Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 148 of 193
Found at i:46193477 original size:47 final size:46
Alignment explanation
Indices: 46193387--46193487 Score: 114
Period size: 47 Copynumber: 2.2 Consensus size: 46
46193377 GTTTTGGTTG
* * *
46193387 TTTTGGTGCTACTTTTTTACTATTTTGGTGTTGTTTTTATTGTTAT
1 TTTTGTTGCTACTTTTTTACTATTTTGGTGCTGTTTTGATTGTTAT
* * *
46193433 TTTTGTTGCTA-TTTTTCTATTATCTTTGTTGCTGTTTTGGTTGTTAT
1 TTTTGTTGCTACTTTTT-TACTAT-TTTGGTGCTGTTTTGATTGTTAT
*
46193480 TTTGGTTG
1 TTTTGTTG
46193488 TTTGGTGTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
45 5 0.11
46 15 0.33
47 26 0.57
ACGTcount: A:0.09, C:0.07, G:0.19, T:0.65
Consensus pattern (46 bp):
TTTTGTTGCTACTTTTTTACTATTTTGGTGCTGTTTTGATTGTTAT
Found at i:46193616 original size:177 final size:179
Alignment explanation
Indices: 46193399--46193768 Score: 647
Period size: 178 Copynumber: 2.1 Consensus size: 179
46193389 TTGGTGCTAC
* *
46193399 TTTTT-TACTATTTTGGTGTTGTTTTTATTGTTATTTTTGTTGCTATTTTTCTATTATCTTTGTT
1 TTTTTCTACTACTTTGGTGTTGTTTTTATTGTTATTTTTGTTGCTATTTTTCTATTATCTTTGCT
* * *
46193463 GCTGTTTTGGTTGTTATTTTGGTTGTTT-GGTGTTATTTTTATGCGTTTTTGTTACTGTTTCGCT
66 GCTGTTTTGGTTATTATTTTGGTTGTTTAGATGTTATTTTTATGCGCTTTTGTTACTGTTTCGCT
* *
46193527 GTTTTTTTAATCTTATTTGAATATTGTAGAACTTATGTTTTATTGTTTA
131 GTTTTTTTAATATTATTTGAATATTGTAGAACTTATGTTTTATTGTTAA
46193576 TTTTTCTACTACTTT-GTGTTGTTTTTATTGTTATTTTTGTTGCTATTTTTCTATTATCTTTGCT
1 TTTTTCTACTACTTTGGTGTTGTTTTTATTGTTATTTTTGTTGCTATTTTTCTATTATCTTTGCT
*
46193640 GCTGTTTTGGTTATTATTTTGGTTGTTTAGATGTTATTTTTATGCGCTTTTGTTATTGTTTCGCT
66 GCTGTTTTGGTTATTATTTTGGTTGTTTAGATGTTATTTTTATGCGCTTTTGTTACTGTTTCGCT
46193705 GTTTTTTTAATATTATTTGAATATTGTAGAACTTATGTTTTATTGTTAA
131 GTTTTTTTAATATTATTTGAATATTGTAGAACTTATGTTTTATTGTTAA
46193754 TTTTTCTACTACTTT
1 TTTTTCTACTACTTT
46193769 ATTTGCAACT
Statistics
Matches: 183, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
177 80 0.44
178 103 0.56
ACGTcount: A:0.14, C:0.07, G:0.15, T:0.63
Consensus pattern (179 bp):
TTTTTCTACTACTTTGGTGTTGTTTTTATTGTTATTTTTGTTGCTATTTTTCTATTATCTTTGCT
GCTGTTTTGGTTATTATTTTGGTTGTTTAGATGTTATTTTTATGCGCTTTTGTTACTGTTTCGCT
GTTTTTTTAATATTATTTGAATATTGTAGAACTTATGTTTTATTGTTAA
Found at i:46193632 original size:23 final size:23
Alignment explanation
Indices: 46193606--46193664 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
46193596 GTTTTTATTG
46193606 TTATTTTTGTTGCTATTTT-TCTA
1 TTATTTTTGTTGCTATTTTGT-TA
* * *
46193629 TTATCTTTGCTGCTGTTTTGGTTA
1 TTATTTTTGTTGCTATTTT-GTTA
*
46193653 TTATTTTGGTTG
1 TTATTTTTGTTG
46193665 TTTAGATGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 16 0.57
24 11 0.39
25 1 0.04
ACGTcount: A:0.10, C:0.08, G:0.17, T:0.64
Consensus pattern (23 bp):
TTATTTTTGTTGCTATTTTGTTA
Found at i:46193657 original size:47 final size:45
Alignment explanation
Indices: 46193574--46193664 Score: 110
Period size: 47 Copynumber: 2.0 Consensus size: 45
46193564 TTTTATTGTT
* * * *
46193574 TATTTTTCTACTACTTTGTGTTGTTTTTATTGTTATTTTTGTTGC
1 TATTTTTCTACTACTTTGTGCTGTTTTGATTATTATTTTGGTTGC
* *
46193619 TATTTTTCTATTATCTTTGCTGCTGTTTTGGTTATTATTTTGGTTG
1 TATTTTTCTACTA-CTTTG-TGCTGTTTTGATTATTATTTTGGTTG
46193665 TTTAGATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 12 0.32
46 5 0.13
47 21 0.55
ACGTcount: A:0.11, C:0.09, G:0.15, T:0.65
Consensus pattern (45 bp):
TATTTTTCTACTACTTTGTGCTGTTTTGATTATTATTTTGGTTGC
Found at i:46203658 original size:29 final size:30
Alignment explanation
Indices: 46203581--46203670 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 30
46203571 TTTAGAATTC
*
46203581 AAATTAAAATGATAAATTTTATAAATATTA
1 AAATTAAATTGATAAATTTTATAAATATTA
* *
46203611 AAAGTTAAATTTATTAAATTTT-TATAT-TTA
1 AAA-TTAAATTGA-TAAATTTTATAAATATTA
* * *
46203641 AGATTAAATTGATAAAATGTATAAATATTA
1 AAATTAAATTGATAAATTTTATAAATATTA
46203671 GAGAGTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 6 0.12
29 12 0.25
30 11 0.23
31 11 0.23
32 8 0.17
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (30 bp):
AAATTAAATTGATAAATTTTATAAATATTA
Found at i:46205272 original size:6 final size:6
Alignment explanation
Indices: 46205261--46205298 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
46205251 AATTTATTCA
*
46205261 TAAATT TAAATT TAAA-T TAATTTT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAA-ATT TAAATT TAAATT TA
46205299 GTAAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.14
6 20 0.71
7 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:46207284 original size:59 final size:59
Alignment explanation
Indices: 46207191--46207387 Score: 258
Period size: 59 Copynumber: 3.4 Consensus size: 59
46207181 CCTAAACTTC
* * * * * *
46207191 CCAAAAATTATATTTTAACCCCTAAACTTTCCAAAATCCTATTTTTAACCCCGATCTCA
1 CCAAAAATTACATTTTTACCCTTAAACTTTCCAAAATCCTATTTTTGACCCCGATTTTA
* *
46207250 TCAAAAATTACATTTTTACCCTTAAACTTTCCAAAATTCTATTTTTGACCCCGATTTTA
1 CCAAAAATTACATTTTTACCCTTAAACTTTCCAAAATCCTATTTTTGACCCCGATTTTA
* *
46207309 CCAAAAATTACATTTTTACCC--AAACTTTCCAAAATTCC-ATTTTTGACACTGATTTTA
1 CCAAAAATTACATTTTTACCCTTAAACTTTCCAAAA-TCCTATTTTTGACCCCGATTTTA
46207366 CCAAAAATTACCA-TTTTACCCT
1 CCAAAAATTA-CATTTTTACCCT
46207388 CGAGAATCCA
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
57 48 0.39
58 4 0.03
59 71 0.58
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (59 bp):
CCAAAAATTACATTTTTACCCTTAAACTTTCCAAAATCCTATTTTTGACCCCGATTTTA
Found at i:46207285 original size:29 final size:28
Alignment explanation
Indices: 46207180--46207352 Score: 111
Period size: 30 Copynumber: 6.0 Consensus size: 28
46207170 CTCTATAGGT
* * *
46207180 CCCTAAACTTCCCAAAAATTATATTTTAA
1 CCCTAAACTTTCC-AAAATTACATTTTTA
*
46207209 CCCCTAAACTTTCCAAAA-TCCTATTTTTAA
1 -CCCTAAACTTTCCAAAATTAC-ATTTTT-A
** * * *
46207239 CCCCGATCTCATCAAAAATTACATTTTTA
1 CCCTAAACT-TTCCAAAATTACATTTTTA
46207268 CCCTTAAACTTTCCAAAATT-CTATTTTTGA
1 CCC-TAAACTTTCCAAAATTAC-ATTTTT-A
** *
46207298 CCC-CGATTTTACCAAAAATTACATTTTTA
1 CCCTAAACTTT-CC-AAAATTACATTTTTA
*
46207327 CCC-AAACTTTCCAAAATTCCATTTTT
1 CCCTAAACTTTCCAAAATTACATTTTT
46207353 GACACTGATT
Statistics
Matches: 111, Mismatches: 22, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
27 13 0.12
28 8 0.07
29 43 0.39
30 44 0.40
31 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATTACATTTTTA
Found at i:46207908 original size:39 final size:39
Alignment explanation
Indices: 46207848--46207990 Score: 141
Period size: 39 Copynumber: 3.7 Consensus size: 39
46207838 TAGTCATTTG
** *
46207848 ATCTCTTA-CCCGAGCTTAGGGCAGATCATCATCAATCA
1 ATCTCTTACCCCGAGCCAAGGGCAGATCATCATTAATCA
* **
46207886 ATCTCTTACCCCGAGCCAAGGGCAGAT--TGCAGTTATTTG
1 ATCTCTTACCCCGAGCCAAGGGCAGATCAT-CA-TTAATCA
* * **
46207925 ATCTTTTACCCCAAGCCTGGGGCAGATCATCATTAA-CGA
1 ATCTCTTACCCCGAGCCAAGGGCAGATCATCATTAATC-A
46207964 ATCTCTTACCCCGAGCCAAGGGCAGAT
1 ATCTCTTACCCCGAGCCAAGGGCAGAT
46207991 TGCAACCATT
Statistics
Matches: 82, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.01
38 10 0.12
39 68 0.83
40 2 0.02
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCAAGGGCAGATCATCATTAATCA
Found at i:46207968 original size:78 final size:77
Alignment explanation
Indices: 46207843--46207994 Score: 234
Period size: 78 Copynumber: 2.0 Consensus size: 77
46207833 AATTATAGTC
* *
46207843 ATTTGATCTCTTACCCGAGCTTAGGGCAGATCATCATCAATCAATCTCTTACCCCGAGCCAAGGG
1 ATTTGATCTCTTACCCAAGCCTAGGGCAGATCATCATCAATCAATCTCTTACCCCGAGCCAAGGG
46207908 CAGATTGCAGTT
66 CAGATTGCAGTT
* * *
46207920 ATTTGATCTTTTACCCCAAGCCTGGGGCAGATCATCATTAA-CGAATCTCTTACCCCGAGCCAAG
1 ATTTGATCTCTTA-CCCAAGCCTAGGGCAGATCATCATCAATC-AATCTCTTACCCCGAGCCAAG
46207984 GGCAGATTGCA
64 GGCAGATTGCA
46207995 ACCATTCGAC
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 13 0.19
78 55 0.81
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (77 bp):
ATTTGATCTCTTACCCAAGCCTAGGGCAGATCATCATCAATCAATCTCTTACCCCGAGCCAAGGG
CAGATTGCAGTT
Found at i:46208009 original size:78 final size:77
Alignment explanation
Indices: 46207866--46208053 Score: 234
Period size: 78 Copynumber: 2.4 Consensus size: 77
46207856 CCCGAGCTTA
*** * *
46207866 GGGCAGATCATCATCAATCAATCTCTTACCCCGAGCCAAGGGCAGATTGCAGTTATTTGATCTTT
1 GGGCAGATCATCATCAA-CAATCTCTTACCCCGAGCCAAGGGCAGATTGCAACCATTCGACCTTT
46207931 TACCCCAAGCCTG
65 TACCCCAAGCCTG
*
46207944 GGGCAGATCATCATTAACGAATCTCTTACCCCGAGCCAAGGGCAGATTGCAACCATTCGACCTTT
1 GGGCAGATCATCATCAAC-AATCTCTTACCCCGAGCCAAGGGCAGATTGCAACCATTCGACCTTT
* ** *
46208009 TACTCTTAGCTTG
65 TACCCCAAGCCTG
*
46208022 GAGCAGATCATCATCAACCAATCT-TCTACCCC
1 GGGCAGATCATCATCAA-CAATCTCT-TACCCC
46208054 AATCATGGGG
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.02
78 92 0.97
79 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (77 bp):
GGGCAGATCATCATCAACAATCTCTTACCCCGAGCCAAGGGCAGATTGCAACCATTCGACCTTTT
ACCCCAAGCCTG
Found at i:46208656 original size:199 final size:200
Alignment explanation
Indices: 46208150--46209032 Score: 1133
Period size: 205 Copynumber: 4.4 Consensus size: 200
46208140 CACTCGATAT
* * *
46208150 GAGCAAATCTTCGAA-CTTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAAT
1 GAGCAAATCTTTGAACCCT-AGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT-AAAA-
* *
46208214 GATTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAA
63 GGTTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
* * * * * *
46208279 GCGAATTAAAACAAGTGATGCGGTCATCTTTCTGATGAGACACTAAGAAGAAGACCAAATCAAAC
128 GCGAATTAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACAAAGAAGAATACCAACTC-AA-
46208344 CCAGGCTCAATGC
191 -C--GCTCAATGC
* *
46208357 GAGCAAATCTTCGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGATCGAAGCAATAAAAGGT
1 GAGCAAATCTTTGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
* * *
46208422 TAGCTTCCTGATGAGACACTGAGAAGTGAACCAAATTCGTCTTCCT-AGGGAGATCTAGAGAAGT
66 TAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGA-GGAGATCCAGAGAAGC
* * * *
46208486 GAATTAAAATAAGTGATACGGTCATCTTCCTGATAAGATACAAAGAAGTATACCAACTCAATGCT
130 GAATTAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACAAAGAAGAATACCAACTCAACGCT
*
46208551 TAATGC
195 CAATGC
* * *
46208557 GAGTAAATTTTTGAA-CCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGTAATAAAAGGT
1 GAGCAAATCTTTGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
* * * *
46208621 TAGCTTCTTGATGAGACACAGAGAAGTGGACCAAATTCGTTTTCCTGAGGAGATCTAGAGAAGCG
66 TAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
* * ** * *
46208686 AATTAAAATAAGCGAGGCAATCATCTTCCTGATGAGATACAGAGAAAAATACCAACTCAACGCTC
131 AATTAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACAAAGAAGAATACCAACTCAACGCTC
46208751 AATGC
196 AATGC
* * *
46208756 GAGCAAATCTTTGAACCCTAGCTTCCTGATGAGACACTGAGAAGGAAGTCGAAGCAATAAATGGT
1 GAGCAAATCTTTGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
46208821 TAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
66 TAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
* * *** ** *
46208886 AATTAAAATAAGTGATGCGGTCATCTTCTTGATGAGACATTGAGAAGAAGGCCAAATCAAACCCA
131 AATTAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACAAAGAAGAATACCAACTC-AA--C-
*
46208951 GGCTCAATGT
192 -GCTCAATGC
* * * * * * * *
46208961 GCGTAGATCTTCGAACCCTAGCCTCCTGATGAGACACTGAGAAGCAGCTCAAAGCAATAAATGGT
1 GAGCAAATCTTTGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
46209026 TAGCTTC
66 TAGCTTC
46209033 TTGAAATGGC
Statistics
Matches: 595, Mismatches: 72, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
199 177 0.30
200 173 0.29
201 2 0.00
203 1 0.00
204 3 0.01
205 181 0.30
206 4 0.01
207 52 0.09
208 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (200 bp):
GAGCAAATCTTTGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGT
TAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
AATTAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACAAAGAAGAATACCAACTCAACGCTC
AATGC
Found at i:46214253 original size:29 final size:28
Alignment explanation
Indices: 46214215--46214519 Score: 115
Period size: 29 Copynumber: 10.6 Consensus size: 28
46214205 CGAAATGGTA
46214215 AAAAT-GTAATTTTGGAGAGTTCGTGGGT
1 AAAATGGTAATTTTGGAGAGTTCG-GGGT
* **
46214243 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGGTAA-TTTTGGAGAGTTCGGGG-T
46214273 AAAAAT-G-AGATTTTGGA-ATGTTCAGGGGT
1 -AAAATGGTA-ATTTTGGAGA-GTTC-GGGGT
* *** *
46214302 AAAATGGTAATTTTTGGTGAAACCGAGGTTT
1 AAAATGGTAA-TTTTGGAGAGTTCG-GG-GT
* * *
46214333 AAAATGG-AATTTTGAAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGAGAG-TTCGGGGT
* ** *
46214361 AAAATGATAATTTT-GATGAAATCGGGTT
1 AAAATGGTAATTTTGGA-GAGTTCGGGGT
* *
46214389 AAAATGG-AATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTGGAGAGTTCG-GGGT
* * * *
46214417 AAAATGGTAATTTTTGGTGAAATTAGGGTT
1 AAAATGGTAA-TTTTGGAG-AGTTCGGGGT
** * * *
46214447 AAAAAT-AAAATTTAGGAAAGTTTGGGGGT
1 -AAAATGGTAATTTTGGAGAG-TTCGGGGT
* * **
46214476 AAAATGGTTATTTTTGGTGAAATCGGGGT
1 AAAATGG-TAATTTTGGAGAGTTCGGGGT
46214505 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
46214520 TAAAATGGTA
Statistics
Matches: 197, Mismatches: 55, Indels: 51
0.65 0.18 0.17
Matches are distributed among these distances:
27 16 0.08
28 48 0.24
29 61 0.31
30 49 0.25
31 23 0.12
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (28 bp):
AAAATGGTAATTTTGGAGAGTTCGGGGT
Found at i:46214305 original size:59 final size:59
Alignment explanation
Indices: 46214213--46214508 Score: 336
Period size: 59 Copynumber: 5.1 Consensus size: 59
46214203 GGCGAAATGG
* *
46214213 TAAAAATGTA-ATTTTGGAGAGTTCGTGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
1 TAAAAATG-AGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
* * * *
46214272 TAAAAATGAGATTTTGGAATGTTCAGGGGTAAAATGGTAATTTTTGGTGAAACCGAGGT
1 TAAAAATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
* * * * *
46214331 TTAAAATG-GAATTTTGAAAAGTTTGGGGGTAAAATGATAA-TTTTGATGAAATC-GGGT
1 TAAAAATGAG-ATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
* * **
46214388 T-AAAATG-GAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGT
1 TAAAAATGAG-ATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
* * * * *
46214446 TAAAAATAAAATTTAGGAAAGTTTGGGGGTAAAATGGTTATTTTTGGTGAAATCGGGG-
1 TAAAAATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
46214504 TAAAA
1 TAAAA
46214509 TGGAATTTTG
Statistics
Matches: 204, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
56 35 0.17
57 15 0.07
58 23 0.11
59 131 0.64
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
TAAAAATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT
Found at i:46214419 original size:28 final size:28
Alignment explanation
Indices: 46214332--46214482 Score: 98
Period size: 28 Copynumber: 5.3 Consensus size: 28
46214322 AACCGAGGTT
* *
46214332 TAAAATGGAATTTTGAAAAGTTTGGGGG
1 TAAAATGGAATTTTGGAAAGTTTGAGGG
* * *
46214360 TAAAATGATAATTTTGATGAAA--TCG-GGT
1 TAAAATG-GAATTTTG--GAAAGTTTGAGGG
46214388 TAAAATGGAATTTTGGAAAGTTTGAGGG
1 TAAAATGGAATTTTGGAAAGTTTGAGGG
46214416 TAAAATGGTAATTTTTGGTGAAA--TT-AGGG
1 TAAAATGG-AA-TTTT-G-GAAAGTTTGAGGG
** * *
46214445 TTAAAAATAAAATTTAGGAAAGTTTGGGGG
1 -T-AAAATGGAATTTTGGAAAGTTTGAGGG
46214475 TAAAATGG
1 TAAAATGG
46214483 TTATTTTTGG
Statistics
Matches: 95, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
25 4 0.04
27 13 0.14
28 32 0.34
29 21 0.22
30 12 0.13
31 9 0.09
32 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.33
Consensus pattern (28 bp):
TAAAATGGAATTTTGGAAAGTTTGAGGG
Found at i:46214523 original size:16 final size:17
Alignment explanation
Indices: 46214502--46214533 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46214492 GTGAAATCGG
46214502 GGTAAAATGG-AATTTT
1 GGTAAAATGGTAATTTT
46214518 GGTAAAATGGTAATTT
1 GGTAAAATGGTAATTT
46214534 CGGACTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (17 bp):
GGTAAAATGGTAATTTT
Found at i:46215494 original size:59 final size:59
Alignment explanation
Indices: 46215393--46215637 Score: 294
Period size: 59 Copynumber: 4.2 Consensus size: 59
46215383 CCTAAACTTC
** * * * ** *
46215393 CCAAAAATTATATTTTGACCCCCAAACTTTCCAAAATCCCATTTTTAACGTCAATTTCA
1 CCAAAAATTACGTTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
46215452 CCAGAAATTACGTTTTTACCCTTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCA
1 CCAAAAATTACGTTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
46215511 CTAAAAATTATGTTTTTACCCCTAAACTTTCTAAAATTTCATTTTTAACCCTGATTTCA
1 CCAAAAATTACGTTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * *
46215570 CCAAAAATTACCATTTTACCCCTAAATTTTCCAAAATTCCA-TTTTAACCTCGATTTTA
1 CCAAAAATTACGTTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
46215628 CCAAAAATTA
1 CCAAAAATTA
46215638 TTATTTACCC
Statistics
Matches: 157, Mismatches: 29, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
58 24 0.15
59 133 0.85
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.38
Consensus pattern (59 bp):
CCAAAAATTACGTTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:46215634 original size:29 final size:29
Alignment explanation
Indices: 46215543--46215636 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
46215533 TAAACTTTCT
* *
46215543 AAAATTTCATTTTTAACC-CTGATTTCACCA
1 AAAATTCCA-TTTTAACCTC-GATTTTACCA
* **
46215573 AAAATTACCATTTTACCCCTAAATTTT-CC-
1 AAAATT-CCATTTTA-ACCTCGATTTTACCA
46215602 AAAATTCCATTTTAACCTCGATTTTACCA
1 AAAATTCCATTTTAACCTCGATTTTACCA
46215631 AAAATT
1 AAAATT
46215637 ATTATTTACC
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
27 8 0.16
28 10 0.20
29 12 0.24
30 13 0.25
31 8 0.16
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTCCATTTTAACCTCGATTTTACCA
Found at i:46225627 original size:17 final size:18
Alignment explanation
Indices: 46225607--46225655 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
46225597 TCTCCCTTGA
*
46225607 TCTTTAACT-TTTCATCT
1 TCTTTAACTCTTTCATAT
46225624 TCTTTAA-TCTTTCATAT
1 TCTTTAACTCTTTCATAT
46225641 TCTTGTAACTACTTT
1 TCTT-TAACT-CTTT
46225656 TTCCTGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 18 0.67
18 3 0.11
19 1 0.04
20 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.57
Consensus pattern (18 bp):
TCTTTAACTCTTTCATAT
Found at i:46233931 original size:9 final size:9
Alignment explanation
Indices: 46233919--46233953 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
46233909 ATATGTAGTT
46233919 TTAATTCGA
1 TTAATTCGA
46233928 TTAATTCGA
1 TTAATTCGA
46233937 TTAATTCGA
1 TTAATTCGA
46233946 TTAATTCG
1 TTAATTCG
46233954 GTCAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TTAATTCGA
Found at i:46237171 original size:16 final size:16
Alignment explanation
Indices: 46237150--46237184 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
46237140 AAGGTGGTCC
46237150 AATCACACCTAATGAA
1 AATCACACCTAATGAA
46237166 AATCACACCTAATGAA
1 AATCACACCTAATGAA
46237182 AAT
1 AAT
46237185 AATTGATGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.20
Consensus pattern (16 bp):
AATCACACCTAATGAA
Found at i:46240631 original size:14 final size:14
Alignment explanation
Indices: 46240614--46240646 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46240604 GAGATAAAAA
46240614 AAAAGAAAA-AGAAG
1 AAAAGAAAAGA-AAG
46240628 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
46240642 AAAAG
1 AAAAG
46240647 GTTAAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:46242854 original size:49 final size:49
Alignment explanation
Indices: 46242695--46243243 Score: 316
Period size: 49 Copynumber: 11.2 Consensus size: 49
46242685 AGATATGGAA
* * * *
46242695 GGAAAGGTTTAAGTCGCAACGATGAACCTTGTACCTCAGAAAGATGAAATG
1 GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGAAACATG-AA-G
* * * * * * * * * *
46242746 AGAAAG-GTTAAGCCGCAATTG-CAAATCTAGCACCAC-GAAGATATGGAG
1 GGAAAGATTTAAGTCGCAA-CGACGAACCTAGTACCTCAGAA-ACATGAAG
* * * * *
46242794 GGAACGGTTTAAGTCGTAACGACGAACTTTGTACCTCAGAAACATGAAG
1 GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGAAACATGAAG
* * * * * *
46242843 GGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-GAAGATATGGAG
1 GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGAA-ACATGAAG
* * * * *
46242892 GGAAAGGTTTAAGTTGCAACGACGAACCTCGTACCTCATAAACATGAAA
1 GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGAAACATGAAG
* * * * *
46242941 GGAAAGATTTAAGCCACAACGGCGAATCC-AGTA--TCACGAGGACATGGAG
1 GGAAAGATTTAAGTCGCAACGACGAA-CCTAGTACCTCA-GA-AACATGAAG
* * * * * *
46242990 GGAAAGGTTTCAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAT
1 GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGAAACATGAAG
* * * * * * *
46243039 GGAAAGATTTAAGCCGCAATGACGAACCCAGTACCAC-GAGGATATGGAG
1 GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGA-AACATGAAG
* *
46243088 GGAAATG-TTTAAGTCGCAACGGCGAACCTTGTACCTC-GAAAACATGAAG
1 GGAAA-GATTTAAGTCGCAACGACGAACCTAGTACCTCAG-AAACATGAAG
* ** * * *
46243137 GGAAAAATTTAAACCGCAAC-AGCGAATCTAGTACCAT-A-AAGATATGGAG
1 GGAAAGATTTAAGTCGCAACGA-CGAACCTAGTACC-TCAGAA-ACATGAAG
* * * **
46243186 AGAAATG-TTTAAGTCGCAATGACGAACCTTGTACCTCAGAAACATGTTG
1 GGAAA-GATTTAAGTCGCAACGACGAACCTAGTACCTCAGAAACATGAAG
46243235 GGAAAGATT
1 GGAAAGATT
46243244 GAGGCCGCAA
Statistics
Matches: 364, Mismatches: 108, Indels: 54
0.69 0.21 0.10
Matches are distributed among these distances:
47 3 0.01
48 18 0.05
49 296 0.81
50 38 0.10
51 9 0.02
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (49 bp):
GGAAAGATTTAAGTCGCAACGACGAACCTAGTACCTCAGAAACATGAAG
Found at i:46242891 original size:98 final size:98
Alignment explanation
Indices: 46242646--46243262 Score: 754
Period size: 98 Copynumber: 6.3 Consensus size: 98
46242636 AAGATGAAAT
* * * *
46242646 GGGAAAG-GTTAACCCGCAACTGCGAATCTAGTACCACGAAGATATGGAAGGAAAGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* *
46242710 GCAACGATGAACCTTGTACCTCAGAAAGATGAAA
66 GCAACGACGAACCTTGTACCTCAGAAACATG-AA
* * ** * * *
46242744 TGAGAAAG-GTTAAGCCGCAATTGCAAATCTAGCACCACGAAGATATGGAGGGAACGGTTTAAGT
1 -GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
* *
46242808 CGTAACGACGAACTTTGTACCTCAGAAACATGAA
65 CGCAACGACGAACCTTGTACCTCAGAAACATGAA
*
46242842 GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTT
1 GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* *
46242907 GCAACGACGAACCTCGTACCTCATAAACATGAA
66 GCAACGACGAACCTTGTACCTCAGAAACATGAA
* * * * * * *
46242940 AGGAAAGATTTAAGCCACAACGGCGAATCCAGTATCACGAGGACATGGAGGGAAAGGTTTCAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* *
46243005 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
66 GCAACGACGAACCTTGTACCTCAGAAACATGAA
* * * * * * *
46243038 TGGAAAGATTTAAGCCGCAATGACGAACCCAGTACCACGAGGATATGGAGGGAAATGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
*
46243103 GCAACGGCGAACCTTGTACCTC-GAAAACATGAA
66 GCAACGACGAACCTTGTACCTCAG-AAACATGAA
* * * ** * *
46243136 GGGAAAAATTTAAACCGCAACAGCGAATCTAGTACCATAAAGATATGGAGAGAAATGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* **
46243201 GCAATGACGAACCTTGTACCTCAGAAACATGTT
66 GCAACGACGAACCTTGTACCTCAGAAACATGAA
* * *
46243234 GGGAAAGATTGAGGCCGCAACGGTGAATC
1 GGGAAAGATTTAAGCCGCAACGGCGAATC
46243263 CGATACCATG
Statistics
Matches: 448, Mismatches: 67, Indels: 7
0.86 0.13 0.01
Matches are distributed among these distances:
97 7 0.02
98 356 0.79
99 85 0.19
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (98 bp):
GGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
GCAACGACGAACCTTGTACCTCAGAAACATGAA
Found at i:46243295 original size:49 final size:48
Alignment explanation
Indices: 46243233--46243367 Score: 171
Period size: 49 Copynumber: 2.8 Consensus size: 48
46243223 AGAAACATGT
** *
46243233 TGGGAAAGATTGAGGCCGCAACGGTGAATCCGATACCATGAAGATGCGA
1 TGGGAAAG-TTGAGGCCGCAACGGCAAACCCGATACCATGAAGATGCGA
* **
46243282 TGGGAAATGTTGAGGCCGCAACGGCAAACCCGGTACCATGAAGATTTGA
1 TGGGAAA-GTTGAGGCCGCAACGGCAAACCCGATACCATGAAGATGCGA
* *
46243331 AGGGAAAGGTTGAGGCCGCAATGGCAAACCCGATACC
1 TGGGAAA-GTTGAGGCCGCAACGGCAAACCCGATACC
46243368 TTAGGAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
49 74 0.99
50 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.16
Consensus pattern (48 bp):
TGGGAAAGTTGAGGCCGCAACGGCAAACCCGATACCATGAAGATGCGA
Found at i:46243657 original size:40 final size:41
Alignment explanation
Indices: 46243605--46243720 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 41
46243595 AAGTTACATC
*
46243605 ACCACCCAATCTCTTACCCCGATCATGGGGCAAG-TTAAAA
1 ACCACCAAATCTCTTACCCCGATCATGGGGCAAGATTAAAA
** * *
46243645 ACCATTAAATCTCTTACCCCAATCATGGGAC-AGATTAAAA
1 ACCACCAAATCTCTTACCCCGATCATGGGGCAAGATTAAAA
*
46243685 ATCACCAAATCTCTTACCCCGATCATGGGGC-AGATT
1 ACCACCAAATCTCTTACCCCGATCATGGGGCAAGATT
46243721 GAAGCCACCA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 63 0.97
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (41 bp):
ACCACCAAATCTCTTACCCCGATCATGGGGCAAGATTAAAA
Found at i:46243761 original size:45 final size:46
Alignment explanation
Indices: 46243711--46243815 Score: 149
Period size: 46 Copynumber: 2.3 Consensus size: 46
46243701 CCCCGATCAT
* * *
46243711 GGGGCAGATTGAAGCCACCATCCAA-TCTTTACCCTTAAGTCAAGA
1 GGGGCAAATTGAAGCCACAATCCAATTCTTTACCCTTAAATCAAGA
* *
46243756 GGGGCAAATTAAAGCCACAATCCAATTTTTTACCCTTAAATCAAGA
1 GGGGCAAATTGAAGCCACAATCCAATTCTTTACCCTTAAATCAAGA
*
46243802 GAGGCAAATTGAAG
1 GGGGCAAATTGAAG
46243816 ATAACATCTC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
45 22 0.42
46 30 0.58
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (46 bp):
GGGGCAAATTGAAGCCACAATCCAATTCTTTACCCTTAAATCAAGA
Found at i:46245752 original size:31 final size:31
Alignment explanation
Indices: 46245716--46245776 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
46245706 CATGAGAAAT
* *
46245716 TTTTTTATTCTTTTATTATTATTTTAATTTGG
1 TTTTTTA-CCTTTTATTAATATTTTAATTTGG
*
46245748 TTTTTTACCTTTTTTTAATATTTTAATTT
1 TTTTTTACCTTTTATTAATATTTTAATTT
46245777 TTTAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTTTACCTTTTATTAATATTTTAATTTGG
Found at i:46263814 original size:30 final size:30
Alignment explanation
Indices: 46263782--46263957 Score: 209
Period size: 30 Copynumber: 5.9 Consensus size: 30
46263772 TAAAAATCAT
* *
46263782 ATTTTGACCCTCAAA-TTTTCCTAAAATTAT
1 ATTTTAACCCTCAAACTTTTCC-AAAATTAC
* * *
46263812 ATTTTAATCCTCAAACTTTTCTAAAATTAT
1 ATTTTAACCCTCAAACTTTTCCAAAATTAC
46263842 ATTTTAACCC-CTAAACTTTTCCAAAATTAC
1 ATTTTAACCCTC-AAACTTTTCCAAAATTAC
*
46263872 ATTTTAACCCTTAAACTTTT-CAAAATTAC
1 ATTTTAACCCTCAAACTTTTCCAAAATTAC
46263901 ATTTTAACCCAT-AAAGC-TTTCCAAAATTAC
1 ATTTTAACCC-TCAAA-CTTTTCCAAAATTAC
* *
46263931 ATTTTAACCCTCAAACTTATACAAAAT
1 ATTTTAACCCTCAAACTTTTCCAAAAT
46263958 CACGTTTTGA
Statistics
Matches: 129, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
29 28 0.22
30 96 0.74
31 5 0.04
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (30 bp):
ATTTTAACCCTCAAACTTTTCCAAAATTAC
Found at i:46263923 original size:59 final size:59
Alignment explanation
Indices: 46263789--46263976 Score: 236
Period size: 59 Copynumber: 3.1 Consensus size: 59
46263779 CATATTTTGA
* * *
46263789 CCCTCAAA-TTTTCCTAAAATTATATTTTAATCCTCAAACTTTTCTAAAATTATATTTTAAC
1 CCCT-AAACTTTTCC-AAAATTACATTTTAACCCTCAAACTTTTC-AAAATTACATTTTAAC
*
46263850 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCAAAATTACATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTTCAAAATTACATTTTAAC
* * * * *
46263909 CCATAAAGC-TTTCCAAAATTACATTTTAACCCTCAAACTTATACAAAATCACGTTTTGAC
1 CCCTAAA-CTTTTCCAAAATTACATTTTAACCCTCAAACTT-TTCAAAATTACATTTTAAC
46263969 CCCTAAAC
1 CCCTAAAC
46263977 CTTCCTAAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
59 52 0.46
60 51 0.45
61 10 0.09
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (59 bp):
CCCTAAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTTCAAAATTACATTTTAAC
Found at i:46275929 original size:39 final size:39
Alignment explanation
Indices: 46275838--46276164 Score: 169
Period size: 39 Copynumber: 8.5 Consensus size: 39
46275828 TATTGAAATT
* * * *
46275838 AGCCAATCTCTTACCTCGAGCCTGG-GCAGATTA-TAGCC
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCA-TC
** * * *
46275876 ATTCGATCTTTTACCCCGAGCTTGGAGCAGATCACCATC
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATC
* * * *
46275915 AGCTAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCAT-
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGA-T-CA-CCATC
* * * * *
46275956 --CCGATCTTTTA-CCCAAGCCTGGAGCAAATCACCATT
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATC
*
46275992 AGCCAATCTCTTACCTCGAGCCT-GAGACAGATTGCAGCCAT-
1 AGCCAATCTCTTACCCCGAGCCTGGAG-CAGA-T-CA-CCATC
* * * * *
46276033 --TCAATCTTTTACCCTGAACCTGGAGCAGATCACCATA
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATC
* * *
46276070 AACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATC
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGA-T-CA-CCATC
* * * * *
46276112 TG---ATCT-TTACCCTGAGCCTGGGGCAAATCACCGTC
1 AGCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATC
46276147 AGCCAATCTCTTACCCCG
1 AGCCAATCTCTTACCCCG
46276165 CAAAAGGGGC
Statistics
Matches: 216, Mismatches: 49, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
35 9 0.04
36 8 0.04
37 4 0.02
38 66 0.31
39 104 0.48
40 7 0.03
41 6 0.03
42 12 0.06
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (39 bp):
AGCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATC
Found at i:46276117 original size:155 final size:154
Alignment explanation
Indices: 46275835--46276161 Score: 485
Period size: 155 Copynumber: 2.1 Consensus size: 154
46275825 GACTATTGAA
* * * * *
46275835 ATTAGCCAATCTCTTACCTCGAGCCTGGGCAGATTATAGCCATTCGATCTTTTACCCCGAGCTTG
1 ATTAGCCAATCTCTTACCTCGAGCCTGGACAGATTACAGCCATTCAATCTTTTACCCCGAACCTG
* * * *
46275900 GAGCAGATCACCATCAGCTAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTT
66 GAGCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATC-TT
46275965 TACCC-AAGCCTGGAGCAAATCACC
130 TACCCTAAGCCTGGAGCAAATCACC
* *
46275989 ATTAGCCAATCTCTTACCTCGAGCCTGAGACAGATTGCAGCCATTCAATCTTTTACCCTGAACCT
1 ATTAGCCAATCTCTTACCTCGAGCCTG-GACAGATTACAGCCATTCAATCTTTTACCCCGAACCT
*
46276054 GGAGCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTGATCTT
65 GGAGCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTT
* *
46276119 TACCCTGAGCCTGGGGCAAATCACC
130 TACCCTAAGCCTGGAGCAAATCACC
* *
46276144 GTCAGCCAATCTCTTACC
1 ATTAGCCAATCTCTTACC
46276162 CCGCAAAAGG
Statistics
Matches: 155, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
154 34 0.22
155 121 0.78
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (154 bp):
ATTAGCCAATCTCTTACCTCGAGCCTGGACAGATTACAGCCATTCAATCTTTTACCCCGAACCTG
GAGCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTT
ACCCTAAGCCTGGAGCAAATCACC
Found at i:46276178 original size:155 final size:155
Alignment explanation
Indices: 46275838--46276200 Score: 435
Period size: 155 Copynumber: 2.3 Consensus size: 155
46275828 TATTGAAATT
* *** * * * *
46275838 AGCCAATCTCTTACCTCGAG-CCTGGGCAGATTATAGCCATTCGATCTTTTACCCCGAGCTTGGA
1 AGCCAATCTCTTACCCCGAGAAAGGGGCAGATTACAGCCATTCAATCTTTTACCCCGAACCTGGA
* * * *
46275902 GCAGATCACCATCAGCTAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTA
66 GCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTA
*
46275967 CCCAAGCCTGGAGCAAATCACCATT
131 CCCAAGCCTGGAGCAAATCACCATC
* *** * * * *
46275992 AGCCAATCTCTTACCTCGAGCCTGAGACAGATTGCAGCCATTCAATCTTTTACCCTGAACCTGGA
1 AGCCAATCTCTTACCCCGAGAAAGGGGCAGATTACAGCCATTCAATCTTTTACCCCGAACCTGGA
*
46276057 GCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTGATC-TTTA
66 GCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTA
* * *
46276121 CCCTGAGCCTGGGGCAAATCACCGTC
131 CCC-AAGCCTGGAGCAAATCACCATC
* * *
46276147 AGCCAATCTCTTACCCCGCA-AAAGGGGCAGATTACAACCATCCAATCTCTTACC
1 AGCCAATCTCTTACCCCG-AGAAAGGGGCAGATTACAGCCATTCAATCTTTTACC
46276201 AAAAAAAAAC
Statistics
Matches: 177, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
154 27 0.15
155 149 0.84
156 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (155 bp):
AGCCAATCTCTTACCCCGAGAAAGGGGCAGATTACAGCCATTCAATCTTTTACCCCGAACCTGGA
GCAGATCACCATAAACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTA
CCCAAGCCTGGAGCAAATCACCATC
Found at i:46276188 original size:77 final size:79
Alignment explanation
Indices: 46275838--46276161 Score: 437
Period size: 77 Copynumber: 4.2 Consensus size: 79
46275828 TATTGAAATT
** * *
46275838 AGCCAATCTCTTACCTCGAGCCT-GGGCAGATTATAGCCAT-TCGATCTTTTACCCCGAGCTTGG
1 AGCCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTCGATCTTTTACCCTGAGCCTGG
*
46275901 AGCAGATCACCATC
66 AGCAAATCACCATC
* * *
46275915 AGCTAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATC-CGATCTTTTACCC-AAGCCTGG
1 AGCCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTCGATCTTTTACCCTGAGCCTGG
*
46275978 AGCAAATCACCATT
66 AGCAAATCACCATC
* * * *
46275992 AGCCAATCTCTTACCTCGAGCCTGAGACAGATTGCAGCCAT-TCAATCTTTTACCCTGAACCTGG
1 AGCCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTCGATCTTTTACCCTGAGCCTGG
* *
46276056 AGCAGATCACCATA
66 AGCAAATCACCATC
*
46276070 AACCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCT-GATC-TTTACCCTGAGCCTGG
1 AGCCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTCGATCTTTTACCCTGAGCCTGG
* *
46276133 GGCAAATCACCGTC
66 AGCAAATCACCATC
46276147 AGCCAATCTCTTACC
1 AGCCAATCTCTTACC
46276162 CCGCAAAAGG
Statistics
Matches: 215, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
77 127 0.59
78 87 0.40
79 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (79 bp):
AGCCAATCTCTTACCTCGAGCCTGGGGCAGATTGCAGCCATCTCGATCTTTTACCCTGAGCCTGG
AGCAAATCACCATC
Found at i:46276460 original size:37 final size:37
Alignment explanation
Indices: 46276408--46276481 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
46276398 ATAAAACGGT
* *
46276408 CGTCTTTCTGATGAGATACAGAGAAGTGGACTAAATC
1 CGTCTTTCTGATGAGATACAGAAAAGTAGACTAAATC
* *
46276445 CGTCTTTCTGGTGAGATACAGAAAAGTAGATTAAATC
1 CGTCTTTCTGATGAGATACAGAAAAGTAGACTAAATC
46276482 AATGAAACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (37 bp):
CGTCTTTCTGATGAGATACAGAAAAGTAGACTAAATC
Found at i:46278342 original size:30 final size:30
Alignment explanation
Indices: 46278308--46278407 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
46278298 TAAAAATCAT
*
46278308 ATTTTAACCCCTAAAATTTTCTAAAATTGC
1 ATTTTAACCCCTAAAATTTTCAAAAATTGC
*
46278338 ATTTTAA-CCCTAAAACTTTTCCAAAATTGC
1 ATTTTAACCCCTAAAA-TTTTCAAAAATTGC
** *
46278368 ATTTTAACCCCTAAAGCTTTCAAAAATTTC
1 ATTTTAACCCCTAAAATTTTCAAAAATTGC
*
46278398 ATTTTGACCC
1 ATTTTAACCC
46278408 TCGAACTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.13
30 47 0.76
31 7 0.11
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (30 bp):
ATTTTAACCCCTAAAATTTTCAAAAATTGC
Found at i:46278424 original size:30 final size:29
Alignment explanation
Indices: 46278308--46278424 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 29
46278298 TAAAAATCAT
* * *
46278308 ATTTTAACCCCTAAAATTTTCTAAAATTGC
1 ATTTTAA-CCCTCAAACTTTCCAAAATTGC
*
46278338 ATTTTAACCCTAAAACTTTTCCAAAATTGC
1 ATTTTAACCCTCAAAC-TTTCCAAAATTGC
* *
46278368 ATTTTAACCC-CTAAAGCTTTCAAAAATTTC
1 ATTTTAACCCTC-AAA-CTTTCCAAAATTGC
* *
46278398 ATTTTGACCCTCGAACTTGTCCAAAAT
