Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 95 of 182
Found at i:30974413 original size:122 final size:126
Alignment explanation
Indices: 30974225--30974484 Score: 395
Period size: 122 Copynumber: 2.1 Consensus size: 126
30974215 TTCTATTATC
* * * * *
30974225 TTTCCTTTTATTTGAATATCTCATATTAAAATGGAAACATATATCTTTAGAGAAATATATGGAAG
1 TTTCCTTTTATATGAATATCTCATATTAAAAAGGAAACATATACCTTTAAAGAAATATATGAAAG
* *
30974290 GTTTATTAAAACATTATATCCTTTCCAAAAGGATACTATCTTCCATG-TTTTAATATTCAA
66 GTTTATTAAAACATTATATCCTTTCCAAAAAGATACTAACTTCCATGTTTTTAATATTCAA
*
30974350 TTTCCTTTTATAT-AATATCTTATATTAAAAAGG-AA-ATACT-CCTTTAAAGAAATATATGAAA
1 TTTCCTTTTATATGAATATCTCATATTAAAAAGGAAACATA-TACCTTTAAAGAAATATATGAAA
*
30974411 GGTTTATTAAAACATTATATCCTTTCCAAAAAGATATTAACTTCCATGTTTTTAATATTCAA
65 GGTTTATTAAAACATTATATCCTTTCCAAAAAGATACTAACTTCCATGTTTTTAATATTCAA
30974473 TTTCCTTTTATA
1 TTTCCTTTTATA
30974485 CGTAGACAAC
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
122 66 0.53
123 28 0.23
124 18 0.15
125 12 0.10
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (126 bp):
TTTCCTTTTATATGAATATCTCATATTAAAAAGGAAACATATACCTTTAAAGAAATATATGAAAG
GTTTATTAAAACATTATATCCTTTCCAAAAAGATACTAACTTCCATGTTTTTAATATTCAA
Found at i:30981316 original size:123 final size:126
Alignment explanation
Indices: 30981080--30981320 Score: 357
Period size: 123 Copynumber: 1.9 Consensus size: 126
30981070 TGCTATCTTT
* * * *
30981080 CTTTATATTTAATATCTCATATTAAAATGGAAACATATATCTTTAGAGAAATATATGGAAGGTTT
1 CTTTATATATAATATCTCATATTAAAAAGGAAACATATATCTTTAAAGAAATACATGGAAGGTTT
* * *
30981145 ATTAAAATATTATATCCTTTCCAAAAAGGATATTATCTTCCATGTTTTAATATCCAGTTTC
66 ATTAAAACATTAGATCCTTTCCAAAAAGGATATTAACTTCCATGTTTTAATATCCAGTTTC
30981206 CTTT-TATATAATATCTCATATTAAAAAGG-AA-ATAT-TCCTTTAAAGAAATACATGGAAGGTT
1 CTTTATATATAATATCTCATATTAAAAAGGAAACATATAT-CTTTAAAGAAATACATGGAAGGTT
*
30981267 TATTAAAACATTAGATCCTTTCC-AAAAGGATATTAACTTTCATGTTTTTAATAT
65 TATTAAAACATTAGATCCTTTCCAAAAAGGATATTAACTTCCATG-TTTTAATAT
30981321 TCAATTATCT
Statistics
Matches: 105, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
122 20 0.19
123 56 0.53
124 2 0.02
125 23 0.22
126 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (126 bp):
CTTTATATATAATATCTCATATTAAAAAGGAAACATATATCTTTAAAGAAATACATGGAAGGTTT
ATTAAAACATTAGATCCTTTCCAAAAAGGATATTAACTTCCATGTTTTAATATCCAGTTTC
Found at i:30987411 original size:16 final size:16
Alignment explanation
Indices: 30987392--30987448 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
30987382 AAATGTGGGT
30987392 AAAATAAAATATTTAA
1 AAAATAAAATATTTAA
* * *
30987408 AAAACAAATTATGTAA
1 AAAATAAAATATTTAA
* * * *
30987424 TAACTAAATTAATTAA
1 AAAATAAAATATTTAA
30987440 AAAATAAAA
1 AAAATAAAA
30987449 CAAAAATAAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATAAAATATTTAA
Found at i:30989214 original size:8 final size:8
Alignment explanation
Indices: 30989201--30989226 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30989191 ATCTTTACTA
30989201 ATATAAAG
1 ATATAAAG
30989209 ATATAAAG
1 ATATAAAG
30989217 ATATAAAG
1 ATATAAAG
30989225 AT
1 AT
30989227 GTTAATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (8 bp):
ATATAAAG
Found at i:30989551 original size:16 final size:16
Alignment explanation
Indices: 30989532--30989588 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
30989522 ACACAATGGT
30989532 AAAATAAAATATTTAA
1 AAAATAAAATATTTAA
* * *
30989548 AAAACAAATTATGTAA
1 AAAATAAAATATTTAA
* * * *
30989564 TAACTAAATTAATTAA
1 AAAATAAAATATTTAA
30989580 AAAATAAAA
1 AAAATAAAA
30989589 CTAAAATTAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATAAAATATTTAA
Found at i:30989626 original size:26 final size:25
Alignment explanation
Indices: 30989569--30989626 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
30989559 TGTAATAACT
*
30989569 AAATTAATTAAAAAATAAAACTAAA
1 AAATTAATTAAAAAATAAAACCAAA
*
30989594 ATTATTAATT-AAAAATAATAATCCAAA
1 A-AATTAATTAAAAAATAA-AA-CCAAA
30989621 AAATTA
1 AAATTA
30989627 TTCAACGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
AAATTAATTAAAAAATAAAACCAAA
Found at i:31000982 original size:25 final size:25
Alignment explanation
Indices: 31000919--31000969 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31000909 TCCAATTCTA
31000919 ACTACTTAAGAAAAACTTGTGCATT
1 ACTACTTAAGAAAAACTTGTGCATT
31000944 ACTACTTAAGAAAAACTTGTGCATT
1 ACTACTTAAGAAAAACTTGTGCATT
31000969 A
1 A
31000970 TCATTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (25 bp):
ACTACTTAAGAAAAACTTGTGCATT
Found at i:31004261 original size:21 final size:21
Alignment explanation
Indices: 31004235--31004277 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
31004225 GTGATCTTAC
31004235 ATATGG-TG-ATAATACGATGTG
1 ATATGGATGCATAA-AC-ATGTG
31004256 ATATGGATGCATAAACATGTG
1 ATATGGATGCATAAACATGTG
31004277 A
1 A
31004278 ATAATATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 12 0.60
22 4 0.20
23 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (21 bp):
ATATGGATGCATAAACATGTG
Found at i:31009748 original size:95 final size:95
Alignment explanation
Indices: 31009580--31009763 Score: 332
Period size: 95 Copynumber: 1.9 Consensus size: 95
31009570 AATAGATGAA
31009580 TCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTATC
1 TCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTATC
31009645 TTCTCTAATTCCTCTATTATCAAAGATTAG
66 TTCTCTAATTCCTCTATTATCAAAGATTAG
* * * *
31009675 TCTGGAGTAATATTCCAAATATAAGTACCTGATAAGCAAGGGTGTATGCATTAGTGATCTTTCTC
1 TCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTATC
31009740 TTCTCTAATTCCTCTATTATCAAA
66 TTCTCTAATTCCTCTATTATCAAA
31009764 TCCACACATT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (95 bp):
TCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTGTATGCATTAGTGATCTTTATC
TTCTCTAATTCCTCTATTATCAAAGATTAG
Found at i:31025727 original size:12 final size:14
Alignment explanation
Indices: 31025688--31025730 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
31025678 ATTCATCAAC
31025688 AAAACA-ATAAATG
1 AAAACATATAAATG
31025701 AAAACATATAAATG
1 AAAACATATAAATG
*
31025715 AAGA-ATA-AAATG
1 AAAACATATAAATG
31025727 AAAA
1 AAAA
31025731 AGAAACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 8 0.30
13 9 0.33
14 10 0.37
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (14 bp):
AAAACATATAAATG
Found at i:31029331 original size:21 final size:21
Alignment explanation
Indices: 31029281--31029331 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
31029271 GAAGGGGGTT
31029281 TGTTGCAACATAGACATGCTA
1 TGTTGCAACATAGACATGCTA
* * *
31029302 TGGTACAACATAGACATTCTA
1 TGTTGCAACATAGACATGCTA
31029323 TGTTGCAAC
1 TGTTGCAAC
31029332 GAAGAAGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTTGCAACATAGACATGCTA
Found at i:31033186 original size:12 final size:12
Alignment explanation
Indices: 31033152--31033189 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
31033142 CAACCCGTTA
31033152 ACTGACCCATTG
1 ACTGACCCATTG
31033164 ACCTGACCCATTG
1 A-CTGACCCATTG
*
31033177 ACTGAACCATTG
1 ACTGACCCATTG
31033189 A
1 A
31033190 TCGTTGACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
ACTGACCCATTG
Found at i:31034619 original size:21 final size:24
Alignment explanation
Indices: 31034577--31034619 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
31034567 GGATAATATG
31034577 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
31034601 TTTTGA-ATAA-AAA-TAAAGT
1 TTTTGATATAACAAATTAAAGT
31034620 TGATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 4 0.21
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:31035719 original size:11 final size:12
Alignment explanation
Indices: 31035703--31035731 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
31035693 TTCAAAAAAT
31035703 AAAAAATTA-TA
1 AAAAAATTATTA
31035714 AAAAAATTATTA
1 AAAAAATTATTA
31035726 AAAAAA
1 AAAAAA
31035732 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:31037217 original size:6 final size:6
Alignment explanation
Indices: 31037199--31037306 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
31037189 TTAAATTGAT
* *
31037199 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
31037246 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
31037295 TTAAAA TTTAAA
1 TTTAAA TTTAAA
31037307 AGTTCAAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:31037229 original size:17 final size:15
Alignment explanation
Indices: 31037203--31037267 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
31037193 ATTGATTTTA
31037203 AATTTATTTAAATTT
1 AATTTATTTAAATTT
31037218 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
31037235 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
31037249 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
31037266 AA
1 AA
31037268 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:31037245 original size:31 final size:31
Alignment explanation
Indices: 31037207--31037270 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
31037197 ATTTTAAATT
*
31037207 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
31037238 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
31037269 TA
1 TA
31037271 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:31037253 original size:11 final size:11
Alignment explanation
Indices: 31037189--31037269 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
31037179 GACTTTTGAG
* *
31037189 TTAAATTGATT
1 TTAAATTTAAT
31037200 TTAAATTT-AT
1 TTAAATTTAAT
31037210 TTAAATTTAGAT
1 TTAAATTTA-AT
*
31037222 TT-ATTTTAAAT
1 TTAAATTT-AAT
31037233 TTAAA--T-AT
1 TTAAATTTAAT
31037241 TTAAATTTAAT
1 TTAAATTTAAT
*
31037252 TTGAATTTAAAT
1 TTAAATTT-AAT
31037264 TTAAAT
1 TTAAAT
31037270 AAAAATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.12
10 11 0.20
11 24 0.43
12 14 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:31037266 original size:42 final size:41
Alignment explanation
Indices: 31037199--31037306 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
31037189 TTAAATTGAT
* ** * *
31037199 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
31037240 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
31037281 TATTAAATTTAACATTAAAATTTAAA
1 T-TTAAATTT-A-ATTTAAATTTAAA
31037307 AGTTCAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 32 0.58
43 1 0.02
44 11 0.20
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:31037403 original size:14 final size:14
Alignment explanation
Indices: 31037384--31037422 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
31037374 TTTGGCCCAC
31037384 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
31037398 GGCCCAATT--AAG
1 GGCCCAATTACAAA
31037410 GGCCCAATTACAA
1 GGCCCAATTACAA
31037423 TAGTCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:31039218 original size:30 final size:30
Alignment explanation
Indices: 31039183--31039380 Score: 247
Period size: 30 Copynumber: 6.6 Consensus size: 30
31039173 AAACAATCCA
* * *
31039183 AAAATTATATTTTGACCTCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
31039213 GAAATTACATTTTGACCCTAAATCTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
31039243 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
**
31039273 AAAATTATGTTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
31039303 GAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
31039333 AAAATTACATTTTAACCCCAAAAC-TTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
31039362 AAAATTACCATTTT-ACCCC
1 AAAATTA-CATTTTGACCCC
31039381 CGAATCTTTT
