Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 32 of 47
Found at i:5228396 original size:107 final size:107
Alignment explanation
Indices: 5228205--5228409 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 107
5228195 TCCTTTAATC
* * *
5228205 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCATAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
*
5228270 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * *
5228313 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
*
5228377 CCCCGTTATTTTCGA-GGGGATACTCCAATCCCG
66 CCCCGTTA-TTTC-ACGGGGATACTCCAACCCCG
5228410 ATTTTTTTTC
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 57 0.69
108 25 0.30
109 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
CCCCGTTATTTCACGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:5228463 original size:78 final size:79
Alignment explanation
Indices: 5228284--5228485 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 79
5228274 GTTATTTCAT
* * *
5228284 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
5228349 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
5228363 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
5228426 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
5228441 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
5228486 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 3 0.03
78 59 0.57
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:5229797 original size:18 final size:19
Alignment explanation
Indices: 5229767--5229805 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
5229757 ATAAACTTTT
5229767 TATAAAAAGGGGGAGAAGA
1 TATAAAAAGGGGGAGAAGA
5229786 TATAAAAA-GGGGAGAAGA
1 TATAAAAAGGGGGAGAAGA
5229804 TA
1 TA
5229806 ATCGTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.33, T:0.13
Consensus pattern (19 bp):
TATAAAAAGGGGGAGAAGA
Found at i:5237652 original size:77 final size:78
Alignment explanation
Indices: 5237525--5237697 Score: 231
Period size: 77 Copynumber: 2.2 Consensus size: 78
5237515 CTGGAGTTTC
* *** * * *
5237525 CCTGATTATGGAAAATCGGTGTTCTAGAAATAAAATCGAGGTTGGAGTATCTCCTCGAAAATAAC
1 CCTGATTATAGAAAATCAACGTTCTAAAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAAC
5237590 AGGGTTAGAGTA-
66 AGGGTTAGAGTAT
* *
5237602 CCTGATTATAGAAAATCAACGTTTTAAAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAATAAC
1 CCTGATTATAGAAAATCAACGTTCTAAAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAAC
*
5237667 GGGGTTAGAGTAT
66 AGGGTTAGAGTAT
*
5237680 CCTCGATTATAAAAAATC
1 CCT-GATTATAGAAAATC
5237698 GATGCTTTAG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
77 67 0.81
78 3 0.04
79 13 0.16
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (78 bp):
CCTGATTATAGAAAATCAACGTTCTAAAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAAC
AGGGTTAGAGTAT
Found at i:5237730 original size:79 final size:79
Alignment explanation
Indices: 5237564--5237886 Score: 270
Period size: 79 Copynumber: 4.2 Consensus size: 79
5237554 ATAAAATCGA
* * * * *
5237564 GGTTGGAGTATCTCCTCGAAAATAACAGGGTTAGAGTA--CCTGATTATAGAAAATCAACGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATAAAAAATCAATGTTTT
* *
5237627 AAAAATAA-AATCGG
66 AGAAATAAGACT-GG
* * * *
5237641 GGTTGAAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCTCGATTATAAAAAATCGATGCTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATAAAAAATCAATGTTTT
*
5237706 AGAAATAAGGCTGG
66 AGAAATAAGACTGG
* * * * * * *
5237720 GGTTGGAGTAT-CCCTATGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
1 GGTTGGAGTATCCCCT-CGAAAATAACGGGGTTAGAGTATCCCCGATTATAAAAAATCAATGTTT
*
5237784 TAG----AAGTC-GG
65 TAGAAATAAGACTGG
* * * * ** ** *
5237794 GGTTGGAGTAT-CCCTCGGAAATAATGGGGTTGGAGTATCCCCAATTATGGAAAATTGATGTTCT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATAAAAAATCAATGTTTT
* * *
5237858 GGAAATAAAATTGG
66 AGAAATAAGACTGG
5237872 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
5237887 GAGATGAAAA
Statistics
Matches: 198, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
73 40 0.20
74 17 0.09
75 4 0.02
77 37 0.19
78 17 0.09
79 82 0.41
80 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATAAAAAATCAATGTTTT
AGAAATAAGACTGG
Found at i:5245370 original size:105 final size:105
Alignment explanation
Indices: 5245183--5245395 Score: 399
Period size: 105 Copynumber: 2.0 Consensus size: 105
5245173 TTACATTAAT
*
5245183 TTGCCTTTTAGTTTATAAAAGTTGAGTTAAAAAGATCTAGTGATTTCAAAAAATTAATTGGAGAA
1 TTGCCTTTTAGTTTATAAAAGTTGAGTTAAAAAGATCTAGTGATTTCAAAAAATTAAGTGGAGAA
5245248 GCTCCAAAGAAGAAATATACTTTTAATTAATTCTACAATA
66 GCTCCAAAGAAGAAATATACTTTTAATTAATTCTACAATA
* *
5245288 TTGCTTTTTAGTTTATAAAAGTTGAGTTAAAAAGATCTGGTGATTTCAAAAAATTAAGTGGAGAA
1 TTGCCTTTTAGTTTATAAAAGTTGAGTTAAAAAGATCTAGTGATTTCAAAAAATTAAGTGGAGAA
5245353 GCTCCAAAGAAGAAATATACTTTTAATTAATTCTACAATA
66 GCTCCAAAGAAGAAATATACTTTTAATTAATTCTACAATA
5245393 TTG
1 TTG
5245396 TGTTTATGAC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.36
Consensus pattern (105 bp):
TTGCCTTTTAGTTTATAAAAGTTGAGTTAAAAAGATCTAGTGATTTCAAAAAATTAAGTGGAGAA
GCTCCAAAGAAGAAATATACTTTTAATTAATTCTACAATA
Found at i:5247160 original size:20 final size:22
Alignment explanation
Indices: 5247137--5247189 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
5247127 ATTTTCATTC
5247137 TTTTTATATAATATTCA-TAT-
1 TTTTTATATAATATTCATTATA
* * *
5247157 TTTTAATTTAATATTTATTATA
1 TTTTTATATAATATTCATTATA
5247179 TTTTT-TATAAT
1 TTTTTATATAAT
5247190 TTGATGTGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 14 0.54
21 8 0.31
22 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTATATAATATTCATTATA
Found at i:5252537 original size:21 final size:20
Alignment explanation
Indices: 5252511--5252568 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
5252501 CTTTACCTAC
5252511 TTCTTAAAATATTACCTATAT
1 TTCTTAAAA-ATTACCTATAT
* *
5252532 TTCTTAAAAATTATCCAATTT
1 TTCTTAAAAATTA-CCTATAT
*
5252553 TTTTTAAAAATTACCT
1 TTCTTAAAAATTACCT
5252569 GTTTTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (20 bp):
TTCTTAAAAATTACCTATAT
Found at i:5252573 original size:20 final size:20
Alignment explanation
Indices: 5252514--5252575 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
5252504 TACCTACTTC
* *
5252514 TTAAAATATTACCTATATTTC
1 TTAAAA-ATTACCTATTTTTT
*
5252535 TTAAAAATTATCCAATTTTTT
1 TTAAAAATTA-CCTATTTTTT
*
5252556 TTAAAAATTACCTGTTTTTT
1 TTAAAAATTACCTATTTTTT
5252576 AATCATGTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 12 0.34
21 23 0.66
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAAAAATTACCTATTTTTT
Found at i:5252907 original size:16 final size:15
Alignment explanation
Indices: 5252880--5252910 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5252870 TAAATATTTT
5252880 TTATTTTTTTAATAA
1 TTATTTTTTTAATAA
5252895 TTATTTATTTTAATAA
1 TTATTT-TTTTAATAA
5252911 AAATATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTTTTTAATAA
Found at i:5253483 original size:15 final size:14
Alignment explanation
Indices: 5253465--5253499 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
5253455 TATAATTATG
5253465 AAAAAAATAAAAATT
1 AAAAAAA-AAAAATT
5253480 AAAAGAAAAAAAATT
1 AAAA-AAAAAAAATT
5253495 AAAAA
1 AAAAA
5253500 TGGGTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 15 0.79
16 3 0.16
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAAAAAAAAAATT
Found at i:5255412 original size:5 final size:5
Alignment explanation
Indices: 5255404--5255429 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5255394 TTTCTTTTCC
5255404 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
5255430 CATTTCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5267387 original size:33 final size:33
Alignment explanation
Indices: 5267331--5267396 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
5267321 AAATTCCCAG
*
5267331 ATGTATCGATACAAAGATCAATGTCTCGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
**
5267364 ATGTATCGATACATTGAAT-AATGTATCGATACA
1 ATGTATCGATACAAAG-ATCAATGTATCGATACA
5267397 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATACA
Found at i:5268179 original size:49 final size:49
Alignment explanation
Indices: 5268097--5268765 Score: 558
Period size: 49 Copynumber: 13.9 Consensus size: 49
5268087 GTGATAAAGG
* * * *
5268097 TGCCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGAAGA
* * * * *
5268146 TGCGAATGTGCTGATTCAAAGCCAGCAACATTGGACTTAAAGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
** * *
5268195 TGCTTATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAGA
* ** * *
5268246 GTGCCAATATGCTGATTC-AGGATTAGTGATATTAGG-CTTAAAGATGAAGA
1 -TGCCAATGTGCTGATTCAAGG-CCAGCGACATT-GGACTTAAAGATGAAGA
** *
5268296 TGCCAATGTGCTGATTCAAGGCCAGTAACATTGGACTTAAAGGTGAAG-
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
* * * *
5268344 GGCCAATGTGCTGATTGAAGGCCAGCGATATCGGACTTAAAGATGAATG-
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GA
* *
5268393 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGA
** * * *
5268445 TGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
* * * *
5268494 TGCCAATATGCTGATTCAAGACCAGCGATATTGGGC-T-----T---G-
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
* * * *
5268533 TGCCAATGTGCTGTTTCAAGGCCAGCTACATTGGTCTTAAAGA-GAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
* * * * *
5268581 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G-AAGA
** * *
5268631 GTGTTAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-
1 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
* * *
5268675 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTA-TTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAGA
* *
5268724 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
5268766 GTGCCACGGA
Statistics
Matches: 500, Mismatches: 84, Indels: 72
0.76 0.13 0.11
Matches are distributed among these distances:
39 30 0.06
40 2 0.00
43 32 0.06
44 3 0.01
45 1 0.00
47 6 0.01
48 76 0.15
49 222 0.44
50 12 0.02
51 42 0.08
52 72 0.14
53 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGA
Found at i:5268436 original size:198 final size:197
Alignment explanation
Indices: 5268096--5268765 Score: 687
Period size: 198 Copynumber: 3.5 Consensus size: 197
5268086 AGTGATAAAG
* * * * *
5268096 GTGCCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGATGAAGATGCGAATGTGCTGA
1 GTGCCAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGAAG-GGCCAATGTGCTGA
* * * ** * *
5268160 TTCAAAGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTTATGTGCTGATTTAAGGCCAGCGACA
64 TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACA
** ** *
5268225 TTGGACTTAAAGATGACAAAAGTGCCAATATGCTGATTC-AGGATTAGTGATATTAGG-CTTAAA
129 TTGGACTTAAAGATGGTAAAAGTGCCAATATGCTGATTCAAGG-CCAGAGATATT-GGACTTAAA
5268288 GATGAA
192 GATGAA
* ** *
5268294 GATGCCAATGTGCTGATTCAAGGCCAGTAACATTGGACTTAAAGGTGAAGGGCCAATGTGCTGAT
1 G-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGGCCAATGTGCTGAT
* * * *
5268359 TGAAGGCCAGCGATATCGGACTTAAAGATGAATGTGCCAATGTGTTGATTCAAGGCCAGCGACAT
65 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACAT
* * * * * * *
5268424 TGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGAT
130 TGGACTTAAAGATGGTAAAAGTGCCAATATGCTGATTCAAGGCCAGAGATATTGGACTTAAAGAT
5268489 GAA
195 GAA
* * * *
5268492 GGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTT---G-T-----GCCAATGTGCTGTT
1 -GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGGCCAATGTGCTGAT
* * * *
5268548 TCAAGGCCAGCTACATTGGTCTTAAAGA-GAAGGTGCCAATATGTTGATTCAAGGCCAGCGATAT
65 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACAT
* ** *
5268612 TGGAC-TCAAGATGGTAAAAGTGTTAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-
130 TGGACTTAAAGATGGTAAAAGTGCCAATATGCTGATTCAAGGCCAGAGATATTGGACTTAAAGAT
5268673 G--
195 GAA
* * * *
5268674 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTA-TTAAAGATAAAGGTGCCAATATGCTGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAGG-GCCAATGTGCTGA
*
5268738 TTCAAGGCCAGCGATATTGGACTTAAAG
64 TTCAAGGCCAGCGACATTGGACTTAAAG
5268766 GTGCCACGGA
Statistics
Matches: 391, Mismatches: 65, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
181 33 0.08
184 2 0.01
185 2 0.01
186 2 0.01
187 42 0.11
188 38 0.10
189 36 0.09
191 36 0.09
194 1 0.00
195 1 0.00
197 2 0.01
198 150 0.38
199 43 0.11
200 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (197 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGGCCAATGTGCTGATT
CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATT
GGACTTAAAGATGGTAAAAGTGCCAATATGCTGATTCAAGGCCAGAGATATTGGACTTAAAGATG
AA
Found at i:5268491 original size:101 final size:100
Alignment explanation
Indices: 5268093--5268765 Score: 528
Period size: 101 Copynumber: 7.0 Consensus size: 100
5268083 AAGAGTGATA
* * * * * *
5268093 AAGGTGCCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGAT-G-AAGATGCGAATGT
1 AAGGTGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGGTAAGGTGCCAATGT
* * *
5268155 GCTGATTCAAAGCCAGCA-ACATTGGACTTAAAGGTG
65 GCTGATTCAAGGCCAG-AGACATCGGACTTAAAGATG
** * ** * *
5268191 AAGGTGCTTATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAAAGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-GTAAGGTGCCAATGT
** * * *
5268256 GCTGATTC-AGGATTAGTGATATTAGG-CTTAAAGATG
65 GCTGATTCAAGG-CCAGAGACA-TCGGACTTAAAGATG
* ** *
5268292 AAGATGCCAATGTGCTGATTCAAGGCCAGTAACATTGGACTTAAAGGT-G-AAGG-GCCAATGTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAGGTGCCAATGTG
* * *
5268354 CTGATTGAAGGCCAGCGATATCGGACTTAAAGATG
66 CTGATTCAAGGCCAGAGACATCGGACTTAAAGATG
* *
5268389 AATGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG-TAAGGTGCCAATGT
* *
5268454 GCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATG
65 GCTGATTCAAGGCCAGAGACATCGGACTTAAAGATG
* * * *
5268490 AAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGG-------GCT--T---GTGCCAATGTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAGGTGCCAATGTG
* ** * *
5268543 CTGTTTCAAGGCCAGCTACATTGGTCTTAAAGA-G
66 CTGATTCAAGGCCAGAGACATCGGACTTAAAGATG
* * * * * ** *
5268577 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAAGTGTTAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGT-AAGGTGCCAATGT
* * *
5268641 GCTGATTCAAGGCCAGCGATATTGGACTT----A--
65 GCTGATTCAAGGCCAGAGACATCGGACTTAAAGATG
* * *
5268671 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTA-TTAAAGAT--AAAGGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGGTAAGGTGCCAATGT
* * *
5268733 GCTGATTCAAGGCCAGCGATATTGGACTTAAAG
65 GCTGATTCAAGGCCAGAGACATCGGACTTAAAG
5268766 GTGCCACGGA
Statistics
Matches: 469, Mismatches: 75, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
87 37 0.08
88 39 0.08
91 1 0.00
92 39 0.08
93 2 0.00
94 36 0.08
95 9 0.02
96 3 0.01
97 72 0.15
98 44 0.09
99 35 0.07
100 6 0.01
101 143 0.30
102 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (100 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAGGTGCCAATGTG
CTGATTCAAGGCCAGAGACATCGGACTTAAAGATG
Found at i:5268612 original size:87 final size:88