1 ATTTTAACCCTCAAACTT-TCCAAAAT
46278425 CACATTTTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
29 11 0.15
30 61 0.82
31 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
ATTTTAACCCTCAAACTTTCCAAAATTGC
Found at i:46278431 original size:60 final size:60
Alignment explanation
Indices: 46278300--46278432 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
46278290 ATTTTATTTA
* * * *
46278300 AAAATCATATTTTAACCCCTAAAATTTTCTAAAATTGCATTTTAACCCTAAAACTTTTCC
1 AAAATCACATTTTAACCCCTAAAACTTTCAAAAATTGCATTTTAACCCTAAAACTTGTCC
** * * * **
46278360 AAAATTGCATTTTAACCCCTAAAGCTTTCAAAAATTTCATTTTGACCCTCGAACTTGTCC
1 AAAATCACATTTTAACCCCTAAAACTTTCAAAAATTGCATTTTAACCCTAAAACTTGTCC
46278420 AAAATCACATTTT
1 AAAATCACATTTT
46278433 GACACCGTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.37
Consensus pattern (60 bp):
AAAATCACATTTTAACCCCTAAAACTTTCAAAAATTGCATTTTAACCCTAAAACTTGTCC
Found at i:46281148 original size:45 final size:45
Alignment explanation
Indices: 46281084--46281172 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
46281074 GGTGCAAGGT
* *
46281084 CCTGCCTAACCCCTATAGTTCTACCCCAGCAAATATATATTGGTC
1 CCTGCCTAACCCCTATAGTTCTACACCAGCAAATATACATTGGTC
* *
46281129 CCTGCCTAACCCCTGTAGTTCTGCACCAGCAAATATACATTGGT
1 CCTGCCTAACCCCTATAGTTCTACACCAGCAAATATACATTGGT
46281173 ATGTAACCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (45 bp):
CCTGCCTAACCCCTATAGTTCTACACCAGCAAATATACATTGGTC
Found at i:46283703 original size:12 final size:13
Alignment explanation
Indices: 46283676--46283709 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
46283666 GTAAAATTCG
46283676 ATTCGAATCGAAAA
1 ATTCGAATC-AAAA
46283690 ATTCGAAT-AAAA
1 ATTCGAATCAAAA
46283702 ATTCGAAT
1 ATTCGAAT
46283710 TTTGAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (13 bp):
ATTCGAATCAAAA
Found at i:46284066 original size:42 final size:42
Alignment explanation
Indices: 46283983--46284066 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
46283973 CAAAATATTT
* * *
46283983 TTAAACTCAAATATAATTTCATTCTTAAAAAGGACTAATAAA
1 TTAAACCCAAAAATAATTTCATTCTTAAAAAGCACTAATAAA
* *
46284025 TTAAACCCAAAAATAATTTTATTCTTAAATAA-CACTCATAAA
1 TTAAACCCAAAAATAATTTCATTCTTAAA-AAGCACTAATAAA
46284067 CAATTCCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (42 bp):
TTAAACCCAAAAATAATTTCATTCTTAAAAAGCACTAATAAA
Found at i:46284606 original size:18 final size:19
Alignment explanation
Indices: 46284583--46284618 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46284573 ATTATGTTAT
*
46284583 TGTTG-TTACTTGAGCTTA
1 TGTTGTTTACTCGAGCTTA
46284601 TGTTGTTTACTCGAGCTT
1 TGTTGTTTACTCGAGCTT
46284619 TTGCTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.50
Consensus pattern (19 bp):
TGTTGTTTACTCGAGCTTA
Found at i:46287835 original size:21 final size:21
Alignment explanation
Indices: 46287811--46287867 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
46287801 TGAGACAATA
46287811 CTACCGATACAAAT-ATGACTT
1 CTACCGATACAAATCATG-CTT
* **
46287832 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAATCATGCTT
*
46287853 CTACCGATACTAATC
1 CTACCGATACAAATC
46287868 TAGAGAGCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (21 bp):
CTACCGATACAAATCATGCTT
Found at i:46290661 original size:18 final size:18
Alignment explanation
Indices: 46290638--46290673 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46290628 ATTTACGACC
46290638 CTTAATTTTAGAAACGAG
1 CTTAATTTTAGAAACGAG
46290656 CTTAATTTTAGAAACGAG
1 CTTAATTTTAGAAACGAG
46290674 GTCCCAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
CTTAATTTTAGAAACGAG
Found at i:46293569 original size:22 final size:23
Alignment explanation
Indices: 46293530--46293574 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
46293520 GCTCATATTA
*
46293530 TTTTTAATTTAATATTTA-ATAT
1 TTTTTAATTAAATATTTACATAT
46293552 TTTTTAATTAAA-ATTTTACATAT
1 TTTTTAATTAAATA-TTTACATAT
46293575 AGACATCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 15 0.75
23 4 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTAATTAAATATTTACATAT
Found at i:46303007 original size:19 final size:18
Alignment explanation
Indices: 46302983--46303019 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
46302973 TATTTATATT
46302983 TATATTTTAAACTTTAAAA
1 TATATTTTAAA-TTTAAAA
*
46303002 TATATTTTATATTTAAAA
1 TATATTTTAAATTTAAAA
46303020 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTTTAAATTTAAAA
Found at i:46303020 original size:19 final size:19
Alignment explanation
Indices: 46302983--46303037 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
46302973 TATTTATATT
*
46302983 TATATTTTAAACTTT-AAAA
1 TATATTTTATA-TTTAAAAA
46303002 TATATTTTATATTTAAAAAA
1 TATATTTTATATTT-AAAAA
*
46303022 AATATTTTATATTTAA
1 TATATTTTATATTTAA
46303038 TAGAGATGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 17 0.53
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATTTTATATTTAAAAA
Found at i:46303026 original size:20 final size:20
Alignment explanation
Indices: 46302998--46303037 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46302988 TTTAAACTTT
*
46302998 AAAATATATTTTATATTTAA
1 AAAAAATATTTTATATTTAA
46303018 AAAAAATATTTTATATTTAA
1 AAAAAATATTTTATATTTAA
46303038 TAGAGATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAAATATTTTATATTTAA
Found at i:46313447 original size:20 final size:20
Alignment explanation
Indices: 46313419--46313456 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46313409 TCACGTCAAC
46313419 AAATGATTTTAAAATTATTA
1 AAATGATTTTAAAATTATTA
*
46313439 AAATTATTTTAAAATTAT
1 AAATGATTTTAAAATTAT
46313457 AATCATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AAATGATTTTAAAATTATTA
Found at i:46313450 original size:11 final size:11
Alignment explanation
Indices: 46313419--46313456 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
46313409 TCACGTCAAC
*
46313419 AAATGATTTTA
1 AAATTATTTTA
46313430 AAATTA--TTA
1 AAATTATTTTA
46313439 AAATTATTTTA
1 AAATTATTTTA
46313450 AAATTAT
1 AAATTAT
46313457 AATCATCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:46314508 original size:12 final size:12
Alignment explanation
Indices: 46314491--46314515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46314481 GGTATATATA
46314491 TGTGTGTGTGTT
1 TGTGTGTGTGTT
46314503 TGTGTGTGTGTT
1 TGTGTGTGTGTT
46314515 T
1 T
46314516 ATTTCTTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (12 bp):
TGTGTGTGTGTT
Found at i:46315387 original size:30 final size:30
Alignment explanation
Indices: 46315351--46315650 Score: 199
Period size: 30 Copynumber: 10.0 Consensus size: 30
46315341 TTCGACACCC
* * * *
46315351 AAACTTTCCAAACATTTAAATTTGACCCCA
1 AAACTTTCTAAAAATTTAAATTTTACCCCT
* * *
46315381 AAACTTTCTAAAAATTT-TATTTTAACCTT
1 AAACTTTCTAAAAATTTAAATTTTACCCCT
*
46315410 AAACTTTCTAAAAATTCAAATTTTACCCCT
1 AAACTTTCTAAAAATTTAAATTTTACCCCT
** * *
46315440 AAACTTTCTAAAAA-TTGCATTTTGGCTCCT
1 AAACTTTCTAAAAATTTAAATTTT-ACCCCT
* *
46315470 AAACTTTTTAAAAATTT-CATTTTGACCCC-
1 AAACTTTCTAAAAATTTAAATTTT-ACCCCT
* * *
46315499 AAACTTTCTAAAAAATTCATTTTTA-CCCT
1 AAACTTTCTAAAAATTTAAATTTTACCCCT
* * *
46315528 CAAACTTTCTAAAAA-TTATATTTTGGCCCCA
1 -AAACTTTCTAAAAATTTAAATTTT-ACCCCT
46315559 AAACTTTCTAAAAAATTT--ATTTTGA-CCCT
1 AAACTTTCT-AAAAATTTAAATTTT-ACCCCT
**
46315588 AAACTTTCTGAAAATCATATTTTATTTTAACTCCC-
1 AAACTTTCT-AAAA--AT-TTAAATTTT-AC-CCCT
* *
46315623 AAACTTTCT-AATATTTTAATTTTACCCC
1 AAACTTTCTAAAAATTTAAATTTTACCCC
46315651 ATTTTTCCTT
Statistics
Matches: 219, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.03
29 69 0.32
30 106 0.48
31 14 0.06
32 4 0.02
33 2 0.01
34 6 0.03
35 9 0.04
36 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (30 bp):
AAACTTTCTAAAAATTTAAATTTTACCCCT
Found at i:46315503 original size:89 final size:88
Alignment explanation
Indices: 46315371--46315611 Score: 299
Period size: 89 Copynumber: 2.7 Consensus size: 88
46315361 AACATTTAAA
* * * *
46315371 TTTGACCCCAAAACTTTCTAAAAATTTTATTTTAACCTTAAACTTTCTAAAAATTCAAATTTTAC
1 TTTGGCCCCAAAACTTTTTAAAAA-TTTATTTTGACCCTAAACTTTCTAAAAATTCAAATTTTAC
*
46315436 CC-CTAAACTTTCTAAAAATTGCAT
65 CCTC-AAACTTTCTAAAAATTACAT
* * * *
46315460 TTTGGCTCCTAAACTTTTTAAAAATTTCATTTTGACCCCAAACTTTCTAAAAAATTC-ATTTTTA
1 TTTGGCCCCAAAACTTTTTAAAAATTT-ATTTTGACCCTAAACTTTCT-AAAAATTCAAATTTTA
*
46315524 CCCTCAAACTTTCTAAAAATTATAT
64 CCCTCAAACTTTCTAAAAATTACAT
* * *
46315549 TTTGGCCCCAAAACTTTCTAAAAAATTTATTTTGACCCTAAACTTTCTGAAAA-TCATATTTTA
1 TTTGGCCCCAAAACTTT-TTAAAAATTTATTTTGACCCTAAACTTTCTAAAAATTCAAATTTTA
46315612 TTTTAACTCC
Statistics
Matches: 130, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
87 2 0.02
88 12 0.09
89 98 0.75
90 18 0.14
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (88 bp):
TTTGGCCCCAAAACTTTTTAAAAATTTATTTTGACCCTAAACTTTCTAAAAATTCAAATTTTACC
CTCAAACTTTCTAAAAATTACAT
Found at i:46315608 original size:59 final size:59
Alignment explanation
Indices: 46315371--46315610 Score: 281
Period size: 59 Copynumber: 4.1 Consensus size: 59
46315361 AACATTTAAA
* * * * *
46315371 TTTGACCCCAAAACTTTCTAAAAATTTTATTTTAACCTTAAACTTTCTAAAAATTCAAAT
1 TTTGACCCCAAAACTTTCTAAAAAATTCATTTTGACCCTAAACTTTCTAAAAA-TCATAT
* * * *
46315431 TTT-ACCCCTAAACTTTCT-AAAAATTGCATTTTGGCTCCTAAACTTTTTAAAAAT-TTCAT
1 TTTGACCCCAAAACTTTCTAAAAAATT-CATTTTGAC-CCTAAACTTTCTAAAAATCAT-AT
* *
46315490 TTTGACCCC-AAACTTTCTAAAAAATTCATTTTTACCCTCAAACTTTCTAAAAATTATAT
1 TTTGACCCCAAAACTTTCTAAAAAATTCATTTTGACCCT-AAACTTTCTAAAAATCATAT
* * *
46315549 TTTGGCCCCAAAACTTTCTAAAAAATTTATTTTGACCCTAAACTTTCTGAAAATCATAT
1 TTTGACCCCAAAACTTTCTAAAAAATTCATTTTGACCCTAAACTTTCTAAAAATCATAT
46315608 TTT
1 TTT
46315611 ATTTTAACTC
Statistics
Matches: 154, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
58 9 0.06
59 87 0.56
60 58 0.38
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (59 bp):
TTTGACCCCAAAACTTTCTAAAAAATTCATTTTGACCCTAAACTTTCTAAAAATCATAT
Found at i:46317279 original size:29 final size:30
Alignment explanation
Indices: 46317239--46317306 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
46317229 GATGATGATT
46317239 ATAATTTTATATTTT-AAAAAATAATTTTA
1 ATAATTTTATATTTTAAAAAAATAATTTTA
*
46317268 ATACTTTTATATTTTAAAAAAATAATTTTA
1 ATAATTTTATATTTTAAAAAAATAATTTTA
46317298 ATAATTTTA
1 ATAATTTTA
46317307 AAATCATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 14 0.39
30 22 0.61
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
ATAATTTTATATTTTAAAAAAATAATTTTA
Found at i:46317701 original size:12 final size:12
Alignment explanation
Indices: 46317684--46317708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46317674 ATCACTTCAC
46317684 ACACACACACAT
1 ACACACACACAT
46317696 ACACACACACAT
1 ACACACACACAT
46317708 A
1 A
46317709 TCACCATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (12 bp):
ACACACACACAT
Found at i:46329030 original size:2 final size:2
Alignment explanation
Indices: 46329023--46329068 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
46329013 TATTAGCATT
46329023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46329065 -A TA T
1 TA TA T
46329069 TTATTTTCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46329815 original size:30 final size:30
Alignment explanation
Indices: 46329791--46329882 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
46329781 AAAATTTAAA
46329791 TTTAACCCTCGATCATTCTAAAAATTACAT
1 TTTAACCCTCGATCATTCTAAAAATTACAT
** * * *
46329821 TTTGGCCCT-AAACTTTCTAAAAATTACAT
1 TTTAACCCTCGATCATTCTAAAAATTACAT
46329850 TTTAACCCTCGATCATTCTAAAAATTACAT
1 TTTAACCCTCGATCATTCTAAAAATTACAT
46329880 TTT
1 TTT
46329883 GGCCCTAAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.47
30 27 0.53
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
TTTAACCCTCGATCATTCTAAAAATTACAT
Found at i:46329838 original size:29 final size:29
Alignment explanation
Indices: 46329806--46329912 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
46329796 CCCTCGATCA
46329806 TTCTAAAAATTACATTTTGGCCCTAAACT
1 TTCTAAAAATTACATTTTGGCCCTAAACT
** * * *
46329835 TTCTAAAAATTACATTTTAACCCTCGATCA
1 TTCTAAAAATTACATTTTGGCCCT-AAACT
46329865 TTCTAAAAATTACATTTTGGCCCTAAACT
1 TTCTAAAAATTACATTTTGGCCCTAAACT
* *
46329894 TTCTAAAATTTAAATTTTG
1 TTCTAAAAATTACATTTTG
46329913 ATTTTGACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 41 0.63
30 24 0.37
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.40
Consensus pattern (29 bp):
TTCTAAAAATTACATTTTGGCCCTAAACT
Found at i:46329855 original size:59 final size:59
Alignment explanation
Indices: 46329780--46329911 Score: 230
Period size: 59 Copynumber: 2.2 Consensus size: 59
46329770 CAAAATATCC
46329780 AAAAATTTAAA-TTTAACCCTCGATCATTCTAAAAATTACATTTTGGCCCTAAACTTTCT
1 AAAAA-TTAAATTTTAACCCTCGATCATTCTAAAAATTACATTTTGGCCCTAAACTTTCT
*
46329839 AAAAATTACATTTTAACCCTCGATCATTCTAAAAATTACATTTTGGCCCTAAACTTTCT
1 AAAAATTAAATTTTAACCCTCGATCATTCTAAAAATTACATTTTGGCCCTAAACTTTCT
*
46329898 AAAATTTAAATTTT
1 AAAAATTAAATTTT
46329912 GATTTTGACC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 4 0.06
59 65 0.94
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (59 bp):
AAAAATTAAATTTTAACCCTCGATCATTCTAAAAATTACATTTTGGCCCTAAACTTTCT
Found at i:46331457 original size:16 final size:18
Alignment explanation
Indices: 46331431--46331463 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46331421 CAAAATAAGG
46331431 TTGAGAAAATTA-TTTAA
1 TTGAGAAAATTAGTTTAA
46331448 TTGA-AAAATTAGTTTA
1 TTGAGAAAATTAGTTTA
46331464 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAGTTTAA
Found at i:46332248 original size:19 final size:19
Alignment explanation
Indices: 46332226--46332262 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
46332216 ACTGTCACCC
46332226 ACCGTAATCAAATTTGTTG
1 ACCGTAATCAAATTTGTTG
46332245 ACCGTAATCAAATTTGTT
1 ACCGTAATCAAATTTGTT
46332263 ATTAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
ACCGTAATCAAATTTGTTG
Found at i:46333168 original size:38 final size:38
Alignment explanation
Indices: 46333126--46333210 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 38
46333116 TATACAACAA
* * *
46333126 ATTAAAAAAA-ATTTAATATATCAAATAAACTTAAAA-AC
1 ATTAAAAAAACA-TTAAAAAAT-AAACAAACTTAAAATAC
*
46333164 ATTAAAACAAACATTAAAAAATAAACAAATTTAAAATAC
1 ATTAAAA-AAACATTAAAAAATAAACAAACTTAAAATAC
46333203 ATTAAAAA
1 ATTAAAAA
46333211 TTCTTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 20 0.50
39 19 0.47
40 1 0.03
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (38 bp):
ATTAAAAAAACATTAAAAAATAAACAAACTTAAAATAC
Found at i:46333373 original size:12 final size:12
Alignment explanation
Indices: 46333358--46333476 Score: 72
Period size: 12 Copynumber: 10.2 Consensus size: 12
46333348 AATAACTACC
*
46333358 AAAACAGCAGCA
1 AAAACAGCAACA
* *
46333370 AAAATAACAAC-
1 AAAACAGCAACA
46333381 AAAAC---AACA
1 AAAACAGCAACA
*
46333390 AAAATAGCAACA
1 AAAACAGCAACA
46333402 AAAACAGCAACA
1 AAAACAGCAACA
* **
46333414 AAAATAATAACA
1 AAAACAGCAACA
*
46333426 AAAATAGCAACAAA
1 AAAACAGCAAC--A
*
46333440 AATAACAGCATC-
1 AA-AACAGCAACA
*
46333452 AAAACAGTAA-A
1 AAAACAGCAACA
46333463 AAAA-AGCAACA
1 AAAACAGCAACA
46333474 AAA
1 AAA
46333477 TAGTAATCAA
Statistics
Matches: 82, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 4 0.05
11 18 0.22
12 43 0.52
14 3 0.04
15 7 0.09
ACGTcount: A:0.69, C:0.18, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAACAGCAACA
Found at i:46333373 original size:44 final size:44
Alignment explanation
Indices: 46333338--46333476 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 44
46333328 AATAAGATCC
* * * *
46333338 AAACAACCAAAATAACTACCAAAACAGCAGCAAAAATAACAACA
1 AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAACA
* *
46333382 AAACAACAAAAATAGCAACAAAAACAGCAACAAAAATAATAACAAA
1 AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAAC--A
* * *
46333428 AATAGCAACAAAAATAACAGCATCAAAACAGTAA-AAAAA-AGCAACA
1 AA-A-CAACAAAAATAACAACA--AAAACAGCAACAAAAATAACAACA
46333474 AAA
1 AAA
46333477 TAGTAATCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
44 37 0.47
45 1 0.01
46 6 0.08
47 1 0.01
48 19 0.24
49 5 0.06
50 9 0.12
ACGTcount: A:0.68, C:0.19, G:0.06, T:0.07
Consensus pattern (44 bp):
AAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAACA
Found at i:46333374 original size:24 final size:24
Alignment explanation
Indices: 46333341--46333445 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
46333331 AAGATCCAAA
* *
46333341 CAACCAAAATAACTACCAAAACAG
1 CAACAAAAATAACTACAAAAACAG
* *
46333365 CAGCAAAAATAAC-A-ACAAA-A-
1 CAACAAAAATAACTACAAAAACAG
* *
46333385 CAACAAAAATAGCAACAAAAACAG
1 CAACAAAAATAACTACAAAAACAG
*
46333409 CAACAAAAATAA-TAACAAAAATAG
1 CAACAAAAATAACT-ACAAAAACAG
46333433 CAACAAAAATAAC
1 CAACAAAAATAAC
46333446 AGCATCAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
20 11 0.17
21 2 0.03
22 7 0.11
23 2 0.03
24 43 0.66
ACGTcount: A:0.67, C:0.21, G:0.05, T:0.08
Consensus pattern (24 bp):
CAACAAAAATAACTACAAAAACAG
Found at i:46333475 original size:21 final size:23
Alignment explanation
Indices: 46333437--46333482 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
46333427 AAATAGCAAC
*
46333437 AAAAATAACAGCATCAAAACAGT
1 AAAAATAACAGCAACAAAACAGT
*
46333460 AAAAA-AA-AGCAACAAAATAGT
1 AAAAATAACAGCAACAAAACAGT
46333481 AA
1 AA
46333483 TCAAAACAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 2 0.10
23 5 0.24
ACGTcount: A:0.67, C:0.13, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAATAACAGCAACAAAACAGT
Found at i:46333987 original size:18 final size:18
Alignment explanation
