC
* *
32835573 AAACTTTTCCAAAATTACATTTTAACCCT
1 AAAATTTTCCAAAATTACATTTTAACCCC
* *
32835602 AAAACTTTTCCAAAATCATATTTTAACCCC
1 AAAA-TTTTCCAAAATTACATTTTAACCCC
* *
32835632 AAAA-TTTCCAAAAATTACATTTTTACCCT
1 AAAATTTTCC-AAAATTACATTTTAACCCC
*
32835661 AAAATTTTCAAAAATTACCATTTT-ACCCC
1 AAAATTTTCCAAAATTA-CATTTTAACCCC
** * *
32835690 CGAACTTTCCAAAATTCCATTTTTAACCCC
1 AAAATTTTCCAAAATTACA-TTTTAACCCC
32835720 GATTTCACCA
Statistics
Matches: 353, Mismatches: 50, Indels: 30
0.82 0.12 0.07
Matches are distributed among these distances:
28 7 0.02
29 63 0.18
30 261 0.74
31 22 0.06
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTTTCCAAAATTACATTTTAACCCC
Found at i:32835427 original size:90 final size:90
Alignment explanation
Indices: 32835284--32835719 Score: 469
Period size: 90 Copynumber: 4.9 Consensus size: 90
32835274 AATTGTCCAG
* * * *
32835284 AAATTACATTTTAACCCCAAAA-TTTTCTAAAAATTACATTTTGACCACTAAACTTTTCCAAAGT
1 AAATTACATTTTAACCCCAAAACTTTTC-CAAAATTACATTTTGACCTCAAAACTTTTCCAAAAT
32835348 TATATTTTAACCCCTAAACTTTTCTA
65 TATATTTTAACCCCTAAACTTTTCTA
* * *
32835374 AAATTATATTTTGACCTCAAAACTTTTCCAAAATTACATTTTGACCTCAAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTCAAAACTTTTCCAAAATT
* *
32835439 ATATTTTGACCCCAAAAC-TTTCTAA
66 ATATTTTAACCCCTAAACTTTTCT-A
* * * * *
32835464 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTT-AACTCCTAAACTTTTCCAAAAT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCT-CAAAACTTTTCCAAAAT
*
32835528 TATATTTTAA-CCCTAAAACTTTTCCA
65 TATATTTTAACCCCT-AAACTTTTCTA
*** *
32835554 AAATTACATTTTAACCTTGAAACTTTTCCAAAATTACATTTTAACC-CTAAAACTTTTCCAAAAT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTC-AAAACTTTTCCAAAAT
* * * *
32835618 CATATTTTAACCCC-AAAATTTCCAA
65 TATATTTTAACCCCTAAACTTTTCTA
* * * * **
32835643 AAATTACATTTTTACCCTAAAA-TTTTCAAAAATTACCATTTT-ACCCCCGAAC-TTTCCAAAAT
1 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTA-CATTTTGACCTCAAAACTTTTCCAAAAT
32835705 TCCAT-TTTTAACCCC
65 T--ATATTTTAACCCC
32835720 GATTTCACCA
Statistics
Matches: 298, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
87 10 0.03
88 28 0.09
89 48 0.16
90 198 0.66
91 14 0.05
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (90 bp):
AAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTCAAAACTTTTCCAAAATT
ATATTTTAACCCCTAAACTTTTCTA
Found at i:32836921 original size:40 final size:40
Alignment explanation
Indices: 32836842--32836921 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
32836832 TATTTTAAAG
* * *
32836842 AATATTTTTTTGATAATTTTTATAATTTTAATTTCATTAA
1 AATAATTTTTTGATAATTTTTATAATTTTAAATTAATTAA
*
32836882 AATAATTTTTTGAT-TTTTTTA-AATTTTAAAAATTAATTAA
1 AATAATTTTTTGATAATTTTTATAATTTT--AAATTAATTAA
32836922 TTGCTGATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
38 6 0.18
39 6 0.18
40 22 0.65
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (40 bp):
AATAATTTTTTGATAATTTTTATAATTTTAAATTAATTAA
Found at i:32839031 original size:98 final size:98
Alignment explanation
Indices: 32838859--32839334 Score: 663
Period size: 98 Copynumber: 4.9 Consensus size: 98
32838849 ATAGAATGGC
* * **
32838859 GAACCTTGTACCTCGAAAACATGAAGGGAAAGATTT-AGACCGCAACAACGAATCCAGTACCACG
1 GAACCTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAG-CCGCAACGGCGAATCCAGTACCACG
* *
32838923 AAGATTTAAAGGGAAAGGTTTAAGTCGCAATGGT
65 AAGATATAAAGGGAAAGGTTTAAGTCGCAACGGT
*
32838957 GAACGTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCAC-A
1 GAACCTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA
*
32839021 AGGATATAAAGAGAAAGGTTTAAGTCGCAACGGT
66 A-GATATAAAGGGAAAGGTTTAAGTCGCAACGGT
* *
32839055 GAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACGA
1 GAACCTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA
** * * * * *
32839120 AGATATGGAGGGAAATG-TCACGACCACAACGGT
66 AGATATAAAGGGAAAGGTTTAAG-TCGCAACGGT
** *
32839153 GAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGCCTCAACGGCGAATCCAGTACCAC-A
1 GAACCTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA
*
32839217 AGGATATAAAGGGAAAGGTTTAAGTCGCAACGGC
66 A-GATATAAAGGGAAAGGTTTAAGTCGCAACGGT
* *
32839251 GAACATTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGA
1 GAACCTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA
**
32839316 AGATATGGAGGGAAAGGTT
66 AGATATAAAGGGAAAGGTT
32839335 ACAACCGCAA
Statistics
Matches: 334, Mismatches: 37, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
97 7 0.02
98 318 0.95
99 9 0.03
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (98 bp):
GAACCTTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA
AGATATAAAGGGAAAGGTTTAAGTCGCAACGGT
Found at i:32839193 original size:196 final size:195
Alignment explanation
Indices: 32838856--32839372 Score: 741
Period size: 196 Copynumber: 2.6 Consensus size: 195
32838846 ATTATAGAAT
* **
32838856 GGCGAACCTTGTACCTCGAAAACATGAAGGGAAAGATTT-AGACCGCAACAACGAATCCAGTACC
1 GGCGAACCTTGTACCTCG-AAGCATGAAGGGAAAGATTTAAG-CCGCAACGGCGAATCCAGTACC
* ** * * * * **
32838920 ACGAAGATTTAAAGGGAAAGGTTTAAG-TCGCAATGGTGAACGTTGTACCTCGGAAGCATGAAGG
64 ACGAAGATATGGAGGGAAAGG-TTACGACCGCAACGGTGAACCTTGTACCTTAGAAGCATGAAGG
32838984 GAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGATATAAAGAGAAAGGTTTAAGTCGC
128 GAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGATATAAAGAGAAAGGTTTAAGTCGC
32839049 AAC
193 AAC
* *
32839052 GGTGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCA
1 GGCGAACCTTGTACCTC-GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCA
* * *
32839117 CGAAGATATGGAGGGAAATGTCACGACCACAACGGTGAACCTTGTACCTTAGAAGCATGAAGGGA
65 CGAAGATATGGAGGGAAAGGTTACGACCGCAACGGTGAACCTTGTACCTTAGAAGCATGAAGGGA
* *
32839182 AAGATTTAAGCCTCAACGGCGAATCCAGTACCACAAGGATATAAAGGGAAAGGTTTAAGTCGCAA
130 AAGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGATATAAAGAGAAAGGTTTAAGTCGCAA
32839247 C
195 C
* *
32839248 GGCGAACATTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCA
1 GGCGAACCTTGTACCTC-GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCA
* ** * *
32839313 CGAAGATATGGAGGGAAAGGTTACAACCGCAACGACGAACCTTATACCTTAGAAACATGA
65 CGAAGATATGGAGGGAAAGGTTACGACCGCAACGGTGAACCTTGTACCTTAGAAGCATGA
32839373 CGGAAAATAT
Statistics
Matches: 286, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
195 3 0.01
196 280 0.98
197 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.18
Consensus pattern (195 bp):
GGCGAACCTTGTACCTCGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCAC
GAAGATATGGAGGGAAAGGTTACGACCGCAACGGTGAACCTTGTACCTTAGAAGCATGAAGGGAA
AGATTTAAGCCGCAACGGCGAATCCAGTACCACAAGGATATAAAGAGAAAGGTTTAAGTCGCAAC
Found at i:32839328 original size:49 final size:49
Alignment explanation
Indices: 32838856--32839331 Score: 346
Period size: 49 Copynumber: 9.7 Consensus size: 49
32838846 ATTATAGAAT
* * * *
32838856 GGCGAACCTTGTACCTCGAAAACATGAAGGGAAAGATTT-AGACCGCAAC
1 GGCGAATCTAGTACCACGAAGACATGAAGGGAAAGATTTAAG-CCGCAAC
** * ** * * * *
32838905 AACGAATCCAGTACCACGAAGATTTAAAGGGAAAGGTTTAAGTCGCAAT
1 GGCGAATCTAGTACCACGAAGACATGAAGGGAAAGATTTAAGCCGCAAC
* * *
32838954 GGTGAA-CGTTGTACCTCGGAAG-CATGAAGGGAAAGATTTAAGCCGCAAC
1 GGCGAATC-TAGTACCAC-GAAGACATGAAGGGAAAGATTTAAGCCGCAAC
* * * * * *
32839003 GGCGAATCCAGTACCAC-AAGGATATAAAGAGAAAGGTTTAAGTCGCAAC
1 GGCGAATCTAGTACCACGAA-GACATGAAGGGAAAGATTTAAGCCGCAAC
* * * *
32839052 GGTGAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAAC
1 GGCGAATCTAGTACCAC-GAAGACATGAAGGGAAAGATTTAAGCCGCAAC
* * * * * * *
32839101 GGTGAATCCAGTACCACGAAGATATGGAGGG-AA-ATGTCACGACCACAAC
1 GGCGAATCTAGTACCACGAAGACATGAAGGGAAAGAT-TTAAG-CCGCAAC
* * * *
32839150 GGTGAACCTTGTACCTTA-GAAG-CATGAAGGGAAAGATTTAAGCCTCAAC
1 GGCGAATCTAGTACC--ACGAAGACATGAAGGGAAAGATTTAAGCCGCAAC
* * * * *
32839199 GGCGAATCCAGTACCAC-AAGGATATAAAGGGAAAGGTTTAAGTCGCAAC
1 GGCGAATCTAGTACCACGAA-GACATGAAGGGAAAGATTTAAGCCGCAAC
* *
32839248 GGCGAA-CATTGTACCTCGGAAG-CATGAAGGGAAAGATTTAAGCCGCAAC
1 GGCGAATC-TAGTACCAC-GAAGACATGAAGGGAAAGATTTAAGCCGCAAC
* *
32839297 GGCGAATCTAGTACCACGAAGATATGGAGGGAAAG
1 GGCGAATCTAGTACCACGAAGACATGAAGGGAAAG
32839332 GTTACAACCG
Statistics
Matches: 323, Mismatches: 81, Indels: 46
0.72 0.18 0.10
Matches are distributed among these distances:
47 7 0.02
48 17 0.05
49 273 0.85
50 19 0.06
51 7 0.02
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (49 bp):
GGCGAATCTAGTACCACGAAGACATGAAGGGAAAGATTTAAGCCGCAAC
Found at i:32839661 original size:42 final size:42
Alignment explanation
Indices: 32839597--32839750 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 42
32839587 GAAGTTATGT
32839597 CATCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGA
1 CATCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGA
* *
32839639 CATCTTCCAATCTCTTACCCCAATCATGGGGCAGATT-ACAGC
