Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 307 of 356
Found at i:99844749 original size:19 final size:19
Alignment explanation
Indices: 99844725--99844763 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
99844715 ATATTGTGGT
*
99844725 TTCTTGTGGTATGTGTTAA
1 TTCTTGTGGTAGGTGTTAA
99844744 TTCTTGTGGTAGGTGTTAA
1 TTCTTGTGGTAGGTGTTAA
99844763 T
1 T
99844764 CAAGGGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.28, T:0.51
Consensus pattern (19 bp):
TTCTTGTGGTAGGTGTTAA
Found at i:99848894 original size:20 final size:20
Alignment explanation
Indices: 99848871--99848908 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99848861 AATGGTGATG
99848871 ATAAATTTAAAATAATTTCA
1 ATAAATTTAAAATAATTTCA
* *
99848891 ATAATTTTAAAATTATTT
1 ATAAATTTAAAATAATTT
99848909 GCTGACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATTTAAAATAATTTCA
Found at i:99855663 original size:24 final size:24
Alignment explanation
Indices: 99855630--99855707 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
99855620 CAGGCTATCA
99855630 GGAGAAGATTTAGGAGCAGATAAG
1 GGAGAAGATTTAGGAGCAGATAAG
* **
99855654 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAAGATTTAGGAGCAGATAAG
* * *
99855678 GGAGAAGATTTAAGAGCAGATTAC
1 GGAGAAGATTTAGGAGCAGATAAG
99855702 GGAGAA
1 GGAGAA
99855708 CGGTGTTGGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.40, C:0.04, G:0.37, T:0.19
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCAGATAAG
Found at i:99857175 original size:27 final size:27
Alignment explanation
Indices: 99857135--99857245 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
99857125 AGGAAGCGTC
* * * *
99857135 CTGGTGTCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
99857162 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
99857189 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
99857216 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
99857242 CTGG
1 CTGG
99857246 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.17
27 62 0.83
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:99863078 original size:27 final size:27
Alignment explanation
Indices: 99863048--99863225 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
99863038 ATATTGAGCC
* * * *
99863048 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
99863075 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
99863102 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
99863130 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
99863157 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
99863184 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
99863211 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99863226 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:99863187 original size:82 final size:81
Alignment explanation
Indices: 99863069--99863224 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
99863059 TGCTATATAA
* *
99863069 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
99863134 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
99863151 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
99863215 CACTTAGTGC
65 CACTTAGTGC
99863225 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:99865866 original size:11 final size:11
Alignment explanation
Indices: 99865847--99865877 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
99865837 CTATTTATGT
*
99865847 TTAAATTAGAA
1 TTAATTTAGAA
99865858 TTAATTTAGAA
1 TTAATTTAGAA
99865869 TTAATTTAG
1 TTAATTTAG
99865878 TGCTCGCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (11 bp):
TTAATTTAGAA
Found at i:99877282 original size:43 final size:41
Alignment explanation
Indices: 99877141--99877294 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 41
99877131 TATCGAGATG
*
99877141 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* ** * *
99877182 TGAGATTATGTCTAAGACCATGTCTGGGACATTGGTATCGTTAAT
1 TGATAACATG--TAAGACCATGTCTGGGACATTGGCATTG-T-AT
** * * * *
99877227 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATTGATAT
1 TGATAACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
*
99877269 GTGATAACATGTAAGACCATATCTGG
1 -TGATAACATGTAAGACCATGTCTGG
99877295 AATATAGCAT
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 6 0.07
42 2 0.02
43 69 0.80
44 1 0.01
45 8 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (41 bp):
TGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:99880171 original size:29 final size:29
Alignment explanation
Indices: 99880139--99880198 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
99880129 AACAAATGTT
99880139 AAGTATGTTGAATTGTTATTAGTTTTCGA
1 AAGTATGTTGAATTGTTATTAGTTTTCGA
*
99880168 AAGTATGTTGAATTGTTATTAGTTTTTGA
1 AAGTATGTTGAATTGTTATTAGTTTTCGA
99880197 AA
1 AA
99880199 ATGTTCTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (29 bp):
AAGTATGTTGAATTGTTATTAGTTTTCGA
Found at i:99880324 original size:18 final size:18
Alignment explanation
Indices: 99880303--99880337 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
99880293 CAGATATAAT
99880303 AAAAGATTTGGAAATCCC
1 AAAAGATTTGGAAATCCC
99880321 AAAAGATTTGGAAATCC
1 AAAAGATTTGGAAATCC
99880338 AAATTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
AAAAGATTTGGAAATCCC
Found at i:99880590 original size:34 final size:34
Alignment explanation
Indices: 99880553--99880659 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
99880543 GTTACAGTCT
* * *
99880553 AGTATCAGTGCGGGCCTTAGCCTATTACAATAAT
1 AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
* **
99880587 AGTATCAGTATGGGAGTTAGCCCATTACAATAAC
1 AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
* *
99880621 AGTAACAGTGTGGGCTTTAGCCCATTACAATAAC
1 AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
99880655 AGTAT
1 AGTAT
99880660 GAAAAAATGC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (34 bp):
AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
Found at i:99883515 original size:21 final size:21
Alignment explanation
Indices: 99883491--99883534 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
99883481 AGGAAGTGAG
*
99883491 TTAGACAAAAAGATAAGCAAC
1 TTAGACAAAAAGAGAAGCAAC
*
99883512 TTAGACAAAAAGAGAAGTAAC
1 TTAGACAAAAAGAGAAGCAAC
99883533 TT
1 TT
99883535 GGACCCTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (21 bp):
TTAGACAAAAAGAGAAGCAAC
Found at i:99886680 original size:170 final size:172
Alignment explanation
Indices: 99886374--99886684 Score: 385
Period size: 170 Copynumber: 1.8 Consensus size: 172
99886364 CTTTTAGCTG
* *
99886374 TGTCACAGTTTATGGATCATAGTGATGGTTATAATTATTGATGATGTGGTATACTGCTTAGATAT
1 TGTCACAGTTTATGGATCATAGTCATGGTTATAATTATTGATGATCTGGTATACTGCTTAGATAT
* ** * * * *
99886439 TCCGCGTTAATTTATGTTACCCGGACTTGAGGATGACTGCATATCATTGTCCGGGTATGTGCCGT
66 GCCGCGTTAATCAATGTTACCCGGACTTGAGGATGACTGCATATCATTATCCAGATATGTGCCGC
99886504 ACATAGGTGTTGGACACAGGTTTAGGAAAAACAAAGAATCTA
131 ACATAGGTGTTGGACACAGGTTTAGGAAAAACAAAGAATCTA
* * * * *
99886546 TGTCACATTTTATGGATCATGGTCATGGTTTTCATTATTGATGATCT-G-ATATTGCTTAGATAT
1 TGTCACAGTTTATGGATCATAGTCATGGTTATAATTATTGATGATCTGGTATACTGCTTAGATAT
* ** * * * * **
99886609 GCTGTTTTAATCAATGTTACTCGGACTTGAGGATGAGTTCATATCCA-TATCTAGATATGTGTTG
66 GCCGCGTTAATCAATGTTACCCGGACTTGAGGATGACTGCATAT-CATTATCCAGATATGTGCCG
99886673 CACATAGGTGTT
130 CACATAGGTGTT
99886685 AGCCATGGGT
Statistics
Matches: 115, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
170 71 0.62
171 3 0.03
172 41 0.36
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (172 bp):
TGTCACAGTTTATGGATCATAGTCATGGTTATAATTATTGATGATCTGGTATACTGCTTAGATAT