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
29 16 0.11
30 132 0.89
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:31039298 original size:90 final size:89
Alignment explanation
Indices: 31039181--31039368 Score: 295
Period size: 90 Copynumber: 2.1 Consensus size: 89
31039171 CCAAACAATC
* * * *
31039181 CAAAAATTATATTTTGACCTCAAAACTTTTCTGAAATTACATTTTGACCCTAAATCTTTTCCAAA
1 CAAAAATTATATTTTGACCCCAAAACTTTTCCGAAATTACATTTTGACCCCAAAACTTTTCCAAA
*
31039246 ATTACATTTTAACCCTAAAACTTTT
66 ATTACATTTTAACCCCAAAAC-TTT
* * *
31039271 CCAAAATTATGTTTTGACCCCAAAACTTTTCCGAAATTATATTTTGACCCCAAAACTTTTCCAAA
1 CAAAAATTATATTTTGACCCCAAAACTTTTCCGAAATTACATTTTGACCCCAAAACTTTTCCAAA
31039336 ATTACATTTTAACCCCAAAACTTT
66 ATTACATTTTAACCCCAAAACTTT
31039360 CAAAAATTA
1 CAAAAATTA
31039369 CCATTTTACC
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 11 0.12
90 78 0.88
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.37
Consensus pattern (89 bp):
CAAAAATTATATTTTGACCCCAAAACTTTTCCGAAATTACATTTTGACCCCAAAACTTTTCCAAA
ATTACATTTTAACCCCAAAACTTT
Found at i:31039408 original size:59 final size:56
Alignment explanation
Indices: 31039357--31039853 Score: 544
Period size: 59 Copynumber: 8.5 Consensus size: 56
31039347 ACCCCAAAAC
* *
31039357 TTTCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGA
1 TTTCAAAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
* * *
31039413 TTTCACCGAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCGTTTTTAACCCCGA
1 TTTCA---AAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
** *
31039472 TTTCACCAAAAATTACCATTTTACCCCCGAAGCTCCTAAAATTCCATTTTTAACCTCGA
1 TTT---CAAAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
* ** *
31039531 TTTCACCGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCTGTTTTTAACCCTGA
1 TTTCA---AAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
** * *
31039590 TTTCACCGAAAATTACCATTTTACTACCAAAGCTTTTAAAATTCCGTTTTTAACCCCGA
1 TTTCA---AAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
** **
31039649 TTTCACCAAAAATTACCATTTTACCCCCGAAGCTCCTAAAATTCTGTTTTTAACCCCGA
1 TTT---CAAAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
* *
31039708 TTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATTCCATTTTTAACCCCGA
1 TTT---CAAAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
* * *
31039767 TTTCACCGAAAATTACCATTATACCCCCGAATCTTTTAAAATTCCATTTTTAATCCCGA
1 TTTCA---AAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
* *
31039826 TTACATCAAAATTACCATTTTGCCCCCG
1 TTTCA--AAAATTACCATTTTACCCCCG
31039854 GGTATCCATA
Statistics
Matches: 384, Mismatches: 42, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
56 9 0.02
58 19 0.05
59 352 0.92
62 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (56 bp):
TTTCAAAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCGA
Found at i:31039464 original size:118 final size:115
Alignment explanation
Indices: 31039357--31039853 Score: 679
Period size: 118 Copynumber: 4.2 Consensus size: 115
31039347 ACCCCAAAAC
* * *
31039357 TTTCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGA
1 TTTCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGA
*
31039422 AAATTACCATTTTACCCCTGAATCTTTTAAAATTCCGTTTTTAACCCCGA
66 AAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGA
* *
31039472 TTTCACCAAAAATTACCATTTTACCCCCGAAGCTCCTAAAATTCCATTTTTAACCTCGATTTCAC
1 TTT---CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* *
31039537 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCTGTTTTTAACCCTGA
63 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGA
** * * *
31039590 TTTCACCGAAAATTACCATTTTACTACCAAAGCTTTTAAAATTCCGTTTTTAACCCCGATTTCAC
1 TTTCA---AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* * ** *
31039655 CAAAAATTACCATTTTACCCCCGAAGCTCCTAAAATTCTGTTTTTAACCCCGA
63 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGA
*
31039708 TTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
1 TTT---CAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* * *
31039773 CGAAAATTACCATTATACCCCCGAATCTTTTAAAATTCCATTTTTAATCCCGA
63 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGA
* *
31039826 TTACATCAAAATTACCATTTTGCCCCCG
1 TTTCA--AAAATTACCATTTTACCCCCG
31039854 GGTATCCATA
Statistics
Matches: 334, Mismatches: 37, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
115 7 0.02
117 19 0.06
118 306 0.92
121 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (115 bp):
TTTCAAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGA
AAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGA
Found at i:31039795 original size:30 final size:30
Alignment explanation
Indices: 31039360--31039796 Score: 173
Period size: 30 Copynumber: 14.8 Consensus size: 30
31039350 CCAAAACTTT
* **
31039360 CAAAAATTACCATTTTACCCCCGA-ATCTT
1 CAAAAATTACCATTTTACCCCCGATTTCAC
** * *
31039389 TTAAAATT-CCATTTTTAACCCTGATTTCAC
1 CAAAAATTACCA-TTTTACCCCCGATTTCAC
* * * **
31039419 CGAAAATTACCATTTTACCCCTGA-ATCTT
1 CAAAAATTACCATTTTACCCCCGATTTCAC
** * *
31039448 TTAAAATT-CCGTTTTTAACCCCGATTTCAC
1 CAAAAATTACC-ATTTTACCCCCGATTTCAC
** *
31039478 CAAAAATTACCATTTTACCCCCGA-AGCTC
1 CAAAAATTACCATTTTACCCCCGATTTCAC
* * *
31039507 CTAAAATT-CCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCA-TTTTACCCCCGATTTCAC
* * **
31039537 CGAAAATTACCATTTTACCCCCGA-ATCTT
1 CAAAAATTACCATTTTACCCCCGATTTCAC
** ** * *
31039566 TTAAAATT-CTGTTTTTAACCCTGATTTCAC
1 CAAAAATTAC-CATTTTACCCCCGATTTCAC
* ** *** **
31039596 CGAAAATTACCATTTTACTACC-AAAGCTT
1 CAAAAATTACCATTTTACCCCCGATTTCAC
** * *
31039625 TTAAAATT-CCGTTTTTAACCCCGATTTCAC
1 CAAAAATTACC-ATTTTACCCCCGATTTCAC
** *
31039655 CAAAAATTACCATTTTACCCCCGA-AGCTC
1 CAAAAATTACCATTTTACCCCCGATTTCAC
* ** *
31039684 CTAAAATT-CTGTTTTTAACCCCGATTTCAC
1 CAAAAATTAC-CATTTTACCCCCGATTTCAC
* ** **
31039714 CAAAAATTACCATTTTACCCTCGA-AGCTT
1 CAAAAATTACCATTTTACCCCCGATTTCAC
* *
31039743 CTAAAATT-CCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCA-TTTTACCCCCGATTTCAC
* *
31039773 CGAAAATTACCATTATACCCCCGA
1 CAAAAATTACCATTTTACCCCCGA
31039797 ATCTTTTAAA
Statistics
Matches: 281, Mismatches: 106, Indels: 41
0.66 0.25 0.10
Matches are distributed among these distances:
28 15 0.05
29 124 0.44
30 127 0.45
31 15 0.05
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (30 bp):
CAAAAATTACCATTTTACCCCCGATTTCAC
Found at i:31039889 original size:177 final size:177
Alignment explanation
Indices: 31039360--31039853 Score: 792
Period size: 177 Copynumber: 2.8 Consensus size: 177
31039350 CCAAAACTTT
31039360 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAA
*
31039425 TTACCATTTTACCCCTGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCA
66 TTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCA
* *
31039490 TTTTACCCCCGAAGCTCCTAAAATTCCATTTTTAACCTCGATTTCAC
131 TTTTACCCCCGAAGCTCCTAAAATTCCGTTTTTAACCCCGATTTCAC
* **
31039537 CGAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCTGTTTTTAACCCTGATTTCACCGAAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAA
** * *
31039602 TTACCATTTTACTACCAAAGCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCA
66 TTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCA
*
31039667 TTTTACCCCCGAAGCTCCTAAAATTCTGTTTTTAACCCCGATTTCAC
131 TTTTACCCCCGAAGCTCCTAAAATTCCGTTTTTAACCCCGATTTCAC
* * * *
31039714 CAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAA
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAA
* * * * *
31039779 TTACCATTATACCCCCGAATCTTTTAAAATTCCATTTTTAATCCCGATTACATC-AAAATTACCA
66 TTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCA
*
31039843 TTTTGCCCCCG
131 TTTTACCCCCG
31039854 GGTATCCATA
Statistics
Matches: 289, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
176 20 0.07
177 269 0.93
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (177 bp):
CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAA
TTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCA
TTTTACCCCCGAAGCTCCTAAAATTCCGTTTTTAACCCCGATTTCAC
Found at i:31047605 original size:25 final size:25
Alignment explanation
Indices: 31047577--31047706 Score: 134
Period size: 23 Copynumber: 5.4 Consensus size: 25
31047567 CCGAAGTACT
* *
31047577 TAACAGAGGGCACA-TAAGTGCTGGG
1 TAACAGAGGGCACACAAAGTGCT-AG
31047602 TAACAGAGGGCACACAAAGTGCTAG
1 TAACAGAGGGCACACAAAGTGCTAG
*
31047627 T--CAGAGGGCACACAAAGTGCTAA
1 TAACAGAGGGCACACAAAGTGCTAG
31047650 TAACAGAGGGCACACACAA-TGCT-G
1 TAACAGAGGGCACACA-AAGTGCTAG
*
31047674 -AACAGAGGGCACGA-AACGTGCTA-
1 TAACAGAGGGCAC-ACAAAGTGCTAG
31047697 -AACAGAGGGC
1 TAACAGAGGGC
31047707 GCGCAAGTGT
Statistics
Matches: 93, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
22 1 0.01
23 49 0.53
24 1 0.01
25 33 0.35
26 9 0.10
ACGTcount: A:0.38, C:0.21, G:0.30, T:0.12
Consensus pattern (25 bp):
TAACAGAGGGCACACAAAGTGCTAG
Found at i:31047680 original size:48 final size:45
Alignment explanation
Indices: 31047577--31047706 Score: 138
Period size: 48 Copynumber: 2.8 Consensus size: 45
31047567 CCGAAGTACT
* *
31047577 TAACAGAGGGCACATAAGTGCTGGGTAACAGAGGGCACACAAAGTGC
1 TAACAGAGGGCACAAAAGTGCT--ATAACAGAGGGCACACAAAGTGC
*
31047624 TAGTCAGAGGGCACACAAAGTGCTAATAACAGAGGGCACACACAA-TGC
1 TA-ACAGAGGGCACA-AAAGTGCT-ATAACAGAGGGCACACA-AAGTGC
*
31047672 TGAACAGAGGGCACGAAACGTGCTA-AACAGAGGGC
1 T-AACAGAGGGCAC-AAAAGTGCTATAACAGAGGGC
31047707 GCGCAAGTGT
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
46 10 0.14
47 3 0.04
48 48 0.67
49 11 0.15
ACGTcount: A:0.38, C:0.21, G:0.30, T:0.12
Consensus pattern (45 bp):
TAACAGAGGGCACAAAAGTGCTATAACAGAGGGCACACAAAGTGC
Found at i:31054157 original size:25 final size:25
Alignment explanation
Indices: 31054058--31054145 Score: 133
Period size: 25 Copynumber: 3.5 Consensus size: 25
31054048 CCGAAGTACT
* *
31054058 TAACAGAGGGCACA-TAAGTGCTAGG
1 TAACAGAGGGCACACAAAGTGCTA-A
*
31054083 TAACAAAGGGCACACAAAGTGCTAA
1 TAACAGAGGGCACACAAAGTGCTAA
31054108 TAACAGAGGGCACACAAAGTGCTAA
1 TAACAGAGGGCACACAAAGTGCTAA
31054133 TAACAGAGGGCAC
1 TAACAGAGGGCAC
31054146 GAAACGTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 50 0.86
26 8 0.14
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.12
Consensus pattern (25 bp):
TAACAGAGGGCACACAAAGTGCTAA
Found at i:31054165 original size:23 final size:25
Alignment explanation
Indices: 31054058--31054165 Score: 116
Period size: 25 Copynumber: 4.4 Consensus size: 25
31054048 CCGAAGTACT
* * *
31054058 TAACAGAGGGCACA-TAAGTGCTAGG
1 TAACAAAGGGCACACAAAGTGCTA-A
31054083 TAACAAAGGGCACACAAAGTGCTAA
1 TAACAAAGGGCACACAAAGTGCTAA
*
31054108 TAACAGAGGGCACACAAAGTGCTAA
1 TAACAAAGGGCACACAAAGTGCTAA
* *
31054133 TAACAGAGGGCACGA-AACGTGCT-A
1 TAACAAAGGGCAC-ACAAAGTGCTAA
31054157 -AACAAAGGG
1 TAACAAAGGG
31054166 TGCGCAAGTG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.11
24 1 0.01
25 57 0.76
26 9 0.12
ACGTcount: A:0.43, C:0.19, G:0.27, T:0.12
Consensus pattern (25 bp):
TAACAAAGGGCACACAAAGTGCTAA
Found at i:31061623 original size:52 final size:52
Alignment explanation
Indices: 31061540--31061833 Score: 437
Period size: 52 Copynumber: 5.7 Consensus size: 52
31061530 GTAAATAAAG
*
31061540 AAAAGGCCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
31061592 AAAAGGTCCGATGACTATGTGTCATCCTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
31061644 AAAAAGGTCCGATGACTATATGTCATCGTGAGTATATGAATCCTTTATGGATT
1 -AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
** * *
31061697 AAAAGGTTTGATGACTATGTGCCATCTTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * **
31061749 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGATTCCTTCACAGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* **