1 CATCATCCAATCTCTTACCCCAATCATGGGGCAGATTGA-AGA
* * * *
32839681 CATCATCCAATCTCTTACCTCGATCATGGGGAAAATTGAAGA
1 CATCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGA
* * * * *
32839723 CTTCATCTAATCTTTTACCTCGATCATG
1 CATCATCCAATCTCTTACCCCAATCATG
32839751 AAGTTACGAC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 97 0.98
43 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (42 bp):
CATCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGA
Found at i:32839741 original size:84 final size:84
Alignment explanation
Indices: 32839597--32839750 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 84
32839587 GAAGTTATGT
* * *
32839597 CATCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCTTCCAATCTCTTACCCCAA
1 CATCATCCAATCTCTTACCCCAATCATGGGGAAAATTGAAGACATCATCCAATCTCTTACCCCAA
32839662 TCATGGGGCAGATTACAGC
66 TCATGGGGCAGATTACAGC
* * * * * * *
32839681 CATCATCCAATCTCTTACCTCGATCATGGGGAAAATTGAAGACTTCATCTAATCTTTTACCTCGA
1 CATCATCCAATCTCTTACCCCAATCATGGGGAAAATTGAAGACATCATCCAATCTCTTACCCCAA
32839746 TCATG
66 TCATG
32839751 AAGTTACGAC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (84 bp):
CATCATCCAATCTCTTACCCCAATCATGGGGAAAATTGAAGACATCATCCAATCTCTTACCCCAA
TCATGGGGCAGATTACAGC
Found at i:32841594 original size:30 final size:28
Alignment explanation
Indices: 32841535--32841736 Score: 174
Period size: 30 Copynumber: 6.9 Consensus size: 28
32841525 TAATTCACCC
* * * *
32841535 ATTA-ATTTTAACCTTAAACTTCTTAAA
1 ATTATATTTTGACCCTAAATTTTTTAAA
*
32841562 ATTATATTTTGACCCTAATTTTTTTTAAAA
1 ATTATATTTTGACCCTAA-ATTTTTT-AAA
*
32841592 ATTATATTTTGACCCTTAAAATTTTCTAAA
1 ATTATATTTTGACCC-T-AAATTTTTTAAA
**
32841622 ATTATATTTTGACTCCTAAACTTTTCCAAA
1 ATTATATTTTGAC-CCTAAA-TTTTTTAAA
* *
32841652 ATTACATTTTGA-CCTCAAACTTTTTCAAA
1 ATTATATTTTGACCCT-AAA-TTTTTTAAA
*
32841681 ATTATATTTTGACCCCTAAACTTTTCTAAA
1 ATTATATTTTGA-CCCTAAA-TTTTTTAAA
* *
32841711 ATCATATTTTGACCCCTAAACTTTTT
1 ATTATATTTTGA-CCCTAAATTTTTT
32841737 CACAATCGAG
Statistics
Matches: 149, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.03
28 14 0.09
29 34 0.23
30 84 0.56
31 11 0.07
32 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (28 bp):
ATTATATTTTGACCCTAAATTTTTTAAA
Found at i:32841611 original size:59 final size:57
Alignment explanation
Indices: 32841546--32841736 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 57
32841536 TTAATTTTAA
* *
32841546 CCTTAAACTTCTTAAAATTATATTTTGACCCTAATTTTTTTTAAAAATTATATTTTGAC
1 CCTTAAACTTTTTAAAATTATATTTTGACCCTAA-ATTTTTT-AAAATTATATTTTGAC
* ** *
32841605 CCTTAAAATTTTCTAAAATTATATTTTGACTCCTAAACTTTTCCAAAATTACATTTTGA-
1 CCTTAAACTTTT-TAAAATTATATTTTGAC-CCTAAA-TTTTTTAAAATTATATTTTGAC
* * *
32841664 CCTCAAACTTTTTCAAAATTATATTTTGACCCCTAAACTTTTCTAAAATCATATTTTGAC
1 CCTTAAACTTTTT-AAAATTATATTTTGA-CCCTAAA-TTTTTTAAAATTATATTTTGAC
*
32841724 CCCTAAACTTTTT
1 CCTTAAACTTTTT
32841737 CACAATCGAG
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
58 1 0.01
59 60 0.53
60 43 0.38
61 9 0.08
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (57 bp):
CCTTAAACTTTTTAAAATTATATTTTGACCCTAAATTTTTTAAAATTATATTTTGAC
Found at i:32842802 original size:78 final size:78
Alignment explanation
Indices: 32842693--32843195 Score: 444
Period size: 78 Copynumber: 6.4 Consensus size: 78
32842683 ATTGAAGATT
* * * * *
32842693 CCAATCTCTTATCCCGAG-CTTGAGGCAGATTGAAACCATCCGATCTTTTACCCCGAGCTTGAGG
1 CCAATCTCTTACCCCGAGCCTAG-GGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGG
* *
32842757 TAGATCACCATTAG
65 CAGATCACCATCAG
* * * * * *
32842771 CCAATCTCTTACCCCAAGCCTAGGGCAGATTGTAGTCATCCGATCTTTTATCCCAAGCCTGGGGC
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
* *
32842836 AGATCCCCATCAA
66 AGATCACCATCAG
* * *
32842849 CCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTGGGGG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTT-GGGG
* ** *
32842914 CATAT-TGCAGTCAT
65 CAGATCACCA-TCAG
*** * * *
32842928 TTGATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTATCCCGAGCTTGGGGC
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
* * *
32842993 AGATAACTATCAA
66 AGATCACCATCAG
* * * * * * *
32843006 CCAGTCTCTTACCCCAAGCCTAGGGTAGATTGCAGCCATTCGACCTTTTACCCCGAGCTTGAGGT
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
32843071 AGATTGCAGCCAT---
66 AGA-T-CA-CCATCAG
* * * * * * * * *
32843084 CCAATCTTTTACCCCGAGCTTGGGGCAGATTACCA-TCAGCCAATCTCTTA-CCCGAGCCTGGGG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATT-GCAGCCATCCGATCTTTTACCCCGAGCTTGGGG
32843147 CAGATCACCATCAG
65 CAGATCACCATCAG
* * *
32843161 CCAATCTCTTACCCCGATCATGGGGCAGATTGCAG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAG
32843196 TCATTCGAAG
Statistics
Matches: 339, Mismatches: 74, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
74 4 0.01
75 2 0.01
76 3 0.01
77 42 0.12
78 215 0.63
79 69 0.20
80 1 0.00
81 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (78 bp):
CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGC
AGATCACCATCAG
Found at i:32842861 original size:117 final size:117
Alignment explanation
Indices: 32842696--32843195 Score: 454
Period size: 117 Copynumber: 4.3 Consensus size: 117
32842686 GAAGATTCCA
* * * * * * * * *
32842696 ATCTCTTATCCCGAGCTTGAGGCAGATTGAAACCATCCGATCTTTTACCCCGAGCTTGAGGTAGA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAGA
* * *
32842761 TCACCATTAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTGTAGTCATCCG
66 TCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGTCATTCG
* * ** * * *
32842813 ATCTTTTATCCCAAGCCTGGGGCAGATCCCCA-TCAACCAATCTCTTACCCCGAGCTTGGGGCAG
1 ATCTTTTACCCCGAGCCTGGGGCAGAT-TGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAG
* * * * * *
32842877 ATTGCAGCCAT---CCGATCTCTTACCCCGAGCTTGGGGGCATATTGCAGTCATTTG
65 A-T-CA-CCATCAGCCAATCTCTTACCCCAAGCCT-AGGGCAGATTGCAGTCATTCG
* * * *
32842931 ATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCATTCGATCTTTTATCCCGAGCTTGGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAGA
* * * * * *
32842996 TAACTATCAACCAGTCTCTTACCCCAAGCCTAGGGTAGATTGCAGCCATTCG
66 TCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGTCATTCG
* * * *
32843048 ACCTTTTACCCCGAGCTTGAGGTAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAGA
* * * ** ** *
32843113 TTACCATCAGCCAATCTCTTA-CCCGAGCCTGGGGCAGATCACCA-TCAGCCA
66 TCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGAT-TGCAGTCATTCG
* * *
32843164 ATCTCTTACCCCGATCATGGGGCAGATTGCAG
1 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAG
32843196 TCATTCGAAG
Statistics
Matches: 303, Mismatches: 70, Indels: 21
0.77 0.18 0.05
Matches are distributed among these distances:
115 3 0.01
116 45 0.15
117 163 0.54
118 86 0.28
119 2 0.01
120 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (117 bp):
ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTGGGGCAGA
TCACCATCAGCCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGTCATTCG
Found at i:32843127 original size:39 final size:39
Alignment explanation
Indices: 32842692--32843199 Score: 344
Period size: 39 Copynumber: 13.0 Consensus size: 39
32842682 GATTGAAGAT
* * * **
32842692 TCCAATCTCTTATCCCGAGCTTGAGGCAGATTGAAACCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
* * * * ** *
32842731 TCCGATCTTTTACCCCGAGCTTGAGGTAGATCACCA-TTA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGAT-TGCAGTCA
* * * * *
32842770 GCCAATCTCTTACCCCAAGCCTAGGGCAGATTGTAGTCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
* * * * * **
32842809 TCCGATCTTTTATCCCAAGCCTGGGGCAGATCCCCA-TCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGAT-TGCAGTCA
* *
32842848 ACCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
* *
32842887 TCCGATCTCTTACCCCGAGCTTGGGGGCATATTGCAGTCA
1 TCCAATCTCTTACCCCGAGCTT-GGGGCAGATTGCAGTCA
*** * * * *
32842927 TTTGATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
* * * * **
32842966 TTCGATCTTTTATCCCGAGCTTGGGGCAGATAACTA-TCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGC-AGTCA
* * * * * * *
32843005 ACCAGTCTCTTACCCCAAGCCTAGGGTAGATTGCAGCCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
* * * * * * *
32843044 TTCGACCTTTTACCCCGAGCTTGAGGTAGATTGCAGCCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
* *
32843083 TCCAATCTTTTACCCCGAGCTTGGGGCAGATTACCA-TCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATT-GCAGTCA
* * **
32843122 GCCAATCTCTTA-CCCGAGCCTGGGGCAGATCACCA-TCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGAT-TGCAGTCA
* * *
32843160 GCCAATCTCTTACCCCGATCATGGGGCAGATTGCAGTCA
1 TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
32843199 T
1 T
32843200 TCGAAGCAAT
Statistics
Matches: 363, Mismatches: 95, Indels: 22
0.76 0.20 0.05
Matches are distributed among these distances:
38 41 0.11
