Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 27 of 175
Found at i:7152971 original size:29 final size:29
Alignment explanation
Indices: 7152938--7152996 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
7152928 TCCACCTTGA
* *
7152938 CACGAATTATCAACAAACAAGTTCTTCAC
1 CACGAACTATCAACAAACAAGTTCTCCAC
* * *
7152967 CACGAACTCTCAACGAATAAGTTCTCCAC
1 CACGAACTATCAACAAACAAGTTCTCCAC
7152996 C
1 C
7152997 TCTTCCACGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.22
Consensus pattern (29 bp):
CACGAACTATCAACAAACAAGTTCTCCAC
Found at i:7154180 original size:9 final size:9
Alignment explanation
Indices: 7154168--7154270 Score: 154
Period size: 9 Copynumber: 11.6 Consensus size: 9
7154158 AATTTTCAGG
*
7154168 TAATTCGAT
1 TAATTCGGT
*
7154177 TAATTCAGT
1 TAATTCGGT
*
7154186 TAATTCAGT
1 TAATTCGGT
7154195 TAATTCGGT
1 TAATTCGGT
7154204 TAATTCGGT
1 TAATTCGGT
7154213 TAATTCGGT
1 TAATTCGGT
7154222 TAATTCGGT
1 TAATTCGGT
7154231 TAATTCGGT
1 TAATTCGGT
7154240 TAATTCGGT
1 TAATTCGGT
*
7154249 TAA-TCGGG
1 TAATTCGGT
*
7154257 TAATTCGGG
1 TAATTCGGT
7154266 TAATT
1 TAATT
7154271 TTTAACAAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
8 7 0.08
9 82 0.92
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:7154200 original size:27 final size:27
Alignment explanation
Indices: 7154148--7154270 Score: 149
Period size: 27 Copynumber: 4.5 Consensus size: 27
7154138 ACTTTTTGGG
* * *
7154148 TAATTCGGGTAATTTTCAGGTAATTCGAT
1 TAATTCGGTTAA--TTCAGTTAATTCGGT
*
7154177 TAATTCAGTTAATTCAGTTAATTCGGT
1 TAATTCGGTTAATTCAGTTAATTCGGT
*
7154204 TAATTCGGTTAATTCGGTTAATTCGGT
1 TAATTCGGTTAATTCAGTTAATTCGGT
* *
7154231 TAATTCGGTTAATTCGGTTAA-TCGGG
1 TAATTCGGTTAATTCAGTTAATTCGGT
*
7154257 TAATTCGGGTAATT
1 TAATTCGGTTAATT
7154271 TTTAACAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 17 0.20
27 59 0.69
29 10 0.12
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGTTAATTCGGT
Found at i:7156687 original size:3 final size:3
Alignment explanation
Indices: 7156679--7156745 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
7156669 AGAATACATG
* * * *
7156679 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATG ATA TTG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7156727 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
7156746 CAACATCAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7158168 original size:18 final size:17
Alignment explanation
Indices: 7158145--7158189 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
7158135 TCTTACTATC
*
7158145 ATTATTATTATTTTATTT
1 ATTATTATTA-TTTATGT
7158163 ATTATTATCTATTTATGT
1 ATTATTAT-TATTTATGT
7158181 ATT-TTATTA
1 ATTATTATTA
7158190 CAAATTGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 4 0.16
18 17 0.68
19 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTATTATTATTTATGT
Found at i:7158979 original size:43 final size:43
Alignment explanation
Indices: 7158880--7158985 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
7158870 ACAAACGCCC
* *
7158880 CTAAAGATCATGGTCTTTAGCGGCGTTTGTTGGGAAAGCGCTG
1 CTAAAGATCAGGGTCTTTAGCGGCGTTTGTTGCGAAAGCGCTG
* * * *
7158923 CTATAGACCAGGGTCGTTAGCGGCGTTT-TTGCGACAAGTGCTG
1 CTAAAGATCAGGGTCTTTAGCGGCGTTTGTTGCGA-AAGCGCTG
*
7158966 CTAAAGATTAGGGTCTTTAG
1 CTAAAGATCAGGGTCTTTAG
7158986 GCGCTTCTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 5 0.10
43 47 0.90
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
CTAAAGATCAGGGTCTTTAGCGGCGTTTGTTGCGAAAGCGCTG
Found at i:7159118 original size:86 final size:86
Alignment explanation
Indices: 7158999--7159164 Score: 242
Period size: 86 Copynumber: 1.9 Consensus size: 86
7158989 CTTCTCCCTA
* *
7158999 AAACGCCGCTAACGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
7159064 CTTTAGCGGCACTTTCCCCAC
66 CTTTAGCGGCACTTTCCCCAC
* * *** * *
7159085 AAACGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCTACAAACGCCACTAAAGAACCTTAT
1 AAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
*
7159150 CTTTAGCGGCGCTTT
66 CTTTAGCGGCACTTT
7159165 TACCAAAGAC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
CTTTAGCGGCACTTTCCCCAC
Found at i:7159165 original size:43 final size:43
Alignment explanation
Indices: 7158999--7159184 Score: 205
Period size: 43 Copynumber: 4.3 Consensus size: 43
7158989 CTTCTCCCTA
* * * * **
7158999 AAACGCCGCTAACGACCCTGATCTATAGCGGCGCTTCGACCAC
1 AAACGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTTACCAC
* * **
7159042 AAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCCCCAC
1 AAACGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTTACCAC
* * * *
7159085 AAACGCCGCTAAAG-ACCATGATCTTTAGGGGCGCTTTTTCTAC
1 AAACGCCACTAAAGAACC-TGATCTTTAGCGGCGCTTTTACCAC
*
7159128 AAACGCCACTAAAGAACCTTATCTTTAGCGGCGCTTTTACCA-
1 AAACGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTTACCAC
7159170 AAGACGCCACTAAAG
1 AA-ACGCCACTAAAG
7159185 GCCAACACCT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 5 0.04
43 111 0.93
44 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCACTAAAGAACCTGATCTTTAGCGGCGCTTTTACCAC
Found at i:7159177 original size:86 final size:86
Alignment explanation
Indices: 7158999--7159184 Score: 239
Period size: 86 Copynumber: 2.2 Consensus size: 86
7158989 CTTCTCCCTA
* *
7158999 AAACGCCGCTAACGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
*
7159064 CTTTAGCGGCACTTTCCCCAC
66 CTTTAGCGGCACTTTCACCAC
* * *** * *
7159085 AAACGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCTACAAACGCCACTAAAGAACCTTAT
1 AAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
* *
7159150 CTTTAGCGGCGCTTTTACCA-
66 CTTTAGCGGCACTTTCACCAC
*
7159170 AAGACGCCACTAAAG
1 AA-ACGCCGCTAAAG
7159185 GCCAACACCT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 2 0.02
86 84 0.98
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAAT
CTTTAGCGGCACTTTCACCAC
Found at i:7159209 original size:86 final size:88
Alignment explanation
Indices: 7159040--7159228 Score: 222
Period size: 86 Copynumber: 2.2 Consensus size: 88
7159030 CGCTTCGACC
* * **
7159040 ACAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCATG
1 ACAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCACAAACGCCACTAAAGACCAAC
* *
7159105 ATCTTTAGGGGCG-CTTTTTCT-
66 ACCTTTAGGGGAGTCTTTTTCTG
* * * *
7159126 ACAAACGCCACTAAAGAACCTTATCTTTAGCGGCGCTTTTACCA-AAGACGCCACTAAAGGCCAA
1 ACAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCACAA-ACGCCACTAAAGACCAA
* * *
7159190 CACCTTTAGTGGAGTTTTTTTTTG
65 CACCTTTAGGGGAGTCTTTTTCTG
*
7159214 AAAAACGCCACTAAA
1 ACAAACGCCACTAAA
7159229 TTTGGCAAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 2 0.02
86 64 0.74
87 6 0.07
88 14 0.16
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (88 bp):
ACAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCACAAACGCCACTAAAGACCAAC
ACCTTTAGGGGAGTCTTTTTCTG
Found at i:7159554 original size:21 final size:21
Alignment explanation
Indices: 7159528--7159619 Score: 103
Period size: 21 Copynumber: 4.4 Consensus size: 21
7159518 TTTGACGCTA
7159528 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
7159549 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
7159570 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
7159591 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
7159612 ATCTGCTT
1 CTCTGCTT
7159620 TAAGCTGCTG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.05, C:0.43, G:0.17, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:7159680 original size:66 final size:66
Alignment explanation
Indices: 7159590--7159755 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
7159580 CTCGCTGCCG
* * * *
7159590 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTCGAGTTCTTCATATCTTT-GTT
7159653 GAA
64 GAA
* * *
7159656 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTCGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTCGAGTTCTTCATATCTTTGTTGA
7159721 A
66 A
* * * *
7159722 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
7159756 TTGTGTAATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTCGAGTTCTTCATATCTTTGTTGA
A
Found at i:7165195 original size:9 final size:9
Alignment explanation
Indices: 7165178--7165681 Score: 112
Period size: 9 Copynumber: 57.3 Consensus size: 9
7165168 TAAGTATAAT
*
7165178 TAAGCTATG
1 TAAGTTATG
7165187 TAAGTTATG
1 TAAGTTATG
7165196 T-A-TTATG
1 TAAGTTATG
7165203 TAAGTTAT-
1 TAAGTTATG
*
7165211 TTA-TTATG
1 TAAGTTATG
* *
7165219 AAAATTATG
1 TAAGTTATG
*
7165228 TAAGTT-TT
1 TAAGTTATG
*
7165236 TTA-TTATG
1 TAAGTTATG
*
7165244 -AA--AAT-
1 TAAGTTATG
* *
7165249 TATGCTATG
1 TAAGTTATG
7165258 TAAGTTATG
1 TAAGTTATG
** *
7165267 TAAGTCGTA
1 TAAGTTATG
7165276 TAAGTTATG
1 TAAGTTATG
7165285 T-A-TTATG
1 TAAGTTATG
*
7165292 TGAGTTATG
1 TAAGTTATG
7165301 TAAGTTAT-
1 TAAGTTATG
*
7165309 TTA-TTATG
1 TAAGTTATG
* * *
7165317 CAAATTAAG
1 TAAGTTATG
7165326 TAAGTTATG
1 TAAGTTATG
* *
7165335 TAATTTACG
1 TAAGTTATG
*
7165344 -AA-TAAT-
1 TAAGTTATG
***
7165350 TAAAAAAATG
1 T-AAGTTATG
7165360 TAAGTTATG
1 TAAGTTATG
7165369 TAAG-T-TG
1 TAAGTTATG
7165376 TAAGTTATG
1 TAAGTTATG
7165385 TAAGTTATG
1 TAAGTTATG
*
7165394 TATA-ATAT-
1 TA-AGTTATG
**
7165402 TAA-TTAAC
1 TAAGTTATG
*
7165410 TAATTTATG
1 TAAGTTATG
* *
7165419 TAATTTACG
1 TAAGTTATG
*
7165428 TATA-ATAT-
1 TA-AGTTATG
7165436 TAA-TTAAT-
1 TAAGTT-ATG
7165444 TAAGTTATG
1 TAAGTTATG
*
7165453 TAATTTATG
1 TAAGTTATG
7165462 TATA-TTAAT-
1 TA-AGTT-ATG
7165471 TAAGTTATG
1 TAAGTTATG
*
7165480 TAATTTATG
1 TAAGTTATG
*
7165489 TATAATATTAATG
1 --TAA-GTT-ATG
7165502 TAAGTTATG
1 TAAGTTATG
*
7165511 TATA-ATATG
1 TA-AGTTATG
*
7165520 TATAATATTAATG
1 --TAA-GTT-ATG
7165533 TAAGTTATG
1 TAAGTTATG
*
7165542 TGAG-T-TG
1 TAAGTTATG
7165549 TAAGTTATG
1 TAAGTTATG
7165558 TAAGTTATG
1 TAAGTTATG
*
7165567 TACA-ATAT-
1 TA-AGTTATG
**
7165575 TAA-TTAAC
1 TAAGTTATG
7165583 TAAGTTATG
1 TAAGTTATG
*
7165592 TAATTTATG
1 TAAGTTATG
*
7165601 TATAATATTAATG
1 --TAA-GTT-ATG
7165614 TAAGTTATG
1 TAAGTTATG
*
7165623 TATA-ATAT-
1 TA-AGTTATG
7165631 TAA-TTCAT-
1 TAAGTT-ATG
7165639 TAAGTTATG
1 TAAGTTATG
*
7165648 TAATTTATG
1 TAAGTTATG
*
7165657 TATAATATTAATG
1 --TAA-GTT-ATG
7165670 TAAGTTATG
1 TAAGTTATG
7165679 TAA
1 TAA
7165682 TCTATGTATA
Statistics
Matches: 370, Mismatches: 68, Indels: 114
0.67 0.12 0.21
Matches are distributed among these distances:
6 3 0.01
7 46 0.12
8 55 0.15
9 206 0.56
10 18 0.05
11 23 0.06
12 7 0.02
13 12 0.03
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7165204 original size:16 final size:16
Alignment explanation
Indices: 7165183--7165302 Score: 69
Period size: 16 Copynumber: 7.9 Consensus size: 16
7165173 ATAATTAAGC
7165183 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
7165199 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