Indices: 46333964--46333998 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46333954 ATTCGAGTTG
*
46333964 ACTCGAATAACTCGATTA
1 ACTCGAACAACTCGATTA
46333982 ACTCGAACAACTCGATT
1 ACTCGAACAACTCGATT
46333999 CGTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (18 bp):
ACTCGAACAACTCGATTA
Found at i:46334827 original size:99 final size:96
Alignment explanation
Indices: 46334716--46334907 Score: 303
Period size: 99 Copynumber: 2.0 Consensus size: 96
46334706 TTTTGAACCA
46334716 AACCATGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGGCTTCTTCTTCTTCCATCACTCT
1 AACCATGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGGCTTCTTCTTCTTCCATCACTCT
*
46334781 CCCAACCCTTAAAGGTTCTCTATTTTAATCTCAT
66 CCC-A--CTTAAAGGTTCTCTATTTCAATCTCAT
* * *
46334815 AACCATGGCTACTTCTCCATTTGGATTCTGAATCAAACTATGGCTTCTTCTTCTTCCATCACTCT
1 AACCATGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGGCTTCTTCTTCTTCCATCACTCT
* *
46334880 CTCACTTCAAGGTTCTCTATTTCAATCT
66 CCCACTTAAAGGTTCTCTATTTCAATCT
46334908 TATTTCTTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
96 22 0.25
98 1 0.01
99 64 0.74
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (96 bp):
AACCATGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGGCTTCTTCTTCTTCCATCACTCT
CCCACTTAAAGGTTCTCTATTTCAATCTCAT
Found at i:46335508 original size:18 final size:18
Alignment explanation
Indices: 46335485--46335519 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46335475 GAACGAGATG
*
46335485 ATGATGATTGTTAGCTCA
1 ATGATGATTGCTAGCTCA
46335503 ATGATGATTGCTAGCTC
1 ATGATGATTGCTAGCTC
46335520 GATGGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (18 bp):
ATGATGATTGCTAGCTCA
Found at i:46336179 original size:20 final size:20
Alignment explanation
Indices: 46336142--46336182 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46336132 TTAATTGTTC
*
46336142 CGGTAGAAGTATACTTGTAT
1 CGGTAGAACTATACTTGTAT
* *
46336162 CGGTAGAACTGTAGTTGTAT
1 CGGTAGAACTATACTTGTAT
46336182 C
1 C
46336183 AATAAAAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (20 bp):
CGGTAGAACTATACTTGTAT
Found at i:46336449 original size:20 final size:20
Alignment explanation
Indices: 46336398--46336450 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
46336388 GTCTTCAAGG
* * *
46336398 TATCGGTAGAACTGTAGTTG
1 TATCGGTAGAAGTGGAGTTC
46336418 TATCGGTAGAAGTGGAGTTC
1 TATCGGTAGAAGTGGAGTTC
46336438 TATCGGTAGAAGT
1 TATCGGTAGAAGT
46336451 CTCACTAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.32
Consensus pattern (20 bp):
TATCGGTAGAAGTGGAGTTC
Found at i:46336634 original size:32 final size:33
Alignment explanation
Indices: 46336597--46336661 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
46336587 GAGTAGATTT
* *
46336597 CTCCCCCT-TATAAAAGTCATTTTGAAATTAAG
1 CTCCCCCTATATAAAAATCATTTTCAAATTAAG
*
46336629 CTCCCCCTATATAAAAATCATTTTCAATTTAAG
1 CTCCCCCTATATAAAAATCATTTTCAAATTAAG
46336662 GCATAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (33 bp):
CTCCCCCTATATAAAAATCATTTTCAAATTAAG
Found at i:46339286 original size:20 final size:20
Alignment explanation
Indices: 46339263--46339311 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
46339253 TTAGTTGTTC
46339263 CGGTAGAAGTATACTTGTAT
1 CGGTAGAAGTATACTTGTAT
* * * *
46339283 CGGTAAAACTGTAGTTGTAT
1 CGGTAGAAGTATACTTGTAT
*
46339303 CAGTAGAAG
1 CGGTAGAAG
46339312 AGGAGTTCTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (20 bp):
CGGTAGAAGTATACTTGTAT
Found at i:46339570 original size:20 final size:20
Alignment explanation
Indices: 46339519--46339571 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
46339509 GTCTTCAAGG
* * *
46339519 TATCGGTAGAACTGTAGTTG
1 TATCGGTAGAAGTGGAGTTC
46339539 TATCGGTAGAAGTGGAGTTC
1 TATCGGTAGAAGTGGAGTTC
46339559 TATCGGTAGAAGT
1 TATCGGTAGAAGT
46339572 TTCACTGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.32
Consensus pattern (20 bp):
TATCGGTAGAAGTGGAGTTC
Found at i:46339723 original size:29 final size:29
Alignment explanation
Indices: 46339685--46339762 Score: 149
Period size: 28 Copynumber: 2.7 Consensus size: 29
46339675 TTAAAATATT
46339685 AAAATAATTTTAATAATTTTATATTTTAA
1 AAAATAATTTTAATAATTTTATATTTTAA
46339714 AAAATAATTTTAATAA-TTTATATTTTAA
1 AAAATAATTTTAATAATTTTATATTTTAA
46339742 AAAATAATTTTAATAATTTTA
1 AAAATAATTTTAATAATTTTA
46339763 AAATTATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 28 0.58
29 20 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
AAAATAATTTTAATAATTTTATATTTTAA
Found at i:46339725 original size:13 final size:13
Alignment explanation
Indices: 46339707--46339754 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
46339697 ATAATTTTAT
46339707 ATTTTAAAAAATA
1 ATTTTAAAAAATA
**
46339720 ATTTTAATAATTTA
1 ATTTTAA-AAAATA
46339734 TATTTTAAAAAATA
1 -ATTTTAAAAAATA
46339748 ATTTTAA
1 ATTTTAA
46339755 TAATTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 14 0.48
14 8 0.28
15 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTAAAAAATA
Found at i:46348080 original size:16 final size:16
Alignment explanation
Indices: 46348046--46348080 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46348036 ATAACAAAAA
46348046 AAAATGTTTTTGAATC
1 AAAATGTTTTTGAATC
46348062 AAAATAGTTTTTGAA-C
1 AAAAT-GTTTTTGAATC
46348078 AAA
1 AAA
46348081 GACTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (16 bp):
AAAATGTTTTTGAATC
Found at i:46350772 original size:12 final size:12
Alignment explanation
Indices: 46350757--46350785 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46350747 ATCATCGCCA
46350757 TCATCTTCATCT
1 TCATCTTCATCT
46350769 TCATCTTCATCT
1 TCATCTTCATCT
46350781 TCATC
1 TCATC
46350786 ATAAACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (12 bp):
TCATCTTCATCT
Found at i:46359245 original size:21 final size:20
Alignment explanation
Indices: 46359221--46359268 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
46359211 TATGTTATAG
46359221 TATTATTATAATATTTAATAT
1 TATTATTATAAT-TTTAATAT
* *
46359242 TATTATTATTATTTTTATAT
1 TATTATTATAATTTTAATAT
46359262 TAATTAT
1 T-ATTAT
46359269 AAATAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATTATAATTTTAATAT
Found at i:46363883 original size:228 final size:230
Alignment explanation
Indices: 46363467--46363917 Score: 825
Period size: 228 Copynumber: 2.0 Consensus size: 230
46363457 AATTTTTAGG
*
46363467 AAACATTTTAGTAAAATTAAAGCTATTATTCAAAAATGTAATAAGAAATATTTAAAATGGCAAAT
1 AAACATTTTAGTAAAATTAAAGCTATTATTCAAAAATATAATAAGAAATATTTAAAATGGCAAAT
46363532 TCAATAGTATATTGAACAAAAATATTTATATTGGCCAATTCAAAGGTTTTTTTTAAACTTATGCT
66 TCAATAGTATATTGAACAAAAATATTTATATTGGCCAATTCAAAGGTTTTTTTTAAACTTATGCT
*
46363597 TTTATTATACTAATTTTTAATGTGACTTACGTTATTCGTGATTTTATGTGTTTAATTTTTAAATT
131 TTTATTATACTAATTTTTAATGTGACTTACATTATTCGTGATTTTATGTGTTTAATTTTTAAATT
46363662 AATTCTATAAAATTTTAATTATTGTGAGTAGTTTT
196 AATTCTATAAAATTTTAATTATTGTGAGTAGTTTT
46363697 AAACATTTTAGTAAAATTAAAGCTATTATTCAAAAATATAATAAG-AATATTTAAAATGGCAAAT
1 AAACATTTTAGTAAAATTAAAGCTATTATTCAAAAATATAATAAGAAATATTTAAAATGGCAAAT
* *
46363761 TCAATAGTATATTGAACAAAAATATTTATATTGGTCAATTCAAAGG-TTTTTTTAAACTTATGTT
66 TCAATAGTATATTGAACAAAAATATTTATATTGGCCAATTCAAAGGTTTTTTTTAAACTTATGCT
* *
46363825 TTTATTATACTAATTTTTAATGTGACTTACATTGTTCGTGATTTTATGTTTTTAATTTTTAAATT
131 TTTATTATACTAATTTTTAATGTGACTTACATTATTCGTGATTTTATGTGTTTAATTTTTAAATT
*
46363890 AATTTTATAAAATTTTAATTATTGTGAG
196 AATTCTATAAAATTTTAATTATTGTGAG
46363918 CAATTTTAGT
Statistics
Matches: 214, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
228 106 0.50
229 64 0.30
230 44 0.21
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.45
Consensus pattern (230 bp):
AAACATTTTAGTAAAATTAAAGCTATTATTCAAAAATATAATAAGAAATATTTAAAATGGCAAAT
TCAATAGTATATTGAACAAAAATATTTATATTGGCCAATTCAAAGGTTTTTTTTAAACTTATGCT
TTTATTATACTAATTTTTAATGTGACTTACATTATTCGTGATTTTATGTGTTTAATTTTTAAATT
AATTCTATAAAATTTTAATTATTGTGAGTAGTTTT
Found at i:46364894 original size:39 final size:39
Alignment explanation
Indices: 46364850--46365057 Score: 240
Period size: 39 Copynumber: 5.4 Consensus size: 39
46364840 ATAACCTGGT
* * * *
46364850 AGTGTTTACAGTGTCACTACCACTTTAGTATAGCATTAC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGCATTGC
* * * *
46364889 GGTGTTTACAATGTCACCGCCAATTCAGTATTA-CATTGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTA-TAGCATTGC
* * *
46364928 AATGTTTACAGTGTCACTGCTAGTTCAGTATATCATTGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGCATTGC
* * * *
46364967 AGTGTTTACAATGCCACTGCCAGTTTAGTGTAGCATTGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGCATTGC
*
46365006 AGTGTTTACAGTGTCACTG-CAGTTCAGTATAACATTGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGCATTGC
*
46365044 AGTGCTTACAGTGT
1 AGTGTTTACAGTGT
46365058 TACTAACGAT
Statistics
Matches: 141, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
38 31 0.22
39 108 0.77
40 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (39 bp):
AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGCATTGC
Found at i:46366037 original size:21 final size:21
Alignment explanation
Indices: 46366013--46366066 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
46366003 GTGTAGATTC
*
46366013 CTACCGATACAAGTGACAGTT
1 CTACCGATACAAGTGACACTT
*
46366034 CTACCGATACAAGTGACTCTT
1 CTACCGATACAAGTGACACTT
46366055 CTACCGATACAA
1 CTACCGATACAA
46366067 ATCTTACTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (21 bp):
CTACCGATACAAGTGACACTT
Found at i:46370823 original size:21 final size:21
Alignment explanation
Indices: 46370796--46370848 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
46370786 CTTCTTTTCA
** *
46370796 TCCTTCTTTTCTTTTTCTTTT
1 TCCTTCTTTTCTTCCTCATTT
* *
46370817 TCTTTCTTCTCTTCCTCATTT
1 TCCTTCTTTTCTTCCTCATTT
46370838 TCCTTCTTTTC
1 TCCTTCTTTTC
46370849 CTCAGGTTCC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (21 bp):
TCCTTCTTTTCTTCCTCATTT
Found at i:46375125 original size:37 final size:37
Alignment explanation
Indices: 46375084--46375294 Score: 314
Period size: 37 Copynumber: 5.7 Consensus size: 37
46375074 TTTATGGTTG
* * *
46375084 TGTGCCTAGTAGGCTTAGTGCCGGTGTATTCAAGCTA
1 TGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAGGCTA
*
46375121 TGTGCCTAGCAGGCTTCGTGCCGGTGTATTCAGGCTA
1 TGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAGGCTA
*
46375158 TGTGCCTAGCAGACTTTGTGCCGGTGTATTCAGGCTA
1 TGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAGGCTA
* *
46375195 TGTGCCTAGTAGGCTTTGTACCGGTGTATTCAGGCTA
1 TGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAGGCTA
* * * * *
46375232 TGTGCCTAACAGGTTTTGTGTCGGTGTATTTAGGTTA
1 TGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAGGCTA
46375269 TGTGCCTAGCAGGCTTTGTGCCGGTG
1 TGTGCCTAGCAGGCTTTGTGCCGGTG
46375295 ATCCAAGAAC
Statistics
Matches: 156, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 156 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.34
Consensus pattern (37 bp):
TGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAGGCTA
Found at i:46375162 original size:21 final size:21
Alignment explanation
Indices: 46375101--46375237 Score: 81
Period size: 21 Copynumber: 7.2 Consensus size: 21
46375091 AGTAGGCTTA
*
46375101 GTGCCGGTGTATTCAAGCTAT
1 GTGCCGGTGTATTCAGGCTAT
*
46375122 GTGCC----TA-GCAGGCT-T
1 GTGCCGGTGTATTCAGGCTAT
46375137 CGTGCCGGTGTATTCAGGCTAT
1 -GTGCCGGTGTATTCAGGCTAT
* * *
46375159 GTGCC----TA-GCAGACTTT
1 GTGCCGGTGTATTCAGGCTAT
46375175 GTGCCGGTGTATTCAGGCTAT
1 GTGCCGGTGTATTCAGGCTAT
* *
46375196 GTGCC----TAGT-AGGCTTT
1 GTGCCGGTGTATTCAGGCTAT
*
46375212 GTACCGGTGTATTCAGGCTAT
1 GTGCCGGTGTATTCAGGCTAT
46375233 GTGCC
1 GTGCC
46375238 TAACAGGTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
15 1 0.01
16 31 0.37
17 7 0.08
20 7 0.08
21 37 0.44
22 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (21 bp):
GTGCCGGTGTATTCAGGCTAT
Found at i:46384629 original size:22 final size:21
Alignment explanation
Indices: 46384604--46384660 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
46384594 ATAACAATAT
46384604 ATATATATATATATATATAACA
1 ATATATATATATATATATAA-A
*
46384626 ATATATATGTA-A-ATATAAA
1 ATATATATATATATATATAAA
*
46384645 ATAGTATATATGTATA
1 ATA-TATATATATATA
46384661 AAAAAATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
21 2 0.07
22 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATATATATATATATATAAA
Found at i:46384704 original size:18 final size:18
Alignment explanation
Indices: 46384608--46384723 Score: 62
Period size: 18 Copynumber: 6.5 Consensus size: 18
46384598 CAATATATAT
*
46384608 ATATATATATATATAACA
1 ATATATATATATAAAACA
*
46384626 ATATATATGTAAATATAAAATA
1 ATATATA--T--ATATAAAACA
* *
46384648 GTATATATGTATAAAA-A
1 ATATATATATATAAAACA
* **
46384665 A-ATGTGGATAT--AACA
1 ATATATATATATAAAACA
* *
46384680 TTGTATATATATAAAACA
1 ATATATATATATAAAACA
*
46384698 ATATATATGTATAAAA-A
1 ATATATATATATAAAACA
*
46384715 ATATGTATA
1 ATATATATA
46384724 AAATATACAA
Statistics
Matches: 71, Mismatches: 19, Indels: 17
0.66 0.18 0.16
Matches are distributed among these distances:
14 2 0.03
15 1 0.01
16 12 0.17
17 9 0.13
18 31 0.44
20 2 0.03
22 14 0.20
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (18 bp):
ATATATATATATAAAACA
Found at i:46384720 original size:13 final size:13
Alignment explanation
Indices: 46384702--46384757 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
46384692 AAAACAATAT
46384702 ATATGTATAAAAA
1 ATATGTATAAAAA
46384715 ATATGTATAAAATA
1 ATATGTATAAAA-A
* *
46384729 TACAATTTA-AAAAA
1 -A-TATGTATAAAAA
*
46384743 ATATGTATATAAA
1 ATATGTATAAAAA
46384756 AT
1 AT
46384758 TACTAATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 2 0.06
15 5 0.15
16 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (13 bp):
ATATGTATAAAAA
Found at i:46387108 original size:21 final size:20
Alignment explanation
Indices: 46387066--46387112 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
46387056 TATCATGTTT
*
46387066 TATACTTCATATTTCCACCA
1 TATACTTCACATTTCCACCA
* *
46387086 TATACTATCACATTTCTAGCA
1 TATACT-TCACATTTCCACCA
46387107 TATACT
1 TATACT
46387113 GCTACTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.40
Consensus pattern (20 bp):
TATACTTCACATTTCCACCA
Found at i:46387494 original size:158 final size:158
Alignment explanation
Indices: 46387230--46387525 Score: 389
Period size: 158 Copynumber: 1.9 Consensus size: 158
46387220 AGTTACGAAA
* * * * *
46387230 TGGGCCTGCTCACACGAGCTGTTGGTCGAGATGTTAAACTACATGATACTACTCACATGAGCTGT
1 TGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTCAAACTACACGATACTACTCACACGAGCTAT
* * * *
46387295 GGAGAATCCGTAACATATGTTGGATCTCAACCATCAATAGGACATCTAAG-TCCAGCATCCTTTT
66 GGAGAATCCGTAACATATGCTGGATCTCAACCATCAATAGGACATCTAAGAT-CAGCACCCATCT
46387359 AACATGTAATGCTTACACGAGCTGTGAAG
130 AACATGTAATGCTTACACGAGCTGTGAAG
* * ** * * *
46387388 TGGGCCTGCTCACATGAGCTGTGGGTTGAGATGTCAGGCTACACGATGCTGCTTACACGAGCTAT
1 TGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTCAAACTACACGATACTACTCACACGAGCTAT
* **
46387453 GGAGAATCCGTAACATATGACT-GATCTCAGCCATCGGTAGGACATCTAAGATCAGCACCCATCT
66 GGAGAATCCGTAACATATG-CTGGATCTCAACCATCAATAGGACATCTAAGATCAGCACCCATCT
46387517 AACATGTAA
130 AACATGTAA
46387526 ATCCCAAAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
158 115 0.98
159 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (158 bp):
TGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTCAAACTACACGATACTACTCACACGAGCTAT
GGAGAATCCGTAACATATGCTGGATCTCAACCATCAATAGGACATCTAAGATCAGCACCCATCTA
ACATGTAATGCTTACACGAGCTGTGAAG
Found at i:46390778 original size:137 final size:137
Alignment explanation
Indices: 46390529--46390804 Score: 471
Period size: 137 Copynumber: 2.0 Consensus size: 137
46390519 AATCTTTTAA
* * *
46390529 CAGCTCTAACCATCGGCACTGTCACAAATTCAACTCTTTCTGCGTCATCAAATACCTCAAACTCT
1 CAGCTCTAACCATCGACACTGTCACAAATTCAACTCCTTCTACGTCATCAAATACCTCAAACTCT
*
46390594 TATGATCAATAAACACATGACATCTCTCCCCATAAAGATAGTAACGCCAAATTTTTAATGCAAAG
66 TATGATCAATAAACACATGACATCTCTCCCCATAAAGATAGTAACGCCAAATCTTTAATGCAAAG
46390659 ACTATAG
131 ACTATAG
*
46390666 CAGCTCTAACCATCGACACTGTCACAAATTCAACTCCTTCTACGTCATCAAATACCTTAAACTCT
1 CAGCTCTAACCATCGACACTGTCACAAATTCAACTCCTTCTACGTCATCAAATACCTCAAACTCT
* * **
46390731 TATGATCAATAAACACATGACATCTCTTCCCATAAAGATAGTGACGCCAAATCTTTAATGTTAAG
66 TATGATCAATAAACACATGACATCTCTCCCCATAAAGATAGTAACGCCAAATCTTTAATGCAAAG
46390796 ACTATAG
131 ACTATAG
46390803 CA
1 CA
46390805 ATTAACTCCA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.28
Consensus pattern (137 bp):
CAGCTCTAACCATCGACACTGTCACAAATTCAACTCCTTCTACGTCATCAAATACCTCAAACTCT
TATGATCAATAAACACATGACATCTCTCCCCATAAAGATAGTAACGCCAAATCTTTAATGCAAAG
ACTATAG
Found at i:46393411 original size:18 final size:18
Alignment explanation
Indices: 46393388--46393430 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
46393378 TATTACAAGA
46393388 GGAGGTGAAGGCCTTA-C
1 GGAGGTGAAGGCCTTATC
*
46393405 GGGAGGTGGAGGCCTTATC
1 -GGAGGTGAAGGCCTTATC
46393424 GGAGGTG
1 GGAGGTG
46393431 CCGCAGGTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.19, C:0.14, G:0.49, T:0.19
Consensus pattern (18 bp):
GGAGGTGAAGGCCTTATC
Found at i:46394853 original size:20 final size:20
Alignment explanation
Indices: 46394828--46394868 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46394818 TAAGCTTTAG
46394828 TTAATCTCT-TTTAATCTTAA
1 TTAATC-CTATTTAATCTTAA
*
46394848 TTAATCCTATTTACTCTTAA
1 TTAATCCTATTTAATCTTAA
46394868 T
1 T
46394869 AAAAATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATCCTATTTAATCTTAA
Found at i:46395680 original size:25 final size:25
Alignment explanation