39 284 0.78
40 38 0.10
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (39 bp):
TCCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGTCA
Found at i:32844968 original size:30 final size:30
Alignment explanation
Indices: 32844926--32845207 Score: 204
Period size: 30 Copynumber: 9.4 Consensus size: 30
32844916 GTTCTCTTTA
*
32844926 AAAAATACATTTTAACCCTCAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
* ** *
32844956 AAAATTATATTTTGATTCC-CAAACTTCTT-A
1 AAAATTACATTTT-AACCCTCAAACTT-TTCC
* *
32844986 AAAATTATATTTTGATCCCT-AAAC-TTTCC
1 AAAATTACATTTT-AACCCTCAAACTTTTCC
** * * * *
32845015 AAAATTATGTTTTGACCCCCAAAATTTTCT
1 AAAATTACATTTTAACCCTCAAACTTTTCC
* *
32845045 AAAATTACATTGTAA-CCTCTAAA-TTTCTCT
1 AAAATTACATTTTAACCCTC-AAACTTT-TCC
* **
32845075 AAAATTACATTTTAA-CGTCTAAACTTTTAT
1 AAAATTACATTTTAACCCTC-AAACTTTTCC
* *
32845105 AAAATTACATTTTAACCCCCAAACTTTTTC
1 AAAATTACATTTTAACCCTCAAACTTTTCC
*
32845135 AAAATTGA-ATATTT-ACCCTTAAACTTTTCC
1 AAAATT-ACAT-TTTAACCCTCAAACTTTTCC
* * * *
32845165 AAAATTATATTTTGACCCTTAAACTTTTCT
1 AAAATTACATTTTAACCCTCAAACTTTTCC
32845195 AAAATTACATTTT
1 AAAATTACATTTT
32845208 GCCCTCGAAC
Statistics
Matches: 208, Mismatches: 30, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.02
29 26 0.12
30 163 0.78
31 14 0.07
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTCAAACTTTTCC
Found at i:32845140 original size:90 final size:88
Alignment explanation
Indices: 32844922--32845207 Score: 237
Period size: 90 Copynumber: 3.2 Consensus size: 88
32844912 CCATGTTCTC
* * * * *
32844922 TTTA-AAAAATACATTTTAACCCTCAAACTTTTCCAAAATTATATTTTGATTCC-C-AAACTTCT
1 TTTATAAAATTACATTTTAACCCCCAAACTTTTTCAAAATTA-ATTTT-A-ACCTCTAAATTTCT
*
32844984 -TAAAAATTATATTTTGATCCCTAAAC-
63 CT-AAAATTATATTTT-AACCCTAAACT
** ** * * *
32845010 TTTCCAAAATTATGTTTTGACCCCCAAA-ATTTTCTAAAATTACATTGTAACCTCTAAATTTCTC
1 TTTATAAAATTACATTTTAACCCCCAAACTTTTTC-AAAATTA-ATTTTAACCTCTAAATTTCTC
* *
32845074 TAAAATTACATTTTAACGTCTAAACT
64 TAAAATTATATTTTAAC-CCTAAACT
*
32845100 TTTATAAAATTACATTTTAACCCCCAAACTTTTTCAAAATTGAATATTTACCCT-TAAACTTT-T
1 TTTATAAAATTACATTTTAACCCCCAAACTTTTTCAAAATT-AAT-TTTAACCTCTAAA-TTTCT
* *
32845163 CCAAAATTATATTTTGACCCTTAAACT
63 CTAAAATTATATTTTAACCC-TAAACT
*
32845190 TTTCTAAAATTACATTTT
1 TTTATAAAATTACATTTT
32845208 GCCCTCGAAC
Statistics
Matches: 158, Mismatches: 28, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
87 2 0.01
88 11 0.07
89 55 0.35
90 75 0.47
91 15 0.09
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (88 bp):
TTTATAAAATTACATTTTAACCCCCAAACTTTTTCAAAATTAATTTTAACCTCTAAATTTCTCTA
AAATTATATTTTAACCCTAAACT
Found at i:32845266 original size:29 final size:29
Alignment explanation
Indices: 32845195--32845266 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
32845185 AAACTTTTCT
*
32845195 AAAATTA-CATTTTGCCCTCGAACATCCA
1 AAAATTACCATTTTTCCCTCGAACATCCA
32845223 AAAATTACCATTTTTCCCTCGAACATCCA
1 AAAATTACCATTTTTCCCTCGAACATCCA
32845252 AAAATTACCATTTTT
1 AAAATTACCATTTTT
32845267 AAAAAATTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.17
29 35 0.83
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTTCCCTCGAACATCCA
Found at i:32846350 original size:29 final size:29
Alignment explanation
Indices: 32846285--32846342 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
32846275 ATGTTATTAC
32846285 AATCATCATATAATTAATCTTTAGGCATA
1 AATCATCATATAATTAATCTTTAGGCATA
* *
32846314 AATCATCATATAATTAGTCTTTGGGCATA
1 AATCATCATATAATTAATCTTTAGGCATA
32846343 CTCCATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (29 bp):
AATCATCATATAATTAATCTTTAGGCATA
Found at i:32848476 original size:31 final size:32
Alignment explanation
Indices: 32848440--32848500 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
32848430 ATATTTTGCA
32848440 ATTATAAAAATATTTATTGCACAGT-TTAAAT
1 ATTATAAAAATATTTATTGCACAGTGTTAAAT
*
32848471 ATTATAAAAATATTTATTGTACAGTGTTAA
1 ATTATAAAAATATTTATTGCACAGTGTTAA
32848501 CATTTTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (32 bp):
ATTATAAAAATATTTATTGCACAGTGTTAAAT
Found at i:32848861 original size:29 final size:30
Alignment explanation
Indices: 32848810--32848868 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
32848800 AAATAATATA
32848810 AAAACAATAATTAATTAAAAAAA-AGGTAT
1 AAAACAATAATTAATTAAAAAAATAGGTAT
**
32848839 AAAA-AATAAATTAATTACGAAAATAGGTAT
1 AAAACAAT-AATTAATTAAAAAAATAGGTAT
32848869 TTACTACCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 17 0.65
30 6 0.23
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.25
Consensus pattern (30 bp):
AAAACAATAATTAATTAAAAAAATAGGTAT
Found at i:32850032 original size:15 final size:15
Alignment explanation
Indices: 32849976--32850033 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
32849966 ATAAGCACAT
*
32849976 ATTTAAAAAATAAAA
1 ATTTAAAAAATAATA
*
32849991 ATCTTAAAAATTAATA
1 AT-TTAAAAAATAATA
*
32850007 ATTTTCAAAAAAATAATT
1 A-TTT--AAAAAATAATA
32850025 ATTTAAAAA
1 ATTTAAAAA
32850034 CCTTTGGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.20
16 14 0.40
17 4 0.11
18 10 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTTAAAAAATAATA
Found at i:32850032 original size:16 final size:16
Alignment explanation
Indices: 32849975--32850033 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
32849965 CATAAGCACA
*
32849975 TATTT-AAAAAATAAA
1 TATTTAAAAAAATAAT
*
32849990 AATCTTAAAAATTAATAAT
1 TAT-TTAAAAA--AATAAT
*
32850009 T-TTCAAAAAAATAAT
1 TATTTAAAAAAATAAT
32850024 TATTTAAAAA
1 TATTTAAAAA
32850034 CCTTTGGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
15 9 0.26
16 9 0.26
17 10 0.29
18 1 0.03
19 5 0.15
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
TATTTAAAAAAATAAT
Found at i:32850070 original size:22 final size:21
Alignment explanation
Indices: 32850030--32850070 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32850020 TAATTATTTA
* *
32850030 AAAACCTTTGGTTGTTTTACT
1 AAAACCTTTGGTGGATTTACT
32850051 AAAACCTTTGGTAGGATTTA
1 AAAACCTTTGGT-GGATTTA
32850071 AAGTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (21 bp):
AAAACCTTTGGTGGATTTACT
Found at i:32851074 original size:37 final size:37
Alignment explanation
Indices: 32851032--32851110 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 37
32851022 ATTTTGTACT
*
32851032 ATTGAATTATTTAATCAT-ATTAAATATTTATATTAAA
1 ATTGAATTA-TTAATCATCATAAAATATTTATATTAAA
* *
32851069 ATTGAATTATTAATGATGCCATAAAATATTTATGTTAAA
1 ATTGAATTATTAATCAT--CATAAAATATTTATATTAAA
32851108 ATT
1 ATT
32851111 TTATGTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 7 0.19
37 9 0.25
39 20 0.56
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (37 bp):
ATTGAATTATTAATCATCATAAAATATTTATATTAAA
Found at i:32852314 original size:16 final size:15
Alignment explanation
Indices: 32852267--32852314 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
32852257 AAATTATTAA
32852267 AAAATTCAAAAAAA-T
1 AAAA-TCAAAAAAATT
*
32852282 AAAATAAAAAAATATT
1 AAAATCAAAAAA-ATT
32852298 AAAAGTCAAAAAAATT
1 AAAA-TCAAAAAAATT
32852314 A
1 A
32852315 GCATAGAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 7 0.25
15 5 0.18
16 9 0.32
17 7 0.25
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATCAAAAAAATT
Found at i:32856313 original size:16 final size:15
Alignment explanation
Indices: 32856288--32856318 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
32856278 CCTGCGGTCG
32856288 CTTTTTTTTCTTTTT
1 CTTTTTTTTCTTTTT
32856303 CTTTTTCTTTCTTTTT
1 CTTTTT-TTTCTTTTT
32856319 TTTGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:32862189 original size:23 final size:23
Alignment explanation
Indices: 32862162--32862205 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
32862152 TTTTCAATCT
* *
32862162 ATTAAAAAATGATGAAATTATAA
1 ATTAAAAAATAATAAAATTATAA
*
32862185 ATTAATAAATAATAAAATTAT
1 ATTAAAAAATAATAAAATTAT
32862206 GTTTTGGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
ATTAAAAAATAATAAAATTATAA
Found at i:32862998 original size:40 final size:40
Alignment explanation
Indices: 32862954--32863188 Score: 114
Period size: 40 Copynumber: 5.7 Consensus size: 40
32862944 TGACAGTCTA
* * *
32862954 GCAGTGTTTACAATGTCAC-GACTAGTTCAGTAATAATATT
1 GCAGTGTTTACAATGTCACTG-CCAGTTCAATAATAATATC
** * *
32862994 GCAGTGTTCCCAGTGTCACTGCCAGTTCAATAGTAATATCGC
1 GCAGTGTTTACAATGTCACTGCCAGTTCAATAATAATAT--C
* * * *
32863036 AGTGTTTGCAGTGTTTACAGTGTCACTTCCAGTTCAGTAGTAATATC
1 -------GCAGTGTTTACAATGTCACTGCCAGTTCAATAATAATATC
* * * * * ** *
32863083 GCA-AGTTTACAGTATCACTGCCAGTTCAGTGATAGCATT
1 GCAGTGTTTACAATGTCACTGCCAGTTCAATAATAATATC
* * * * * *
32863122 GTAGTGTTTACAGTGTCACTTCTAGTTCAGTAATATTATC
1 GCAGTGTTTACAATGTCACTGCCAGTTCAATAATAATATC
* * *
32863162 GAAGTGTTTATAGTGTCACTGCCAGTT