7165215 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
* *
7165224 TATGTAAGTTTTTTAT
1 TATGTAAGTTATGTAT
* * *
7165240 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
7165254 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
** *
7165272 CGTATAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
7165288 TATGTGAGTTATGTA
1 TATGTAAGTTATGTA
7165303 AGTTATTTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 42 0.55
17 1 0.01
18 11 0.14
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:7165225 original size:25 final size:25
Alignment explanation
Indices: 7165197--7165252 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
7165187 TAAGTTATGT
7165197 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
*
7165222 ATTATGTAAGTTTTTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
7165247 ATTATG
1 ATTATG
7165253 CTATGTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:7165292 original size:25 final size:25
Alignment explanation
Indices: 7165262--7165316 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
7165252 GCTATGTAAG
*
7165262 TTATGTAAGTCGTATAAGTTATGTA
1 TTATGTAAGTCATATAAGTTATGTA
* * * *
7165287 TTATGTGAGTTATGTAAGTTATTTA
1 TTATGTAAGTCATATAAGTTATGTA
7165312 TTATG
1 TTATG
7165317 CAAATTAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (25 bp):
TTATGTAAGTCATATAAGTTATGTA
Found at i:7165328 original size:25 final size:25
Alignment explanation
Indices: 7165276--7165336 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
7165266 GTAAGTCGTA
** * *
7165276 TAAGTTATGTATTATGTGAGTTATG
1 TAAGTTATGTATTATGCAAATTAAG
*
7165301 TAAGTTATTTATTATGCAAATTAAG
1 TAAGTTATGTATTATGCAAATTAAG
7165326 TAAGTTATGTA
1 TAAGTTATGTA
7165337 ATTTACGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGCAAATTAAG
Found at i:7165379 original size:16 final size:16
Alignment explanation
Indices: 7165358--7165390 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7165348 ATTAAAAAAA
7165358 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
7165374 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
7165390 T
1 T
7165391 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:7165395 original size:34 final size:33
Alignment explanation
Indices: 7165254--7165395 Score: 87
Period size: 34 Copynumber: 4.2 Consensus size: 33
7165244 AAAATTATGC
7165254 TATGTAAGTTATGTAAGTCGTATAAGTTATGT--AT
1 TATGTAAGTTATGTAAGT--T-TAAGTTATGTAAAT
* * *
7165288 TATGTGAGTTATGTAAGTTATTTA-TTATGCAAAT
1 TATGTAAGTTATGTAAG-T-TTAAGTTATGTAAAT
* * * *
7165322 TAAGTAAGTTATGTAA-TTTACGAATAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTTA--AGTTATGT-AAAT
* *
7165356 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTT-TAAGTTATGTAAAT
7165390 TATGTA
1 TATGTA
7165396 TAATATTAAT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
31 2 0.02
32 6 0.07
33 3 0.04
34 64 0.79
35 4 0.05
36 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.42
Consensus pattern (33 bp):
TATGTAAGTTATGTAAGTTTAAGTTATGTAAAT
Found at i:7165418 original size:34 final size:34
Alignment explanation
Indices: 7165376--7165703 Score: 195
Period size: 34 Copynumber: 10.0 Consensus size: 34
7165366 ATGTAAGTTG
*
7165376 TAAGTTATGTAAGTTATGTATAATATTAATTAAC
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
* * *
7165410 TAATTTATGTAATTTACGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
7165444 TAAGTTATGTAATTTATG--T-ATATTAA-T---
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
*
7165471 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
* *
7165502 TAAGTTATGT-ATAATATGTATAATATTAATGTAAGT
1 TAAGTTATGTAAT-TTATGTATAATATTAAT-TAA-C
* * *
7165538 TATGTGAGTTGTAAGTTATGTAAGTTATGTACAATATTAATTAAC
1 TA----AG-T-TATG-TA-AT---TTATGTATAATATTAATTAAC
*
7165583 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
* *
7165614 TAAGTTATG-----TA--T--AATATTAATTCAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
*
7165639 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAC
* *
7165670 TAAGTTATGTAATCTATGTATATTAATTAATTAA
1 TAAGTTATGTAATTTATGTATAAT-ATTAATTAA
7165704 ATGATATGTA
Statistics
Matches: 235, Mismatches: 22, Indels: 73
0.71 0.07 0.22
Matches are distributed among these distances:
22 8 0.03
23 1 0.00
24 1 0.00
25 9 0.04
26 2 0.01
27 18 0.08
29 1 0.00
30 13 0.06
31 63 0.27
32 7 0.03
33 4 0.02
34 69 0.29
36 2 0.01
37 1 0.00
38 2 0.01
39 3 0.01
40 3 0.01
41 3 0.01
42 3 0.01
43 1 0.00
45 3 0.01
46 3 0.01
47 15 0.06
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAAC
Found at i:7165439 original size:17 final size:17
Alignment explanation
Indices: 7165393--7165442 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
7165383 TGTAAGTTAT
7165393 GTATAATATTAATTAAC
1 GTATAATATTAATTAAC
* *
7165410 -TA-ATTTATGTAATTTAC
1 GTATA-ATAT-TAATTAAC
7165427 GTATAATATTAATTAA
1 GTATAATATTAATTAA
7165443 TTAAGTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
15 1 0.04
16 5 0.20
17 13 0.52
18 5 0.20
19 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (17 bp):
GTATAATATTAATTAAC
Found at i:7165502 original size:22 final size:24
Alignment explanation
Indices: 7165449--7165518 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 24
7165439 TTAATTAAGT
*
7165449 TATGTAATTTATGTATATTAATTAA
1 TATGTAATTTATGTATAAT-ATTAA
7165474 GTTATGTAATTTATGTATAATATT-A
1 --TATGTAATTTATGTATAATATTAA
*
7165499 -ATGTAAGTTATGTATAATAT
1 TATGTAATTTATGTATAATAT
7165519 GTATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
22 19 0.46
25 1 0.02
26 3 0.07
27 18 0.44
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (24 bp):
TATGTAATTTATGTATAATATTAA
Found at i:7165535 original size:173 final size:168
Alignment explanation
Indices: 7165356--7165680 Score: 526
Period size: 173 Copynumber: 1.9 Consensus size: 168
7165346 TAATTAAAAA
* *
7165356 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAATTTATGTA
1 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTACAATATTAATTAACTAAGTTATGTA
* *
7165421 ATTTACGTATAATATTAATTAATTAAGTTATGTA-ATTTATGTATATTAATTAAGTTATGTAATT
66 ATTTACGTATAATATTAA-T--GTAAGTTATGTATA-ATAT-TA-ATTAATTAAGTTATGTAATT
7165485 TATGTATAATATTAATGTAAGTTATGTATAATATGTATAATATT
125 TATGTATAATATTAATGTAAGTTATGTATAATATGTATAATATT
*
7165529 AATGTAAGTTATGTGAGTTGTAAGTTATGTAAGTTATGTACAATATTAATTAACTAAGTTATGTA
1 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTACAATATTAATTAACTAAGTTATGTA
* *
7165594 ATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTCATTAAGTTATGTAATTTATGTA
66 ATTTACGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTA
7165659 TAATATTAATGTAAGTTATGTA
131 TAATATTAATGTAAGTTATGTA
7165681 ATCTATGTAT
Statistics
Matches: 144, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
168 47 0.33
169 2 0.01
170 14 0.10
171 1 0.01
172 1 0.01
173 79 0.55
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (168 bp):
AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTACAATATTAATTAACTAAGTTATGTA
ATTTACGTATAATATTAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTA
TAATATTAATGTAAGTTATGTATAATATGTATAATATT
Found at i:7165552 original size:16 final size:16
Alignment explanation
Indices: 7165531--7165563 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7165521 ATAATATTAA
*
7165531 TGTAAGTTATGTGAGT
1 TGTAAGTTATGTAAGT
7165547 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
7165563 T
1 T
7165564 ATGTACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:7165615 original size:56 final size:56
Alignment explanation
Indices: 7165382--7165680 Score: 342
Period size: 56 Copynumber: 5.2 Consensus size: 56
7165372 GTTGTAAGTT
* *
7165382 ATGTAAGTTATGTATAATATTAATTAACTAATTTATGTAATTTACGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
* * *
7165438 ATTAATTAAGTTATGTA-ATTTATGTATATTAATTAAGTTATGTAATTTATGTATAATATTA
1 A-T--GTAAGTTATGTATA-ATAT-TA-ATTAACTAAGTTATGTAATTTATGTATAATATTA
* **
7165499 ATGTAAGTTATGTATAATATGT-A-TAA-T-A-TTAATGTAAGTTATGTGAGTTGTAAGTT-
1 ATGTAAGTTATGTATAATAT-TAATTAACTAAGTT-ATGTAATTTATGT-A-TAAT-A-TTA
*
7165555 ATGTAAGTTATGTACAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
* *
7165611 ATGTAAGTTATGTATAATATTAATTCATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
7165667 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
7165681 ATCTATGTAT
Statistics
Matches: 208, Mismatches: 17, Indels: 36
0.80 0.07 0.14
Matches are distributed among these distances:
52 2 0.01
53 13 0.06
54 2 0.01
55 8 0.04
56 91 0.44
57 8 0.04
58 19 0.09
59 28 0.13
60 5 0.02
61 32 0.15
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
Found at i:7165643 original size:81 final size:79
Alignment explanation
Indices: 7165450--7165649 Score: 230
Period size: 81 Copynumber: 2.5 Consensus size: 79
7165440 TAATTAAGTT
* * * * *
7165450 ATGTAATTTATGTATATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATA
1 ATGTAAGTTATGTATAAT-ATTAAGTTATGTAAGTTATGTACAATATTAATCTAAGTTATGTATA
7165515 ATATGTATAATATTA
65 ATATGTATAATATTA
* *
7165530 ATGTAAGTTATGT-GAGT-TGTAAGTTATGTAAGTTATGTACAATATTAATTAACTAAGTTATGT
1 ATGTAAGTTATGTATAATAT-TAAGTTATGTAAGTTATGTACAATATTAA-T--CTAAGTTATGT
*
7165593 A-ATTTATGTATAATATTA
62 ATA-ATATGTATAATATTA
7165611 ATGTAAGTTATGTATAATATTAA-TTCAT-TAAGTTATGTA
1 ATGTAAGTTATGTATAATATTAAGTT-ATGTAAGTTATGTA
7165650 ATTTATGTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
77 1 0.01
78 27 0.26
79 3 0.03
80 13 0.13
81 51 0.50
82 7 0.07
83 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.47
Consensus pattern (79 bp):
ATGTAAGTTATGTATAATATTAAGTTATGTAAGTTATGTACAATATTAATCTAAGTTATGTATAA
TATGTATAATATTA
Found at i:7165649 original size:25 final size:22
Alignment explanation
Indices: 7165589--7165634 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
7165579 TAACTAAGTT
*
7165589 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
7165611 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
7165633 AT
1 AT
7165635 TCATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:7165962 original size:11 final size:11
Alignment explanation
Indices: 7165948--7165984 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
7165938 TTGATACTAC
7165948 ATTATAATGAA
1 ATTATAATGAA
7165959 ATTATAATGAA
1 ATTATAATGAA
*
7165970 ATTATAATCAA
1 ATTATAATGAA
7165981 ATTA
1 ATTA
7165985 GAAAAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (11 bp):
ATTATAATGAA
Found at i:7167315 original size:8 final size:10
Alignment explanation
Indices: 7167292--7167328 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
7167282 TAATAACTAT
7167292 ATATATATCC
1 ATATATATCC
*
7167302 ATATATATTC
1 ATATATATCC
7167312 ATATATATCC
1 ATATATATCC
7167322 ATATATA
1 ATATATA
7167329 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:7167899 original size:27 final size:27
Alignment explanation