Indices: 46395651--46395699 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
46395641 CTTCCAGAAC
*
46395651 TTTAGCTTTTACGAGCCCAGATAGA
1 TTTAGCTCTTACGAGCCCAGATAGA
46395676 TTTAGCTCTTACGAGCCCAGATAG
1 TTTAGCTCTTACGAGCCCAGATAG
46395700 GTTAGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (25 bp):
TTTAGCTCTTACGAGCCCAGATAGA
Found at i:46401442 original size:74 final size:74
Alignment explanation
Indices: 46401358--46401514 Score: 296
Period size: 74 Copynumber: 2.1 Consensus size: 74
46401348 ATTATACTAT
*
46401358 TCATTTATTTCTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATACATAATTCAATCACAT
1 TCATTCATTTCTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATACATAATTCAATCACAT
46401423 TCATCCAAG
66 TCATCCAAG
*
46401432 TCATTCATTTCTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATACGTAATTCAATCACAT
1 TCATTCATTTCTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATACATAATTCAATCACAT
46401497 TCATCCAAG
66 TCATCCAAG
46401506 TCATTCATT
1 TCATTCATT
46401515 AGCATTTCAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (74 bp):
TCATTCATTTCTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATACATAATTCAATCACAT
TCATCCAAG
Found at i:46401492 original size:40 final size:39
Alignment explanation
Indices: 46401368--46401492 Score: 100
Period size: 40 Copynumber: 3.3 Consensus size: 39
46401358 TCATTTATTT
46401368 CTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATA
1 CTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATA
* * * ** * * *
46401407 CATAATTCAATC-ACA--T-TCATCCAAGTCAT-TCA-TTT
1 C-TAATGCAATCTAAATCTGTCATCGAA-AAATATAAGATA
46401442 CTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATA
1 CTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATA
*
46401481 CGTAATTCAATC
1 C-TAATGCAATC
46401493 ACATTCATCC
Statistics
Matches: 60, Mismatches: 17, Indels: 17
0.64 0.18 0.18
Matches are distributed among these distances:
34 9 0.15
35 4 0.07
36 9 0.15
37 6 0.10
38 9 0.15
39 5 0.08
40 18 0.30
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (39 bp):
CTAATGCAATCTAAATCTGTCATCGAAAAATATAAGATA
Found at i:46401763 original size:17 final size:17
Alignment explanation
Indices: 46401743--46401789 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
46401733 GACAATGTAG
*
46401743 ATGCAGCGACAATAAAA
1 ATGCAGAGACAATAAAA
*
46401760 ATGCAGTGACAATAAAA
1 ATGCAGAGACAATAAAA
46401777 ATGCAGAGACAAT
1 ATGCAGAGACAAT
46401790 TATACTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.15
Consensus pattern (17 bp):
ATGCAGAGACAATAAAA
Found at i:46424362 original size:13 final size:13
Alignment explanation
Indices: 46424344--46424369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46424334 TGGATCAGGT
46424344 ACCAGTTGTTCAA
1 ACCAGTTGTTCAA
46424357 ACCAGTTGTTCAA
1 ACCAGTTGTTCAA
46424370 GAGTATACAG
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
ACCAGTTGTTCAA
Found at i:46428716 original size:14 final size:14
Alignment explanation
Indices: 46428697--46428725 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46428687 GCCATGAAAG
46428697 ACTGTTTCAGAACT
1 ACTGTTTCAGAACT
46428711 ACTGTTTCAGAACT
1 ACTGTTTCAGAACT
46428725 A
1 A
46428726 TCTCCAGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (14 bp):
ACTGTTTCAGAACT
Found at i:46428912 original size:27 final size:26
Alignment explanation
Indices: 46428882--46428939 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
46428872 GAGGAACTTG
*
46428882 AGGAGAAGA-AGGAAAATAAGGAAGAGA
1 AGGAGAAGAGAAGAAAAT--GGAAGAGA
*
46428909 AGGAAGAAGAGAAGAAAATTGAAGAGA
1 AGG-AGAAGAGAAGAAAATGGAAGAGA
46428936 AGGA
1 AGGA
46428940 AGATGCCCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 1 0.04
27 13 0.48
28 6 0.22
29 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (26 bp):
AGGAGAAGAGAAGAAAATGGAAGAGA
Found at i:46429384 original size:16 final size:17
Alignment explanation
Indices: 46429360--46429401 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
46429350 ATGCATTGCA
* *
46429360 TTTAGTTGTCATTACAT
1 TTTATTTGTCACTACAT
*
46429377 TTT-TTTGTCACTGCAT
1 TTTATTTGTCACTACAT
46429393 TTTATTTGT
1 TTTATTTGT
46429402 TAGTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (17 bp):
TTTATTTGTCACTACAT
Found at i:46435063 original size:20 final size:20
Alignment explanation
Indices: 46435026--46435063 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46435016 CAATACGCAC
*
46435026 AATTACACAATCATTTCCCA
1 AATTACACAATCAATTCCCA
46435046 AATTCACACAAT-AATTCC
1 AATT-ACACAATCAATTCC
46435064 ATTCAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTACACAATCAATTCCCA
Found at i:46441021 original size:111 final size:111
Alignment explanation
Indices: 46440566--46441388 Score: 716
Period size: 111 Copynumber: 7.4 Consensus size: 111
46440556 CTATTGACCC
* * * * * * * * *
46440566 AAAATTAGGCATTTTTAAAATTAATTAAGAAAATAGGCGTTTTTAAATTTAATTATTG--TATAG
1 AAAA-TAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTA-AGAAAATAG
* * ** * * * * * *
46440629 GCGTCTTTAAAATTAATTATGAAAACAAGCGTTTTAAAAAATATTTACA
64 GCATTTTTAAAATTAATTACAAAAATAAG-TTTTTTAAAATTAATTACG
* * * * * * * * * * *
46440678 AAAATAGGTATTTTTAAAATTAATTACGAAAATTGTCGTTTTAAAAAATATTTAAGAAAATAGGT
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGC
* **
46440743 GTTTGCAAAATTAATTA-AGAAAAT-A-TTTTTTAAAATTAATTACG
66 ATTTTTAAAATTAATTACA-AAAATAAGTTTTTTAAAATTAATTACG
* * * *
46440787 AAAATAGGTA-TTTTATAAATATTTACGTAAATAGAC-TTTTTAAAATTAATTACA-AAGATAGG
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTA-AGAAAATAGG
* * *
46440849 CATTTTTAGAAA-TATTTACAAAAACAGACG-TTTTTAAAATTAATTATG
65 CATTTTTA-AAATTAATTACAAAAATA-A-GTTTTTTAAAATTAATTACG
* * * * **
46440897 AAAATATGTATTTTTTAAAATATTTACGTAAATAGGCGTTTTTAAAATTAATTTGGAAAATAGGC
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGC
* * *
46440962 ATTCTTAAAATTAATTACAAAAATAAGTTTTTTTAAATTAATTACT
66 ATTTTTAAAATTAATTACAAAAATAAGTTTTTTAAAATTAATTACG
* * * * * *
46441008 AAAATAGGAATTTTCAAAATTAATTAAGAAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGT
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGC
* * * ** *
46441073 ATTTTTAAAAATATTTACAAAAATAGGCGTTTTAAAATTAATTAAG
66 ATTTTTAAAATTAATTACAAAAATAAGTTTTTTAAAATTAATTACG
* * * * * *
46441119 AAAATAAGCATTTTTAAAAATATTTACGTAAATAGG-TTTTTTAAAACTAATTACGAAAATAGGT
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGC
* * *
46441183 GTTTTTAAAAATATTTACAAAAATAGACG-TTTTTAAAATTAATTACG
66 ATTTTTAAAATTAATTACAAAAATA-A-GTTTTTTAAAATTAATTACG
* * * *
46441230 AAAATAGGCATTTTTAAAAATATTTACGTAAATAGACATTTTTAAAATTAATTAGGAAAATAGAC
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGC
* * *
46441295 GTTTTTAAAATTAATTCCGAAAATAAGTTTTTTTAAAATTAATTACG
66 ATTTTTAAAATTAATTACAAAAATAAG-TTTTTTAAAATTAATTACG
* * * ***
46441342 AAAATAGGAATTTTCAAAATTAATTAAAAAAATAGGCATTTTTAAAA
1 AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAA
46441389 ATATTTATGA
Statistics
Matches: 586, Mismatches: 105, Indels: 40
0.80 0.14 0.05
Matches are distributed among these distances:
107 33 0.06
108 25 0.04
109 25 0.04
110 78 0.13
111 255 0.44
112 170 0.29
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (111 bp):
AAAATAGGAATTTTTAAAAATATTTACGTAAATAGGCATTTTTAAAATTAATTAAGAAAATAGGC
ATTTTTAAAATTAATTACAAAAATAAGTTTTTTAAAATTAATTACG
Found at i:46441401 original size:28 final size:28
Alignment explanation
Indices: 46440566--46441388 Score: 684
Period size: 28 Copynumber: 29.7 Consensus size: 28
46440556 CTATTGACCC
*
46440566 AAAATTAGGCATTTTTAAAATTAATTAAG
1 AAAA-TAGGCATTTTTAAAATTAATTACG
* * *
46440595 AAAATAGGCGTTTTTAAATTTAATTATTG
1 AAAATAGGCATTTTTAAAATTAATTA-CG
* * * *
46440624 --TATAGGCGTCTTTAAAATTAATTATG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * * * * * *
46440650 AAAACAAGCGTTTTAAAAAATATTTACA
1 AAAATAGGCATTTTTAAAATTAATTACG
*
46440678 AAAATAGGTATTTTTAAAATTAATTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * * * * * *
46440706 AAAATTGTCGTTTTAAAAAATATTTAAG
1 AAAATAGGCATTTTTAAAATTAATTACG
** ** *
46440734 AAAATAGGTGTTTGCAAAATTAATTAAG
1 AAAATAGGCATTTTTAAAATTAATTACG
*
46440762 AAAATA---TTTTTTAAAATTAATTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
* *
46440787 AAAATAGGTA-TTTTATAAA-TATTTACG
1 AAAATAGGCATTTTTA-AAATTAATTACG
* *
46440814 TAAATAGAC-TTTTTAAAATTAATTAC-
1 AAAATAGGCATTTTTAAAATTAATTACG
* *
46440840 AAAGATAGGCATTTTTAGAAA-TATTTACA
1 AAA-ATAGGCATTTTTA-AAATTAATTACG
* * * *
46440869 AAAACAGACGTTTTTAAAATTAATTATG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * *
46440897 AAAATATGTATTTTTTAAAA-TATTTACG
1 AAAATAGGCA-TTTTTAAAATTAATTACG
* * **
46440925 TAAATAGGCGTTTTTAAAATTAATTTGG
1 AAAATAGGCATTTTTAAAATTAATTACG
* *
46440953 AAAATAGGCATTCTTAAAATTAATTACA
1 AAAATAGGCATTTTTAAAATTAATTACG
* * * *
46440981 AAAATAAG-TTTTTTTAAATTAATTACT
1 AAAATAGGCATTTTTAAAATTAATTACG
* * *
46441008 AAAATAGGAATTTTCAAAATTAATTAAG
1 AAAATAGGCATTTTTAAAATTAATTACG
*
46441036 AAAATAGGCATTTTTAAAATTAATTAAG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * * *
46441064 AAAATAGGTATTTTTAAAAATATTTACA
1 AAAATAGGCATTTTTAAAATTAATTACG
* *
46441092 AAAATAGGC-GTTTTAAAATTAATTAAG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * *
46441119 AAAATAAGCATTTTTAAAAATATTTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * *
46441147 TAAATAGG-TTTTTTAAAACTAATTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
** * * *
46441174 AAAATAGGTGTTTTTAAAAATATTTACA
1 AAAATAGGCATTTTTAAAATTAATTACG
* *
46441202 AAAATAGACGTTTTTAAAATTAATTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
* *
46441230 AAAATAGGCATTTTTAAAAATATTTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * *
46441258 TAAATAGACATTTTTAAAATTAATTAGG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * *
46441286 AAAATAGACGTTTTTAAAATTAATTCCG
1 AAAATAGGCATTTTTAAAATTAATTACG
* **
46441314 AAAATAAGTTTTTTTAAAATTAATTACG
1 AAAATAGGCATTTTTAAAATTAATTACG
* * **
46441342 AAAATAGGAATTTTCAAAATTAATTAAA
1 AAAATAGGCATTTTTAAAATTAATTACG
46441370 AAAATAGGCATTTTTAAAA
1 AAAATAGGCATTTTTAAAA
46441389 ATATTTATGA
Statistics
Matches: 628, Mismatches: 147, Indels: 39
0.77 0.18 0.05
Matches are distributed among these distances:
25 21 0.03
26 7 0.01
27 133 0.21
28 447 0.71
29 20 0.03
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (28 bp):
AAAATAGGCATTTTTAAAATTAATTACG
Found at i:46441441 original size:28 final size:28
Alignment explanation
Indices: 46441405--46441776 Score: 372
Period size: 28 Copynumber: 13.3 Consensus size: 28
46441395 ATGAAAAATA
*
46441405 TTTAAAAACACCTATTTTCGTAAATATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * * *
46441433 TTTAAAAACGTCTACTTTCGTAATTAAT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * * *
46441461 TTTAAAAATGCCTACTTTCGTAATTAAT
1 TTTAAAAACGCCTATTTTCGTAAATATT
** *
46441489 TTTAAAAA-AACTGATTTTCGTAACTATT
1 TTTAAAAACGCCT-ATTTTCGTAAATATT
*
46441517 TTTAAAAATGCCTATTTTCGTAAATTATT
1 TTTAAAAACGCCTATTTTCGTAAA-TATT
* *
46441546 TTTAAAAA-ACCTATTTTCATAAATATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
*
46441573 TTTAAAAACGCCTATTTTCGTAGATATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * * * *
46441601 TTTTAAAATGCCTATCTTCTTAATTATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * *
46441629 TTTAAACA-GCTTATTTCCGTAAATATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* *
46441656 TTTAAAAACACTTATTTTCGTAAATATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * * *
46441684 TTTTAAAACGCCTGTTTTCGTAATTAAT
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * **
46441712 TTTAAAAATGCCTATTTTCGTAACTAAC
1 TTTAAAAACGCCTATTTTCGTAAATATT
* * *
46441740 TTTAAAAAGGCCTATTTTTGTAATTATT
1 TTTAAAAACGCCTATTTTCGTAAATATT
46441768 TTTAAAAAC
1 TTTAAAAAC
46441777 ACTGCAATGT
Statistics
Matches: 286, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
27 35 0.12
28 237 0.83
29 14 0.05
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (28 bp):
TTTAAAAACGCCTATTTTCGTAAATATT
Found at i:46441508 original size:84 final size:83
Alignment explanation
Indices: 46441405--46441776 Score: 422
Period size: 84 Copynumber: 4.4 Consensus size: 83
46441395 ATGAAAAATA
* *
46441405 TTTAAAAACACCTATTTTCGTAAATATTTTTAAAAACGTCTACTTTCGTAATTAATTTTAAAAAT
1 TTTAAAAACACCTATTTTCGTAAATATTTTTAAAAACGCCTATTTTCGTAATTAATTTTAAAAA-
* *
46441470 GCCTACTTTCGTAATTAAT
65 GCCTATTTTCGTAAATAAT
* * * *
46441489 TTTAAAAA-AACTGATTTTCGTAACTATTTTTAAAAATGCCTATTTTCGTAAATTATTTTTAAAA
1 TTTAAAAACACCT-ATTTTCGTAAATATTTTTAAAAACGCCTATTTTCGT-AATTAATTTTAAAA
* * *
46441553 AACCTATTTTCATAAATATT
64 AGCCTATTTTCGTAAATAAT
* * * * * * * *
46441573 TTTAAAAACGCCTATTTTCGTAGATATTTTTTAAAATGCCTATCTTCTTAATTATTTTTAAACAG
1 TTTAAAAACACCTATTTTCGTAAATATTTTTAAAAACGCCTATTTTCGTAATTAATTTTAAAAAG
* * *
46441638 CTTATTTCCGTAAATATT
66 CCTATTTTCGTAAATAAT
* * *
46441656 TTTAAAAACACTTATTTTCGTAAATATTTTTTAAAACGCCTGTTTTCGTAATTAATTTTAAAAAT
1 TTTAAAAACACCTATTTTCGTAAATATTTTTAAAAACGCCTATTTTCGTAATTAATTTTAAAAA-
* *
46441721 GCCTATTTTCGTAACTAAC
65 GCCTATTTTCGTAAATAAT
** * *
46441740 TTTAAAAAGGCCTATTTTTGTAATTATTTTTAAAAAC
1 TTTAAAAACACCTATTTTCGTAAATATTTTTAAAAAC
46441777 ACTGCAATGT
Statistics
Matches: 241, Mismatches: 43, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
83 87 0.36
84 138 0.57
85 16 0.07
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (83 bp):
TTTAAAAACACCTATTTTCGTAAATATTTTTAAAAACGCCTATTTTCGTAATTAATTTTAAAAAG
CCTATTTTCGTAAATAAT
Found at i:46442542 original size:28 final size:28
Alignment explanation
Indices: 46442513--46443861 Score: 318
Period size: 28 Copynumber: 48.8 Consensus size: 28
46442503 AAATTACGAG
*
46442513 ACTAGGTATTTTTAAAAATATTTATGAG
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * *
46442541 ACTAGGTGTTTTTAAAATTAATAAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
*
46442569 AGTAGG-AGTTTTTAAAAATATTTATGAA
1 ACTAGGTA-TTTTTAAAAATATTTATGAA
* * *
46442597 AATAGTTA-TTTTAAAAATCTTTATGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * *
46442624 AATA-GTAGCTTTTAAAATTAATTAGGGAA
1 ACTAGGTA-TTTTTAAAAATATTTA-TGAA
* * *
46442653 A-TAGG-AGTTTTTAAAATTAATTACGAA
1 ACTAGGTA-TTTTTAAAAATATTTATGAA
* * **
46442680 AATAGGTATTTTTAAAATTATTTACAAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* ** * * * * * *
46442708 AATTTGCATTTTCAAAATTAATAAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * *
46442736 AATAGGCATTTTTAAAAATATTTA-CAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* ** * *
46442763 A-AAAATACGTTTTCAAAAATATTCT-CGAA
1 ACTAGGTA--TTTTTAAAAATATT-TATGAA
* * *
46442792 AATAGGATTTTTTTATAAATAATTTA-GAA
1 ACTAGG-TATTTTTAAAAAT-ATTTATGAA
* * * *
46442821 AATATGCATTTTT-AAAATATTTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * *
46442848 ATTAGGCATTTTTAAAACTAATTCA-GAA
1 ACTAGGTATTTTTAAAAAT-ATTTATGAA
* ** * * **
46442876 AATAGGCGTTTTTAAAATTAATTACAAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * *
46442904 AATAGGTATTTTTAAAATTAATAAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* *
46442932 AATAGGTGTTTTT-AAAATATTTAT-AA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * *
46442958 GACTAGGTGTTATTAAAATTAATTATGAA
1 -ACTAGGTATTTTTAAAAATATTTATGAA
* ** *
46442987 AATAGGCGTTTTTAAAAATATTTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* *
46443015 AATAGTTA-TTTTAAAAATATTTATGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * *
46443042 AATA-GTAGCTTTTAAAATTAATTAGGGAA
1 ACTAGGTA-TTTTTAAAAATATTTA-TGAA
* * *
46443071 A-TAGG-AGTTTTTAAAATTAATTACGAA
1 ACTAGGTA-TTTTTAAAAATATTTATGAA
* ** * * **
46443098 AATAGACATTTTTAAAATTATATACAAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* ** * * * * * * *
46443126 AATTTGCATTTTCAGAATTAATAAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* ** *
46443154 ATTAGGCGTTTTTAAAAATATTTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * *
46443182 AATAGGTGTTTTTAAACATATTCT-CGAA
1 ACTAGGTATTTTTAAAAATATT-TATGAA
* *
46443210 AATAGGTATTTTTATAAATAATTTA-GAA
1 ACTAGGTATTTTTAAAAAT-ATTTATGAA
* * * * *
46443238 AATATGCATTTTT-AAAACATTTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
** * *
46443265 ACTAGGCGTTTTTAAAACTAATTCA-GAA
1 ACTAGGTATTTTTAAAAAT-ATTTATGAA
* ** * **
46443293 AATAGG-CGTTTTAAAAATTAATTACAAA
1 ACTAGGTATTTTTAAAAA-TATTTATGAA
* * * *
46443321 AATAGGTGTTTTTAAAATTAATTATGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* ** *
46443349 AATACACT-TTTTTAAAAATATTTACGAA
1 ACTA-GGTATTTTTAAAAATATTTATGAA
* * *
46443377 AATATGT-GTTTTAAAAATATTTATG--
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * *
46443402 -C----T-TGTTTAAAAATAATTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * *
46443424 AATAGG-CTTTTTAAAATTAATTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * * *
46443451 ATTAGGCATTTTTGAAATTAATTAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* *
46443479 AATAGG-AGTTTTTAAAAATAATTATGAA
1 ACTAGGTA-TTTTTAAAAATATTTATGAA
* **
46443507 AATAATTATTTTTAAAAATATTTACT-AA
1 ACTAGGTATTTTTAAAAATATTTA-TGAA
* **
46443535 ACTAGGTATTTTTAAAAATAATTACAAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * ** **
46443563 AATAGGCT-TTTTTAAAATTAACTACAAA
1 ACTAGG-TATTTTTAAAAATATTTATGAA
* *
46443591 AATAGGGATTTTTAAAAATATTTAAAT-AA
1 ACTAGGTATTTTTAAAAATATTT--ATGAA
* * * * *
46443620 A-TAAGTGTTTTTAAAACTAATTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * * *
46443647 AATAAGAATTTTTAAAATTAATTACGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * **
46443675 AATAAGTGTTTATAAAAATATTTACAAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * * *
46443703 AATAGGCATTTTTCAATATATTTAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * *
46443731 AATAAGT-GTTTTAAAAATATTTAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * *
46443758 AATAGGCT-TTTTT-AAATTAATTACGAA
1 ACTAGG-TATTTTTAAAAATATTTATGAA
* * * *
46443785 AATAGG-ATTTTT-AAATTAGTTAAGAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * * *
46443811 AGTAAGCATTTTTAAAAATATTTATAAA
1 ACTAGGTATTTTTAAAAATATTTATGAA
* * *
46443839 AATAGGTGTTTTTAAAAAAATTT
1 ACTAGGTATTTTTAAAAATATTT
46443862 CGTAAAAATA
Statistics
Matches: 1025, Mismatches: 234, Indels: 124
0.74 0.17 0.09
Matches are distributed among these distances:
20 15 0.01
26 40 0.04
27 210 0.20
28 690 0.67
29 64 0.06
30 5 0.00
31 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (28 bp):
ACTAGGTATTTTTAAAAATATTTATGAA
Found at i:46442614 original size:56 final size:56
Alignment explanation
Indices: 46442515--46444261 Score: 337
Period size: 56 Copynumber: 31.3 Consensus size: 56
46442505 ATTACGAGAC
* * * * * *
46442515 TAGGTATTTTTAAAAATATTTATGAGACTAGGTGTTTTTAAAATTAATAAAGAAAG
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
* * *
46442571 TAGG-AGTTTTTAAAAATATTTATGAAAATAGTTATTTTAAAAATCT--TTATGAAAA
1 TAGGCA-TTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAAT-TAATAAAGAAAA
* * * * * * *
46442626 TAGTAGC--TTTTAAAATTAATTAGGGAAATAG-GAGTTTTTAAAATTAATTACGAAAA
1 TAG--GCATTTTTAAAAATATTTATGAAAATAGTTA-TTTTTAAAATTAATAAAGAAAA
* * * * *
46442682 TAGGTATTTTTAAAATTATTTA-CAAAA-ATTTGCATTTTCAAAATTAATAAAGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTT--ATTTTTAAAATTAATAAAGAAAA
* ** * * * ***
46442738 TAGGCATTTTTAAAAATATTTA-CAAAA-AAATACGTTTTCAAAAATATTCTCGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTA--TTTTTAAAATTAATAAAGAAAA
* * * * * *
46442794 TAGG-ATTTTTTTATAAATAATTTA-GAAAATA-TGCATTTTTAAAA-TATTTACGAAAT
1 TAGGCA--TTTTTAAAAAT-ATTTATGAAAATAGT-TATTTTTAAAATTAATAAAGAAAA
* * *** *
46442850 TAGGCATTTTTAAAACTAATTCA-GAAAATAGGCGTTTTTAAAATTAATTACA-AAAA
1 TAGGCATTTTTAAAAAT-ATTTATGAAAATAGTTATTTTTAAAATTAA-TAAAGAAAA
* * * * * * * * *
46442906 TAGGTATTTTTAAAATTAATAAAGAAAATAGGTGTTTTTAAAA-TATTTATAAG--AC
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTA-ATA-AAGAAAA
** * * * *** * * * *
46442961 TAGGTGTTATTAAAATTAATTATGAAAATAGGCGTTTTTAAAAATATTTACGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
** * * * *
46443017 TAGTTA-TTTTAAAAATATTTATGAAAATAG-TAGCTTTTAAAATTAATTAGGGAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTA-TTTTTAAAATTAATAAAGAAAA
* * * ** *
46443072 TAGG-AGTTTTTAAAATTAATTACGAAAATAGACATTTTTAAAATTATATACA-AAAA
1 TAGGCA-TTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTA-ATAAAGAAAA
** * * * * * * * *** * * * *
46443128 TTTGCATTTTCAGAATTAATAAAGAAATTAGGCGTTTTTAAAAATATTTACGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
** * * * **
46443184 TAGGTGTTTTTAAACATATTCT-CGAAAATAGGTATTTTTATAAA-TAATTTAGAAAA
1 TAGGCATTTTTAAAAATATT-TATGAAAATAGTTATTTTTA-AAATTAATAAAGAAAA
* * * * *** * **
46443240 TATGCATTTTT-AAAACATTTACGAAACTAGGCGTTTTTAAAACTAATTCAGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
* * ** * * * *
46443295 TAGGC-GTTTTAAAAATTAATTACAAAAATAGGTGTTTTTAAAATTAATTATGAAAA
1 TAGGCATTTTTAAAAA-TATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
** * * * **
46443351 TACACTTTTTTAAAAATATTTACGAAAATA-TGT-GTTTT-AAA--AAT-----ATT
1 TAGGCATTTTTAAAAATATTTATGAAAATAGT-TATTTTTAAAATTAATAAAGAAAA
* * * ** * * *
46443398 TATGC-TTGTTTAAAAATAATTACGAAAATAG-GCTTTTTAAAATTAATTACGAAAT
1 TAGGCATT-TTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
* * * * * * * *
46443453 TAGGCATTTTTGAAATTAATTAAGAAAATAG-GAGTTTTTAAAAATAATTATGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTA-TTTTTAAAATTAATAAAGAAAA
*** * * * *
46443509 TAATTATTTTTAAAAATATTTACT-AAACTAGGTATTTTTAAAAATAATTACA-AAAA
1 TAGGCATTTTTAAAAATATTTA-TGAAAATAGTTATTTTTAAAATTAA-TAAAGAAAA
* * ** ** ** * * *
46443565 TAGGCTTTTTTAAAATTAACTACAAAAATAGGGATTTTTAAAAATATTTAAA-TAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTA-ATAAAGAAAA
* ** * * * * * *
46443621 TAAGTGTTTTTAAAACTAATTACGAAAATAAG-AATTTTTAAAATTAATTACGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAAT-AGTTATTTTTAAAATTAATAAAGAAAA
* ** * ** ** * * *
46443677 TAAGTGTTTATAAAAATATTTACAAAAATAGGCATTTTT-CAATATATTTAAGAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAAT-TAATAAAGAAAA
* * * * *
46443733 TAAG--TGTTTTAAAAATATTTAAGAAAATAGGCT-TTTTT-AAATTAATTACGAAAA
1 TAGGCAT-TTTTAAAAATATTTATGAAAATA-GTTATTTTTAAAATTAATAAAGAAAA
* * * * * * * *
46443787 TAGG-ATTTTT-AAATTAGTTAAGAAAGTAAG-CATTTTTAAAAATATTTATA-AAAA
1 TAGGCATTTTTAAAAATATTTATGAAAAT-AGTTATTTTTAAAATTA-ATAAAGAAAA
** * * * * * * *
46443841 TAGGTGTTTTTAAAAAAATTTCGTAAAAATATTTATGAAAATAGTAGCTTTTAAAATTAATTAGG
1 TAGGCATTTTTAAAAATATTT-ATGAAAATA-GT-T----AT--T---TTTAAAA-TTAATAAAG
*
46443906 GAAA
53 AAAA
* * * ** * *
46443910 TAGG-AGTTTTTAAAATTAATTACGAAAATAG-GCTTTTTAAAATTATTTACA-AAAA
1 TAGGCA-TTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTA-ATAAAGAAAA
* * * * * ** * * * *
46443965 TTGG-AGTTTTCAAAATTAATTAAGAAAATAGGCATTTTTAAAAATATTTACGAAAA
1 TAGGCA-TTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
** * * * * **
46444021 -AGGTGTTTTTAGAAATA--TACTCAAAAATAGGTGTTTTTATAAA-TAATTCAGAAAA
1 TAGGCATTTTTAAAAATATTTA-T-GAAAATAGTTATTTTTA-AAATTAATAAAGAAAA
* * * *
46444076 T-GTGC-TTTTTTAAAATATTTACGAAATTAGGTATTTTTAAAATTAATAAAGAAAA
1 TAG-GCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
* * * * * **
46444131 TAGACATTTTTAAAAATATTTACGAAAATAGGTATTTTTAAAAATAATTACTAAAA
1 TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
* * *** * *
46444187 TAGG-AGATTTTAAAAATATTTACGAAAATAGGCGTTTTTAAAATTAACAACGAAAA
1 TAGGCA-TTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
*
46444243 TAGGAATTTTTAAAAATAT
1 TAGGCATTTTTAAAAATAT
46444262 CTAAATAAAT
Statistics
Matches: 1278, Mismatches: 304, Indels: 218
0.71 0.17 0.12
Matches are distributed among these distances:
46 2 0.00
47 29 0.02
48 3 0.00
50 3 0.00
52 3 0.00
53 22 0.02
54 54 0.04
55 385 0.30
56 677 0.53
57 50 0.04
58 9 0.01
59 3 0.00
61 1 0.00
63 2 0.00
65 1 0.00
68 13 0.01
69 21 0.02
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (56 bp):
TAGGCATTTTTAAAAATATTTATGAAAATAGTTATTTTTAAAATTAATAAAGAAAA
Found at i:46442620 original size:83 final size:82
Alignment explanation
Indices: 46442506--46444261 Score: 750
Period size: 84 Copynumber: 21.0 Consensus size: 82
46442496 AATTATTAAA
* * * *
46442506 TTACGAGACTAGGTATTTTTAAAAATATTTATGAGACTAGGTGTTTTTAAAATTAATAAAGAAAG
1 TTACGAAAATAGGTA-TTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAGAAA-
46442571 TAGGAGTTTTTAAAAATAT
64 TAGGAGTTTTTAAAAATAT
* * * * **
46442590 TTATGAAAATAGTTATTTTAAAAATCTTTATGAAAATA-GTAGCTTTTAAAATTAATTAGGGAAA
1 TTACGAAAATAGGTATTTTAAAAATATTTATGAAAATAGGT-GTTTTTAAAATTAA-TAAAGAAA
* *
46442654 TAGGAGTTTTTAAAATTAA
64 TAGGAGTTTTTAAAAATAT
* ** ** ** *
46442673 TTACGAAAATAGGTATTTTTAAAATTATTTACAAAAATTTGCATTTTCAAAATTAATAAAGAAAA
1 TTACGAAAATAGGTA-TTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAG-AAA
46442738 TAGGCA-TTTTTAAAAATAT
64 TAGG-AGTTTTTAAAAATAT
* * * * * **
46442757 TTACAAAAAAATACGT-TTTCAAAAATATTCT-CGAAAATAGGATTTTTTTATAAA-TAATTTAG
1 TTAC--GAAAATAGGTATTTTAAAAATATT-TATGAAAATAGG-TGTTTTTA-AAATTAATAAAG
*
46442819 AAAATATGCA-TTTTT-AAAATAT
61 -AAATA-GGAGTTTTTAAAAATAT
* * * * *
46442841 TTACGAAATTAGGCATTTTTAAAACTAATTCA-GAAAATAGGCGTTTTTAAAATTAATTACAA-A
1 TTACGAAAATAGGTA-TTTTAAAAAT-ATTTATGAAAATAGGTGTTTTTAAAATTAA-TA-AAGA
* *
46442904 AATAGGTA-TTTTTAAAATTAA
62 AATAGG-AGTTTTTAAAAATAT
* * * * * * * *
46442925 TAAAGAAAATAGGTGTTTTTAAAATATTTAT-AAGACTAGGTGTTATTAAAATTAATTATGAAAA
1 TTACGAAAATAGGTATTTTAAAAATATTTATGAA-AATAGGTGTTTTTAAAATTAATAAAG-AAA
*
46442989 TAGGCGTTTTTAAAAATAT
64 TAGGAGTTTTTAAAAATAT
* * **
46443008 TTACGAAAATAGTTATTTTAAAAATATTTATGAAAATA-GTAGCTTTTAAAATTAATTAGGGAAA
1 TTACGAAAATAGGTATTTTAAAAATATTTATGAAAATAGGT-GTTTTTAAAATTAA-TAAAGAAA
* *
46443072 TAGGAGTTTTTAAAATTAA
64 TAGGAGTTTTTAAAAATAT
** * * ** ** ** * *
46443091 TTACGAAAATAGACATTTTTAAAATTATATACAAAAATTTGCATTTTCAGAATTAATAAAGAAAT
1 TTACGAAAATAGGTA-TTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAGAAA-
*
46443156 TAGGCGTTTTTAAAAATAT
64 TAGGAGTTTTTAAAAATAT
* * * * **
46443175 TTACGAAAATAGGTGTTTTTAAACATATTCT-CGAAAATAGGTATTTTTATAAA-TAATTTAGAA
1 TTACGAAAATAGGT-ATTTTAAAAATATT-TATGAAAATAGGTGTTTTTA-AAATTAATAAAG-A
* *
46443238 AATATGCA-TTTTT-AAAACAT
62 AATA-GGAGTTTTTAAAAATAT
* * * * *
46443258 TTACGAAACTAGGCGT-TTTTAAAACTAATTCA-GAAAATAGGCGTTTTAAAAATTAATTACAA-
1 TTACGAAAATA-G-GTATTTTAAAAAT-ATTTATGAAAATAGGTGTTTTTAAAATTAA-TA-AAG
* * *
46443320 AAATAGGTGTTTTTAAAATTAA
61 AAATAGGAGTTTTTAAAAATAT
* ** * * * **
46443342 TTATGAAAATACACTTTTTTAAAAATATTTACGAAAATATGTG-TTTT-AAA--AAT----ATTT
1 TTACGAAAATA-GGTATTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAGAAAT
* * *
46443399 ATG-CTTGTTTAAAAATAA
65 AGGAGTT-TTTAAAAATAT
* * * * ** * *
46443417 TTACGAAAATAGGCT-TTTTAAAATTAATTACGAAATTAGGCATTTTTGAAATTAATTAAGAAAA
1 TTACGAAAATAGG-TATTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAG-AAA
*
46443481 TAGGAGTTTTTAAAAATAA
64 TAGGAGTTTTTAAAAATAT
* ** * * *
46443500 TTATGAAAATAATTATTTTTAAAAATATTTACT-AAACTAGGTATTTTTAAAAATAATTACAA-A
1 TTACGAAAATAGGTA-TTTTAAAAATATTTA-TGAAAATAGGTGTTTTTAAAATTAA-TA-AAGA
** * *
46443563 AATAGGCTTTTTTAAAATTAA
62 AATAGGAGTTTTTAAAAATAT
* * * * * * * *
46443584 CTACAAAAATAGGGATTTTTAAAAATATTTA-AATAAATAAGTGTTTTTAAAACTAATTACGAAA
1 TTACGAAAATAGGTA-TTTTAAAAATATTTATGA-AAATAGGTGTTTTTAAAATTAATAAAG-AA
* * * *
46443648 ATAAGAATTTTTAAAATTAA
63 ATAGGAGTTTTTAAAAATAT
* * ** ** * * *
46443668 TTACGAAAATAAGTGTTTATAAAAATATTTACAAAAATAGGCATTTTT-CAATATATTTAAGAAA
1 TTACGAAAATAGGTATTT-TAAAAATATTTATGAAAATAGGTGTTTTTAAAAT-TAATAAAG-AA
46443732 ATA--AGTGTTTTAAAAATAT
63 ATAGGAGT-TTTTAAAAATAT
* * * * * * * *
46443751 TTAAGAAAATAGGCT-TTTTTAAATTAATTACGAAAATAGG-ATTTTT-AAATTAGTTAAGAAAG
1 TTACGAAAATAGG-TATTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAGAAA-
*
46443813 TAAGCA-TTTTTAAAAATAT
64 T-AGGAGTTTTTAAAAATAT
** * * * * **
46443832 TTATAAAAATAGGTGTTTTTAAAAAAATTTCGTAAAAATA--T-TTATGAAAATAGTAGCTTTTA
1 TTACGAAAATAGGT-ATTTTAAAAATATTT-ATGAAAATAGGTGTT-T-TTAA-A--A----TT-
* *
46443894 AAATTAATTAGGGAAATAGGAGTTTTTAAAATTAA
54 -AA-TAA--A--GAAATAGGAGTTTTTAAAAATAT
* ** * * * *
46443929 TTACGAAAATAGGCT-TTTTAAAATTATTTACAAAAATTGGAGTTTTCAAAATTAATTAAGAAAA
1 TTACGAAAATAGG-TATTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAG-AAA
46443993 TAGGCA-TTTTTAAAAATAT
64 TAGG-AGTTTTTAAAAATAT
* * * **
46444012 TTACGAAAA-AGGTGTTTTTAGAAATA--TACTCAAAAATAGGTGTTTTTATAAA-TAATTCAGA
1 TTACGAAAATAGGT-ATTTTAAAAATATTTA-T-GAAAATAGGTGTTTTTA-AAATTAATAAAGA
* * *
46444073 AA-ATGTGCTTTTTTAAAATAT
62 AATAGGAG-TTTTTAAAAATAT
* * * * * *** * * * *
46444094 TTACGAAATTAGGTATTTTTAAAATTAATAAAGAAAATAGACATTTTTAAAAATATTTACGAAAA
1 TTACGAAAATAGGTA-TTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAG-AAA
*
46444159 TAGGTA-TTTTTAAAAATAA
64 TAGG-AGTTTTTAAAAATAT
* * * * * *
46444178 TTACTAAAATAGGAGATTTTAAAAATATTTACGAAAATAGGCGTTTTTAAAATTAACAACGAAAA
1 TTACGAAAATAGG-TATTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAG-AAA
*
46444243 TAGGAATTTTTAAAAATAT
64 TAGGAGTTTTTAAAAATAT
46444262 CTAAATAAAT
Statistics
Matches: 1267, Mismatches: 282, Indels: 246
0.71 0.16 0.14
Matches are distributed among these distances:
74 23 0.02
75 29 0.02
76 3 0.00
78 3 0.00
79 4 0.00
80 11 0.01
81 41 0.03
82 92 0.07
83 420 0.33
84 509 0.40
85 49 0.04
86 16 0.01
87 3 0.00
89 2 0.00
91 2 0.00
93 2 0.00
94 2 0.00
95 7 0.01
96 18 0.01
97 24 0.02
98 7 0.01
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (82 bp):
TTACGAAAATAGGTATTTTAAAAATATTTATGAAAATAGGTGTTTTTAAAATTAATAAAGAAATA
GGAGTTTTTAAAAATAT
Found at i:46443549 original size:186 final size:186
Alignment explanation
Indices: 46443220--46443566 Score: 416
Period size: 186 Copynumber: 1.9 Consensus size: 186
46443210 AATAGGTATT
* * * *
46443220 TTTATAAATAATTTAGAAAATATGCATTTTTAAAACATTTACGAAACTAGGCGTTTTTAAAACTA
1 TTTAAAAATAATTTAGAAAATAGGCATTTTTAAAACAATTACGAAACTAGGCATTTTTAAAACTA
* * * * *
46443285 ATTCAGAAAATAGGCGTTTTAAAAATTAATTACAAAAATAGGTGTTTTTAAAATTAATTATGAAA
66 ATTAAGAAAATAGGAGTTTTAAAAATTAATTACAAAAATAAGTATTTTTAAAAATAATTATGAAA
* *
46443350 ATACACTTTTTTAAAAATATTTACGAAAATATGTGTTTTAAAAATATTTATGCTTG
131 ATACACTTTTTTAAAAATAATTACAAAAATATGTGTTTTAAAAATATTTATGCTTG
* * * *
46443406 TTTAAAAATAA-TTACGAAAATAGGC-TTTTTAAAATTAATTACGAAATTAGGCATTTTTGAAAT
1 TTTAAAAATAATTTA-GAAAATAGGCATTTTTAAAA-CAATTACGAAACTAGGCATTTTTAAAAC
** * *
46443469 TAATTAAGAAAATAGGAGTTTTTAAAAA-TAATTATGAAAATAATTATTTTTAAAAATATTTACT
64 TAATTAAGAAAATAGGAG-TTTTAAAAATTAATTACAAAAATAAGTATTTTTAAAAATAATTA-T
* **
46443533 -AAACTA-GGTATTTTTAAAAATAATTACAAAAATA
127 GAAAATACACT-TTTTTAAAAATAATTACAAAAATA
46443567 GGCTTTTTTA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
185 13 0.10
186 111 0.83
187 10 0.07
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (186 bp):
TTTAAAAATAATTTAGAAAATAGGCATTTTTAAAACAATTACGAAACTAGGCATTTTTAAAACTA
ATTAAGAAAATAGGAGTTTTAAAAATTAATTACAAAAATAAGTATTTTTAAAAATAATTATGAAA
ATACACTTTTTTAAAAATAATTACAAAAATATGTGTTTTAAAAATATTTATGCTTG
Found at i:46443948 original size:55 final size:55
Alignment explanation
Indices: 46443889--46444257 Score: 297
Period size: 55 Copynumber: 6.7 Consensus size: 55
46443879 AAATAGTAGC
* *
46443889 TTTTAAAATTAATTAGGGAAATAGGAGTTTTTAAAATTAATTACGAAAATAGG-CT
1 TTTTAAAATTAATTACGAAAATAGGAGTTTTTAAAA-TAATTACGAAAATAGGTCT
* * * * *
46443944 TTTTAAAATTATTTACAAAAATTGGAGTTTTCAAAATTAATTAAGAAAATAGG-CAT
1 TTTTAAAATTAATTACGAAAATAGGAGTTTTTAAAA-TAATTACGAAAATAGGTC-T
* * * * * *
46444000 TTTTAAAAATATTTACGAAAA-AGGTGTTTTTAGAAATATACT-CAAAAATAGGTGT
1 TTTTAAAATTAATTACGAAAATAGGAGTTTTTA-AAATA-ATTACGAAAATAGGTCT
** * * *
46444055 TTTTATAAA-TAATT-CAGAAAAT-GTGCTTTTTTAAAATATTTACGAAATTAGGTAT
1 TTTTA-AAATTAATTAC-GAAAATAG-GAGTTTTTAAAATAATTACGAAAATAGGTCT
* * * * *
46444110 TTTTAAAATTAATAAAGAAAATA-GACATTTTTAAAAATATTTACGAAAATAGGTAT
1 TTTTAAAATTAATTACGAAAATAGGA-GTTTTT-AAAATAATTACGAAAATAGGTCT
* * * *
46444166 TTTTAAAAATAATTACTAAAATAGGAGATTTTAAAAATATTTACGAAAATAGG-CGT
1 TTTTAAAATTAATTACGAAAATAGGAG-TTTTTAAAATAATTACGAAAATAGGTC-T
** *
46444222 TTTTAAAATTAACAACGAAAATAGGAATTTTTAAAA
1 TTTTAAAATTAATTACGAAAATAGGAGTTTTTAAAA
46444258 ATATCTAAAT
Statistics
Matches: 255, Mismatches: 42, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
54 6 0.02
55 124 0.49
56 119 0.47
57 6 0.02
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (55 bp):
TTTTAAAATTAATTACGAAAATAGGAGTTTTTAAAATAATTACGAAAATAGGTCT
Found at i:46444218 original size:28 final size:28
Alignment explanation
Indices: 46443864--46444261 Score: 294
Period size: 28 Copynumber: 14.3 Consensus size: 28
46443854 AAAAATTTCG
* * *
46443864 TAAAAATATTTATGAAAATAGTAGCTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
* * * *
46443892 TAAAATTAATTAGGGAAATAGGAGTTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
* * *
46443920 TAAAATTAATTACGAAAATAGG-CTTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
* * *
46443947 TAAAATTATTTACAAAAATTGGAGTTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
* * * *
46443975 CAAAATTAATTAAGAAAATAGGCA-TTTT
1 TAAAAATATTTACGAAAATAGG-AGTTTT
*
46444003 TAAAAATATTTACGAAAA-AGGTGTTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
* * * *
46444030 TAGAAATATACT-CAAAAATAGGTGTTTT
1 TAAAAATAT-TTACGAAAATAGGAGTTTT
* * *
46444058 TATAAATAATT-CAGAAAAT-GTG-CTTTT
1 TAAAAATATTTAC-GAAAATAG-GAGTTTT
* *
46444085 TTAAAATATTTACGAAATTAGGTA-TTTT
1 TAAAAATATTTACGAAAATAGG-AGTTTT
* * * * *
46444113 TAAAATTAATAAAGAAAATA-GACATTTT
1 TAAAAATATTTACGAAAATAGGA-GTTTT
46444141 TAAAAATATTTACGAAAATAGGTA-TTTT
1 TAAAAATATTTACGAAAATAGG-AGTTTT
* * *
46444169 TAAAAATAATTACTAAAATAGGAGATTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
*
46444197 TAAAAATATTTACGAAAATAGGCGTTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
* *** *
46444225 TAAAATTAACAACGAAAATAGGAATTTT
1 TAAAAATATTTACGAAAATAGGAGTTTT
46444253 TAAAAATAT
1 TAAAAATAT
46444262 CTAAATAAAT
Statistics
Matches: 294, Mismatches: 60, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.00
27 66 0.22
28 224 0.76
29 2 0.01
30 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (28 bp):
TAAAAATATTTACGAAAATAGGAGTTTT
Found at i:46444935 original size:156 final size:156
Alignment explanation
Indices: 46444649--46444936 Score: 477
Period size: 156 Copynumber: 1.8 Consensus size: 156
46444639 ACAACAGCCC
* *
46444649 CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGTT
1 CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATCGCCTAATATTTGCT
* * *
46444714 ACTACAATTAAAACGAAACATTTTTTTGATAACTACCTTCCCATGTGCTGCTTCTCGTTCTTTGA
66 ACTACAATTAAAACGAAACATTTTTGTGATAACTACCTTCCCATGTGCTACTTCTCGTTCATTGA
46444779 CAGTACTGTTAATGCGTTGAAGAACT
131 CAGTACTGTTAATGCGTTGAAGAACT
* * *
46444805 CTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTGCT
1 CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATCGCCTAATATTTGCT
* * *
46444870 ACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCTACTTCTCTTTCATTGA
66 ACTACAATTAAAACGAAACATTTTTGTGATAACTACCTTCCCATGTGCTACTTCTCGTTCATTGA
46444935 CA
131 CA
46444937 ATGTTGCCAA
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
156 121 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (156 bp):
CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATCGCCTAATATTTGCT
ACTACAATTAAAACGAAACATTTTTGTGATAACTACCTTCCCATGTGCTACTTCTCGTTCATTGA
CAGTACTGTTAATGCGTTGAAGAACT
Found at i:46445402 original size:290 final size:286
Alignment explanation
Indices: 46444805--46445537 Score: 947