Alignment explanation
Indices: 5268444--5268614 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 88
5268434 GATGGTTAAG
5268444 GTGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
5268509 TCAAGACCAGCGATATTGGGCTT
66 TCAAGACCAGCGATATTGGGCTT
* *** * *
5268532 GTGCCAATGTGCTGTTTCAAGGCCAGCTACATTGGTCTTAAAGA-GAAGGTGCCAATATGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
5268596 TCAAGGCCAGCGATATTGG
66 TCAAGACCAGCGATATTGG
5268615 ACTCAAGATG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
87 37 0.49
88 39 0.51
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGACCAGCGATATTGGGCTT
Found at i:5268702 original size:43 final size:43
Alignment explanation
Indices: 5268636--5268771 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 43
5268626 TAAAAGTGTT
5268636 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCC
* * * *
5268679 AATGTGCTGATTCAAGGCTAGCGACATTGGTATTAAAGATAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCGATATTGG-ACT-----TAAAGGTGCC
5268728 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCC
5268771 A
1 A
5268772 CGGAGTTGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
43 38 0.48
44 2 0.03
48 2 0.03
49 37 0.47
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCC
Found at i:5268737 original size:230 final size:230
Alignment explanation
Indices: 5268093--5268757 Score: 617
Period size: 247 Copynumber: 2.8 Consensus size: 230
5268083 AAGAGTGATA
* * * * *
5268093 AAGGTGCCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGATG-AAGATGCGAATGTG
1 AAGG-GCCAATATGCTGATTCAAGG-CCAGCGATATCGGACTTAAAGATGAAAG-TGCCAATATG
* * ** * **
5268156 CTGATTCAAAGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTTATGTGCTGATTTAAGGCCAGC
63 CTGATTCAAGGCCAGCGACATTGGACTT-AA--T-AAGGTGCCAATGTGCTGATTCAAGGCCAAA
* * * ** * *
5268221 GACATTGG-ACTTAAAGATGACAAAAGTGCCAATATGCTGATTCAGGATTAGTGATATTAGGCTT
124 GACATCGGTA-TTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGC-T
*
5268285 AAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGTAACATTGGACTTAAAGGTG
184 -----T---G-TGCCAATGTGCTGATTCAAGGCCAGTAACATTGGACTTAAAGGAG
* * * * *
5268341 AAGGGCCAATGTGCTGATTGAAGGCCAGCGATATCGGACTTAAAGATGAATGTGCCAATGTGTTG
1 AAGGGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAAGTGCCAATATGCTG
5268406 ATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAAA
66 ATTCAAGGCCAGCGACATTGGACTT--A-A----TAAGGTGCCAATGTGCTGATTCAAGGCCAAA
* *
5268471 GACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGTGC
124 GACATCGGTATTAAAGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGTGC
* *
5268536 CAATGTGCTGTTTCAAGGCCAGCT-ACATTGGTCTTAAA-GAG
189 CAATGTGCTGATTCAAGGCCAG-TAACATTGGACTTAAAGGAG
* * * **
5268577 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAAGTGTTAATAT
1 AAGG-GCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAT-G--AAAGTGCCAATAT
* * **
5268641 GCTGATTCAAGGCCAGCGATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
62 GCTGATTCAAGGCCAGCGACATTGGACTTAATAAGGTGCCAATGTGCTGATTCAAGGCCAAAGAC
* *
5268704 ATTGGTATTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
127 ATCGGTATTAAAGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGG
5268758 ACTTAAAGGT
Statistics
Matches: 359, Mismatches: 46, Indels: 42
0.80 0.10 0.09
Matches are distributed among these distances:
230 80 0.22
235 1 0.00
236 12 0.03
237 69 0.19
238 2 0.01
239 36 0.10
241 1 0.00
246 1 0.00
247 103 0.29
248 11 0.03
249 1 0.00
250 40 0.11
251 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (230 bp):
AAGGGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAAGTGCCAATATGCTG
ATTCAAGGCCAGCGACATTGGACTTAATAAGGTGCCAATGTGCTGATTCAAGGCCAAAGACATCG
GTATTAAAGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGGCTTGTGCCAATGTG
CTGATTCAAGGCCAGTAACATTGGACTTAAAGGAG
Found at i:5268759 original size:92 final size:94
Alignment explanation
Indices: 5268532--5268771 Score: 279
Period size: 92 Copynumber: 2.5 Consensus size: 94
5268522 TATTGGGCTT
* * * * * *
5268532 GTGCCAATGTGCTGTTTCAAGGCCAGCTACATTGGTCTTAAAGAGAAGGTGCCAATATGTTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATATGCTGATT
* *
5268597 CAAGGCCAGCGATATTGGACTCAAGATGGTAAAA
61 CAAGGCCAGCGACATTGGACTCAAGATGATAAAA
** *
5268631 GTGTTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
* * *
5268696 CTAGCGACATTGGTA-TTAA-A-GATAAAG
66 CCAGCGACATTGG-ACTCAAGATGATAAAA
5268723 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCA
5268772 CGGAGTTGTA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
92 52 0.42
93 1 0.01
94 37 0.30
95 2 0.02
99 32 0.26
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (94 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
CCAGCGACATTGGACTCAAGATGATAAAA
Found at i:5268841 original size:25 final size:26
Alignment explanation
Indices: 5268812--5268877 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
5268802 GTCATGGAGG
*
5268812 TGTGGGCTTAAAAGAG-CCACAGAGT
1 TGTGGACTTAAAAGAGACCACAGAGT
* * *
5268837 TGTGGACTTAAAAGTGTACTATAGAGT
1 TGTGGACTTAAAAGAG-ACCACAGAGT
5268864 TGTGGACTTAAAAG
1 TGTGGACTTAAAAG
5268878 GAAAAAGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 14 0.40
27 21 0.60
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (26 bp):
TGTGGACTTAAAAGAGACCACAGAGT
Found at i:5268948 original size:27 final size:27
Alignment explanation
Indices: 5268917--5269034 Score: 121
Period size: 27 Copynumber: 4.2 Consensus size: 27
5268907 TGAAAAGAAA
5268917 AAGGTGCCACTGACTTGTGGGCTTTTG
1 AAGGTGCCACTGACTTGTGGGCTTTTG
* * *
5268944 AAGGTTACCACTGACTTATGGGC-TTTA
1 AAGG-TGCCACTGACTTGTGGGCTTTTG
*
5268971 AAGGTTGCCACTGGCTTGTGGGCTTTTG
1 AAGG-TGCCACTGACTTGTGGGCTTTTG
* * *
5268999 AAAAAGATGCCACTGATTTGTGGGCTTTGG
1 ---AAGGTGCCACTGACTTGTGGGCTTTTG
5269029 AAGGTG
1 AAGGTG
5269035 AGGAATGCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
27 32 0.43
28 19 0.26
30 20 0.27
31 3 0.04
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.32
Consensus pattern (27 bp):
AAGGTGCCACTGACTTGTGGGCTTTTG
Found at i:5269434 original size:37 final size:37
Alignment explanation
Indices: 5269392--5269476 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
5269382 AAAGATGAAG
5269392 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
*
5269429 CACAAATGCATCTTGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
*
5269466 CACGAATGCAT
1 CACAAATGCAT
5269477 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:5270274 original size:270 final size:271
Alignment explanation
Indices: 5269793--5270330 Score: 1069
Period size: 270 Copynumber: 2.0 Consensus size: 271
5269783 ATTTGAAAGG
5269793 TTCAATTATTCTCCCGACACTGGAAGGCTTTGTCAACAATCTAGAGGCTGTTTGCCTAATCTGGT
1 TTCAATTATTCTCCCGACACTGGAAGGCTTTGTCAACAATCTAGAGGCTGTTTGCCTAATCTGGT
5269858 TTACTCTTCTAGTCTTGATAGGATTCTGATAGCAAGTACGGGTCAACTTTGGTTGACTTGAAATG
66 TTACTCTTCTAGTCTTGATAGGATTCTGATAGCAAGTACGGGTCAACTTTGGTTGACTTGAAATG
5269923 GTTTTTCTTGATATGTGGTTGTGAAAGCAAGAAATGAGTTGGTGTTTGGTCATGCTAAATAGGTG
131 GTTTTTCTTGATATGTGGTTGTGAAAGCAAGAAATGAGTTGGTGTTTGGTCATGCTAAATAGGTG
5269988 TTTGGACAAGGGAGGTTCATGATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTGCTTTTCTT
196 TTTGGACAAGGGAGGTTCATGATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTGCTTTTCTT
5270053 TT-CTTTTCCT
261 TTCCTTTTCCT
5270063 TTCAATTATTCTCCCGACACTGGAAGGCTTTGTCAACAATCTAGAGGCTGTTTGCCTAATCTGGT
1 TTCAATTATTCTCCCGACACTGGAAGGCTTTGTCAACAATCTAGAGGCTGTTTGCCTAATCTGGT
5270128 TTACTCTTCTAGTCTTGATAGGATTCTGATAGCAAGTACGGGTCAACTTTGGTTGACTTGAAATG
66 TTACTCTTCTAGTCTTGATAGGATTCTGATAGCAAGTACGGGTCAACTTTGGTTGACTTGAAATG
5270193 GTTTTTCTTGATATGTGGTTGTGAAAGCAAGAAATGAGTTGGTGTTTGGTCATGCTAAATAGGTG
131 GTTTTTCTTGATATGTGGTTGTGAAAGCAAGAAATGAGTTGGTGTTTGGTCATGCTAAATAGGTG
5270258 TTTGGACAAGGGAGGTTCATGATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTGCTTTTCTT
196 TTTGGACAAGGGAGGTTCATGATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTGCTTTTCTT
5270323 TTCCTTTT
261 TTCCTTTT
5270331 AATATAATTT
Statistics
Matches: 267, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
270 262 0.98
271 5 0.02
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (271 bp):
TTCAATTATTCTCCCGACACTGGAAGGCTTTGTCAACAATCTAGAGGCTGTTTGCCTAATCTGGT
TTACTCTTCTAGTCTTGATAGGATTCTGATAGCAAGTACGGGTCAACTTTGGTTGACTTGAAATG
GTTTTTCTTGATATGTGGTTGTGAAAGCAAGAAATGAGTTGGTGTTTGGTCATGCTAAATAGGTG
TTTGGACAAGGGAGGTTCATGATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTGCTTTTCTT
TTCCTTTTCCT
Found at i:5270792 original size:8 final size:8
Alignment explanation
Indices: 5270770--5270805 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
5270760 ATTCGCACCC
5270770 TTTTTG-T
1 TTTTTGTT
*
5270777 TGTTTGTT
1 TTTTTGTT
5270785 TTTTTGTT
1 TTTTTGTT
5270793 TTTTTGTT
1 TTTTTGTT
5270801 TTTTT
1 TTTTT
5270806 TTGCGGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (8 bp):
TTTTTGTT
Found at i:5270799 original size:20 final size:20
Alignment explanation
Indices: 5270770--5270807 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
5270760 ATTCGCACCC
5270770 TTTTTGTTGTTTGTTTTTTTG
1 TTTTTGTTGTTT-TTTTTTTG
5270791 TTTTT-TTGTTTTTTTTT
1 TTTTTGTTGTTTTTTTTT
5270808 GCGGAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (20 bp):
TTTTTGTTGTTTTTTTTTTG
Found at i:5282099 original size:199 final size:199
Alignment explanation
Indices: 5281746--5282140 Score: 675
Period size: 199 Copynumber: 2.0 Consensus size: 199
5281736 TCTTCAATGG
* * *
5281746 TCACTATGAAGTGACCGAAATTTTGGAGTCGCCACCAATCATTTCGGGCTAGGCATGATCGGATG
1 TCACTACGAAGTAACCGAAATTTAGGAGTCGCCACCAATCATTTCGGGCTAGGCATGATCGGATG
5281811 CCTATTGAAACCGATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTTA
66 CCTATTGAAACCGATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTTA
* * *
5281876 GAGATTCGTCGGTTGAGTTCAGGAGTTGGTTACGCGCAAAAAGGTACGTACCTCCTCGCGATGCC
131 GAGATTCGTCAGTTGAGTTCAGGAGTTGGTTACACGCAAAAAGGTACGAACCTCCTCGCGATGCC
5281941 CAAT
196 CAAT
* *
5281945 TCACTACGAAGTAACCGAAATTTAGGAGTCGCCACCGATCATTTTGGGCTAGGCATGATCGGATG
1 TCACTACGAAGTAACCGAAATTTAGGAGTCGCCACCAATCATTTCGGGCTAGGCATGATCGGATG
* *
5282010 CCTATTGAAACCTATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTATGTAATTTA
66 CCTATTGAAACCGATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTTA
*
5282075 GAGATTCGTCAGTT-AGGTTCAGGAGTTGGTTACACGCAAAGAGGTACGAACCTCCTCGCGATGC
131 GAGATTCGTCAGTTGA-GTTCAGGAGTTGGTTACACGCAAAAAGGTACGAACCTCCTCGCGATGC
5282139 CC
195 CC
5282141 GAAATTGGTA
Statistics
Matches: 184, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 1 0.01
199 183 0.99
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (199 bp):
TCACTACGAAGTAACCGAAATTTAGGAGTCGCCACCAATCATTTCGGGCTAGGCATGATCGGATG
CCTATTGAAACCGATGTCTTGAGTTACGAAACTCAAAACATCGATCCCGTGGTCTACGTAATTTA
GAGATTCGTCAGTTGAGTTCAGGAGTTGGTTACACGCAAAAAGGTACGAACCTCCTCGCGATGCC
CAAT
Found at i:5289226 original size:19 final size:21
Alignment explanation
Indices: 5289188--5289228 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
5289178 AAGTATAGAA
5289188 GTTTTTCAAGCATAAAAATAAT
1 GTTTTTCAAG-ATAAAAATAAT
5289210 GTTTTTCAAG-T-AAAATAAT
1 GTTTTTCAAGATAAAAATAAT
5289229 TCAAAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
22 10 0.53
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (21 bp):
GTTTTTCAAGATAAAAATAAT
Found at i:5289617 original size:19 final size:20
Alignment explanation
Indices: 5289593--5289646 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
5289583 ACATTATGCT
**
5289593 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
5289612 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
*
5289632 TTGTATCGATTCATG
1 TTGTATCGATACATG
5289647 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:5295876 original size:20 final size:22
Alignment explanation
Indices: 5295842--5295882 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
5295832 ACAAATTTCC
*
5295842 TCATTTTTACTTC-AAATCACT
1 TCATTTTTACATCAAAATCACT
5295863 TCATTTTT-CATCAAAATCAC
1 TCATTTTTACATCAAAATCAC
5295883 CAACAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTTTTACATCAAAATCACT
Found at i:5303123 original size:27 final size:27
Alignment explanation
Indices: 5303072--5303126 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
5303062 GAAGTGCCTA
* *
5303072 AAGGCAATTGAGGGGAACAATAAGTTT
1 AAGGCAATTGAAGGGAACAACAAGTTT
**
5303099 AAGGCAATTGAAGGGAATGACAAGTTT
1 AAGGCAATTGAAGGGAACAACAAGTTT
5303126 A
1 A
5303127 GAGCCATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (27 bp):
AAGGCAATTGAAGGGAACAACAAGTTT
Found at i:5305105 original size:24 final size:22
Alignment explanation
Indices: 5305056--5305098 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5305046 ATTCAAAGCA
*
5305056 AAAGCACAAAAATAAGAAACAC
1 AAAGCACAAAAATAAGAAAAAC
5305078 AAAGCACAAAAA-AATGAAAAA
1 AAAGCACAAAAATAA-GAAAAA
5305099 GGCAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.72, C:0.14, G:0.09, T:0.05
Consensus pattern (22 bp):
AAAGCACAAAAATAAGAAAAAC
Found at i:5306622 original size:30 final size:30
Alignment explanation
Indices: 5306572--5306707 Score: 141
Period size: 30 Copynumber: 4.6 Consensus size: 30
5306562 AAACTCCATG
* *
5306572 ACTCAGTGGCA-CCATTCTCAAAGCCTACA
1 ACTCCGTGGCACCCCTTCTCAAAGCCTACA
* *
5306601 ACTCTGTGGCACCCCTTCTCAAAGTCTACA
1 ACTCCGTGGCACCCCTTCTCAAAGCCTACA
* * *
5306631 ACTCCATGGCACTCCTTCTCAAAGTCC-ATA
1 ACTCCGTGGCACCCCTTCTCAAAG-CCTACA
* * *
5306661 ACTCCGTGGCACCCTTTCTTAAAGTCTACA
1 ACTCCGTGGCACCCCTTCTCAAAGCCTACA
* *
5306691 ACTCCATGACACCCCTT
1 ACTCCGTGGCACCCCTT
5306708 TAAAGTCCAT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
29 11 0.13
30 75 0.86
31 1 0.01
ACGTcount: A:0.26, C:0.37, G:0.12, T:0.26
Consensus pattern (30 bp):
ACTCCGTGGCACCCCTTCTCAAAGCCTACA
Found at i:5306742 original size:30 final size:29
Alignment explanation
Indices: 5306598--5307648 Score: 796
Period size: 30 Copynumber: 35.7 Consensus size: 29
5306588 CTCAAAGCCT
* * * *
5306598 ACAACTCTGTGGCACCCCTTCTCAAAGTCT
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* * *
5306628 ACAACTCCATGGCACTCCTTCTCAAAGTCC
1 ACAACTCTATGGCAC-CCTTTTTAAAGTCC
* ** *
5306658 ATAACTCCGTGGCACCCTTTCTTAAAGTCT
1 ACAACTCTATGGCACCCTTT-TTAAAGTCC
* * *
5306688 ACAACTCCATGACACCC-CTTTAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
*
5306716 ATAACTCTATGGCATCCCTTTTTAAAGTCC
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* * * * * * **
5306746 ATAACTCCATAGCATCATTTTCAAAGTTA
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
* * *
5306775 ACAACTTTGTGGCAATCCTTTTTAAAGTCC
1 ACAACTCTATGGC-ACCCTTTTTAAAGTCC
* * * * *
5306805 ATAATTCCATGGCACCCTTTTAAAAGTCT
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
* * *
5306834 ACAACTCCATGACACCCATTTTAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
*
5306863 ACAACTCCATGGCATCCCTTTTTAAAGTCC
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* * * * *
5306893 ATAACTCCATAGCACCCTTTTCAAAGTTC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
* *
5306922 ACAACTCTGTGGCAACCCTTTTTAAAATCC