Indices: 7167867--7167918 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7167857 TCTTCCTTTT
* *
7167867 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
7167894 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
7167919 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:7168000 original size:12 final size:10
Alignment explanation
Indices: 7167984--7168019 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
7167974 ATTAATAACT
*
7167984 ATATATATCC
1 ATATATATTC
7167994 ATATATATTC
1 ATATATATTC
7168004 ATATATA-TC
1 ATATATATTC
7168013 ATATATA
1 ATATATA
7168020 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATATTC
Found at i:7170537 original size:41 final size:43
Alignment explanation
Indices: 7170410--7170730 Score: 242
Period size: 41 Copynumber: 7.8 Consensus size: 43
7170400 TTTTGTTACT
** *
7170410 ATTAGCGGCGCTTC-GGCAAAAACGCCGCTAAAGGTA--A-ATGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGATACCAGA-GC
* * ** * *
7170451 ATTCGCGGCGCTTACCTATAAAATGCCGCTAAA-A-GCCAGAGC
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGATACCAGAGC
* * *
7170493 ATTAGGGGCGCTCAGATAAAAACGCCACTAAAGATACTA-A-C
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATACCAGAGC
* * * *
7170534 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG--GCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATACCAGAGC
* * *
7170575 ATTAGTGGCGCTCAGATAAAAATGCCACTAAAGATA-C-GAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATACCAGAGC
* * * *
7170616 ATTAGCGACGCTTAGAGAAAAACGCCGCTAAAG--GCCAGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATACCAGAGC
* * *
7170657 ATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT--CGGACC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATACCAGAGC
* * *
7170698 ATTAGCGGTGCTAAAATAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG
7170731 GTTTAAAAAT
Statistics
Matches: 217, Mismatches: 48, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
39 2 0.01
40 3 0.01
41 177 0.82
42 32 0.15
43 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (43 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATACCAGAGC
Found at i:7170587 original size:82 final size:82
Alignment explanation
Indices: 7170470--7170731 Score: 375
Period size: 82 Copynumber: 3.2 Consensus size: 82
7170460 GCTTACCTAT
* * * *
7170470 AAAATGCCGCTAAAAGCCAGAGCATTAGGGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
7170535 TTAGCGGCGCTTAGAAA
66 TTAGCGGCGCTTAGAAA
* * *
7170552 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAATGCCACTAAAGATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
* *
7170617 TTAGCGACGCTTAGAGA
66 TTAGCGGCGCTTAGAAA
* *
7170634 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* *
7170698 ATTAGCGGTGC-TAAAATA
65 ATTAGCGGCGCTTAGAA-A
7170716 AAAACGCCGCTAAAGG
1 AAAACGCCGCTAAAGG
7170732 TTTAAAAATC
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
81 4 0.02
82 157 0.98
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGGCGCTTAGAAA
Found at i:7176509 original size:17 final size:19
Alignment explanation
Indices: 7176487--7176531 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
7176477 CTAAAATAGT
7176487 AACAAAATTA-ACAATAA-
1 AACAAAATTATACAATAAC
7176504 AACAAAAGTTATACAATAAC
1 AACAAAA-TTATACAATAAC
7176524 AACAAAAT
1 AACAAAAT
7176532 AGTAGCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 8 0.32
20 7 0.28
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.18
Consensus pattern (19 bp):
AACAAAATTATACAATAAC
Found at i:7177088 original size:26 final size:27
Alignment explanation
Indices: 7177048--7177121 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
7177038 TGTTAAGATT
7177048 TATTTTCTTTC-TTTTATTACT-TTTCA
1 TATTTT-TTTCTTTTTATTACTCTTTCA
*
7177074 TATTTTTTTCTTTTTACT-CTCTTTCA
1 TATTTTTTTCTTTTTATTACTCTTTCA
* * *
7177100 TTTTTTTCTTATTTTTTTTACT
1 TATTTTT-TTCTTTTTATTACT
7177122 ATTTTCCTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 6 0.15
26 23 0.59
27 8 0.21
28 2 0.05
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (27 bp):
TATTTTTTTCTTTTTATTACTCTTTCA
Found at i:7177097 original size:36 final size:38
Alignment explanation
Indices: 7177048--7177136 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 38
7177038 TGTTAAGATT
*
7177048 TATTTT-CTTTCTTTTATTACTTTTCATA-TTTTTTT-C
1 TATTTTACTCTCTTTTATT-CTTTTCATATTTTTTTTAC
* * *
7177084 T-TTTTACTCTCTTTCATTTTTTTCTTATTTTTTTTAC
1 TATTTTACTCTCTTTTATTCTTTTCATATTTTTTTTAC
*
7177121 TATTTTCCTCTCTTTT
1 TATTTTACTCTCTTTT
7177137 TTTCATATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
35 11 0.26
36 18 0.42
37 2 0.05
38 12 0.28
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (38 bp):
TATTTTACTCTCTTTTATTCTTTTCATATTTTTTTTAC
Found at i:7179463 original size:31 final size:32
Alignment explanation
Indices: 7179421--7179483 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
7179411 AGATAATTTT
7179421 AAAGAGTTTTTATTAGGATTCAATTACTCTTA
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTA
7179453 AAAGAG-TTTTATTAGGATTCAATTACTCTTA
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTA
7179484 TAAATTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTA
Found at i:7181811 original size:29 final size:29
Alignment explanation
Indices: 7181766--7181849 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
7181756 AATTGGACTC
*
7181766 GATACGAGAGAGGCCCAAAATCTCCTCAT
1 GATACGAGAGAGGCCCAAAAACTCCTCAT
* *
7181795 GATACGTGAGAGACCCAAAAACTCCTCAT
1 GATACGAGAGAGGCCCAAAAACTCCTCAT
* *
7181824 GATACGGGAAAGGCCCAAAAACTCCT
1 GATACGAGAGAGGCCCAAAAACTCCT
7181850 TATGTTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.15
Consensus pattern (29 bp):
GATACGAGAGAGGCCCAAAAACTCCTCAT
Found at i:7186231 original size:72 final size:73
Alignment explanation
Indices: 7186119--7186351 Score: 174
Period size: 73 Copynumber: 3.2 Consensus size: 73
7186109 TGTTCATCAG
* *
7186119 AATTGCTTACGATTTTAGTGTAAAAAAATTGGTCACAAAAA-TTAAATA-ATTGTAACCATTTAA
1 AATTGCTTACAATTTTAGTGTAAAAAAATTGATCACAAAAAGTTAAATATA-TGTAACCATTTAA
7186182 TTTTGCCAC
65 TTTTGCCAC
** * * *
7186191 AATTGCTTACAATTTTAGTGT-CGAAAATTTATCACAAAAAAGTTGAATATATGTGACCATTT-A
1 AATTGCTTACAATTTTAGTGTAAAAAAATTGATCAC-AAAAAGTTAAATATATGTAACCATTTAA
** *
7186254 TTACCGTCAC
65 TT-TTGCCAC
* * * * * * * * * *
7186264 AAGTACTTATAGTTTTAGTGTAAACAATTTGGTCACAAAAGGTTAAATATGTGTGTGACCA-TT-
1 AATTGCTTACAATTTTAGTGTAAAAAAATTGATCACAAAAAGTTAAATA--TATGTAACCATTTA
*
7186327 -TTTTGTCAC
64 ATTTTGCCAC
*
7186336 AGTTGCTTACAATTTT
1 AATTGCTTACAATTTT
7186352 GGTGGCTAAA
Statistics
Matches: 124, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
71 10 0.08
72 44 0.35
73 50 0.40
74 11 0.09
75 9 0.07
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38
Consensus pattern (73 bp):
AATTGCTTACAATTTTAGTGTAAAAAAATTGATCACAAAAAGTTAAATATATGTAACCATTTAAT
TTTGCCAC
Found at i:7188929 original size:27 final size:29
Alignment explanation
Indices: 7188893--7188968 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 29
7188883 GGAAAAAGAT
7188893 AGAGAAAGGGAT-AGG-GAAAGAGAAAGG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAGG
*
7188920 AGAGATAGGGATAAGGAGAAAGAGAAAGAG
1 AGAGAAAGGGATAAGGAGAAAGAGAAAG-G
* * *
7188950 AAAGAGAGAGATAAGGAGA
1 AGAGAAAGGGATAAGGAGA
7188969 GGAGAGAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 11 0.26
28 3 0.07
29 11 0.26
30 17 0.40
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (29 bp):
AGAGAAAGGGATAAGGAGAAAGAGAAAGG
Found at i:7188978 original size:21 final size:20
Alignment explanation
Indices: 7188946--7188996 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
7188936 AGAAAGAGAA
* *
7188946 AGAGAAAGAGAGAGATAAGG
1 AGAGAGAGAGAGAGAAAAGG
*
7188966 AGAGGAGAGAGAGGGAAAAGG
1 AGA-GAGAGAGAGAGAAAAGG
7188987 AGAGAGAGAG
1 AGAGAGAGAG
7188997 GAGGGAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.51, C:0.00, G:0.47, T:0.02
Consensus pattern (20 bp):
AGAGAGAGAGAGAGAAAAGG
Found at i:7189013 original size:27 final size:27
Alignment explanation
Indices: 7188965--7189016 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
7188955 GAGAGATAAG
* *
7188965 GAGAGGAGAGAGAGGGAAAAGGAGAGA
1 GAGAGGAGAGAAAGGCAAAAGGAGAGA
* *
7188992 GAGAGGAGGGAAAGGCAGAAGGAGA
1 GAGAGGAGAGAAAGGCAAAAGGAGA
7189017 AGGAAAGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.52, T:0.00
Consensus pattern (27 bp):
GAGAGGAGAGAAAGGCAAAAGGAGAGA
Found at i:7195079 original size:24 final size:24
Alignment explanation
Indices: 7195052--7195099 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7195042 AACTCCTTGT
7195052 AATCTAACCGATTTACCAATTTGC
1 AATCTAACCGATTTACCAATTTGC
7195076 AATCTAACCGATTTACCAATTTGC
1 AATCTAACCGATTTACCAATTTGC
7195100 TTTCCTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
AATCTAACCGATTTACCAATTTGC
Found at i:7195575 original size:20 final size:21
Alignment explanation
Indices: 7195550--7195596 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
7195540 TAGCCCAAAC
*
7195550 TGTGTGATTA-TCCACACGCT
1 TGTGTGACTACTCCACACGCT
7195570 TGTGTGACTACTCCACACGCT
1 TGTGTGACTACTCCACACGCT
7195591 TGTGTG
1 TGTGTG
7195597 CGTAGATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (21 bp):
TGTGTGACTACTCCACACGCT
Found at i:7196127 original size:18 final size:18
Alignment explanation
Indices: 7196106--7196140 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7196096 CAAGTATTCA
7196106 ACCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
7196124 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
7196141 CATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.51, G:0.00, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:7196130 original size:23 final size:23
Alignment explanation
Indices: 7196081--7196139 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7196071 TATTCACCTA
* **
7196081 AACCCAATCCAAACCCAAGTATTC
1 AACCCAA-CCCAACCCAAGTACCC
*
7196105 AACCCAACCCAACCCAATTACCC
1 AACCCAACCCAACCCAAGTACCC
7196128 AACCCAACCCAA
1 AACCCAACCCAA
7196140 TCATAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.42, C:0.46, G:0.02, T:0.10
Consensus pattern (23 bp):
AACCCAACCCAACCCAAGTACCC
Found at i:7196276 original size:18 final size:18
Alignment explanation
Indices: 7196255--7196313 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
7196245 TTCGGTTAAG
*
7196255 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAATTCAGT
**
7196273 TAATTTAGGTAATTCAGT
1 TAATTCGGGTAATTCAGT
* *
7196291 TAATTCGGTTAGTTCAGT
1 TAATTCGGGTAATTCAGT
7196309 TAATT
1 TAATT
7196314 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (18 bp):
TAATTCGGGTAATTCAGT
Found at i:7196301 original size:9 final size:9
Alignment explanation
Indices: 7196255--7196313 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
7196245 TTCGGTTAAG
*
7196255 TAATTCGGG