1 GCAGTGTTTACAATGTCACTGCCAGTT
32863189 ATAACGTTGC
Statistics
Matches: 152, Mismatches: 32, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
39 30 0.20
40 85 0.56
41 1 0.01
47 1 0.01
49 35 0.23
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (40 bp):
GCAGTGTTTACAATGTCACTGCCAGTTCAATAATAATATC
Found at i:32863048 original size:49 final size:49
Alignment explanation
Indices: 32862992--32863085 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
32862982 AGTAATAATA
*
32862992 TTGCAGTGTTCCCAGTGTCACTGCCAGTTCAATAGTAATATCGCAGTGT
1 TTGCAGTGTTCACAGTGTCACTGCCAGTTCAATAGTAATATCGCAGTGT
* * *
32863041 TTGCAGTGTTTACAGTGTCACTTCCAGTTCAGTAGTAATATCGCA
1 TTGCAGTGTTCACAGTGTCACTGCCAGTTCAATAGTAATATCGCA
32863086 AGTTTACAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (49 bp):
TTGCAGTGTTCACAGTGTCACTGCCAGTTCAATAGTAATATCGCAGTGT
Found at i:32866919 original size:37 final size:37
Alignment explanation
Indices: 32866878--32866949 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
32866868 ATTATTTTTT
32866878 ATTTTTAT-ATTGTTTATT-AATTCTTAAATTTTAAATG
1 ATTTTTATAATT-TTT-TTGAATTCTTAAATTTTAAATG
* *
32866915 ATTTTTATAATTTTTTTGAGTTTTTAAATTTTAAA
1 ATTTTTATAATTTTTTTGAATTCTTAAATTTTAAA
32866950 AAATTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 2 0.06
37 26 0.84
38 3 0.10
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (37 bp):
ATTTTTATAATTTTTTTGAATTCTTAAATTTTAAATG
Found at i:32866928 original size:19 final size:19
Alignment explanation
Indices: 32866901--32866949 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
32866891 TTATTAATTC
32866901 TTAAATTTTAAATGA-TTT
1 TTAAATTTTAAATGAGTTT
**
32866919 TTATAATTTT-TTTGAGTTT
1 TTA-AATTTTAAATGAGTTT
32866938 TTAAATTTTAAA
1 TTAAATTTTAAA
32866950 AAATTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
TTAAATTTTAAATGAGTTT
Found at i:32873347 original size:33 final size:36
Alignment explanation
Indices: 32873309--32873374 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
32873299 TTAAAAAAAC
32873309 TTTTAAATTAGAT-AAT-TA-TGAAAAATATAATTT
1 TTTTAAATTAGATAAATATATTGAAAAATATAATTT
* *
32873342 TTTTAAATTATATAAATATATTTAAAAATATAA
1 TTTTAAATTAGATAAATATATTGAAAAATATAA
32873375 AAATGTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 12 0.43
34 3 0.11
35 2 0.07
36 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTAAATTAGATAAATATATTGAAAAATATAATTT
Found at i:32873372 original size:18 final size:18
Alignment explanation
Indices: 32873329--32873375 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
32873319 GATAATTATG
* *
32873329 AAAAATAT-AATTTTTTT
1 AAAAATATAAATATATTT
*
32873346 AAATTATATAAATATATTT
1 AAA-AATATAAATATATTT
32873365 AAAAATATAAA
1 AAAAATATAAA
32873376 AATGTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATATAAATATATTT
Found at i:32874236 original size:47 final size:47
Alignment explanation
Indices: 32874184--32874277 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
32874174 ATATTCAAGA
*
32874184 AATTTAACATTACAAATACAATCAATCATAATTTTTTTAGTGATTTG
1 AATTTAACATTACAAATACAATCAATCATAATTTCTTTAGTGATTTG
* * *
32874231 AATTTAATATTATAAATACAATCAATCCTAATTTCTTTAGTGATTTG
1 AATTTAACATTACAAATACAATCAATCATAATTTCTTTAGTGATTTG
32874278 TATTAAGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (47 bp):
AATTTAACATTACAAATACAATCAATCATAATTTCTTTAGTGATTTG
Found at i:32874665 original size:18 final size:19
Alignment explanation
Indices: 32874629--32874668 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
32874619 AGACAAATTC
32874629 ATTTATTTTATATAAAATA
1 ATTTATTTTATATAAAATA
*
32874648 ATTTGTTTTATA-AAAATA
1 ATTTATTTTATATAAAATA
32874666 ATT
1 ATT
32874669 ACTTTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTATTTTATATAAAATA
Found at i:32874674 original size:18 final size:19
Alignment explanation
Indices: 32874634--32874674 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
32874624 AATTCATTTA
**
32874634 TTTTATATAAAATAATTTG
1 TTTTATATAAAATAATTAC
32874653 TTTTATA-AAAATAATTAC
1 TTTTATATAAAATAATTAC
32874671 TTTT
1 TTTT
32874675 CAACAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTATATAAAATAATTAC
Found at i:32878571 original size:42 final size:42
Alignment explanation
Indices: 32878487--32878571 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
32878477 ATTAATTTAA
* * **
32878487 TTTTATTATTTATTATATTATCATATTTATCATTTTAAATTT
1 TTTTATTATGTATGATATTATCATATTTATCATAATAAATTT
32878529 TTTTATTATGTATGATATTCATCATATTTAT-A-AATAATATTT
1 TTTTATTATGTATGATATT-ATCATATTTATCATAATAA-ATTT
32878571 T
1 T
32878572 AAATTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.08
42 23 0.62
43 11 0.30
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (42 bp):
TTTTATTATGTATGATATTATCATATTTATCATAATAAATTT
Found at i:32888700 original size:26 final size:26
Alignment explanation
Indices: 32888664--32888721 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
32888654 ATCGTATTAA
32888664 GTGCTTGCAATCACTCCAGATATGTC
1 GTGCTTGCAATCACTCCAGATATGTC
32888690 GTGCTTGCAATCACTCCAGATATGTC
1 GTGCTTGCAATCACTCCAGATATGTC
32888716 GTGCTT
1 GTGCTT
32888722 AAGTTATGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (26 bp):
GTGCTTGCAATCACTCCAGATATGTC
Found at i:32892808 original size:21 final size:21
Alignment explanation
Indices: 32892743--32892810 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
32892733 TATTACATTT
* * *
32892743 TATTTTAAATAGAAAATTTAA
1 TATTTTATATATAAAATTTTA
*
32892764 TTATTTCTATA-ATAAGTAACTTTA
1 -TATTT-TATATATAA--AATTTTA
32892788 TATTTTATATATAAAATTTTA
1 TATTTTATATATAAAATTTTA
32892809 TA
1 TA
32892811 GGTAATACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 8 0.22
22 12 0.32
23 12 0.32
24 5 0.14
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TATTTTATATATAAAATTTTA
Found at i:32893549 original size:22 final size:21
Alignment explanation
Indices: 32893519--32893561 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
32893509 ATTGCTTGAA
32893519 ATTTAAAAA-AACTTTCATTTTT
1 ATTTAAAAACAA-TTT-ATTTTT
*
32893541 ATTTCAAAACAATTTATTTTT
1 ATTTAAAAACAATTTATTTTT
32893562 TTAAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAAAAACAATTTATTTTT
Found at i:32894387 original size:19 final size:17
Alignment explanation
Indices: 32894340--32894387 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
32894330 TAATAAAATC
*
32894340 TTAATTTATTTTTATTT
1 TTAAATTATTTTTATTT
*
32894357 TTAAAATAATTTTTATAATT
1 TT-AAATTATTTTTAT--TT
32894377 TTAAATTATTT
1 TTAAATTATTT
32894388 GTCAATATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 8 0.32
20 4 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAAATTATTTTTATTT
Found at i:32895917 original size:11 final size:11
Alignment explanation
Indices: 32895901--32895928 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32895891 CTTAATCACT
32895901 TTAATATTAAA
1 TTAATATTAAA
32895912 TTAATATTAAA
1 TTAATATTAAA
32895923 TTAATA
1 TTAATA
32895929 GATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:32914657 original size:28 final size:27
Alignment explanation
Indices: 32914622--32914678 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
32914612 TAAGAAAGCC
*
32914622 ATAAAAAACCCTTAAATAAATAAATAA
1 ATAAAAAACCCTAAAATAAATAAATAA
32914649 ATAAGAAAACCCTAAAATAAATAAATAA
1 ATAA-AAAACCCTAAAATAAATAAATAA
32914677 AT
1 AT
32914679 TTACGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.67, C:0.11, G:0.02, T:0.21
Consensus pattern (27 bp):
ATAAAAAACCCTAAAATAAATAAATAA
Found at i:32915720 original size:17 final size:17
Alignment explanation
Indices: 32915698--32915740 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
32915688 TTGAACTATC
*
32915698 ACAATTCTTATTAAATT
1 ACAATTATTATTAAATT
*
32915715 ACAATTATTTTTAAATGT
1 ACAATTATTATTAAAT-T
*
32915733 ATAATTAT
1 ACAATTAT
32915741 CTTAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (17 bp):
ACAATTATTATTAAATT
Found at i:32920534 original size:27 final size:27
Alignment explanation
Indices: 32920499--32920551 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
32920489 GACTGAAGAA
**
32920499 AAAACCCTTAATGGTTGTGAATTGAAG
1 AAAACCCTTAATGACTGTGAATTGAAG
*
32920526 AAAACCCTTAATTACTGTGAATTGAA
1 AAAACCCTTAATGACTGTGAATTGAA
32920552 CTAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (27 bp):
AAAACCCTTAATGACTGTGAATTGAAG
Found at i:32922939 original size:63 final size:63
Alignment explanation
Indices: 32922839--32922967 Score: 240
Period size: 63 Copynumber: 2.0 Consensus size: 63
32922829 TTCACATTTG
*
32922839 GCACCAATTCTTGAATCTTCTGTTTTGTTTCAATCATATCCTCCTTCTCAAGTTTCTCTACCA
1 GCACCAATTCTTGAATCTTCTGTTTTGCTTCAATCATATCCTCCTTCTCAAGTTTCTCTACCA
*
32922902 GCACCAATTCTTGAATCTTCTGTTTTGCTTCAGTCATATCCTCCTTCTCAAGTTTCTCTACCA