1 ACAACTCTATGGC-ACCCTTTTTAAAGTCC
* * * * *
5306952 ATAATTCCATGGCACCCGTTTAAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
*
5306981 ACAACTC-ATGGCACCCCTTTTAAAAGTCC
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
** **
5307010 ACAACTCCGTGGCAACCCTTTTTAGTGTCC
1 ACAACTCTATGGC-ACCCTTTTTAAAGTCC
* * * *
5307040 ATAATTCCATGGCACCCTTTTAAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
*
5307069 ACAACTC-GTGGCAGCCCTTTTTAAAGTCC
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* * **
5307098 ACAA-TTTCGTGGCACCCCATTTAAAGTCC
1 ACAACTCT-ATGGCACCCTTTTTAAAGTCC
* * *
5307127 ACAACTATATGGCACCCTTTTCTAAATTTC
1 ACAACTCTATGGCACCCTTTT-TAAAGTCC
*
5307157 ACAACTCTATGGCACCTTTTTTTAAAGTCC
1 ACAACTCTATGGCACC-CTTTTTAAAGTCC
* * *
5307187 ACAACTCTATGGCACCCCTTTTCAAATTTC
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* *
5307217 ACAACTCCATGACA-CCTATTTTCAAAGTCC
1 ACAACTCTATGGCACCCT-TTTT-AAAGTCC
* *
5307247 ACAACTCCT-TGGCACCCCCTTTTAAAGTCT
1 ACAACT-CTATGGCA-CCCTTTTTAAAGTCC
*
5307277 ATAACTCTATGGCACCC-TTTTAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
* *
5307305 ACAACTCTGTGGCAACCCTTTTTAATGTCC
1 ACAACTCTATGGC-ACCCTTTTTAAAGTCC
* * * *
5307335 ATAATTCCATGGCACCCTTTTAAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
* *
5307364 ACAACTC-GTGGCAGCCCTTTTTAAAGTCT
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* * **
5307393 ACAA-TTTCGTGGCACCCCATTTAAAGTCC
1 ACAACTCT-ATGGCACCCTTTTTAAAGTCC
* *
5307422 ACAACTATATGGCACCCTTTTCTAAAGTTC
1 ACAACTCTATGGCACCCTTTT-TAAAGTCC
**
5307452 ACAACTCTATGGCACTTTTTTTTAAAGTCC
1 ACAACTCTATGGCAC-CCTTTTTAAAGTCC
* * * *
5307482 ACAACTCTATGGCACCCCCTTTCAAATTTC
1 ACAACTCTATGGCA-CCCTTTTTAAAGTCC
* * **
5307512 ACAACTCCATGGCA-CTTATTTTCCTAGTCC
1 ACAACTCTATGGCACCCT-TTTT-AAAGTCC
* *
5307542 ACAACTCCT-TGGCACCCCCTTTTAAAGTCT
1 ACAACT-CTATGGCA-CCCTTTTTAAAGTCC
* *
5307572 ATAACTCTGTGGCACCC-TTTTAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
* * * *
5307600 ACAAATATGTGGCA-CTTTTTTAAAGTCC
1 ACAACTCTATGGCACCCTTTTTAAAGTCC
*
5307628 ACAACTCCATGGCACCTCTTT
1 ACAACTCTATGGCACC-CTTT
5307649 CAAAGTCTAC
Statistics
Matches: 810, Mismatches: 170, Indels: 82
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.00
28 104 0.13
29 283 0.35
30 397 0.49
31 22 0.03
32 3 0.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (29 bp):
ACAACTCTATGGCACCCTTTTTAAAGTCC
Found at i:5306857 original size:147 final size:145
Alignment explanation
Indices: 5306607--5307654 Score: 952
Period size: 147 Copynumber: 7.1 Consensus size: 145
5306597 TACAACTCTG
* * * * * * *
5306607 TGGCACCCCTTCTCAAAG-TCTACAACTCCATGGC-ACTCCTTCTCAAAGTCCATAACTCCGTGG
1 TGGCA-CCCTTTTCAAAGTTC-ACAACTTCGTGGCAAC-CCTTTTTAAAGTCCACAATTCCGTGG
* * * * *
5306670 CACCCTTTCTTAAAGTCTACAACTCCATGACACCCCTTTAAAGTCCATAACTCTATGGCATCCCT
63 CACCCCTT-TTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCTATGGCA-CCCT
5306735 TTTTAAAGTCCATAACTCCA
126 TTTTAAAGTCCATAACTCCA
* * * * * * * *
5306755 TAGCATCATTTTCAAAGTTAACAACTTTGTGGCAATCCTTTTTAAAGTCCATAATTCCATGGCA-
1 TGGCACCCTTTTCAAAGTTCACAACTTCGTGGCAACCCTTTTTAAAGTCCACAATTCCGTGGCAC
* * *
5306819 CCCTTTTAAAAGTCTACAACTCCATGACACCCATTTTAAAGTCCACAACTCCATGGCATCCCTTT
66 CCCTTTT-AAAGTCCACAACTCCATGGCACCC-TTTTAAAGTCCACAACTCTATGGCA-CCCTTT
5306884 TTAAAGTCCATAACTCCA
128 TTAAAGTCCATAACTCCA
* * * *
5306902 TAGCACCCTTTTCAAAGTTCACAAC-TCTGTGGCAACCCTTTTTAAAATCCATAATTCCATGGCA
1 TGGCACCCTTTTCAAAGTTCACAACTTC-GTGGCAACCCTTTTTAAAGTCCACAATTCCGTGGCA
* * **
5306966 CCCGTTTAAAAGTCCACAACT-CATGGCACCCCTTTTAAAAGTCCACAACTCCGTGGCAACCCTT
65 CCCCTTTTAAAGTCCACAACTCCATGGCA-CCCTTTT-AAAGTCCACAACTCTATGGC-ACCCTT
** *
5307030 TTTAGTGTCCATAATTCCA
127 TTTAAAGTCCATAACTCCA
* * * *
5307049 TGGCACCCTTTTAAAAGTCCACAAC-TCGTGGCAGCCCTTTTTAAAGTCCACAATTTCGTGGCAC
1 TGGCACCCTTTTCAAAGTTCACAACTTCGTGGCAACCCTTTTTAAAGTCCACAATTCCGTGGCAC
* ** * * *
5307113 CCCATTTAAAGTCCACAACTATATGGCACCCTTTTCTAAATTTCACAACTCTATGGCACCTTTTT
66 CCCTTTTAAAGTCCACAACTCCATGGCACCC-TTT-TAAAGTCCACAACTCTATGGCACC-CTTT
* *
5307178 TTAAAGTCCACAACTCTA
128 TTAAAGTCCATAACTCCA
* * * * * *
5307196 TGGCACCCCTTTTCAAATTTCACAACTCCATGAC-A-CCTATTTTCAAAGTCCACAACTCCTTGG
1 TGGCA-CCCTTTTCAAAGTTCACAACTTCGTGGCAACCCT-TTTT-AAAGTCCACAATTCCGTGG
* * * *
5307259 CACCCCCTTTTAAAGTCTATAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGGCAACCCT
63 CA-CCCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCTATGGC-ACCCT
* *
5307324 TTTTAATGTCCATAATTCCA
126 TTTTAAAGTCCATAACTCCA
* * * * *
5307344 TGGCACCCTTTTAAAAGTCCACAAC-TCGTGGCAGCCCTTTTTAAAGTCTACAATTTCGTGGCAC
1 TGGCACCCTTTTCAAAGTTCACAACTTCGTGGCAACCCTTTTTAAAGTCCACAATTCCGTGGCAC
* ** * **
5307408 CCCATTTAAAGTCCACAACTATATGGCACCCTTTTCTAAAGTTCACAACTCTATGGCACTTTTTT
66 CCCTTTTAAAGTCCACAACTCCATGGCACCC-TTT-TAAAGTCCACAACTCTATGGCAC-CCTTT
* *
5307473 TTAAAGTCCACAACTCTA
128 TTAAAGTCCATAACTCCA
* * * * * ** * *
5307491 TGGCACCCCCTTTCAAATTTCACAACTCCATGGC-A-CTTATTTTCCTAGTCCACAACTCCTTGG
1 TGGCA-CCCTTTTCAAAGTTCACAACTTCGTGGCAACCCT-TTTT-AAAGTCCACAATTCCGTGG
* * ** * * * *
5307554 CACCCCCTTTTAAAGTCTATAACTCTGTGGCACCCTTTTAAAGTCCACAAATATGTGGCA-CTTT
63 CA-CCCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCTATGGCACCCTT
*
5307618 TTTAAAGTCCACAACTCCA
127 TTTAAAGTCCATAACTCCA
5307637 TGGCA-CCTCTTTCAAAGT
1 TGGCACCCT-TTTCAAAGT
5307655 CTACACGAGC
Statistics
Matches: 745, Mismatches: 125, Indels: 63
0.80 0.13 0.07
Matches are distributed among these distances:
144 2 0.00
145 38 0.05
146 146 0.20
147 338 0.45
148 115 0.15
149 51 0.07
150 55 0.07
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (145 bp):
TGGCACCCTTTTCAAAGTTCACAACTTCGTGGCAACCCTTTTTAAAGTCCACAATTCCGTGGCAC
CCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTTA
AAGTCCATAACTCCA
Found at i:5307306 original size:295 final size:294
Alignment explanation
Indices: 5306598--5307648 Score: 1287
Period size: 295 Copynumber: 3.6 Consensus size: 294
5306588 CTCAAAGCCT
* * * * * *
5306598 ACAACTCTGTGGCACCCCTTCTCAAA-GTCTACAACTCCATGGCA-CTCCTTCTCAAAGTCCATA
1 ACAACTCTATGGCACCCCTTTTCAAATTTC-ACAACTCCATGGCACCT-ATTTTCAAAGTCCACA
* * * * * * *
5306661 ACTCCGTGGCACCCTTTCTTAAAGTCTACAACTCCATGACACCCCTTTAAAGTCCATAACTCTAT
64 ACTCCTTGGCACCCCTT-TTAAAGTCTACAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGT
* * * * * * * ** * **
5306726 GGCATCCCTTTTTAAAGTCCATAACTCCATAGCATCATTTTCAAAGTTAACAACTTTGTGGCAAT
128 GGCAACCCTTTTTAATGTCCATAATTCCATGGCACCCTTTTAAAAGTCCACAAC-TCGTGGCAGC
* * * * * ** * *
5306791 CCTTTTTAAAGTCCATAATTCCATGGCA-CCCTTTTAAAAGTCTACAACTCCATGACACCCATTT
192 CCTTTTTAAAGTCCACAATTTCGTGGCACCCCATTT-AAAGTCCACAACTATATGGCACCCTTTT
* * *
5306855 -TAAAGTCCACAACTCCATGGCATCC-CTTTTTAAAGTCC
256 CTAAAGTTCACAACTCTATGGCA-CCTTTTTTTAAAGTCC
* * * * ** * *
5306893 ATAACTCCATAGCA-CCCTTTTCAAAGTTCACAACTCTGTGGCAACCCT-TTTT-AAAATCCATA
1 ACAACTCTATGGCACCCCTTTTCAAATTTCACAACTCCATGGC-A-CCTATTTTCAAAGTCCACA
* * * * * *
5306955 ATTCCATGGCACCCGTTTAAAAGTCCACAACTC-ATGGCACCCCTTTTAAAAGTCCACAACTCCG
64 ACTCCTTGGCACCCCTTTTAAAGTCTACAACTCTATGGCA-CCCTTTT-AAAGTCCACAACTCTG
*
5307019 TGGCAACCCTTTTTAGTGTCCATAATTCCATGGCACCCTTTTAAAAGTCCACAACTCGTGGCAGC
127 TGGCAACCCTTTTTAATGTCCATAATTCCATGGCACCCTTTTAAAAGTCCACAACTCGTGGCAGC
5307084 CCTTTTTAAAGTCCACAATTTCGTGGCACCCCATTTAAAGTCCACAACTATATGGCACCCTTTTC
192 CCTTTTTAAAGTCCACAATTTCGTGGCACCCCATTTAAAGTCCACAACTATATGGCACCCTTTTC
*
5307149 TAAATTTCACAACTCTATGGCACCTTTTTTTAAAGTCC
257 TAAAGTTCACAACTCTATGGCACCTTTTTTTAAAGTCC
*
5307187 ACAACTCTATGGCACCCCTTTTCAAATTTCACAACTCCATGACACCTATTTTCAAAGTCCACAAC
1 ACAACTCTATGGCACCCCTTTTCAAATTTCACAACTCCATGGCACCTATTTTCAAAGTCCACAAC
*
5307252 TCCTTGGCACCCCCTTTTAAAGTCTATAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGG
66 TCCTTGGCA-CCCCTTTTAAAGTCTACAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGG
5307317 CAACCCTTTTTAATGTCCATAATTCCATGGCACCCTTTTAAAAGTCCACAACTCGTGGCAGCCCT
130 CAACCCTTTTTAATGTCCATAATTCCATGGCACCCTTTTAAAAGTCCACAACTCGTGGCAGCCCT
*
5307382 TTTTAAAGTCTACAATTTCGTGGCACCCCATTTAAAGTCCACAACTATATGGCACCCTTTTCTAA
195 TTTTAAAGTCCACAATTTCGTGGCACCCCATTTAAAGTCCACAACTATATGGCACCCTTTTCTAA
*
5307447 AGTTCACAACTCTATGGCACTTTTTTTTAAAGTCC
260 AGTTCACAACTCTATGGCACCTTTTTTTAAAGTCC
* * **
5307482 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTTATTTTCCTAGTCCACAAC
1 ACAACTCTATGGCACCCCTTTTCAAATTTCACAACTCCATGGCACCTATTTTCAAAGTCCACAAC
* * * *
5307547 TCCTTGGCACCCCCTTTTAAAGTCTATAACTCTGTGGCACCCTTTTAAAGTCCACAAATATGTGG
66 TCCTTGGCA-CCCCTTTTAAAGTCTACAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGG
* * * *
5307612 C-A-CTTTTTTAAAGTCCACAACTCCATGGCACCTCTTT
130 CAACCCTTTTTAATGTCCATAATTCCATGGCACC-CTTT
5307649 CAAAGTCTAC
Statistics
Matches: 663, Mismatches: 78, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
292 5 0.01
293 106 0.16
294 160 0.24
295 359 0.54
296 25 0.04
297 8 0.01
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (294 bp):
ACAACTCTATGGCACCCCTTTTCAAATTTCACAACTCCATGGCACCTATTTTCAAAGTCCACAAC
TCCTTGGCACCCCTTTTAAAGTCTACAACTCTATGGCACCCTTTTAAAGTCCACAACTCTGTGGC
AACCCTTTTTAATGTCCATAATTCCATGGCACCCTTTTAAAAGTCCACAACTCGTGGCAGCCCTT
TTTAAAGTCCACAATTTCGTGGCACCCCATTTAAAGTCCACAACTATATGGCACCCTTTTCTAAA
GTTCACAACTCTATGGCACCTTTTTTTAAAGTCC
Found at i:5307528 original size:60 final size:59
Alignment explanation
Indices: 5306598--5307603 Score: 462
Period size: 59 Copynumber: 17.1 Consensus size: 59
5306588 CTCAAAGCCT
* * * *
5306598 ACAACTCTGTGGCA-CCCCTTCTCAAA-GTCTACAACTCCATGGCACTCCTTCTCAAAGTCC
1 ACAACTCTATGGCACCCCCTT-TCAAATTTC-ACAACTCCATGGCACT-CTTTTTAAAGTCC
* ** * * **
5306658 ATAACTCCGTGGCA--CCCTTTCTTAAA-GTCTACAACTCCATGACAC-CCCTTTAAAGTCC
1 ACAACTCTATGGCACCCCCTTTC--AAATTTC-ACAACTCCATGGCACTCTTTTTAAAGTCC
* * * * * * * * * **
5306716 ATAACTCTATGGCATCCCTTTTTAAAGTCCATAACTCCATAGCA-TCATTTTCAAAGTTA
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTC-TTTTTAAAGTCC
* * ** * * * * * * * * *
5306775 ACAACTTTGTGGCAATCCTTTTTAAAGTCCATAATTCCATGGCACCCTTTTAAAAGTCT
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTCTTTTTAAAGTCC
* * * * * * *
5306834 ACAACTCCATGACA-CCCATTTTAAAGTCCACAACTCCATGGCATCCCTTTTTAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCA-CTCTTTTTAAAGTCC
* * * * * ** * *
5306893 ATAACTCCATAGCA-CCCTTTTCAAAGTTCACAACTCTGTGGCAACCCTTTTTAAAATCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGC-ACTCTTTTTAAAGTCC
* * * * * * * * *
5306952 ATAATTCCATGGCA-CCCGTTTAAAAGTCCACAACT-CATGGCACCCCTTTTAAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCA-CTCTTTTTAAAGTCC
** * ** * * * * * *
5307010 ACAACTCCGTGGCA-ACCCTTTTTAGTGTCCATAATTCCATGGCACCCTTTTAAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAAT-TTCACAACTCCATGGCACTCTTTTTAAAGTCC
* * * * * * * * * * **
5307069 ACAACTC-GTGGCAGCCCTTTTTAAAGTCCACAATTTCGTGGCACCCCATTTAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTCTTTTTAAAGTCC
* * * *
5307127 ACAACTATATGGCA-CCCTTTTCTAAATTTCACAACTCTATGGCACCTTTTTTTAAAGTCC
1 ACAACTCTATGGCACCCCCTTTC-AAATTTCACAACTCCATGGCA-CTCTTTTTAAAGTCC
* *
5307187 ACAACTCTATGGCACCCCTTTTCAAATTTCACAACTCCATGACAC-CTATTTTCAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTCT-TTTT-AAAGTCC
* * * * *
5307247 ACAACTCCT-TGGCACCCCCTTTTAAA-GTCTATAACTCTATGGCAC-CCTTTTAAAGTCC
1 ACAACT-CTATGGCACCCCCTTTCAAATTTC-ACAACTCCATGGCACTCTTTTTAAAGTCC
* * ** * * * * *
5307305 ACAACTCTGTGGCA-ACCCTTTTTAATGTCCATAATTCCATGGCACCCTTTTAAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAAT-TTCACAACTCCATGGCACTCTTTTTAAAGTCC
* * * * * * * * * **
5307364 ACAACTC-GTGGCAGCCCTTTTTAAA-GTCTACAATTTCGTGGCACCCCATTTAAAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTC-ACAACTCCATGGCACTCTTTTTAAAGTCC
* * * * *
5307422 ACAACTATATGGCA-CCCTTTTCTAAAGTTCACAACTCTATGGCACTTTTTTTTAAAGTCC
1 ACAACTCTATGGCACCCCCTTTC-AAATTTCACAACTCCATGGCAC-TCTTTTTAAAGTCC
**
5307482 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACT-TATTTTCCTAGTCC
1 ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTCT-TTTT-AAAGTCC
* * * ** *
5307542 ACAACTCCT-TGGCACCCCCTTTTAAA-GTCTATAACTCTGTGGCAC-CCTTTTAAAGTCC
1 ACAACT-CTATGGCACCCCCTTTCAAATTTC-ACAACTCCATGGCACTCTTTTTAAAGTCC
5307600 ACAA
1 ACAA
5307604 ATATGTGGCA
Statistics
Matches: 757, Mismatches: 151, Indels: 78
0.77 0.15 0.08
Matches are distributed among these distances:
57 13 0.02
58 226 0.30
59 284 0.38
60 215 0.28
61 19 0.03
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (59 bp):
ACAACTCTATGGCACCCCCTTTCAAATTTCACAACTCCATGGCACTCTTTTTAAAGTCC
Found at i:5307676 original size:29 final size:30
Alignment explanation
Indices: 5307644--5307707 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
5307634 CCATGGCACC
* *
5307644 TCTT-TCAAAGTCTACACGAGCTGGTGGCA
1 TCTTCTCAAAGTCCACACGAGCTGGCGGCA
*
5307673 TCTTTTCTCAAAGTCCACATGAGCTGGCGGCA
1 TC--TTCTCAAAGTCCACACGAGCTGGCGGCA
5307705 TCT
1 TCT
5307708 AAAAAGCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
29 2 0.07
30 1 0.03
31 2 0.07
32 24 0.83
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (30 bp):
TCTTCTCAAAGTCCACACGAGCTGGCGGCA
Found at i:5307954 original size:52 final size:52
Alignment explanation
Indices: 5307883--5308214 Score: 317
Period size: 52 Copynumber: 6.4 Consensus size: 52
5307873 CCAATCTCAT
* * *
5307883 TGGCCTTGGATCAGCACATTGGCACTCTTATCAACTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCTAATGTCGC
* * ** * * ** *
5307935 TGGCCTTGACTGAATACATTAGCAGTCTCCTCATCTTTAAGTCTAATGTCAC
1 TGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCTAATGTCGC
* * * *
5307987 TGGCCTTGAATCAACACATTGACACT-TGTCTCATCTTTAAGTCTAATGTTGC
1 TGGCCTTGAATCAGCACATTGGCACTCT-TATCATCTTTAAGTCTAATGTCGC
* * * * * *
5308039 TGGCCTTGAATCAGCACATTAGCACCCCTATCATTTTTAAATCTAATGTCGT
1 TGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCTAATGTCGC
* * * * * *
5308091 TGGCCTTGAATCAGTACATTGGCACTCTTTTCATATATAAGTCCAATGTTGC
1 TGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCTAATGTCGC
* * * *
5308143 TAGCCTTGAATCAGCACATTGGCAAC-CTTATCATCTTTAAATCTATTGTTGC
1 TGGCCTTGAATCAGCACATTGGC-ACTCTTATCATCTTTAAGTCTAATGTCGC
* **
5308195 TGCCCTTGAGGCAGCACATT
1 TGGCCTTGAATCAGCACATT
5308215 AGCATCACAC
Statistics
Matches: 223, Mismatches: 54, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
51 1 0.00
52 220 0.99
53 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (52 bp):
TGGCCTTGAATCAGCACATTGGCACTCTTATCATCTTTAAGTCTAATGTCGC
Found at i:5308132 original size:156 final size:156
Alignment explanation
Indices: 5307883--5308218 Score: 377
Period size: 156 Copynumber: 2.2 Consensus size: 156
5307873 CCAATCTCAT
* * * * * * *
5307883 TGGCCTTGGATCAGCACATTGGCACTCTTATCAACTTTAAGTCCAATGTCGCTGGCCTTGACTGA
1 TGGCCTTGAATCAGCACATTAGCACCCCTATCAACTTTAAATCCAATGTCGCTGGCCTTGAATCA
* * * * *
5307948 ATACATTAGCAGTCTCCTCATCTTTAAGTCTAATGTCACTGGCCTTGAATCAACACATTGAC-AC
66 ATACATTAGCACTCTCCTCATATATAAGTCCAATGTCACTAGCCTTGAATCAACACATTGACAAC
* * *
5308012 TTGTCTCATCTTTAAGTCTAATGTTGC
131 CT-TATCATCTTTAAATCTAATGTTGC
** * *
5308039 TGGCCTTGAATCAGCACATTAGCACCCCTATCATTTTTAAATCTAATGTCGTTGGCCTTGAATCA
1 TGGCCTTGAATCAGCACATTAGCACCCCTATCAACTTTAAATCCAATGTCGCTGGCCTTGAATCA
* * ** ** * *