1 TAATTCGGT
7196264 TAATTCGGT
1 TAATTCGGT
*
7196273 TAATTTAGG-
1 TAA-TTCGGT
*
7196282 TAATTCAGT
1 TAATTCGGT
7196291 TAATTCGGT
1 TAATTCGGT
* *
7196300 TAGTTCAGT
1 TAATTCGGT
7196309 TAATT
1 TAATT
7196314 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 3 0.08
9 33 0.82
10 4 0.10
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:7196312 original size:27 final size:27
Alignment explanation
Indices: 7196254--7196313 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
7196244 ATTCGGTTAA
* *
7196254 GTAATTCGGGTAATTCGGTTAATTTAG
1 GTAATTCAGGTAATTCGGTTAATTCAG
* *
7196281 GTAATTCAGTTAATTCGGTTAGTTCAG
1 GTAATTCAGGTAATTCGGTTAATTCAG
*
7196308 TTAATT
1 GTAATT
7196314 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
GTAATTCAGGTAATTCGGTTAATTCAG
Found at i:7196489 original size:12 final size:12
Alignment explanation
Indices: 7196472--7196496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7196462 TGTTATTTCG
7196472 GGTCGGTTAACC
1 GGTCGGTTAACC
7196484 GGTCGGTTAACC
1 GGTCGGTTAACC
7196496 G
1 G
7196497 AATGAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:7209895 original size:17 final size:18
Alignment explanation
Indices: 7209873--7209906 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7209863 CATTTTATAA
*
7209873 TACATATGCAT-TTTTTT
1 TACATATACATGTTTTTT
7209890 TACATATACATGTTTTT
1 TACATATACATGTTTTT
7209907 AGAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TACATATACATGTTTTTT
Found at i:7213672 original size:20 final size:20
Alignment explanation
Indices: 7213647--7213686 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7213637 TTCATCTCAT
7213647 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
7213667 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
7213687 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:7221852 original size:44 final size:44
Alignment explanation
Indices: 7221767--7222296 Score: 521
Period size: 44 Copynumber: 11.9 Consensus size: 44
7221757 GAGTAGGAGT
*** * *
7221767 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAAC
*
7221812 AGATCTGGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
* *** * * *
7221856 ATATCTTGTCTTCCCATACTGGTGGCGAAGTA-ATCGAAGAAAAC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAAC
*
7221900 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
* * * * *
7221944 AGATCTTGTTTTTCCA--TACTGGTGGCGAAGTAGATCGAATAAAAC
1 AGATCTTG-TCTT-CATGTACTGG-CGTGAAGTAGATCAAAGAAAAC
* *
7221989 AGATCTTGTCTTCATGCACTGGCGTGAAGTAGATCAAAGACAAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
*** * * *
7222033 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAAC
* *
7222078 GGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGAAAAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
* * *
7222122 AGATCTTGTCTTCCCATACTAGTGGC--GAAGTAGATCGAAGAAAAC
1 AGATCTTGTCTT--CAT-GTACTGGCGTGAAGTAGATCAAAGAAAAC
*
7222167 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
* *** * * * * * *
7222211 AGATCTTGTATTCCCATACTGGTGGCGAAGTAGGTCGAAGATAGC
1 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAAC
* *
7222256 AGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGA
1 AGATCTTGTCTTCATGTACTGGC-GTGAAGTAGATCAAAGA
7222297 TATAAGTCTT
Statistics
Matches: 393, Mismatches: 77, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
42 6 0.02
43 12 0.03
44 192 0.49
45 172 0.44
46 5 0.01
47 6 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAC
Found at i:7222027 original size:89 final size:89
Alignment explanation
Indices: 7221767--7222298 Score: 859
Period size: 89 Copynumber: 6.0 Consensus size: 89
7221757 GAGTAGGAGT
* * * *
7221767 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTGGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
*
7221832 GGCGTGAAGTAGATCAAAGAAAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
7221856 ATATCTTGTCTTCCCATACTGGTGGCGAAGTA-ATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
7221920 GGCGTGAAGTAGATCAAAGATAAC
66 GGCGTGAAGTAGATCAAAGATAAC
* * * *
7221944 AGATCTTGTTTTTCCATACTGGTGGCGAAGTAGATCGAATAAAACAGATCTTGTCTTCATGCACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
*
7222009 GGCGTGAAGTAGATCAAAGACAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
7222033 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACGGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
* *
7222098 GGCGTGAAGTAGATTAAAGAAAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
7222122 AGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
7222187 GGCGTGAAGTAGATCAAAGATAAC
66 GGCGTGAAGTAGATCAAAGATAAC
* * * * * *
7222211 AGATCTTGTATTCCCATACTGGTGGCGAAGTAGGTCGAAGATAGCAGATCTTGTCTTCCTGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
7222276 GGCAGTGAAGTAGATCAAAGATA
66 GGC-GTGAAGTAGATCAAAGATA
7222299 TAAGTCTTAT
Statistics
Matches: 411, Mismatches: 30, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
88 81 0.20
89 311 0.76
90 19 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAAC
Found at i:7223915 original size:17 final size:18
Alignment explanation
Indices: 7223893--7223926 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7223883 CATTTTATAA
*
7223893 TACATATGCAT-TTTTTT
1 TACATATACATGTTTTTT
7223910 TACATATACATGTTTTT
1 TACATATACATGTTTTT
7223927 AGAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TACATATACATGTTTTTT
Found at i:7237446 original size:19 final size:19
Alignment explanation
Indices: 7237406--7237447 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7237396 TGTATGTAAT
*
7237406 ATATATTATGTTAACTATA
1 ATATATTATGTTAACTAAA
*
7237425 ATATA-TATGTTATATTAAA
1 ATATATTATGTTA-ACTAAA
7237444 ATAT
1 ATAT
7237448 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATATTATGTTAACTAAA
Found at i:7241468 original size:108 final size:109
Alignment explanation
Indices: 7241278--7241592 Score: 485
Period size: 108 Copynumber: 2.9 Consensus size: 109
7241268 AAAATTCAAG
* * * * *
7241278 AGGATATTTGGCTATTTGGTTAAATGAG--AAATCGAAACCCAGCACATTATGGCATG-TTCCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
7241340 GAATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
7241384 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
7241449 GAATTTCCAAACGC-AAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
* * *
7241492 ATGATATTTGGCTATTTAGTTGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * *
7241557 GAATTTCCAAACGCTAAATATTGCCTCATTTAGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
7241593 AATTTTCCTT
Statistics
Matches: 193, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
106 26 0.13
108 131 0.68
109 36 0.19
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
Found at i:7242133 original size:9 final size:9
Alignment explanation
Indices: 7242093--7242155 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
7242083 GATAAGCAAC
*
7242093 AATAATATA
1 AATAATAAA
*
7242102 AACAATAATA
1 AATAATAA-A
**
7242112 AATAATAGT
1 AATAATAAA
7242121 AATAAT--A
1 AATAATAAA
7242128 AA-AATAAA
1 AATAATAAA
7242136 AATAATAAA
1 AATAATAAA
*
7242145 AATACTAAA
1 AATAATAAA
7242154 AA
1 AA
7242156 AAGGGACTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 3 0.07
9 28 0.65
10 7 0.16
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (9 bp):
AATAATAAA
Found at i:7243461 original size:41 final size:41
Alignment explanation
Indices: 7243410--7243506 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
7243400 GATTCACCAG
* *
7243410 CACTTGGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGA
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
* *
7243451 CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGG
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
7243492 CACTTAGCCTGCTAG
1 CACTTAGCCTGCTAG
7243507 ACGTATAGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
Found at i:7246210 original size:12 final size:12
Alignment explanation
Indices: 7246193--7246224 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
7246183 CGAGTCTTGA
*
7246193 CTTCTCTTGATG
1 CTTCTCTTGACG
7246205 CTTCTCTTGACG
1 CTTCTCTTGACG
7246217 CTTCTCTT
1 CTTCTCTT
7246225 CAAGTAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.31, G:0.12, T:0.50
Consensus pattern (12 bp):
CTTCTCTTGACG
Found at i:7246513 original size:44 final size:43
Alignment explanation
Indices: 7246465--7246634 Score: 107
Period size: 44 Copynumber: 3.9 Consensus size: 43
7246455 CGTAACGTCG
*
7246465 GGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCTTA
1 GGGAGATAGAATTACTAGCTTCAATCTACTCCACTGT-ACCTTA
* * * * ** *
7246509 GGGAGGTAAAATTCGCCATTTTCGATCTACTCCAC--TACTGCTTA
1 GGGAGATAGAATT-ACTAGCTTCAATCTACTCCACTGTAC--CTTA
* * * *
7246553 GGGAGATA-ATATCT-GTGATCTTCAATCTATTCCACTGCTACC-CA
1 GGGAGATAGA-AT-TACT-AGCTTCAATCTACTCCACTG-TACCTTA
* *
7246597 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 GGGAGATAGAATTACTAGCTTCAATCTACTCCACTGTA
7246635 ACCACAGGGA
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
42 4 0.04
43 19 0.20
44 51 0.54
45 18 0.19
47 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
GGGAGATAGAATTACTAGCTTCAATCTACTCCACTGTACCTTA
Found at i:7246706 original size:132 final size:132
Alignment explanation
Indices: 7246465--7247076 Score: 777
Period size: 132 Copynumber: 4.6 Consensus size: 132
7246455 CGTAACGTCG
* * ** * *
7246465 GGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCTTAGGGAGGTAAAATTCGCCATTT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* ** * *
7246530 TCGATCTACTCCACTACTGCTTAGGGAGATAATATCTGTGATCTTCAATCTATTCCACTGCTACC
66 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
7246595 CA
131 CA
*
7246597 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGATGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * ***
7246662 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
66 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
7246727 CA
131 CA
* ** * *
7246729 AGGAGATAGAATTTTTGGCTTTAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
* * * *
7246794 TCGATCTGCTCAACTATTGCTTAGAGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
66 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
*
7246859 TA
131 CA
* *
7246861 GGGAGATAGAATTACTGGCTTCAATGTACTTCAATGTACTCCACTGTAATCAAAGGGAGGTAAAA
1 GGGAGATAGAATTACT-G-------G--CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
* *
7246926 TCTGCCATCTTCGATCTACT-C-C-A---CTTAGGGAGATAAGATCCGAAATCTTCAATCTATTC
56 TCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTC
*
7246985 CACTGCCAACTA
121 CACTGCCAACCA
* * *
7246997 GAGAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
7247062 TCGATCTACTCCACT
66 TCGATCTACTCCACT
7247077 GTCAATGCAG
Statistics
Matches: 426, Mismatches: 41, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