31061801 AAGAGGTCTTATGACTATGTGTCATC-TGAGTAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
31061834 TAAATGGAAT
Statistics
Matches: 223, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
51 7 0.03
52 166 0.74
53 50 0.22
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:31061728 original size:105 final size:103
Alignment explanation
Indices: 31061540--31061833 Score: 446
Period size: 105 Copynumber: 2.8 Consensus size: 103
31061530 GTAAATAAAG
* **
31061540 AAAAGGCCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTCCGATG
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTTTGATG
31061605 ACTATGTGTCATCCTGAGTATATGAATCCTTTATGGATT
66 ACTATGTGTCAT-CTGAGTATATGAATCCTTTATGGATT
*
31061644 AAAAAGGTCCGATGACTATATGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTTTGAT
1 -AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTTTGAT
*
31061709 GACTATGTGCCATCTTGAGTATATGAATCCTTTATGGATT
65 GACTATGTGTCATC-TGAGTATATGAATCCTTTATGGATT
* * * ** *
31061749 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGATTCCTTCACAGATTAAGAGGTCTT-AT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGT-TTGAT
31061813 GACTATGTGTCATCTGAGTAT
65 GACTATGTGTCATCTGAGTAT
31061834 TAAATGGAAT
Statistics
Matches: 174, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
103 7 0.04
104 68 0.39
105 99 0.57
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (103 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAAAGGTTTGATG
ACTATGTGTCATCTGAGTATATGAATCCTTTATGGATT
Found at i:31063193 original size:69 final size:69
Alignment explanation
Indices: 31063078--31063208 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
31063068 AAAACTTAAA
*
31063078 AAGTTCTGTGAACCCCTAAGACCTTAAACTGACCATAGTTACAGGTTTTGGGTGTTACATTTGGT
1 AAGTTCTGTGAACCCCTAAGACCTTAAACTGACCATAGTTACAGGTTTTGGATGTTACATTTGGT
31063143 GCTC
66 GCTC
* * * *
31063147 AAGTTCTGTGAACCCCTAAGACCTTAAACTGGCGATAGTTATAGGTTTTGGATGTTATATTT
1 AAGTTCTGTGAACCCCTAAGACCTTAAACTGACCATAGTTACAGGTTTTGGATGTTACATTT
31063209 AGTGGTATCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (69 bp):
AAGTTCTGTGAACCCCTAAGACCTTAAACTGACCATAGTTACAGGTTTTGGATGTTACATTTGGT
GCTC
Found at i:31067070 original size:52 final size:52
Alignment explanation
Indices: 31066935--31067177 Score: 360
Period size: 52 Copynumber: 4.7 Consensus size: 52
31066925 GTAAATAAAG
*
31066935 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
31066987 AAAAAGGTCCGATGACTATGTGTCATCGTGAGTGTATGAATCCTTTATTGATT
1 -AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
** * * *
31067040 AAAAGGTTTGATGACTGTGTGCCATAGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * *
31067092 AAAAGGTCCGATGACTATGTGTCATCGTAAGTATATGATTCCTTCACGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
31067144 AAGAGGTCCGATGACTATGTGTCATCGTGAGTAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
31067178 TAAATGGAAT
Statistics
Matches: 169, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 120 0.71
53 49 0.29
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:31072493 original size:239 final size:238
Alignment explanation
Indices: 31072067--31072547 Score: 908
Period size: 239 Copynumber: 2.0 Consensus size: 238
31072057 TACTAGCAGT
*
31072067 ATCGTGGAACTGAATCCTCTCGCAATTGTGCCCTATTTGGCACCACTCACTGAAATCCACCCATC
1 ATCGTGAAACTGAATCCTCTCGCAATTGTGCCCTATTTGGCACCACTCACTGAAATCCACCCATC
* *
31072132 TGAAGTAACAATCGATGAGGCTACCATCTAACCTGTTGAGGAGGAGCAATCCACCAATCCGGTTG
66 TGAAGTAACAACCGATGAGGCTACCATCTAACCTGTTGAGGAGGAGCAATCCACAAATCCGGTTG
*
31072197 GTTCGACGGATAAAAAGAGGAAGAGGTGCAAAGATAAAAAGAAGAAGAAGCAAAAGGAAGAGGGT
131 GTTCGACGGATAAAAAGAGGAAGAGGTGCAAAGATAAAAAGAAGAAGAAGCAAAAGGAAAAGGGT
*
31072262 GAGCGCCCAAAGAAAAAGAACAAGAAAACAAGGGCAGCCTCTGC
196 GAGCG-CCAAAGAAAAAGAACAAGAAAACAAGGGCAACCTCTGC
31072306 ATCGTGAAACTGAATCCTCTCGCAATTGTGCCCTATTTGGCACCACTCACTGAAATCCACCCATC
1 ATCGTGAAACTGAATCCTCTCGCAATTGTGCCCTATTTGGCACCACTCACTGAAATCCACCCATC
31072371 TGAAGTAACAACCGATGAGGCTACCATCTAACCTGTTGAGGAGGAGCAATCCACAAATCCGGTTG
66 TGAAGTAACAACCGATGAGGCTACCATCTAACCTGTTGAGGAGGAGCAATCCACAAATCCGGTTG
31072436 GTTCGACGGATAAAAAGAGGAAGAGGTGCAAAGATAAAAAGAAGAAGAAGCAAAAGGAAAAGGGT
131 GTTCGACGGATAAAAAGAGGAAGAGGTGCAAAGATAAAAAGAAGAAGAAGCAAAAGGAAAAGGGT
31072501 GAGCGCCAAAGAAAAAGAACAAGAAAACAAGGGCAACCTCTGC
196 GAGCGCCAAAGAAAAAGAACAAGAAAACAAGGGCAACCTCTGC
31072544 ATCG
1 ATCG
31072548 GCTGCCGAGG
Statistics
Matches: 237, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
238 41 0.17
239 196 0.83
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (238 bp):
ATCGTGAAACTGAATCCTCTCGCAATTGTGCCCTATTTGGCACCACTCACTGAAATCCACCCATC
TGAAGTAACAACCGATGAGGCTACCATCTAACCTGTTGAGGAGGAGCAATCCACAAATCCGGTTG
GTTCGACGGATAAAAAGAGGAAGAGGTGCAAAGATAAAAAGAAGAAGAAGCAAAAGGAAAAGGGT
GAGCGCCAAAGAAAAAGAACAAGAAAACAAGGGCAACCTCTGC
Found at i:31073255 original size:12 final size:11
Alignment explanation
Indices: 31073221--31073261 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
31073211 CTTGAAAGAG
*
31073221 GAAAATAAAAA
1 GAAAAGAAAAA
31073232 G-AAAGAAAAA
1 GAAAAGAAAAA
31073242 GAAAAGACAAAA
1 GAAAAGA-AAAA
31073254 GAAAAGAA
1 GAAAAGAA
31073262 GAAAAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:31090062 original size:180 final size:181
Alignment explanation
Indices: 31089751--31090099 Score: 483
Period size: 180 Copynumber: 1.9 Consensus size: 181
31089741 ATTCGTCTGT
* * * *
31089751 TTATTCGACTAGCGCTGGGCACAAAATTATTGGTTAATCCAACTGGAGTTGGGCTCACTTTCGCG
1 TTATCCGACTAGCGCTGGGCACAAAATCATTGGTTAATCCAACTAGAGTTAGGCTCACTTTCGCG
* *
31089816 GTTTATCTGCTACGCACTGGGTGCCAGGAATTGACCGATAATTGTTGGTTAATCAACCTAGAGCT
66 GTTTATCCGCTACGCACTAGGTGCCAGGAATTGACCGATAATTGTTGGTTAATCAACCTAGAGCT
* * *
31089881 GGGCTCAC-T-TCTGCGGTTTATCCTCTAGGCACTGGGTGTTAAGATCATCG
131 GGGCTCACATATC-GCGGTATATCCGCTAAGCACTGGGTGTTAAGATCATCG
* *
31089931 TTATCCGATTAGCGCTGGG-AGCAAAATCATTGGTTAATCCAACTAGAGTTAGGCTCACTTATTG
1 TTATCCGACTAGCGCTGGGCA-CAAAATCATTGGTTAATCCAACTAGAGTTAGGCTCACTT-TCG
* * * *
31089995 CGGTTTATCCGCTAGGCACTAGGTGCCATGAATTGACGGA-ATTTGTTGGTTAATCCAA-CTAGA
64 CGGTTTATCCGCTACGCACTAGGTGCCAGGAATTGACCGATAATTGTTGGTTAAT-CAACCTAGA
*
31090058 GCTGGGCTCACATATCGCGGTATATCCGCTAAGTACTGGGTG
128 GCTGGGCTCACATATCGCGGTATATCCGCTAAGCACTGGGTG
31090100 CCATGAATTG
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
179 1 0.01
180 82 0.55
181 63 0.43
182 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (181 bp):
TTATCCGACTAGCGCTGGGCACAAAATCATTGGTTAATCCAACTAGAGTTAGGCTCACTTTCGCG
GTTTATCCGCTACGCACTAGGTGCCAGGAATTGACCGATAATTGTTGGTTAATCAACCTAGAGCT
GGGCTCACATATCGCGGTATATCCGCTAAGCACTGGGTGTTAAGATCATCG
Found at i:31090100 original size:80 final size:80
Alignment explanation
Indices: 31089960--31090113 Score: 236
Period size: 80 Copynumber: 1.9 Consensus size: 80
31089950 AGCAAAATCA
* * * * *
31089960 TTGGTTAATCCAACTAGAGTTAGGCTCACTTATTGCGGTTTATCCGCTAGGCACTAGGTGCCATG
1 TTGGTTAATCCAACTAGAGCTAGGCTCACATATCGCGGTATATCCGCTAAGCACTAGGTGCCATG
31090025 AATTGACGGAATTTG
66 AATTGACGGAATTTG
* * *
31090040 TTGGTTAATCCAACTAGAGCTGGGCTCACATATCGCGGTATATCCGCTAAGTACTGGGTGCCATG
1 TTGGTTAATCCAACTAGAGCTAGGCTCACATATCGCGGTATATCCGCTAAGCACTAGGTGCCATG
31090105 AATTGACGG
66 AATTGACGG
31090114 GAAACGAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (80 bp):
TTGGTTAATCCAACTAGAGCTAGGCTCACATATCGCGGTATATCCGCTAAGCACTAGGTGCCATG
AATTGACGGAATTTG
Found at i:31092545 original size:56 final size:56
Alignment explanation
Indices: 31092478--31092604 Score: 191
Period size: 56 Copynumber: 2.3 Consensus size: 56
31092468 TAAGCTACAG
* *
31092478 GAGACACACGGGCTATGCCCACGGTCGTGTGTCAAACCGTGTGTATATACTAACTT
1 GAGACACACGGGCTACGCCCACGGTCGTGTGCCAAACCGTGTGTATATACTAACTT
* * *
31092534 GAGACATACGGGCTACGCCTACGGTCGTGTGCCAAACCGTGTGTATATATTAACTT
1 GAGACACACGGGCTACGCCCACGGTCGTGTGCCAAACCGTGTGTATATACTAACTT
* *
31092590 GAGCCACACGAGCTA
1 GAGACACACGGGCTA
31092605 GGCACATGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (56 bp):
GAGACACACGGGCTACGCCCACGGTCGTGTGCCAAACCGTGTGTATATACTAACTT
Found at i:31093109 original size:39 final size:39
Alignment explanation
Indices: 31093042--31093267 Score: 184
Period size: 39 Copynumber: 5.8 Consensus size: 39
31093032 CATCAAAAGT
*
31093042 ATACTGAACTGGCAATGACACTACAAACACTGCAATGCC
1 ATACTGAACTGGCAATGACACTATAAACACTGCAATGCC
* * *
31093081 ATATTGAATTGGCAGTGACACTATAAACACTGCAATGCC
1 ATACTGAACTGGCAATGACACTATAAACACTGCAATGCC
* * * * * * * *
31093120 ATACTAAATTGACAGTGACACTGTAAATACTACAATGCT
1 ATACTGAACTGGCAATGACACTATAAACACTGCAATGCC
* * * ***
31093159 ATACTGAACTGGCAATGACACTGTAAACATTGGAATATA
1 ATACTGAACTGGCAATGACACTATAAACACTGCAATGCC
* * ** * *
31093198 ATACTAAACTGACGGTGACACTGTAAACAAC-GCAATGCT
1 ATACTGAACTGGCAATGACACTATAAAC-ACTGCAATGCC
* * * *
31093237 ATACTGAGCTGGTAGTGACACTGTAAACACT
1 ATACTGAACTGGCAATGACACTATAAACACT
31093268 ACCAGGTTGT
Statistics
Matches: 149, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
38 2 0.01
39 146 0.98
40 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (39 bp):
ATACTGAACTGGCAATGACACTATAAACACTGCAATGCC
Found at i:31095163 original size:18 final size:16
Alignment explanation
Indices: 31095127--31095165 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
31095117 TTATTAGTAC
*
31095127 TGTCAATGCAATCAGT
1 TGTCAATGCAATAAGT
31095143 TGTCAATGCAAGTTAAGT
1 TGTCAATGCAA--TAAGT
31095161 TGTCA
1 TGTCA
31095166 GAGCAACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (16 bp):
TGTCAATGCAATAAGT
Found at i:31099127 original size:16 final size:17
Alignment explanation
Indices: 31099106--31099144 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
31099096 TTGTTAGTAC
31099106 TGTTAATGCAA-TAAGT
1 TGTTAATGCAAGTAAGT
31099122 TGTTAATGCAAGTTAAGT
1 TGTTAATGCAAG-TAAGT
31099140 TGTTA
1 TGTTA
31099145 GAGCAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (17 bp):
TGTTAATGCAAGTAAGT
Found at i:31100933 original size:39 final size:39
Alignment explanation
Indices: 31100856--31101064 Score: 199
Period size: 39 Copynumber: 5.4 Consensus size: 39
31100846 AAATTGGCAA
*
31100856 TGACACTGTAAACAC-G-AATGCCATATTGAACT-AGCAG
1 TGACACTGTAAACACTGCAATGCCATACTGAACTGA-CAG
* *
31100893 TGACACTGTAAACACTGTAATGCCATACTAAACTGACAG
1 TGACACTGTAAACACTGCAATGCCATACTGAACTGACAG
* * * * * *
31100932 TGATACTGTAAGCACTGTAATGCTATATTGAACTAACAG
1 TGACACTGTAAACACTGCAATGCCATACTGAACTGACAG
* *** *
31100971 TGACATTGTAAACACTGCAATATAATACTGAACTGACGG
1 TGACACTGTAAACACTGCAATGCCATACTGAACTGACAG
* * * * **
31101010 TGACACTGTACACACCGCAATGCTATACTGAGCTGGTAG
1 TGACACTGTAAACACTGCAATGCCATACTGAACTGACAG
*
31101049 TGACAATGTAAACACT
1 TGACACTGTAAACACT
31101065 ACCAGATTGT
Statistics
Matches: 138, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
37 15 0.11
38 1 0.01
39 121 0.88
40 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (39 bp):
TGACACTGTAAACACTGCAATGCCATACTGAACTGACAG
Found at i:31101005 original size:78 final size:75
Alignment explanation
Indices: 31100856--31101064 Score: 220
Period size: 78 Copynumber: 2.7 Consensus size: 75
31100846 AAATTGGCAA
* * * * *
31100856 TGACACTGTAAACACGAATGCCATATTGAACTAGCAGTGACACTGTAAACACTGTAATGCCATAC
1 TGACACTGT-AACACGAATGCTATATTGAACTAGCAGTGACAATGTAAACACTGCAATACAATAC
31100921 TAAACTGACAG
65 TAAACTGACAG
* * * *
31100932 TGATACTGTAAGCACTGTAATGCTATATTGAACTAACAGTGACATTGTAAACACTGCAATATAAT
1 TGACACTGTAA-CAC-G-AATGCTATATTGAACTAGCAGTGACAATGTAAACACTGCAATACAAT
* *
31100997 ACTGAACTGACGG
63 ACTAAACTGACAG
* * * *
31101010 TGACACTGTACACACCGCAATGCTATACTGAGCTGGTAGTGACAATGTAAACACT