5308104 GTACATTGGCACTCTTTTCATATATAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCAAC
66 ATACATTAGCACTCTCCTCATATATAAGTCCAATGTCACTAGCCTTGAATCAACACATTGACAAC
*
5308169 CTTATCATCTTTAAATCTATTGTTGC
131 CTTATCATCTTTAAATCTAATGTTGC
* **
5308195 TGCCCTTGAGGCAGCACATTAGCA
1 TGGCCTTGAATCAGCACATTAGCA
5308219 TCACACCCTC
Statistics
Matches: 148, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
156 145 0.98
157 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (156 bp):
TGGCCTTGAATCAGCACATTAGCACCCCTATCAACTTTAAATCCAATGTCGCTGGCCTTGAATCA
ATACATTAGCACTCTCCTCATATATAAGTCCAATGTCACTAGCCTTGAATCAACACATTGACAAC
CTTATCATCTTTAAATCTAATGTTGC
Found at i:5310200 original size:13 final size:13
Alignment explanation
Indices: 5310182--5310207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5310172 CTAAATAAGG
5310182 TTTTTTGAGCTAT
1 TTTTTTGAGCTAT
5310195 TTTTTTGAGCTAT
1 TTTTTTGAGCTAT
5310208 ATCTTGAGAT
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:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTTTTGAGCTAT
Found at i:5312405 original size:73 final size:72
Alignment explanation
Indices: 5312300--5312933 Score: 493
Period size: 73 Copynumber: 8.8 Consensus size: 72
5312290 TTCTTTCAAG
* * * * *
5312300 ACTA-AGGTAGATATGTGCCATCAGCTTATGTGAGCTTTGTGGTAGGTAAAAAAAGCTCCTTGCT
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAGAAAAGCT-CTTGCT
*
5312364 CTCTGAGA
65 CTTTGAGA
* * * * *
5312372 ACTAGAGGTAGATAGGTGCTACTAACTTGTGTGAGCTTTGTGGTAGGTAAGAAAAATG-TCCTGC
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAG-AAAA-GCTCTTGC
*
5312436 TCTTTGAGG
64 TCTTTGAGA
* * * * * * *
5312445 ACT-GTAGGTAGATAGGTGCCACCAGCTTGTTTGGGCTTTAAGGTAAGTAAGAAAAGTATCATGA
1 ACTAG-AGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAGAAAAG-CTCTTGC
*
5312509 TCTTTGAAA
64 TCTTTGAGA
* * *
5312518 ACTAGAGGTAGATAGGTGCCACCAACTTGTGTGGGCTTTATGGTAGGTAAAAAAAGCATCTTGCT
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAGAAAAGC-TCTTGCT
5312583 CTTTGA-A
65 CTTTGAGA
* * ** * **
5312590 GATTGGAGGTAGATAGGTGCCATTAGCTTGTAT-AGGCTTTAAAGT-GGTAAGAAAAGCATCTTG
1 -ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGA-GCTTTATGGTAGGTAAGAAAAGC-TCTTG
* *
5312653 TTCTTTGAGG
63 CTCTTTGAGA
* * * * * * *
5312663 ATTAGAGGTAGAAAGGTGCCACCAGCTTATGTAAGCTTTGT-GT-GAGTAAGAAAAGAATCTTAC
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAG-GTAAGAAAAG-CTCTTGC
* * *
5312726 TCCTTAAGG
64 TCTTTGAGA
* ** * * *
5312735 ACTAGAGATAGAT-GGTGTTACCAGCTTGTGTGAGCTTTATGGTACGTAAGAAAAGTACCCTAG-
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAGAAAAG--CTCTTGC
5312798 TCTTTGAGA
64 TCTTTGAGA
* * * * * * *
5312807 ACTATAGGTAGATGGGTGCCACCAGCTTGTGTG-GTTTTGTGGTAGGTAACAAAAGCATCATGTT
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAGAAAAGC-TCTTGCT
5312871 CTTTGATG-
65 CTTTGA-GA
* * * * *
5312879 ACTACAGGTAGATAAGTGCCACTAGCTTATGTG-GACTTTATGGTATGTAAGAAAA
1 ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAG-CTTTATGGTAGGTAAGAAAA
5312934 AACGTTTTGC
Statistics
Matches: 449, Mismatches: 91, Indels: 43
0.77 0.16 0.07
Matches are distributed among these distances:
70 1 0.00
71 28 0.06
72 179 0.40
73 234 0.52
74 6 0.01
75 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (72 bp):
ACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGAGCTTTATGGTAGGTAAGAAAAGCTCTTGCTC
TTTGAGA
Found at i:5312500 original size:146 final size:143
Alignment explanation
Indices: 5312299--5312933 Score: 546
Period size: 146 Copynumber: 4.4 Consensus size: 143
5312289 ATTCTTTCAA
* * * * * * *
5312299 GACTAAGGTAGATATGTGCCATCAGCTTATGTGAGCTTTGTGGTAGGTAAAAAAAGCT-CCTTGC
1 GACTGAGGTAGATAGGTGCCACCAGCTTGTGTGGGCTTTATGGTAGGTAAGAAAAG-TACCTTG-
* * *
5312363 TCTCTGAGAACTAGAGGTAGATAGGTGCTACTAACTTGTGTGAGCTTTGTGGTAGGTAAGAAAAA
64 TCTTTGAGAACTAGAGGTAGATAGGTGCCACCAACTTGTGTGAGCTTTGTGGTAGGTAAGAAAAA
* *
5312428 TGTCCTGCTCTTTGAG
129 -ATCTTGCTCTTTGAG
* * * * *
5312444 GACTGTAGGTAGATAGGTGCCACCAGCTTGTTTGGGCTTTAAGGTAAGTAAGAAAAGTATCATGA
1 GACTG-AGGTAGATAGGTGCCACCAGCTTGTGTGGGCTTTATGGTAGGTAAGAAAAGTACCTTG-
* * *
5312509 TCTTTGAAAACTAGAGGTAGATAGGTGCCACCAACTTGTGTGGGCTTTATGGTAGGTAA-AAAAA
64 TCTTTGAGAACTAGAGGTAGATAGGTGCCACCAACTTGTGTGAGCTTTGTGGTAGGTAAGAAAAA
*
5312573 GCATCTTGCTCTTTGAA
129 --ATCTTGCTCTTTGAG
* ** * * ** * *
5312590 GATTGGAGGTAGATAGGTGCCATTAGCTTGTATAGGCTTTAAAGT-GGTAAGAAAAGCATCTTGT
1 GACT-GAGGTAGATAGGTGCCACCAGCTTGTGTGGGCTTTATGGTAGGTAAGAAAAGTACCTTG-
* * * * * *
5312654 TCTTTGAGGATTAGAGGTAGAAAGGTGCCACCAGCTTATGTAAGCTTTGT-GT-GAGTAAGAAAA
64 TCTTTGAGAACTAGAGGTAGATAGGTGCCACCAACTTGTGTGAGCTTTGTGGTAG-GTAAGAAAA
* * *
5312717 GAATCTTACTCCTTAAG
128 -AATCTTGCTCTTTGAG
* ** * * *
5312734 GACTAGAGATAGAT-GGTGTTACCAGCTTGTGTGAGCTTTATGGTACGTAAGAAAAGTACCCTAG
1 GACT-GAGGTAGATAGGTGCCACCAGCTTGTGTGGGCTTTATGGTAGGTAAGAAAAGTA-CCTTG
* * * * *
5312798 TCTTTGAGAACTATAGGTAGATGGGTGCCACCAGCTTGTGTG-GTTTTGTGGTAGGTAACAAAAG
64 TCTTTGAGAACTAGAGGTAGATAGGTGCCACCAACTTGTGTGAGCTTTGTGGTAGGTAAGAAAA-
* * * *
5312862 CATCATGTTCTTTGAT
128 AATCTTGCTCTTTGAG
* * * * * *
5312878 GACTACAGGTAGATAAGTGCCACTAGCTTATGTGGACTTTATGGTATGTAAGAAAA
1 GACT-GAGGTAGATAGGTGCCACCAGCTTGTGTGGGCTTTATGGTAGGTAAGAAAA
5312934 AACGTTTTGC
Statistics
Matches: 390, Mismatches: 88, Indels: 24
0.78 0.18 0.05
Matches are distributed among these distances:
143 28 0.07
144 106 0.27
145 107 0.27
146 148 0.38
147 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (143 bp):
GACTGAGGTAGATAGGTGCCACCAGCTTGTGTGGGCTTTATGGTAGGTAAGAAAAGTACCTTGTC
TTTGAGAACTAGAGGTAGATAGGTGCCACCAACTTGTGTGAGCTTTGTGGTAGGTAAGAAAAAAT
CTTGCTCTTTGAG
Found at i:5314080 original size:20 final size:20
Alignment explanation
Indices: 5314055--5314129 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
5314045 AATGCCTTTG
*
5314055 TGTATCGATACATGACATTT
1 TGTATCGATACATGACATTA
* * * *
5314075 TGTATCAATACACAGGGCCATGA
1 TGTATCGAT--ACA-TGACATTA
5314098 -GTATCGATACATGACATTA
1 TGTATCGATACATGACATTA
5314117 TGTATCGATACAT
1 TGTATCGATACAT
5314130 AATGCCATGA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
19 5 0.12
20 23 0.55
22 10 0.24
23 4 0.10
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGACATTA
Found at i:5314115 original size:42 final size:42
Alignment explanation
Indices: 5314056--5314146 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
5314046 ATGCCTTTGT
* *
5314056 GTATCGATACATGACATTTTGTATCAATACACAGGGCCATGA
1 GTATCGATACATGACATTATGTATCAATACACAAGGCCATGA
* * *
5314098 GTATCGATACATGACATTATGTATCGATACATAATGCCATGA
1 GTATCGATACATGACATTATGTATCAATACACAAGGCCATGA
5314140 GTATCGA
1 GTATCGA
5314147 AACAATGAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (42 bp):
GTATCGATACATGACATTATGTATCAATACACAAGGCCATGA
Found at i:5314146 original size:22 final size:19
Alignment explanation
Indices: 5314091--5314146 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
5314081 AATACACAGG
5314091 GCCATGAGTATCGATACAT
1 GCCATGAGTATCGATACAT
* *
5314110 GACATTATGTATCGATACATAAT
1 GCCATGA-GTATCGATAC---AT
5314133 GCCATGAGTATCGA
1 GCCATGAGTATCGA
5314147 AACAATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.17
20 10 0.34
22 7 0.24
23 7 0.24
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (19 bp):
GCCATGAGTATCGATACAT
Found at i:5316851 original size:64 final size:63
Alignment explanation
Indices: 5316728--5316851 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
5316718 AAACTACTCA
* * * * * *
5316728 AAAATGTTTAAAATAGATCAGAGTATTGAACGATTAAGTATTAGTAGATTTGATCTAAAATAC
1 AAAATCTTTAAAATAGATCAAAGTATTGAACAATTAAGAATTAGTAGAATAGATCTAAAATAC
* * *
5316791 AAAATCTTTAAAATAGATTAAAGTATTGAACAAATTAAGAATTGGTAGAATAGATTTAAAA
1 AAAATCTTTAAAATAGATCAAAGTATTGAAC-AATTAAGAATTAGTAGAATAGATCTAAAA
5316852 CCAAACCCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
63 28 0.55
64 23 0.45
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (63 bp):
AAAATCTTTAAAATAGATCAAAGTATTGAACAATTAAGAATTAGTAGAATAGATCTAAAATAC
Found at i:5317648 original size:11 final size:11
Alignment explanation
Indices: 5317632--5317666 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
5317622 GAGACATTTA
5317632 TATATTTATAT
1 TATATTTATAT
5317643 TATATTTATAT
1 TATATTTATAT
*
5317654 TATGTTTAATAT
1 TATATTT-ATAT
5317666 T
1 T
5317667 TTGACATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
TATATTTATAT
Found at i:5317665 original size:29 final size:29
Alignment explanation
Indices: 5317628--5317704 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
5317618 TTTTGAGACA
5317628 TTTATATATTTATATTATATT-TATATTATG
1 TTTA-ATATTT-TATTATATTATATATTATG
* *
5317658 TTTAATATTTTGA-CATATTATATATTGTG
1 TTTAATATTTT-ATTATATTATATATTATG
5317687 TTTAATTATTTT-TTATAT
1 TTTAA-TATTTTATTATAT
5317705 CTATCTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
28 6 0.15
29 24 0.60
30 10 0.25
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (29 bp):
TTTAATATTTTATTATATTATATATTATG
Found at i:5318467 original size:4 final size:4
Alignment explanation
Indices: 5318460--5318507 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
5318450 AAGCAAGTGC
5318460 AAGA AAGA AAGA AAGA AAGAA AAGA GAA-A AAG- AA-A AAGA AA-A AAGA
1 AAGA AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AAGA AAGA
5318506 AA
1 AA
5318508 AAATTTGCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 9 0.24
4 23 0.61
5 6 0.16
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:5318473 original size:8 final size:7
Alignment explanation
Indices: 5318460--5318510 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
5318450 AAGCAAGTGC
5318460 AAGAAAGA
1 AAGAAA-A
5318468 AAGAAAGA
1 AAGAAA-A
5318476 AAGAAAA
1 AAGAAAA
*
5318483 GAG-AAA
1 AAGAAAA
5318489 AAG-AAA
1 AAGAAAA
5318495 AAGAAAA
1 AAGAAAA
5318502 AAGAAAA
1 AAGAAAA
5318509 AA
1 AA
5318511 TTTGCGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
6 11 0.28
7 15 0.38
8 14 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:5318495 original size:6 final size:6
Alignment explanation
Indices: 5318475--5318509 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
5318465 AGAAAGAAAG
5318475 AAAGAA AAGAGAA AAAGAA AAAGAAA AAAGAA AAA
1 AAAGAA AA-AGAA AAAGAA AAAG-AA AAAGAA AAA
5318510 ATTTGCGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:5318509 original size:13 final size:13
Alignment explanation
Indices: 5318467--5318509 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
5318457 TGCAAGAAAG
5318467 AAAGAAAGAAAG-A
1 AAAGAAA-AAAGAA
5318480 AAAGAGAAAAAGAA
1 AAAGA-AAAAAGAA
5318494 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
5318507 AAA
1 AAA
5318510 ATTTGCGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:5318650 original size:10 final size:10
Alignment explanation
Indices: 5318627--5318668 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
5318617 GTATATAGAG
5318627 AAAGAGAAAGA
1 AAAGAGAAA-A
5318638 AAAGAGAAAA
1 AAAGAGAAAA
5318648 AAAGA-ATAAA
1 AAAGAGA-AAA
5318658 AAATGAGAAAA
1 AAA-GAGAAAA
5318669 TATTGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 1 0.04
10 12 0.43
11 14 0.50
12 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (10 bp):
AAAGAGAAAA
Found at i:5319653 original size:28 final size:28
Alignment explanation
Indices: 5319610--5319663 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
5319600 TTGGTTGAAT
* *
5319610 AATCTCTTTTTGGTTTATAAACTATCAC
1 AATCTCCTTTTAGTTTATAAACTATCAC
5319638 AATCTCCTTTTAGTTTATAAACTATC
1 AATCTCCTTTTAGTTTATAAACTATC
5319664 CTAAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.46
Consensus pattern (28 bp):
AATCTCCTTTTAGTTTATAAACTATCAC
Found at i:5319744 original size:10 final size:10
Alignment explanation
Indices: 5319729--5319761 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
5319719 TTTCTTCAGT
5319729 TCTATCTTCA
1 TCTATCTTCA
5319739 TCTATCTTCA
1 TCTATCTTCA
*
5319749 TCTATCTTAA
1 TCTATCTTCA
5319759 TCT
1 TCT
5319762 TTGTGTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (10 bp):
TCTATCTTCA
Found at i:5323785 original size:27 final size:28
Alignment explanation
Indices: 5323753--5323815 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
5323743 TAATATCAAA
*
5323753 TAAAAATTAAATATTATAA-TGTTAATA-T
1 TAAAAA-TAAATATTA-AATTATTAATATT
*
5323781 TAAAAATATATATTAAATTATTAATATT
1 TAAAAATAAATATTAAATTATTAATATT
5323809 TAAAAAT
1 TAAAAAT
5323816 TTAACCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 15 0.48
28 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
TAAAAATAAATATTAAATTATTAATATT
Found at i:5328603 original size:52 final size:52
Alignment explanation
Indices: 5328455--5328583 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
5328445 CGAAATATGA
5328455 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
5328507 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
5328559 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
5328584 AAGATTAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:5328610 original size:13 final size:13
Alignment explanation
Indices: 5328592--5328616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5328582 CAAAGATTAG
5328592 TGTATCGATACAA
1 TGTATCGATACAA
5328605 TGTATCGATACA
1 TGTATCGATACA
5328617 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5328679 original size:13 final size:13
Alignment explanation
Indices: 5328661--5328712 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
5328651 AGCTTCGTAG
5328661 CGATACATTGTAT
1 CGATACATTGTAT
5328674 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
5328693 CGATACATTGTAT
1 CGATACATTGTAT
5328706 CGATACA
1 CGATACA
5328713 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:5337567 original size:16 final size:16
Alignment explanation
Indices: 5337546--5337598 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
5337536 CATTGACACG
5337546 TGACAATATCATATAC
1 TGACAATATCATATAC
5337562 TGACAATATCATATAC
1 TGACAATATCATATAC
*
5337578 TGACAACATCATATAC
1 TGACAATATCATATAC
5337594 TGACA
1 TGACA
5337599 CGTGATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (16 bp):
TGACAATATCATATAC
Found at i:5339081 original size:6 final size:6
Alignment explanation
Indices: 5339070--5339095 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5339060 GCTCAATAGT
5339070 GAACCA GAACCA GAACCA GAACCA GA
1 GAACCA GAACCA GAACCA GAACCA GA
5339096 CAACGACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.31, G:0.19, T:0.00
Consensus pattern (6 bp):
GAACCA
Found at i:5340222 original size:25 final size:25
Alignment explanation
Indices: 5340187--5340234 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
5340177 ATTCATATTC
5340187 ATATTT-AAAAATAAATAAAAAATAA
1 ATATTTAAAAAAT-AATAAAAAATAA
*
5340212 ATATTTTAAAAATAATAAAAAAT
1 ATATTTAAAAAATAATAAAAAAT
5340235 CGAAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
ATATTTAAAAAATAATAAAAAATAA
Found at i:5340251 original size:15 final size:15
Alignment explanation
Indices: 5340231--5340262 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5340221 AAATAATAAA
*
5340231 AAATCGAAATAACAT
1 AAATCGAAACAACAT