126 54 0.13
127 1 0.00
128 2 0.00
132 252 0.59
133 1 0.00
135 1 0.00
136 61 0.14
139 1 0.00
140 2 0.00
142 51 0.12
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC
CA
Found at i:7246719 original size:44 final size:44
Alignment explanation
Indices: 7246533--7246736 Score: 114
Period size: 44 Copynumber: 4.6 Consensus size: 44
7246523 GCCATTTTCG
* * *
7246533 ATCTACTCCACTACTGCTTAGGGAGATAATATCTGTGATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * * * * *
7246577 ATCTATTCCACTGCTACCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * * * ** *
7246620 ATGTACTCCACTGTAAC--CACAGGGATG-TAAAATCCGCCATCTTCG
1 ATCTACTCCAC--T-ACTGCTCAGGGA-GATAAGATCTGTAATCTTCA
* *
7246665 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * * *
7246709 ATCTATTCCACTGCTGCCCAAGGAGATA
1 ATCTACTCCACTACTGCTCAGGGAGATA
7246737 GAATTTTTGG
Statistics
Matches: 113, Mismatches: 35, Indels: 24
0.66 0.20 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 18 0.16
44 71 0.63
45 17 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
Found at i:7247119 original size:45 final size:44
Alignment explanation
Indices: 7247070--7247209 Score: 117
Period size: 45 Copynumber: 3.2 Consensus size: 44
7247060 CTTCGATCTA
7247070 CTCCACTGTCAATGCAGGAGGGCAAGATCTGTTATCTTCAACCTG
1 CTCCACTGTCAATGCAGGA-GGCAAGATCTGTTATCTTCAACCTG
* * * * * *
7247115 CTCCACT-ACAA-CCGATGGAGGCAAG-GCT-TGTGTCTTCGATCTG
1 CTCCACTGTCAATGC-A-GGAGGCAAGATCTGT-TATCTTCAACCTG
* * * *
7247158 CTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTG
1 CTCCACTGTCAATGCAGG-AGGCAAGATCTGTTATCTTCAACCTG
7247203 CTCCACT
1 CTCCACT
7247210 ACTGCTCAGG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 1 0.01
43 20 0.29
44 20 0.29
45 28 0.41
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (44 bp):
CTCCACTGTCAATGCAGGAGGCAAGATCTGTTATCTTCAACCTG
Found at i:7248536 original size:12 final size:11
Alignment explanation
Indices: 7248520--7248572 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 11
7248510 CTCTCATTCC
7248520 TTTTTTCTTTT
1 TTTTTTCTTTT
7248531 CTTTTTTCTTCTT
1 -TTTTTTCTT-TT
* *
7248544 TTTTTCCTCTT
1 TTTTTTCTTTT
7248555 TTTTTTCTTTT
1 TTTTTTCTTTT
7248566 TTGTTTT
1 TT-TTTT
7248573 TTGAATCTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 13 0.37
12 20 0.57
13 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:7248546 original size:11 final size:11
Alignment explanation
Indices: 7248520--7248567 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
7248510 CTCTCATTCC
*
7248520 TTTTTTCTTTT
1 TTTTTTCTTCT
7248531 CTTTTTTCTTCT
1 -TTTTTTCTTCT
*
7248543 TTTTTTCCTC-
1 TTTTTTCTTCT
7248553 TTTTTT-TTCT
1 TTTTTTCTTCT
7248563 TTTTT
1 TTTTT
7248568 GTTTTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 11 0.34
11 9 0.28
12 10 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:7251687 original size:22 final size:22
Alignment explanation
Indices: 7251617--7251687 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
7251607 AAATTCAATA
*
7251617 TCAATTTCCTTCAAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
*
7251639 TC-AATCCCGTTCAAAAATTCTC
1 TCAAATTCC-TTCAAAAATTCTC
*
7251661 TCAAATTCCTTCCAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
7251683 TCAAA
1 TCAAA
7251688 CTCTCAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.09
22 34 0.79
23 5 0.12
ACGTcount: A:0.34, C:0.30, G:0.01, T:0.35
Consensus pattern (22 bp):
TCAAATTCCTTCAAAAATTCTC
Found at i:7251693 original size:30 final size:30
Alignment explanation
Indices: 7251658--7251716 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
7251648 TTCAAAAATT
*
7251658 CTCTCAAATTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
7251688 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
7251717 TTTCCTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:7251727 original size:21 final size:22
Alignment explanation
Indices: 7251688--7251729 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7251678 TTCTCTCAAA
7251688 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
7251710 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
7251730 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:7251791 original size:26 final size:29
Alignment explanation
Indices: 7251762--7251822 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
7251752 TCTTTTTCCA
*
7251762 TTAAATTT-C-ATTATTTTAAGAA-AATT
1 TTAAATTTCCTATTATTTTAAAAATAATT
*
7251788 TTAAAATTTCCTATTTTTTTAAAAATAATT
1 TT-AAATTTCCTATTATTTTAAAAATAATT
7251818 TTAAA
1 TTAAA
7251823 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 6 0.21
28 1 0.03
29 14 0.48
30 6 0.21
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (29 bp):
TTAAATTTCCTATTATTTTAAAAATAATT
Found at i:7251836 original size:29 final size:29
Alignment explanation
Indices: 7251773--7251836 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
7251763 TAAATTTCAT
* *
7251773 TATTTTAAGAAAATTTTAAAATTTCCTAT
1 TATTTTAAAAAAATTTTAAAATTTCCTAA
* *
7251802 TTTTTTAAAAATAATTTTAAAATTT-TTAA
1 TATTTTAAAAA-AATTTTAAAATTTCCTAA
7251831 TATTTT
1 TATTTT
7251837 CAACAATGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (29 bp):
TATTTTAAAAAAATTTTAAAATTTCCTAA
Found at i:7251956 original size:14 final size:15
Alignment explanation
Indices: 7251927--7251960 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7251917 AAATTTAAAA
7251927 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
7251942 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
7251956 TTTTA
1 TTTTA
7251961 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:7254085 original size:29 final size:29
Alignment explanation
Indices: 7254043--7254648 Score: 656
Period size: 29 Copynumber: 21.3 Consensus size: 29
7254033 TTTTGACATT
*
7254043 ATTTGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
7254072 ATTTAATTAAAAACCCTAA--CT----TA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
7254095 ACTTAATTAAAAACCCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
7254123 ATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
7254152 ATTTAATTAAAAACCCTAA-CCTAACTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
7254180 ATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* **
7254209 ATTTAATTAAAAACTCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* ***
7254237 ATTTAATTAAAAACCCTTACCCTATTTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* ***
7254266 ATTTAATTAAAAACCCTTACCCTATTTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
7254295 ATTTAATTAAAAACCCTAACCTTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
7254324 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAACCCTAACCTA
* *
7254353 TTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* **
7254382 ATTTAATTAAAAACTCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
7254410 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * *
7254439 TTTTAATTAAAATCTCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
7254468 ATTTAATTAAAAA--C--A--CTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
7254491 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
7254520 TTTTACA-TGAAAACCCTAACCCTAACCT-
1 ATTTA-ATTAAAAACCCTAACCCTAACCTA
*
7254548 ATCTTAATTAAAATCCCTAACCCTAACCTA
1 AT-TTAATTAAAAACCCTAACCCTAACCTA
* * * * **
7254578 ATTTAATTGAAAACTCTTACCCTGATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* * *
7254607 TCATTTTATTTGAAATCCCTAACCCTAACCTA
1 --A-TTTAATTAAAAACCCTAACCCTAACCTA
7254639 ATTTAATTAA
1 ATTTAATTAA
7254649 TGTAAAAACC
Statistics
Matches: 491, Mismatches: 62, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
23 40 0.08
24 2 0.00
25 2 0.00
27 4 0.01
28 97 0.20
29 320 0.65
30 4 0.01
31 1 0.00
32 21 0.04
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:7254158 original size:57 final size:58
Alignment explanation
Indices: 7254043--7254648 Score: 656
Period size: 57 Copynumber: 10.7 Consensus size: 58
7254033 TTTTGACATT
*
7254043 ATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA--CT----TA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
7254095 ACTTAATTAAAAACCCTAA-CCTAACTTAATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
7254152 ATTTAATTAAAAACCCTAA-CCTAACTTAATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* ** * ***
7254209 ATTTAATTAAAAACTCTAA-CCTAATTTAATTTAATTAAAAACCCTTACCCTATTTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *** *
7254266 ATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTAACCTTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
7254324 TTTTACA-TGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* **
7254382 ATTTAATTAAAAACTCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
7254439 TTTTAATTAAAATCTCTAACCCTAACCTAATTTAATTAAAAA--C--A--CTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
7254491 ATTTAGTTAAAAACCCTAACCCTAACCTATTTTACA-TGAAAACCCTAACCCTAACCT-
1 ATTTAATTAAAAACCCTAACCCTAACCTAATTTA-ATTAAAAACCCTAACCCTAACCTA
* * * * * **
7254548 ATCTTAATTAAAATCCCTAACCCTAACCTAATTTAATTGAAAACTCTTACCCTGATTTA
1 AT-TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
7254607 TCATTTTATTTGAAATCCCTAACCCTAACCTAATTTAATTAA
1 --A-TTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAA
7254649 TGTAAAAACC
Statistics
Matches: 476, Mismatches: 55, Indels: 37
0.84 0.10 0.07
Matches are distributed among these distances:
51 26 0.05
52 59 0.12
53 3 0.01
54 2 0.00
56 2 0.00
57 182 0.38
58 165 0.35
59 1 0.00
61 35 0.07
62 1 0.00
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (58 bp):
ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:7254272 original size:86 final size:86
Alignment explanation
Indices: 7254043--7254648 Score: 632
Period size: 86 Copynumber: 7.1 Consensus size: 86
7254033 TTTTGACATT
* **
7254043 ATTTGATTAAAAACCCTAACCCTAACCTAATTTAATT-AAAA-----ACCCTAACTTAACTTAAT
1 ATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTTACCCTAACTTATTTTAAT
*
7254102 TAAAAACCCTAA-CCTAACTTA
65 TAAAAACCCTAACCCTAACCTA
* * *
7254123 ATTTAATTAAAAACCCTTACCCTAACCTAATTTAATTAAAAACCC-TAACCTAACTTAATTTAAT
1 ATTTAATTAAAAACCC-TAACCTAACCTAATTTAATTAAAAACCCTTACCCTAACTTATTTTAAT
*
7254187 TAAAAACCCTTACCCTAACCTA
65 TAAAAACCCTAACCCTAACCTA
* ** ** *
7254209 ATTTAATTAAAAACTCTAACCTAATTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATT
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTTACCCTAACTTATTTTAATT
* ***
7254274 AAAAACCCTTACCCTATTTTA
66 AAAAACCCTAACCCTAACCTA
* * * *
7254295 ATTTAATTAAAAACCCTAACCTTAACCTATTTTACA-TGAAAACCCTAACCCTAACCTATTTTAA
1 ATTTAATTAAAAACCCTAACC-TAACCTAATTTA-ATTAAAAACCCTTACCCTAACTTATTTTAA
*
7254359 TTAAAATCCCTAACCCTAACCTA
64 TTAAAAACCCTAACCCTAACCTA
* ** * *
7254382 ATTTAATTAAAAACTCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTAATT
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTTACCCTAACTTATTTTAATT
* *
7254447 AAAATCTCTAACCCTAACCTA
66 AAAAACCCTAACCCTAACCTA
* * *
7254468 ATTTAATTAAAAA--C--A-CTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACA-
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTTACCCTAACTTATTTTA-AT
*
7254527 TGAAAACCCTAACCCTAACCT-
65 TAAAAACCCTAACCCTAACCTA
* * * **
7254548 ATCTTAATTAAAATCCCTAACCCTAACCTAATTTAATTGAAAACTCTTACCCTGATTTATCATTT
1 AT-TTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTTACCCT-AACT-T-ATTT
* * *
7254613 TATTTGAAATCCCTAACCCTAACCTA
61 TAATTAAAAACCCTAACCCTAACCTA
7254639 ATTTAATTAA
1 ATTTAATTAA
7254649 TGTAAAAACC
Statistics
Matches: 449, Mismatches: 53, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
80 34 0.08
81 73 0.16
82 2 0.00
83 1 0.00
84 1 0.00
85 54 0.12
86 149 0.33
87 96 0.21
88 2 0.00
89 1 0.00
90 34 0.08
91 2 0.00
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (86 bp):
ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTTACCCTAACTTATTTTAATT
AAAAACCCTAACCCTAACCTA
Found at i:7258468 original size:9 final size:9
Alignment explanation
Indices: 7258431--7258484 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
7258421 AGCCAATAAT
7258431 ATAAACAATA
1 ATAAA-AATA
7258441 ATAAATAATA
1 ATAAA-AATA
* *
7258451 GTAATAATA
1 ATAAAAATA
7258460 ATAAAAATA
1 ATAAAAATA
*
7258469 ATAAAATTA
1 ATAAAAATA
*
7258478 CTAAAAA
1 ATAAAAA
7258485 AAGGGACTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
9 24 0.67
10 12 0.33
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (9 bp):
ATAAAAATA
Found at i:7260254 original size:16 final size:17
Alignment explanation
Indices: 7260233--7260269 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7260223 AATTTAACCA
7260233 TTTATTAAA-ATATGTT
1 TTTATTAAAGATATGTT
*
7260249 TTTATTAAAGATATTTT
1 TTTATTAAAGATATGTT
7260266 TTTA
1 TTTA
7260270 GAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTAAAGATATGTT
Found at i:7267084 original size:11 final size:11
Alignment explanation
Indices: 7267068--7267092 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7267058 GGCCCTATAT
7267068 TATAAAGAAAG
1 TATAAAGAAAG
7267079 TATAAAGAAAG
1 TATAAAGAAAG
7267090 TAT
1 TAT
7267093 CAATGCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (11 bp):
TATAAAGAAAG
Found at i:7270571 original size:16 final size:16
Alignment explanation
Indices: 7270550--7270582 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7270540 AATCTACCTT
7270550 CGTATACTTAGAAAAG
1 CGTATACTTAGAAAAG
7270566 CGTATACTTAGAAAAG
1 CGTATACTTAGAAAAG
7270582 C
1 C
7270583 ATGTGGGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (16 bp):
CGTATACTTAGAAAAG
Found at i:7278315 original size:17 final size:16
Alignment explanation
Indices: 7278295--7278329 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
7278285 TCATCATGTA
7278295 ATAACTTTCATATACAT
1 ATAACTTTCATAT-CAT
*
7278312 ATAATTTTCATATCAT
1 ATAACTTTCATATCAT
7278328 AT
1 AT
7278330 TTCTATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAACTTTCATATCAT
Found at i:7295404 original size:43 final size:41
Alignment explanation
Indices: 7295343--7295497 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
7295333 TGTGTTTTCG
7295343 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTGTA-TTACA
* * * *
7295386 TGTAAGACCATGTTTGGGACATTGGCATCGTATT-TGATT-GA
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGT-ATTACA
* *
7295427 TGTATGACC-CTGTCTGAGACAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TGT-ATTACA
7295470 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
7295498 TGTACGAGTC
Statistics
Matches: 91, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
40 2 0.02
41 25 0.27
42 9 0.10
43 53 0.58
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTGTATTACA
Found at i:7299518 original size:62 final size:62
Alignment explanation
Indices: 7299419--7299584 Score: 269
Period size: 62 Copynumber: 2.7 Consensus size: 62
7299409 ATGTACCTAC
* *
7299419 TTTATATTACAAATTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAACAAAA
1 TTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAA
*
7299481 TTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAATAAAA
1 TTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAA
* * * *
7299543 TTTATATTACAAAGTTTGTTACAAGTTTTAGTGTTTTAATGT
1 TTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGT
7299585 TGTAATGTTG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (62 bp):
TTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAAAA
Found at i:7300131 original size:6 final size:6
Alignment explanation
Indices: 7300121--7300193 Score: 110
Period size: 6 Copynumber: 12.2 Consensus size: 6
7300111 CGATCGCTTA
* *
7300121 GGCTCA GGCTCG GGCTCG AGCTCG GGCTCG GGCTCG GGCTCG GGCTCG
1 GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG
* *
7300169 GGCTCG GGCTCT GGCTCT GGCTCG G
1 GGCTCG GGCTCG GGCTCG GGCTCG G
7300194 CCTCTATATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.03, C:0.33, G:0.45, T:0.19
Consensus pattern (6 bp):
GGCTCG
Found at i:7300849 original size:14 final size:14
Alignment explanation
Indices: 7300830--7300864 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7300820 CAAATTCCAT
*
7300830 GTTAGAATAGTATC
1 GTTAGAATAATATC
7300844 GTTAGAATAATATC
1 GTTAGAATAATATC
*
7300858 ATTAGAA
1 GTTAGAA
7300865 AAAAATGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (14 bp):
GTTAGAATAATATC
Found at i:7303306 original size:16 final size:17
Alignment explanation
Indices: 7303285--7303332 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 17
7303275 TTCAATGTGG
7303285 TTCTATTATTTGTTT-A
1 TTCTATTATTTGTTTGA
7303301 TTCTATTGCATGTTTGTTTGA
1 TTCTATT--A--TTTGTTTGA
7303322 TTCTATTATTT
1 TTCTATTATTT
7303333 TCCGAATGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 7 0.26
17 3 0.11
18 1 0.04
19 1 0.04
20 7 0.26
21 8 0.30
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (17 bp):
TTCTATTATTTGTTTGA
Found at i:7304441 original size:23 final size:23
Alignment explanation
Indices: 7304414--7304563 Score: 135
Period size: 23 Copynumber: 6.5 Consensus size: 23
7304404 GTGTTATAAT
*
7304414 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTATGTTAA
* *
7304437 GTTCATGTTTTAGTTTCTGTTAA
1 GTTCATGTTTTGGTTTATGTTAA
*
7304460 GTTCATGTTTTGGTTTATGTGTTA
1 GTTCATGTTTTGGTTTATGT-TAA
* * * *
7304484 --TAATGTTCAT-GTTTCTATTAA
1 GTTCATGTT-TTGGTTTATGTTAA
**
7304505 GTTCATGTTTTGGTTTATGTTTTG
1 GTTCATGTTTTGGTTTATG-TTAA
**
7304529 GTTCATGTTTTGGTTTATGTTTTG
1 GTTCATGTTTTGGTTTATG-TTAA
7304553 GTTCATGTTTT
1 GTTCATGTTTT
7304564 TCTGTATTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
21 2 0.02
22 13 0.12
23 52 0.49
24 39 0.37
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (23 bp):
GTTCATGTTTTGGTTTATGTTAA
Found at i:7304526 original size:12 final size:12
Alignment explanation
Indices: 7304505--7304563 Score: 100
Period size: 12 Copynumber: 4.9 Consensus size: 12
7304495 TTTCTATTAA
7304505 GTTCATGTTTTG
1 GTTCATGTTTTG
*
7304517 GTTTATGTTTTG
1 GTTCATGTTTTG
7304529 GTTCATGTTTTG
1 GTTCATGTTTTG
*
7304541 GTTTATGTTTTG
1 GTTCATGTTTTG
7304553 GTTCATGTTTT
1 GTTCATGTTTT
7304564 TCTGTATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.08, C:0.05, G:0.24, T:0.63
Consensus pattern (12 bp):
GTTCATGTTTTG
Found at i:7304536 original size:24 final size:24
Alignment explanation
Indices: 7304505--7304563 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
7304495 TTTCTATTAA
7304505 GTTCATGTTTTGGTTTATGTTTTG
1 GTTCATGTTTTGGTTTATGTTTTG
7304529 GTTCATGTTTTGGTTTATGTTTTG
1 GTTCATGTTTTGGTTTATGTTTTG
7304553 GTTCATGTTTT
1 GTTCATGTTTT
7304564 TCTGTATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.08, C:0.05, G:0.24, T:0.63
Consensus pattern (24 bp):
GTTCATGTTTTGGTTTATGTTTTG
Found at i:7304584 original size:69 final size:67
Alignment explanation
Indices: 7304426--7304562 Score: 181
Period size: 68 Copynumber: 2.1 Consensus size: 67
7304416 TCATGTTTTG
* * *
7304426 GTTTCTGTTAAGTTCATGTTTTAGTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTT
1 GTTTCTATTAAGTTCATGTTTTAGTTTATGTTAAGTTCATGTTTTGGTTTATGTGTTAT-AGGTT
7304491 CAT
65 CAT
* **
7304494 GTTTCTATTAAGTTCATGTTTTGGTTTATGTTTTGGTTCATGTTTTGGTTTATGT-TT-T-GGTT
1 GTTTCTATTAAGTTCATGTTTTAGTTTATG-TTAAGTTCATGTTTTGGTTTATGTGTTATAGGTT
7304556 CAT
65 CAT
7304559 GTTT
1 GTTT
7304563 TTCTGTATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
65 10 0.16
67 1 0.02
68 29 0.47
69 22 0.35
ACGTcount: A:0.15, C:0.07, G:0.20, T:0.58
Consensus pattern (67 bp):
GTTTCTATTAAGTTCATGTTTTAGTTTATGTTAAGTTCATGTTTTGGTTTATGTGTTATAGGTTC
AT
Found at i:7305157 original size:113 final size:114
Alignment explanation
Indices: 7305029--7305277 Score: 446
Period size: 113 Copynumber: 2.2 Consensus size: 114
7305019 TAAAGTTTGG
*
7305029 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAACTAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
* * *
7305094 TGCATAAAACTAATTAAATTATATATTTACAAATTAATTATATTATATT
66 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATT
7305143 AT-TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
7305207 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATT
66 TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATT
7305256 ATAATTTTTTATTTTTAATATT
1 AT-ATTTTTTATTTTTAATATT
7305278 TTTTATTTTT
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
113 109 0.84
114 2 0.02
115 18 0.14
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (114 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
TGCATAAAAATAATTAAATTATATATTTACAAATTAATTAAATTAAATT
Found at i:7305221 original size:131 final size:127
Alignment explanation
Indices: 7305079--7305549 Score: 478
Period size: 131 Copynumber: 3.7 Consensus size: 127
7305069 ATCTGTTAAA
*
7305079 ATAAAACTAATTAAATGCATAAAACTAATTAAATTATATATTTACAAATTAATTATATTATATTA
1 ATAAAACTAATTAAAT--ATAATACTAATTAAATTATATA-TTA-AAATTAATTATATTATATTA
7305144 TTTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAATG
62 TTTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAATG
7305209 C
127 C
* * * * *
7305210 ATAAAAATAATTAAATTATATATTTACAAATT-AATTA-A-ATTAAATTATAATT-TTTTATTTT
1 ATAAAACTAATTAAA-TATA-A--TACTAATTAAATTATATATTAAAAT-TAATTATATTA-TAT
*
7305271 TAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAATTAATTA
60 T-AT-TTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTA
7305336 AATGC
123 AATGC
* * *
7305341 ATAAAACTAATTAAAT-T-ATA-TATTTAAA-AAT-TAATT-AAATTAAATTAAATTA-A--A-T
1 ATAAAACTAATTAAATATAATACTAATTAAATTATAT-ATTAAAATT-AATTATATTATATTATT
*
7305396 TTTTTATTTTTAATATTCCAATTTATTAAATAATGCAT-TTTTAAAATAAAAATAATTAAATGC
64 TTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAATGC
* * * * ** * *
