Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 3 of 168
Found at i:644258 original size:18 final size:18
Alignment explanation
Indices: 644235--644279 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
644225 CATGCAACAT
644235 TTGGCGAACCCTCC-AAGA
1 TTGGCGAACCC-CCTAAGA
644253 TTGGCGAACCCCCTAAGA
1 TTGGCGAACCCCCTAAGA
644271 TTGGCGAAC
1 TTGGCGAAC
644280 TCACAGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (18 bp):
TTGGCGAACCCCCTAAGA
Found at i:644330 original size:28 final size:28
Alignment explanation
Indices: 644284--644354 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
644274 GCGAACTCAC
*
644284 AGTAAGTGGTGAGCAACCTCAAATGAAT
1 AGTAAGTGGTGAGCTACCTCAAATGAAT
* *
644312 AGTGAGTGGTGAGCTACCTCAAATGAGT
1 AGTAAGTGGTGAGCTACCTCAAATGAAT
644340 AGTAAGTGGTGAGCT
1 AGTAAGTGGTGAGCT
644355 CATTACTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (28 bp):
AGTAAGTGGTGAGCTACCTCAAATGAAT
Found at i:647323 original size:11 final size:11
Alignment explanation
Indices: 647303--647367 Score: 63
Period size: 10 Copynumber: 6.4 Consensus size: 11
647293 TAAAAATTAA
647303 AAAAAGTATTTT
1 AAAAA-TATTTT
647315 AAAAATATTTT
1 AAAAATATTTT
647326 -AAAATA----
1 AAAAATATTTT
647332 AAAAA-ATTTT
1 AAAAATATTTT
647342 AAAAAGTATTTT
1 AAAAA-TATTTT
647354 AAAAA-ATTTT
1 AAAAATATTTT
647364 AAAA
1 AAAA
647368 TTTAAAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
10 20 0.43
11 6 0.13
12 15 0.33
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:647335 original size:16 final size:16
Alignment explanation
Indices: 647314--647407 Score: 59
Period size: 17 Copynumber: 5.6 Consensus size: 16
647304 AAAAGTATTT
*
647314 TAAAAATATTTTAAAA
1 TAAAAAAATTTTAAAA
647330 TAAAAAAATTTTAAAAA
1 TAAAAAAATTTT-AAAA
647347 GTATTTTAAAAAATTTTAAAA
1 -TA----AAAAAATTTTAAAA
*
647368 TTTAAAAAA-TTT--AA
1 -TAAAAAAATTTTAAAA
**
647382 TAAAAGTATTTTAAAA
1 TAAAAAAATTTTAAAA
647398 TTAAAAAAAT
1 -TAAAAAAAT
647408 AAAAAATAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
13 5 0.08
14 5 0.08
16 16 0.27
17 17 0.28
18 2 0.03
21 5 0.08
22 10 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAAAATTTTAAAA
Found at i:647359 original size:40 final size:37
Alignment explanation
Indices: 647276--647397 Score: 153
Period size: 39 Copynumber: 3.3 Consensus size: 37
647266 ACCAAAAATT
*
647276 TATTTT-AAAAA--TTAAAAT-AAAAATTAAAAAAAG
1 TATTTTAAAAAATTTTAAAATAAAAAATTTAAAAAAG
*
647309 TATTTTAAAAATATTTTAAAATAAAAAAATTTTAAAAAG
1 TATTTTAAAAA-ATTTTAAAAT-AAAAAATTTAAAAAAG
647348 TATTTTAAAAAATTTTAAAATTTAAAAAATTTAATAAAAG
1 TATTTTAAAAAATTTTAAAA--TAAAAAATTTAA-AAAAG
647388 TATTTTAAAA
1 TATTTTAAAA
647398 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.08
34 4 0.05
35 1 0.01
37 7 0.09
38 9 0.12
39 34 0.44
40 16 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (37 bp):
TATTTTAAAAAATTTTAAAATAAAAAATTTAAAAAAG
Found at i:647413 original size:38 final size:38
Alignment explanation
Indices: 647276--647413 Score: 144
Period size: 39 Copynumber: 3.7 Consensus size: 38
647266 ACCAAAAATT
*
647276 TATTTTAAAAA--TT-AAAAT--AAAAATTAAAAAAAG
1 TATTTTAAAAATTTTAAAAATAAAAAAATTTAAAAAAG
* *
647309 TATTTTAAAAATATTTTAAAATAAAAAAATTTTAAAAAG
1 TATTTTAAAAAT-TTTAAAAATAAAAAAATTTAAAAAAG
* *
647348 TATTTTAAAAAATTTTAAAATTTAAAAAATTTAATAAAAG
1 TATTTT-AAAAATTTTAAAAATAAAAAAATTTAA-AAAAG
**
647388 TATTTT-AAAATTAAAAAAATAAAAAA
1 TATTTTAAAAATTTTAAAAATAAAAAA
647414 TAATAAAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
33 11 0.13
36 2 0.02
37 5 0.06
38 16 0.18
39 36 0.41
40 17 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (38 bp):
TATTTTAAAAATTTTAAAAATAAAAAAATTTAAAAAAG
Found at i:655951 original size:20 final size:20
Alignment explanation
Indices: 655926--655968 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
655916 TTGGAACATA
655926 TTCTTTTATGTATTGAATCT
1 TTCTTTTATGTATTGAATCT
*
655946 TTCTTTTATGTATTGAGTCT
1 TTCTTTTATGTATTGAATCT
655966 TTC
1 TTC
655969 ACTGAGAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.60
Consensus pattern (20 bp):
TTCTTTTATGTATTGAATCT
Found at i:658246 original size:37 final size:37
Alignment explanation
Indices: 658153--658247 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 37
658143 GCTATCGAGC
* * * *
658153 CAAATCTTATTGTTATACTAAATGAAACTCAATTGAG
1 CAAATCTTACTGTTATACTGAATGAAACTCAACTAAG
* * * *
658190 CAAATCATACCGTTATACTGAAT-AGAGCTTAACTAAG
1 CAAATCTTACTGTTATACTGAATGA-AACTCAACTAAG
658227 CAAATCTTACTGTTATACTGA
1 CAAATCTTACTGTTATACTGA
658248 CTAATATTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 1 0.02
37 46 0.98
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (37 bp):
CAAATCTTACTGTTATACTGAATGAAACTCAACTAAG
Found at i:664838 original size:16 final size:17
Alignment explanation
Indices: 664817--664850 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
664807 ACATAATTAT
*
664817 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
664833 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
664850 T
1 T
664851 TAACTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:665790 original size:42 final size:42
Alignment explanation
Indices: 665721--665817 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
665711 TATGAACGGA
* *
665721 ACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATGGGC
1 ACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGGC
* *
665763 ACTACGTGTGCGAAATTAAAATGATGATGTTGAATAACGGGC
1 ACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGGC
665805 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
665818 TACCGAGAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (42 bp):
ACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACGGGC
Found at i:670362 original size:20 final size:21
Alignment explanation
Indices: 670337--670377 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
670327 TAAAAATATT
*
670337 TAAAAA-AATAATTTTTAAAA
1 TAAAAATAATAATTTTGAAAA
*
670357 TAAAAATAATACTTTTGAAAA
1 TAAAAATAATAATTTTGAAAA
670378 GTTACCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAATAATAATTTTGAAAA
Found at i:674194 original size:3 final size:3
Alignment explanation
Indices: 674186--674236 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
674176 AAAAGGTTAT
674186 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
674234 ATA
1 ATA
674237 GATGAGAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:675316 original size:35 final size:35
Alignment explanation
Indices: 675256--675435 Score: 119
Period size: 39 Copynumber: 4.9 Consensus size: 35
675246 AATTGTTTAT
* * **
675256 TCGTCGGTTTATCCAACTACCGCTGGGCGCAAATA
1 TCGTTGGTATATCCAACTAGAGCTGGGCGCAAATA
* * *
675291 TCGTTGGTAAATCCAACTAGAGCTGGGCTCACTATTTA
1 TCGTTGGTATATCCAACTAGAGCTGGGCGCA--A-ATA
* * *
675329 TTCGTTGGTTTATCCAACTAGCGCTGGGCGTAAATA
1 -TCGTTGGTATATCCAACTAGAGCTGGGCGCAAATA
* * *
675365 -CCTTCGGTATATCCAACTAGAGCTGCGCTCACTAATTA
1 TCGTT-GGTATATCCAACTAGAGCTGGGCGCA--AA-TA
* * * *
675403 TTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
1 -TCGTTGGTATATCCAACTAGAGCTGGGCGCAA
675436 CTTTCGTCAG
Statistics
Matches: 109, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
34 3 0.03
35 46 0.42
36 2 0.02
37 5 0.05
38 4 0.04
39 47 0.43
40 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (35 bp):
TCGTTGGTATATCCAACTAGAGCTGGGCGCAAATA
Found at i:675344 original size:39 final size:36
Alignment explanation
Indices: 675252--675466 Score: 134
Period size: 35 Copynumber: 5.9 Consensus size: 36
675242 AAATAATTGT
* * *
675252 TTATTCGTCGGTTTATCCAACTACCGCTGGGCGCAA
1 TTATTCGTTGGTTTATCCAACTAGCGCTGGGCTCAA
* ** *
675288 ATA-TCGTTGGTAAATCCAACTAGAGCTGGGCTCACTA
1 TTATTCGTTGGTTTATCCAACTAGCGCTGGGCTCA--A
675325 TTTATTCGTTGGTTTATCCAACTAGCGCTGGGCGT-AA
1 -TTATTCGTTGGTTTATCCAACTAGCGCTGGGC-TCAA
* * * * *
675362 --ATACCTTCGGTATATCCAACTAGAGCTGCGCTCACTAA
1 TTATTCGTT-GGTTTATCCAACTAGCGCTGGGCT--C-AA
* * *
675400 TTATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
1 TTATTCGTTGGTTTATCCAACTAGCGCTGGGCTCAA
* ** ** *
675436 CT-TTCGTCAGTTTATCTGACTAGTGCTGGGC
1 TTATTCGTTGGTTTATCCAACTAGCGCTGGGC
675467 ACACATTTTT
Statistics
Matches: 139, Mismatches: 28, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
34 6 0.04
35 71 0.51
36 5 0.04
37 3 0.02
38 4 0.03
39 45 0.32
40 5 0.04
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (36 bp):
TTATTCGTTGGTTTATCCAACTAGCGCTGGGCTCAA
Found at i:675379 original size:74 final size:74
Alignment explanation
Indices: 675251--675435 Score: 282
Period size: 74 Copynumber: 2.5 Consensus size: 74
675241 TAAATAATTG
* *
675251 TTTATTCGTCGGTTTATCCAACTACCGCTGGGCGCAAATATCGTTGGTAAATCCAACTAGAGCTG
1 TTTATTCGTCGGTTTATCCAACTAGCGCTGGGCGCAAATATCCTTGGTAAATCCAACTAGAGCTG