5340246 AAATCGAAACAACAT
1 AAATCGAAACAACAT
5340261 AA
1 AA
5340263 GCGATATCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.16, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATCGAAACAACAT
Found at i:5345951 original size:10 final size:10
Alignment explanation
Indices: 5345936--5345969 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
5345926 AAAAGGGGAA
5345936 GAAGCAAAGC
1 GAAGCAAAGC
5345946 GAAGCAAAGC
1 GAAGCAAAGC
5345956 GAAGCAAAGC
1 GAAGCAAAGC
5345966 -AAGC
1 GAAGC
5345970 CCTTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.50, C:0.21, G:0.29, T:0.00
Consensus pattern (10 bp):
GAAGCAAAGC
Found at i:5347448 original size:24 final size:23
Alignment explanation
Indices: 5347404--5347449 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
5347394 ACTACTAAAA
* *
5347404 TTTTAAAAATTACTTATTTTTTC
1 TTTTAAAAATCACTTACTTTTTC
*
5347427 TTTTAAAAAATCATTTACTTTTT
1 TTTT-AAAAATCACTTACTTTTT
5347450 AAATAACTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTAAAAATCACTTACTTTTTC
Found at i:5347487 original size:19 final size:19
Alignment explanation
Indices: 5347427--5347486 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
5347417 TTATTTTTTC
* * *
5347427 TTTTAAAAAATCATTTACT
1 TTTTAAAAAATTACTTAAT
* * * *
5347446 TTTTAAATAACTACTCAAA
1 TTTTAAAAAATTACTTAAT
5347465 TTTTAAAAAATTACTT-AT
1 TTTTAAAAAATTACTTAAT
5347483 TTTT
1 TTTT
5347487 TCTTAAAAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
18 5 0.17
19 25 0.83
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTAAAAAATTACTTAAT
Found at i:5348529 original size:18 final size:18
Alignment explanation
Indices: 5348487--5348530 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5348477 GTATATTTTC
* **
5348487 TTAAAAAACTCATTACTT
1 TTAAAAAACTAATTAAAT
*
5348505 TTTAAAAACTAATTAAAT
1 TTAAAAAACTAATTAAAT
5348523 TTAAAAAA
1 TTAAAAAA
5348531 TTATCTACTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAAAAAACTAATTAAAT
Found at i:5349866 original size:29 final size:31
Alignment explanation
Indices: 5349808--5349874 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
5349798 CAATATTATT
* *
5349808 TTATTAATATAAATATTAAAAAAAGGTAATA
1 TTATTAGTATAAATATTAAAAAAAGATAATA
5349839 TTATTAGTA-AAATA-TAAAAAATA-ATAATA
1 TTATTAGTATAAATATTAAAAAA-AGATAATA
5349868 TT-TTAGT
1 TTATTAGT
5349875 TGATTTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 5 0.15
29 14 0.42
30 6 0.18
31 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (31 bp):
TTATTAGTATAAATATTAAAAAAAGATAATA
Found at i:5350402 original size:24 final size:24
Alignment explanation
Indices: 5350375--5350430 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
5350365 ACTTTATTTG
*
5350375 ATTTTAATA-AAAAAGCATTTAAAA
1 ATTTTAATACAAAAAGAATTT-AAA
* *
5350399 ATTTTAAAACAAAAAGAATTTAAC
1 ATTTTAATACAAAAAGAATTTAAA
5350423 ATTTTAAT
1 ATTTTAAT
5350431 TTTCAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (24 bp):
ATTTTAATACAAAAAGAATTTAAA
Found at i:5350607 original size:38 final size:38
Alignment explanation
Indices: 5350531--5350610 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
5350521 TTTAAATAAT
* *
5350531 AAATATTTTTAACAATGTTATTATATTAATAAATTTTA
1 AAATATTTTTAACAATGTTATTAGATTAATAAAATTTA
5350569 AAATATTTTTAA-AAT-TT-TTAAGATTGAATCAAAATTTA
1 AAATATTTTTAACAATGTTATT-AGATT-AAT-AAAATTTA
5350607 AAAT
1 AAAT
5350611 TTTGAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
35 2 0.05
36 6 0.16
37 6 0.16
38 23 0.62
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (38 bp):
AAATATTTTTAACAATGTTATTAGATTAATAAAATTTA
Found at i:5350728 original size:31 final size:31
Alignment explanation
Indices: 5350660--5350753 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
5350650 ATAGAAAAAC
* ** * **
5350660 TAAATTCATATTTTGGTATAAGTATAAAGGC
1 TAAATTCATATATTGACATAAGTATAGAGAT
* *
5350691 TGAATTCATAGT-TTGACATAAGTATAGGGAT
1 TAAATTCATA-TATTGACATAAGTATAGAGAT
* *
5350722 TAAATTCGTATATTGACATTAGTATAGAGAT
1 TAAATTCATATATTGACATAAGTATAGAGAT
5350753 T
1 T
5350754 GATAATATCA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 1 0.02
31 48 0.96
32 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.38
Consensus pattern (31 bp):
TAAATTCATATATTGACATAAGTATAGAGAT
Found at i:5351420 original size:20 final size:19
Alignment explanation
Indices: 5351397--5351458 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
5351387 ATTTATTCTT
*
5351397 TATACTAAAAAATTATATAA
1 TATA-TAAAAAATTAAATAA
* *
5351417 TATATATAAATATAAAATAA
1 TATATA-AAAAATTAAATAA
* *
5351437 TATATTATAAAATTAAAAAA
1 TATA-TAAAAAATTAAATAA
5351457 TA
1 TA
5351459 CGTCTAACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TATATAAAAAATTAAATAA
Found at i:5351445 original size:15 final size:17
Alignment explanation
Indices: 5351407--5351449 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
5351397 TATACTAAAA
*
5351407 AATTATATAATATATAT
1 AATTATAAAATATATAT
*
5351424 AAATATAAAATA-ATAT
1 AATTATAAAATATATAT
5351440 -ATTATAAAAT
1 AATTATAAAAT
5351450 TAAAAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTATAAAATATATAT
Found at i:5352713 original size:23 final size:26
Alignment explanation
Indices: 5352676--5352731 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 26
5352666 ATAACATATT
5352676 AGTAATA-T-TATTTAAAA-T-TAAA
1 AGTAATATTCTATTTAAAATTGTAAA
5352698 A-TAATATTCTATTTAAAATTGTAAA
1 AGTAATATTCTATTTAAAATTGTAAA
5352723 AGTAATATT
1 AGTAATATT
5352732 TTAATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.17
22 2 0.07
23 9 0.31
24 1 0.03
25 5 0.17
26 7 0.24
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (26 bp):
AGTAATATTCTATTTAAAATTGTAAA
Found at i:5353283 original size:25 final size:26
Alignment explanation
Indices: 5353249--5353299 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
5353239 CATGACACAT
5353249 GGATGATGAATG-CCTTTCATATAGA
1 GGATGATGAATGTCCTTTCATATAGA
* *
5353274 GGATGATGAATGTCTTTTTATATAGA
1 GGATGATGAATGTCCTTTCATATAGA
5353300 CCTATCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (26 bp):
GGATGATGAATGTCCTTTCATATAGA
Found at i:5353439 original size:16 final size:16
Alignment explanation
Indices: 5353418--5353448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5353408 AAATATGTAA
*
5353418 ATAACTTAAATTCAAG
1 ATAACTTAAACTCAAG
5353434 ATAACTTAAACTCAA
1 ATAACTTAAACTCAA
5353449 AATTGCCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAACTTAAACTCAAG
Found at i:5355210 original size:26 final size:26
Alignment explanation
Indices: 5355161--5355210 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
5355151 CTTATCTAGA
* *
5355161 ATCCTAGATAAAGTTGAACCTTATTC
1 ATCCTAGATAAAGTTAAAACTTATTC
*
5355187 ATCCTAGATAAAGTTAAAATTTAT
1 ATCCTAGATAAAGTTAAAACTTAT
5355211 CAATATCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (26 bp):
ATCCTAGATAAAGTTAAAACTTATTC
Found at i:5356804 original size:165 final size:166
Alignment explanation
Indices: 5356543--5357336 Score: 920
Period size: 165 Copynumber: 4.8 Consensus size: 166
5356533 AAATATGAAA
* * *
5356543 TTTTCTACT-CGTAAATATTTTCGGAAGGAGTTTTCTTGGTTTTTAATTTTTAAAATTCAACAAA
1 TTTTCTACTCCGTAAATGTTTTCGGAAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA
* * * *
5356607 TATTATTATTTAATTTATAGTAAATTATTTTTCAAAAATTCAATTATTTGCATGAGTTTTGAATT
66 TATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCAATTATTTTCATGAGTTTTGAATT
*
5356672 TTTTCTTGAAAATTTTCCTGTTTTTAAAATACAGAG
131 TTTTCTTGAAAATTTTCCTGTTTTTAAAATACGGAG
*
5356708 TTTTCTACTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAATTTTT-AAATTCATCAAA
1 TTTTCTACTCCGTAAATGTTTTCGGAAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA
* * *
5356772 TATTATTATTTAGTTCATATTAAATTATTTTTCAAAAATTC-ATTCATTTTCTTGAGTTTTGAAT
66 TATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCAATT-ATTTTCATGAGTTTTGAAT
* *
5356836 TTTTTCTTGGAAATTTTTCTGTTTCTT-AAATACGGAG
130 TTTTTCTTGAAAATTTTCCTGTTT-TTAAAATACGGAG
* * * *
5356873 TTTTCTACTCCATAAATGTTTTTGG-AGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATTAA
1 TTTTCTACTCCGTAAATGTTTTCGGAAG-GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
5356937 ATATTATTATTTAATTCATATTAAATCT-GTTTTCAAAAATTC-ATTAATTTTCATGAGTTTTGA
65 ATATTATTATTTAATTCATATTAAAT-TAGTTTTCAAAAATTCAATT-ATTTTCATGAGTTTTG-
* **
5357000 AATTTTTT-TTG-AAATTTTCCTATTTTCGAAATACGGAG
127 AATTTTTTCTTGAAAATTTTCCTGTTTTTAAAATACGGAG
* * * *
5357038 TTTTCTACTCTGTAAATGTTTTCGGACA-GATTTTTCTTGGTTTTTATTTTTTAAAGTTTATCAA
1 TTTTCTACTCCGTAAATGTTTTCGGA-AGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * * * * *
5357102 ATATCATAATTTAATTCATATTAAACTAGTTTTGAAAAATT-AATTTATTTTCATAATTTTTGAA
65 ATATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCAA-TTATTTTCATGAGTTTTGAA
* * *
5357166 TTTTTTCTTTGAAATTTTTTC-GTTTTTGAAAA-ACTGAG
129 TTTTTTC-TTGAAAATTTTCCTGTTTTT-AAAATACGGAG
* ** * * * * *
5357204 TTTTCTATTCCACAAATGTTCTCGAAAGGATTTTTCTT-G-CTTAAATTTTTTAAAATTCATCTA
1 TTTTCTACTCCGTAAATGTTTTCGGAAGGATTTTTCTTGGTTTTTAA-TTTTTAAAATTCATCAA
* * * * * *
5357267 ATATTATTATTAAACTC-TCATTAAATTAGTTTTGATAAATTGAATATATTTT-ATGAATTTTGA
65 ATATTATTATTTAATTCAT-ATTAAATTAGTTTTCAAAAATTCAAT-TATTTTCATGAGTTTTGA
5357330 ATTTTTT
128 ATTTTTT
5357337 GTATATATTC
Statistics
Matches: 543, Mismatches: 64, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
164 18 0.03
165 343 0.63
166 162 0.30
167 20 0.04
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (166 bp):
TTTTCTACTCCGTAAATGTTTTCGGAAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA
TATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCAATTATTTTCATGAGTTTTGAATT
TTTTCTTGAAAATTTTCCTGTTTTTAAAATACGGAG
Found at i:5356997 original size:331 final size:329
Alignment explanation
Indices: 5356543--5357336 Score: 962
Period size: 331 Copynumber: 2.4 Consensus size: 329
5356533 AAATATGAAA
* * * * **
5356543 TTTTCTACT-CGTAAATATTTTCGGAAGGAGTTTTCTTGGTTTTTAATTTTTAAAATTCAACAAA
1 TTTTCTACTCCATAAATGTTTTTGGAAGGATTTTTCTT-GTTTTTAATTTTTAAAATTCATTAAA
* * * *
5356607 TATTATTATTTAATTTATAGTAAATTATTTTTCAAAAATTCAATT-ATTTGCATGAGTTTTGAAT
65 TATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTC-ATTAATTTTCATGAGTTTTGAAT
* * **
5356671 TTTTTCTTGAAAATTTTCCTGTTTTTAAAATACAGAGTTTTCTACTCCGTAAATGTTTTCGGAGG
129 TTTTT-TTG-AAATTTTCCTATTTTCAAAATACAGAGTTTTCTACTCCGTAAATGTTTTCGGACA
* * * * *
5356736 GATTTTTCTTGGTTTTTAATTTTTAAA-TTCATCAAATATTATTATTTAGTTCATATTAAATTAT
192 GATTTTTCTTGGTTTTTAATTTTTAAAGTTCATCAAATATCATAATTTAATTCATATTAAACTAG
* * *
5356800 TTTTCAAAAATTCATTCATTTTCTTGAGTTTTGAATTTTTTCTTGGAAA-TTTTTCTGTTTCTT-
257 TTTTCAAAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCTTGGAAATTTTTTC-GTTT-TTG
*
5356863 AAATACGGAG
320 AAAAACGGAG
5356873 TTTTCTACTCCATAAATGTTTTTGG-AGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATTAA
1 TTTTCTACTCCATAAATGTTTTTGGAAG-GATTTTTCTT-GTTTTTAATTTTTAAAATTCATTAA
5356937 ATATTATTATTTAATTCATATTAAATCT-GTTTTCAAAAATTCATTAATTTTCATGAGTTTTGAA
64 ATATTATTATTTAATTCATATTAAAT-TAGTTTTCAAAAATTCATTAATTTTCATGAGTTTTG-A
* * *
5357001 ATTTTTTTTGAAATTTTCCTATTTTCGAAATACGGAGTTTTCTACTCTGTAAATGTTTTCGGACA
127 ATTTTTTTTGAAATTTTCCTATTTTCAAAATACAGAGTTTTCTACTCCGTAAATGTTTTCGGACA
* *
5357066 GATTTTTCTTGGTTTTTATTTTTTAAAGTTTATCAAATATCATAATTTAATTCATATTAAACTAG
192 GATTTTTCTTGGTTTTTAATTTTTAAAGTTCATCAAATATCATAATTTAATTCATATTAAACTAG
* * * *
5357131 TTTTGAAAAATTAATTTATTTTCATAATTTTTGAATTTTTTCTTTGAAATTTTTTCGTTTTTGAA
257 TTTTCAAAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCTTGGAAATTTTTTCGTTTTTGAA
*
5357196 AAACTGAG
322 AAACGGAG
* * * * * * *
5357204 TTTTCTATTCCACAAATGTTCTCGAAAGGATTTTTCTTG-CTTAAATTTTTTAAAATTCATCT-A
1 TTTTCTACTCCATAAATGTTTTTGGAAGGATTTTTCTTGTTTTTAA-TTTTTAAAATTCAT-TAA
* * * * * * *
5357267 ATATTATTATTAAACTC-TCATTAAATTAGTTTTGATAAATTGAATATATTTT-ATGAATTTTGA
64 ATATTATTATTTAATTCAT-ATTAAATTAGTTTTCAAAAATTCATTA-ATTTTCATGAGTTTTGA
5357330 ATTTTTT
127 ATTTTTT
5357337 GTATATATTC
Statistics
Matches: 402, Mismatches: 48, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
329 14 0.03
330 151 0.38
331 220 0.55
332 17 0.04
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (329 bp):
TTTTCTACTCCATAAATGTTTTTGGAAGGATTTTTCTTGTTTTTAATTTTTAAAATTCATTAAAT
ATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTAATTTTCATGAGTTTTGAATTT
TTTTTGAAATTTTCCTATTTTCAAAATACAGAGTTTTCTACTCCGTAAATGTTTTCGGACAGATT
TTTCTTGGTTTTTAATTTTTAAAGTTCATCAAATATCATAATTTAATTCATATTAAACTAGTTTT
CAAAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCTTGGAAATTTTTTCGTTTTTGAAAAAC
GGAG
Found at i:5359493 original size:155 final size:155
Alignment explanation
Indices: 5359089--5359579 Score: 562
Period size: 155 Copynumber: 3.2 Consensus size: 155
5359079 ACTATGATAC
* * ** * * *
5359089 TTTATGTCGAAGGTATACTCATAAAGGCATTTTCGTAATTTTTTATAACTGAGTCCTAGGTTGTC
1 TTTACGTCGAAGGTATAC-CCTAAAGGTGTTTTCGTAATTTTCTAGAACTGAGTCATAGGTTGTC
* * * ** * *
5359154 ATTGAGTTCGCTTTTATGTTGAAGGTGGATATTTAGGATAGGTTCATCCTATCTATAATCATTTT
65 ATCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTT
* * *
5359219 CAACTCTTTTAGAGGGTATCGAGTACT
130 CAAATCTTTTAG-GGGTATCGGGCACT
* * * ** * * *
5359246 TCTACGTCGAAAGTATACCTTAGGGGTGTTTTCATAATTTT-TCAGAA-TCAAGTCATAGGTTAT
1 TTTACGTCGAAGGTATACCCTAAAGGTGTTTTCGTAATTTTCT-AGAACT-GAGTCATAGGTTGT
* *
5359309 CA-CTGGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTGTAATCATT
64 CATC-GGGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATT
*
5359373 TTCAAGTCTTTTAGGGGTATCGGGCACT
128 TTCAAATCTTTTAGGGGTATCGGGCACT
**
5359401 TTTACGTCGAAGGTAT-CCCTAAAGGTGTTTTCGTAATTTTCCTAGAACTGAGTTTTAGGTTGTC
1 TTTACGTCGAAGGTATACCCTAAAGGTGTTTTCGTAATTTT-CTAGAACTGAGTCATAGGTTGTC
* *
5359465 ATCGGGTCCGTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTATAATCATTTT
65 ATCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTT
* * *
5359530 TAAATCTTTTAGAGGTATTGGGCACT
130 CAAATCTTTTAGGGGTATCGGGCACT
*
5359556 TTTACGTCGAAGATAT-CCC-AAAGG
1 TTTACGTCGAAGGTATACCCTAAAGG
5359580 GCATTTTTGC
Statistics
Matches: 283, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
154 25 0.09
155 142 0.50
156 101 0.36
157 15 0.05
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (155 bp):
TTTACGTCGAAGGTATACCCTAAAGGTGTTTTCGTAATTTTCTAGAACTGAGTCATAGGTTGTCA
TCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTTC
AAATCTTTTAGGGGTATCGGGCACT
Found at i:5359656 original size:155 final size:155
Alignment explanation
Indices: 5359175--5359665 Score: 465
Period size: 155 Copynumber: 3.2 Consensus size: 155
5359165 TTTTATGTTG
* * *
5359175 AAGGTGGATATTTAGGATAGGTTCATCCTATCTATAATCATTTTCAACTCTTTTAGAGGGTATCG
1 AAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTTCAAATCTTTTAGA-GGTATCG
* * * * ** ** * * * * *
5359240 AGTACTTCTACGTCGAA-AGTATACCTTAGGGGTGTTTTCATAATTTTTCAGAATC-AAGTCATA
65 GGCACTTTTACGTCGAAGA-TAT-CCCTAAAGGTGTTTTCGCAATTTTCCAAAAACTGAGTCCTA
* * * * * *
5359303 GGTTATCA-CTGGGTCTGCTTTTATGCCG
128 GATTGTCATC-GGGTCCGCTTTCACGCCA
* * *
5359331 AAGGTGGGTATTTAGGATAGGTTCATCCCATCTGTAATCATTTTCAAGTCTTTTAGGGGTATCGG
1 AAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTTCAAATCTTTTAGAGGTATCGG