7305459 ATAAAACTAATTAAAT-TATGTATTAA--AAATTAATTAAATTAAATTTTTTTAT-TTTTAATA-
1 ATAAAACTAATTAAATATA-ATACTAATTAAATT-A-TATATTAAAATTAATTATATTATATTAT
7305519 TTTTTTATTTTTAATATTCCAATTTATTAAA
63 TTTTTTATTTTTAATATTCCAATTTATTAAA
7305550 ATAAAAATAA
Statistics
Matches: 289, Mismatches: 26, Indels: 57
0.78 0.07 0.15
Matches are distributed among these distances:
118 40 0.14
119 42 0.15
120 2 0.01
121 6 0.02
122 8 0.03
123 4 0.01
124 37 0.13
125 11 0.04
126 6 0.02
127 1 0.00
128 7 0.02
129 12 0.04
130 7 0.02
131 94 0.33
132 6 0.02
133 6 0.02
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (127 bp):
ATAAAACTAATTAAATATAATACTAATTAAATTATATATTAAAATTAATTATATTATATTATTTT
TTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAATGC
Found at i:7305278 original size:16 final size:16
Alignment explanation
Indices: 7305259--7305293 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7305249 TTAAATTATA
7305259 ATTTTTTATTTTTAAT
1 ATTTTTTATTTTTAAT
7305275 ATTTTTTATTTTTAAT
1 ATTTTTTATTTTTAAT
7305291 ATT
1 ATT
7305294 CCAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTATTTTTAAT
Found at i:7305383 original size:5 final size:5
Alignment explanation
Indices: 7305368--7305396 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
7305358 ATATATTTAA
7305368 AAATT -AATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
7305397 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AAATT
Found at i:7305475 original size:23 final size:25
Alignment explanation
Indices: 7305449--7305502 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
7305439 AAATAAAAAT
7305449 AATTAAATGCA-T-AAAACTAATTA
1 AATTAAATGCATTAAAAACTAATTA
* *
7305472 AATT--ATGTATTAAAAATTAATTA
1 AATTAAATGCATTAAAAACTAATTA
7305495 AATTAAAT
1 AATTAAAT
7305503 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.16
22 1 0.04
23 18 0.72
25 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
AATTAAATGCATTAAAAACTAATTA
Found at i:7305516 original size:16 final size:17
Alignment explanation
Indices: 7305497--7305536 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
7305487 ATTAATTAAA
7305497 TTAAAT-TTTTTTATTT
1 TTAAATATTTTTTATTT
7305513 TT-AATATTTTTTATTT
1 TTAAATATTTTTTATTT
7305529 TT-AATATT
1 TTAAATATT
7305537 CCAATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTAAATATTTTTTATTT
Found at i:7305579 original size:108 final size:108
Alignment explanation
Indices: 7305270--7305565 Score: 346
Period size: 119 Copynumber: 2.6 Consensus size: 108
7305260 TTTTTTATTT
* * *
7305270 TTAATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAATTAATT
1 TTAA-ATTTTTTATTTTTAATATTCCAATTTATTAAATAATCCAT-TTTTAAAATAAAAATAATT
*
7305335 AAATGCATAAAACTAATTAAATTATATATTTAAAAATTAATTAAATTAAATTAAA
64 AAATGCATAAAACTAATT-AA--AT-TATGT----ATTAA--AAATTAAATTAAA
*
7305390 TTAAATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTTTAAAATAAAAATAATTAA
1 TTAAATTTTTTATTTTTAATATTCCAATTTATTAAATAATCCATTTTTAAAATAAAAATAATTAA
7305455 ATGCATAAAACTAATTAAATTATGTATTAAAAATT-AATTAAA
66 ATGCATAAAACTAATTAAATTATGTATTAAAAATTAAATTAAA
*** *
7305497 TTAAATTTTTTTATTTTTAATATTTTTTATTT-TT-AATATTCCAATTTATTAAAATAAAAATAA
1 TTAAA-TTTTTTATTTTTAATA-TTCCAATTTATTAAATAATCC-ATTT-TTAAAATAAAAATAA
7305560 TTAAAT
62 TTAAAT
7305566 TATATATTTA
Statistics
Matches: 164, Mismatches: 8, Indels: 19
0.86 0.04 0.10
Matches are distributed among these distances:
107 18 0.11
108 27 0.16
109 27 0.16
110 5 0.03
114 4 0.02
115 2 0.01
117 2 0.01
118 35 0.21
119 40 0.24
120 4 0.02
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (108 bp):
TTAAATTTTTTATTTTTAATATTCCAATTTATTAAATAATCCATTTTTAAAATAAAAATAATTAA
ATGCATAAAACTAATTAAATTATGTATTAAAAATTAAATTAAA
Found at i:7307429 original size:71 final size:71
Alignment explanation
Indices: 7307313--7307454 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
7307303 AATTGTGAGG
*
7307313 GATTTCTTGCACCTTTTAGAGGCCAACGATATCATTTGAATGAGTGGCGTCAGGGTTATCAACCA
1 GATTTCTTGCACCTTTTAGAGGCCAACGATATCATTTGAATGAGTGGCATCAGGGTTATCAACCA
7307378 AGTACT
66 AGTACT
7307384 GATTTCTTGCACCTTTTAGAGGCCAACGATATCATTTGAATGAGTGGCATCAGGGTTATCAACCA
1 GATTTCTTGCACCTTTTAGAGGCCAACGATATCATTTGAATGAGTGGCATCAGGGTTATCAACCA
7307449 AGTACT
66 AGTACT
7307455 CTGCAAGAAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (71 bp):
GATTTCTTGCACCTTTTAGAGGCCAACGATATCATTTGAATGAGTGGCATCAGGGTTATCAACCA
AGTACT
Found at i:7308005 original size:49 final size:49
Alignment explanation
Indices: 7307948--7308051 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
7307938 TCATGTGTTA
* * * *
7307948 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTTAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
7307997 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
7308046 TAATTT
1 TAATTT
7308052 GTTTTTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:7309473 original size:16 final size:16
Alignment explanation
Indices: 7309452--7309494 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
7309442 TAAATTCATA
7309452 TAAGAATATTTAATAT
1 TAAGAATATTTAATAT
7309468 TAAGAATATTTAATAT
1 TAAGAATATTTAATAT
7309484 TAAGAAT-TTTA
1 TAAGAATATTTA
7309495 TTAAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
TAAGAATATTTAATAT
Found at i:7309654 original size:120 final size:120
Alignment explanation
Indices: 7309404--7310243 Score: 1356
Period size: 120 Copynumber: 7.0 Consensus size: 120
7309394 AAGTAGATTA
7309404 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * *
7309469 AAGAATATTTA--ATATTA-AGAATTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAAT-TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
7309522 TAGATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
7309587 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
7309642 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
7309704 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTT
* *
7309761 TAAATTATATTTTATAGTGTTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * * *
7309826 AAGAATTTTATTAAACTATATATTTTAATTAAATTATATTTAAAAATAATTAATT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
7309881 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
7309943 AAGAATTTTATTAAATTATATATTTTTACTAAACTATATTTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAA-T-TATATTTAATAATAATTATTT
* *
7310000 CAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * * *
7310065 AAGAATTTTATTAAATTATATATTATTATTAAATTATATTTAAAAATAATTAATG
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
7310120 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATAGT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
7310185 AAGAATTTTATTAAATTATATATTTTCATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
7310240 TAAA
1 TAAA
7310244 ATATGATTAA
Statistics
Matches: 671, Mismatches: 38, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
117 105 0.16
118 70 0.10
119 128 0.19
120 267 0.40
121 1 0.00
122 100 0.15
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
Found at i:7309730 original size:18 final size:17
Alignment explanation
Indices: 7309709--7309746 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
7309699 ATATTAAGAA
*
7309709 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
7309727 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
7309744 TTT
1 TTT
7309747 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:7309822 original size:239 final size:238
Alignment explanation
Indices: 7309404--7310243 Score: 1375
Period size: 239 Copynumber: 3.5 Consensus size: 238
7309394 AAGTAGATTA
7309404 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATT
* * * * *
7309469 AAGAATATTTA--ATATTA-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAGATTATA
64 AAGAAT-TTTATTAAATTATATATTTTTACTAAATTATATTTAATAATAATTATTTTAAATTATA
* *
7309531 TTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
128 TTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTT
* *
7309596 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
193 ATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATT
7309642 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTAA
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAA
7309706 GAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATAT
66 GAATTTTATTAAATTATATATTTTTACTAAATTATA--TTTAATAATAATTATTTTAAATTATAT
*
7309771 TTTATAGTGTTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTA
129 TTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTA
* *
7309836 TTAAACTATATATTTTAATTAAATTATATTTAAAAATAATTAATT
194 TTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATT
7309881 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTAA
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAA
* *
7309945 GAATTTTATTAAATTATATATTTTTACTAAACTATATTTTTAATAATAATTATTTCAAATTATAT
66 GAATTTTATTAAATTATATATTTTTACTAAA-T-TATATTTAATAATAATTATTTTAAATTATAT
7310010 TTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTA
129 TTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTA
* *
7310075 TTAAATTATATATTATTATTAAATTATATTTAAAAATAATTAATG
194 TTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATT
* *
7310120 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATAGT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATT
* * *
7310185 AAGAATTTTATTAAATTATATATTTTCATTAAATTATATTTAATAATAATTATGTTAAA
64 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTAATAATAATTATTTTAAA
7310244 ATATGATTAA
Statistics
Matches: 566, Mismatches: 26, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
234 4 0.01
235 23 0.04
236 5 0.01
237 16 0.03
238 45 0.08
239 399 0.70
240 23 0.04
241 4 0.01
242 47 0.08
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (238 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAA
GAATTTTATTAAATTATATATTTTTACTAAATTATATTTAATAATAATTATTTTAAATTATATTT
TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATT
AAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATT
Found at i:7309866 original size:16 final size:17
Alignment explanation
Indices: 7309830--7309864 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7309820 AATATTAAGA
7309830 ATTTTATTAAACTATAT
1 ATTTTATTAAACTATAT
*
7309847 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAACTATAT
7309865 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAACTATAT
Found at i:7310115 original size:359 final size:355
Alignment explanation
Indices: 7309404--7310236 Score: 1352
Period size: 359 Copynumber: 2.3 Consensus size: 355
7309394 AAGTAGATTA
7309404 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * * *
7309469 AAGAATATTTA--ATATTA-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAGATTATA
66 AAGAAT-TTTATTAAATTATA-TATTTTATTAAATTATATTTAATAATAATTAATTTAAATTATA
7309531 TTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