*
675316 GGCTCACTA
66 CGCTCACTA
* * *
675325 TTTATTCGTTGGTTTATCCAACTAGCGCTGGGCGTAAATA-CCTTCGGTATATCCAACTAGAGCT
1 TTTATTCGTCGGTTTATCCAACTAGCGCTGGGCGCAAATATCCTT-GGTAAATCCAACTAGAGCT
675389 GCGCTCACTA
65 GCGCTCACTA
* *
675399 ATTATTCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
1 TTTATTCGTCGGTTTATCCAACTAGCGCTGGGCGCAA
675436 CTTTCGTCAG
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 3 0.03
74 97 0.97
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (74 bp):
TTTATTCGTCGGTTTATCCAACTAGCGCTGGGCGCAAATATCCTTGGTAAATCCAACTAGAGCTG
CGCTCACTA
Found at i:682603 original size:43 final size:41
Alignment explanation
Indices: 682512--682627 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 41
682502 TGTGATTTCG
* * ** *
682512 TGTACGACCATGTCTGGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCATGTCTGGGACA-TGGCATTGTATATGATAACA
* *
682554 TGTAAGACCCTGTCTGGGACAGTGGCATTGATATATTATAACA
1 TGTAAGACCATGTCTGGGACA-TGGCATTG-TATATGATAACA
* *
682597 TGTAAGACCATATCTGGGATATGGCATTGTA
1 TGTAAGACCATGTCTGGGACATGGCATTGTA
682628 CGAGCTTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 34 0.55
43 26 0.42
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATGGCATTGTATATGATAACA
Found at i:683246 original size:22 final size:22
Alignment explanation
Indices: 683221--683444 Score: 168
Period size: 22 Copynumber: 10.0 Consensus size: 22
683211 GACAAGGTAC
*
683221 TGTCCGAATGTTGTTTAAATGA
1 TGTCCGAATGTTGTTTAAATGT
* *
683243 TGTCCGAATGTTGGTTAAATGC
1 TGTCCGAATGTTGTTTAAATGT
*
683265 TGTCCGAATGTT-TGTTAAATGA
1 TGTCCGAATGTTGT-TTAAATGT
* * * **
683287 TGTTC-ATTTTTTAGCATACTAATGT
1 TGTCCGA-ATGTT-GTTTA--AATGT
*
683312 TGTCTGAATGTTGTTTAAATGT
1 TGTCCGAATGTTGTTTAAATGT
*
683334 TGTCCGAATGTTGGTTAAATGT
1 TGTCCGAATGTTGTTTAAATGT
* *
683356 TGTTCGAATGTTGGTTAAATGT
1 TGTCCGAATGTTGTTTAAATGT
* ** *
683378 TGTTC-TTTTTTAGCATTCT-AATGT
1 TGTCCGAATGTT-G--TT-TAAATGT
*
683402 TGTCTGAATGTTGTTTAAATGT
1 TGTCCGAATGTTGTTTAAATGT
*
683424 TGTCCGAATGTTGGTTAAATG
1 TGTCCGAATGTTGTTTAAATG
683445 CTATTCGTTT
Statistics
Matches: 159, Mismatches: 30, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
21 5 0.03
22 124 0.78
23 2 0.01
24 13 0.08
25 14 0.09
26 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (22 bp):
TGTCCGAATGTTGTTTAAATGT
Found at i:683323 original size:11 final size:10
Alignment explanation
Indices: 683307--683381 Score: 60
Period size: 11 Copynumber: 6.9 Consensus size: 10
683297 TTAGCATACT
683307 AATGTTGTCTG
1 AATGTTGT-TG
*
683318 AATGTTGTTTA
1 AATGTTG-TTG
*
683329 AATGTTGTCCG
1 AATGTTGT-TG
*
683340 AATGTTGGTTA
1 AATGTT-GTTG
683351 AATGTTGTTCG
1 AATGTTGTT-G
*
683362 AATGTTGGTTA
1 AATGTT-GTTG
683373 AATGTTGTT
1 AATGTTGTT
683382 CTTTTTTAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 7 0.13
11 39 0.75
12 6 0.12
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (10 bp):
AATGTTGTTG
Found at i:683382 original size:91 final size:90
Alignment explanation
Indices: 683221--683446 Score: 380
Period size: 91 Copynumber: 2.5 Consensus size: 90
683211 GACAAGGTAC
* * *
683221 TGTCCGAATGTTGTTTAAATGATGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTTGTTAAATG
1 TGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATG
683286 ATGTTCATTTTTTAGCATACTAATGT
66 ATGTTC-TTTTTTAGCATACTAATGT
* *
683312 TGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGTTGTTCGAATGTTGGTTAAATG
1 TGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATG
* *
683377 TTGTTCTTTTTTAGCATTCTAATGT
66 ATGTTCTTTTTTAGCATACTAATGT
683402 TGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCT
1 TGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCT
683447 ATTCGTTTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 62 0.49
91 65 0.51
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (90 bp):
TGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATG
ATGTTCTTTTTTAGCATACTAATGT
Found at i:683413 original size:11 final size:11
Alignment explanation
Indices: 683397--683436 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
683387 TTAGCATTCT
683397 AATGTTGTCTG
1 AATGTTGTCTG
* *
683408 AATGTTGTTTA
1 AATGTTGTCTG
*
683419 AATGTTGTCCG
1 AATGTTGTCTG
683430 AATGTTG
1 AATGTTG
683437 GTTAAATGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (11 bp):
AATGTTGTCTG
Found at i:683414 original size:68 final size:69
Alignment explanation
Indices: 683329--683475 Score: 217
Period size: 68 Copynumber: 2.1 Consensus size: 69
683319 ATGTTGTTTA
* * *
683329 AATGTTGTCCGAATGTTGGTTAAATGTTGTTCGAATGTTGGTTAAATGTTGTTC-TTTTTTAGCA
1 AATGTTGTCCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCA
683393 T-TCT
66 TAT-T
* *
683397 AATGTTGTCTGAATGTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCA
1 AATGTTGTCCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCA
683462 TATT
66 TATT
*
683466 AATGTCGTCC
1 AATGTTGTCC
683476 AAATTGGTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
68 49 0.70
69 20 0.29
70 1 0.01
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (69 bp):
AATGTTGTCCGAATGTTGGTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCA
TATT
Found at i:685723 original size:6 final size:6
Alignment explanation
Indices: 685712--685750 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
685702 TATACTTATG
*
685712 CTTGTT CTTGTT CTTGTT CTTGTT CTTGTT TTTGTT CTT
1 CTTGTT CTTGTT CTTGTT CTTGTT CTTGTT CTTGTT CTT
685751 ATACACACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
CTTGTT
Found at i:686137 original size:14 final size:15
Alignment explanation
Indices: 686118--686164 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
686108 AAAAATCTTG
686118 TAAAACACA-ATTTT
1 TAAAACACATATTTT
686132 TAAAAC-CATATTTT
1 TAAAACACATATTTT
*
686146 TAAAA-ACATATCTT
1 TAAAACACATATTTT
686160 TAAAA
1 TAAAA
686165 TCATAGGCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.07
14 28 0.93
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAACACATATTTT
Found at i:686169 original size:14 final size:14
Alignment explanation
Indices: 686112--686169 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
686102 TCGCACAAAA
686112 ATCTTGTAAAACACA-
1 ATCTT-TAAAA-ACAT
* *
686127 ATTTTTAAAACCAT
1 ATCTTTAAAAACAT
*
686141 ATTTTTAAAAACAT
1 ATCTTTAAAAACAT
*
686155 ATCTTTAAAATCAT
1 ATCTTTAAAAACAT
686169 A
1 A
686170 GGCTCGCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 2 0.05
14 31 0.84
15 4 0.11
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (14 bp):
ATCTTTAAAAACAT
Found at i:687047 original size:27 final size:27
Alignment explanation
Indices: 686993--687056 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
686983 GATGTCCTTT
*
686993 TGGTGAACCCCCAGTTTGCCAAAGTAC
1 TGGTGAACCCCCAGTTCGCCAAAGTAC
* *
687020 TGGTGAACCCCTAGTTCGTCGAAA-TAC
1 TGGTGAACCCCCAGTTCG-CCAAAGTAC
*
687047 TAGTGAACCC
1 TGGTGAACCC
687057 TCACTTACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (27 bp):
TGGTGAACCCCCAGTTCGCCAAAGTAC
Found at i:688726 original size:13 final size:13
Alignment explanation
Indices: 688708--688732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
688698 AAAGTGTCAA
688708 GAAACCAACAATG
1 GAAACCAACAATG
688721 GAAACCAACAAT
1 GAAACCAACAAT
688733 TTTGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.08
Consensus pattern (13 bp):
GAAACCAACAATG
Found at i:688957 original size:17 final size:19
Alignment explanation
Indices: 688937--688973 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
688927 TTGCTTATAT
688937 ATTATAATT-AGTT-ATTA
1 ATTATAATTAAGTTAATTA
688954 ATTATAATTAAGTTAATTA
1 ATTATAATTAAGTTAATTA
688973 A
1 A
688974 CCTAAGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTATAATTAAGTTAATTA
Found at i:688971 original size:15 final size:15
Alignment explanation
Indices: 688951--689004 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
688941 TAATTAGTTA
688951 TTAATTATAATTAAG-
1 TTAATTA-AATTAAGC
** *
688966 TTAATTAACCTAAGT
1 TTAATTAAATTAAGC
688981 TTAATTAAACTTAAGC
1 TTAATTAAA-TTAAGC
688997 TTAATTAA
1 TTAATTAA
689005 CAATTTTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 5 0.16
15 15 0.47
16 12 0.38
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (15 bp):
TTAATTAAATTAAGC
Found at i:689000 original size:16 final size:15
Alignment explanation
Indices: 688951--689004 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
688941 TAATTAGTTA
688951 TTAATTATAA-TTAAG
1 TTAATTA-AACTTAAG
*
688966 TTAATT-AACCTAAG
1 TTAATTAAACTTAAG
688980 TTTAATTAAACTTAAG
1 -TTAATTAAACTTAAG
688996 CTTAATTAA
1 -TTAATTAA
689005 CAATTTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 2 0.06
14 4 0.12
15 12 0.36
16 15 0.45