GCCGCGTTAATCAATGTTACCCGGACTTGAGGATGACTGCATATCATTATCCAGATATGTGCCGC
ACATAGGTGTTGGACACAGGTTTAGGAAAAACAAAGAATCTA
Found at i:99888803 original size:21 final size:21
Alignment explanation
Indices: 99888764--99888803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99888754 GGTCGACGAA
* *
99888764 AACGACGACGTCCTTAACGTT
1 AACGAAGACGTCCTGAACGTT
*
99888785 AACGAAGACGTTCTGAACG
1 AACGAAGACGTCCTGAACG
99888804 ATGAAGACGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (21 bp):
AACGAAGACGTCCTGAACGTT
Found at i:99896667 original size:34 final size:34
Alignment explanation
Indices: 99896624--99896691 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
99896614 AAGAGCGTAA
99896624 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
1 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
99896658 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
1 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
99896692 TCAGATCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
AGCTAATTCAGTGCAGATAATGATATCACTTGGT
Found at i:99901449 original size:22 final size:21
Alignment explanation
Indices: 99901407--99901449 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
99901397 TTCAATTAAA
* *
99901407 ATTTTATTTTATTTTTTATAC
1 ATTTTATTTTATTATTCATAC
99901428 ATTTTAATTTTATTATTCATAC
1 ATTTT-ATTTTATTATTCATAC
99901450 TTTATCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTATTTTATTATTCATAC
Found at i:99902169 original size:52 final size:52
Alignment explanation
Indices: 99902107--99902205 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
99902097 TATCAAAAAA
*
99902107 TTTCTATTAAATTGGATTATTTTTCATACTTAAAATAAAAAATTTGTTCATG
1 TTTCTATTAAATTGGATTATTTTTCATACTCAAAATAAAAAATTTGTTCATG
*
99902159 TTTCTATTAAATTGGATTGTTTTTCATACTCAAAATAAAAAATTTGT
1 TTTCTATTAAATTGGATTATTTTTCATACTCAAAATAAAAAATTTGT
99902206 CCATCTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (52 bp):
TTTCTATTAAATTGGATTATTTTTCATACTCAAAATAAAAAATTTGTTCATG
Found at i:99907902 original size:54 final size:53
Alignment explanation
Indices: 99907820--99907957 Score: 215
Period size: 54 Copynumber: 2.5 Consensus size: 53
99907810 TGTTTGTTGT
*
99907820 TATAAAGGATTTAGCCTGGACTGGTAATCCCAACATCACCTTATGAGTTCATGA
1 TATAAGGGATTTAGCCTGGACT-GTAATCCCAACATCACCTTATGAGTTCATGA
*
99907874 TATAAGGGATTTAGCCTGGACTAGTAATCCCGACATCACCTTATGAGTTCATGA
1 TATAAGGGATTTAGCCTGGACT-GTAATCCCAACATCACCTTATGAGTTCATGA
99907928 TAT-AGAGGATTTAGCCTGGACTGATAATCC
1 TATAAG-GGATTTAGCCTGGACTG-TAATCC
99907958 TGCCATGGGA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
53 3 0.04
54 76 0.96
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (53 bp):
TATAAGGGATTTAGCCTGGACTGTAATCCCAACATCACCTTATGAGTTCATGA
Found at i:99909360 original size:38 final size:37
Alignment explanation
Indices: 99909316--99909416 Score: 95
Period size: 38 Copynumber: 2.7 Consensus size: 37
99909306 TAATTATGTA
99909316 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTGTTTTATTT
* * *
99909353 AAGTATATAGATATTT-ATTATTTATTATTGTTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTGTTTTATTT
99909390 AA-AT-TATAATTTATATTATTAAATTAT
1 AATATATATAATTTA-ATTATT-AATTAT
99909417 GATTATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
33 4 0.08
34 3 0.06
35 8 0.15
36 5 0.09
37 8 0.15
38 21 0.40
39 4 0.08
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTGTTTTATTT
Found at i:99909411 original size:20 final size:22
Alignment explanation
Indices: 99909386--99909435 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
99909376 ATTATTGTTC
99909386 TATTAAATTAT-A-ATTTATAT
1 TATTAAATTATGATATTTATAT
99909406 TATTAAATTATGATTATTTATAT
1 TATTAAATTATGA-TATTTATAT
99909429 TATTAAA
1 TATTAAA
99909436 AATAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.41
21 1 0.04
23 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTAAATTATGATATTTATAT
Found at i:99909444 original size:23 final size:23
Alignment explanation
Indices: 99909398--99909440 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
99909388 TTAAATTATA
* *
99909398 ATTTATATTATTAAATTATGATT
1 ATTTATATTATTAAAATATAATT
99909421 ATTTATATTATTAAAA-ATAA
1 ATTTATATTATTAAAATATAA
99909441 ATTAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTATATTATTAAAATATAATT
Found at i:99909742 original size:13 final size:14
Alignment explanation
Indices: 99909724--99909762 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
99909714 TTATAAAGTT
99909724 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
99909737 AATAAAAGAAATGA
1 AATAAAATAAAAGA
99909751 AATAAAATAAAA
1 AATAAAATAAAA
99909763 TAAAGAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:99910813 original size:6 final size:6
Alignment explanation
Indices: 99910802--99910830 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
99910792 TGCCGACTAT
99910802 TGTTAC TGTTAC TGTTAC -GTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
99910831 CGATTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
TGTTAC
Found at i:99910825 original size:11 final size:12
Alignment explanation
Indices: 99910802--99910830 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
99910792 TGCCGACTAT
99910802 TGTTACTGTTAC
1 TGTTACTGTTAC
99910814 TGTTAC-GTTAC
1 TGTTACTGTTAC
99910825 TGTTAC
1 TGTTAC
99910831 CGATTCGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (12 bp):
TGTTACTGTTAC
Found at i:99910872 original size:45 final size:45
Alignment explanation
Indices: 99910811--99910920 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
99910801 TTGTTACTGT
*
99910811 TACTGTTA-CGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
99910855 TACTGTTACCGTTACTGTTACAGATTCAGCATTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
* *
99910900 TACTGTTACTGTTATTGTTAC
1 TACTGTTACCGTTACTGTTAC
99910921 TGCTACTGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
44 8 0.14
45 50 0.85
46 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:99912613 original size:22 final size:22
Alignment explanation
Indices: 99912585--99912633 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
99912575 GCTTTTGAAT
*
99912585 AACTCAACGTAGCCTTATGTTC
1 AACTCAAAGTAGCCTTATGTTC
99912607 AACTCAAAGTAGCCTTATGTTC
1 AACTCAAAGTAGCCTTATGTTC
99912629 AACTC
1 AACTC
99912634 CTATTTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (22 bp):
AACTCAAAGTAGCCTTATGTTC
Found at i:99915361 original size:51 final size:51
Alignment explanation
Indices: 99915306--99915405 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
99915296 CTACCTTATA
* * *
99915306 ACATGTAACACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGTT
* * * * *
99915357 ACATGTATCGCATCCATTATGAACTCGAACCACTGAATGAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTCGAACCACTCAACGAGCTCGGATG
99915406 CCATATATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGTT
Found at i:99917769 original size:7 final size:7
Alignment explanation
Indices: 99917757--99917800 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
99917747 TTCATTTTTC
99917757 TTTATAT
1 TTTATAT
99917764 TTTATAT
1 TTTATAT
99917771 TTTATAT
1 TTTATAT
99917778 TTTATAT
1 TTTATAT
99917785 TTTA-AT
1 TTTATAT
99917791 TATTAT-T
1 T-TTATAT
99917798 TTT
1 TTT
99917801 TCCATTAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:99919674 original size:29 final size:30
Alignment explanation
Indices: 99919637--99919711 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
99919627 TTTAGATTCG
* *
99919637 AAAAATAAAAAGAGTAAATTCCTAAA-A-AT
1 AAAAGTAAAAAGACTAAATT-CTAAATATAT
**
99919666 AAAAGTAAAGGGACTAAATTCTAAATATAT