1 GCACCAATTCTTGAATCTTCTGTTTTGCTTCAATCATATCCTCCTTCTCAAGTTTCTCTACCA
32922965 GCA
1 GCA
32922968 TTGTACATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.41
Consensus pattern (63 bp):
GCACCAATTCTTGAATCTTCTGTTTTGCTTCAATCATATCCTCCTTCTCAAGTTTCTCTACCA
Found at i:32925831 original size:31 final size:29
Alignment explanation
Indices: 32925768--32925833 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
32925758 ATAATGTAAA
** * *
32925768 TGACTAAAATATAACATTTCAAATATAGG
1 TGACTAAAATATAACATGACAAATAAAAG
32925797 TGACTAAAATATAACATAAGACAAATAAAAG
1 TGACTAAAATATAACAT--GACAAATAAAAG
32925828 TGACTA
1 TGACTA
32925834 TTTTGATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.55
31 14 0.45
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (29 bp):
TGACTAAAATATAACATGACAAATAAAAG
Found at i:32926558 original size:28 final size:29
Alignment explanation
Indices: 32926526--32926581 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32926516 TAAATTTAAA
32926526 ATTA-TTTTTTAAAATATAAAATTATTAT
1 ATTATTTTTTTAAAATATAAAATTATTAT
*
32926554 ATTATTTTTTTGAAATATAAAATTATTA
1 ATTATTTTTTTAAAATATAAAATTATTA
32926582 AAATTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
ATTATTTTTTTAAAATATAAAATTATTAT
Found at i:32927596 original size:15 final size:16
Alignment explanation
Indices: 32927578--32927609 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32927568 TTTAATAATT
32927578 TTATA-TTTAAAAAAA
1 TTATATTTTAAAAAAA
32927593 TTATATTTTAAAAAAA
1 TTATATTTTAAAAAAA
32927609 T
1 T
32927610 AAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTATATTTTAAAAAAA
Found at i:32927615 original size:15 final size:16
Alignment explanation
Indices: 32927583--32927615 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32927573 TAATTTTATA
*
32927583 TTTAAAAAAATTATAT
1 TTTAAAAAAATTAAAT
32927599 TTTAAAAAAA-TAAAT
1 TTTAAAAAAATTAAAT
32927614 TT
1 TT
32927616 AATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAAAAAATTAAAT
Found at i:32927628 original size:20 final size:20
Alignment explanation
Indices: 32927552--32927629 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 20
32927542 AATGATGATT
*
32927552 ATAATTTTAAAATAATTTTA
1 ATAATTTTAAAATAAATTTA
* *
32927572 ATAATTTTATATTTAAAAAAATT-
1 ATAATTTTA-A---AATAAATTTA
32927595 AT-ATTTTAAAAAAATAAATTTA
1 ATAATTTT---AAAATAAATTTA
32927617 ATAATTTTAAAAT
1 ATAATTTTAAAAT
32927630 CATTTACTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 18
0.66 0.07 0.27
Matches are distributed among these distances:
20 14 0.32
21 8 0.18
22 7 0.16
23 7 0.16
24 7 0.16
25 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATTTTAAAATAAATTTA
Found at i:32930177 original size:31 final size:31
Alignment explanation
Indices: 32930140--32930200 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
32930130 AACAACCCAA
32930140 TGGCTTAAATGAAAACTTTT-GAATAGTTTAG
1 TGGCTTAAATGAAAA-TTTTCGAATAGTTTAG
32930171 TGGCTTAAATGAAAATTTTCGAATAGTTTA
1 TGGCTTAAATGAAAATTTTCGAATAGTTTA
32930201 ATGAACCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (31 bp):
TGGCTTAAATGAAAATTTTCGAATAGTTTAG
Found at i:32948847 original size:2 final size:2
Alignment explanation
Indices: 32948840--32948866 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32948830 CACAGTGTGC
32948840 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32948867 TAATAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32954819 original size:50 final size:49
Alignment explanation
Indices: 32954760--32954864 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 49
32954750 CCCTTCTATT
* *
32954760 ACTTTAGGGGTATAAGATTTGT-TTTTGTAGCTTCAATCTGCCCCTTTGTA
1 ACTTTAGGGGTATAAGATTT-TCTTTTATAGCTTCAATCTGCCCC-CTGTA
32954810 ACTTTAGGGGTATAAGATTTTCTTTTATAGCTTCAATCTGCCCCCTGTA
1 ACTTTAGGGGTATAAGATTTTCTTTTATAGCTTCAATCTGCCCCCTGTA
32954859 ACTTTA
1 ACTTTA
32954865 AAGGTAAAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
49 11 0.21
50 41 0.79
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (49 bp):
ACTTTAGGGGTATAAGATTTTCTTTTATAGCTTCAATCTGCCCCCTGTA
Found at i:32954942 original size:40 final size:40
Alignment explanation
Indices: 32954867--32954997 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
32954857 TAACTTTAAA
* * * *
32954867 GGTAAAAGATTGGATTGT-TTTAACCCGCCCCATGGTTGG
1 GGTAAGAGATTGGATTGTCTTTAATCTGCCCTATGGTTGG
* *
32954906 GGTAAGAGATTGGATTATCTTTAATCTACCCTATGGTTGG
1 GGTAAGAGATTGGATTGTCTTTAATCTGCCCTATGGTTGG
* * *
32954946 GGTAAGAGATTGGATGGTCTTTAATCTGCCCTCTGGTTAG
1 GGTAAGAGATTGGATTGTCTTTAATCTGCCCTATGGTTGG
32954986 GGTAAGAGATTG
1 GGTAAGAGATTG
32954998 AAGGTTGTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 16 0.20
40 64 0.80
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.34
Consensus pattern (40 bp):
GGTAAGAGATTGGATTGTCTTTAATCTGCCCTATGGTTGG
Found at i:32955120 original size:50 final size:50
Alignment explanation
Indices: 32955065--32955180 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 50
32955055 TCAATATGCT
* *
32955065 CCTCTACAGCTTTAGGTGAATGAGATTTGCCATTACGGTTTCATTCTG-C
1 CCTCTACAGCTTTAGGTGAATGAGATTTGCCATTACGGTTTCAATCTGAA
* * *
32955114 CTCTCTACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGTTTCAATCTGAA
1 C-CTCTACAGCTTTAGGTGAATGAGATTTGCCATTACGGTTTCAATCTGAA
*
32955165 CCTCTATAGCTTTAGG
1 CCTCTACAGCTTTAGG
32955181 GGTAAAAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.02
50 57 0.97
51 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (50 bp):
CCTCTACAGCTTTAGGTGAATGAGATTTGCCATTACGGTTTCAATCTGAA
Found at i:32955191 original size:50 final size:49
Alignment explanation
Indices: 32955065--32955198 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 49
32955055 TCAATATGCT
* *
32955065 CCTCTACAGCTTTAGGTG-AATGAGATTTGCCATTACGGTTTCATTCTGC
1 CCTCTACAGCTTTAGGTGTAA-GAGATTTGCCATTACGGTTTCAATCTGA
* * *
32955114 CTCTCTACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGTTTCAATCTGAA
1 C-CTCTACAGCTTTAGGTGTAAGAGATTTGCCATTACGGTTTCAATCTG-A
* * * *
32955165 CCTCTATAGCTTTAGGGGTAAAAGATTTGTCATT
1 CCTCTACAGCTTTAGGTGTAAGAGATTTGCCATT
32955199 CTATCGCCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 68 0.96
51 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (49 bp):
CCTCTACAGCTTTAGGTGTAAGAGATTTGCCATTACGGTTTCAATCTGA
Found at i:32956110 original size:14 final size:15
Alignment explanation
Indices: 32956091--32956119 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32956081 CGGCCCCACC
32956091 CTTTTT-CTTTTTTT
1 CTTTTTCCTTTTTTT
32956105 CTTTTTCCTTTTTTT
1 CTTTTTCCTTTTTTT
32956120 TGAGCCGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTCCTTTTTTT
Found at i:32960491 original size:17 final size:17
Alignment explanation
Indices: 32960469--32960502 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32960459 AATCAACCTT
32960469 CTATCACCAATTTTAAC
1 CTATCACCAATTTTAAC
32960486 CTATCACCAATTTTAAC
1 CTATCACCAATTTTAAC
32960503 TTTTGATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (17 bp):
CTATCACCAATTTTAAC
Found at i:32978603 original size:3 final size:3
Alignment explanation
Indices: 32978595--32978647 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
32978585 ACAGGGTAAA
* * * *
32978595 GAT GAT GAT GAT GACT -CT GAT GAT GAT CAA GAT GAG GAT GAT GAT
1 GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
32978640 GAT GAT GA
1 GAT GAT GA
32978648 AGACGAGGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:32978639 original size:24 final size:24
Alignment explanation
Indices: 32978612--32978657 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
32978602 ATGATGACTC
*
32978612 TGATGATGATCAAGATGAGGATGA
1 TGATGATGATCAAGACGAGGATGA
*
32978636 TGATGATGATGAAGACGAGGAT
1 TGATGATGATCAAGACGAGGAT
32978658 TAAATCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (24 bp):
TGATGATGATCAAGACGAGGATGA
Found at i:32987855 original size:30 final size:30
Alignment explanation
Indices: 32987774--32987855 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
32987764 CATCCTTCAA
* *
32987774 TTTTTTTTAAAA--TTTATTATGCTTTTAT
1 TTTTTTTTAAAATTTTTATTAAGCTTCTAT
*
32987802 TTTTGTTTTGAAAATTTTAATTAAGC-TCTAT
1 TTTT-TTTT-AAAATTTTTATTAAGCTTCTAT
32987833 TTTTTTTTCAAAATTTTTATTAA
1 TTTTTTTT-AAAATTTTTATTAA
32987856 TCTCACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.09
29 4 0.09
30 21 0.47
31 8 0.18
32 8 0.18
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (30 bp):
TTTTTTTTAAAATTTTTATTAAGCTTCTAT
Found at i:32988603 original size:24 final size:23
Alignment explanation
Indices: 32988554--32988605 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
32988544 GGGTGTGTCG
**
32988554 TATTTTTTTCAATTAAATTTTGT
1 TATTTTTTTCAATTAAATTTAAT
*