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (15 bp):
TTAATTAAACTTAAG
Found at i:692313 original size:36 final size:36
Alignment explanation
Indices: 692256--692342 Score: 92
Period size: 36 Copynumber: 2.4 Consensus size: 36
692246 AAAAATAATA
*
692256 TTATTTTAATAGTTTAATATTAAATTTAAT-TTAAAC
1 TTATCTTAATAGTTTAATATT-AATTTAATATTAAAC
* *
692292 TTATCTTAATAGTATT-TTATTAATTTAATATTAAAT
1 TTATCTTAATAGT-TTAATATTAATTTAATATTAAAC
692328 TTAAT-TTAAT-GTTTA
1 TT-ATCTTAATAGTTTA
692343 TCTTGTAGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
34 2 0.05
35 10 0.23
36 28 0.64
37 4 0.09
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (36 bp):
TTATCTTAATAGTTTAATATTAATTTAATATTAAAC
Found at i:694809 original size:9 final size:9
Alignment explanation
Indices: 694791--694827 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
694781 TATAGTTTGA
*
694791 TATTCAAAT
1 TATTCGAAT
694800 TATTCGAAT
1 TATTCGAAT
*
694809 TATTCGAGT
1 TATTCGAAT
694818 TATTCGAAT
1 TATTCGAAT
694827 T
1 T
694828 TGAAAACTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:697479 original size:15 final size:15
Alignment explanation
Indices: 697459--697487 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
697449 GTATTTGTTA
697459 AAAAGTCCTAGTAAC
1 AAAAGTCCTAGTAAC
697474 AAAAGTCCTAGTAA
1 AAAAGTCCTAGTAA
697488 ACGGACCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
AAAAGTCCTAGTAAC
Found at i:698922 original size:14 final size:14
Alignment explanation
Indices: 698905--698932 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
698895 CTCACATTTC
698905 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
698919 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
698933 GATTTCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:698923 original size:19 final size:18
Alignment explanation
Indices: 698885--698929 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
698875 TACGGTACGC
698885 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
698902 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
698921 TTCTTTTCT
1 TTCTTTTCT
698930 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:702926 original size:44 final size:45
Alignment explanation
Indices: 702863--702958 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
702853 CTATTACACC
*
702863 TCCATTCCATTCAACCAAAC-ATAAGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAAT-AGAATTACTATTACGCCTCTAT
* *
702907 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
*
702952 TCTATTA
1 TCCATTA
702959 TACCTCTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:702958 original size:16 final size:16
Alignment explanation
Indices: 702937--702976 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
702927 AATTGAATTG
*
702937 CTATTACGCCTCTATT
1 CTATTACACCTCTATT
*
702953 CTATTATACCTCTATT
1 CTATTACACCTCTATT
*
702969 CCATTACA
1 CTATTACA
702977 GCGAATCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.03, T:0.42
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:715606 original size:21 final size:20
Alignment explanation
Indices: 715581--715632 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
715571 ATCTTATATA
*
715581 TCATAAAAATAATATATTTAT
1 TCATAAAAATAAT-TACTTAT
*
715602 TCATAAAAAT-GTTACTTAT
1 TCATAAAAATAATTACTTAT
*
715621 TTATAAAAATAA
1 TCATAAAAATAA
715633 ATAAATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.58
20 1 0.04
21 10 0.38
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (20 bp):
TCATAAAAATAATTACTTAT
Found at i:715936 original size:10 final size:9
Alignment explanation
Indices: 715923--715968 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
715913 ATATAAAATT
715923 AAAAATTAA
1 AAAAATTAA
715932 AAAAATTAA
1 AAAAATTAA
*
715941 AAAAATTCAT
1 AAAAATT-AA
*
715951 ACAAATTCAA
1 AAAAATT-AA
715961 AAAAATTA
1 AAAAATTA
715969 GCATGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:717101 original size:2 final size:2
Alignment explanation
Indices: 717094--717136 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
717084 CCAAATTTTA
717094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
717136 A
1 A
717137 ATTAGGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:720622 original size:26 final size:26
Alignment explanation
Indices: 720592--720643 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
720582 AATATTTAAA
*
720592 TAAATAATATTTATTTTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
720618 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
720644 ATTATTTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
TAAATAATATTTATATTTATGATAAT
Found at i:720649 original size:21 final size:21
Alignment explanation
Indices: 720620--720669 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
720610 ATGATAATTA
* *
720620 AATAATATTTATATTTATGAT
1 AATATTATTTACATTTATGAT
* *
720641 AATATTATTTACCTTTGTGAT
1 AATATTATTTACATTTATGAT
*
720662 AATTTTAT
1 AATATTAT
720670 ATTTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (21 bp):
AATATTATTTACATTTATGAT
Found at i:727001 original size:67 final size:67
Alignment explanation
Indices: 726930--727142 Score: 172
Period size: 67 Copynumber: 3.1 Consensus size: 67
726920 TTGATTCATA
726930 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAATTATATAAATTAATTTCG
1 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAATTATATAAATTAATTTCG
726995 GT
66 GT
** * ** * * *
726997 CAAAATA-TAAAAG-ACATGAAAATTA---ATATTCTTTTGGAA-AGAATATAATTAATATATGA
1 CAAAATATTAATTGTATAT--ATTTTACCGA-ATT-TATT--AATATAA-ACAATT-ATATA--A
* *
727056 ATTTGA-TTC-AT
56 A-TTAATTTCGGT
727067 ACAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAATTATATAAATTAATTTC
1 -CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAATTATATAAATTAATTTC
727132 GGT
65 GGT
727135 CAAAATAT
1 CAAAATAT
727143 AAAAGACATG
Statistics
Matches: 106, Mismatches: 20, Indels: 40
0.64 0.12 0.24
Matches are distributed among these distances:
64 1 0.01
65 6 0.06
66 10 0.09
67 27 0.25
68 8 0.08
69 10 0.09
70 8 0.08
71 19 0.18
72 10 0.09
73 6 0.06
74 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (67 bp):
CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAATTATATAAATTAATTTCG
GT
Found at i:727053 original size:71 final size:71
Alignment explanation
Indices: 726978--727195 Score: 172
Period size: 71 Copynumber: 3.1 Consensus size: 71
726968 TATAAACAAT
726978 TATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATAT
1 TATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATAT
727043 AATTAA
66 AATTAA
* * * * * * ***
727049 TATATGAATTTGA-TTC-ATACAAAATAT--TA-A-TTG--TA-T-ATATT-TTACCGAATTTAT
1 TATAT-AAATTAATTTCGGT-CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAA---A-
* **
727103 TAATATAAACAA
60 GAATATAATTAA
727115 TTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC-TTTGGAAAGAATA
1 -TATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATA
727179 TAATTAA
65 TAATTAA
*
727186 TATATGAATT
1 TATATAAATT
727196 TGACTCATAC
Statistics
Matches: 104, Mismatches: 25, Indels: 37
0.63 0.15 0.22
Matches are distributed among these distances:
62 5 0.05
63 5 0.05
64 1 0.01
65 2 0.02
66 14 0.13
67 18 0.17
68 2 0.02
69 2 0.02
70 11 0.11
71 27 0.26
72 6 0.06
73 1 0.01
74 1 0.01
75 9 0.09
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (71 bp):
TATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATAT
AATTAA
Found at i:727086 original size:138 final size:138
Alignment explanation
Indices: 726901--727592 Score: 1155
Period size: 138 Copynumber: 5.1 Consensus size: 138
726891 GAAAACATAT
726901 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
*
726966 AATATAAACAATTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
727031 TGGAAAGA
131 TGGAAAGA
727039 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
*
727104 AATATAAACAATTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTC-TT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
727168 TGGAAAGA
131 TGGAAAGA
* * *
727176 ATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTTATCGAAATTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
727241 AATATAAACAGTTATATTAATTTATTTCGGTCAAAATATAAAAGACGT-AGAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGA-AAATTAATATTCTT
727305 TTGGAAAGA
130 TTGGAAAGA
* *
727314 ATATAACTAATATATGGATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
727379 AA-AT----AATTATATTAATTAATTTCGGTCAAAATATTAAAGACATGAAAGTTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
727439 TGGAAAGA
131 TGGAAAGA
* * *
727447 ATATAATTAATATATGAATTTGATTCATACAAAATAATAATTGTATACATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