* * * * ** *
5359396 GCACTTTTACGTCGAAGGTATCCCTAAAGGTGTTTTCGTAATTTTCCTAGAACTGAGTTTTAGGT
66 GCACTTTTACGTCGAAGATATCCCTAAAGGTGTTTTCGCAATTTTCCAAAAACTGAGTCCTAGAT
* * * *
5359461 TGTCATCGGGTCCGTTTTTATGCCG
131 TGTCATCGGGTCCGCTTTCACGCCA
* * *
5359486 AAGGTGGGCATTTAGGATAGGTTCATCCCATCTATAATCATTTTTAAATCTTTTAGAGGTATTGG
1 AAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTTCAAATCTTTTAGAGGTATCGG
* *
5359551 GCACTTTTACGTCGAAGATATCCC-AAAGG-GCATTTTTGCAATCTTCTTCAAAAACTGAGTCCT
66 GCACTTTTACGTCGAAGATATCCCTAAAGGTG--TTTTCGCAAT-TT-TCCAAAAACTGAGTCCT
* *
5359614 A-ATTGTCATCGGGTTCGCTTTCACGTCA
127 AGATTGTCATCGGGTCCGCTTTCACGCCA
5359642 AAGGTGGGTA-TTAGGAGTAGGTTC
1 AAGGTGGGTATTTAGGA-TAGGTTC
5359666 GTCTTTTTGT
Statistics
Matches: 281, Mismatches: 46, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
153 1 0.00
154 28 0.10
155 148 0.53
156 91 0.32
157 13 0.05
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (155 bp):
AAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCATTTTCAAATCTTTTAGAGGTATCGG
GCACTTTTACGTCGAAGATATCCCTAAAGGTGTTTTCGCAATTTTCCAAAAACTGAGTCCTAGAT
TGTCATCGGGTCCGCTTTCACGCCA
Found at i:5360485 original size:14 final size:15
Alignment explanation
Indices: 5360466--5360498 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5360456 TATCACTATT
5360466 AATATGACCCAT-AA
1 AATATGACCCATCAA
*
5360480 AATATGAGCCATCAA
1 AATATGACCCATCAA
5360495 AATA
1 AATA
5360499 ATAATACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (15 bp):
AATATGACCCATCAA
Found at i:5366792 original size:24 final size:24
Alignment explanation
Indices: 5366761--5366807 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5366751 CATCTTGCAT
* *
5366761 TTTTATTTGTCTTTAGTTTAATTA
1 TTTTATTTATCTTTAGTTGAATTA
*
5366785 TTTTATTTATTTTTAGTTGAATT
1 TTTTATTTATCTTTAGTTGAATT
5366808 GATAAAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (24 bp):
TTTTATTTATCTTTAGTTGAATTA
Found at i:5368074 original size:155 final size:154
Alignment explanation
Indices: 5367888--5369036 Score: 729
Period size: 155 Copynumber: 7.4 Consensus size: 154
5367878 GGTAATTCTA
* *
5367888 AAGGACTTAAAAATGATCATAAAT-GAGATGAACCTATCCTAAATGCACACCTTTAGTATAAAAG
1 AAGGACTTAAAAATGATCATAAATAGA-ATGAACCTATCCTAAATGCACACCTTTGGCATAAAAG
*** *
5367952 CATCTCGGCGATAACCTAAGG-CTTGGTTCTAAAAAAATTACGAAAATACCCTTAAGTATGCTTT
65 CATCTCAATGACAACCTAAGGACTTGGTTCTAAAAAAATTACGAAAATACCCTTAAGTAT-CTTT
* * *
5368016 TGGCATGAAAGTATCTTAGTAATACC-
129 TGACATGAAAGTATCTCAGTAA-CCCT
*
5368042 AATGGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCAAACCTTTGGCATAAAAG
1 AA-GGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCACACCTTTGGCATAAAAG
* * * * *
5368107 CAT-TCCAGTGACAA-CTTAGGACTTAGTTCTAAAAAAATTATGAAAATACCCTT-AGTTATACA
65 CATCT-CAATGACAACCTAAGGACTTGGTTCTAAAAAAATTACGAAAATACCCTTAAG-TAT-CT
*
5368169 TTTGACATGAAAATAT-TCCAGTAACCCT
127 TTTGACATGAAAGTATCT-CAGTAACCCT
* * * **
5368197 AAAGAACTTAAATATGATCATAAATAGGATGAATTTATCCTAAATGCACACCTTTGGCATAAAAG
1 -AAGGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCACACCTTTGGCATAAAAG
* * * * * *
5368262 CATCAT-AATGATAACCTAA-GACTCGGTTCTAAAAAAAATTATGAAAATGCCTTTAAGGTATAT
65 CATC-TCAATGACAACCTAAGGACTTGGTTCT-AAAAAAATTACGAAAATACCCTTAA-GTATCT
* * *
5368325 CTTCGACATGAAAGTATCCCAATAACCCT
127 -TTTGACATGAAAGTATCTCAGTAACCCT
* * * *
5368354 AAGGACTTAAAAATGATCATAAATGGGATGAACATATCCTAAATGCACACCTTTGGCATAAAAAC
1 AAGGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCACACCTTTGGCATAAAAGC
* * ** * * * * * *
5368419 ATCCCGATGACAACCT-AGGTTTTGATTCTTAAAAAATTACAAAAATACCCCT-AGTTTTACCTT
66 ATCTCAATGACAACCTAAGGACTTGGTTCTAAAAAAATTACGAAAATACCCTTAAG-TAT-CTTT
* **
5368482 TGACATGAAATTATCTCAGTAACTTT
129 TGACATGAAAGTATCTCAGTAACCCT
* * * * * * * * * * * * *
5368508 AAAGGACAT-AAGAGGATCTTAGAA-AGGACGAACTTATCCTATATGTAGACCTTCGACAAAAAA
1 -AAGGACTTAAAAATGATCATA-AATAGAATGAACCTATCCTAAATGCACACCTTTGGCATAAAA
* ** * * *** * * ** * * * *
5368571 GTGA-CTCGGTAACTACCT-AGGACTCAATT-TTAAGAAATTATAAAAATAACCTTAGGTAAACC
64 G-CATCTCAATGACAACCTAAGGACTTGGTTCTAAAAAAATTACGAAAATACCCTTAAGT-ATCT
* **
5368633 TTCGATGTGAAAGTATC-C--TAAACCCT
127 TTTGACATGAAAGTATCTCAGT-AACCCT
* * *
5368659 AAAGGACTTAAAAATGATCATAAAT-GAGATGAACTTATCCTAAATGCACAACTTTGGTATAAAA
1 -AAGGACTTAAAAATGATCATAAATAGA-ATGAACCTATCCTAAATGCACACCTTTGGCATAAAA
*** * * * * * *
5368723 GCATCTTGGTGACAACCT-AGGACTCGATATC-AAGAAAATTACGAAAATACCTTTAGGGATTAC
64 GCATCTCAATGACAACCTAAGGACTTGGT-TCTAAAAAAATTACGAAAATACCCTTAAGTA-T-C
* *
5368786 CTTCGACATGAAAGTATCT-ATGTAACCCT
126 TTTTGACATGAAAGTATCTCA-GTAACCCT
* * * * *
5368815 AATAGACTTAAAAATGATCATAAATGGGATGAACCTATCCTAAACGCACACCTTTAGCATAAAAG
1 AA-GGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCACACCTTTGGCATAAAAG
* ** * * * * * * * *
5368880 TATC-CTGGTGACAA-CTTAGGACTCGATTCTAGAAAAATTATGAAAATACCTTTAGGATATACC
65 CATCTC-AATGACAACCTAAGGACTTGGTTCTAAAAAAATTACGAAAATACCCTTAAG-TAT-CT
* *
5368943 TTCGACATTAAAGTATCAT-AGTAACCCT
127 TTTGACATGAAAGTATC-TCAGTAACCCT
* * * * *
5368971 AAAGGAC--ACAAAATGATCATAGAA-AGGATGAATCTATCCTATAA-GTAGATCTTTGGCATAA
1 -AAGGACTTA-AAAATGATCATA-AATAGAATGAACCTATCCTA-AATGCACACCTTTGGCATAA
5369032 AAGCA
62 AAGCA
5369037 ACCCGGTGAC
Statistics
Matches: 796, Mismatches: 150, Indels: 97
0.76 0.14 0.09
Matches are distributed among these distances:
150 1 0.00
151 16 0.02
152 59 0.07
153 57 0.07
154 113 0.14
155 270 0.34
156 244 0.31
157 35 0.04
158 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (154 bp):
AAGGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCACACCTTTGGCATAAAAGC
ATCTCAATGACAACCTAAGGACTTGGTTCTAAAAAAATTACGAAAATACCCTTAAGTATCTTTTG
ACATGAAAGTATCTCAGTAACCCT
Found at i:5368392 original size:156 final size:154
Alignment explanation
Indices: 5367885--5369446 Score: 1131
Period size: 156 Copynumber: 10.1 Consensus size: 154
5367875 CCTGGTAATT
* *
5367885 CTAAAGGACTTAAAAATGATCATAAAT-GAGATGAACCTATCCTAAATGCACACCTTTAGTATAA
1 CTAAAGGACTTAAAAATGATCATAAATAG-GATGAACCTATCCTAAATGCACACCTTTGGCATAA
* * * * * * *
5367949 AAGCATCTCGGCGATAACCTAAGG-CTTGGTTCTAAAAAAATTACGAAAATACCCTTAAGTATGC
65 AAGCATCT-GGTGACAACCT-AGGACTCGATTCTAAAAAAATTATGAAAATACCCTTAGGTATAC
* * * ** *
5368013 TTTTGGCATGAAAGTATCTTAGTAATAC
128 CTTCGACATGAAAGTATCCCAGTAA-CC
* * *
5368041 C-AATGGACTTAAAAATGATCATAAATAGAATGAACCTATCCTAAATGCAAACCTTTGGCATAAA
1 CTAAAGGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAAA
** * * * *
5368105 AGCATTCCAGTGACAACTTAGGACT-TAGTTCTAAAAAAATTATGAAAATACCCTTAGTTATACA
66 AGCA-TCTGGTGACAACCTAGGACTCGA-TTCTAAAAAAATTATGAAAATACCCTTAGGTATACC
* * *
5368169 TTTGACATGAAAATATTCCAGTAACC
129 TTCGACATGAAAGTATCCCAGTAACC
* * **
5368195 CTAAAGAACTTAAATATGATCATAAATAGGATGAATTTATCCTAAATGCACACCTTTGGCATAAA
1 CTAAAGGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAAA
** * * * * * *
5368260 AGCATCATAATGATAACCTAAGACTCGGTTCTAAAAAAAATTATGAAAATGCCTTTAAGGTATAT
66 AGCATC-TGGTGACAACCTAGGACTCGATTCT-AAAAAAATTATGAAAATACCCTT-AGGTATAC
*
5368325 CTTCGACATGAAAGTATCCCAATAACC
128 CTTCGACATGAAAGTATCCCAGTAACC
* *
5368352 CT-AAGGACTTAAAAATGATCATAAATGGGATGAACATATCCTAAATGCACACCTTTGGCATAAA
1 CTAAAGGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAAA
* * * ** * * ** * * *
5368416 AACATCCCGATGACAACCTAGGTTTTGATTCTTAAAAAATTACAAAAATACCCCTAGTTTTACCT
66 AGCAT-CTGGTGACAACCTAGGACTCGATTCTAAAAAAATTATGAAAATACCCTTAGGTATACCT
* * * *
5368481 TTGACATGAAATTATCTCAGTAACT
130 TCGACATGAAAGTATCCCAGTAACC
* * * * * * * * * * * * *
5368506 TTAAAGGACAT-AAGAGGATCTTAGAA-AGGACGAACTTATCCTATATGTAGACCTTCGACAAAA
1 CTAAAGGACTTAAAAATGATCATA-AATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAA
* * * * * * * * *
5368569 AAGTGA-CTCGGTAACTACCTAGGACTCAATT-TTAAGAAATTATAAAAATAACCTTAGGTAAAC
65 AAG-CATCT-GGTGACAACCTAGGACTCGATTCTAAAAAAATTATGAAAATACCCTTAGGTATAC
** *
5368632 CTTCGATGTGAAAGTATCCTA--AACC
128 CTTCGACATGAAAGTATCCCAGTAACC
* * *
5368657 CTAAAGGACTTAAAAATGATCATAAAT-GAGATGAACTTATCCTAAATGCACAACTTTGGTATAA
1 CTAAAGGACTTAAAAATGATCATAAATAG-GATGAACCTATCCTAAATGCACACCTTTGGCATAA
* * * *
5368721 AAGCATCTTGGTGACAACCTAGGACTCGATATC-AAGAAAATTACGAAAATACCTTTAGGGATTA
65 AAGCATC-TGGTGACAACCTAGGACTCGAT-TCTAAAAAAATTATGAAAATACCCTTAGGTA-TA
*
5368785 CCTTCGACATGAAAGTAT-CTATGTAACC
127 CCTTCGACATGAAAGTATCCCA-GTAACC
* * *
5368813 CTAATA-GACTTAAAAATGATCATAAATGGGATGAACCTATCCTAAACGCACACCTTTAGCATAA
1 CTAA-AGGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAA
* * * *
5368877 AAGTATCCTGGTGACAACTTAGGACTCGATTCTAGAAAAATTATGAAAATACCTTTAGGATATAC
65 AAGCAT-CTGGTGACAACCTAGGACTCGATTCTAAAAAAATTATGAAAATACCCTTAGG-TATAC
* **
5368942 CTTCGACATTAAAGTATCATAGTAACC
128 CTTCGACATGAAAGTATCCCAGTAACC
* * * *
5368969 CTAAAGGAC--ACAAAATGATCATAGAA-AGGATGAATCTATCCTATAA-GTAGATCTTTGGCAT
1 CTAAAGGACTTA-AAAATGATCATA-AATAGGATGAACCTATCCTA-AATGCACACCTTTGGCAT
* * * * * * * * *
5369030 AAAAGCAACCCGGTGACTACCTAGGACTCGGTTTTTAAACAAATTATTAGAATGCTCC-TAGGGT
63 AAAAGC-ATCTGGTGACAACCTAGGACTC-GATTCTAAAAAAATTATGAAAATAC-CCTTA-GGT
** * *
5369094 ATACCTTCGATGTGAATGTATCCTAG-AACC
124 ATACCTTCGACATGAAAGTATCCCAGTAACC
* * * * * * *
5369124 TTAAAGGACATGAAAGTGATAAGTAAA-AGGATGAACCTATCCTAATTGCATACCTTTGGCATAA
1 CTAAAGGACTTAAAAATGATCA-TAAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAA
* ** * * * * * * * *
5369188 AAGTGATCCAGTAATAACTTATGACTCGATTTTAAAGAAAATTATAAAAATACCGTTGGGATATA
65 AAG-CATCTGGTGACAACCTAGGACTCGATTCTAAA-AAAATTATGAAAATACCCTTAGG-TATA
** * *
5369253 TTTTCGACGTGAAAGTATCCTAGTAACC
127 CCTTCGACATGAAAGTATCCCAGTAACC
* * * * * * * * **
5369281 TTAAAGGACATGAAAATGAT-ATGAAAAAGGATAAAACTATCTTAAATACACACCTTCAGCATAA
1 CTAAAGGACTTAAAAATGATCAT-AAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAA
* * ** * ** * * *
5369345 AAGTGACCCAGTAATGACCTAGGACTCGGTTTTTAAGAAAAA-TACT-AAAATGCCCTTATGGTA
65 AAG-CATCTGGTGACAACCTAGGACTC-GATTCTAA-AAAAATTA-TGAAAATACCCTTA-GGTA
* * * *
5369408 TACCTTCCACATGAAAGTATCTCGGTAAAC
125 TACCTTCGACATGAAAGTATCCCAGTAACC
5369438 CTAAAGGAC
1 CTAAAGGAC
5369447 ACGAAAAGAA
Statistics
Matches: 1120, Mismatches: 232, Indels: 107
0.77 0.16 0.07
Matches are distributed among these distances:
151 16 0.01
152 57 0.05
153 66 0.06
154 107 0.10
155 311 0.28
156 388 0.35
157 160 0.14
158 14 0.01
159 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (154 bp):
CTAAAGGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACACCTTTGGCATAAA
AGCATCTGGTGACAACCTAGGACTCGATTCTAAAAAAATTATGAAAATACCCTTAGGTATACCTT
CGACATGAAAGTATCCCAGTAACC
Found at i:5368840 original size:462 final size:466
Alignment explanation
Indices: 5367885--5369190 Score: 1157
Period size: 462 Copynumber: 2.8 Consensus size: 466
5367875 CCTGGTAATT
* * * *
5367885 CTAAAGGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTAGTATAAA
1 CTAAA-GACTTAAAAATGATCATAAATGGGATGAACATATCCTAAACGCACACCTTTAGCATAAA
* * ** * * * * * * * *
5367950 AGCATCTCGGCGATAACCTAAGG-CTTGGTTCTAAAAAAATTACGAAAATACCCTTAAG-TATGC
65 AACATCCCGATGACAACCT-AGGACTCGATTCTAGAAAAATTACAAAAATACCCCTAGGATATAC
* * * * * * * * *
5368013 TTTTGGCATGAAAGTATCTTAGTAATACC-AATGGACTTA-AAAATGATCATA-AATAGAATGAA
129 CTTCGACATGAAAGTATCATAGTAA-CCCTAAAGGAC--ACAAAAGGATCATAGAA-AGGACGAA
* * * * * * ** * * * * * * *
5368075 CCTATCCTA-AATGCAAACCTTTGGCATAAAAGCATTCCAGTGACAACTTAGGACT-TAGTTCTA
190 TCTATCCTATAA-GTAGACCTTCGACAAAAAAGCAACCCGGTAACTACCTAGGACTCGAATTTTA
* * * * * * ** *
5368138 AAAAAATTATGAAAATAC-CCTTA-GTTATACATTTGACATGAAAATATTCC-AGTAACCCTAAA
254 AACAAATTATAAAAATACTCC-TAGGGTAAACCTTCGATGTGAAAGTA-TCCTAG-AACCCTAAA
* * *
5368200 GAACTTAAATATGATCATAAAT-AGGATGAATTTATCCTAAATGCACACCTTTGGCATAAAAGCA
316 GGACTTAAAAATGATCATAAATGA-GATGAACTTATCCTAAATGCACACCTTTGGCATAAAAGCA
* * * * *
5368264 TCATAATGATAACCTAAGACTCGGTTCTAAAAAAAATTATGAAAATGCCTTTAAGGTATATCTTC
380 TCATAATGACAACCTAAGACTCGATTC-AAAAAAAATTACGAAAATACCTTTAAGGTATACCTTC
5368329 GACATGAAAGTATCCCAATAACC
444 GACATGAAAGTATCCCAATAACC
* * *
5368352 CTAAGGACTTAAAAATGATCATAAATGGGATGAACATATCCTAAATGCACACCTTTGGCATAAAA
1 CTAAAGACTTAAAAATGATCATAAATGGGATGAACATATCCTAAACGCACACCTTTAGCATAAAA
** * * *
5368417 ACATCCCGATGACAACCTAGGTTTTGATTCTTA-AAAAATTACAAAAATACCCCTA-GTTTTACC
66 ACATCCCGATGACAACCTAGGACTCGATTC-TAGAAAAATTACAAAAATACCCCTAGGATATACC
* * ** * * *
5368480 TTTGACATGAAATTATC-TCAGTAACTTTAAAGGACATAAGAGGATCTTAGAAAGGACGAA-CTT
130 TTCGACATGAAAGTATCAT-AGTAACCCTAAAGGACACAAAAGGATCATAGAAAGGACGAATC-T
* ** * *
5368543 ATCCTATATGTAGACCTTCGACAAAAAAGTGACTCGGTAACTACCTAGGACTC-AATTTT-AAGA
193 ATCCTATAAGTAGACCTTCGACAAAAAAGCAACCCGGTAACTACCTAGGACTCGAATTTTAAACA
*
5368606 AATTATAAAAATAAC-CTTA-GGTAAACCTTCGATGTGAAAGTATCCTA-AACCCTAAAGGACTT
258 AATTATAAAAAT-ACTCCTAGGGTAAACCTTCGATGTGAAAGTATCCTAGAACCCTAAAGGACTT
* * * **
5368668 AAAAATGATCATAAATGAGATGAACTTATCCTAAATGCACAACTTTGGTATAAAAGCATCTTGGT
322 AAAAATGATCATAAATGAGATGAACTTATCCTAAATGCACACCTTTGGCATAAAAGCATCATAAT
* * *
5368733 GACAACCTAGGACTCGATATC-AAGAAAATTACGAAAATACCTTT-AGGGATTACCTTCGACATG
387 GACAACCTAAGACTCGAT-TCAAAAAAAATTACGAAAATACCTTTAAGGTA-TACCTTCGACATG
* *
5368796 AAAGTAT-CTATGTAACC
450 AAAGTATCCCA-ATAACC
*
5368813 CTAATAGACTTAAAAATGATCATAAATGGGATGAACCTATCCTAAACGCACACCTTTAGCATAAA
1 CTAA-AGACTTAAAAATGATCATAAATGGGATGAACATATCCTAAACGCACACCTTTAGCATAAA
** * * * ** **
5368878 AGTATCCTGGTGACAACTTAGGACTCGATTCTAGAAAAATTATGAAAATACCTTTAGGATATACC
65 AACATCCCGATGACAACCTAGGACTCGATTCTAGAAAAATTACAAAAATACCCCTAGGATATACC
* * *
5368943 TTCGACATTAAAGTATCATAGTAACCCTAAAGGACACAAAATGATCATAGAAAGGATGAATCTAT
130 TTCGACATGAAAGTATCATAGTAACCCTAAAGGACACAAAAGGATCATAGAAAGGACGAATCTAT
* * * * * **
5369008 CCTATAAGTAGATCTTTGGCATAAAAGCAACCCGGTGACTACCTAGGACTCGGTTTTTAAACAAA
195 CCTATAAGTAGACCTTCGACAAAAAAGCAACCCGGTAACTACCTAGGACTCGAATTTTAAACAAA
* * * * * * * *
5369073 TTATTAGAATGCTCCTAGGGTATACCTTCGATGTGAATGTATCCTAGAACCTTAAAGGACATGAA
260 TTATAAAAATACTCCTAGGGTAAACCTTCGATGTGAAAGTATCCTAGAACCCTAAAGGACTTAAA
* * * * * *
5369138 AGTGATAAGTAAAAG-GATGAACCTATCCTAATTGCATACCTTTGGCATAAAAG
325 AATGATCA-TAAATGAGATGAACTTATCCTAAATGCACACCTTTGGCATAAAAG
5369191 TGATCCAGTA
Statistics
Matches: 682, Mismatches: 130, Indels: 54
0.79 0.15 0.06
Matches are distributed among these distances:
460 6 0.01
461 50 0.07
462 182 0.27
463 105 0.15
464 42 0.06
465 79 0.12
466 153 0.22
467 60 0.09
468 5 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (466 bp):
CTAAAGACTTAAAAATGATCATAAATGGGATGAACATATCCTAAACGCACACCTTTAGCATAAAA
ACATCCCGATGACAACCTAGGACTCGATTCTAGAAAAATTACAAAAATACCCCTAGGATATACCT
TCGACATGAAAGTATCATAGTAACCCTAAAGGACACAAAAGGATCATAGAAAGGACGAATCTATC
CTATAAGTAGACCTTCGACAAAAAAGCAACCCGGTAACTACCTAGGACTCGAATTTTAAACAAAT
TATAAAAATACTCCTAGGGTAAACCTTCGATGTGAAAGTATCCTAGAACCCTAAAGGACTTAAAA
ATGATCATAAATGAGATGAACTTATCCTAAATGCACACCTTTGGCATAAAAGCATCATAATGACA
ACCTAAGACTCGATTCAAAAAAAATTACGAAAATACCTTTAAGGTATACCTTCGACATGAAAGTA
TCCCAATAACC
Found at i:5369819 original size:181 final size:181
Alignment explanation
Indices: 5369515--5369874 Score: 609
Period size: 181 Copynumber: 2.0 Consensus size: 181
5369505 TCTCAGTGAG
* *
5369515 AAAAATTACTAAAATATCCTTAGGATATACCTTCGACATGAAAGTACCTCGATAACTCTAATGGA
1 AAAAATTACTAAAATATCCTTAGGATATACCTTCGACATGAAAGTACCTAGATAACTCTAATAGA