32988577 TATTTTTTTCAGTTAAACTTTAAT
1 TATTTTTTTCAATTAAA-TTTAAT
32988601 TATTT
1 TATTT
32988606 CAGGAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (23 bp):
TATTTTTTTCAATTAAATTTAAT
Found at i:32989913 original size:19 final size:20
Alignment explanation
Indices: 32989881--32989942 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
32989871 TTTTAGAATT
*
32989881 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
32989900 -TTTTAAAAATTATTTTTAA
1 TTTTTAAAAATTATTTTGAA
* *
32989919 TTTTTGAAAATTATTCTG-A
1 TTTTTAAAAATTATTTTGAA
32989938 TTTTT
1 TTTTT
32989943 TTTTTTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.22
19 14 0.39
20 14 0.39
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:32989916 original size:20 final size:20
Alignment explanation
Indices: 32989881--32989933 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
32989871 TTTTAGAATT
* *
32989881 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTTAA
32989900 -TTTTAAAAATTATTTTTAA
1 TTTTTAAAAATTATTTTTAA
*
32989919 TTTTTGAAAATTATT
1 TTTTTAAAAATTATT
32989934 CTGATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTTAA
Found at i:32997573 original size:26 final size:27
Alignment explanation
Indices: 32997546--32997704 Score: 69
Period size: 28 Copynumber: 5.7 Consensus size: 27
32997536 TCCATTTATT
* * *
32997546 TTTTAAGCCCTTGTTTCACTTATTTTTTC
1 TTTTAAGCCCTTATTTCA-AT-TTTTTTA
32997575 TTTTAAGCCCTTATTTCAATTTTTTATTTTA
1 TTTTAAGCCCTTATTTCAA---TTT-TTTTA
* * *
32997606 GTTTTTAAGCCCTTATTT-AAGTACTTATTC
1 --TTTTAAGCCCTTATTTCAA-T-TTTTTTA
* *
32997636 TTTAAAGCCCTT-GTTC-A-TTTTTT-
1 TTTTAAGCCCTTATTTCAATTTTTTTA
* *
32997659 TTTGAAGCCCTTATTT-AACTTTTTTTGC
1 TTTTAAGCCCTTATTTCAA-TTTTTTT-A
*
32997687 TTTTAAGTCCTTATTTCA
1 TTTTAAGCCCTTATTTCA
32997705 CTATTCTTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
23 11 0.11
24 7 0.07
26 6 0.06
27 3 0.03
28 25 0.25
29 18 0.18
30 6 0.06
31 6 0.06
32 2 0.02
33 16 0.16
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (27 bp):
TTTTAAGCCCTTATTTCAATTTTTTTA
Found at i:32997660 original size:61 final size:62
Alignment explanation
Indices: 32997540--32997659 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 62
32997530 TTTCTTTCCA
* * ** * * * *
32997540 TTTATTTTTTAAGCCCTTGTTTCACTTATTTTTTCTTTTAAGCCCTTATTTCAATTTTTTAT
1 TTTAGTTTTTAAGCCCTTATTTCAAGTACTTATTCTTTAAAGCCCTTAGTTCAATTTTTTAT
*
32997602 TTTAGTTTTTAAGCCCTTATTT-AAGTACTTATTCTTTAAAGCCCTT-GTTCATTTTTTT
1 TTTAGTTTTTAAGCCCTTATTTCAAGTACTTATTCTTTAAAGCCCTTAGTTCAATTTTTT
32997660 TTGAAGCCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 10 0.20
61 19 0.39
62 20 0.41
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.58
Consensus pattern (62 bp):
TTTAGTTTTTAAGCCCTTATTTCAAGTACTTATTCTTTAAAGCCCTTAGTTCAATTTTTTAT
Found at i:32997802 original size:34 final size:36
Alignment explanation
Indices: 32997753--32997819 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
32997743 GTTTTAAGTA
*
32997753 TTTATTTTTTAAAGCCCTTGTTCAACTT-TTTTATT
1 TTTATTTTTTAAAGCCCTTATTCAACTTCTTTTATT
* *
32997788 TTTA-TTTTTGAAGCCCTTATTTAACTTCTTTT
1 TTTATTTTTTAAAGCCCTTATTCAACTTCTTTT
32997820 GCTTTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (36 bp):
TTTATTTTTTAAAGCCCTTATTCAACTTCTTTTATT
Found at i:32998968 original size:14 final size:15
Alignment explanation
Indices: 32998949--32998988 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
32998939 ACAAATGTAT
32998949 ATAATAAAATATTAA
1 ATAATAAAATATTAA
32998964 A-AAT-AAATATTTAA
1 ATAATAAAATA-TTAA
32998978 ATAA-AAAATAT
1 ATAATAAAATAT
32998989 ATGTCTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.23
14 9 0.41
15 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAAAATATTAA
Found at i:33004534 original size:6 final size:7
Alignment explanation
Indices: 33004517--33004542 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33004507 CCAATGAAAC
33004517 AAAAAAT
1 AAAAAAT
33004524 AAAAAAT
1 AAAAAAT
33004531 AAAAAAT
1 AAAAAAT
33004538 AAAAA
1 AAAAA
33004543 CTTCTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:33011432 original size:19 final size:19
Alignment explanation
Indices: 33011408--33011453 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33011398 GAAAATTATT
33011408 TAATTTTTGAATTAAT-TAA
1 TAATTTTTGAATT-ATGTAA
* *
33011427 TAATTTTAGAATTTTGTAA
1 TAATTTTTGAATTATGTAA
33011446 TAATTTTT
1 TAATTTTT
33011454 TAAAAGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TAATTTTTGAATTATGTAA
Found at i:33012255 original size:21 final size:22
Alignment explanation
Indices: 33012231--33012293 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
33012221 TTCAAATATT
33012231 TTAATATGTGAAATATTTCA-A
1 TTAATATGTGAAATATTTCATA
* * * *
33012252 TTAATTATTTCAAATATTATTATG
1 TTAA-TATGTGAAATATT-TCATA
*
33012276 TTTATATGTGAAATATTT
1 TTAATATGTGAAATATTT
33012294 TAAATAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 4 0.12
22 12 0.38
23 13 0.41
24 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (22 bp):
TTAATATGTGAAATATTTCATA
Found at i:33012269 original size:39 final size:41
Alignment explanation
Indices: 33012218--33012312 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 41
33012208 GTGGGTATGA
*
33012218 TATTTCAAATATT-TTA-ATATGTGAAATATTTCAATTAAT
1 TATTTCAAATATTATTATATATGTGAAATATTTCAAATAAT
*
33012257 TATTTCAAATATTATTATGTTTATATGTGAAATATTTTAAATAAT
1 TATTTCAAATATTATTA----TATATGTGAAATATTTCAAATAAT
33012302 TATTTCAAATA
1 TATTTCAAATA
33012313 AATATATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
39 13 0.27
40 3 0.06
45 32 0.67
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (41 bp):
TATTTCAAATATTATTATATATGTGAAATATTTCAAATAAT
Found at i:33012321 original size:2 final size:2
Alignment explanation
Indices: 33012314--33012346 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
33012304 TTTCAAATAA
*
33012314 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33012347 ATACTAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33012327 original size:45 final size:45
Alignment explanation
Indices: 33012234--33012337 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
33012224 AAATATTTTA
* * * *
33012234 ATATGTGAAATATTTCAATTAATTATTTCAAATATTATTATGTTT
1 ATATGTGAAATATTTCAAATAATTATTTCAAATAATATTATATAT
*
33012279 ATATGTGAAATATTTTAAATAATTATTTCAAATAAATATATATATAT
1 ATATGTGAAATATTTCAAATAATTATTTCAAAT-AATAT-TATATAT
*
33012326 ATATAT-AAATAT
1 ATATGTGAAATAT
33012338 ATATATATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 31 0.61
46 10 0.20
47 10 0.20
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (45 bp):
ATATGTGAAATATTTCAAATAATTATTTCAAATAATATTATATAT
Found at i:33013324 original size:3 final size:3
Alignment explanation
Indices: 33013316--33013357 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
33013306 CAAAATGACA
33013316 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33013358 TTTAAGTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33013833 original size:31 final size:30
Alignment explanation
Indices: 33013797--33014016 Score: 150
Period size: 31 Copynumber: 7.3 Consensus size: 30
33013787 TTAATATAAC
*
33013797 ATTTGGTACTTAAACTTGACAATTTTTCTTA
1 ATTTGGTACTTAAACTTGA-ATTTTTTCTTA
* * *
33013828 ATTTGGTACTT-AA-TT--TTTTTTTGTCCA
1 ATTTGGTACTTAAACTTGAATTTTTTCT-TA
* * * *
33013855 ATTTGATACCTAAATTTGAAATTTTTTCCTA
1 ATTTGGTACTTAAACTTG-AATTTTTTCTTA
*
33013886 ATTTGGTACCTAAACTTGATATTTTTTCTTA
1 ATTTGGTACTTAAACTTGA-ATTTTTTCTTA
* *
33013917 AGTTGGTACTTAAACTT---TTTTGGGAT-TTA
1 ATTTGGTACTTAAACTTGAATTTT---TTCTTA
* * *
33013946 ATTTGGTACTTGAACTTGACTTTTTTTCCTA
1 ATTTGGTACTTAAACTTGA-ATTTTTTCTTA
* * *
33013977 ATTTGGTACCTGAACTTGACTCTTTTTCTTA
1 ATTTGGTACTTAAACTTGAAT-TTTTTCTTA
33014008 ATTTGGTAC
1 ATTTGGTAC
33014017 CTAATTTTTT
Statistics
Matches: 150, Mismatches: 23, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
26 6 0.04
27 14 0.09
28 2 0.01
29 22 0.15
30 6 0.04
31 90 0.60
32 6 0.04
33 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.50
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTGAATTTTTTCTTA
Found at i:33014028 original size:91 final size:88
Alignment explanation
Indices: 33013797--33014044 Score: 300
Period size: 91 Copynumber: 2.8 Consensus size: 88
33013787 TTAATATAAC
* * * *
33013797 ATTTGGTACTTAAACTTGACAATTTTTCTTAATTTGGTACTTAATTTTTTTTTGTCCAATTTGAT
1 ATTTGGTACCTAAACTTGACTATTTTTCTTAATTTGGTACTTAA-TTTTTTTTGTTCAATTTGGT
* *
33013862 ACCTAAATTTGAAATTTTTTCCTA
65 ACTTAAACTTGAAATTTTTTCCTA
* ** *
33013886 ATTTGGTACCTAAACTTGA-TATTTTTTCTTAAGTTGGTACTTAAACTTTTTTGGGATTTAATTT
1 ATTTGGTACCTAAACTTGACTA-TTTTTCTTAATTTGGTACTT-AA-TTTTTTTTG-TTCAATTT
* **
33013950 GGTACTTGAACTTGACTTTTTTTCCTA
62 GGTACTTAAACTTGAAATTTTTTCCTA