1 TGACACTGTA-ACA-CG-AATGCTATATTGAACTAGCAGTGACAATGTAAACACT
31101065 ACCAGATTGT
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
75 2 0.02
76 11 0.10
77 1 0.01
78 94 0.85
79 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (75 bp):
TGACACTGTAACACGAATGCTATATTGAACTAGCAGTGACAATGTAAACACTGCAATACAATACT
AAACTGACAG
Found at i:31106601 original size:46 final size:46
Alignment explanation
Indices: 31106529--31106625 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
31106519 TATTTGTTTT
*
31106529 ATTTTATCACCTATTTTCTGTAAATTAAAATACTAATTCATTAATG
1 ATTTCATCACCTATTTTCTGTAAATTAAAATACTAATTCATTAATG
*
31106575 ATTTCATCACCTATTTTCTTTAAATTAAAATACTAATTCATTAATG
1 ATTTCATCACCTATTTTCTGTAAATTAAAATACTAATTCATTAATG
31106621 ATTTC
1 ATTTC
31106626 TTTTAGGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.46
Consensus pattern (46 bp):
ATTTCATCACCTATTTTCTGTAAATTAAAATACTAATTCATTAATG
Found at i:31114142 original size:56 final size:56
Alignment explanation
Indices: 31114000--31114142 Score: 180
Period size: 56 Copynumber: 2.6 Consensus size: 56
31113990 TAAGCTACAA
* * *
31114000 GAGACACACGGGCTACGCCCACGGTCATGTGCCAAACCATGTGTATATACTAACTT
1 GAGACACACGGGCTACGCCCACGGACGTGTGCCAAACAATGTGTATATACTAACTT
* * *
31114056 GAGACACACGGGCTACGCCCAC-GACTGTGTGCCAAACAATGTGTATGTATTGACTT
1 GAGACACACGGGCTACGCCCACGGAC-GTGTGCCAAACAATGTGTATATACTAACTT
* ** *
31114112 GAGACACACGGGTTGGGCACACGGACGTGTG
1 GAGACACACGGGCTACGCCCACGGACGTGTG
31114143 TCAGACCGTG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
55 2 0.03
56 70 0.93
57 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (56 bp):
GAGACACACGGGCTACGCCCACGGACGTGTGCCAAACAATGTGTATATACTAACTT
Found at i:31114601 original size:39 final size:38
Alignment explanation
Indices: 31114558--31114784 Score: 206
Period size: 39 Copynumber: 5.9 Consensus size: 38
31114548 CATCGAAAGT
* * * *
31114558 ATACTGAACTGGCAGTGACACTGCAAATATTGCAATGTC
1 ATACTGAACTGGCAGTGACACTGTAAACACTACAATG-C
* *
31114597 ATACTAAACTGGCAGTGATACTGTAAACACTACAATGCC
1 ATACTGAACTGGCAGTGACACTGTAAACACTACAATG-C
31114636 ATACTGAACTGGCAGTGACACTGTAAACACTAC-ATGC
1 ATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
* ** **
31114673 TATACTGAACTGGCAGTAACACTGTAAACACTGTAATATA
1 -ATACTGAACTGGCAGTGACACTGTAAACACTACAAT-GC
* ** * * * *
31114713 ATACTAAACTAACGGTGACACTGCAAACA-AAGTAATGC
1 ATACTGAACTGGCAGTGACACTGTAAACACTA-CAATGC
* *
31114751 TATACTGAGCTGGTAGTGACACTGTAAACACTAC
1 -ATACTGAACTGGCAGTGACACTGTAAACACTAC
31114785 CAGGTTGTTA
Statistics
Matches: 149, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
37 1 0.01
38 33 0.22
39 114 0.77
40 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (38 bp):
ATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
Found at i:31114741 original size:116 final size:116
Alignment explanation
Indices: 31114557--31114784 Score: 287
Period size: 116 Copynumber: 2.0 Consensus size: 116
31114547 ACATCGAAAG
* * * * * ** * *
31114557 TATACTGAACTGGCAGTGACACTGCAAATATTGCAATGTCATACTAAACTGGCAGTGATACTGTA
1 TATACTGAACTGGCAGTAACACTGCAAACACTGCAATATAATACTAAACTAACAGTGACACTGCA
*
31114622 AACACTA-CAATGCCATACTGAACTGGCAGTGACACTGTAAACACTACATGC
66 AACA-AAGCAATGCCATACTGAACTGGCAGTGACACTGTAAACACTACATGC
* * *
31114673 TATACTGAACTGGCAGTAACACTGTAAACACTGTAATATAATACTAAACTAACGGTGACACTGCA
1 TATACTGAACTGGCAGTAACACTGCAAACACTGCAATATAATACTAAACTAACAGTGACACTGCA
* * * *
31114738 AACAAAGTAATGCTATACTGAGCTGGTAGTGACACTGTAAACACTAC
66 AACAAAGCAATGCCATACTGAACTGGCAGTGACACTGTAAACACTAC
31114785 CAGGTTGTTA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
115 1 0.01
116 93 0.99
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (116 bp):
TATACTGAACTGGCAGTAACACTGCAAACACTGCAATATAATACTAAACTAACAGTGACACTGCA
AACAAAGCAATGCCATACTGAACTGGCAGTGACACTGTAAACACTACATGC
Found at i:31121470 original size:28 final size:28
Alignment explanation
Indices: 31121438--31121499 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
31121428 TACCATATAG
** *
31121438 GCTATTCTTTTCAGAATCCGCCACAAAT
1 GCTATTCTTTAAAGAATCCGCCACAAAA
*
31121466 GCTATTCTTTAAAGAATTCGCCACAAAA
1 GCTATTCTTTAAAGAATCCGCCACAAAA
31121494 GCTATT
1 GCTATT
31121500 TTTCCCTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (28 bp):
GCTATTCTTTAAAGAATCCGCCACAAAA
Found at i:31123611 original size:28 final size:28
Alignment explanation
Indices: 31123556--31123611 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
31123546 CTATTTTCCA
* *
31123556 AAATAAACTTCTCAATATATTTCCAATT
1 AAATAAACTTCTCAACATAATTCCAATT
* * *
31123584 AAATAATCTTCTCAACCTAATTCTAATT
1 AAATAAACTTCTCAACATAATTCCAATT
31123612 TAGTTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATAAACTTCTCAACATAATTCCAATT
Found at i:31123830 original size:57 final size:59
Alignment explanation
Indices: 31123767--31123877 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 59
31123757 GGTCTTCTTT
* *
31123767 ATTTTGGAGAAAACT-TCATTC-ATTTCCAAATGATT-CT-ATTTCTCCATTTTCATTTTC
1 ATTTTGGAAAAAACTAT-AATCGATTT-CAAATGATTCCTAATTTCTCCATTTTCATTTTC
* *
31123824 ATTTTGGAAAAAACTATAATCGCTTTCAAATTATTCCTAATTTCTCCATTTTCA
1 ATTTTGGAAAAAACTATAATCGATTTCAAATGATTCCTAATTTCTCCATTTTCA
31123878 CCAGTTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 25 0.54
58 6 0.13
59 15 0.33
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (59 bp):
ATTTTGGAAAAAACTATAATCGATTTCAAATGATTCCTAATTTCTCCATTTTCATTTTC
Found at i:31138960 original size:19 final size:19
Alignment explanation
Indices: 31138923--31138965 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31138913 ATCATTAATA
* *
31138923 ATTCAATTTTAATATAAAT
1 ATTCAATATTAATAAAAAT
*
31138942 ATTCAATATTATTAAAAAT
1 ATTCAATATTAATAAAAAT
31138961 -TTCAA
1 ATTCAA
31138966 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTCAATATTAATAAAAAT
Found at i:31139477 original size:21 final size:23
Alignment explanation
Indices: 31139451--31139501 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
31139441 AGTGGGAAGG
* *
31139451 AGTAAAAGTTTTTGG-G-AAAAA
1 AGTAAAAATGTTTGGAGTAAAAA
31139472 AGTAAAAATGTTTGGAGTAAAAA
1 AGTAAAAATGTTTGGAGTAAAAA
*
31139495 TGTAAAA
1 AGTAAAA
31139502 TATTATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.52
22 1 0.04
23 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (23 bp):
AGTAAAAATGTTTGGAGTAAAAA
Found at i:31140094 original size:13 final size:15
Alignment explanation
Indices: 31140068--31140096 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31140058 TAAACTCTCC
31140068 CTATATAAAGAGAGA
1 CTATATAAAGAGAGA
31140083 CTATATAAAGAGAG
1 CTATATAAAGAGAG
31140097 TCTTGGGTCA
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:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (15 bp):
CTATATAAAGAGAGA
Found at i:31144280 original size:172 final size:172
Alignment explanation
Indices: 31144011--31144335 Score: 650
Period size: 172 Copynumber: 1.9 Consensus size: 172
31144001 GATTGCCACT
31144011 ACTCAAGCTAGCAACCATCTTCATTTCTCCAGTCACTAATGATGACAATGCAAACATCTAGCCAA
1 ACTCAAGCTAGCAACCATCTTCATTTCTCCAGTCACTAATGATGACAATGCAAACATCTAGCCAA
31144076 TGCCTAGAAATAGCTTGTTGTCTCCTACAGTCTATAGCCATTGGATGTCACCATCCTATCAAAAT
66 TGCCTAGAAATAGCTTGTTGTCTCCTACAGTCTATAGCCATTGGATGTCACCATCCTATCAAAAT
31144141 CTCCACCCTAGAATGTCTGTTTCAAAAATCCTATTCCATTAG
131 CTCCACCCTAGAATGTCTGTTTCAAAAATCCTATTCCATTAG
31144183 ACTCAAGCTAGCAACCATCTTCATTTCTCCAGTCACTAATGATGACAATGCAAACATCTAGCCAA
1 ACTCAAGCTAGCAACCATCTTCATTTCTCCAGTCACTAATGATGACAATGCAAACATCTAGCCAA
31144248 TGCCTAGAAATAGCTTGTTGTCTCCTACAGTCTATAGCCATTGGATGTCACCATCCTATCAAAAT
66 TGCCTAGAAATAGCTTGTTGTCTCCTACAGTCTATAGCCATTGGATGTCACCATCCTATCAAAAT
31144313 CTCCACCCTAGAATGTCTGTTTC
131 CTCCACCCTAGAATGTCTGTTTC
31144336 TTCTAATTGA
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 153 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (172 bp):
ACTCAAGCTAGCAACCATCTTCATTTCTCCAGTCACTAATGATGACAATGCAAACATCTAGCCAA
TGCCTAGAAATAGCTTGTTGTCTCCTACAGTCTATAGCCATTGGATGTCACCATCCTATCAAAAT
CTCCACCCTAGAATGTCTGTTTCAAAAATCCTATTCCATTAG
Found at i:31146960 original size:38 final size:38
Alignment explanation
Indices: 31146909--31146989 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 38
31146899 TGTTATTGGT
*
31146909 TAATTTTTTATTTAAT-AATTTAATATAAGAA-TTTAAGA
1 TAATTTTTAATTTAATCAA-TTAATAT-AGAATTTTAAGA
*
31146947 TAATTTTTAATTTAATCAATTAATATAGAATTTTAATA
1 TAATTTTTAATTTAATCAATTAATATAGAATTTTAAGA
31146985 TAATT
1 TAATT
31146990 AGGGTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 4 0.10
38 33 0.85
39 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (38 bp):
TAATTTTTAATTTAATCAATTAATATAGAATTTTAAGA
Found at i:31150847 original size:146 final size:146
Alignment explanation
Indices: 31150576--31150916 Score: 398
Period size: 146 Copynumber: 2.3 Consensus size: 146
31150566 GTAATTATAT
* * * *
31150576 TTGTCGG-TTATCCAACTAGCGCTAGGCGCAACCTTCGTCAATTTATCTGACAAGTGCTGGGCAC
1 TTGTCGGTTTATCCGACTAGCGTTGGGTGCAACCTTCGTCAATTTATCTGACAAGTGCTGGGCAC
* * *
31150640 ACAAATCATCGGTTATCCGACTAGCGCTGGGCTCAAAACATTTGTTGGTATACCCAACTAGAGCT
66 ACAAATCATCGATTATCCGACTAGCGCTGAGCGCAAAACATTTGTTGGTATACCCAACTAGAGCT
* *
31150705 GGGCTCACTATTTACA
131 GGACTCACTATTGACA
* * * * * * *
31150721 TTGTCGGTTTATCCGACTAGCGTTGGGTGGAACCTTTGTTAGTTTATCTTACTAGTGCTGGGCAT
1 TTGTCGGTTTATCCGACTAGCGTTGGGTGCAACCTTCGTCAATTTATCTGACAAGTGCTGGGCAC
* ** * *
31150786 ACAAATCGTCGATTCATCTTACTAGCGCTGAGCGC-AAACATTTGTTGGTATATCCAACTAGATC
66 ACAAATCATCGATT-ATCCGACTAGCGCTGAGCGCAAAACATTTGTTGGTATACCCAACTAGAGC
* *
31150850 TGGACTTACTATTGATA
130 TGGACTCACTATTGACA
* * * *
31150867 TCGTCTGTTTATCCGACTAGCGTTGGGTGCAAACTTGGTCACAGTTTATC
1 TTGTCGGTTTATCCGACTAGCGTTGGGTGCAACCTTCGTCA-A-TTTATC
31150917 CGCTAGGCAC
Statistics
Matches: 162, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
145 7 0.04
146 133 0.82
147 16 0.10
148 6 0.04
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (146 bp):
TTGTCGGTTTATCCGACTAGCGTTGGGTGCAACCTTCGTCAATTTATCTGACAAGTGCTGGGCAC
ACAAATCATCGATTATCCGACTAGCGCTGAGCGCAAAACATTTGTTGGTATACCCAACTAGAGCT
GGACTCACTATTGACA
Found at i:31161458 original size:28 final size:28
Alignment explanation
Indices: 31161408--31161477 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 28
31161398 AAATGAGTTT
* * *
31161408 AAAATATTGTTTTTTAATTTTTTAAGGGATC
1 AAAAT-TT-TTTTTTAATCTTTTAAAGG-CC
*
31161439 TAAATTTTTTTTTAA-CTTTTAAAGGCC
1 AAAATTTTTTTTTAATCTTTTAAAGGCC
31161466 AAAATTTTTTTT
1 AAAATTTTTTTT
31161478 ACCAACTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 12 0.35
28 8 0.24
29 8 0.24
30 2 0.06
31 4 0.12
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (28 bp):
AAAATTTTTTTTTAATCTTTTAAAGGCC
Found at i:31165457 original size:18 final size:18
Alignment explanation
Indices: 31165436--31165482 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31165426 CCTTTTATAA
* * *
31165436 AATTTTATGATTTTTTAT
1 AATTTTATAAATTTTAAT
*
31165454 AATTTCATAAATTTTAAT
1 AATTTTATAAATTTTAAT
31165472 AATTTTATAAA
1 AATTTTATAAA
31165483 CAATTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
AATTTTATAAATTTTAAT
Found at i:31170354 original size:56 final size:56
Alignment explanation
Indices: 31170268--31170425 Score: 226
Period size: 56 Copynumber: 2.8 Consensus size: 56
31170258 ATTGAAGGAT
* * *
31170268 AGCTCGAGTAGAGCTATGATTTGCTTATGTCTCGGTTAGAGCGTAATGGCATGTAC
1 AGCTCGGGTAGAGCTATGATTTGCTTATGTCTCGGTTAGAGCGTAATGCCATGCAC
* *
31170324 AGCTCGGGTAGAGCTATGATTTGATTATGTCTCAGTTAGAGCGTAATGCCATGCAC
1 AGCTCGGGTAGAGCTATGATTTGCTTATGTCTCGGTTAGAGCGTAATGCCATGCAC
* * * * *
31170380 AGCTTGGGTAGAGCTATGATCTGCTTACGTCTCGATTAGAGTGTAA