727512 AATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTATTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
727577 TAGAAAGA
131 TGGAAAGA
727585 ATATAATT
1 ATATAATT
727593 CTTTTTTCTA
Statistics
Matches: 518, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
133 119 0.23
134 3 0.01
136 1 0.00
137 130 0.25
138 265 0.51
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:727537 original size:275 final size:272
Alignment explanation
Indices: 726901--727590 Score: 1099
Period size: 275 Copynumber: 2.5 Consensus size: 272
726891 GAAAACATAT
*
726901 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
726966 AATATAAACAATTATATA--AATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
66 AATATAAACAATTATATATTAATT-ATTTCGGTCAAAATATAAAAGACATG-AAATTAATATTCT
*
727029 TTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC
129 TTTGGAAAGAATATAACTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC
727094 CGAATTTATTAATATAAACAATTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATT
194 CGAATTTATTAATAT--A-AATTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATT
727159 AATATTCTTTGGAAAGA
256 AATATTCTTTGGAAAGA
* *
727176 ATATAATTAATATATGAATTTGACTCATACAAAATATTAATTGTATATATTTTATCGAAATTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
* *
727241 AATATAAAC-AGT-TATATTAATTTATTTCGGTCAAAATATAAAAGACGTAGAAATTAATATTCT
66 AATATAAACAATTATATATTAA-TTATTTCGGTCAAAATATAAAAGACAT-GAAATTAATATTCT
*
727304 TTTGGAAAGAATATAACTAATATATGGATTTGATTCATACAAAATATTAATTGTATATATTTTAC
129 TTTGGAAAGAATATAACTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC
* * *
727369 CGAATTTATTAA-AT-AATTATATTAATTAATTTCGGTCAAAATATTAAAGACATGAAAGTTAAT
194 CGAATTTATTAATATAAATTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAAT
727432 ATTCTTTTGGAAAGA
259 ATTC-TTTGGAAAGA
* *
727447 ATATAATTAATATATGAATTTGATTCATACAAAATAATAATTGTATACATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
* *
727512 AATATAAACAA-T-TATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTAT
66 AATATAAACAATTATATATTAATT-ATTTCGGTCAAAATATAAAAGACAT-GAAATTAATATTCT
*
727575 TTTAGAAAGAATATAA
129 TTTGGAAAGAATATAA
727591 TTCTTTTTTC
Statistics
Matches: 389, Mismatches: 19, Indels: 18
0.91 0.04 0.04
Matches are distributed among these distances:
270 52 0.13
271 140 0.36
272 1 0.00
273 4 0.01
274 4 0.01
275 185 0.48
276 3 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (272 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
AATATAAACAATTATATATTAATTATTTCGGTCAAAATATAAAAGACATGAAATTAATATTCTTT
TGGAAAGAATATAACTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCG
AATTTATTAATATAAATTATATAAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATAT
TCTTTGGAAAGA
Found at i:727658 original size:14 final size:14
Alignment explanation
Indices: 727639--727666 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
727629 TAAGGGGATA
727639 ATCCTATATTCTTT
1 ATCCTATATTCTTT
727653 ATCCTATATTCTTT
1 ATCCTATATTCTTT
727667 TGGAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
ATCCTATATTCTTT
Found at i:728483 original size:24 final size:24
Alignment explanation
Indices: 728456--728515 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
728446 GAATGTTTTG
*
728456 TATTTTATATAATATTAATATAAA
1 TATTTTATTTAATATTAATATAAA
728480 TATTTTTATTTAA-ATTAATATAAA
1 TA-TTTTATTTAATATTAATATAAA
728504 T-TTTTATTTAAT
1 TATTTTATTTAAT
728516 TAAATTTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 10 0.30
24 14 0.42
25 9 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTTATTTAATATTAATATAAA
Found at i:728509 original size:22 final size:24
Alignment explanation
Indices: 728458--728518 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 24
728448 ATGTTTTGTA
*
728458 TTTTATATAATATTAATATAAATAT
1 TTTTATTTAA-ATTAATATAAATAT
728483 TTTTATTTAAATTAATAT-AA-AT
1 TTTTATTTAAATTAATATAAATAT
728505 TTTTATTT-AATTAA
1 TTTTATTTAAATTAA
728519 ATTTTAGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 6 0.17
22 10 0.29
23 2 0.06
24 8 0.23
25 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTATTTAAATTAATATAAATAT
Found at i:732472 original size:27 final size:28
Alignment explanation
Indices: 732417--732478 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
732407 ACAATTGGAC
732417 CTAAATT-TTGAAATATGAAAAGGAAGA
1 CTAAATTCTTGAAATATGAAAAGGAAGA
* *
732444 CTAAATTCTTGGAA-AT-AAAAGTAAGGA
1 CTAAATTCTTGAAATATGAAAAGGAA-GA
732471 CTAAATTC
1 CTAAATTC
732479 CAAATTTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 7 0.23
27 19 0.61
28 5 0.16
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.27
Consensus pattern (28 bp):
CTAAATTCTTGAAATATGAAAAGGAAGA
Found at i:732798 original size:10 final size:10
Alignment explanation
Indices: 732785--732809 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
732775 TAAAAGTACA
732785 AAAATATTTT
1 AAAATATTTT
732795 AAAATATTTT
1 AAAATATTTT
732805 AAAAT
1 AAAAT
732810 TAATTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATATTTT
Found at i:733037 original size:2 final size:2
Alignment explanation
Indices: 733030--733076 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
733020 GTTATTTTCA
733030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
733072 AT AT A
1 AT AT A
733077 ANNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:737600 original size:2 final size:2
Alignment explanation
Indices: 737595--737659 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
737585 TCTCTTCATA
737595 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * *
737637 CG TG CG TG TG TA TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
737660 CATGTATAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.02, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:747101 original size:21 final size:21
Alignment explanation
Indices: 747077--747126 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
747067 CATTGTTTCT
*
747077 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
747098 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
747119 AATCTCAC
1 AATCTCAC
747127 TGCCACCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.22
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:753300 original size:200 final size:202
Alignment explanation
Indices: 752922--753321 Score: 513
Period size: 205 Copynumber: 2.0 Consensus size: 202
752912 TTGTACACAC
* * *
752922 AAAATTATGTCCACATTATGTTTACATTTTCATTTTGGCTATCCAACTCCTAATTCATTATAATT
1 AAAATCATGTCCACATTATGTTTACAATTTCATTTTGGCTATCCAACTCCTAAGTCATTATAATT
* * *
752987 TTGATCACTAAAAAAAATCCTTTTTAAGTCTTGATCTATGTAATAAAAAGAAAACTTTAATAATT
66 TTGATCACTAAAAAAAATCCTGTCTAAGTCTTGATCTATG--ATAAAAAG-AAACTTTAAGAATT
* *
753052 AAAGTGAAAAAACGATAGAAACTAAAATAATGCATTAACAAATTTGTCAAATTGTACTTATTTAT
128 AAAGTGAAAAAACAATAGAAACTAAAATAATGCATTAACAAATTTGTCAAATTGTAATTATTTAT
*
753117 TCCATGACTG
193 CCCATGACTG
* * * *
753127 AAAATCATGTCCACATTATGTTTACAATTTCATTTT-GATCATCTAACTTCTAAGTCACTT-TTA
1 AAAATCATGTCCACATTATGTTTACAATTTCATTTTGGCT-ATCCAACTCCTAAGTCA-TTATAA
* * *
753190 TTTTGGTCACTCAAAAAAA-CCATGTCTAAGTTTTGATCTATG-TAAAAAG-AACTTTAAGAATT
64 TTTTGATCACTAAAAAAAATCC-TGTCTAAGTCTTGATCTATGATAAAAAGAAACTTTAAGAATT
** * * * *
753252 AAAGTTCATAAGCAATAGAAACTAAAATAATGCATTAACAAGTTTGTCAAATTGTAATTGTTTAT
128 AAAGTGAAAAAACAATAGAAACTAAAATAATGCATTAACAAATTTGTCAAATTGTAATTATTTAT
753317 CCCAT
193 CCCAT
753322 TGCCGAAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
200 73 0.43
202 7 0.04
204 4 0.02
205 84 0.49
206 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (202 bp):
AAAATCATGTCCACATTATGTTTACAATTTCATTTTGGCTATCCAACTCCTAAGTCATTATAATT
TTGATCACTAAAAAAAATCCTGTCTAAGTCTTGATCTATGATAAAAAGAAACTTTAAGAATTAAA
GTGAAAAAACAATAGAAACTAAAATAATGCATTAACAAATTTGTCAAATTGTAATTATTTATCCC
ATGACTG
Found at i:763195 original size:22 final size:24
Alignment explanation
Indices: 763163--763215 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
763153 TATTTATTAA
763163 TAAA-TTATTAAAA-TT-AAAAAT
1 TAAATTTATTAAAATTTAAAAAAT
763184 TAAATTTATTAAAATTTAAAAAAT
1 TAAATTTATTAAAATTTAAAAAAT
763208 TAAGATTT
1 TAA-ATTT
763216 TAAGAGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.14
22 9 0.32
23 2 0.07
24 9 0.32
25 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAATTTATTAAAATTTAAAAAAT
Found at i:763339 original size:6 final size:6
Alignment explanation
Indices: 763328--763363 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
763318 ATAGGTAGCA
763328 AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC
1 AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC
763364 TCAGAGCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAGGC
Found at i:769255 original size:19 final size:19