* * *
33013977 ATTTGGTACCTGAACTTGACTCTTTTTCTTAATTTGGTACCTAATTTTTTTTGTTCAATTTGGTA
1 ATTTGGTACCTAAACTTGACTATTTTTCTTAATTTGGTACTTAATTTTTTTTGTTCAATTTGGTA
33014042 CTT
66 CTT
33014045 TTCAAAGTTT
Statistics
Matches: 134, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
88 15 0.11
89 44 0.33
90 11 0.08
91 63 0.47
92 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (88 bp):
ATTTGGTACCTAAACTTGACTATTTTTCTTAATTTGGTACTTAATTTTTTTTGTTCAATTTGGTA
CTTAAACTTGAAATTTTTTCCTA
Found at i:33014543 original size:59 final size:59
Alignment explanation
Indices: 33014421--33014573 Score: 179
Period size: 59 Copynumber: 2.6 Consensus size: 59
33014411 AAATGAACCT
* * * **
33014421 AAAAAAGTTTAGGTATCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAGATTGGACTC
1 AAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAATTCAAGTACCAGATTGGACAA
* *
33014480 AAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAATTCAAGTGCCA-ATTTGGGCAA
1 AAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAATTCAAGTACCAGA-TTGGACAA
* *
33014539 AAAAAA--TT-AGATACCAAATTAAAAAAAAATGTCAA
1 AAAAAAGTTTAAG-TATCAAATTAAGAAAAAATGTCAA
33014574 CTTTGGGTAC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
56 2 0.02
57 24 0.29
58 1 0.01
59 56 0.67
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.24
Consensus pattern (59 bp):
AAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAATTCAAGTACCAGATTGGACAA
Found at i:33020156 original size:59 final size:58
Alignment explanation
Indices: 33020051--33020178 Score: 222
Period size: 59 Copynumber: 2.2 Consensus size: 58
33020041 CAGATTGAAG
*
33020051 AAAA-AAACAAAAGTTAATGGCAAAAAAACTGAAGAATATAATTAGAGTCATTTTGAT
1 AAAACAAACAAAAGTTAATGGCAAAAAAAATGAAGAATATAATTAGAGTCATTTTGAT
33020108 AAAACAAACAAAAGTTAATGGCAAAAAAAATCGAAGAATATAATTAGAGTCATTTTGAT
1 AAAACAAACAAAAGTTAATGGCAAAAAAAAT-GAAGAATATAATTAGAGTCATTTTGAT
*
33020167 AAAACATACAAA
1 AAAACAAACAAA
33020179 TGTGATTCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
57 4 0.06
58 25 0.37
59 38 0.57
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (58 bp):
AAAACAAACAAAAGTTAATGGCAAAAAAAATGAAGAATATAATTAGAGTCATTTTGAT
Found at i:33021104 original size:87 final size:89
Alignment explanation
Indices: 33021004--33021180 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 89
33020994 TATACTAAAG
33021004 ATCAATCAAAATGCTTTCTAACTATCAACTAAAATAGCT-AAA-AATAGT-ATAATAACGACCAC
1 ATCAATCAAAATGCTTTCTAACTATCAACTAAAATAGCTAAAACAATA-TAATAATAACGACCAC
*
33021066 AATAAGATGGGCTATAGGAAGATAA
65 AATAAGATGGGCTATAGGAAAATAA
* * * *
33021091 ATCAATCACAATGCTTTCTAACTATTAGCTAAAATAGCTAAAAACAATATAATAATAATGACCAC
1 ATCAATCAAAATGCTTTCTAACTATCAACTAAAATAGCT-AAAACAATATAATAATAACGACCAC
*
33021156 AATAAGATGGGCTGTAGGAAAATAA
65 AATAAGATGGGCTATAGGAAAATAA
33021181 GCCTTCATGT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
87 36 0.45
89 4 0.05
90 40 0.50
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (89 bp):
ATCAATCAAAATGCTTTCTAACTATCAACTAAAATAGCTAAAACAATATAATAATAACGACCACA
ATAAGATGGGCTATAGGAAAATAA
Found at i:33023437 original size:44 final size:42
Alignment explanation
Indices: 33023349--33023502 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
33023339 TAATCAACCT
* * *
33023349 AGTCATAAGTCTTCCTTT-AAACAAAATCTCATGCTCATCTCG
1 AGTCATGAGTCTTCCTTTAAAACATAATCTCATGCTCTTC-CG
* * *
33023391 AGTCACGAGTCTTCCTTTTAAAACATAACCTCATACTTCTTCCG
1 AGTCATGAGTCTTCC-TTTAAAACATAATCTCATGC-TCTTCCG
*
33023435 AGTCATGAGTCTTCC-TTAAATCATAATCTCATGCTCTTCCCG
1 AGTCATGAGTCTTCCTTTAAAACATAATCTCATGCTCTT-CCG
* * *
33023477 AGACATGAGTATTCCTTTAATACATA
1 AGTCATGAGTCTTCCTTTAAAACATA
33023503 TCAAGTGGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.04
42 45 0.48
43 11 0.12
44 29 0.31
45 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (42 bp):
AGTCATGAGTCTTCCTTTAAAACATAATCTCATGCTCTTCCG
Found at i:33025112 original size:18 final size:21
Alignment explanation
Indices: 33025073--33025113 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
33025063 TTCATTTGAA
33025073 AATACTTTATATAATATATAT
1 AATACTTTATATAATATATAT
33025094 AATA-TTTATA-AATAT-TAT
1 AATACTTTATATAATATATAT
33025112 AA
1 AA
33025114 CAAAATGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 6 0.30
21 4 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATACTTTATATAATATATAT
Found at i:33025373 original size:17 final size:18
Alignment explanation
Indices: 33025332--33025370 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
33025322 ATTGCTTTTC
33025332 AAAAGCACTTTTAGGATA
1 AAAAGCACTTTTAGGATA
33025350 AAAAGCACTTTT-GAGATA
1 AAAAGCACTTTTAG-GATA
33025368 AAA
1 AAA
33025371 GCAATACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAAGCACTTTTAGGATA
Found at i:33026509 original size:21 final size:21
Alignment explanation
Indices: 33026484--33026531 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
33026474 AACTAATAGA
33026484 AAGTACCAAAGTACTT-ACTAG
1 AAGTACCAAAGTACTTAAC-AG
33026505 AAGTACCAAAGTACTTAACAG
1 AAGTACCAAAGTACTTAACAG
33026526 AAGTAC
1 AAGTAC
33026532 ATAACTGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.21
Consensus pattern (21 bp):
AAGTACCAAAGTACTTAACAG
Found at i:33026598 original size:22 final size:22
Alignment explanation
Indices: 33026546--33026636 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
33026536 CTGCTGGGGA
* *
33026546 AACAGAATCACACATAGTACTG
1 AACAGAAGCACACATAGTGCTG
* *
33026568 AGCAAAAGCACACATAGTGCTG
1 AACAGAAGCACACATAGTGCTG
* *
33026590 AATAGAAGCACACACAGTGCTGGGG
1 AACAGAAGCACACATAGTGCT---G
33026615 AAACAGAAGCACACATAGTGCT
1 -AACAGAAGCACACATAGTGCT
33026637 AAATAGAGAG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 35 0.64
25 1 0.02
26 19 0.35
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.14
Consensus pattern (22 bp):
AACAGAAGCACACATAGTGCTG
Found at i:33031705 original size:78 final size:79
Alignment explanation
Indices: 33031542--33031693 Score: 225
Period size: 79 Copynumber: 1.9 Consensus size: 79
33031532 AAAAAAATTT
* * * * *
33031542 ATTTGGATGTAATAAAAATATAGAAGTTCAGTTAAATAAAATGGAAAAATTCAAGGATTTATTTA
1 ATTTGAATGTAATAAAAATATAAAAGTTCAGTTAAATAAAATGAAAAAATTCAACGATTAATTTA
33031607 GCATATTAAACTTA
66 GCATATTAAACTTA
* * *
33031621 ATTTGAATGTAATAAAAATATAAAATTTCATTTAAAT-AAATGAAAAAATTTAACGATTAATTTA
1 ATTTGAATGTAATAAAAATATAAAAGTTCAGTTAAATAAAATGAAAAAATTCAACGATTAATTTA
33031685 GCATATTAA
66 GCATATTAA
33031694 TTTTTTTTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 32 0.49
79 33 0.51
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.36
Consensus pattern (79 bp):
ATTTGAATGTAATAAAAATATAAAAGTTCAGTTAAATAAAATGAAAAAATTCAACGATTAATTTA
GCATATTAAACTTA
Found at i:33032870 original size:15 final size:16
Alignment explanation
Indices: 33032838--33032872 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33032828 ACCCAATAAC
33032838 CCAAACCCAAAGTGAA
1 CCAAACCCAAAGTGAA
*
33032854 CCAAACCC-AATTGAA
1 CCAAACCCAAAGTGAA
33032869 CCAA
1 CCAA
33032873 GTCCAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.49, C:0.34, G:0.09, T:0.09
Consensus pattern (16 bp):
CCAAACCCAAAGTGAA
Found at i:33032915 original size:7 final size:7
Alignment explanation
Indices: 33032895--33032945 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
33032885 ACCAAGTCAA
33032895 ACCGTTG
1 ACCGTTG
*
33032902 GCCGTTG
1 ACCGTTG
*
33032909 ACAGTTG
1 ACCGTTG
*
33032916 ACGGTTG
1 ACCGTTG
*
33032923 ACCGTTA
1 ACCGTTG
33032930 ACCGTTG
1 ACCGTTG
33032937 ACCGTTG
1 ACCGTTG
33032944 AC
1 AC
33032946 TGTGGCTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.27
Consensus pattern (7 bp):
ACCGTTG
Found at i:33034098 original size:24 final size:23
Alignment explanation
Indices: 33034058--33034141 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
33034048 TACTTTGTTC
*
33034058 ATTATTTTTATAATTGGGATTATA
1 ATTATTTTTAT-TTTGGGATTATA
* *
33034082 ATTATATTTTATTTTGGGAATTTTG
1 ATTAT-TTTTATTTTGGG-ATTATA
*
33034107 A-TATTTTTATTTTGAGA-TATTA
1 ATTATTTTTATTTTGGGATTA-TA
*
33034129 ATTA-TGTTATTTT
1 ATTATTTTTATTTT
33034142 ATTTTAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
21 1 0.02
22 11 0.22
23 13 0.27
24 13 0.27
25 11 0.22
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (23 bp):
ATTATTTTTATTTTGGGATTATA
Found at i:33034420 original size:2 final size:2
Alignment explanation
Indices: 33034413--33034443 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33034403 ATAATTTATG
33034413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33034444 AATGTGTGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33040254 original size:42 final size:41
Alignment explanation
Indices: 33040143--33040300 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 41