* *
5369580 CATTAAAATGATAAAAAAGGAAAACTTTGTCCAAGATAGGGAATTAGAATCCCAAAATTGGCTTA
66 CATTAAAATGATAAAAAAAGAAAAATTTGTCCAAGATAGGGAATTAGAATCCCAAAATTGGCTTA
5369645 AAATGCAAAAATTTCAATTAAGCC-CTTAAACTTTTGAAAATTTCATTTCAT
131 AAATGCAAAAATTTCAATTAAGCCTC-TAAACTTTTGAAAATTTCATTTCAT
* *
5369696 AAAAATTACTAAAATA-CCTCTAGGATATACTTTCGACATGAAAGTATCTTAG-TAACTCTAATA
1 AAAAATTACTAAAATATCCT-TAGGATATACCTTCGACATGAAAGTA-CCTAGATAACTCTAATA
*
5369759 GACATTAAAATGATAAAAAAAGAAAAATTTGTCCTAGATAGGGAATTAGAATCCCAAAATTGGCT
64 GACATTAAAATGATAAAAAAAGAAAAATTTGTCCAAGATAGGGAATTAGAATCCCAAAATTGGCT
5369824 TAAAATGCAAAAATTTCAATTAAGCCTCTAAACTTTTGAAAATTTCATTTC
129 TAAAATGCAAAAATTTCAATTAAGCCTCTAAACTTTTGAAAATTTCATTTC
5369875 GTACCCGATG
Statistics
Matches: 169, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
180 3 0.02
181 162 0.96
182 4 0.02
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (181 bp):
AAAAATTACTAAAATATCCTTAGGATATACCTTCGACATGAAAGTACCTAGATAACTCTAATAGA
CATTAAAATGATAAAAAAAGAAAAATTTGTCCAAGATAGGGAATTAGAATCCCAAAATTGGCTTA
AAATGCAAAAATTTCAATTAAGCCTCTAAACTTTTGAAAATTTCATTTCAT
Found at i:5371145 original size:166 final size:165
Alignment explanation
Indices: 5370954--5371875 Score: 692
Period size: 166 Copynumber: 5.6 Consensus size: 165
5370944 GTTTAAAATA
* * * * ** * *
5370954 TTAAAATTTCTCAAATATTATTATTTAATTCCTATCAAATCAATTTTGGAAAATTCCCTTTATTT
1 TTAAAATCTATCAAATATTATTATTTAATTCATATCAAATCAATCTTCAAAAATT-CATTCATTT
*
5371019 T-TGAAGTTATTG-ATTTTCTT-TTGGAAA-TTCTCTTATTTTT-AAATTAC-GAAG-TTTTCTA
65 TATG--GTTATTGAATTTT-TTCTT-GAAATTTC-CTTATTTTTGAAA-AACAG-AGTTTTTCTA
* *
5371077 TTTCGTAATTTTTTTCG-GGAGAATTTTTCTTGGTTTTTAATTT
123 CTTCGTAATTTTTTTCGAGGAG-ATTTTTCTTAGTTTTTAATTT
* * * * *
5371120 TTAAAATCTGTCAAACATTATTATTTATTTCATATTAAATCAGTCTTCAAAAATTCATTCATTTT
1 TTAAAATCTATCAAATATTATTATTTAATTCATATCAAATCAATCTTCAAAAATTCATTCATTTT
*
5371185 CATGGTTTTTGAATTTTTTCCTTGAAATTTCCTTATTTTTGAAAAACAGAGTTTTTCTACTTCGT
66 -ATGGTTATTGAATTTTTT-CTTGAAATTTCCTTATTTTTGAAAAACAGAGTTTTTCTACTTCGT
5371250 AATTTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTT
129 AATTTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTT
* * ** ** * * * * *
5371287 TTAAAATCCATCAAATATTATTATTTATTTCATAAT-AAGCCTGTTTTAAAAAATGCTTTTATTC
1 TTAAAATCTATCAAATATTATTATTTAATTCAT-ATCAAATCAATCTTCAAAAATTCATTCATT-
* * ** * *
5371351 TCATGAG-AATT-TTTTTTTTC-TGAAAATTTTCC-TATTTCTGAAAAACGGAG-TTTTCTAC-T
64 TTATG-GTTATTGAATTTTTTCTTG-AAA-TTTCCTTATTTTTGAAAAACAGAGTTTTTCTACTT
* *
5371410 CTGTAATTTATTTCGAGGGGATTTTTCTTAGTTTTTAATTT
126 C-GTAATTTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTT
* * * * ** *
5371451 TTAAAATCCATAAAATATTATTATTTATTTCATATTAAATCTGTTTTCAAAAATTCATTCATTTT
1 TTAAAATCTATCAAATATTATTATTTAATTCATATCAAATCAATCTTCAAAAATTCATTCATTTT
* * **
5371516 CATGGGTT-TTGAATTTTTTCCTTTAAA-TTCTCTTATTTTCGAAAAATGGAG-TTTTCTACTTC
66 -AT-GGTTATTGAATTTTTT-CTTGAAATTTC-CTTATTTTTGAAAAACAGAGTTTTTCTACTTC
* * *
5371578 GTAAATTTTTTCGA-GAGGATTTTTCTTGGTTTTTTATTT
127 GTAATTTTTTTCGAGGA-GATTTTTCTTAGTTTTTAATTT
* * * * * * * * *
5371617 TTGAAAT-TCATAAAATATTATTAATTATTTTATAAT-AAATCAGTTTTAAAAAATGCATTCATT
1 TTAAAATCT-ATCAAATATTATTATTTAATTCAT-ATCAAATCAATCTTCAAAAATTCATTCATT
* * * *
5371680 TTCATGAGTT-TGTGATTTTTTTCTTGAAA-TTCCTCTATTTCTAAAAAACGGAG-TTTTCTACT
64 TT-ATG-GTTAT-TGAATTTTTTCTTGAAATTTCCT-TATTTTTGAAAAACAGAGTTTTTCTACT
* * *
5371742 CCGTAATTTATTTTTG-GG-GCATTTTTCTTGGTTTTTAATTT
125 TCGTAATTT-TTTTCGAGGAG-ATTTTTCTTAGTTTTTAATTT
* * * * * * *
5371783 TCAAAATCAATAAAATATTATTATTTATTTCATATGAAATCATTTTTCAAAAATTCATTCATTTT
1 TTAAAATCTATCAAATATTATTATTTAATTCATATCAAATCAATCTTCAAAAATTCATTCATTTT
*
5371848 CATGAGTT-TTGGATTTTTTCTTTGAAAT
66 -ATG-GTTATTGAATTTTTTC-TTGAAAT
5371876 CCTCTTTTTT
Statistics
Matches: 634, Mismatches: 83, Indels: 77
0.80 0.10 0.10
Matches are distributed among these distances:
163 5 0.01
164 108 0.17
165 60 0.09
166 325 0.51
167 128 0.20
168 8 0.01
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (165 bp):
TTAAAATCTATCAAATATTATTATTTAATTCATATCAAATCAATCTTCAAAAATTCATTCATTTT
ATGGTTATTGAATTTTTTCTTGAAATTTCCTTATTTTTGAAAAACAGAGTTTTTCTACTTCGTAA
TTTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTT
Found at i:5371812 original size:332 final size:331
Alignment explanation
Indices: 5371028--5371905 Score: 1114
Period size: 332 Copynumber: 2.6 Consensus size: 331
5371018 TTTGAAGTTA
* * ** * * *
5371028 TTGATTTTCTTT-TGGAAATTCTCTTATTTTTAAATTACGAAGTTTTCTATTTCGTAATTT-TTT
1 TTGATTTT-TTTCTTGAAATTCTC-TATTTCTAAAAAACGGAGTTTTCTACTCCGTAATTTATTT
** * *
5371091 TCGGGAGAATTTTTCTTGGTTTTTAATTTTTAAAATCTGTCAAACATTATTATTTATTTCATATT
64 TCGGG-GAATTTTTCTTGGTTTTTAATTTTTAAAATCAATAAAATATTATTATTTATTTCATATT
* * * *
5371156 AAATCAGTCTTCAAAAATTCATTCATTTTCATGGTTTTTGAATTTTTTCCTTGAAATT-TCCTTA
128 AAATCTGTTTTCAAAAATTCATTCATTTTCATGGGTTTTGAATTTTTTCCTTTAAATTCT-CTTA
* * *
5371220 TTTTTGAAAAACAGAGTTTTTCTACTTCGTAATTTTTTTCGAGGAGATTTTTCTTAGTTTTTAAT
192 TTTTCGAAAAATAGAG-TTTTCTACTTCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAAT
* * * * * *
5371285 TTTTAAAATCCATCAAATATTATTATTTATTTCATAATAAGCCTGTTTTAAAAAATGCTTTTATT
256 TTTTAAAATCCATAAAATATTATTAATTATTTCATAATAAACCAGTTTTAAAAAATGCATTCATT
5371350 CTCATGAGAAT
321 CTCATGAGAAT
* * *
5371361 TT--TTTTTTTC-TGAAAATTTTCCTATTTCTGAAAAACGGAGTTTTCTACTCTGTAATTTA-TT
1 TTGATTTTTTTCTTG-AAATTCT-CTATTTCTAAAAAACGGAGTTTTCTACTCCGTAATTTATTT
* * *
5371422 TCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATCCATAAAATATTATTATTTATTTCATATT
64 TCG-GGGAATTTTTCTTGGTTTTTAATTTTTAAAATCAATAAAATATTATTATTTATTTCATATT
5371487 AAATCTGTTTTCAAAAATTCATTCATTTTCATGGGTTTTGAATTTTTTCCTTTAAATTCTCTTAT
128 AAATCTGTTTTCAAAAATTCATTCATTTTCATGGGTTTTGAATTTTTTCCTTTAAATTCTCTTAT
* * *
5371552 TTTCGAAAAATGGAGTTTTCTACTTCGTAAATTTTTTCGA-GAGGATTTTTCTTGGTTTTTTATT
193 TTTCGAAAAATAGAGTTTTCTACTTCGTAAATTTTTTCGAGGA-GATTTTTCTTAGTTTTTAATT
* * * * *
5371616 TTTGAAATTCATAAAATATTATTAATTATTTTATAATAAATCAGTTTTAAAAAATGCATTCATTT
257 TTTAAAATCCATAAAATATTATTAATTATTTCATAATAAACCAGTTTTAAAAAATGCATTCATTC
*
5371681 TCATGAG-TT
322 TCATGAGAAT
5371690 TGTGATTTTTTTCTTGAAATTCCTCTATTTCTAAAAAACGGAGTTTTCTACTCCGTAATTTATTT
1 T-TGATTTTTTTCTTGAAATT-CTCTATTTCTAAAAAACGGAGTTTTCTACTCCGTAATTTATTT
* * * *
5371755 TTGGGGCATTTTTCTTGGTTTTTAATTTTCAAAATCAATAAAATATTATTATTTATTTCATATGA
64 TCGGGGAATTTTTCTTGGTTTTTAATTTTTAAAATCAATAAAATATTATTATTTATTTCATATTA
* * *
5371820 AATCAT-TTTTCAAAAATTCATTCATTTTCATGAGTTTTGGATTTTTT-CTTTGAAATCCTCTT-
129 AATC-TGTTTTCAAAAATTCATTCATTTTCATGGGTTTTGAATTTTTTCCTTT-AAATTCTCTTA
* *
5371882 TTTTCAGAAAAATCGAATTTTCTA
192 TTTTC-GAAAAATAGAGTTTTCTA
5371906 TTCCATAAAT
Statistics
Matches: 477, Mismatches: 52, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
329 4 0.01
330 109 0.23
331 176 0.37
332 178 0.37
333 10 0.02
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (331 bp):
TTGATTTTTTTCTTGAAATTCTCTATTTCTAAAAAACGGAGTTTTCTACTCCGTAATTTATTTTC
GGGGAATTTTTCTTGGTTTTTAATTTTTAAAATCAATAAAATATTATTATTTATTTCATATTAAA
TCTGTTTTCAAAAATTCATTCATTTTCATGGGTTTTGAATTTTTTCCTTTAAATTCTCTTATTTT
CGAAAAATAGAGTTTTCTACTTCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTA
AAATCCATAAAATATTATTAATTATTTCATAATAAACCAGTTTTAAAAAATGCATTCATTCTCAT
GAGAAT
Found at i:5371905 original size:166 final size:163
Alignment explanation
Indices: 5371068--5371893 Score: 874
Period size: 166 Copynumber: 5.0 Consensus size: 163
5371058 TAAATTACGA
* ** *
5371068 AGTTTTCTATTTCGTAATTTTTTTCG-GGAGAATTTTTCTTGGTTTTTAATTTTTAAAATCTGTC
1 AGTTTTCTACTTCGTAATTTTTTTCGAGG-G-ATTTTTCTTGGTTTTTAATTTTTAAAATCCATA
* * *
5371132 AAACATTATTATTTATTTCATATTAAATCAGTCTTCAAAAATTCATTCATTTTCATG-GTTTTTG
64 AAATATTATTATTTATTTCATA-TAAATCATTTTTCAAAAATTCATTCATTTTCATGAG-TTTTG
* *
5371196 AATTTTTTCCTTGAAATTTCCT-TATTTTT-GAAAAACAG
127 AATTTTTTCTTTGAAA--TCCTCT-TTTTTCGAAAAACGG
* *
5371234 AGTTTTTCTACTTCGTAATTTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAATCCATC
1 AG-TTTTCTACTTCGTAATTTTTTTCGAGG-GATTTTTCTTGGTTTTTAATTTTTAAAATCCATA
* * * * * * *
5371299 AAATATTATTATTTATTTCATA-ATAAGCCTGTTTTAAAAAATGCTTTTATTCTCATGAGAATTT
64 AAATATTATTATTTATTTCATATA-AATCAT-TTTTCAAAAATTCATTCATTTTCATGAG--TTT
** * *
5371363 T---TTTTTTC--TGAAAATTTTCCTATTTCTGAAAAACGG
125 TGAATTTTTTCTTTG-AAATCCTCTTTTTTC-GAAAAACGG
* *
5371399 AGTTTTCTAC-TCTGTAATTTATTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATCCATA
1 AGTTTTCTACTTC-GTAATTTTTTTCGA-GGGATTTTTCTTGGTTTTTAATTTTTAAAATCCATA
*
5371463 AAATATTATTATTTATTTCATATTAAATC-TGTTTTCAAAAATTCATTCATTTTCATGGGTTTTG
64 AAATATTATTATTTATTTCATA-TAAATCAT-TTTTCAAAAATTCATTCATTTTCATGAGTTTTG
* *
5371527 AATTTTTTCCTTT-AAATTCTCTTATTTTCGAAAAATGG
127 AATTTTTT-CTTTGAAATCCTCTT-TTTTCGAAAAACGG
* * * *
5371565 AGTTTTCTACTTCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTTTATTTTTGAAATTCATAA
1 AGTTTTCTACTTCGTAATTTTTTTCGAG-GGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAA
* * * * *
5371630 AATATTATTAATTATTTTATAATAAATCAGTTTTAAAAAATGCATTCATTTTCATGAGTTTGTGA
65 AATATTATTATTTATTTCAT-ATAAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTT-TGA
* * *
5371695 TTTTTTTC-TTGAAATTCCTC-TATTTCTAAAAAACGG
128 ATTTTTTCTTTGAAA-TCCTCTTTTTTC-GAAAAACGG
* * * *
5371731 AGTTTTCTACTCCGTAATTTATTTTTG-GGGCATTTTTCTTGGTTTTTAATTTTCAAAATCAATA
1 AGTTTTCTACTTCGTAATTT-TTTTCGAGGG-ATTTTTCTTGGTTTTTAATTTTTAAAATCCATA
*
5371795 AAATATTATTATTTATTTCATATGAAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTTTGG
64 AAATATTATTATTTATTTCATAT-AAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTTTGA
5371860 ATTTTTTCTTTGAAATCCTCTTTTTTCAGAAAAA
128 ATTTTTTCTTTGAAATCCTCTTTTTTC-GAAAAA
5371894 TCGAATTTTC
Statistics
Matches: 558, Mismatches: 68, Indels: 68
0.80 0.10 0.10
Matches are distributed among these distances:
162 4 0.01
163 8 0.01
164 102 0.18
165 50 0.09
166 265 0.47
167 119 0.21
168 6 0.01
169 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (163 bp):
AGTTTTCTACTTCGTAATTTTTTTCGAGGGATTTTTCTTGGTTTTTAATTTTTAAAATCCATAAA
ATATTATTATTTATTTCATATAAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTTTGAATT
TTTTCTTTGAAATCCTCTTTTTTCGAAAAACGG
Found at i:5372514 original size:12 final size:12
Alignment explanation
Indices: 5372499--5372543 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
5372489 AAAACTCAGC
5372499 AAAAAAAGGGAG
1 AAAAAAAGGGAG
**
5372511 AAAAAAAGAAAG
1 AAAAAAAGGGAG
*
5372523 AAAAAAAGAGGAA
1 AAAAAAAG-GGAG
5372536 AAAAAAAG
1 AAAAAAAG
5372544 AAAAATAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAAGGGAG
Found at i:5372527 original size:25 final size:25
Alignment explanation
Indices: 5372499--5372546 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
5372489 AAAACTCAGC
*
5372499 AAAAAAAG-GGAGAAAAAAAGAAAG
1 AAAAAAAGAGGAAAAAAAAAGAAAG
5372523 AAAAAAAGAGGAAAAAAAAAGAAA
1 AAAAAAAGAGGAAAAAAAAAGAAA
5372547 AATAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAAAAAGAGGAAAAAAAAAGAAAG
Found at i:5373759 original size:10 final size:10
Alignment explanation
Indices: 5373746--5373770 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5373736 AAAATAAAAG
5373746 AATAAAATCA
1 AATAAAATCA
5373756 AATAAAATCA
1 AATAAAATCA
5373766 AATAA
1 AATAA
5373771 CAAATATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AATAAAATCA
Found at i:5374363 original size:154 final size:154
Alignment explanation
Indices: 5374149--5375132 Score: 1148
Period size: 154 Copynumber: 6.4 Consensus size: 154
5374139 TACAAAATCT
** * * *
5374149 TTTTTTAGTCCTTT-AGGGATATCAAGTACTTCTACGTTGAAGGTATCGCCTAG-GAGCATTTTT
1 TTTTTTAGTCCTTTAAGGG-TATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGA-CATTTTT
* * ** * * ** * *
5374212 GTAATTTTTCAGAACAAAGTCTTAAGTTATCACCAAGTCCGTTTTTGTGCCGAAGGTGGGCATTT
64 GTAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTT
* *
5374277 AGTATAGGTTCACACCATCCACATCC
129 AGGATAGGTTCACGCCATCCACATCC
*
5374303 TTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTATGTCGAAAGTATCCCCTAGAGACATTTTTGT
1 TTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGACATTTTTGT
* * * * * *
5374368 AATTTTTTAGAATCGGGTCCTATGTTATCACCGGGTCCGCTTTTATGACGAAGGTAGGCATTTAG
66 AATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
*
5374433 GATAGGTTCACGCCATCCACATCT
131 GATAGGTTCACGCCATCCACATCC
*
5374457 TTTTTTAGTCCTTT-AGGGATATCGGGTACTTCTACGTCGAAAGTATCCCGTAGAGACATTTTTG
1 TTTTTTAGTCCTTTAAGGG-TATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGACATTTTTG
* * * *
5374521 TAAGTTTTCAAAACCGAGT-CTAGGTTATCACCGGGTCCGTTTTTATGCTGAAGGTGGGCATTTA
65 TAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
* *
5374585 GGATAGATTCACGCCATCCACATCT
130 GGATAGGTTCACGCCATCCACATCC
* * * *
5374610 TTTTTTAGTCCTTT-AGTGGTATCAGGTACTTCTACGTCGAAAGTACCCCCTAGAGGCATTTTTA
1 TTTTTTAGTCCTTTAAG-GGTATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGACATTTTTG
* * * *
5374674 TAATTTTTTAAAACCAAGTCTTAGGTTATCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTA
65 TAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
*
5374739 GGATAGGTTCATGCCATCCACATCC
130 GGATAGGTTCACGCCATCCACATCC
* * **
5374764 TTTTTTAGTCCTTTAAGGGTATCGGGTATTTCTACGTCG-AAGATATCCCCTAGGGGTATTTTT-
1 TTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTACGTCGAAAG-TATCCCCTAGAGACATTTTTG
* * * * *
5374827 TAAATTTTTTAGAATCGAGTCCTAGGTTATCACTGGATCTGCTTTTATGCCGAAGGTGGGCATTT
65 T-AATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTT
* *
5374892 AGGATAGGTTCACACCATCCACATCT
129 AGGATAGGTTCACGCCATCCACATCC
* * *
5374918 TTTTTTAGTCCTTTAGGGGAATCGGGTACTTCTACGTC-AAAGGTATCCCCTAG-GGCAATTTTT
1 TTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTACGTCGAAA-GTATCCCCTAGAGAC-ATTTTT
* * * ** * **
5374981 -AAATTTTTTAAAACCGAGTCCTAGGCTATTACCGGGTTTGTTTTTATGCCGAAAATGGGCATTT
64 GTAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTT
*
5375045 AGGATAGGTTCACCCCATCCACATCC
129 AGGATAGGTTCACGCCATCCACATCC
* * ** * *
5375071 TTTTTAAGTCCTTT-AGAGATATCGAATACTTCTACATC-AAAGGTATCCCTTATGAG-CATTTT
1 TTTTTTAGTCCTTTAAG-GGTATCGGGTACTTCTACGTCGAAA-GTATCCCCTA-GAGACATTTT
5375133 CATTTATTCT
Statistics
Matches: 725, Mismatches: 91, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
152 1 0.00
153 270 0.37
154 444 0.61
155 10 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (154 bp):
TTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGACATTTTTGT
AATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
GATAGGTTCACGCCATCCACATCC
Found at i:5374704 original size:307 final size:305
Alignment explanation
Indices: 5374149--5375120 Score: 1249
Period size: 307 Copynumber: 3.2 Consensus size: 305
5374139 TACAAAATCT
* * *
5374149 TTTTTTAGTCCTTTAGGGATATCAAGTACTTCTACGTTGAAGGTATCGCCTAG-GAGCATTTTTG
1 TTTTTTAGTCCTTTAGGGATATCGAGTACTTCTACGTCGAAAGTATC-CCTAGAGA-CATTTTTG
** * ** *
5374213 TAATTTTTCAGAACAAAGTCTTAAGTTATCACCAAGTCCGTTTTTGTGCCGAAGGTGGGCATTTA
64 TAATTTTTCAGAACCGAGTC-TAGGTTATCACCGGGTCCGTTTTTATGCCGAAGGTGGGCATTTA
* * *
5374278 GTATAGGTTCACACCATCCACATCCTTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTATGTCGA
128 GGATAGGTTCACACCATCCACATCTTTTTTTAGTCCTTT-AGGGTATCGGGTACTTCTACGTCGA
* * * * * * *