Alignment explanation
Indices: 769218--769256 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
769208 GATAGTAGGA
* *
769218 ATAAAATGTTATTGGTTAG
1 ATAAAATGTAAGTGGTTAG
*
769237 ATAAAATGTAAGTGTTTAG
1 ATAAAATGTAAGTGGTTAG
769256 A
1 A
769257 AAATGAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (19 bp):
ATAAAATGTAAGTGGTTAG
Found at i:769404 original size:9 final size:9
Alignment explanation
Indices: 769392--769416 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
769382 AGTGTTTGAA
769392 GTTAGAATT
1 GTTAGAATT
769401 GTTAGAATT
1 GTTAGAATT
769410 GTTAGAA
1 GTTAGAA
769417 GTTGGTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (9 bp):
GTTAGAATT
Found at i:778115 original size:2 final size:2
Alignment explanation
Indices: 778110--778135 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
778100 ACTTCATTCA
778110 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
778136 TCAAAAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:778728 original size:43 final size:42
Alignment explanation
Indices: 778649--778747 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 42
778639 GCTCCCGGTA
778649 TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
* *
778691 TCGCACACTTAGTGCCCTTTTATTCAAC-TC-CATCATTTTAGTT
1 TCGCACACTTAGTGCCC-GTTATTCAACATCTC--CATTTTAATT
*
778734 CCGCACACTTAGTG
1 TCGCACACTTAGTG
778748 TCATTTACAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
41 1 0.02
42 19 0.37
43 31 0.61
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
Found at i:781458 original size:19 final size:19
Alignment explanation
Indices: 781434--781525 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
781424 AATCTTCAAG
781434 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
781453 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
781472 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
781491 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
781510 GATATGCAATCATAGA
1 GATATGCAATCTTAGA
781526 AGATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:781478 original size:38 final size:38
Alignment explanation
Indices: 781434--781532 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
781424 AATCTTCAAG
781434 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
781472 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
781510 GATATGCAATCATAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
781533 ATTTTGAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 53 0.88
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:781551 original size:22 final size:22
Alignment explanation
Indices: 781504--781548 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
781494 ATGTAATCTT
*
781504 AGATATGATATGCAATCATAGA
1 AGATATGATATGAAATCATAGA
* *
781526 AGATATGATTTTGAAATCTTAGA
1 AGATATGA-TATGAAATCATAGA
781549 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (22 bp):
AGATATGATATGAAATCATAGA
Found at i:782156 original size:37 final size:38
Alignment explanation
Indices: 782080--782156 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 38
782070 CATACATACG
** *
782080 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACAAACACATTTTATAATT
* *
782118 TTTTATAA-ATATATATATACAAATAC-TTTTATATATT
1 TTTTATAATATATACATATACAAACACATTTTATA-ATT
782155 TT
1 TT
782157 CTATGTTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
36 6 0.18
37 19 0.58
38 8 0.24
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (38 bp):
TTTTATAATATATACATATACAAACACATTTTATAATT
Found at i:782598 original size:15 final size:15
Alignment explanation
Indices: 782578--782611 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
782568 TTTCTATGCC
782578 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
782593 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
782608 ATTG
1 ATTG
782612 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:788143 original size:59 final size:61
Alignment explanation
Indices: 788076--788192 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 61
788066 TTCTTATTAA
* *
788076 ATTTTAATAGGATTATTATTAAATATAATTTAATAAA-A-TAAAATAAATAATTTAATCAT
1 ATTTTAATAGAATTATTACTAAATATAATTTAATAAATATTAAAATAAATAATTTAATCAT
* *
788135 ATTTTAATATAATTATTACTAAATATAATTTAATAAATATTAAAATATATAATTTAAT
1 ATTTTAATAGAATTATTACTAAATATAATTTAATAAATATTAAAATAAATAATTTAAT
788193 ATCATTCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 34 0.65
60 1 0.02
61 17 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (61 bp):
ATTTTAATAGAATTATTACTAAATATAATTTAATAAATATTAAAATAAATAATTTAATCAT
Found at i:796463 original size:18 final size:18
Alignment explanation
Indices: 796440--796482 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
796430 TGCCAAGTGC
* *
796440 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
796458 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
796476 GTTTCCT
1 GTATCCT
796483 TTTTACAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:800618 original size:46 final size:46
Alignment explanation
Indices: 800564--800759 Score: 342
Period size: 46 Copynumber: 4.3 Consensus size: 46
800554 TGATTAGCGG
*
800564 CAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
800610 CAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
1 CAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
*
800656 CAGAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
1 CAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
* *
800702 CAAAGTGATAAGTGGTATCCTTAGCTACACTTATCTGATC-AGGGA
1 CAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
800747 C-AAGTGATAAGTG
1 CAAAGTGATAAGTG
800760 ATCATACGTA
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
44 12 0.08
45 5 0.03
46 128 0.88
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (46 bp):
CAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGA
Found at i:802241 original size:125 final size:125
Alignment explanation
Indices: 802019--802307 Score: 497
Period size: 125 Copynumber: 2.3 Consensus size: 125
802009 CCAAACATGC
*
802019 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTGATTTCAGTACTTTTGCTGACAAAGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCCTG
**
802084 CTTAAAGCGGTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 CTTAAAGAAGTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
* * *
802144 GCTACTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAGTACTTTTGTTGACAATGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCCTG
*
802209 CTTAAAGAATTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 CTTAAAGAAGTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
* *
802269 GCTACTGTAGCAAAAGCGTGTCCATGTGGGAGCGATTTC
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
802308 CTTAAAAAAA
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 154 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGTACTTTTGCTGACAAAGCATCCTG
CTTAAAGAAGTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:824198 original size:2 final size:2
Alignment explanation
Indices: 824191--824236 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
824181 AGATTAAACA
824191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
824233 AT AT
1 AT AT
824237 GGGAGGGATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:825365 original size:60 final size:60
Alignment explanation
Indices: 825291--825409 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
825281 TTTCCACTTT
* **
825291 CTCCTACGGAACTCATCCGTCTTTTATACCCAATTTCATGTAATCATTCACATAAACTCC
1 CTCCTACGGAACTCATCCGTCCTCCATACCCAATTTCATGTAATCATTCACATAAACTCC
*
825351 CTCCTACTGAACTCATCCGTCCTCCATACCCAATTTCATGTAATCATTCACATAAACTC
1 CTCCTACGGAACTCATCCGTCCTCCATACCCAATTTCATGTAATCATTCACATAAACTC
825410 AACATATCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.32
Consensus pattern (60 bp):
CTCCTACGGAACTCATCCGTCCTCCATACCCAATTTCATGTAATCATTCACATAAACTCC
Found at i:826311 original size:23 final size:23
Alignment explanation
Indices: 826235--826316 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
826225 TGATGGTAAG
826235 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* ** * * *
826258 ATACTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGC-T-TAA
826283 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
826306 ATGCTGTCCAA
1 ATGCTGTCCAA
826317 TTTTTTTTTA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
23 27 0.60
24 2 0.04
25 16 0.36
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:826346 original size:52 final size:48
Alignment explanation
Indices: 826235--826439 Score: 270
Period size: 48 Copynumber: 4.2 Consensus size: 48
826225 TGATGGTAAG
*