1 AAAAGTAAAAAGACTAAATTCTAAATATAT
*
99919696 AAAGAGTACAAAGACT
1 AAA-AGTAAAAAGACT
99919712 TAAAGCATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 5 0.14
29 17 0.47
30 5 0.14
31 9 0.25
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.21
Consensus pattern (30 bp):
AAAAGTAAAAAGACTAAATTCTAAATATAT
Found at i:99936763 original size:20 final size:20
Alignment explanation
Indices: 99936735--99936777 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
99936725 TGGGTCTAAA
*
99936735 ATTAGGTGGTGAAAATTAGG
1 ATTAAGTGGTGAAAATTAGG
99936755 ATTAAGTGGTGAAAATTAGG
1 ATTAAGTGGTGAAAATTAGG
99936775 ATT
1 ATT
99936778 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (20 bp):
ATTAAGTGGTGAAAATTAGG
Found at i:99938979 original size:21 final size:21
Alignment explanation
Indices: 99938945--99938998 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
99938935 CAATCAAAAT
*
99938945 CAAACATA-TTGCCCCCTAAA
1 CAAACTTATTTGCCCCCTAAA
99938965 CAAACTTATTTG-CCCCTAAA
1 CAAACTTATTTGCCCCCTAAA
99938985 CAAACTTATTTGCC
1 CAAACTTATTTGCC
99938999 TTGTATCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.28
Consensus pattern (21 bp):
CAAACTTATTTGCCCCCTAAA
Found at i:99941177 original size:21 final size:20
Alignment explanation
Indices: 99941153--99941192 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
99941143 TATGAGCATT
99941153 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
99941174 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
99941193 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:99941200 original size:20 final size:21
Alignment explanation
Indices: 99941158--99941200 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
99941148 GCATTAATGA
*
99941158 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
99941179 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
99941199 TT
1 TT
99941201 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:99944637 original size:35 final size:35
Alignment explanation
Indices: 99944583--99945026 Score: 408
Period size: 35 Copynumber: 12.6 Consensus size: 35
99944573 TCCTCATTGA
* *
99944583 AATACCATACCTACGTTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * ** * *
99944618 AACACCATACCTACTTTTCA-TGCTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
** * *
99944652 AATACCATACCTATATTTCATAACTCAGTATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * * * * * *
99944687 GATGCCATACCTATGTATCATAGCTCAATATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* ** * * *
99944722 GACGCCATACCTACGTTTCATAGCTCGGTATGGA-
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
99944756 AATACCATACCTACGTTTCATAGCTCGGTATGGA-
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
99944790 AATGCCATACCTACGTTTCACAGCTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
99944825 AATACCATACCTATGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
99944860 AATACCATACCTATGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * *
99944895 GATACCATACCTACATTTCACAACTTAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
99944930 AATACCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* **
99944965 GATACCATACCTACGTTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACGTTTCACAACTCAGTAT-G----GAT
*
99945005 AATACCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACA
99945027 CTTTGCCATG
Statistics
Matches: 349, Mismatches: 53, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
34 90 0.26
35 237 0.68
36 1 0.00
40 21 0.06
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:99944870 original size:173 final size:172
Alignment explanation
Indices: 99944581--99945026 Score: 498
Period size: 173 Copynumber: 2.5 Consensus size: 172
99944571 TTTCCTCATT
* * * *
99944581 GAAATACCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCATGCTCGGT
1 GAAATACCATACCTACGTTTCACAACTCGGTATGG-AAATACCATACCTACGTTTCAAGCTCAGT
* * * * *
99944646 ATGGAAAATACCATACCTATATTTCATAACTCAGTATGGACGATGCCATACCTATGTATCATAGC
65 ATGGAAAATACCATACCTATATTTCACAACTCAGTATGGACAATACCATACCTATGTATCACAAC
* * * * *
99944711 TCAATATGGACGACGCCATACCTACGTTTCATAGCTCGGTATG
130 TCAATATGGACGACACCATACCTACATTTCACAACTCAGTATG
* * *
99944754 GAAATACCATACCTACGTTTCATAGCTCGGTATGGAAATGCCATACCTACGTTTCACAGCTCAGT
1 GAAATACCATACCTACGTTTCACAACTCGGTATGGAAATACCATACCTACGTTTCA-AGCTCAGT
** * * ** *
99944819 ATGGTTAATACCATACCTATGTTTCACAACTCGGTATGGTTAATACCATACCTATGTTTCACAAC
65 ATGGAAAATACCATACCTATATTTCACAACTCAGTATGGACAATACCATACCTATGTATCACAAC
* * * *
99944884 TCAGTATGGATGATACCATACCTACATTTCACAACTTAGTATG
130 TCAATATGGACGACACCATACCTACATTTCACAACTCAGTATG
* * *
99944927 GTTAATACCATACCTACATTTCACAACTCGGTATGGATGATACCATACCTACGTTTCTTAA-CTC
1 G-AAATACCATACCTACGTTTCACAACTCGGTATGGA-AATACCATACCTACGTTTC--AAGCTC
*
99944991 AGTATGGATTTGATAATACCATACCTACATTTCACA
62 AGTATGGA----A-AATACCATACCTATATTTCACA
99945027 CTTTGCCATG
Statistics
Matches: 225, Mismatches: 38, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
172 18 0.08
173 127 0.56
174 31 0.14
175 27 0.12
176 1 0.00
177 1 0.00
180 20 0.09
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (172 bp):
GAAATACCATACCTACGTTTCACAACTCGGTATGGAAATACCATACCTACGTTTCAAGCTCAGTA
TGGAAAATACCATACCTATATTTCACAACTCAGTATGGACAATACCATACCTATGTATCACAACT
CAATATGGACGACACCATACCTACATTTCACAACTCAGTATG
Found at i:99950246 original size:79 final size:76
Alignment explanation
Indices: 99950145--99950366 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 76
99950135 GCTACTCGTT
* *
99950145 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGA
99950210 ATTTAGTAACTCGCA
63 A-TTAGTAACTCGCA
* *
99950225 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCC-GA
*
99950289 ATTAGTATCTCGCA
63 ATTAGTAACTCGCA
* * * * * *
99950303 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCG
99950367 GACATCATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 33 0.27
79 59 0.48
80 30 0.25
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGAATT
AGTAACTCGCA
Found at i:99950266 original size:39 final size:40
Alignment explanation
Indices: 99950145--99950368 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
99950135 GCTACTCGTT
* *
99950145 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
99950185 CAATTGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
*
99950225 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
99950264 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
99950303 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
99950344 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
99950369 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 76 0.47
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:99956280 original size:11 final size:12
Alignment explanation
Indices: 99956263--99956290 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
99956253 CTTTCTTTCT
99956263 TTTTTTTTTAAC
1 TTTTTTTTTAAC
99956275 TTTTTTTTTAAC
1 TTTTTTTTTAAC
99956287 TTTT
1 TTTT
99956291 GTCTTTATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTAAC
Found at i:99956321 original size:40 final size:41
Alignment explanation
Indices: 99956235--99956312 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
99956225 AAATTGCACA
* * *
99956235 TTTTTTTTAACTTTTGTCCTTTCTTTCTTTTTTTTTTAACT
1 TTTTTTTTAACTTTTGTCCTTTCATCCTTTTTATTTTAACT
99956276 TTTTTTTTAACTTTTGT-CTTT-ATCCTTATTTATTTTA
1 TTTTTTTTAACTTTTGTCCTTTCATCCTT-TTTATTTTA
99956313 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 12 0.36
41 17 0.52
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (41 bp):
TTTTTTTTAACTTTTGTCCTTTCATCCTTTTTATTTTAACT