5374343 AAGTATCCCCTAGAGACATTTTTGTAATTTTTTAGAATCGGGTCCTATGTTATCACCGGGTCCGC
192 AAGTATCCCCTAGAGGCATTTTTATAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCTGC
* * * *
5374408 TTTTATGACGAAGGTAGGCATTTAGGATAGGTTCACGCCATCCACATCT
257 TTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCACGCCATCCACATCC
*
5374457 TTTTTTAGTCCTTTAGGGATATCGGGTACTTCTACGTCGAAAGTATCCCGTAGAGACATTTTTGT
1 TTTTTTAGTCCTTTAGGGATATCGAGTACTTCTACGTCGAAAGTATCCC-TAGAGACATTTTTGT
* * *
5374522 AAGTTTTCAAAACCGAGTCTAGGTTATCACCGGGTCCGTTTTTATGCTGAAGGTGGGCATTTAGG
65 AATTTTTCAGAACCGAGTCTAGGTTATCACCGGGTCCGTTTTTATGCCGAAGGTGGGCATTTAGG
* * *
5374587 ATAGATTCACGCCATCCACATCTTTTTTTAGTCCTTTAGTGGTATCAGGTACTTCTACGTCGAAA
130 ATAGGTTCACACCATCCACATCTTTTTTTAGTCCTTTAG-GGTATCGGGTACTTCTACGTCGAAA
* * *
5374652 GTACCCCCTAGAGGCATTTTTATAATTTTTTAAAACCAAGTCTTAGGTTATCACCGGGTCTGCTT
194 GTATCCCCTAGAGGCATTTTTATAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCTGCTT
*
5374717 TTATGCCGAAAGTGGGCATTTAGGATAGGTTCATGCCATCCACATCC
259 TTATGCCGAAAGTGGGCATTTAGGATAGGTTCACGCCATCCACATCC
* * * **
5374764 TTTTTTAGTCCTTTAAGGG-TATCGGGTATTTCTACGTCG-AAGATATCCCCTAGGGGTATTTTT
1 TTTTTTAGTCCTTT-AGGGATATCGAGTACTTCTACGTCGAAAG-TAT-CCCTAGAGACATTTTT
* * * * * *
5374827 -TAAATTTTTTAGAATCGAGTCCTAGGTTATCACTGGATCTGCTTTTATGCCGAAGGTGGGCATT
63 GT-AATTTTTCAGAACCGAGT-CTAGGTTATCACCGGGTCCGTTTTTATGCCGAAGGTGGGCATT
*
5374891 TAGGATAGGTTCACACCATCCACATCTTTTTTTAGTCCTTTAGGGGAATCGGGTACTTCTACGTC
126 TAGGATAGGTTCACACCATCCACATCTTTTTTTAGTCCTTTA-GGGTATCGGGTACTTCTACGTC
* *
5374956 -AAAGGTATCCCCTAG-GGCAATTTTTA-AATTTTTTAAAACCGAGTCCTAGGCTATTACCGGGT
190 GAAA-GTATCCCCTAGAGGC-ATTTTTATAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGT
* * * *
5375018 TTGTTTTTATGCCGAAAATGGGCATTTAGGATAGGTTCACCCCATCCACATCC
253 CTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCACGCCATCCACATCC
* * * *
5375071 TTTTTAAGTCCTTTAGAGATATCGAATACTTCTACATC-AAAGGTATCCCT
1 TTTTTTAGTCCTTTAGGGATATCGAGTACTTCTACGTCGAAA-GTATCCCT
5375121 TATGAGCATT
Statistics
Matches: 583, Mismatches: 67, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
306 13 0.02
307 375 0.64
308 192 0.33
309 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (305 bp):
TTTTTTAGTCCTTTAGGGATATCGAGTACTTCTACGTCGAAAGTATCCCTAGAGACATTTTTGTA
ATTTTTCAGAACCGAGTCTAGGTTATCACCGGGTCCGTTTTTATGCCGAAGGTGGGCATTTAGGA
TAGGTTCACACCATCCACATCTTTTTTTAGTCCTTTAGGGTATCGGGTACTTCTACGTCGAAAGT
ATCCCCTAGAGGCATTTTTATAATTTTTTAAAACCGAGTCCTAGGTTATCACCGGGTCTGCTTTT
ATGCCGAAAGTGGGCATTTAGGATAGGTTCACGCCATCCACATCC
Found at i:5375017 original size:461 final size:461
Alignment explanation
Indices: 5374145--5375132 Score: 1339
Period size: 461 Copynumber: 2.1 Consensus size: 461
5374135 TTATTACAAA
* * * *
5374145 ATCTTTTTTTAGTCCTTTAGGGATATCAAGTACTTCTACGTTGAAGGTATCGCCTAGGAGCATTT
1 ATCTTTTTTTAGTCCTTTAGGGATATCAAGTACTTCTACGTCGAAAGTACCCCCTAGGAGCATTT
* * * * *
5374210 TTGTAATTTTTCAGAACAAAGTCTTAAGTTATCACCAAGTCCGTTTTTGTGCCGAAGGTGGGCAT
66 TTATAATTTTTCAAAACAAAGTCTTAAGTTATCACCAAGTCCGCTTTTATGCCGAAAGTGGGCAT
* *
5374275 TTAGTATAGGTTCACACCATCCACATCCTTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTATGT
131 TTAGGATAGGTTCACACCATCCACATCCTTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTACGT
* * *
5374340 CGAAAGTATCCCCTAGAGACATTTTTGTAATTTTTTAGAATCGGGTCCTATGTTATCACCGGGTC
196 CGAAAGTATCCCCTAGAGACATTTTTGTAATTTTTTAGAATCGAGTCCTAGGTTATCACCGGATC
*
5374405 CGCTTTTATGACGAAGGTAGGCATTTAGGATAGGTTCACGCCATCCACATCTTTTTTTAGTCCTT
261 CGCTTTTATGACGAAGGTAGGCATTTAGGATAGGTTCACACCATCCACATCTTTTTTTAGTCCTT
* *
5374470 TAGGGATATCGGGTACTTCTACGTCGAAAGTATCCCGTAGAGACATTTTTGTAAGTTTTCAAAAC
326 TAGGGATATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGACATTTTTGAAAGTTTTCAAAAC
* * ** *
5374535 CGAGTCTAGGTTATCACCGGGTCCGTTTTTATGCTGAAGGTGGGCATTTAGGATAGATTCACGCC
391 CGAGTCTAGGCTATCACCGGGTCCGTTTTTATGCCGAAAATGGGCATTTAGGATAGATTCACCCC
5374600 ATCCAC
456 ATCCAC
*
5374606 ATCTTTTTTTAGTCCTTTAGTGG-TATCAGGTACTTCTACGTCGAAAGTACCCCCTA-GAGGCAT
1 ATCTTTTTTTAGTCCTTTAG-GGATATCAAGTACTTCTACGTCGAAAGTACCCCCTAGGA-GCAT
* * * ** *
5374669 TTTTATAATTTTTTAAAACCAAGTCTTAGGTTATCACCGGGTCTGCTTTTATGCCGAAAGTGGGC
64 TTTTATAATTTTTCAAAACAAAGTCTTAAGTTATCACCAAGTCCGCTTTTATGCCGAAAGTGGGC
** *
5374734 ATTTAGGATAGGTTCATGCCATCCACATCCTTTTTTAGTCCTTTAAGGGTATCGGGTATTTCTAC
129 ATTTAGGATAGGTTCACACCATCCACATCCTTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTAC
* ** *
5374799 GTCG-AAGATATCCCCTAGGGGTATTTTT-TAAATTTTTTAGAATCGAGTCCTAGGTTATCACTG
194 GTCGAAAG-TATCCCCTAGAGACATTTTTGT-AATTTTTTAGAATCGAGTCCTAGGTTATCACCG
* * *
5374862 GATCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCACACCATCCACATCTTTTTTTAGT
257 GATCCGCTTTTATGACGAAGGTAGGCATTTAGGATAGGTTCACACCATCCACATCTTTTTTTAGT
* *
5374927 CCTTTAGGGGA-ATCGGGTACTTCTACGTC-AAAGGTATCCCCTAG-GGCAATTTTT-AAATTTT
322 CCTTTA-GGGATATCGGGTACTTCTACGTCGAAA-GTATCCCCTAGAGAC-ATTTTTGAAAGTTT
* * ** *
5374988 TTAAAACCGAGTCCTAGGCTATTACCGGGTTTGTTTTTATGCCGAAAATGGGCATTTAGGATAGG
384 TCAAAACCGAGT-CTAGGCTATCACCGGGTCCGTTTTTATGCCGAAAATGGGCATTTAGGATAGA
5375053 TTCACCCCATCCAC
448 TTCACCCCATCCAC
* * * * * * *
5375067 ATCCTTTTTAAGTCCTTTAGAGATATCGAA-TACTTCTACATC-AAAGGTATCCCTTATGAGCAT
1 ATCTTTTTTTAGTCCTTTAGGGATATC-AAGTACTTCTACGTCGAAA-GTACCCCCTAGGAGCAT
5375130 TTT
64 TTT
5375133 CATTTATTCT
Statistics
Matches: 462, Mismatches: 53, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
460 31 0.07
461 422 0.91
462 9 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (461 bp):
ATCTTTTTTTAGTCCTTTAGGGATATCAAGTACTTCTACGTCGAAAGTACCCCCTAGGAGCATTT
TTATAATTTTTCAAAACAAAGTCTTAAGTTATCACCAAGTCCGCTTTTATGCCGAAAGTGGGCAT
TTAGGATAGGTTCACACCATCCACATCCTTTTTTAGTCCTTTAAGGGTATCGGGTACTTCTACGT
CGAAAGTATCCCCTAGAGACATTTTTGTAATTTTTTAGAATCGAGTCCTAGGTTATCACCGGATC
CGCTTTTATGACGAAGGTAGGCATTTAGGATAGGTTCACACCATCCACATCTTTTTTTAGTCCTT
TAGGGATATCGGGTACTTCTACGTCGAAAGTATCCCCTAGAGACATTTTTGAAAGTTTTCAAAAC
CGAGTCTAGGCTATCACCGGGTCCGTTTTTATGCCGAAAATGGGCATTTAGGATAGATTCACCCC
ATCCAC
Found at i:5376906 original size:33 final size:33
Alignment explanation
Indices: 5376869--5376935 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5376859 TTCAACGATT
5376869 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5376902 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5376935 T
1 T
5376936 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5376907 original size:13 final size:13
Alignment explanation
Indices: 5376889--5376913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5376879 CATAAAATGT
5376889 TGTATCGATACAA
1 TGTATCGATACAA
5376902 TGTATCGATACA
1 TGTATCGATACA
5376914 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5376996 original size:13 final size:13
Alignment explanation
Indices: 5376978--5377002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5376968 ATTACTCACA
5376978 TGTATCGATACAT
1 TGTATCGATACAT
5376991 TGTATCGATACA
1 TGTATCGATACA
5377003 CTGATCCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5377139 original size:52 final size:52
Alignment explanation
Indices: 5377011--5377131 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5377001 CACTGATCCT
*
5377011 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5377063 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5377115 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
5377132 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5395319 original size:32 final size:32
Alignment explanation
Indices: 5395278--5395351 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
5395268 AGACAAATTC
5395278 AAAGCAAGGTTGGTAGCCCAAGGCTATACACA
1 AAAGCAAGGTTGGTAGCCCAAGGCTATACACA
*
5395310 AAAGCAAGGTTGGTAGCTCAAGGCTATACACA
1 AAAGCAAGGTTGGTAGCCCAAGGCTATACACA
5395342 AAAGCAAGGT
1 AAAGCAAGGT
5395352 ATTGACTACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (32 bp):
AAAGCAAGGTTGGTAGCCCAAGGCTATACACA
Found at i:5397470 original size:18 final size:18
Alignment explanation
Indices: 5397447--5397483 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5397437 ACAGGTGCAA
5397447 AATTAATT-CATTTTTATT
1 AATTAATTACA-TTTTATT
5397465 AATTAATTACATTTTATT
1 AATTAATTACATTTTATT
5397483 A
1 A
5397484 TTTTTTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTAATTACATTTTATT
Found at i:5398028 original size:45 final size:45
Alignment explanation
Indices: 5397964--5398057 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
5397954 CATGTGCTCA
5397964 ATAGATACACGCTTTAAAACCTATTTATGTGTATTCGTGATTTCT
1 ATAGATACACGCTTTAAAACCTATTTATGTGTATTCGTGATTTCT
5398009 ATAGATACACGCTTTAAAACCTATTTATGTGTATTCGTGATTTCT
1 ATAGATACACGCTTTAAAACCTATTTATGTGTATTCGTGATTTCT
5398054 ATAG
1 ATAG
5398058 TTCGTGCACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (45 bp):
ATAGATACACGCTTTAAAACCTATTTATGTGTATTCGTGATTTCT
Found at i:5400276 original size:2 final size:2
Alignment explanation
Indices: 5400269--5400296 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5400259 AGCATATTTA
5400269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5400297 TTCAAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5400510 original size:22 final size:21
Alignment explanation
Indices: 5400485--5400525 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5400475 TTATGTTTGA
*
5400485 AAAAATGTATGTCGTTTTAAGT
1 AAAAATGTA-ATCGTTTTAAGT
*
5400507 AAAATTGTAATCGTTTTAA
1 AAAAATGTAATCGTTTTAA
5400526 ATTTAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (21 bp):
AAAAATGTAATCGTTTTAAGT
Found at i:5400557 original size:21 final size:21
Alignment explanation
Indices: 5400533--5400574 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5400523 TAAATTTAGA
5400533 TATTTTAAAATT-AAATTATTT
1 TATTTT-AAATTAAAATTATTT
*
5400554 TATTTTCAATTAAAATTATTT
1 TATTTTAAATTAAAATTATTT
5400575 AGAGTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTAAATTAAAATTATTT
Found at i:5401096 original size:2 final size:2
Alignment explanation
Indices: 5401091--5401127 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5401081 CTGAAAAAAC
5401091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5401128 ACTAGAGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5401282 original size:17 final size:17
Alignment explanation
Indices: 5401262--5401309 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
5401252 ATATTATATT
5401262 TAAAAAATAAATTTAAA
1 TAAAAAATAAATTTAAA
**
5401279 TAAAAAATAAAATTTATT
1 TAAAAAAT-AAATTTAAA
5401297 TAAAAAATAAATT
1 TAAAAAATAAATT
5401310 GAGCTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAATAAATTTAAA
Found at i:5401290 original size:22 final size:22
Alignment explanation
Indices: 5401265--5401308 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5401255 TTATATTTAA
5401265 AAAATAAATTTAAATAAA-AAAT
1 AAAATAAATTTAAA-AAATAAAT
**
5401287 AAAATTTATTTAAAAAATAAAT
1 AAAATAAATTTAAAAAATAAAT
5401309 TGAGCTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAAATTTAAAAAATAAAT
Found at i:5401612 original size:27 final size:27
Alignment explanation
Indices: 5401580--5401633 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5401570 AAATTATTAT
5401580 TTATAAATATACATAAATATGAATAGA
1 TTATAAATATACATAAATATGAATAGA
5401607 TTATAAATATACATAAATATGAATAGA
1 TTATAAATATACATAAATATGAATAGA
5401634 AAACTTACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (27 bp):
TTATAAATATACATAAATATGAATAGA
Found at i:5402451 original size:2 final size:2
Alignment explanation
Indices: 5402435--5402476 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
5402425 AAGTGAGACC
5402435 AT AT -T AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5402477 GGGGTTTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5402669 original size:23 final size:25
Alignment explanation
Indices: 5402625--5402678 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
5402615 AAATATAAAA
* *
5402625 TTTTAATTTTAATATCTGTAATTTT
1 TTTTATTTTTAATATCTATAATTTT
5402650 TTTTATTTTTAA-AT-TATAATTTT
1 TTTTATTTTTAATATCTATAATTTT
*
5402673 ATTTAT
1 TTTTAT
5402679 AAAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 13 0.50
24 2 0.08
25 11 0.42
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTATTTTTAATATCTATAATTTT
Found at i:5404479 original size:26 final size:26
Alignment explanation
Indices: 5404447--5404501 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
5404437 AGTTCCAGTT
*
5404447 CTAGGAAACTATTGTTGTTCACAATA
1 CTAGGAAACTATTGTTGTTCACAACA
*
5404473 CTAGGAAACTGTTGTTGTTCACAACA
1 CTAGGAAACTATTGTTGTTCACAACA
5404499 CTA
1 CTA
5404502 CATCAACGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (26 bp):
CTAGGAAACTATTGTTGTTCACAACA
Found at i:5406472 original size:4 final size:4
Alignment explanation
Indices: 5406463--5406490 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
5406453 TATTTAACAG
5406463 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
5406491 TCCTCTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:5406910 original size:12 final size:12
Alignment explanation
Indices: 5406893--5406935 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
5406883 AAGACAACTT
5406893 AATAAAAAAATA
1 AATAAAAAAATA
5406905 AATAAAAATAAT-
1 AATAAAAA-AATA
*
5406917 AATAATAATAATA
1 AATAA-AAAAATA
5406930 AATAAA
1 AATAAA
5406936 TATGACGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:5408902 original size:6 final size:6
Alignment explanation
Indices: 5408891--5408917 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5408881 TTATAAATTC
5408891 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
5408918 ATGTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:5409696 original size:18 final size:20
Alignment explanation
Indices: 5409661--5409702 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
5409651 TAATTATCTT
*
5409661 AATATATAAATATATATTAA
1 AATATATAAAAATATATTAA
*
5409681 AATAT-TAAAAAT-TATTTA
1 AATATATAAAAATATATTAA
5409699 AATA
1 AATA
5409703 AATGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 6 0.30
20 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATATAAAAATATATTAA
Found at i:5411878 original size:12 final size:12
Alignment explanation
Indices: 5411863--5411896 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
5411853 AATTGAAAGC
5411863 ATAAAATTAGCA
1 ATAAAATTAGCA
5411875 ATAAAATTA-CA
1 ATAAAATTAGCA
5411886 AGTAAAATTAG
1 A-TAAAATTAG
5411897 TTTGATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 17 0.85
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (12 bp):
ATAAAATTAGCA
Found at i:5414054 original size:54 final size:54
Alignment explanation
Indices: 5413949--5414056 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
5413939 AATCCTATAG
* * * *
5413949 ATAAAGTCTTATCTGTTACTTTACATTAGGCTAGTCATAACGACACTTATTCAT
1 ATAAAGTCTCATCTGTTACTTTACATCAGGCTAGTCATAACAACACCTATTCAT
* ** * *
5414003 ATAAAGTCTCATCTTTTGTTTTACATCAGGCTAGTCATGATAACACCTATTCAT
1 ATAAAGTCTCATCTGTTACTTTACATCAGGCTAGTCATAACAACACCTATTCAT
5414057 GTTGATACTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (54 bp):
ATAAAGTCTCATCTGTTACTTTACATCAGGCTAGTCATAACAACACCTATTCAT
Done.