129 TTTTATAGTATTATATATTATGATTATAGTAAATTC--ATAAGAATATTTAATATTAAGAATTTT
* *
7309596 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
192 ATTAAATTATATATTTTTACTAAATTATATTTAATAATAATTATTTCAAATTATATTTTATAGTA
7309661 TTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
257 TTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * * *
7309726 TTTTTACTAAATTATATTTTTAATAATAATTATTT
322 TTATTACTAAATTATA-TTTTAAAAATAATTAATG
* *
7309761 TAAATTATATTTTATAGTGTTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
7309826 AAGAATTTTATTAAACTATATATTTTAATTAAATTATATTTAAAAATAATTAATTTAAATTATAT
66 AAGAATTTTATTAAATTATATATTTT-ATTAAATTATATTTAATAATAATTAATTTAAATTATAT
*
7309891 TTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTAAGAATTTTATT
130 TTTATAGTATTATATATTATGATTATAGTAAATTCATAAGAATATTTAATATTAAGAATTTTATT
*
7309955 AAATTATATATTTTTACTAAACTATATTTTTAATAATAATTATTTCAAATTATATTTTATAGTAT
195 AAATTATATATTTTTACTAAA-T-TATATTTAATAATAATTATTTCAAATTATATTTTATAGTAT
7310020 TATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAAATTATA
258 TATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATTAAGAATTTTATTAAATTATA
*
7310085 TATTATTATTAAATTATA-TTTAAAAATAATTAATG
320 TATTATTACTAAATTATATTTTAAAAATAATTAATG
* *
7310120 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATAGT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
7310185 AAGAATTTTATTAAATTATATATTTTCATTAAATTATATTTAATAATAATTA
66 AAGAATTTTATTAAATTATATATTTT-ATTAAATTATATTTAATAATAATTA
7310237 TGTTAAAATA
Statistics
Matches: 443, Mismatches: 24, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
356 53 0.12
357 70 0.16
358 73 0.16
359 194 0.44
361 53 0.12
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (355 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTAATTTAAATTATATT
TTATAGTATTATATATTATGATTATAGTAAATTCATAAGAATATTTAATATTAAGAATTTTATTA
AATTATATATTTTTACTAAATTATATTTAATAATAATTATTTCAAATTATATTTTATAGTATTAT
ATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTAT
TACTAAATTATATTTTAAAAATAATTAATG
Found at i:7310215 original size:18 final size:17
Alignment explanation
Indices: 7310189--7310223 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
7310179 AATAGTAAGA
7310189 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
7310206 ATTTTCATTAAATTATAT
1 ATTTT-ATTAAATTATAT
7310224 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:7310448 original size:45 final size:44
Alignment explanation
Indices: 7310366--7310461 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
7310356 ATTACAACAT
* *
7310366 CATTCCATTCAACTAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
7310410 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
7310455 CATTACA
1 CATTACA
7310462 CCTCTATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.43
45 26 0.55
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:7310465 original size:16 final size:16
Alignment explanation
Indices: 7310440--7310477 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7310430 TTGAATTACT
*
7310440 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
7310456 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
7310472 ATTACA
1 ATTACA
7310478 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:7310573 original size:16 final size:16
Alignment explanation
Indices: 7310549--7310591 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
7310539 ATTTATTTTT
* *
7310549 TTCCTTCTCTTTCTCC
1 TTCCCTCTCTTTATCC
*
7310565 TTCCCTCTCTTTATTC
1 TTCCCTCTCTTTATCC
7310581 -TCCCTCTCTTT
1 TTCCCTCTCTTT
7310592 TTTTCTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCCCTCTCTTTATCC
Found at i:7310647 original size:3 final size:3
Alignment explanation
Indices: 7310639--7310679 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
7310629 CTCCTTCTCT
*
7310639 TTC TTC TTC TTC -TC TTC TT- TTC TTC TTC TTT TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7310680 CTTTCTCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:7316018 original size:27 final size:27
Alignment explanation
Indices: 7315983--7316037 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
7315973 TATTATAAAT
7315983 ATATTTATACGTAAATATAAATTTTAA
1 ATATTTATACGTAAATATAAATTTTAA
*
7316010 ATATTTATATGTAAATATAAATTTTAA
1 ATATTTATACGTAAATATAAATTTTAA
7316037 A
1 A
7316038 ATTATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATTTATACGTAAATATAAATTTTAA
Found at i:7316039 original size:14 final size:13
Alignment explanation
Indices: 7315994--7316037 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
7315984 TATTTATACG
7315994 TAAATATAAATTT
1 TAAATATAAATTT
** *
7316007 TAAATATTTATATG
1 TAAATATAAAT-TT
7316021 TAAATATAAATTT
1 TAAATATAAATTT
7316034 TAAA
1 TAAA
7316038 ATTATTAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TAAATATAAATTT
Found at i:7318691 original size:10 final size:10
Alignment explanation
Indices: 7318676--7318703 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7318666 GTTCTTTCTA
7318676 TTGTTCTTTG
1 TTGTTCTTTG
7318686 TTGTTCTTTG
1 TTGTTCTTTG
7318696 TTGTTCTT
1 TTGTTCTT
7318704 CTTTTGGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.18, T:0.71
Consensus pattern (10 bp):
TTGTTCTTTG
Found at i:7320186 original size:17 final size:18
Alignment explanation
Indices: 7320156--7320189 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7320146 TACTTAAATT
*
7320156 TTGTCTGTTTTAGAGAAG
1 TTGTCTGTTATAGAGAAG
7320174 TTGT-TGTTATAGAGAA
1 TTGTCTGTTATAGAGAA
7320190 ACAACTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (18 bp):
TTGTCTGTTATAGAGAAG
Found at i:7333762 original size:12 final size:13
Alignment explanation
Indices: 7333745--7333777 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7333735 GTTAAGAAGA
7333745 ATTTAAAATA-TT
1 ATTTAAAATAGTT
7333757 ATTTAAAATAGTT
1 ATTTAAAATAGTT
*
7333770 ATATAAAA
1 ATTTAAAA
7333778 ATACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTTAAAATAGTT
Found at i:7336428 original size:18 final size:16
Alignment explanation
Indices: 7336392--7336423 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7336382 TTTTATTTAT
7336392 ATATATAAATTAAAAA
1 ATATATAAATTAAAAA
7336408 ATATATAAATTAAAAA
1 ATATATAAATTAAAAA
7336424 TAATACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATATATAAATTAAAAA
Found at i:7336832 original size:13 final size:11
Alignment explanation
Indices: 7336804--7336835 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7336794 TATTTCAGTA
7336804 TTCTCTCAAAT
1 TTCTCTCAAAT
7336815 TTCTCTCAAAT
1 TTCTCTCAAAT
*
7336826 TCCTCTCAAA
1 TTCTCTCAAA
7336836 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:7338002 original size:7 final size:7
Alignment explanation
Indices: 7337990--7338022 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7337980 TAGTCGATTC
7337990 GTATTTA
1 GTATTTA
7337997 GTATTTA
1 GTATTTA
7338004 GTATTTA
1 GTATTTA
7338011 GTATTTA
1 GTATTTA
7338018 GTATT
1 GTATT
7338023 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:7338555 original size:30 final size:30
Alignment explanation
Indices: 7338519--7338586 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
7338509 GACGACGATG
** *
7338519 CAGGCCCATTAACAGCACCCATACAATCAC
1 CAGGCCCAGCAACAGCACCCACACAATCAC
* *
7338549 CAGGCCCAGCAACAGCACCTACATAATCAC
1 CAGGCCCAGCAACAGCACCCACACAATCAC
7338579 CAGGCCCA
1 CAGGCCCA
7338587 ACACTTCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.41, G:0.13, T:0.10
Consensus pattern (30 bp):
CAGGCCCAGCAACAGCACCCACACAATCAC
Found at i:7340240 original size:97 final size:96
Alignment explanation
Indices: 7340055--7340487 Score: 611
Period size: 97 Copynumber: 4.4 Consensus size: 96
7340045 CCTAAACCTC
*
7340055 AAACCCTAATTTATTTAA-TTTTTCCTTAAAACCCTAAATACTAAACCCTAATCTAATTTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAA-TTTTTTT
7340119 AAAATTTATAATTAATTTACTCAAGTAACCCT
65 AAAATTTATAATTAATTTACTCAAGTAACCCT
*
7340151 AAACCCTAATTTATTTAATTTTTTTTCTTAAAACCCCTAAACACTAAACCCTAATCTAA-TTTTT
1 AAACCCTAATTTATTTAA-TTTTTTCCTTAAAA-CCCTAAACACTAAACCCTAATCTAATTTTTT
*
7340215 TAAAATTTATAATTAATTTACTCAAGTAACCTT
64 TAAAATTTATAATTAATTTACTCAAGTAACCCT
* * *
7340248 AAACCCTAATTTATTTGATTTTTTTCTTTAAAACCCTAAACAGTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTT-AATTTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
7340313 AAAATTTATAATTAATTTACTCAAGTAACCCT
65 AAAATTTATAATTAATTTACTCAAGTAACCCT
* *
7340345 AAACTCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA-TTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTT-AAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
* * * *
7340409 AAAATTGATAAATAATTTAATTAAGAAACCCTAAACCCT
65 AAAATTTATAATTAATTTACTCAAG------T-AACCCT
*
7340448 AAACCCTTATTTATTTAATTTTTTTCCTTAAAACCCTAAA
1 AAACCCTAATTTATTTAA-TTTTTTCCTTAAAACCCTAAA
7340488 ACCTAAAACC
Statistics
Matches: 303, Mismatches: 20, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
96 79 0.26
97 144 0.48
98 13 0.04
99 24 0.08
102 1 0.00
103 32 0.11
104 10 0.03
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (96 bp):
AAACCCTAATTTATTTAATTTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTA
AAATTTATAATTAATTTACTCAAGTAACCCT
Found at i:7340412 original size:193 final size:193
Alignment explanation
Indices: 7340048--7340449 Score: 637
Period size: 193 Copynumber: 2.1 Consensus size: 193
7340038 AAGTAACCCT
* *
7340048 AAACCTCAAACCCTAATTTATTTAATTTTTCCTTAAAACCCTAAATACTAAACCCTAATCTAATT
1 AAACCTTAAACCCTAATTTATTTAATTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATT
*
7340113 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTTTC
66 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTTCC
* * * * *
7340178 TTAAAACCCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAG
131 TTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTGATAAATAATTTAATCAAG
* * * *
7340241 TAACCTTAAACCCTAATTTATTTGATTTTTTTCTTTAAAACCCTAAACAGTAAACCCTAATCTAA
1 AAACCTTAAACCCTAATTTATTT-A-ATTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAA
*
7340306 -TTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACTCTAATTTATTTAA-TTTTTT
64 TTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTT
*
7340369 CCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTGATAAATAATTTAATTAAG
129 CCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTGATAAATAATTTAATCAAG
*
7340434 AAACCCTAAACCCTAA
1 AAACCTTAAACCCTAA
7340450 ACCCTTATTT
Statistics
Matches: 191, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
193 99 0.52
194 57 0.30
195 35 0.18
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (193 bp):
AAACCTTAAACCCTAATTTATTTAATTTTTCCTTAAAACCCTAAACACTAAACCCTAATCTAATT
TTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTTCC
TTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTGATAAATAATTTAATCAAG
Done.