Found at i:99956321 original size:41 final size:39
Alignment explanation
Indices: 99956234--99956322 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 39
99956224 CAAATTGCAC
* *
99956234 ATTTTTTTTAACTTTTGTCCTTTCTTTCTTTTTTTTTTA
1 ATTTTTTTTAACTTTTGTCCTTTCCTTATTTTTTTTTTA
*
99956273 ACTTTTTTTTTAACTTTTGTCTTTATCCTTATTTATTTTATTT-
1 A--TTTTTTTTAACTTTTGTCCTT-TCCTTATTT-TTTT-TTTA
99956316 ATTTTTT
1 ATTTTTT
99956323 ATTGTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
39 1 0.02
41 26 0.62
42 7 0.17
43 5 0.12
44 3 0.07
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.73
Consensus pattern (39 bp):
ATTTTTTTTAACTTTTGTCCTTTCCTTATTTTTTTTTTA
Found at i:99956382 original size:24 final size:23
Alignment explanation
Indices: 99956355--99956424 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
99956345 GAAATGTATA
*
99956355 TTTAAAATGTTTTATAATA-TATTT
1 TTTAAAA-ATTTTA-AATATTATTT
99956379 TTTATAAAATTTTAAATATTATTT
1 TTTA-AAAATTTTAAATATTATTT
*
99956403 TTT--AAATATTAAATA-TATTT
1 TTTAAAAATTTTAAATATTATTT
99956423 TT
1 TT
99956425 AATAATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.17
21 11 0.26
23 4 0.10
24 17 0.40
25 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (23 bp):
TTTAAAAATTTTAAATATTATTT
Found at i:99956403 original size:23 final size:21
Alignment explanation
Indices: 99956364--99956524 Score: 81
Period size: 20 Copynumber: 7.7 Consensus size: 21
99956354 ATTTAAAATG
99956364 TTTTATAATATATTTTTTATAAAA
1 TTTTA-AATATA-TTTTTAT-AAA
99956388 TTTTAAATATTATTTTT-TAAA
1 TTTTAAATA-TATTTTTATAAA
*
99956409 TATTAAATATATTTTTA-ATAA
1 TTTTAAATATATTTTTATA-AA
* * *
99956430 -TATAAAGA-A-TTTTA-ATA
1 TTTTAAATATATTTTTATAAA
*
99956447 TTTTAAAGATATGATTTTT-CAAA
1 TTTT-AA-ATAT-ATTTTTATAAA
* *
99956470 -TTT-ATTATTAGTTTTATAATA
1 TTTTAAATA-TATTTTTATAA-A
* *
99956491 TTTTAAATGTATATTT-TAAA
1 TTTTAAATATATTTTTATAAA
99956511 TTTTAAATATATTT
1 TTTTAAATATATTT
99956525 AAAATTTGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
17 1 0.01
18 8 0.08
19 10 0.10
20 32 0.30
21 17 0.16
22 13 0.12
23 17 0.16
24 7 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTAAATATATTTTTATAAA
Found at i:99956435 original size:20 final size:21
Alignment explanation
Indices: 99956373--99956432 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
99956363 GTTTTATAAT
*
99956373 ATATT-TTTTATAAAATTTTAA
1 ATATTATTTT-TAAAATATTAA
*
99956394 ATATTATTTTTTAAATATTAA
1 ATATTATTTTTAAAATATTAA
99956415 ATA-TATTTTTAATAATAT
1 ATATTATTTTTAA-AATAT
99956433 AAAGAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.24
21 22 0.65
22 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTATTTTTAAAATATTAA
Found at i:99956515 original size:20 final size:18
Alignment explanation
Indices: 99956490--99956531 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
99956480 GTTTTATAAT
*
99956490 ATTTTAAATGTATATTTTAA
1 ATTTTAAA--TATATTTAAA
99956510 ATTTTAAATATATTTAAA
1 ATTTTAAATATATTTAAA
99956528 ATTT
1 ATTT
99956532 GTTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTTAAATATATTTAAA
Found at i:99956525 original size:52 final size:54
Alignment explanation
Indices: 99956476--99956578 Score: 140
Period size: 52 Copynumber: 1.9 Consensus size: 54
99956466 CAAATTTATT
* *
99956476 ATTAGTTTTATAATATTTTAAATGTAT-ATTTTA-A-ATTTTAAATATATTTAAA
1 ATTAGTTTTATAATATTTAAAAT-TATGATTTTAGATATTTAAAATATATTTAAA
*
99956528 ATTTGTTTTATAATATTTAAAATTATGATTTTAGATTATTTAAAATATATT
1 ATTAGTTTTATAATATTTAAAATTATGATTTTAGA-TATTTAAAATATATT
99956579 ATTTTTAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
51 3 0.07
52 27 0.61
53 1 0.02
55 13 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (54 bp):
ATTAGTTTTATAATATTTAAAATTATGATTTTAGATATTTAAAATATATTTAAA
Found at i:99956590 original size:27 final size:23
Alignment explanation
Indices: 99956510--99956583 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
99956500 TATATTTTAA
*
99956510 ATTTTAAATATATTTAAAATT-TG
1 ATTTTAGAT-TATTTAAAATTATG
* *
99956533 -TTTTATAATATTTAAAATTATG
1 ATTTTAGATTATTTAAAATTATG
*
99956555 ATTTTAGATTATTTAAAATATATT
1 ATTTTAGATTATTTAAAAT-TATG
99956579 ATTTT
1 ATTTT
99956584 TAAAGATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.26
22 8 0.19
23 16 0.37
24 8 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTTAGATTATTTAAAATTATG
Found at i:99956641 original size:23 final size:22
Alignment explanation
Indices: 99956615--99956699 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
99956605 TTATTATTTG
99956615 TTTTATAATATTTTAAATATATA
1 TTTTA-AATATTTTAAATATATA
*
99956638 TTTTAAAT-TTTAAAAAATATATA
1 TTTTAAATATTT--TAAATATATA
* * *
99956661 TTATAAAACATTTTAAATATACA
1 TT-TTAAATATTTTAAATATATA
* *
99956684 TTTCAAATTTTTTAAA
1 TTTTAAATATTTTAAA
99956700 ATTAATAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
21 3 0.06
22 14 0.28
23 26 0.52
24 4 0.08
25 3 0.06
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTAAATATTTTAAATATATA
Found at i:99956811 original size:12 final size:10
Alignment explanation
Indices: 99956783--99956807 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
99956773 AAAGAAGGAT
99956783 AAAAAGTTAA
1 AAAAAGTTAA
99956793 AAAAAGTTAA
1 AAAAAGTTAA
99956803 AAAAA
1 AAAAA
99956808 AAGTGTCAGG
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAAGTTAA
Found at i:99957596 original size:43 final size:44
Alignment explanation
Indices: 99957535--99957631 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
99957525 TCCTAATTGG
*
99957535 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
99957578 GAAAATAGTTTCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
99957622 -AAAATA-TTTC
1 GAAAATAGTTTC
99957632 TAGAATATGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
42 4 0.08
43 45 0.90
44 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.31
Consensus pattern (44 bp):
GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:99961049 original size:40 final size:40
Alignment explanation
Indices: 99960953--99961087 Score: 202
Period size: 40 Copynumber: 3.4 Consensus size: 40
99960943 AATGATAAGT
* *
99960953 GTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAA
*
99960993 G-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAA
* *
99961032 GTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTAT
1 GTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAA
99961072 GTCCCGAAGGCATTTG
1 GTCCCGAAGGCATTTG
99961088 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.42
40 48 0.56
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAA
Found at i:99961109 original size:79 final size:79
Alignment explanation
Indices: 99960953--99961120 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
99960943 AATGATAAGT
* * **
99960953 GTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTAC
1 GTCCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTAC
99961018 TAAATCCGGGTTAA
66 TAAATCCGGGTTAA
* *
99961032 GTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-T
1 GTCCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTT
*
99961095 AGCTATATCC-GGTTAA
64 A-CTAAATCCGGGTTAA
* *
99961111 ATTCCGAAGG
1 GTCCCGAAGG
99961121 TACATGATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.65
80 25 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
GTCCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTAC
TAAATCCGGGTTAA
Found at i:99969074 original size:39 final size:40
Alignment explanation
Indices: 99968973--99969196 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
99968963 TTGAATGATG
* *
99968973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