Period size: 291 Copynumber: 2.5 Consensus size: 286
46444795 TTGAAGAACT
* * * *
46444805 CTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTGCT
1 CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAATGATTGCCTAATATTTGCT
* * *
46444870 ACTACAATTAAAACGAAACATTTTTGTG-TTAACTACCTTCCCTTGTGCTACTTCTCTTTCATTG
66 ACTACAATTAAAAAGAAACATTTTTGTGTTTAACTACCTTCCCTTGTGCTGCTACTCTTTCATTG
* * *
46444934 ACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTTCCATCTGCTATTGCATTTTTCTGCTT
131 ACAATGTTGCCAATGTCTTGAAGAACCATTCACCTCCTTCCATCTGCTATTGCATTTTTCTACTT
* * *
46444999 CACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTTCTTTCTTTACGCTCCTTT
196 CACTTCTCCTATAAACAAAGAAAGTATAAAAACGATTTGTCAACTTGCTTCCTTTACGCTCCTTT
46445064 CACAGCTTGTGCAACCACAACAGCCC
261 CACAGCTTGTGCAACCACAACAGCCC
* * * * * *
46445090 CTTCAGTGATTGGTTTCTACAAGCACAAAACACAAAGTGCAATCAATGATTGCCTAATATCTGCG
1 CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAATGATTGCCTAATATTTGCT
* * * * *
46445155 ACCATAATGAAAAAGAAAAATTTTTGTGTTTACTGCAACTACCTTCTCTTGTGCTGCTACTCTTT
66 ACTACAATTAAAAAGAAACATTTTTGTG-TT--T--AACTACCTTCCCTTGTGCTGCTACTCTTT
* * ** *** *
46445220 CATTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTTCCTTCCATCTGCTGTTGCATTTTTC
126 CATTGACAATGTTGCCAATGTCTTGAAGAACCATTCACCTCCTTCCATCTGCTATTGCATTTTTC
* *
46445285 TACTTCACTTGTCCTGA-AAA-AAAGAAAGTATAAAAACGGTTTGTCAACTTGCTTCCTTTGA-G
191 TACTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAACGATTTGTCAACTTGCTTCCTTT-ACG
*
46445347 CTCCTTTCATAGCTTGTGCAACCACAACAGCCC
254 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
46445380 CTTCAGTGATTGGTTTCTACAAGAAAAAAAAAACACAAAGAGCAATTACA-GATTGCCTAATATT
1 CTTCAGTGATTGGTTTCTACAAG---AAAAAAACACAAAGAGCAATTA-ATGATTGCCTAATATT
* * * * * * *
46445444 TGTTACTACAATTAAAATGAAACATTTTTTTG-TTAACTACCTTCCCATGTGTTGCTGCTCGTTC
62 TGCTACTACAATTAAAAAGAAACATTTTTGTGTTTAACTACCTTCCCTTGTGCTGCTACTCTTTC
46445508 ATTGACAATGTTGCCAATGTCTTGAAGAAC
127 ATTGACAATGTTGCCAATGTCTTGAAGAAC
46445538 TCTTCAGTGA
Statistics
Matches: 380, Mismatches: 56, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
285 78 0.21
287 53 0.14
289 2 0.01
290 91 0.24
291 99 0.26
292 1 0.00
293 55 0.14
294 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (286 bp):
CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAATGATTGCCTAATATTTGCT
ACTACAATTAAAAAGAAACATTTTTGTGTTTAACTACCTTCCCTTGTGCTGCTACTCTTTCATTG
ACAATGTTGCCAATGTCTTGAAGAACCATTCACCTCCTTCCATCTGCTATTGCATTTTTCTACTT
CACTTCTCCTATAAACAAAGAAAGTATAAAAACGATTTGTCAACTTGCTTCCTTTACGCTCCTTT
CACAGCTTGTGCAACCACAACAGCCC
Found at i:46445667 original size:156 final size:157
Alignment explanation
Indices: 46445378--46445699 Score: 484
Period size: 156 Copynumber: 2.0 Consensus size: 157
46445368 CCACAACAGC
*
46445378 CCCTTCAGTGATTGGTTTCTACAAGAAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATAT
1 CCCTTCAGTGATTGGTTTCTACAAG--AAAAAAAACACAAAGAGCAATTACAGATCGCCTAATAT
* * * * *
46445443 TTGTTACTACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTC
64 TTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCATGTGCTACTGCTCGTTC
*
46445508 ATTGACAATGTTGCCAATGTCTTGAAGAA
129 ATTGACAATGTTGCCAATGTCTTGAACAA
* * * **
46445537 CTCTTCAGTGATTGGTTTGTACATG-AAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTT
1 CCCTTCAGTGATTGGTTTCTACAAGAAAAAAAACACAAAGAGCAATTACAGATCGCCTAATATTT
* * *
46445601 GCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCTACTTCTCTTTCAT
66 GCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCATGTGCTACTGCTCGTTCAT
46445666 TGACAATGTTGCCAATGTCTTGAACAA
131 TGACAATGTTGCCAATGTCTTGAACAA
46445693 CCCTTCA
1 CCCTTCA
46445700 CCTCCTTCCA
Statistics
Matches: 147, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
156 125 0.85
159 22 0.15
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (157 bp):
CCCTTCAGTGATTGGTTTCTACAAGAAAAAAAACACAAAGAGCAATTACAGATCGCCTAATATTT
GCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCATGTGCTACTGCTCGTTCAT
TGACAATGTTGCCAATGTCTTGAACAA
Found at i:46446401 original size:156 final size:157
Alignment explanation
Indices: 46446112--46446433 Score: 502
Period size: 156 Copynumber: 2.0 Consensus size: 157
46446102 CCACAACAGC
*
46446112 CCCTTCAGTGATTGGTTTCTACAAGAAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATAT
1 CCCTTCAGTGATTGGTTTCTACAAG--AAAAAAAACACAAAGAGCAATTACAGATCGCCTAATAT
* * * *
46446177 TTGTTACTACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTC
64 TTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCATGTGCTGCTGCTCGTTC
46446242 ATTGACAATGTTGCCAATGTCTTGAAGAA
129 ATTGACAATGTTGCCAATGTCTTGAAGAA
* * * **
46446271 CTCTTCAGTGATTGGTTTGTACATG-AAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTT
1 CCCTTCAGTGATTGGTTTCTACAAGAAAAAAAACACAAAGAGCAATTACAGATCGCCTAATATTT
* *
46446335 GCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCTGCTGCTCTTTCAT
66 GCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCATGTGCTGCTGCTCGTTCAT
*
46446400 TGACAATGTTGCCAATGTCTTGAATAA
131 TGACAATGTTGCCAATGTCTTGAAGAA
46446427 CCCTTCA
1 CCCTTCA
46446434 CTTCCTTCCA
Statistics
Matches: 149, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
156 127 0.85
159 22 0.15
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (157 bp):
CCCTTCAGTGATTGGTTTCTACAAGAAAAAAAACACAAAGAGCAATTACAGATCGCCTAATATTT
GCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCATGTGCTGCTGCTCGTTCAT
TGACAATGTTGCCAATGTCTTGAAGAA
Found at i:46446791 original size:291 final size:291
Alignment explanation
Indices: 46446273--46450445 Score: 5495
Period size: 291 Copynumber: 14.4 Consensus size: 291
46446263 TTGAAGAACT
* * * * * *
46446273 CTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * *
46446338 ACTACAATTAAAACGAAACATTTTTGTG--T--T--AACTACCTTCCCTTGTGCTGCTGCTCTTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * * **
46446397 CATTGACAATGTTGCCAATGTCTTGAATAACCCTTCACTTCCTTCCATCTGCTATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * *
46446462 TGCTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTTCTTCCTTT-AGG
196 TGCTTCACTTCTCCTGA-AAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-G
*
46446525 CTCCTTTCACAGCTTGTGCAATCACAACAGCCC
259 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * *
46446558 CTTCAGTGATTGGTTTCTACAAGCACAAAACACAAAGTGCAATTAAG-GATTGCCTAATATCTGC
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATT-AGTGATTGCCTAATATTTGC
* * * * * *
46446622 GACCATAATGAAAAAGAAACATTTTTGTGCTTACTACAACTACCTTCTCTTGTGCTGCTGCTCTT
65 TACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGT
* * * *
46446687 TCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTTCCTTCCATCTGCTGTTGCATTTTT
130 TCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTT
*
46446752 CTGCTTCACTTGTCCT-AAAAAATAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAG
195 CTGCTTCACTTCTCCTGAAAAAA-AAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAG
46446816 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
259 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * * * *
46446849 CTTCAGTGATTGGTTTCTACAGGAAAAAAACACAAAGAGCAATTAGAGATTTCCTAATATTTGTT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * *
46446914 ACTACATTTAAAACGAAACATTTTT-TG--T--TA-AA-TACCTTCCCTTGTGCTGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * *
46446972 CATTGACAATA-TTGCCAATGCCTTGAAGAACTCTTCGGTTCCTTCCATTTGCAATTGCATTTTT
131 CATTGACAA-AGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTT
* *
46447036 CTGCTTCACATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCATTTGAG
195 CTGCTTCACTTCTCCTGAAAAA-AAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAG
*
46447101 CTTCTTTCACAGCTTGTGCAACCACAACAGCCC
259 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * *
46447134 CTTCGGAGATTGCTTTCTACAAGCAAAAAAAACCAAGAACAATTAGTGATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * *
46447199 ACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTGTGCTACTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * ** *
46447264 CATTGACAATGTTGCCAATGTCTTGAAGAACCCTTCACTTCCTTTCATCTGCTATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * *
46447329 TACTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTTCTTCCTTT-AGG
196 TGCTTCACTTCTCCTGA-AAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-G
** *
46447392 CTCCTTTCACAGCTTGTGTGACTACAACAGCCC
259 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * *
46447425 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGTGCAATTAATGATTGCCTAATATCTGCG
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * *
46447490 ACCACAATGAAAAAGAAACATTTTTGTGTTTACT-GCAACTACCTTCTCTTGTGCTGCTGCTCTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAG-AACTACCTTCCCTTGTGCTGCTGCTCGT
* * * * *
46447554 TCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTTGCTTCCATCTGCTGTTGCATTTTT
130 TCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTT
* * *
46447619 CTGCTTCACTTGTCCTGAAAAATAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTCTGAGC
195 CTGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGC
* *
46447684 TCCTTTCACAGCTTGTGCAACCACAACATCCG
260 TCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * *
46447716 CTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGTT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * *
46447781 ACTACAATTAAAACGAAACATTTTT-T-TGT--T--AACTACCTTCCCTTGTGCTGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * * * * * *
46447840 CATTGACAATGTTGCGAATGCCTCGAAGAACTCTACGGTTCATTCCATCTGCAATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * *
46447905 TGCTTCACATCTCTTGAAAAACAAAGAAGGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGC
196 TGCTTCACTTCTCCTGAAAAA-AAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGC
*
46447970 TCCTTTCACAGCTTGTGCAACCACAACAGCCG
260 TCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * *
46448002 CTTCTGTGATTGGTTTCTACAAG-AAAAGAACACAAAGAGCAATTAGAGATTGCCTAATATTTGT
1 CTTCGGTGATTGGTTTCTACAAGCAAAA-AACACCAAGAGCAATTAGTGATTGCCTAATATTTGC
* * * * *
46448066 TAATACAATTAAAACGAAACATTTTT-T-TGT--T--AACTACCTTCCCTTGTGCTGCTGCTCGT
65 TACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGT
* * * * *
46448125 TCATTGACAATGTTACGAATGCCTTGAAGAACTCTTCGGTTCCTTCCATCTGCAATTGCATTTTT
130 TCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTT
* *
46448190 CTGCTTCACATCTCCTGAAAAACAAAGAAGGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAG
195 CTGCTTCACTTCTCCTGAAAAA-AAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAG
*
46448255 CTTCTTTCACAGCTTGTGCAACCACAACAGCCC
259 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * *
46448288 CTTCGGAGATTGCTTTCTACAAGCAAAAAAAACCAAGAACAATTAGTGATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * * * * *
46448353 ACTCTAATGAAAAAGAAACATTTTTGTGTTTAATGGAATTACCTTACCTTGTGCTGCTACTTGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * *
46448418 CATTGACAAAGTTACCAATGTCTTGAAGAATTCTTCGGTTCCTTACATCTGCTATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * * * *
46448483 TGCTTTAATTCTCCTGAAAACAAAGAAAGTATAAAATTGGTTTGTCAACTTGCTTCCTATGAGTT
196 TGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCT
*
46448548 CCTTTCACAGCTTGTGCAACCAAAACAGCCC
261 CCTTTCACAGCTTGTGCAACCACAACAGCCC
* * *
46448579 CTTCAGTGATTGGTTTCTACCAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * *
46448644 ACTACAATCAAAACGAAACATTTTTGTG--T--T--AACTACCTTCCC-TGTGTTGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * * * * *
46448702 TATTGACAATGTTGCCAATGTCTTCAAGAACTCTTCAGTTCATTCCATCTGTTATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * * **
46448767 TACTTCACTTCTTCTGAAAACAAAGAAAGCATAAAAATTATTTGTCAACTTGCTTCCTTT-AGGC
196 TGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-GC
*
46448831 TCCTTTCACAGCTTGTCCAACCACAACAGCCC
260 TCCTTTCACAGCTTGTGCAACCACAACAGCCC
** * *
46448863 CTTCACTGATTGGTTTCTACAAGCAAAAAACACCAAGAACAATTAGTGATTGCCTTATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * * * *
46448928 ACTCTAATGAAAAAGAAACATTTTTGTGTTTATTGGAACTACCTTCCCTTTTGCAGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * * *
46448993 CATTGACAAAGTTGCAAATGTCTTGAAGAACTCTTCGGTTCCTTCAATTTCCTATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* *
46449058 TGCTTCACTTTTCCTGAAAAACAAAGAAAGTA-AAAAATGGTTTGTCAGCTTGCTTCCTTTGAGC
196 TGCTTCACTTCTCCTGAAAAA-AAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGC
* *
46449122 TCCGTTCACAGCTTGTGCAACCACAACAGGCC
260 TCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * *
46449154 CTTCGGTGATTGGTTTCTACAAGCAAAAACCACCAAGAACAATTAGTGATAGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* *
46449219 ACTATAATAAAAAAGAAACATTTTTTTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * *
46449284 CATTGACAAAGTTACCAATGTCTTGAAGAACTCTTCGGTTCTTTCCATCTGCTGTTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * * * * * * * * *
46449349 TACTTTAATTCTCCTGAAAATAAAGAAAGTATAAAAATGGCTTGTGAACTTCCTGCATTTGGGCA
196 TGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCT
* * * **
46449414 CCATTCACAGCTTTTGCAACCAGAATGGCCC
261 CCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * * * * *
46449445 ATT-GGTTAATTTGTTTCTACATGCAAAAAAAAAACCAAGAGCAATAAGAGATTGTCTAATATTT
1 CTTCGG-TGATTGGTTTCTACAAGC--AAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTT
* ** *
46449509 GCTACCATAATGAAAAAGAAACATTTTTGTGTTTACGGGAACTACCTTTCCTTGTGCTGCTGCTC
63 GCTACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTC
* * * * * *
46449574 GTTCATTGAAAAAGTTG-CAGATGTCTTGAAGAAATATTCGATTCCTTCCATCTACTGTTGCATT
128 GTTCATTGACAAAGTTGCCA-ATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATT
* * * *
46449638 TTTCTGCTTCACTTCTCCTCAAAAAAAAATAAAGAATAAAAATGGCTTGTCAACTTGCTTCCTTT
192 TTTCTGCTTCACTTCTCCT-GAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT
* * * * *
46449703 GGGCTCCTTTCATAGCCTGTGCAA-CAGAAACAGCCA
256 GAGCTCCTTTCACAGCTTGTGCAACCA-CAACAGCCC
* *
46449739 CTTCGGTGATTGGTTTCTACACGCAAAAAACACCAAGAGCAATTAGTAATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
46449804 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
*
46449869 CATTGACAAAGTTGACAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * * *
46449934 TGCTTCCCTTATCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGGTTCCTTTGGGCT
196 TGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCT
*
46449999 CCTTTCACAGCTTGTACAACCACAACAGCCC
261 CCTTTCACAGCTTGTGCAACCACAACAGCCC
*
46450030 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCA
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* *
46450095 ACCATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTACCCTTGTGCTGCTGCTCGTT
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * *
46450160 CATTGACAAAGTAGCCAATGTCTTGAAGAATTCTTCGGTTCCTTCCATCTGCTATTGCACTTTTC
131 CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * *
46450225 TGCTTCCCTTATCCTGAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGGGCT
196 TGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCT
* * *
46450290 ACTTTCACAGCTTGTGCAACCACAGCAGCCG
261 CCTTTCACAGCTTGTGCAACCACAACAGCCC
*
46450321 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCA
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* *
46450386 ACTATAATGAAAAAGGAACATTTTGGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGC
66 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGC
46450446 ATACAAACAT
Statistics
Matches: 3429, Mismatches: 404, Indels: 104
0.87 0.10 0.03
Matches are distributed among these distances:
283 1 0.00
284 328 0.10
285 344 0.10
286 423 0.12
287 8 0.00
288 5 0.00
289 4 0.00
290 37 0.01
291 1654 0.48
292 381 0.11
293 164 0.05
294 78 0.02
295 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (291 bp):
CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
CATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
TGCTTCACTTCTCCTGAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCT
CCTTTCACAGCTTGTGCAACCACAACAGCCC
Found at i:46447119 original size:734 final size:733
Alignment explanation
Indices: 46444328--46447007 Score: 4710
Period size: 734 Copynumber: 3.7 Consensus size: 733
46444318 CTTTGGGCAT
* * *
46444328 CTTTCACAGCTTCTGCAACCACAACAGCCCCTTCCGTGATTGGTTTCTACAA--AAAACGAACAC
1 CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAA--AACAC
* * * * * * * * *
46444391 CAAGAGAAATTAATGATTGCCTAATATTTACTACCATAATGAAACAGAAACATTTTTGTGTTTAC
64 AAAGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTAC
* * * * * * *
46444456 TGGAACTAGCTTCTCTTGTGCTGCTGCTCTTTCAATGAGAAAGTCGCCAAAGTCTTGAACAATTA
129 TGCAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTA
*
46444521 TTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTGTCCTGAAAAATAAGAAAGTATA
194 TTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAA-AAGAAAGTATA
*
46444586 AAAACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCT
258 AAAACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCT
*
46444651 TCAGTGATTGGTTTCTACAAG--AAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGTT
323 TCAGTGATTGGTTTCTACAAGAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTT
* * * * *
46444714 ACTACAATTAAAACGAAACATTTTTTTGATAACTACCTTCCCATGTGCTGCTTCTCGTTCTTTGA
388 ACTACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGA
* ** **
46444779 CAGTACTGTTAATG-CGTTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGA
453 CAATGTTGCCAATGTC-TTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGA
46444843 GCAATTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCT
517 GCAATTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCT
46444908 TCCCTTGTGCTACTTCTCTTTCATTGACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTT
582 TCCCTTGTGCTACTTCTCTTTCATTGACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTT
46444973 CCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTG
647 CCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTG
46445038 TCAACTTTCTTTCTTTACGCTC
712 TCAACTTTCTTTCTTTACGCTC
46445060 CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
1 CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
46445125 AGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTACTG
66 AGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTACTG
46445190 CAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
131 CAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
46445255 CGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAAAAGAAAGTATAAAA
196 CGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAAAAGAAAGTATAAAA
46445320 ACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCTTCA
261 ACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCTTCA
46445385 GTGATTGGTTTCTACAAGAAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTTAC
326 GTGATTGGTTTCTACAAG-AAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTTAC
46445450 TACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGACA
390 TACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGACA
46445515 ATGTTGCCAATGTCTTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCA
455 ATGTTGCCAATGTCTTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCA
46445580 ATTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCC
520 ATTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCC
46445645 CTTGTGCTACTTCTCTTTCATTGACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTTCCA
585 CTTGTGCTACTTCTCTTTCATTGACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTTCCA
46445710 TCTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGTCA
650 TCTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGTCA
46445775 ACTTTCTTTCTTTACGCTC
715 ACTTTCTTTCTTTACGCTC
46445794 CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
1 CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
46445859 AGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTACTG
66 AGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTACTG
46445924 CAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
131 CAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
46445989 CGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAAAAGAAAGTATAAAA
196 CGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAAAAGAAAGTATAAAA
46446054 ACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCTTCA
261 ACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCTTCA
46446119 GTGATTGGTTTCTACAAGAAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTTAC
326 GTGATTGGTTTCTACAAG-AAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTTAC
46446184 TACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGACA
390 TACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGACA
46446249 ATGTTGCCAATGTCTTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCA
455 ATGTTGCCAATGTCTTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCA
46446314 ATTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCC
520 ATTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCC
* * * *
46446379 CTTGTGCTGCTGCTCTTTCATTGACAATGTTGCCAATGTCTTGAATAACCCTTCACTTCCTTCCA
585 CTTGTGCTACTTCTCTTTCATTGACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTTCCA
46446444 TCTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGTCA
650 TCTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGTCA
* *
46446509 ACTTTCTTCCTTTAGGCTC
715 ACTTTCTTTCTTTACGCTC
*
46446528 CTTTCACAGCTTGTGCAATCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
1 CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
* * * * *
46446593 AGTGCAATTAAGGATTGCCTAATATCTGCGACCATAATGAAAAAGAAACATTTTTGTGCTTACTA
66 AGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTACTG
*
46446658 CAACTACCTTCTCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
131 CAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
* *
46446723 CGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTGTCCTAAAAAATAAGAAAGTATAAA
196 CGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAA-AAGAAAGTATAAA
* *
46446788 AATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTC
260 AACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCTTC
* * *
46446853 AGTGATTGGTTTCTAC-AG-GAAAAAAACACAAAGAGCAATTAGAGATTTCCTAATATTTGTTAC
325 AGTGATTGGTTTCTACAAGAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTTAC
* * * * *
46446916 TACATTTAAAACGAAACA-TTTTTTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGACA
390 TACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGACA
* *
46446980 ATATTGCCAATGCCTTGAAGAACTCTTC
455 ATGTTGCCAATGTCTTGAAGAACTCTTC
46447008 GGTTCCTTCC
Statistics
Matches: 1882, Mismatches: 59, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
731 165 0.09
732 279 0.15
734 1345 0.71
735 93 0.05
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (733 bp):
CTTTCACAGCTTGTGCAACCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAA
AGTGCAATCAATGATTGCCTAATATCTGCGACCATAATGAAAAAGAAAAATTTTTGTGTTTACTG
CAACTACCTTCTCTTGTGCTGCTACTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATT
CGGTTCCTTCCATCTGCTGTTGCATTTTTCTACTTCACTTGTCCTGAAAAAAAGAAAGTATAAAA
ACGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCATAGCTTGTGCAACCACAACAGCCCCTTCA
GTGATTGGTTTCTACAAGAAAAAAAAACACAAAGAGCAATTACAGATTGCCTAATATTTGTTACT
ACAATTAAAATGAAACATTTTTTTGTTAACTACCTTCCCATGTGTTGCTGCTCGTTCATTGACAA
TGTTGCCAATGTCTTGAAGAACTCTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCAA
TTAGTGATCGCCTAATATTTGCTACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCC
TTGTGCTACTTCTCTTTCATTGACAATGTTGCCAATGTCTTGAACAACCCTTCACCTCCTTCCAT
CTGCTATTGCATTTTTCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGTCAA
CTTTCTTTCTTTACGCTC
Found at i:46447365 original size:576 final size:577
Alignment explanation
Indices: 46446273--46450445 Score: 5444
Period size: 576 Copynumber: 7.2 Consensus size: 577
46446263 TTGAAGAACT
* * * * * *
46446273 CTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCT
* *
46446338 ACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCTGCTGCTCTTTCATTGA
66 ACTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGA
* * * **
46446403 CAATGTTGCCAATGTCTTGAATAACCCTTCACTTCCTTCCATCTGCTATTGCATTTTTCTGCTTC
131 CAATATTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTC
* * *
46446468 ACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTTCTTCCTTT-AGGCTCCTT
196 ACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-GCTCCTT
* * * * * *
46446531 TCACAGCTTGTGCAATCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACAAAGT
260 TCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAAACCAAGA
* * * **
46446596 GCAATTAAG-GATTGCCTAATATCTGCGAC-CATAATGAAAAAGAAACATTTTTGTGCTTACTAC
325 GCAATT-AGTGATTGCCTAATATTTGCTACTC-TAATGAAAAAGAAACATTTTTGTGTTTACTGG
* * * * *
46446659 AACTACCTTCTCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTATTC
388 AACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTC
* * *
46446724 GGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTGTCCT-AAAAAATAAGAAAGTATAAA
453 GGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTGAAAACA-AAGAAAGTATAAA
46446788 AATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
517 AATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * *
46446849 CTTCAGTGATTGGTTTCTACAGGAAAAAAACACAAAGAGCAATTAGAGATTTCCTAATATTTGTT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCT
*
46446914 ACTACATTTAAAACGAAACATTTTT-TGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGA
66 ACTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGA
* * *
46446978 CAATATTGCCAATGCCTTGAAGAACTCTTCGGTTCCTTCCATTTGCAATTGCATTTTTCTGCTTC
131 CAATATTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTC
* * *
46447043 ACATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCATTTGAGCTTCTTT
196 ACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTT
* * *
46447108 CACAGCTTGTGCAACCACAACAGCCCCTTCGGAGATTGCTTTCTACAAGCAAAAAAAACCAAGAA
261 CACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAAACCAAGAG
46447173 CAATTAGTGATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAAC
326 CAATTAGTGATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAAC
* * * **
46447238 TACCTTCCCTTGTGCTACTGCTCGTTCATTGACAATGTTGCCAATGTCTTGAAGAACCCTTCACT
391 TACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGT
* *
46447303 TCCTTTCATCTGCTATTGCATTTTTCTACTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAAT
456 TCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTGA-AAACAAAGAAAGTATAAAAAT
* * ** *
46447367 GATTTGTCAACTTTCTTCCTTT-AGGCTCCTTTCACAGCTTGTGTGACTACAACAGCCC
520 GGTTTGTCAACTTGCTTCCTTTGA-GCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* *
46447425 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGTGCAATTA-ATGATTGCCTAATATCTGC
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGA-GATTGCCTAATATTTGC
* * * * * *
46447489 GACCACAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTCTCTTGTGCTGCTGCTCTT
65 TACTACAATTAAAACGAAACATTTTTGTG-TTA----AA-TACCTTCCCTTGTGCTGCTGCTCGT
* * * * *
46447554 TCATTGACAA-AGTTGCCAAAGTCTTGAAGAATTATTCGGTTGCTTCCATCTGCTGTTGCATTTT
124 TCATTGACAATA-TTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTT
* * *
46447618 TCTGCTTCACTTGTCCTGAAAAA-TAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTCTGA
188 TCTGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA
* * *
46447682 GCTCCTTTCACAGCTTGTGCAACCACAACATCCGCTTCAGTGATTGGTTTCTACAAG-AAAAAAA
253 GCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAA
* * * * *
46447746 CACAAAGAGCAATTAGAGATTGCCTAATATTTGTTACTAC-AATTAAAACGAAACATTTTT-T-T
318 -ACCAAGAGCAATTAGTGATTGCCTAATATTTGCTACT-CTAATGAAAAAGAAACATTTTTGTGT
* * * * *
46447808 GT--T--AACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAATGTTGCGAATGCCTCGAAGA
381 TTACTGGAACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGA
* * * * * *
46447869 ACTCTACGGTTCATTCCATCTGCAATTGCATTTTTCTGCTTCACATCTCTTGAAAAACAAAGAAG
446 ACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTG-AAAACAAAGAAA
46447934 GTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAG
510 GTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAG
*
46447999 CCG
575 CCC
* *
46448002 CTTCTGTGATTGGTTTCTACAAG-AAAAGAACACAAAGAGCAATTAGAGATTGCCTAATATTTGT
1 CTTCGGTGATTGGTTTCTACAAGCAAAA-AACACAAAGAGCAATTAGAGATTGCCTAATATTTGC
* * *
46448066 TAATACAATTAAAACGAAACATTTTTTTGTTAACTACCTTCCCTTGTGCTGCTGCTCGTTCATTG
65 TACTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTG
* * * * *
46448131 ACAATGTTACGAATGCCTTGAAGAACTCTTCGGTTCCTTCCATCTGCAATTGCATTTTTCTGCTT
130 ACAATATTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTT
* * *
46448196 CACATCTCCTGAAAAACAAAGAAGGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTTCTT
195 CACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTT
* *
46448261 TCACAGCTTGTGCAACCACAACAGCCCCTTCGGAGATTGCTTTCTACAAGCAAAAAAAACCAAGA
260 TCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAAACCAAGA
* *
46448326 ACAATTAGTGATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTAATGGAA
325 GCAATTAGTGATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAA
* * * * * *
46448391 TTACCTTACCTTGTGCTGCTACTTGTTCATTGACAAAGTTACCAATGTCTTGAAGAATTCTTCGG
390 CTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGG
* * * *
46448456 TTCCTTACATCTGCTATTGCATTTTTCTGCTTTAATTCTCCTGAAAACAAAGAAAGTATAAAATT
455 TTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTGAAAACAAAGAAAGTATAAAAAT
* * *
46448521 GGTTTGTCAACTTGCTTCCTATGAGTTCCTTTCACAGCTTGTGCAACCAAAACAGCCC
520 GGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * *
46448579 CTTCAGTGATTGGTTTCTACCAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCT
* * * *
46448644 ACTACAATCAAAACGAAACATTTTTGTGTTAACTACCTTCCC-TGTGTTGCTGCTCGTTTATTGA
66 ACTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGA
* * * * * *
46448708 CAATGTTGCCAATGTCTTCAAGAACTCTTCAGTTCATTCCATCTGTTATTGCATTTTTCTACTTC
131 CAATATTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTC
* * **
46448773 ACTTCTTCTG-AAAACAAAGAAAGCATAAAAATTATTTGTCAACTTGCTTCCTTT-AGGCTCCTT
196 ACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-GCTCCTT
* ** *
46448836 TCACAGCTTGTCCAACCACAACAGCCCCTTCACTGATTGGTTTCTACAAGCAAAAAACACCAAGA
260 TCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAAACCAAGA
* * *
46448901 ACAATTAGTGATTGCCTTATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTATTGGAA
325 GCAATTAGTGATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAA
* * *
46448966 CTACCTTCCCTTTTGCAGCTGCTCGTTCATTGACAAAGTTGCAAATGTCTTGAAGAACTCTTCGG
390 CTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGG
* * * *
46449031 TTCCTTCAATTTCCTATTGCATTTTTCTGCTTCACTTTTCCTGAAAAACAAAGAAAGTA-AAAAA
455 TTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTG-AAAACAAAGAAAGTATAAAAA
* * *
46449095 TGGTTTGTCAGCTTGCTTCCTTTGAGCTCCGTTCACAGCTTGTGCAACCACAACAGGCC
519 TGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * * * *
46449154 CTTCGGTGATTGGTTTCTACAAGCAAAAACCACCAAGAACAATTAGTGATAGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCT
* * * *
46449219 ACTATAATAAAAAAGAAACATTTTTTTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
66 ACTACAATTAAAACGAAACA--TTTTTGTGT--TA-AA-TACCTTCCCTTGTGCTGCTGCTCGTT
* * *
46449284 CATTGACAA-AGTTACCAATGTCTTGAAGAACTCTTCGGTTCTTTCCATCTGCTGTTGCATTTTT
125 CATTGACAATA-TTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTT
* * * * * * * * * *
46449348 CTACTTTAATTCTCCTG-AAAATAAAGAAAGTATAAAAATGGCTTGTGAACTTCCTGCATTTGGG
189 CTGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAG
* * * * ** * * * *
46449412 CACCATTCACAGCTTTTGCAACCAGAATGGCCCATT-GGTTAATTTGTTTCTACATGCAAAAAAA
254 CTCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGG-TGATTGGTTTCTACAAGC--AAAAA
* * *
46449476 AAACCAAGAGCAATAAGAGATTGTCTAATATTTGCTAC-CATAATGAAAAAGAAACATTTTTGTG
316 AAACCAAGAGCAATTAGTGATTGCCTAATATTTGCTACTC-TAATGAAAAAGAAACATTTTTGTG
* * *
46449540 TTTACGGGAACTACCTTTCCTTGTGCTGCTGCTCGTTCATTGAAAAAGTTG-CAGATGTCTTGAA
380 TTTACTGGAACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCA-ATGTCTTGAA
* * * * * * * *
46449604 GAAATATTCGATTCCTTCCATCTACTGTTGCATTTTTCTGCTTCACTTCTCCTCAAAAAAAAATA
444 GAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCT-GAAAACAAAGA
* * * * * *
46449669 AAGAATAAAAATGGCTTGTCAACTTGCTTCCTTTGGGCTCCTTTCATAGCCTGTGCAA-CAGAAA
508 AAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCA-CAA
*
46449733 CAGCCA
572 CAGCCC
* *
46449739 CTTCGGTGATTGGTTTCTACACGCAAAAAACACCAAGAGCAATTAGTA-ATTGCCTAATATTTGC
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAG-AGATTGCCTAATATTTGC
* * *
46449803 TACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGT
65 TACTACAATTAAAACGAAACATTTTTGTG--T--TA-AA-TACCTTCCCTTGTGCTGCTGCTCGT
*
46449868 TCATTGACAA-AGTTGACAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTT
124 TCATTGACAATA-TTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTT
* * * *
46449932 TCTGCTTCCCTTATCCTG-AAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGGTTCCTTTGG
188 TCTGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA
* *
46449996 GCTCCTTTCACAGCTTGTACAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAC
253 GCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAA
*
46450061 ACCAAGAGCAATTAGTGATTGCCTAATATTTGCAAC-CATAATGAAAAAGAAACATTTTTGTGTT
318 ACCAAGAGCAATTAGTGATTGCCTAATATTTGCTACTC-TAATGAAAAAGAAACATTTTTGTGTT
* * *
46450125 TACTAGAACTACCTACCCTTGTGCTGCTGCTCGTTCATTGACAAAGTAGCCAATGTCTTGAAGAA
382 TACTGGAACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAA
* * * *
46450190 TTCTTCGGTTCCTTCCATCTGCTATTGCACTTTTCTGCTTCCCTTATCCTGAAAACAAAGAAAGT
447 CTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTGAAAACAAAGAAAGT
* * *
46450255 ATAAAAATGGTTTGTCAACTTGCTTCCTTTGGGCTACTTTCACAGCTTGTGCAACCACAGCAGCC
512 ATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCC
*
46450320 G
577 C
* * *
46450321 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCA
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCT
* * * * *
46450386 ACTATAATGAAAAAGGAACATTTTGGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGC
66 ACTACAATTAAAACGAAACATTTT--TGTGT--TA-AA-TACCTTCCCTTGTGCTGCTGC
46450446 ATACAAACAT
Statistics
Matches: 3148, Mismatches: 388, Indels: 116
0.86 0.11 0.03
Matches are distributed among these distances:
571 98 0.03
572 141 0.04
573 8 0.00
574 3 0.00
575 499 0.16
576 680 0.22
577 331 0.11
578 103 0.03
579 2 0.00
580 3 0.00
581 17 0.01
582 487 0.15
583 274 0.09
584 180 0.06
585 320 0.10
586 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (577 bp):
CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCT
ACTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGA
CAATATTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTC
ACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTT
CACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAAACCAAGAG
CAATTAGTGATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAAC
TACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTGCCAATGTCTTGAAGAACTCTTCGGT
TCCTTCCATCTGCTATTGCATTTTTCTGCTTCACTTCTCCTGAAAACAAAGAAAGTATAAAAATG
GTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
Done.