1 AGCTCGGGTAGAGCTATGATTTGCTTATGTCTCGGTTAGAGCGTAA
31170426 GGTTAAGGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 90 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (56 bp):
AGCTCGGGTAGAGCTATGATTTGCTTATGTCTCGGTTAGAGCGTAATGCCATGCAC
Found at i:31181837 original size:18 final size:18
Alignment explanation
Indices: 31181806--31181851 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31181796 CTTATGGCTA
*
31181806 CATCTGGTTATATGA-CTG
1 CATCTGATTATATGATC-G
*
31181824 CATCTGATTTTATGATCG
1 CATCTGATTATATGATCG
31181842 CATCTGATTA
1 CATCTGATTA
31181852 GGTTGTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (18 bp):
CATCTGATTATATGATCG
Found at i:31184818 original size:48 final size:48
Alignment explanation
Indices: 31184746--31184915 Score: 270
Period size: 48 Copynumber: 3.6 Consensus size: 48
31184736 TTATCAAAGA
* * * * * *
31184746 GTTTTGTTTGCTAAATTCACCTTTGTTTAATAATTTGCATCATTAAGT
1 GTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATTTGCATTATTAAAT
31184794 GTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATTTGCATTATTAAAT
1 GTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATTTGCATTATTAAAT
*
31184842 GTTTTGTTTGTTAAATGCAACTTTGTTTAGTAATTTGCATTATTAAAT
1 GTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATTTGCATTATTAAAT
31184890 GTTTTGTTTGTTAAATGCAT-TTTGTT
1 GTTTTGTTTGTTAAATGCATCTTTGTT
31184916 AAATGCCTTG
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
47 6 0.05
48 108 0.95
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.54
Consensus pattern (48 bp):
GTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATTTGCATTATTAAAT
Found at i:31185437 original size:79 final size:78
Alignment explanation
Indices: 31185333--31185490 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 78
31185323 CAACTCAGAA
* * *
31185333 ACACATTAAGGTTACATAAGTCTTCATTAAGGGGAAATACCATGCCTTTTCAGCTAAATCAGATC
1 ACACATTAAGGATACATAAGTCTTCATTAAGGAGAAATACCATGCCTTTTCAACTAAATCAGATC
*
31185398 CTAGTGAAGAGAC
66 CTAATGAAGAGAC
** * * *
31185411 ACACATTAAGGATACAATAAGTCTTCATTAAGGAGAAATGTCATGCCTTTTTAACTACATTAGAT
1 ACACATTAAGGATAC-ATAAGTCTTCATTAAGGAGAAATACCATGCCTTTTCAACTAAATCAGAT
31185476 CCTAATGAAGAGAC
65 CCTAATGAAGAGAC
31185490 A
1 A
31185491 TGACTCATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 14 0.20
79 56 0.80
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (78 bp):
ACACATTAAGGATACATAAGTCTTCATTAAGGAGAAATACCATGCCTTTTCAACTAAATCAGATC
CTAATGAAGAGAC
Found at i:31194950 original size:18 final size:17
Alignment explanation
Indices: 31194929--31194962 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
31194919 CATTTAGTTG
31194929 TCATTGCATTTTTATTTA
1 TCATTGCA-TTTTATTTA
31194947 TCATTGCATTTTATTT
1 TCATTGCATTTTATTT
31194963 GTTAATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (17 bp):
TCATTGCATTTTATTTA
Found at i:31203673 original size:22 final size:21
Alignment explanation
Indices: 31203648--31203693 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
31203638 TTTTGATGCA
* *
31203648 TTTATTTTTTTTATTATTTACT
1 TTTATTTGTTTTACT-TTTACT
31203670 TTTATTTGTTTTACTTTTACT
1 TTTATTTGTTTTACTTTTACT
31203691 TTT
1 TTT
31203694 GTTGTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTATTTGTTTTACTTTTACT
Found at i:31209931 original size:25 final size:25
Alignment explanation
Indices: 31209899--31209983 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
31209889 ACGAGCCCAG
*
31209899 ACAGAATAGCGCTCTTACAAGCCAA
1 ACAGAATATCGCTCTTACAAGCCAA
* ** *
31209924 ACAGAATATCGCTCGTATGAGCTAA
1 ACAGAATATCGCTCTTACAAGCCAA
* *
31209949 ATAGAATATCGCTCTTA-AGAGACAA
1 ACAGAATATCGCTCTTACA-AGCCAA
*
31209974 ACAAAATATC
1 ACAGAATATC
31209984 TTCATTGTCT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (25 bp):
ACAGAATATCGCTCTTACAAGCCAA
Found at i:31222843 original size:17 final size:17
Alignment explanation
Indices: 31222750--31222844 Score: 67
Period size: 17 Copynumber: 5.6 Consensus size: 17
31222740 ATTTTAATAT
*
31222750 TTTAATATTAAATTTAA
1 TTTAATATTTAATTTAA
31222767 TTTAATATATT--TTTAA
1 TTTAATAT-TTAATTTAA
* *
31222783 --TAGTATTTTA-TTAA
1 TTTAATATTTAATTTAA
*
31222797 TTTAATATTAAAGTGATT-A
1 TTTAATATTTAA-T--TTAA
31222816 TCTTAATATTTAATTTAA
1 T-TTAATATTTAATTTAA
31222834 TTTAATATTTA
1 TTTAATATTTA
31222845 TCTTGTAGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
13 2 0.03
14 9 0.15
16 12 0.20
17 20 0.33
18 3 0.05
19 3 0.05
20 12 0.20
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:31222882 original size:58 final size:58
Alignment explanation
Indices: 31222819--31222930 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
31222809 GTGATTATCT
* * * *
31222819 TAATATTTAATTTAATTTAATATTTATCTTG-TAGATAAATATATTATTTTAATAAATA
1 TAATATTAAATTTAATCTAATATTTATCTTGATAAAT-AATATATTAATTTAATAAATA
*
31222877 TAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TAATATTAAATTTAATCTAATATTTATCTTGATAAATAATATATTAATTTAATA
31222931 TAAAGTGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 44 0.92
59 4 0.08
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (58 bp):
TAATATTAAATTTAATCTAATATTTATCTTGATAAATAATATATTAATTTAATAAATA
Found at i:31222914 original size:38 final size:38
Alignment explanation
Indices: 31222856--31222929 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
31222846 CTTGTAGATA
*
31222856 AATATATTATTTTAATAAATATAATATTAAATTTAATCT
1 AATATATTATCTTAATAAATATAATATT-AATTTAATCT
* *
31222895 AATAT-TTATCTTGATAAATATTATATTAATTTAAT
1 AATATATTATCTTAATAAATATAATATTAATTTAAT
31222930 ATAAAGTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 8 0.25
38 19 0.59
39 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (38 bp):
AATATATTATCTTAATAAATATAATATTAATTTAATCT
Found at i:31225585 original size:18 final size:18
Alignment explanation
Indices: 31225562--31225596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31225552 CCCTCATTCT
* *
31225562 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
31225580 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
31225597 CTGACTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:31231620 original size:21 final size:21
Alignment explanation
Indices: 31231579--31231621 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
31231569 ACAGGTTCTG
*
31231579 TTTCTTCCTTCTCTTCTTCCT
1 TTTCTTCCTTCTCTTCATCCT
*
31231600 TTTCTTCC-TCATCTTGATCCT
1 TTTCTTCCTTC-TCTTCATCCT
31231621 T
1 T
31231622 CTCCTGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.05, C:0.35, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTCTTCCTTCTCTTCATCCT
Found at i:31233820 original size:13 final size:13
Alignment explanation
Indices: 31233802--31233827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31233792 TCAAAATACA
31233802 CAAATAATTTACT
1 CAAATAATTTACT
31233815 CAAATAATTTACT
1 CAAATAATTTACT
31233828 TATCAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
CAAATAATTTACT
Found at i:31254186 original size:20 final size:21
Alignment explanation
Indices: 31254161--31254199 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31254151 GTAAGGAATT
31254161 TGAAACAA-CAAAAGTAAAAG
1 TGAAACAAGCAAAAGTAAAAG
*
31254181 TGAAACAAGTAAAAGTAAA
1 TGAAACAAGCAAAAGTAAA
31254200 TAACAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.13
Consensus pattern (21 bp):
TGAAACAAGCAAAAGTAAAAG
Found at i:31261715 original size:19 final size:19
Alignment explanation
Indices: 31261687--31261725 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31261677 TTTATGGTTT
31261687 TAAATAATTTTTGGGTAAAA
1 TAAATAA-TTTTGGGTAAAA
*
31261707 TAAAT-ATTTTGGGTTAAA
1 TAAATAATTTTGGGTAAAA
31261725 T
1 T
31261726 TGGAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 1 0.06
20 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAATAATTTTGGGTAAAA
Found at i:31265961 original size:19 final size:18
Alignment explanation
Indices: 31265937--31265999 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
31265927 ATTCTAAAAA
31265937 TAATATTATTTTAATAGTT
1 TAATATTATTTTAATA-TT
*
31265956 TAATATTAAATTT-A-ATT
1 TAATATT-ATTTTAATATT
* *
31265973 TAATAGTATTTTATTAATT
1 TAATATTATTTTAAT-ATT
31265992 TAATATTA
1 TAATATTA
31266000 AAGTGGTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.11
17 8 0.23
18 1 0.03
19 18 0.51
20 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAATATTATTTTAATATT
Found at i:31265976 original size:25 final size:24
Alignment explanation
Indices: 31265937--31266000 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
31265927 ATTCTAAAAA
*
31265937 TAATATTATTTTAATAGT-TTAATAT
1 TAAT-TTAATTTAATAGTATT-ATAT
*
31265962 TAAATTTAATTTAATAGTATTTTAT
1 T-AATTTAATTTAATAGTATTATAT
31265987 TAATTTAATATTAA
1 TAATTTAAT-TTAA
31266001 AGTGGTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 8 0.24
25 21 0.62
26 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (24 bp):
TAATTTAATTTAATAGTATTATAT
Found at i:31266019 original size:31 final size:29
Alignment explanation
Indices: 31265955--31266042 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
31265945 TTTTAATAGT
* * *
31265955 TTAATATTAAATTTAATTTAATAG-TAT-
1 TTAATATTAAATTAAATTAAATGGTTATC
* *
31265982 TT--TATTAATTTAATATTAAAGTGGTTATC
1 TTAATATTAAATTAA-ATT-AAATGGTTATC
* *
31266011 TTAATATTAAATTAAATTTAATGTTTATC
1 TTAATATTAAATTAAATTAAATGGTTATC
31266040 TTA
1 TTA
31266043 TAGAGAAACA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
25 9 0.20
26 3 0.07
27 5 0.11
28 3 0.07
29 13 0.28
30 3 0.07
31 10 0.22
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (29 bp):
TTAATATTAAATTAAATTAAATGGTTATC
Found at i:31268092 original size:18 final size:18
Alignment explanation
Indices: 31268069--31268103 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31268059 CATAAATCAC
31268069 TATCTTCAAACAAAACAT
1 TATCTTCAAACAAAACAT
* *
31268087 TATCTTCTAACACAACA
1 TATCTTCAAACAAAACA
31268104 CACTCATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
TATCTTCAAACAAAACAT
Found at i:31271115 original size:37 final size:37
Alignment explanation
Indices: 31271074--31271163 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
31271064 ATTTGTGCCT
* *
31271074 AAAACTGTCGTCGCATGAGCACTTCCAGATTGCACCC
1 AAAACTGTCGTCGCATGAACACTTCCAGAATGCACCC
* * * *
31271111 AAAACTGTCGTCGCAGGAATATTTCCGGAATGCACCC
1 AAAACTGTCGTCGCATGAACACTTCCAGAATGCACCC
* *
31271148 AAGACTGTCGTTGCAT
1 AAAACTGTCGTCGCAT
31271164 AAATATTCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (37 bp):
AAAACTGTCGTCGCATGAACACTTCCAGAATGCACCC
Found at i:31271234 original size:37 final size:37
Alignment explanation
Indices: 31271141--31271238 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 37
31271131 ATTTCCGGAA
* *
31271141 TGCACCCAAGACTGTCGTTGCATAAATATTCTTCAAAT
1 TGCACCC-AGAATGTCGCTGCATAAATATTCTTCAAAT
* * *
31271179 TGCATCCAGAACTATCGCTGCATAATTATTCTTC-AAT
1 TGCACCCAGAA-TGTCGCTGCATAAATATTCTTCAAAT
31271216 TGCACCCAGGAATGTCGCTGCAT
1 TGCACCCA-GAATGTCGCTGCAT
31271239 GAACATGTAC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
37 23 0.45
38 28 0.55
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (37 bp):
TGCACCCAGAATGTCGCTGCATAAATATTCTTCAAAT
Found at i:31271260 original size:26 final size:26
Alignment explanation
Indices: 31271228--31271281 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
31271218 CACCCAGGAA
31271228 TGTCGCTGCATGAACATGTACAGAAT
1 TGTCGCTGCATGAACATGTACAGAAT
* * *
31271254 TGTCGCTTCATGAACGTGTCCAGAAT
1 TGTCGCTGCATGAACATGTACAGAAT
31271280 TG
1 TG
31271282 CGCCCAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTACAGAAT
Found at i:31284998 original size:39 final size:39
Alignment explanation
Indices: 31284911--31285172 Score: 266
Period size: 39 Copynumber: 6.8 Consensus size: 39
31284901 AGAGTGGTAA
* * * * * *
31284911 TGTTTACAGTCTCACTACTA-CTCAGTA-TATATTATGG
1 TGTTTACAGTGTCACTGCTAGTTCAGTATTCTATTGTAG
* * * *
31284948 TGTTTATAGTGTCACCGTTAATTCAGTATTCTATTGCTA-
1 TGTTTACAGTGTCACTGCTAGTTCAGTATTCTATTG-TAG
* **
31284987 TGTTTACAGTGTCATTGCTAGTTCAGTATGGTATTGTAG
1 TGTTTACAGTGTCACTGCTAGTTCAGTATTCTATTGTAG
* **
31285026 TGTTTACAGTGTCACTG-TCAGTTCAATATGGTATTGTAG
1 TGTTTACAGTGTCACTGCT-AGTTCAGTATTCTATTGTAG
* * *
31285065 TGTTTACAGTGTCACTTCTAGTTCAATA-TCATCTTGTAG
1 TGTTTACAGTGTCACTGCTAGTTCAGTATTC-TATTGTAG
*
31285104 TGTTTACAGTGTCACTGCTAGTTCAGTA-TCGTCTTGTAG
1 TGTTTACAGTGTCACTGCTAGTTCAGTATTC-TATTGTAG
31285143 TGTTTACAGTGTCACTGCTAGTTCAGTATT
1 TGTTTACAGTGTCACTGCTAGTTCAGTATT
31285173 TTGATAACTT
Statistics
Matches: 192, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
37 15 0.08
38 9 0.05
39 165 0.86
40 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (39 bp):
TGTTTACAGTGTCACTGCTAGTTCAGTATTCTATTGTAG
Found at i:31285164 original size:21 final size:21
Alignment explanation
Indices: 31285101--31285164 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31285091 TATCATCTTG
31285101 TAGTGTTTACAGTGTCACTGC
1 TAGTGTTTACAGTGTCACTGC
* *
31285122 TA--G-TT-CAGTATCGTCTTG-
1 TAGTGTTTACAGTGTC-AC-TGC
31285140 TAGTGTTTACAGTGTCACTGC
1 TAGTGTTTACAGTGTCACTGC
31285161 TAGT
1 TAGT
31285165 TCAGTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
17 6 0.19
18 5 0.16
19 3 0.09
20 3 0.09
21 9 0.28
22 6 0.19
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (21 bp):
TAGTGTTTACAGTGTCACTGC
Found at i:31285348 original size:72 final size:72
Alignment explanation
Indices: 31285252--31285438 Score: 286
Period size: 72 Copynumber: 2.6 Consensus size: 72
31285242 GTGCTAGCCG
* * *
31285252 GTGTGTCTAGCCCATGTAACTCACTGTTTCTGATTTCACAAAATAAATATCCACACGATCTGGCA
1 GTGTGTCAAACCCATGTAACTCACTATTTCTGATTTCACAAAATAAATATCCACACGATCTGGCA
*
31285317 CACGTCC
66 CACGCCC
* *
31285324 GTGTGTCCAAA-CCATGTAACTCACTATTTCTGATTTCACAAAATAAATATCCATACGGTCTGGC
1 GTGTGT-CAAACCCATGTAACTCACTATTTCTGATTTCACAAAATAAATATCCACACGATCTGGC
31285388 ACACGCCC
65 ACACGCCC
* *
31285396 GTGTGTCAAACCCGTGTAACTCATTATTTCTGATTTCACAAAA
1 GTGTGTCAAACCCATGTAACTCACTATTTCTGATTTCACAAAA
31285439 CATGTTCACA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
71 4 0.04
72 99 0.94
73 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (72 bp):
GTGTGTCAAACCCATGTAACTCACTATTTCTGATTTCACAAAATAAATATCCACACGATCTGGCA
CACGCCC
Found at i:31292425 original size:17 final size:17
Alignment explanation
Indices: 31292405--31292437 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31292395 GTCCCTGCTT
31292405 TTTTATTGCCACTGTAC
1 TTTTATTGCCACTGTAC
*
31292422 TTTTATTGTCACTGTA
1 TTTTATTGCCACTGTA
31292438 TCTACATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTTATTGCCACTGTAC
Found at i:31296569 original size:26 final size:26
Alignment explanation
Indices: 31296497--31296572 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
31296487 TTATGTCAAT
* *
31296497 TAACAGTTCAATCACATAA-CAATTGA
1 TAACAATTCAATCACA-AATCAGTTGA
* * * *
31296523 TATCAATTCAGTTAGAAATCAGTTGA
1 TAACAATTCAATCACAAATCAGTTGA
*
31296549 TAACAATTCAATCACAGATCAGTT
1 TAACAATTCAATCACAAATCAGTT
31296573 AACAATGTAC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
25 2 0.05
26 36 0.95
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (26 bp):
TAACAATTCAATCACAAATCAGTTGA
Found at i:31296685 original size:16 final size:16
Alignment explanation
Indices: 31296664--31296703 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
31296654 TTCAGTTCCT
31296664 ATTCTAACATAATCTC
1 ATTCTAACATAATCTC
*
31296680 ATTCTAGCATAATCTC
1 ATTCTAACATAATCTC
31296696 ATTCTAAC
1 ATTCTAAC
31296704 CTCACAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTCTAACATAATCTC
Found at i:31300394 original size:52 final size:52
Alignment explanation
Indices: 31300316--31300587 Score: 402
Period size: 52 Copynumber: 5.2 Consensus size: 52
31300306 GTAAATAAAG
*
31300316 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCATTTATGGATT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
31300368 AAAAGGTCT-AGTGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCTGA-TGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * *
31300420 AAAAGGTCCGATGACTATGTGTCATCATGAGTATATGAACCCTTTATGGACT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
31300472 AAAAGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * * * *
31300524 AAAAGGTCTGATGATTATGTCTCATCGTGAGTATATGATTCCTTCACGGTTT
1 AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
31300576 AAGAGGTCTGAT
1 AAAAGGTCTGAT
31300588 TGTGTCATCG
Statistics
Matches: 202, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
51 1 0.00
52 200 0.99
53 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (52 bp):
AAAAGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:31303410 original size:18 final size:19
Alignment explanation
Indices: 31303387--31303437 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
31303377 GCGACAAAAA
31303387 CTTTCTCTTT-TTCTTCTT
1 CTTTCTCTTTCTTCTTCTT
31303405 CTTTCT-TTTCTTCTTCTT
1 CTTTCTCTTTCTTCTTCTT
* *
31303423 CCTTCTCTTCCTTCT
1 CTTTCTCTTTCTTCT
31303438 CCTCCTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.10
18 19 0.66
19 7 0.24
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
CTTTCTCTTTCTTCTTCTT
Found at i:31303415 original size:15 final size:15
Alignment explanation
Indices: 31303395--31303437 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
31303385 AACTTTCTCT
*
31303395 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTCC
31303410 TTTTCTTCTTCTTCC
1 TTTTCTTCTTCTTCC
*
31303425 TTCTCTTCCTTCT
1 TTTTCTT-CTTCT
31303438 CCTCCTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTCTTCTTCC
Found at i:31309488 original size:52 final size:52
Alignment explanation
Indices: 31309401--31309641 Score: 365
Period size: 52 Copynumber: 4.6 Consensus size: 52
31309391 TAAATGAAAA
* * *
31309401 AGGTCCGATGACTATGTGCCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
31309453 AGGTCTGATGACTATGTGTCATTGTGACTACATGAATCCTTTACGGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * **
31309505 AGGTCCGATGACTATGTGTCATCGTGAATATATGAATCCTTTAAAGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
31309557 AGGTCTGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
31309609 AGGTCTGATAACTATTTGTCATCGTGAGTATAT
1 AGGTCTGATGACTATGTGTCATCGTGAGTATAT
31309642 ATTTCCCAAT
Statistics
Matches: 171, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 171 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (52 bp):
AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:31319758 original size:458 final size:462
Alignment explanation
Indices: 31318859--31319766 Score: 1087
Period size: 458 Copynumber: 2.0 Consensus size: 462
31318849 GTGTGAGCAA
* *
31318859 CTATGAACGTCACAGCAAATATGTGCAAGCATACACTATCGATGCAAGTATAGTAGACAAATGTG
1 CTATAAACGTCACAACAAATA-GTGCAAGCATACACTATCGATGCAAGTATAGTAGACAAATGTG
* * *
31318924 AATCCGTCGAATATCGATCCCACGAGGATGGATGTTTGTGTCTATAATTGTTGGTGCAATGAATA
65 AATCCGTCGAATATCGATCCCAAGAGGATGGATGTCTGTGTCTATAATTGTCGGTGCAATGAATA
* *
31318989 AGTAAATGCAATAAAATTGTGAGATTGATTGTCAAAGCAATAATGTAAAATTAAAGTTGAAATGC
130 AGTAAATGCAATAAAATTGTGAGAATGATTGTCAAAGCAATAATGTAAAATTAAAGTTAAAATGC
* * * * * *
31319054 AATAACAATGAAATAGGGTCCCTGACGTAAATAGTCGGCAGAATACTAAGTGTGGCTCACAAGGT
195 AATAACAATAAAATAGGATCCCTAACGTAAATAGTCAGCAAAAAACTAAGTGTGGCTCACAAGGT
* *
31319119 TTAAAATACCAAGTGATTGTCACTGCATTAATGCAAAATGAATGTCTTACCAAACTTGGCTTCTC
260 TTAAAATAACAAGTAATTGTCACTGC--TAATG--AAAT-AA-GTCTTACCAAACTTGGCTTCTC
* * *
31319184 TATTAGATCTAAAACTTAAACATGCACACTAACCATACCCTCTAGTGTTGGCAATGCAACATATT
319 TATTAGATCTAAAACTTAAACATGCACACTAACCACACCCTCCAGTGTTGGCAATGCAACACATT
* **
31319249 CAAGAACAAATGGATTAAATTCCTTCAATCCCCAAGCAACTTCCATTGTCTTGCTTGTTATCTTA
384 CAAGAACAAATAGACCAAATTCCTTCAATCCCCAAGCAACTTCCATTGTCTTGCTTGTTATCTTA
31319314 AATTATTGATCGCG
449 AATTATTGATCGCG
31319328 CTATAAACGTCACAAC-AATA-TGCAAG-AGTACACTATCGATGCAAGTATAGTAGACAGAA-GT
1 CTATAAACGTCACAACAAATAGTGCAAGCA-TACACTATCGATGCAAGTATAGTAGACA-AATGT
** * * *
31319389 GAATTTGTCGGATATCGATCCCAAGAGGATGGGTGTCTGTTGTCTA-AATTTGTCGGTGCATTGA
64 GAATCCGTCGAATATCGATCCCAAGAGGATGGATGTCTG-TGTCTATAA-TTGTCGGTGCAATGA
* **
31319453 ATAAGTTAAATGCAAT-AAATTGTGAGAATGGTTGTCGGAGCAATAATGTGAAAA-TAAA-TATA
127 ATAAG-TAAATGCAATAAAATTGTGAGAATGATTGTCAAAGCAATAATGT-AAAATTAAAGT-TA
* * *
31319515 AAATGTAATAA-AAGTAAAAT-GAGATCCAC-AACGTGAATAGTTAGCAAAAAACTAAGTGTGGC
189 AAATGCAATAACAA-TAAAATAG-GATCC-CTAACGTAAATAGTCAGCAAAAAACTAAGTGTGGC
** * *
31319577 TTGCAAGG-TTAAGAATAACATGTAATTTGTCGAC-GC-AATG-AAT-A-TCTTACCAAACTTTG
251 TCACAAGGTTTAA-AATAACAAGTAA-TTGTC-ACTGCTAATGAAATAAGTCTTACCAAACTTGG
* ** * ** * *
31319636 CTTTTCTATTAGATCTATGACTTTAGTATGCATACTAACCACACCTTCCAGTGTTGGCAATGCAA
313 CTTCTCTATTAGATCTAAAACTTAAACATGCACACTAACCACACCCTCCAGTGTTGGCAATGCAA
* *
31319701 CACACTT-AAGAACAAGTAGACCAAATTCCTTCAATCCCCAAGCAACTTCCGTTGTCTTGCTTGT
378 CACA-TTCAAGAACAAATAGACCAAATTCCTTCAATCCCCAAGCAACTTCCATTGTCTTGCTTGT
31319765 TA
442 TA
31319767 GTTTAAACTG
Statistics
Matches: 379, Mismatches: 46, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
458 126 0.33
459 2 0.01
460 1 0.00
462 3 0.01
465 5 0.01
466 79 0.21
467 121 0.32
468 26 0.07
469 16 0.04
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (462 bp):
CTATAAACGTCACAACAAATAGTGCAAGCATACACTATCGATGCAAGTATAGTAGACAAATGTGA
ATCCGTCGAATATCGATCCCAAGAGGATGGATGTCTGTGTCTATAATTGTCGGTGCAATGAATAA
GTAAATGCAATAAAATTGTGAGAATGATTGTCAAAGCAATAATGTAAAATTAAAGTTAAAATGCA
ATAACAATAAAATAGGATCCCTAACGTAAATAGTCAGCAAAAAACTAAGTGTGGCTCACAAGGTT
TAAAATAACAAGTAATTGTCACTGCTAATGAAATAAGTCTTACCAAACTTGGCTTCTCTATTAGA
TCTAAAACTTAAACATGCACACTAACCACACCCTCCAGTGTTGGCAATGCAACACATTCAAGAAC
AAATAGACCAAATTCCTTCAATCCCCAAGCAACTTCCATTGTCTTGCTTGTTATCTTAAATTATT
GATCGCG
Found at i:31322421 original size:17 final size:16
Alignment explanation
Indices: 31322372--31322428 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
31322362 ATGGAAATAG
*
31322372 AATGACAATGCAAATGC
1 AATGACAATG-AAATGT
* *
31322389 AGTGACAATTAAAATGT
1 AATGACAA-TGAAATGT
31322406 AATGACAATGAGAATGT
1 AATGACAATGA-AATGT
*
31322423 GATGAC
1 AATGAC
31322429 GGTAACCCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 2 0.06
17 29 0.91
18 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.23
Consensus pattern (16 bp):
AATGACAATGAAATGT
Found at i:31322682 original size:14 final size:14
Alignment explanation
Indices: 31322663--31322696 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
31322653 AACCCAAAAT
31322663 CAAAATAATAATAA
1 CAAAATAATAATAA
31322677 CAAAATAATAATAA
1 CAAAATAATAATAA
*
31322691 TAAAAT
1 CAAAAT
31322697 GATGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
CAAAATAATAATAA
Found at i:31323768 original size:7 final size:7
Alignment explanation
Indices: 31323752--31323842 Score: 103
Period size: 7 Copynumber: 13.1 Consensus size: 7
31323742 TTTCGAAAAA
31323752 GTCAACG
1 GTCAACG
*
31323759 GTCAATG
1 GTCAACG
*
31323766 GTCAA-A
1 GTCAACG
31323772 GTCAACG
1 GTCAACG
31323779 GTCAACG
1 GTCAACG
31323786 GTCAACG
1 GTCAACG
*
31323793 GTCAATG
1 GTCAACG
* *
31323800 ATCAACT
1 GTCAACG
*
31323807 GTCAACC
1 GTCAACG
*
31323814 GTCAATG
1 GTCAACG
31323821 GTCAACG