99969012 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
99969053 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
99969092 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
99969131 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
99969170 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
99969197 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 75 0.46
40 76 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:99969219 original size:79 final size:78
Alignment explanation
Indices: 99969026--99969196 Score: 238
Period size: 78 Copynumber: 2.2 Consensus size: 78
99969016 GGACTAAGAT
* *
99969026 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAA-TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
99969090 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
* *
99969104 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACT-AATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
99969168 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
99969184 CCGAAGGCATTTG
1 CCGAAGGCATTTG
99969197 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
78 35 0.42
79 34 0.41
80 14 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:99969227 original size:79 final size:79
Alignment explanation
Indices: 99969026--99969229 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
99969016 GGACTAAGAT
** * * * * *
99969026 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
99969090 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
99969104 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
99969168 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
99969184 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
99969230 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 34 0.31
79 49 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:99973573 original size:43 final size:43
Alignment explanation
Indices: 99973483--99973574 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 43
99973473 CCTAATTGGG
* *
99973483 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATGAAAAG
1 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAAATGAAAAA
*
99973526 AAAATAGTTCCCTTATTCTAGTAAACTACTAAAAAAT-AAAATA
1 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAAATGAAAA-A
99973569 AAAATA
1 AAAATA
99973575 TTTCTAGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 4 0.09
43 41 0.91
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.28
Consensus pattern (43 bp):
AAAATAGTTCCCTTATTCTAATAAACTACTAAAAAATGAAAAA
Found at i:99975786 original size:22 final size:21
Alignment explanation
Indices: 99975773--99975814 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
99975763 TTTAATTTAA
99975773 TATTTAATAATTTTATATATTT
1 TATTTAATAATTTT-TATATTT
*
99975795 TATTTATTAATATTTTATAT
1 TATTTAATAAT-TTTTATAT
99975815 ATAACCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTAATAATTTTTATATTT
Found at i:99984998 original size:2 final size:2
Alignment explanation
Indices: 99984991--99985020 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99984981 AATTGCCACA
99984991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99985021 GCACATAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99988852 original size:43 final size:43
Alignment explanation
Indices: 99988786--99988871 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
99988776 TATGTTATTG
*
99988786 ATATTGAAATGAAAAAGAAGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGAAAAAGAAGAGAAATGAATATGAGAAGAGAAA
* * * *
99988829 ATATTGAAATGGAAAATATGAGAAATGATTATGAGAAGAGAAA
1 ATATTGAAATGAAAAAGAAGAGAAATGAATATGAGAAGAGAAA
99988872 TGAGATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGAAGAGAAATGAATATGAGAAGAGAAA
Found at i:99988855 original size:16 final size:17
Alignment explanation
Indices: 99988813--99988856 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
99988803 AAGAGAAATG
99988813 AATATGAG--ATGAGAA
1 AATATGAGAAATGAGAA
*
99988828 AATAT-TGAAATG-GAA
1 AATATGAGAAATGAGAA
99988843 AATATGAGAAATGA
1 AATATGAGAAATGA
99988857 TTATGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AATATGAGAAATGAGAA
Found at i:99990262 original size:49 final size:49
Alignment explanation
Indices: 99990200--99990304 Score: 151
Period size: 49 Copynumber: 2.2 Consensus size: 49
99990190 TCTGACATTC
* * *
99990200 TAGAAA-GGATAAATAG-GAATAATAGTGTAGACAGTGGAAGACTAAGTT
1 TAGAAATGTATAAATAGTG-ATAAGAGTGTAGACAGTGGAAGACCAAGTT
*
99990248 TAGCAATGTATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTT
1 TAGAAATGTATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTT
99990297 TAGAAATG
1 TAGAAATG
99990305 CAAAGCATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 5 0.10
49 44 0.88
50 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.27, T:0.24
Consensus pattern (49 bp):
TAGAAATGTATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTT
Found at i:99991133 original size:22 final size:22
Alignment explanation
Indices: 99991108--99991156 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
99991098 TTTTGTTATT
* *
99991108 ATTTTACTGTTTTTTTACTACC
1 ATTTTACTGTTGTGTTACTACC
** *
99991130 ATTTCGCTGTTGTGTTACTACT
1 ATTTTACTGTTGTGTTACTACC
99991152 ATTTT
1 ATTTT
99991157 GTTATTATAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.57
Consensus pattern (22 bp):
ATTTTACTGTTGTGTTACTACC
Found at i:99992412 original size:27 final size:27
Alignment explanation
Indices: 99992392--99992537 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
99992382 ATTACTGAAA
**
99992392 TACCCTCGATTTGTAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
99992419 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
99992446 CACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
99992473 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
99992500 TACCCTCAATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
99992527 TACCCTCGATT
1 TACCCTCGATT
99992538 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:99992599 original size:27 final size:27
Alignment explanation
Indices: 99992569--99992777 Score: 136
Period size: 27 Copynumber: 7.7 Consensus size: 27
99992559 TGTAGGATAG
99992569 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
99992596 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
**** * *
99992623 AATTATTGCAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* **
99992650 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * *
99992677 AATTA-TAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AA
** * * *
99992706 AATTATAAAAATACCATTGGTTTATAA
1 AATTACCAAAATACCCTTAGTTTGTAA
** *
99992733 AATTACTGAAATACCCTTAGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
99992760 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
99992778 GTAGGATGAA
Statistics
Matches: 134, Mismatches: 40, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
26 2 0.01
27 107 0.80
28 8 0.06
29 16 0.12
30 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:99992627 original size:54 final size:54
Alignment explanation
Indices: 99992569--99992770 Score: 199
Period size: 54 Copynumber: 3.7 Consensus size: 54
99992559 TGTAGGATAG
* * *
99992569 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTATAA
* ** * * * * *
99992623 AATTATTGCAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTATAA
* * ** *
99992677 AATTA-TAGAAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTATAA
1 AATTACTA-AAATACCCTT-AGTTTGT-AAAATTACCAAAATACCACTGGTTTATAA
* * *
99992733 AATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAA
1 AATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
99992771 CACCCTTGTA
Statistics
Matches: 115, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
53 1 0.01
54 65 0.57
55 10 0.09
56 38 0.33
57 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (54 bp):
AATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTATAA
Found at i:99992746 original size:110 final size:108
Alignment explanation
Indices: 99992577--99992775 Score: 254
Period size: 110 Copynumber: 1.8 Consensus size: 108
99992567 AGAATTACCA
* * * * * * *
99992577 AAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATTGCAATACCCTCA
1 AAATACCCTTACTTTCTAAAATTACAAAAATACCACTGGTTTATAAAATTACTGAAATACCCTCA
*
99992642 ATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTATAG
66 ATTTGTAAAATTACCAAAACACCCCTGATTTACAAAATTATAG
* *
99992685 AAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTATAAAATTACTGAAATACCCT
1 AAATACCCTT-ACTTTCT-AAAATTACAAAAATACCACTGGTTTATAAAATTACTGAAATACCCT
* * * *
99992750 TAGTTTGTAGATTTACCAAAACACCC
64 CAATTTGTAAAATTACCAAAACACCC
99992776 TTGTAGGATG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
108 10 0.13
109 5 0.07
110 60 0.80
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (108 bp):
AAATACCCTTACTTTCTAAAATTACAAAAATACCACTGGTTTATAAAATTACTGAAATACCCTCA
ATTTGTAAAATTACCAAAACACCCCTGATTTACAAAATTATAG
Found at i:99992847 original size:27 final size:27
Alignment explanation
Indices: 99992772--99992873 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
99992762 TTACCAAAAC
* * * * *
99992772 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACCATAAT
* * *
99992799 ACCCCTAATA-GGTAAAAAGACCGTAA-
1 ACCCCT-GTAGGGTAAAATGACCATAAT
*
99992825 AGCCCCTGTAGGGTAAAGTGACCATAAT
1 A-CCCCTGTAGGGTAAAATGACCATAAT
* *
99992853 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
99992874 GAATATGCCC
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACCATAAT
Found at i:99993591 original size:20 final size:20
Alignment explanation
Indices: 99993566--99993632 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
99993556 GATATGATAT
*
99993566 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
99993586 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
99993606 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
99993626 ACATGAT
1 ACATGAT
99993633 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:99993711 original size:26 final size:26
Alignment explanation
Indices: 99993682--99993782 Score: 166
Period size: 26 Copynumber: 3.9 Consensus size: 26
99993672 GAGGAAGTGC
99993682 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
99993708 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
99993734 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
99993760 AAAAGGGCTTATGCCCCAATTTA
1 AAAAGGGCTTATGCCCCAGTTTA
99993783 CCGAAAAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:99993765 original size:52 final size:52
Alignment explanation
Indices: 99993682--99993868 Score: 234
Period size: 64 Copynumber: 3.4 Consensus size: 52
99993672 GAGGAAGTGC
99993682 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
99993734 AAAATGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAATTTACCGAAAAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG--CC------CC----AGTTTACCG
99993798 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
99993849 AAAAGGACTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
99993869 ATTAAAGAGG
Statistics
Matches: 120, Mismatches: 3, Indels: 26
0.81 0.02 0.17
Matches are distributed among these distances:
50 10 0.08
51 18 0.15
52 38 0.32
54 2 0.02
55 2 0.02
60 2 0.02
61 2 0.02
63 2 0.02
64 44 0.37
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:99993843 original size:25 final size:25
Alignment explanation
Indices: 99993789--99993868 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
99993779 TTTACCGAAA
99993789 AGTTTACCGAAAAGGGCTTATGCCCC
1 AGTTTACCGAAAAGGGCTT-TGCCCC
**
99993815 AGTTTATTGAAAAGGGCTTTGCCCC
1 AGTTTACCGAAAAGGGCTTTGCCCC
*
99993840 AGTTTACCGAAAAGGACTTTGCCCC
1 AGTTTACCGAAAAGGGCTTTGCCCC
99993865 AGTT
1 AGTT
99993869 ATTAAAGAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 32 0.65
26 17 0.35
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
AGTTTACCGAAAAGGGCTTTGCCCC
Found at i:99994224 original size:31 final size:31
Alignment explanation
Indices: 99994086--99994217 Score: 210
Period size: 31 Copynumber: 4.3 Consensus size: 31
99994076 CGTTTACAGT
99994086 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAATGATATGATTTATGA
* * * * *
99994117 AAAGGCTTCGGCCTAGTGAAATTATTTATGA
1 AAAGGCTTCAGCCCAATGATATGATTTATGA
*
99994148 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAATGATATGATTTATGA
99994179 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAATGATATGATTTATGA
99994210 AAAGGCTT
1 AAAGGCTT
99994218 TGGCCCAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 91 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATGATATGATTTATGA
Found at i:99994279 original size:93 final size:92
Alignment explanation
Indices: 99994086--99994260 Score: 223
Period size: 93 Copynumber: 1.9 Consensus size: 92
99994076 CGTTTACAGT
* * *
99994086 AAAGGCTTCAGCCCAATGATATGATTTATGAAAAGGCTTCGGCCTAGTGAAATTATTTATGAAAA
1 AAAGGCTTCAGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGAAATTA-TAACGAAAA
**
99994151 GGCTTCAGCCCAGTGATATGATTTATGA
65 GGCTTCAGCCCAGTGATATGATAGATGA
* *
99994179 AAAGGCTTCAGCCCAATGATATGATTTATGAAAAGGCTTTGGCCCAGT-AACCGTTA-AACG-AA
1 AAAGGCTTCAGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGAA--ATTATAACGAAA
*
99994241 AGGCTTCGGCCCAGT-ATATG
64 AGGCTTCAGCCCAGTGATATG
99994261 TCAAGACTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
90 5 0.07
91 16 0.22
92 4 0.05
93 46 0.62
94 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (92 bp):
AAAGGCTTCAGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGAAATTATAACGAAAAG
GCTTCAGCCCAGTGATATGATAGATGA
Found at i:99999173 original size:29 final size:30
Alignment explanation
Indices: 99999118--99999210 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 30
99999108 ACATGGACCA
** * *
99999118 CTAGGCCCAA-TCTTATTCAAATGGCCCAT
1 CTAGGCCCAATTCACATTCATATAGCCCAT
* * *
99999147 CT-GGCCCAGTTCATATTCTTATAGCCCA-
1 CTAGGCCCAATTCACATTCATATAGCCCAT
*
99999175 CTAGGCCCAATTCACATTCATATGGCCCAT
1 CTAGGCCCAATTCACATTCATATAGCCCAT
99999205 -TAGGCC
1 CTAGGCC
99999211 TAAATTATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 8 0.15
29 44 0.85
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (30 bp):
CTAGGCCCAATTCACATTCATATAGCCCAT
Found at i:100000696 original size:16 final size:16
Alignment explanation
Indices: 100000675--100000707 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
100000665 ACAAATTTAA
100000675 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
100000691 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
100000707 G
1 G
100000708 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:100006539 original size:29 final size:29
Alignment explanation
Indices: 100006429--100006540 Score: 73
Period size: 29 Copynumber: 3.9 Consensus size: 29
100006419 ACCCCTACAT
* * *
100006429 ACATGCATATGACCCACTATGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * * * * *
100006457 TTATTCAAATGGCCTATTTGACCCAGTTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
100006486 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* * *
100006515 ACATTCATATGGGCCATTAGTCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
100006541 ATCATATTAT
Statistics