826235 ATGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTGAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
*
826283 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCAATTTTTTTTTAGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCC-A---TTTTTGAGCATATTA
* * *
826335 ATGCTGTCCAAATTTA-TGCTTAATTGTTGTCCATTTTTGAGTATATTA
1 ATGCTGTCCAAA-TTAGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
* * *
826383 ATTCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA-CAAATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTG-AGCATATTA
826431 ATGCTGTCC
1 ATGCTGTCC
826440 GATTGTTGTT
Statistics
Matches: 137, Mismatches: 13, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
47 2 0.01
48 89 0.65
49 2 0.01
51 1 0.01
52 40 0.29
53 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTGAGCATATTA
Found at i:826408 original size:100 final size:99
Alignment explanation
Indices: 826235--826420 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 99
826225 TGATGGTAAG
826235 ATGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGT
1 ATGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGT
826300 GCTTAAATGCTGTCCAATTTTTTTTTAGCATATTA
66 GCTTAAATGCTGTCC-ATTTTTTTTTAGCATATTA
* ** * * *
826335 ATGCTGTCCAAATTTA-TGCTTAATTGTTGTCCATTTTTGAGTATATTAATTCTGTCCAAATTGG
1 ATGCTGTCCAAA-TTAGTGCTTAAATACTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAG
826399 TGCTTAAATGCTGTCCATTTTT
65 TGCTTAAATGCTGTCCATTTTT
826421 GTACAAATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 6 0.08
100 70 0.89
101 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.44
Consensus pattern (99 bp):
ATGCTGTCCAAATTAGTGCTTAAATACTGTCCATTTTTGAGCATATTAATGCTGTCCAAATTAGT
GCTTAAATGCTGTCCATTTTTTTTTAGCATATTA
Found at i:827704 original size:43 final size:43
Alignment explanation
Indices: 827619--827704 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
827609 CTTCTAAATA
**
827619 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAATTTTTTT
1 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
827662 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
1 TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
827705 CTTCTAATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (43 bp):
TGAATTCTAGGTTTTGAAAAGATTGACTATTTATAAAATTTTT
Found at i:828280 original size:26 final size:27
Alignment explanation
Indices: 828244--828296 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
828234 ATATTCAACG
* *
828244 GTTG-AATTTTTTTTTAAAATTAAATA
1 GTTGAAATTTTTTATTAAAATCAAATA
828270 GTTGAAATTTTTTAATTAAAATCAAAT
1 GTTGAAATTTTTT-ATTAAAATCAAAT
828297 TTGACATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 8 0.35
28 11 0.48
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (27 bp):
GTTGAAATTTTTTATTAAAATCAAATA
Found at i:829470 original size:49 final size:49
Alignment explanation
Indices: 829393--829489 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
829383 AATCTCTGCC
829393 TTGTCCGGTTTTTTAAAAGCTTGCCAATTTCTCAAAATAATAACTCCAA
1 TTGTCCGGTTTTTTAAAAGCTTGCCAATTTCTCAAAATAATAACTCCAA
*
829442 TTGTCCGGTTTTTTAAAAGCTTGTCAATTTCTCAAAATAATAACTCCA
1 TTGTCCGGTTTTTTAAAAGCTTGCCAATTTCTCAAAATAATAACTCCA
829490 CGTTTCTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (49 bp):
TTGTCCGGTTTTTTAAAAGCTTGCCAATTTCTCAAAATAATAACTCCAA
Found at i:832569 original size:2 final size:2
Alignment explanation
Indices: 832562--832605 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
832552 NNNNNNNNNN
832562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
832604 AT
1 AT
832606 CTACATGCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:840665 original size:21 final size:21
Alignment explanation
Indices: 840641--840695 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 21
840631 ATAATTTTTT
* *
840641 TAAATAATTATTAAAATGTTA
1 TAAATAATTATTAAAATATAA
*
840662 TAAAT--TTTTTAAAATATAA
1 TAAATAATTATTAAAATATAA
*
840681 TAAA-AATTATAAAAA
1 TAAATAATTATTAAAA
840696 AATTAAAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
19 15 0.56
20 7 0.26
21 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAATAATTATTAAAATATAA
Found at i:842080 original size:12 final size:12
Alignment explanation
Indices: 842063--842099 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
842053 TATTTTGATT
842063 TAAAATAACTTA
1 TAAAATAACTTA
842075 TAAAATAACTTA
1 TAAAATAACTTA
*
842087 TAAGATAACTTA
1 TAAAATAACTTA
842099 T
1 T
842100 GCTATCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (12 bp):
TAAAATAACTTA
Found at i:847545 original size:11 final size:11
Alignment explanation
Indices: 847529--847553 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
847519 AAGGCAGCAT
847529 GTTATGCACAA
1 GTTATGCACAA
847540 GTTATGCACAA
1 GTTATGCACAA
847551 GTT
1 GTT
847554 CCAGCTGTGA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (11 bp):
GTTATGCACAA
Found at i:850290 original size:31 final size:31
Alignment explanation
Indices: 850200--850293 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 31
850190 AGATAATTTT
* *
850200 AAAGAGTTTTATTAGGATTCAATTACTATTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
850231 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
850263 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
850294 TAATTTGCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 31 0.52
32 29 0.48
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:850909 original size:7 final size:7
Alignment explanation
Indices: 850893--850925 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
850883 AGCGCAAAAA
850893 AAAAAG-
1 AAAAAGC
850899 AAAAAGC
1 AAAAAGC
850906 AAAAAGC
1 AAAAAGC
850913 AAAAAGGC
1 AAAAA-GC
850921 AAAAA
1 AAAAA
850926 AGCGCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGC
Found at i:858324 original size:25 final size:26
Alignment explanation
Indices: 858268--858335 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
858258 TTTTGAACTT
858268 TATATT-ATTCATTTTAAAATTTTCA
1 TATATTAATTCATTTTAAAATTTTCA
**
858293 -ATAATTAATT-ATTTTAAGTTTTTCA
1 TAT-ATTAATTCATTTTAAAATTTTCA
*
858318 TATATT-ATGCATTTTAAA
1 TATATTAATTCATTTTAAA
858336 CCATATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 4 0.11
25 26 0.74
26 5 0.14
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (26 bp):
TATATTAATTCATTTTAAAATTTTCA
Found at i:858704 original size:20 final size:21
Alignment explanation
Indices: 858667--858707 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
858657 ATATTAGTTT
*
858667 TTTTTTAAATTTTACTTTATA
1 TTTTTTAAATTTGACTTTATA
*
858688 TTTTTTAAA-TTGCCTTTATA
1 TTTTTTAAATTTGACTTTATA
858708 ACGTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTAAATTTGACTTTATA
Found at i:860034 original size:44 final size:44
Alignment explanation
Indices: 859986--860209 Score: 193
Period size: 44 Copynumber: 5.1 Consensus size: 44
859976 AGATACTAGC
*
859986 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATAGCAGAT
* *** * * * * *
860030 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CTAG-C
1 CTTGTCTCCCTG-AGCAGCAGCGGAGTAGGTTGAAAATAGC-AGAT
* *
860074 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGTAGAT
1 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATAGCAGAT
* *** * * * * * *
860118 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAG-C
1 CTTGTCTCCCTG-AGCAGCAGCGGAGTAGGTTGAAAATAGCAGAT
*
860162 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATAGCAGAT
860206 CTTG
1 CTTG
860210 CCTTCTTGTA
Statistics
Matches: 130, Mismatches: 44, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
43 41 0.32
44 49 0.38
45 40 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (44 bp):
CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATAGCAGAT
Found at i:860091 original size:88 final size:88
Alignment explanation
Indices: 859942--860239 Score: 524
Period size: 88 Copynumber: 3.4 Consensus size: 88
859932 CTATGAAGAA
859942 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACTAGCCTTGTCTCCCTGAGCAGCAGT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACTAGCCTTGTCTCCCTGAGCAGCAGT
860007 GGAGTAGGTTGAAAATAGCAGAT
66 GGAGTAGGTTGAAAATAGCAGAT
860030 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACTAGCCTTGTCTCCCTGAGCAGCAGT
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACTAGCCTTGTCTCCCTGAGCAGCAGT
*
860095 GGAGTAGGTTGAAAATAGTAGAT
66 GGAGTAGGTTGAAAATAGCAGAT
* *
860118 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTGTCTCCCTGAGCAGCAGC
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACTAGCCTTGTCTCCCTGAGCAGCAGT
*
860183 GGAGTAGGTTAAAAATAGCAGAT
66 GGAGTAGGTTGAAAATAGCAGAT
* * * *
860206 CTTGCCTTCTTGTACTGGCAGCGAAGCAGATCGA