1 GTCAACG
31323828 GTCAACG
1 GTCAACG
*
31323835 ATCAACG
1 GTCAACG
31323842 G
1 G
31323843 CTGGTCAACG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
6 5 0.07
7 64 0.93
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:31329505 original size:14 final size:14
Alignment explanation
Indices: 31329486--31329513 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31329476 AACCCAAAAC
31329486 CAAAATAATAATAA
1 CAAAATAATAATAA
31329500 CAAAATAATAATAA
1 CAAAATAATAATAA
31329514 TAATAAAATG
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:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
CAAAATAATAATAA
Found at i:31329511 original size:17 final size:17
Alignment explanation
Indices: 31329489--31329522 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31329479 CCAAAACCAA
31329489 AATAATAATAACAAAAT
1 AATAATAATAACAAAAT
*
31329506 AATAATAATAATAAAAT
1 AATAATAATAACAAAAT
31329523 GATGTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAATAATAACAAAAT
Found at i:31330639 original size:22 final size:22
Alignment explanation
Indices: 31330609--31330660 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
31330599 CGGTCAACGA
* * *
31330609 TCAATGGTCGGTCAACGGCTGG
1 TCAACGGTCGGTCAACGACTAG
*
31330631 TCAACGGTCGGTCAATGACTAG
1 TCAACGGTCGGTCAACGACTAG
31330653 TCAACGGT
1 TCAACGGT
31330661 TTGACTTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (22 bp):
TCAACGGTCGGTCAACGACTAG
Found at i:31340535 original size:39 final size:39
Alignment explanation
Indices: 31340487--31340686 Score: 319
Period size: 39 Copynumber: 5.1 Consensus size: 39
31340477 CGTCAATTCG
* *
31340487 GTATTGTATTGCAGTGTTTACAGTGTCACTGCTAGTTTA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTTA
* *
31340526 GTATGGTATTGAAAGTGTTTACAGTGTCACTACTAGTTTA
1 GTATGGTATTG-TAGTGTTTACAGTGTCACTGCTAGTTTA
31340566 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTTA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTTA
*
31340605 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTCA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTTA
** *
31340644 GTATCATATTGTAGTGTTTACAGTGTCACTGCCAGTTTA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTTA
31340683 GTAT
1 GTAT
31340687 TTTGATAACT
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 113 0.75
40 37 0.25
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (39 bp):
GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTTA
Found at i:31344276 original size:20 final size:20
Alignment explanation
Indices: 31344248--31344328 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 20
31344238 ACTCAAATAT
* *
31344248 TTAATTATTTAACTATTTAA
1 TTAAATATTTAATTATTTAA
*
31344268 TTAAATATTTAATTATTAAAAAA
1 TTAAATATTTAATTATT---TAA
*
31344291 CTCAAATATTTAATTATTTAA
1 -TTAAATATTTAATTATTTAA
31344312 TTAAATATTTAATTATT
1 TTAAATATTTAATTATT
31344329 AAAAATAACT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 31 0.61
21 2 0.04
23 2 0.04
24 16 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAATATTTAATTATTTAA
Found at i:31344297 original size:24 final size:24
Alignment explanation
Indices: 31344270--31344346 Score: 90
Period size: 20 Copynumber: 3.3 Consensus size: 24
31344260 CTATTTAATT
31344270 AAATATTTAATTATTAAAAAACTC
1 AAATATTTAATTATTAAAAAACTC
* *
31344294 AAATATTTAATTATT---TAA-TT
1 AAATATTTAATTATTAAAAAACTC
31344314 AAATATTTAATTATTAAAAATAACTC
1 AAATATTTAATTATT-AAAA-AACTC
31344340 AAATATT
1 AAATATT
31344347 CGATTCAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 16 0.37
21 2 0.05
24 15 0.35
25 2 0.05
26 8 0.19
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATATTTAATTATTAAAAAACTC
Found at i:31344309 original size:44 final size:46
Alignment explanation
Indices: 31344253--31344346 Score: 165
Period size: 44 Copynumber: 2.1 Consensus size: 46
31344243 AATATTTAAT
31344253 TATTTAACTATTTAATTAAATATTTAATTATT-AAAA-AACTCAAA
1 TATTTAACTATTTAATTAAATATTTAATTATTAAAAATAACTCAAA
*
31344297 TATTTAATTATTTAATTAAATATTTAATTATTAAAAATAACTCAAA
1 TATTTAACTATTTAATTAAATATTTAATTATTAAAAATAACTCAAA
31344343 TATT
1 TATT
31344347 CGATTCAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 31 0.66
45 4 0.09
46 12 0.26
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (46 bp):
TATTTAACTATTTAATTAAATATTTAATTATTAAAAATAACTCAAA
Found at i:31344358 original size:44 final size:42
Alignment explanation
Indices: 31344265--31344360 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
31344255 TTTAACTATT
*
31344265 TAATTAAATATTTAATTATTAAAAAACTCAAATATTTAATTA
1 TAATTAAATATTTAATTATTAAAAAACTCAAATATTCAATTA
*
31344307 TTTAATTAAATATTTAATTATTAAAAATAACTCAAATATTCGATTCA
1 --TAATTAAATATTTAATTATT-AAAA-AACTCAAATATTCAATT-A
31344354 -AATTAAA
1 TAATTAAA
31344361 ATTAACAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
44 27 0.57
45 4 0.09
46 15 0.32
47 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (42 bp):
TAATTAAATATTTAATTATTAAAAAACTCAAATATTCAATTA
Found at i:31344358 original size:52 final size:48
Alignment explanation
Indices: 31344219--31344346 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 48
31344209 ACAAAATAAT
*
31344219 TATTTAATTATTAAAAACAACTCAAATATTTAATTATTTAACTATTTAATTAAA
1 TATTTAATTATTAAAAA-AACTCAAATA-TT-ATTA---AATTATTTAATTAAA
31344273 TATTTAATTATT-AAAAAACTCAAATA-T-TT-AATTATTTAATTAAA
1 TATTTAATTATTAAAAAAACTCAAATATTATTAAATTATTTAATTAAA
31344317 TATTTAATTATTAAAAATAACTCAAATATT
1 TATTTAATTATTAAAAA-AACTCAAATATT
31344347 CGATTCAAAT
Statistics
Matches: 70, Mismatches: 1, Indels: 13
0.83 0.01 0.15
Matches are distributed among these distances:
44 26 0.37
45 4 0.06
46 10 0.14
47 1 0.01
48 2 0.03
50 1 0.01
52 10 0.14
53 4 0.06
54 12 0.17
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (48 bp):
TATTTAATTATTAAAAAAACTCAAATATTATTAAATTATTTAATTAAA
Found at i:31355818 original size:28 final size:28
Alignment explanation
Indices: 31355787--31355846 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
31355777 AAAATGAGAC
*
31355787 TTTTGGATATC-CGGGGGCAAAATGGTAA
1 TTTTGGA-ATCGCAGGGGCAAAATGGTAA
*
31355815 TTTTGGACTCGCAGGGGCAAAATGGTAA
1 TTTTGGAATCGCAGGGGCAAAATGGTAA
31355843 TTTT
1 TTTT
31355847 CGGTGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.32
Consensus pattern (28 bp):
TTTTGGAATCGCAGGGGCAAAATGGTAA
Found at i:31355916 original size:59 final size:59
Alignment explanation
Indices: 31355833--31356085 Score: 375
Period size: 59 Copynumber: 4.3 Consensus size: 59
31355823 TCGCAGGGGC
* * *
31355833 AAAATGGTAATTTTCGGTGAAATCGGGGTCAAAAA-GAGAATTTTGGAAAATTTGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTTGAGGGT
* *
31355892 AAAATAGTAATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
* * *
31355951 AAAATGGTAATTTTTCGTGAAA-CTGGGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
* * *
31356010 AAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
31356069 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
31356086 ACCATCTAGG
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
58 1 0.01
59 173 0.98
60 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
Found at i:31356052 original size:30 final size:29
Alignment explanation
Indices: 31355833--31356053 Score: 106
Period size: 30 Copynumber: 7.4 Consensus size: 29
31355823 TCGCAGGGGC
* * *
31355833 AAAATGGTAATTTTCGGTGAAATCGGGGTCA
1 AAAATGG-AATTTT-TGTGAAATTGGGGTTA
31355864 AAAA-GAGAA-TTTTG-GAAAATTTGAGGG-T-
1 AAAATG-GAATTTTTGTG-AAA-TTG-GGGTTA
* * *
31355892 AAAATAGTAATTTTTGGTTAAATCGGGGTTA
1 AAAAT-GGAATTTTT-GTGAAATTGGGGTTA
31355923 AAAATGGAA-TTTTG-GAAAGTTTGAGGG-T-
1 AAAATGGAATTTTTGTGAAA--TTG-GGGTTA
*
31355951 AAAATGGTAATTTTTCGTGAAACTGGGGTTA
1 AAAATGG-AATTTTT-GTGAAATTGGGGTTA
* *
31355982 AAAATAGAA-TTTTG-GAAAGTTTGGGGGT-
1 AAAATGGAATTTTTGTGAAA--TTGGGGTTA
**
31356010 AAAATGGTAATTTTTGGTGAAACCGGGGTTA
1 AAAATGG-AATTTTT-GTGAAATTGGGGTTA
31356041 AAAATGGAATTTT
1 AAAATGGAATTTT
31356054 AGAAAGTTCG
Statistics
Matches: 146, Mismatches: 17, Indels: 55
0.67 0.08 0.25
Matches are distributed among these distances:
27 8 0.05
28 23 0.16
29 34 0.23
30 44 0.30
31 29 0.20
32 8 0.05
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTTGTGAAATTGGGGTTA
Found at i:31356072 original size:29 final size:28
Alignment explanation
Indices: 31355828--31356082 Score: 111
Period size: 29 Copynumber: 8.7 Consensus size: 28
31355818 TGGACTCGCA
*
31355828 GGGGCAAAATGGTAATTTTCGGTGAAA--TC
1 GGGGTAAAATGGTAATTTT--G-GAAAGTTC
* * *
31355857 GGGGTCAAAAAGAG-AATTTTGGAAAATTT
1 GGGGT-AAAATG-GTAATTTTGGAAAGTTC
*
31355886 GAGGGTAAAATAGTAATTTTTGGTTAAA--TC
1 G-GGGTAAAATGGTAA-TTTTGG--AAAGTTC
*
31355916 GGGGTTAAAAATGG-AATTTTGGAAAGTTT
1 GGGG-T-AAAATGGTAATTTTGGAAAGTTC
*
31355945 GAGGGTAAAATGGTAATTTTTCGTGAAA-CT-
1 G-GGGTAAAATGGTAA-TTTT-G-GAAAGTTC
* *
31355975 GGGGTTAAAAATAG-AATTTTGGAAAGTTTG
1 GGGG-T-AAAATGGTAATTTTGGAAAG-TTC
*
31356005 GGGGTAAAATGGTAATTTTTGGTGAAA--CC
1 GGGGTAAAATGGTAA-TTTT-G-GAAAGTTC
*
31356034 GGGGTTAAAAATGG-AATTTTAGAAAGTTC
1 GGGG-T-AAAATGGTAATTTTGGAAAGTTC
31356063 GAGGGTAAAATGGTAATTTT
1 G-GGGTAAAATGGTAATTTT
31356083 TGGACCATCT
Statistics
Matches: 177, Mismatches: 16, Indels: 66
0.68 0.06 0.25
Matches are distributed among these distances:
27 15 0.08
28 23 0.13
29 54 0.31
30 51 0.29
31 23 0.13
32 11 0.06
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGAAAGTTC
Found at i:31356331 original size:161 final size:161
Alignment explanation
Indices: 31356156--31356487 Score: 463
Period size: 161 Copynumber: 2.1 Consensus size: 161
31356146 GGCATCCAGA
** *
31356156 AGTCAAAGGACTAATTTGTAAATCTTGAAAA-ATT-CTTAGGCCAATTTTGTAATTAA-AAAAAG
1 AGTCAAAGGACTAATTTAAAAATC-TCAAAAGATTCCTT-GGCCAATTTTGTAATTAAGAAAAAG
** *
31356218 TTGAGTTAAGGATTAAAATAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAA
64 TTGAGTTAAGGATTAAAATAAAACAAATTAAAAACAACAGGGACTAAATACA-AAATAAGCCAAA
* * *
31356283 AAGTGACACGTGGCAGCCTTTGGTGCAGTCAAAC
128 AAATGACACGTGGCAGCCTCTGGAGCAGTCAAAC
* *
31356317 AGTCAAAGGACTAATTTAAAAATCTCAAAAGATTCCTTGGTCAATTTTGTAATTAAGCAAAAGTT
1 AGTCAAAGGACTAATTTAAAAATCTCAAAAGATTCCTTGGCCAATTTTGTAATTAAGAAAAAGTT
* * * *
31356382 GATTTAAGGATTAAATTAAAACAAATTAAACACAACAGGGACTAAATGCAAAATAAGCCAAAAAA
66 GAGTTAAGGATTAAAATAAAACAAATTAAAAACAACAGGGACTAAATACAAAATAAGCCAAAAAA
*
31356447 TGACACGTGGCAGCCTCTGGAGCAGTCAAAT
131 TGACACGTGGCAGCCTCTGGAGCAGTCAAAC
*
31356478 AGTCGAAGGA
1 AGTCAAAGGA
31356488 TTAAATTGAA
Statistics
Matches: 151, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
160 5 0.03
161 93 0.62
162 53 0.35
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (161 bp):
AGTCAAAGGACTAATTTAAAAATCTCAAAAGATTCCTTGGCCAATTTTGTAATTAAGAAAAAGTT
GAGTTAAGGATTAAAATAAAACAAATTAAAAACAACAGGGACTAAATACAAAATAAGCCAAAAAA
TGACACGTGGCAGCCTCTGGAGCAGTCAAAC
Found at i:31358056 original size:14 final size:14
Alignment explanation
Indices: 31358037--31358063 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31358027 TTAAATTTAA
31358037 AGTAAATTTAAATG
1 AGTAAATTTAAATG
31358051 AGTAAATTTAAAT
1 AGTAAATTTAAAT
31358064 TTAAAACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AGTAAATTTAAATG
Found at i:31358519 original size:92 final size:92
Alignment explanation
Indices: 31358352--31359080 Score: 1113
Period size: 92 Copynumber: 7.9 Consensus size: 92
31358342 TCGGGGTTTT
* * ** * * *
31358352 ATCTTGCTCTTACTTCAATTTCAGAGAGGA--ATGATTTGATATCCAGCTCTGCTTCAATTTCAA
1 ATCTTACTCTTACTTCAATTTCAGAG-GGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAA
*
31358415 GAGGATAGGAAAATGATGTTTGTGCTTC
65 GAGGATAGGAAAATGATGTTGGTGCTTC