33040133 TTGAGTCATA
* * *
33040143 AGTCTTACTTTAAACAAAATCTCATGCTCATCTCGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTC-TTTCGAGTCACG
* *
33040185 AGTCTTCCTTTTAAAACATAACCTCATGCTTCTTTCGAGTCATG
1 AGTCTTCC-TTT-AAACATAATCTCATGC-TCTTTCGAGTCACG
*
33040229 AGTCTTCC-TTAAATCATAATCTCATGCTCTTCCCGAGTCACG
1 AGTCTTCCTTTAAA-CATAATCTCATGCTCTT-TCGAGTCACG
*
33040271 AGTCTTCCTTTTTAACATAATCTCATGCTC
1 AGTCTTCC-TTTAAACATAATCTCATGCTC
33040301 ATCCCAAGAC
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
41 7 0.07
42 37 0.37
43 18 0.18
44 36 0.36
45 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (41 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCTTTCGAGTCACG
Found at i:33040280 original size:86 final size:85
Alignment explanation
Indices: 33040135--33040299 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 85
33040125 ATAATCAATT
* *
33040135 GAGTCATAAGTCTTACTTTAAACAAAATCTCATGCTCATCTCGAGTCACGAGTCTTCCTTTTAAA
1 GAGTCATAAGTCTTACCTTAAACAAAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTT-AA
33040200 ACATAACCTCATGCTTCTTTC
65 ACATAACCTCATGCTTCTTTC
* * * *
33040221 GAGTCATGAGTCTT-CCTTAAATCATAATCTCATGCTCTTCCCGAGTCACGAGTCTTCCTTTTTA
1 GAGTCATAAGTCTTACCTTAAA-CAAAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTAA
*
33040285 ACATAATCTCATGCT
65 ACATAACCTCATGCT
33040300 CATCCCAAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
85 21 0.30
86 50 0.70
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.36
Consensus pattern (85 bp):
GAGTCATAAGTCTTACCTTAAACAAAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTAAA
CATAACCTCATGCTTCTTTC
Found at i:33051552 original size:42 final size:42
Alignment explanation
Indices: 33051505--33051696 Score: 199
Period size: 42 Copynumber: 4.5 Consensus size: 42
33051495 ATAATAAACT
* * * *
33051505 GAGTCATAAGTCTTACTTTAAACAAAATCTCATGCTCATCTC
1 GAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
* * **
33051547 GAGTCACGAGTCTTCCTTTTAAAACATAACCTCATGCTTC-TTTC
1 GAGTCATGAGTCTTCC-TTT-AAACATAATCTCATGC-TCATCCC
*
33051591 GAGTCATGAGTCTTCC-TTAAATCATAATCTCATGCTCTTCCC
1 GAGTCATGAGTCTTCCTTTAAA-CATAATCTCATGCTCATCCC
* * *
33051633 TAGTCACGAGTCTTCCTTTTTAACATAATCTCATGCTCATCCC
1 GAGTCATGAGTCTTCC-TTTAAACATAATCTCATGCTCATCCC
* *
33051676 AAGACATGAGTCTTCCTTTAA
1 GAGTCATGAGTCTTCCTTTAA
33051697 TTTTCCTTCA
Statistics
Matches: 125, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.04
42 47 0.38
43 35 0.28
44 36 0.29
45 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (42 bp):
GAGTCATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCC
Found at i:33051583 original size:44 final size:44
Alignment explanation
Indices: 33051524--33051694 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 44
33051514 GTCTTACTTT
* *
33051524 AAACAAAATCTCATGCTCATCTCGAGTCACGAGTCTTCCTTTTA
1 AAACATAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTA
* ** *
33051568 AAACATAACCTCATGCTTC-TTTCGAGTCATGAGTCTTCC--TTA
1 AAACATAATCTCATGC-TCATCCCGAGTCACGAGTCTTCCTTTTA
* * *
33051610 AATCATAATCTCATGCTCTTCCCTAGTCACGAGTCTTCCTTTT-
1 AAACATAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTA
* * * *
33051653 TAACATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTT
1 AAACATAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTT
33051695 AATTTTCCTT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.02
42 33 0.31
43 36 0.34
44 34 0.32
45 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (44 bp):
AAACATAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTA
Found at i:33051650 original size:86 final size:85
Alignment explanation
Indices: 33051505--33051669 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 85
33051495 ATAATAAACT
* *
33051505 GAGTCATAAGTCTTACTTTAAACAAAATCTCATGCTCATCTCGAGTCACGAGTCTTCCTTTTAAA
1 GAGTCATAAGTCTTACCTTAAACAAAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTT-AA
33051570 ACATAACCTCATGCTTCTTTC
65 ACATAACCTCATGCTTCTTTC
* * * * *
33051591 GAGTCATGAGTCTT-CCTTAAATCATAATCTCATGCTCTTCCCTAGTCACGAGTCTTCCTTTTTA
1 GAGTCATAAGTCTTACCTTAAA-CAAAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTAA
*
33051655 ACATAATCTCATGCT
65 ACATAACCTCATGCT
33051670 CATCCCAAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 21 0.30
86 49 0.70
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (85 bp):
GAGTCATAAGTCTTACCTTAAACAAAATCTCATGCTCATCCCGAGTCACGAGTCTTCCTTTTAAA
CATAACCTCATGCTTCTTTC
Found at i:33052072 original size:23 final size:21
Alignment explanation
Indices: 33052046--33052087 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
33052036 AATTTTATGA
33052046 CTCTCATTATTAGCTTAATTATC
1 CTCTCATTA-TA-CTTAATTATC
*
33052069 CTCTTATTATACTTAATTA
1 CTCTCATTATACTTAATTA
33052088 ATCATGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 2 0.11
23 8 0.44
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (21 bp):
CTCTCATTATACTTAATTATC
Found at i:33053276 original size:12 final size:12
Alignment explanation
Indices: 33053259--33053288 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33053249 TTCCATTATC
33053259 ATATGTATGTAT
1 ATATGTATGTAT
33053271 ATATGTATGTAT
1 ATATGTATGTAT
33053283 AT-TGTA
1 ATATGTA
33053289 AATAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
ATATGTATGTAT
Found at i:33053365 original size:18 final size:21
Alignment explanation
Indices: 33053326--33053366 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
33053316 TTCATTTGAA
33053326 AATACTTTATATAATATATAT
1 AATACTTTATATAATATATAT
33053347 AATA-TTTATA-AATAT-TAT
1 AATACTTTATATAATATATAT
33053365 AA
1 AA
33053367 CGAAATGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 6 0.30
21 4 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATACTTTATATAATATATAT
Found at i:33058793 original size:90 final size:90
Alignment explanation
Indices: 33058640--33058820 Score: 335
Period size: 90 Copynumber: 2.0 Consensus size: 90
33058630 CAAACTCTGA
33058640 GACTTCTCATTTCATACCTGGCCACCAATACATCTTCTTCAAGTTGTTGTACATTTTCACACTGC
1 GACTTCTCATTTCATACCTGGCCACCAATACATCTTCTTCAAGTTGTTGTACATTTTCACACTGC
33058705 CCGGATGAATGGAGTAAGTACTGCT
66 CCGGATGAATGGAGTAAGTACTGCT
* * *
33058730 GACTTCTTATTTCATACTTGGCCACCAATACATCTTCTTCAGGTTGTTGTACATTTTCACACTGC
1 GACTTCTCATTTCATACCTGGCCACCAATACATCTTCTTCAAGTTGTTGTACATTTTCACACTGC
33058795 CCGGATGAATGGAGTAAGTACTGCT
66 CCGGATGAATGGAGTAAGTACTGCT
33058820 G
1 G
33058821 TGTGCCTCTG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (90 bp):
GACTTCTCATTTCATACCTGGCCACCAATACATCTTCTTCAAGTTGTTGTACATTTTCACACTGC
CCGGATGAATGGAGTAAGTACTGCT
Found at i:33063518 original size:51 final size:51
Alignment explanation
Indices: 33063399--33063586 Score: 191
Period size: 51 Copynumber: 3.6 Consensus size: 51
33063389 TTTCATTTAA
* * * ** * *
33063399 TACTCACGATGACA-TATAATCATCGGACCTCTTATTCTGTATAGGAATTCATA
1 TACTCACGATGACACT-GAGTCATCGGACCT-TTAATCCATAAAGG-ATTCATT
* * * *
33063452 TACTCATGATAACACTGAGTCATCGGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTGAGTCATCGGACCTTTAATCCATAAAGGATTCATT
* *
33063503 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTGAGTCATCGGACCTTTAATCCATAAAGGATTCATT
*
33063554 CACTCACGATGACACTTG-GTCATCGGATCCTTT
1 TACTCACGATGACAC-TGAGTCATCGGA-CCTTT
33063587 CGTTTATAGC
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
51 74 0.65
52 14 0.12
53 24 0.21
54 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTGAGTCATCGGACCTTTAATCCATAAAGGATTCATT
Found at i:33067101 original size:80 final size:80
Alignment explanation
Indices: 33066929--33067087 Score: 234
Period size: 80 Copynumber: 2.0 Consensus size: 80
33066919 GTCAAAAAAA
* * **
33066929 AAACTT-ATTTGGACGTAATAAAAATATGGAAGTTCATTTAAATAAAATGAAAAAAATTAAAGGA
1 AAACTTAATTTGAATGTAATAAAAATATAAAAGTTCATTTAAATAAAATGAAAAAAATTAAAGGA
*
33066993 TTTATTTAGCATATT
66 TTAATTTAGCATATT
* *
33067008 AAACTTAATTTGAATGTAATAAAAATATAAAATTTCATTTAAAT-AAATG-AAAAAATTTAAGGA
1 AAACTTAATTTGAATGTAATAAAAATATAAAAGTTCATTTAAATAAAATGAAAAAAATTAAAGGA
33067071 TTAATTTAGCATATT
66 TTAATTTAGCATATT
33067086 AA
1 AA
33067088 TTTTTTTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
78 29 0.40
79 11 0.15
80 32 0.44
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (80 bp):
AAACTTAATTTGAATGTAATAAAAATATAAAAGTTCATTTAAATAAAATGAAAAAAATTAAAGGA
TTAATTTAGCATATT
Found at i:33075222 original size:21 final size:21
Alignment explanation
Indices: 33075193--33075240 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
33075183 TTGAATTTTT
* *
33075193 GTATGAATTAGTTCAGCTAGG
1 GTATCAATTAATTCAGCTAGG
*
33075214 GTATCAATTAATTCAGCTAGT
1 GTATCAATTAATTCAGCTAGG
33075235 GTATCA
1 GTATCA
33075241 TCATCTCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (21 bp):
GTATCAATTAATTCAGCTAGG
Done.