1 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
860240 GGACACCAGC
Statistics
Matches: 201, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 201 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (88 bp):
CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACTAGCCTTGTCTCCCTGAGCAGCAGT
GGAGTAGGTTGAAAATAGCAGAT
Found at i:860317 original size:50 final size:50
Alignment explanation
Indices: 860249--860366 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 50
860239 AGGACACCAG
* * * *
860249 CCTTATTGCCTTGACGTTGCAATGGAAAAGATTGAAGCCACAATGGCAAA
1 CCTTATTTCCCTGGCGTTGCAACGGAAAAGATTGAAGCCACAATGGCAAA
* * ** * *
860299 CCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGATGGCGAA
1 CCTTATTTCCCTGGCGTTGCAACGGAAAAGATTGAAGCCACAATGGCAAA
* *
860349 TCTTATCTCCCTGGCGTT
1 CCTTATTTCCCTGGCGTT
860367 AAGGCTTGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (50 bp):
CCTTATTTCCCTGGCGTTGCAACGGAAAAGATTGAAGCCACAATGGCAAA
Found at i:860739 original size:44 final size:42
Alignment explanation
Indices: 860561--860808 Score: 164
Period size: 44 Copynumber: 5.9 Consensus size: 42
860551 AGAGGGCAGG
* *
860561 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTA-GA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TACAA
** * * *** *
860603 TCTTATCTCTATGAAGTTGCAGTAGAACAGA-TCGTATCCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATACAA
* * *
860644 TCTTATCTCCCTGAAGTTGCAGTGGAACACACATAAGAA-ACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATA-CAA
* *
860688 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TACA-A
* ** * * ***
860732 TTTTATCTTTCTGAAGTTGGAGTAGAGCAGA-TCGCAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATACAA
* * *
860772 GTCTCATCTCCTTGAAGTTGCAGTGGAGCAGACTAAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
860809 GATGGCGAAT
Statistics
Matches: 153, Mismatches: 43, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 56 0.37
42 30 0.20
43 8 0.05
44 57 0.37
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATACAA
Found at i:860792 original size:129 final size:127
Alignment explanation
Indices: 860564--860798 Score: 355
Period size: 129 Copynumber: 1.8 Consensus size: 127
860554 GGGCAGGTCT
*
860564 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTAGATCTTATCTCTATGAAGTTGCAGTAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTATGAAGTTGCAGTAGA
* *
860629 ACAGATCGTATCCAATCTTATCTCCCTGAAGTTGCAGTGGAACACACATAAGAAACCAATCC
66 ACAGATCGCATCCAATCTCATCTCCCTGAAGTTGCAGTGGAACACACATAAGAAACCAATCC
* * * *
860691 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTACAGATTTTATCTTTCTGAAGTTGGAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-T-CAGATCTTATCTCTATGAAGTTGCAGTA
* *
860756 GAGCAGATCGCAT-CAAGTCTCATCTCCTTGAAGTTGCAGTGGA
64 GAACAGATCGCATCCAA-TCTCATCTCCCTGAAGTTGCAGTGGA
860799 GCAGACTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
127 34 0.35
128 4 0.04
129 58 0.60
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTATGAAGTTGCAGTAGA
ACAGATCGCATCCAATCTCATCTCCCTGAAGTTGCAGTGGAACACACATAAGAAACCAATCC
Found at i:862104 original size:3 final size:3
Alignment explanation
Indices: 862098--862146 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
862088 GTATTTTTTG
*
862098 TTA TTA TTA TTA TT- GTA TTAA TTA TTA TTA -TA TTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA
862143 TTA T
1 TTA T
862147 ACCTACATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 3 0.08
3 31 0.77
4 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:862111 original size:24 final size:23
Alignment explanation
Indices: 862081--862146 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
862071 CATTTTTTAC
** *
862081 TATTATTGTATTTTTTGTTATTA
1 TATTATTGTATTAATTATTATTA
862104 TTATTATTGTATTAATTATTATTA
1 -TATTATTGTATTAATTATTATTA
*
862128 TATTA-TATATT-ATTATTAT
1 TATTATTGTATTAATTATTAT
862147 ACCTACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 8 0.21
22 5 0.13
23 5 0.13
24 20 0.53
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
TATTATTGTATTAATTATTATTA
Found at i:862121 original size:18 final size:18
Alignment explanation
Indices: 862099--862147 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
862089 TATTTTTTGT
862099 TATTATTATTAT-TGTAT-
1 TATTATTATTATAT-TATA
862116 TAATTATTATTATATTATA
1 T-ATTATTATTATATTATA
862135 TATTATTATTATA
1 TATTATTATTATA
862148 CCTACATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTATTATTATATTATA
Found at i:862673 original size:23 final size:23
Alignment explanation
Indices: 862636--862681 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
862626 ATGTATACTT
*
862636 ATATATATATATATATTGTAAATAC
1 ATATACATATATA-ATT-TAAATAC
*
862661 ATATACATGTATAATTTAAAT
1 ATATACATATATAATTTAAAT
862682 TAAAGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 3 0.16
25 11 0.58
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
ATATACATATATAATTTAAATAC
Found at i:867624 original size:2 final size:2
Alignment explanation
Indices: 867617--867653 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
867607 ACATTCTTTA
867617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
867654 ACTTATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:868396 original size:37 final size:37
Alignment explanation
Indices: 868346--868417 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
868336 TGGTGAATGT
*
868346 TCAATTCTTTTGTTGATTTTTGCTTGCCGCTTTGGGC
1 TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGGGC
868383 TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGG
1 TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGG
868418 ACCATATCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.08, C:0.19, G:0.21, T:0.51
Consensus pattern (37 bp):
TCAATTCTTTTGTTGATTTTTGCTCGCCGCTTTGGGC
Found at i:868929 original size:20 final size:21
Alignment explanation
Indices: 868906--868979 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
868896 TATTTGTTTC
868906 TTTTAATAA-TTTCTATATTT
1 TTTTAATAATTTTCTATATTT
* *
868926 TTTT-ATAACTTTCTATA-AT
1 TTTTAATAATTTTCTATATTT
* *
868945 TTTCAATAATTTTTTTATATTT
1 TTTTAATAA-TTTTCTATATTT
868967 TTTT-ATAGATTTT
1 TTTTAATA-ATTTT
868980 AATAATAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
19 8 0.19
20 16 0.37
21 14 0.33
22 5 0.12
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (21 bp):
TTTTAATAATTTTCTATATTT
Found at i:868942 original size:10 final size:10
Alignment explanation
Indices: 868911--868957 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
868901 GTTTCTTTTA
868911 ATAA-TTTCT
1 ATAATTTTCT
* *
868920 ATATTTTTTT
1 ATAATTTTCT
*
868930 ATAACTTTCT
1 ATAATTTTCT
*
868940 ATAATTTTCA
1 ATAATTTTCT
868950 ATAATTTT
1 ATAATTTT
868958 TTTATATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 3 0.10
10 27 0.90
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (10 bp):
ATAATTTTCT
Found at i:868960 original size:31 final size:31
Alignment explanation
Indices: 868922--868985 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
868912 TAATTTCTAT
868922 ATTTTTTTATAACTTTCTATA-ATTTTCAATA
1 ATTTTTTTATAACTTTCTATAGATTTT-AATA
** *
868953 ATTTTTTTATATTTTTTTATAGATTTTAATA
1 ATTTTTTTATAACTTTCTATAGATTTTAATA
868984 AT
1 AT
868986 AATATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (31 bp):
ATTTTTTTATAACTTTCTATAGATTTTAATA
Found at i:873454 original size:17 final size:18
Alignment explanation
Indices: 873408--873456 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
873398 TGTCGCATCA
873408 ATAAATAAT-TTAAATATT
1 ATAAA-AATATTAAATATT
* *
873426 ATAAATATATTAAATTTT
1 ATAAAAATATTAAATATT
873444 A-AAAAATATTAAA
1 ATAAAAATATTAAA
873457 AGAATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAAATATTAAATATT
Found at i:877173 original size:27 final size:25
Alignment explanation
Indices: 877123--877176 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
877113 ATGTACTTCA
877123 TATGACTTTTTTTTTTTGAAAATTT
1 TATGACTTTTTTTTTTTGAAAATTT
* *
877148 TATGAACTTTTTTATTTTTTACAATTT
1 TATG-ACTTTTTT-TTTTTGAAAATTT
877175 TA
1 TA
877177 AAATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 8 0.32
27 13 0.52
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (25 bp):
TATGACTTTTTTTTTTTGAAAATTT
Found at i:881001 original size:25 final size:25
Alignment explanation
Indices: 880973--881054 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
880963 CTGAGTAACA
***
880973 GGAAGCTCATACGAGCTGTATATCG
1 GGAAGCTCATACGAGCCAAATATCG
* *
880998 GGAAGCTCTTGCGAGCCAAATATCG
1 GGAAGCTCATACGAGCCAAATATCG
*
881023 GGAAGCTCATGA-GAGCCAAGTATCG
1 GGAAGCTCAT-ACGAGCCAAATATCG
*
881048 AGAAGCT
1 GGAAGCT
881055 TAAGAGAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCAAATATCG
Found at i:881061 original size:25 final size:25
Alignment explanation
Indices: 880992--881062 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
880982 TACGAGCTGT
* ** *
880992 ATATCGGGAAGCTCTTGCGAGCCAA
1 ATATCGAGAAGCTCAAGAGAGCCAA
* *
881017 ATATCGGGAAGCTCATGAGAGCCAA
1 ATATCGAGAAGCTCAAGAGAGCCAA
* *
881042 GTATCGAGAAGCTTAAGAGAG
1 ATATCGAGAAGCTCAAGAGAG
881063 TTGTGGTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (25 bp):
ATATCGAGAAGCTCAAGAGAGCCAA
Found at i:883669 original size:20 final size:20
Alignment explanation
Indices: 883624--883671 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
883614 TTTTATACTC
*
883624 ATCTTAATAATATTTTATTA
1 ATCTTAATAATAATTTATTA
*
883644 AT-TTAATCATAAATTTATT-
1 ATCTTAATAAT-AATTTATTA
883663 ATCTTAATA
1 ATCTTAATA
883672 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
ATCTTAATAATAATTTATTA
Found at i:917370 original size:46 final size:46
Alignment explanation
Indices: 917269--917374 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 46
917259 TGCGAATTCG
* * *
917269 GACCACGAACTCCCTTTGCGAGCACACCTTGGCATGTGCGAGCTAA
1 GACCACGAGCTCCCCTTACGAGCACACCTTGGCATGTGCGAGCTAA
** * *
917315 GACTGCGAGCTCCCCTTATGAGCAC-CCATTGGCATGTGCGAGCTGA
1 GACCACGAGCTCCCCTTACGAGCACACC-TTGGCATGTGCGAGCTAA
*
917361 TACCACGAGCTCCC
1 GACCACGAGCTCCC
917375 ATTGCTGACT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.22, C:0.34, G:0.25, T:0.20
Consensus pattern (46 bp):
GACCACGAGCTCCCCTTACGAGCACACCTTGGCATGTGCGAGCTAA
Found at i:919545 original size:17 final size:17
Alignment explanation
Indices: 919525--919564 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
919515 AATTATAGTA
919525 AAAAGAAAACAAAAGAC
1 AAAAGAAAACAAAAGAC
* *
919542 AAAAGAAAATATAAGAC
1 AAAAGAAAACAAAAGAC
*
919559 ACAAGA
1 AAAAGA
919565 TGAGAGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.10, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAGAAAACAAAAGAC
Found at i:925047 original size:31 final size:31
Alignment explanation
Indices: 924929--925047 Score: 116
Period size: 31 Copynumber: 3.9 Consensus size: 31
924919 GAATATAGGA
*
924929 TGCCGAATTTGATTTGTATATGATTATAT-AT
1 TGCCGAATTTGATTTGTATATGAATAT-TCAT
* * ** *
924960 TGCCAAACTTGATTTGTATATGGTTATACAT
1 TGCCGAATTTGATTTGTATATGAATATTCAT
* * * *
924991 TGCCTAA-TTGCTTGGTATATCAATATTCAT
1 TGCCGAATTTGATTTGTATATGAATATTCAT
*
925021 TGTCGAATTTGATTTGTATATGAATAT
1 TGCCGAATTTGATTTGTATATGAATAT
925048 GTATATTGTT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
30 22 0.31
31 48 0.69
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (31 bp):
TGCCGAATTTGATTTGTATATGAATATTCAT
Found at i:926406 original size:28 final size:28
Alignment explanation
Indices: 926373--926429 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
926363 TAATATTTTA
926373 AACTTATTCAACTAATACATATTTACAC
1 AACTTATTCAACTAATACATATTTACAC
926401 AACTTATTCAACTAATACATATTTACAC
1 AACTTATTCAACTAATACATATTTACAC
926429 A
1 A
926430 CATACAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (28 bp):
AACTTATTCAACTAATACATATTTACAC
Found at i:935430 original size:22 final size:21
Alignment explanation
Indices: 935392--935432 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
935382 ACAAAACAAG
**
935392 GGTATCGATATTTTATAAAAA
1 GGTATCGATATCATATAAAAA
935413 GGTATCGATACTCATATAAA
1 GGTATCGATA-TCATATAAA
935433 TTTCGATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (21 bp):
GGTATCGATATCATATAAAAA
Found at i:938526 original size:16 final size:16
Alignment explanation
Indices: 938497--938536 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
938487 TTTTATTGAG
938497 AAAATT-ATTCAATTGT
1 AAAATTAATTCAATT-T
938513 AAAATTAATT-AATTT
1 AAAATTAATTCAATTT
938528 -AAATTAATT
1 AAAATTAATT
938537 TAATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 1 0.04
16 10 0.43
17 3 0.13
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
AAAATTAATTCAATTT
Found at i:940253 original size:21 final size:21
Alignment explanation
Indices: 940223--940282 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
940213 CATTAAGATA
* *
940223 AATAATATTTATATTTATGAT
1 AATATTATTTATTTTTATGAT
*
940244 CATATTATTTATTTTTATGAT
1 AATATTATTTATTTTTATGAT
* *
940265 AATTTTATATATTTTTAT
1 AATATTATTTATTTTTAT
940283 TTTCTTACCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
AATATTATTTATTTTTATGAT
Found at i:954901 original size:43 final size:43
Alignment explanation
Indices: 954806--954924 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 43
954796 ACGTCGCTAA
*
954806 CTTTTGCGGCGCTTTTCCCACAAACGCCGCTAAAGGCTAGGAC
1 CTTTTGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGCTAGGAC
* * * * *
954849 CTTTAGCGGCACTTTTCCCATAAACGCCGCTAAA-GATCATGAC
1 CTTTTGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGCT-AGGAC
* * * *
954892 TTTTTGCGGCGCTTCTGCCAAAAACGCCACTAA
1 CTTTTGCGGCGCTTTTCCCAAAAACGCCGCTAA
954925 TGACATTTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (43 bp):
CTTTTGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGCTAGGAC
Found at i:959788 original size:6 final size:7
Alignment explanation
Indices: 959747--959801 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
959737 CACTAACTTT
*
959747 TAACCTC
1 TAACCCC
959754 TAACCCC
1 TAACCCC
**
959761 TAACTAC
1 TAACCCC
959768 TAACCCC
1 TAACCCC
*
959775 CAACCCC
1 TAACCCC
*
959782 CAACCCC
1 TAACCCC
959789 TAACCCC
1 TAACCCC
959796 TAACCC
1 TAACCC
959802 ATAAACATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.31, C:0.55, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:959969 original size:14 final size:15
Alignment explanation
Indices: 959950--959982 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
959940 CTTAAACCAG
959950 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
959964 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
959979 AATC
1 AATC
959983 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:960076 original size:14 final size:14
Alignment explanation
Indices: 960031--960067 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
960021 ATCCTAAATT
960031 AACCATATACACTA
1 AACCATATACACTA
*
960045 AACCATATACCCTA
1 AACCATATACACTA
960059 AACCATATA
1 AACCATATA
960068 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCATATACACTA
Found at i:960455 original size:39 final size:41
Alignment explanation
Indices: 960401--960484 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
960391 AAATGTTTTT
* *
960401 GCGGCGCTTTTC-AAAAACGCCGTTAAATC-CCGAGCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCTCCGAGCATTA
*
960440 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTCAAAAAACGCCGCTAAAGCTCCGAGCATTA
960481 GCGG
1 GCGG
960485 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 12 0.30
40 15 0.38
41 13 0.32
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTCAAAAAACGCCGCTAAAGCTCCGAGCATTA
Found at i:965004 original size:2 final size:2
Alignment explanation
Indices: 964992--965025 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
964982 GTTATTTAAT
*
964992 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
965026 AACATACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:989891 original size:31 final size:29
Alignment explanation
Indices: 989835--989923 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 29
989825 AGATAATTTT
* *
989835 AAAGAGTTTATTAGGATTCATTACTCTTT
1 AAAGATTTTATTAGGATTCATTACTCTTG
*
989864 AAGAGTTTTTATTAGGATTCCATTACTCTTG
1 AA-AGATTTTATTAGGATT-CATTACTCTTG
*
989895 AAAGATTTTATTAGGATTCAATACTCTTG
1 AAAGATTTTATTAGGATTCATTACTCTTG
989924 TAATTGCCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
29 12 0.23
30 29 0.55
31 12 0.23
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (29 bp):
AAAGATTTTATTAGGATTCATTACTCTTG
Found at i:1001302 original size:9 final size:9
Alignment explanation
Indices: 1001288--1001312 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1001278 AGATAAGGAG
1001288 ATAAATAAT
1 ATAAATAAT
1001297 ATAAATAAT
1 ATAAATAAT
1001306 ATAAATA
1 ATAAATA
1001313 TTATTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAAATAAT
Found at i:1001352 original size:20 final size:20
Alignment explanation
Indices: 1001290--1001352 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
1001280 ATAAGGAGAT
*
1001290 AAATAATATAAATAA-TAT-
1 AAATATTATAAATAATTATA
** *
1001308 AAATATTATTTACAATTA-A
1 AAATATTATAAATAATTATA
*
1001327 ATAATATTATGAATAATTATA
1 A-AATATTATAAATAATTATA
1001348 AAATA
1 AAATA
1001353 GATAGATAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 11 0.32
19 3 0.09
20 18 0.53
21 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATATTATAAATAATTATA
Done.