* * *
31358443 ATCTTACTCTCACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAACTTTACTTCGATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
*
31358508 AGGATAGGAAAATGATGTTGGTCCTTC
66 AGGATAGGAAAATGATGTTGGTGCTTC
* * * *
31358535 TTCTTACTCTTATTTCGATTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
31358600 AGGATAGGAAAATGATGTTGGTGCTTC
66 AGGATAGGAAAATGATGTTGGTGCTTC
* *
31358627 ATTTTACTCTTACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
31358692 AGGATAGGAAAATGATGTTGGTGCTTC
66 AGGATAGGAAAATGATGTTGGTGCTTC
* * * *
31358719 ATTTTACTCTTACTTCAATTTCTGAGGGATGAAAGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
*
31358784 AGGATAGGAAAATGATGCTGGTGCTTC
66 AGGATAGGAAAATGATGTTGGTGCTTC
* *
31358811 ATTTTACTCTTACTTCAATTT-TGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
* *
31358875 AGGATAGGAAAATAATGTTGGTCCTTC
66 AGGATAGGAAAATGATGTTGGTGCTTC
* *
31358902 TTCTCACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
* *
31358967 AGGATAGGAAAATAATGTTGGTCCTTC
66 AGGATAGGAAAATGATGTTGGTGCTTC
* * *
31358994 TTCTCACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGTTTTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
*
31359059 AGGATAGGAAAATAATGTTGGT
66 AGGATAGGAAAATGATGTTGGT
31359081 TTGATCTGAT
Statistics
Matches: 596, Mismatches: 39, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
90 3 0.01
91 107 0.18
92 486 0.82
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (92 bp):
ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
AGGATAGGAAAATGATGTTGGTGCTTC
Found at i:31358738 original size:52 final size:52
Alignment explanation
Indices: 31358676--31358831 Score: 151
Period size: 52 Copynumber: 3.2 Consensus size: 52
31358666 TTATCCAGCT
31358676 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTC
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTC
* * * *
31358728 TTACTTCAATTTC-TGAGGGAT--G-AAA-GCTTGTT-AT-C--CA----GCT-
1 TTACTTCAATTTCAAGA-GGATAGGAAAATG-ATGTTGGTGCTTCATTTTACTC
*
31358768 TTACTTCAATTTCAAGAGGATAGGAAAATGATGCTGGTGCTTCATTTTACTC
1 TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTC
31358820 TTACTTCAATTT
1 TTACTTCAATTT
31358832 TGAGGGACGA
Statistics
Matches: 79, Mismatches: 9, Indels: 32
0.66 0.08 0.27
Matches are distributed among these distances:
40 17 0.22
41 4 0.05
42 1 0.01
43 6 0.08
44 2 0.03
45 3 0.04
47 3 0.04
48 2 0.03
49 7 0.09
50 1 0.01
51 4 0.05
52 29 0.37
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (52 bp):
TTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTACTC
Found at i:31359031 original size:367 final size:367
Alignment explanation
Indices: 31358358--31359080 Score: 1175
Period size: 367 Copynumber: 2.0 Consensus size: 367
31358348 TTTTATCTTG
* *
31358358 CTCTTACTTCAATTTCAGAGAGGAATGATTTGATATCCAGCTCTGCTTCAATTTCAAGAGGATAG
1 CTCTTACTTCAATTTCAGAGAGGAATGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAG
* *
31358423 GAAAATGATGTTTGTGCTTCATCTTACTCTCACTTCAATTTCAGAGGGACGAAGGCTTGTTATCC
66 GAAAATGATGCTGGTGCTTCATCTTACTCTCACTTCAATTTCAGAGGGACGAAGGCTTGTTATCC
* * * * *
31358488 AACTTTACTTCGATTTCAAGAGGATAGGAAAATGATGTTGGTCCTTCTTCTTACTCTTATTTCGA
131 AACTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTCACTCTTACTTCAA
*
31358553 TTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATGATGT
196 TTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGT
* * *
31358618 TGGTGCTTCATTTTACTCTTACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTC
261 TGGTCCTTCATTTCACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTC
*
31358683 AATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTA
326 AATTTCAAGAGGATAGGAAAATAATGTTGGTGCTTCATTTTA
* * *
31358725 CTCTTACTTCAATTTCTGAG-GG-ATGAAAGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGA
1 CTCTTACTTCAATTTCAGAGAGGAATG--A-CTTGATATCCAGCTCTACTTCAATTTCAAGAGGA
* * *
31358788 TAGGAAAATGATGCTGGTGCTTCATTTTACTCTTACTTCAATTT-TGAGGGACGAAGGCTTGTTA
63 TAGGAAAATGATGCTGGTGCTTCATCTTACTCTCACTTCAATTTCAGAGGGACGAAGGCTTGTTA
*
31358852 TCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTCACTCTTACTT
128 TCCAACTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTCACTCTTACTT
*
31358917 CAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAA
193 CAATTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAA
*
31358982 TGTTGGTCCTTC-TTCTCACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGTTTTA
258 TGTTGGTCCTTCATT-TCACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTA
31359046 CTTCAATTTCAAGAGGATAGGAAAATAATGTTGGT
322 CTTCAATTTCAAGAGGATAGGAAAATAATGTTGGT
31359081 TTGATCTGAT
Statistics
Matches: 329, Mismatches: 23, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
365 3 0.01
366 4 0.01
367 252 0.77
368 70 0.21
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (367 bp):
CTCTTACTTCAATTTCAGAGAGGAATGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAG
GAAAATGATGCTGGTGCTTCATCTTACTCTCACTTCAATTTCAGAGGGACGAAGGCTTGTTATCC
AACTTTACTTCAATTTCAAGAGGATAGGAAAATAATGTTGGTCCTTCTTCTCACTCTTACTTCAA
TTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAATAATGT
TGGTCCTTCATTTCACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTC
AATTTCAAGAGGATAGGAAAATAATGTTGGTGCTTCATTTTA
Found at i:31371229 original size:28 final size:27
Alignment explanation
Indices: 31371198--31371256 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
31371188 AAAAAGAGAC
31371198 TTTTGGA-TATCCGGGGGCAAAATGGTAA
1 TTTTGGACT-TCC-GGGGCAAAATGGTAA
*
31371226 TTTTGGACTTGCGGGGCAAAATGGTAA
1 TTTTGGACTTCCGGGGCAAAATGGTAA
31371253 TTTT
1 TTTT
31371257 CTGTGAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 19 0.66
28 9 0.31
29 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (27 bp):
TTTTGGACTTCCGGGGCAAAATGGTAA
Found at i:31371316 original size:29 final size:28
Alignment explanation
Indices: 31371283--31371494 Score: 80
Period size: 29 Copynumber: 7.2 Consensus size: 28
31371273 AAAAAGAGAA
31371283 TTTTGGAAATTTGAGGGTAAAATAGTAAT
1 TTTTGGAAA-TTGAGGGTAAAATAGTAAT
* * *
31371312 TTTTGGTTAAATCGAGGTTAAAA-ATGGAA-
1 TTTTGG--AAATTGAGGGTAAAATA-GTAAT
* *
31371341 TTTTGGAAAGTTCAGGGGTAAAATGGTAAT
1 TTTTGGAAA-TTGA-GGGTAAAATAGTAAT
* *
31371371 TTTTGGTGAAATCG-GGGTTAAAAT-GGAA-
1 TTTT-G-GAAATTGAGGG-TAAAATAGTAAT
* * *
31371399 TTTTGGAAAGTTTAGGGGTAAAATTGTGAT
1 TTTTGGAAA-TTGA-GGGTAAAATAGTAAT
* *
31371429 TTTTGGTTAAATCG-GGGTTAAAA-ATGGAA-
1 TTTTGG--AAATTGAGGG-TAAAATA-GTAAT
* * *
31371458 TTTTGGAAAGTTCGGGGGTAAAATGGTATT
1 TTTTGGAAA-TT-GAGGGTAAAATAGTAAT
31371488 TTTTGGA
1 TTTTGGA
31371495 CCATTCAAGG
Statistics
Matches: 135, Mismatches: 24, Indels: 47
0.66 0.12 0.23
Matches are distributed among these distances:
26 4 0.03
27 8 0.06
28 13 0.10
29 51 0.38
30 46 0.34
31 6 0.04
32 7 0.05
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (28 bp):
TTTTGGAAATTGAGGGTAAAATAGTAAT
Found at i:31371383 original size:59 final size:59
Alignment explanation
Indices: 31371238--31371493 Score: 349
Period size: 58 Copynumber: 4.4 Consensus size: 59
31371228 TTGGACTTGC
* * * *
31371238 GGGGCAAAATGGTAATTTTCT-GTGAAATCGGGGTCAAAAA-GAGAATTTTGGAAATTTGA
1 GGGGTAAAATGGTAATTTT-TGGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTCA
* * *
31371297 -GGGTAAAATAGTAATTTTTGGTTAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
31371355 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * * *
31371413 GGGGTAAAATTGTGATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
31371472 GGGGTAAAATGGTATTTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
31371494 ACCATTCAAG
Statistics
Matches: 174, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
57 1 0.01
58 101 0.58
59 72 0.41
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
Found at i:31371421 original size:117 final size:117
Alignment explanation
Indices: 31371238--31371493 Score: 392
Period size: 117 Copynumber: 2.2 Consensus size: 117
31371228 TTGGACTTGC
*
31371238 GGGGCAAAATGGTAATTTTCT-GTGAAATCGGGGTCAAAAAGAGAATTTTGGAAATTTGAGGGTA
1 GGGGTAAAATGGTAATTTT-TGGTGAAATCGGGGTCAAAAAGAGAATTTTGGAAATTTGAGGGTA
31371302 AAATAGTAATTTTTGGTTAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA
65 AAATAGTAATTTTTGGTTAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA
* *
31371355 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATG-GAATTTTGGAAAGTTT-AGGGGT
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGAGAATTTTGGAAA-TTTGA-GGGT
* * * *
31371418 AAAATTGTGATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
64 AAAATAGTAATTTTTGGTTAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA
*
31371472 GGGGTAAAATGGTATTTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
31371494 ACCATTCAAG
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
116 14 0.11
117 114 0.89
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAGAGAATTTTGGAAATTTGAGGGTAA
AATAGTAATTTTTGGTTAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA
Found at i:31371494 original size:30 final size:29
Alignment explanation
Indices: 31371332--31371490 Score: 125
Period size: 28 Copynumber: 5.5 Consensus size: 29
31371322 ATCGAGGTTA
* *
31371332 AAAATGG-AATTTTGGAAAGTTCAGGGGT
1 AAAATGGTATTTTTGGAAAGTTCGGGGGT
*
31371360 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGGT-ATTTTT-G-GAAAGTTCGGGGGT
* **
31371390 AAAATGG-AATTTTGGAAAGTTTAGGGGT
1 AAAATGGTATTTTTGGAAAGTTCGGGGGT
* *
31371418 AAAATTGTGATTTTTGGTTAAA--TCGGGGTT
1 AAAATGGT-ATTTTTGG--AAAGTTCGGGGGT
*
31371448 AAAAATGG-AATTTTGGAAAGTTCGGGGGT
1 -AAAATGGTATTTTTGGAAAGTTCGGGGGT
31371477 AAAATGGTATTTTT
1 AAAATGGTATTTTT
31371491 TGGACCATTC
Statistics
Matches: 101, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
26 4 0.04
27 4 0.04
28 30 0.30
29 19 0.19
30 30 0.30
31 7 0.07
32 7 0.07
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (29 bp):
AAAATGGTATTTTTGGAAAGTTCGGGGGT
Found at i:31371775 original size:162 final size:162
Alignment explanation
Indices: 31371605--31371897 Score: 444
Period size: 162 Copynumber: 1.8 Consensus size: 162
31371595 ATTCTTGAGC
* **
31371605 CAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGA
1 CAATTTTGTAATTAAACAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAACAACAGGGA
** * *
31371670 CTAGCTACATAAATAAGCC-AAAAAGTAACACGTGGCAGCCTCTGGTGCAGTCAAACAGTCAAAG
66 CTAAATACA-AAATAAGCCAAAAAAATAACACATGGCAGCCTCTGGTGCAGTCAAACAGTCAAAG
31371734 GACTAATTTAAAAATCTCAAAAGATTTTTGGGT
130 GACTAATTTAAAAATCTCAAAAGATTTTTGGGT
* * *
31371767 CAATTTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATTAAACACAACAGGGA
1 CAATTTTGTAATTAAACAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAACAACAGGGA
* * * *
31371832 CTAAATGCAAAATAAGCCAAAAAAATGACACATGGCAGCCTCTGGTGTAGTCAAACAGTCGAAGG
66 CTAAATACAAAATAAGCCAAAAAAATAACACATGGCAGCCTCTGGTGCAGTCAAACAGTCAAAGG
31371897 A
131 A
31371898 TTAAATTGAA
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
161 9 0.08
162 107 0.92
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (162 bp):
CAATTTTGTAATTAAACAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAACAACAGGGA
CTAAATACAAAATAAGCCAAAAAAATAACACATGGCAGCCTCTGGTGCAGTCAAACAGTCAAAGG
ACTAATTTAAAAATCTCAAAAGATTTTTGGGT
Found at i:31372762 original size:22 final size:22
Alignment explanation
Indices: 31372723--31372764 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31372713 TTGTCATTAA
*
31372723 ATTTATTATTATTATTATTATT
1 ATTTATTATTATGATTATTATT
* *
31372745 ATTTATTGTTATGGTTATTA
1 ATTTATTATTATGATTATTA
31372765 GTGATGTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
ATTTATTATTATGATTATTATT
Done.