Matches: 59, Mismatches: 24, Indels: 1
0.70 0.29 0.01
Matches are distributed among these distances:
28 15 0.25
29 44 0.75
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:100040889 original size:24 final size:24
Alignment explanation
Indices: 100040857--100040994 Score: 158
Period size: 24 Copynumber: 5.7 Consensus size: 24
100040847 TCTTACTTAT
100040857 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
*
100040881 TCGCACACATAGTGCTCTTAC-TTAT-
1 TCGCACACATAGTGC-C--ACGTTTTC
100040906 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
* **
100040930 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTC
100040954 TCGCACACATAGTGCCACTTAGTTTT-
1 TCGCACACATAGTGCCAC---GTTTTC
100040980 T-GCACACATAGTGCC
1 TCGCACACATAGTGCC
100040995 GCATAACCTT
Statistics
Matches: 98, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 54 0.55
25 30 0.31
26 4 0.04
27 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTTTC
Found at i:100040889 original size:49 final size:49
Alignment explanation
Indices: 100040833--100040993 Score: 231
Period size: 49 Copynumber: 3.3 Consensus size: 49
100040823 TTTGAAAGTC
100040833 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
100040882 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
1 CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
* * *
100040931 CGCACACATAGTGC-CAT-GTAATCTCGCACACATAGTGCCACTTAGTTTT-T
1 CGCACACATAGTGCTCTTACTTAT-TCGCACACATAGTGCCAC---GTTTTCT
100040981 -GCACACATAGTGC
1 CGCACACATAGTGC
100040994 CGCATAACCT
Statistics
Matches: 105, Mismatches: 3, Indels: 8
0.91 0.03 0.07
Matches are distributed among these distances:
47 3 0.03
48 20 0.19
49 76 0.72
50 1 0.01
51 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (49 bp):
CGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCCACGTTTTCT
Found at i:100040943 original size:73 final size:73
Alignment explanation
Indices: 100040857--100040994 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 73
100040847 TCTTACTTAT
** *
100040857 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTG-CTCTTACTTATTCGCACACATAGTGC
1 TCGCACACATAGTGCCACGTAATCTCGCACACATAGTGCCACTTACTT-TTCGCACACATAGTGC
100040921 CACGTTTTC
65 CACGTTTTC
* * *
100040930 TCGCACACATAGTGCCATGTAATCTCGCACACATAGTGCCACTTAGTTTTTGCACACATAGTGCC
1 TCGCACACATAGTGCCACGTAATCTCGCACACATAGTGCCACTTACTTTTCGCACACATAGTGCC
100040995 GCATAACCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 51 0.88
74 7 0.12
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (73 bp):
TCGCACACATAGTGCCACGTAATCTCGCACACATAGTGCCACTTACTTTTCGCACACATAGTGCC
ACGTTTTC
Found at i:100041009 original size:49 final size:48
Alignment explanation
Indices: 100040857--100041017 Score: 177
Period size: 49 Copynumber: 3.3 Consensus size: 48
100040847 TCTTACTTAT
* *
100040857 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCTCTTAC-TTA-T
1 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGC-C--ACATAACC
** *
100040906 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACC
*
100040954 TCGCACACATAGTGCCACTTAGTTTT-T-GCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCAC---GTTTTCTCGCACACATAGTGCCACATAACC
*
100041003 TTGCACACATAGTGC
1 TCGCACACATAGTGC
100041018 TGAAATTTCT
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 19 0.19
49 71 0.72
50 1 0.01
51 5 0.05
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (48 bp):
TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACC
Found at i:100041009 original size:73 final size:73
Alignment explanation
Indices: 100040857--100041017 Score: 198
Period size: 73 Copynumber: 2.2 Consensus size: 73
100040847 TCTTACTTAT
** *
100040857 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCTCTTACTTATTCGCACACATAGTGCC
1 TCGCACACATAGTGCCACGTAATCTCGCACACATAGTGCACTTACTTATTCGCACACATAGTGCC
* ***
100040922 ACGTTTTC
66 ACATAACC
* * *
100040930 TCGCACACATAGTGCCATGTAATCTCGCACACATAGTGCCACTTAGTT-TTTGCACACATAGTGC
1 TCGCACACATAGTGCCACGTAATCTCGCACACATAGTG-CACTTACTTATTCGCACACATAGTGC
*
100040994 CGCATAACC
65 CACATAACC
*
100041003 TTGCACACATAGTGC
1 TCGCACACATAGTGC
100041018 TGAAATTTCT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
73 68 0.91
74 7 0.09
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (73 bp):
TCGCACACATAGTGCCACGTAATCTCGCACACATAGTGCACTTACTTATTCGCACACATAGTGCC
ACATAACC
Found at i:100042094 original size:20 final size:21
Alignment explanation
Indices: 100042069--100042107 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
100042059 TAATTTCTTC
*
100042069 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTATTTATTT
100042089 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
100042108 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTATTTATTT
Found at i:100044037 original size:21 final size:21
Alignment explanation
Indices: 100043999--100044038 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
100043989 TGTTCAACCA
*
100043999 ATTCAAAACACATTCAAATTC
1 ATTCAAAACACATCCAAATTC
100044020 ATTCAAAACA-ATGCCAAAT
1 ATTCAAAACACAT-CCAAAT
100044039 AAACAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.25
Consensus pattern (21 bp):
ATTCAAAACACATCCAAATTC
Found at i:100045858 original size:42 final size:42
Alignment explanation
Indices: 100045798--100045878 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
100045788 CCAATATGTG
* *
100045798 TATATAGCCGAATATATCTCAATCTCGCATACTAAGTGCAAA
1 TATATAACCGAATATATCTCAATCTCGCACACTAAGTGCAAA
* *
100045840 TATATAACCGAAGT-TATCTCAATTTCTCACACTAAGTGC
1 TATATAACCGAA-TATATCTCAATCTCGCACACTAAGTGC
100045879 CCATACTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (42 bp):
TATATAACCGAATATATCTCAATCTCGCACACTAAGTGCAAA
Found at i:100047445 original size:24 final size:24
Alignment explanation
Indices: 100047417--100047466 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
100047407 ATGTCTTCTC
*
100047417 ACTATATCAATAATCATTCCATGA
1 ACTATATCAATAACCATTCCATGA
100047441 ACTATATCAATAACCATTCCATGA
1 ACTATATCAATAACCATTCCATGA
100047465 AC
1 AC
100047467 CCATAGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.30
Consensus pattern (24 bp):
ACTATATCAATAACCATTCCATGA
Found at i:100049907 original size:50 final size:51
Alignment explanation
Indices: 100049830--100049958 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
100049820 GACCATGGCA
*
100049830 ACAAGTGATAAGTGACAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
100049881 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
100049931 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
100049959 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:100049974 original size:24 final size:24
Alignment explanation
Indices: 100049947--100049995 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
100049937 GAAAAGTGGT
*
100049947 AGCTTCAGCTACCTGATCAGTGAA
1 AGCTTCAGCTACCTGATCAATGAA
*
100049971 AGCTTCTGCTACCTGATCAATGAA
1 AGCTTCAGCTACCTGATCAATGAA
100049995 A
1 A
100049996 AGTGGTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (24 bp):
AGCTTCAGCTACCTGATCAATGAA
Found at i:100050002 original size:55 final size:56
Alignment explanation
Indices: 100049936--100050087 Score: 189
Period size: 62 Copynumber: 2.6 Consensus size: 56
100049926 AAATGACAAG
* *
100049936 TGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAA-AGCTTCTGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAGAGCTTCGGCTACCTGATCAA
* *
100049991 TGAAAAGTGGTAGTTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTG--AA---G-AGCTTCGGCTACCTGATCAA
* *
100050053 TGAAAAATGGTAGCTCCGGCTACCTGATCAGTGAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAA
100050088 TAGTGGTAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
55 31 0.37
57 2 0.02
60 2 0.02
62 48 0.58
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (56 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAGAGCTTCGGCTACCTGATCAA
Found at i:100050016 original size:31 final size:31
Alignment explanation
Indices: 100049971--100050106 Score: 218
Period size: 31 Copynumber: 4.4 Consensus size: 31
100049961 GATCAGTGAA
* *
100049971 AGCTTCTGCTACCTGATCAATGAAAAGTGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
*
100050002 AGTTTCGGCTACCTGATCAGTGAAAAGTGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
*
100050033 AGCTTCGGCTACCTGATCAGTGAAAAATGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
* *
100050064 AGCTCCGGCTACCTGATCAGTGAATAGTGGT
1 AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
100050095 AGCTTCGGCTAC
1 AGCTTCGGCTAC
100050107 AAGTGACAAG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 96 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (31 bp):
AGCTTCGGCTACCTGATCAGTGAAAAGTGGT
Found at i:100050279 original size:42 final size:42
Alignment explanation
Indices: 100050225--100050318 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
100050215 TATGTGATTC
* *
100050225 GTGTAAAACCATAGCTAGGCTATGGCAT-AGATATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCA-ATATATGAAGAT
* * *
100050267 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCAATATATGAAGAT
100050309 GTGTAAGACC
1 GTGTAAGACC
100050319 GTGAAGATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCAATATATGAAGAT
Found at i:100050324 original size:18 final size:18
Alignment explanation
Indices: 100050301--100050336 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
100050291 GCATCATTAT
100050301 GTGAAGATGTGTAAGACC
1 GTGAAGATGTGTAAGACC
100050319 GTGAAGATGTGTAAGACC
1 GTGAAGATGTGTAAGACC
100050337 ATAGTTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (18 bp):
GTGAAGATGTGTAAGACC
Found at i:100052025 original size:13 final size:13
Alignment explanation
Indices: 100052003--100052037 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
100051993 TAATTTTTCC
100052003 CTTTCTTTTTATTT
1 CTTTCTTTTTA-TT
100052017 CTTTCTTTTTATT
1 CTTTCTTTTTATT
100052030 CTTTCTTT
1 CTTTCTTT
100052038 CCCCTATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTCTTTTTATT
Found at i:100054615 original size:22 final size:22
Alignment explanation
Indices: 100054590--100054660 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
100054580 ATTACATGGA
100054590 ACTATTTATTATTAATTATTAT
1 ACTATTTATTATTAATTATTAT
*
100054612 ACTAATTT-TAATTAAATTA-TAT
1 ACT-ATTTATTATT-AATTATTAT
* *
100054634 AATATTTATTATTTAATCATATAT
1 ACTATTTATTA-TTAATTAT-TAT
100054658 ACT
1 ACT
100054661 TAGTTAAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 4 0.11
22 18 0.47
23 11 0.29
24 5 0.13
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
ACTATTTATTATTAATTATTAT
Found at i:100055891 original size:27 final size:30
Alignment explanation
Indices: 100055861--100055920 Score: 90
Period size: 27 Copynumber: 2.1 Consensus size: 30
100055851 AGTCAAGACT
100055861 AAAATTTAAAAAT-TC-AA-AAAATATAAA
1 AAAATTTAAAAATATCAAACAAAATATAAA
100055888 AAAATTTAAAAATATCAAATCAAAATATAAA
1 AAAATTTAAAAATATCAAA-CAAAATATAAA
100055919 AA
1 AA
100055921 TTAAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 13 0.45
28 2 0.07
29 2 0.07
31 12 0.41
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (30 bp):
AAAATTTAAAAATATCAAACAAAATATAAA
Found at i:100057008 original size:20 final size:21
Alignment explanation
Indices: 100056983--100057024 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
100056973 GTTTTTTAAT
*
100056983 AATTTT-GAAGGTTGAATTGG
1 AATTTTGGAAGGTCGAATTGG
*
100057003 AATTTTGGTAGGTCGAATTGG
1 AATTTTGGAAGGTCGAATTGG
100057024 A
1 A
100057025 CTGAATGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.02, G:0.31, T:0.38
Consensus pattern (21 bp):
AATTTTGGAAGGTCGAATTGG
Found at i:100066711 original size:46 final size:46
Alignment explanation
Indices: 100066640--100066733 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
100066630 TACGATATCC
*
100066640 TAACAATTTTATTAAATACATCATTTAAAAAAACAAAAAAT-AATTT
1 TAACAATTTTATTAAATACACCATTT-AAAAAACAAAAAATAAATTT
* *
100066686 TAACAATTTTATTAAATACACCATTTTAAAAATAAAAAATAAATTT
1 TAACAATTTTATTAAATACACCATTTAAAAAACAAAAAATAAATTT
100066732 TA
1 TA
100066734 TGGAAATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 12 0.27
46 32 0.73
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (46 bp):
TAACAATTTTATTAAATACACCATTTAAAAAACAAAAAATAAATTT
Found at i:100069009 original size:28 final size:27
Alignment explanation
Indices: 100068926--100069043 Score: 116
Period size: 25 Copynumber: 4.3 Consensus size: 27
100068916 AAATTAGCGC
** *
100068926 GCTTATCGTATTATTTGGCACTTCGGT
1 GCTTATCGTATTATTTTTCACTTTGGT
* * *
100068953 GCTTATTGT-TGTAAAATTTGCACTTTGGT
1 GCTTATCGTAT-T--ATTTTTCACTTTGGT
100068982 GCTTATCGTAATTATTTTTCACTTTGGT
1 GCTTATCGT-ATTATTTTTCACTTTGGT
100069010 GCTTATC--ATTATTTTTCACTTTGGT
1 GCTTATCGTATTATTTTTCACTTTGGT
*
100069035 ACTTATCGT
1 GCTTATCGT
100069044 TATTTGCAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
25 24 0.32
26 1 0.01
27 9 0.12
28 20 0.26
29 20 0.26
30 1 0.01
31 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (27 bp):
GCTTATCGTATTATTTTTCACTTTGGT
Found at i:100071143 original size:14 final size:14
Alignment explanation
Indices: 100071124--100071150 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100071114 TCAACTCTAC
100071124 TAAACGATGAATGT
1 TAAACGATGAATGT
100071138 TAAACGATGAATG
1 TAAACGATGAATG
100071151 GAAATAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (14 bp):
TAAACGATGAATGT
Found at i:100076432 original size:6 final size:6
Alignment explanation
Indices: 100076417--100076466 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
100076407 ATGCTTTATT
*
100076417 TGTA-G TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTGTG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
100076464 TGT
1 TGT
100076467 TTTGTTTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:100082633 original size:20 final size:20
Alignment explanation
Indices: 100082610--100082649 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
100082600 TTTCATTTAA
100082610 ATTTAAAACCTTTCAATCAT
1 ATTTAAAACCTTTCAATCAT
100082630 ATTTAAAACCTTTCAATCAT
1 ATTTAAAACCTTTCAATCAT
100082650 GAATCTCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAACCTTTCAATCAT
Found at i:100091887 original size:122 final size:120
Alignment explanation
Indices: 100091671--100091895 Score: 362
Period size: 122 Copynumber: 1.9 Consensus size: 120
100091661 CCAAAATAAC
* * * *
100091671 CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCTAATCTTGATTTAACACGGAATG
1 CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCTAAACTTAATTTAACAAGAAATG
*
100091736 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTAGCATAGTAATAG
66 TATGATAACTAACCTAAGAATACAAATTAAATGATAGACATTAGCATAGTAATAG
*
100091791 CATGAGAAT-AAGCATAGTAATGTCATGGGTATGGGGTTTTCCTAAGAACTTAATTTAACAAGAA
1 CATGAGAATGAA-AATAGTAATGTCATGGGTATGGGGTTTTCCT-A-AACTTAATTTAACAAGAA
100091855 ATGTATGATAACTAACCTAAGAATACAAATTAAATGATAGA
63 ATGTATGATAACTAACCTAAGAATACAAATTAAATGATAGA
100091896 ATAATGAGCA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
119 2 0.02
120 39 0.41
121 1 0.01
122 54 0.56
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (120 bp):
CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCTAAACTTAATTTAACAAGAAATG
TATGATAACTAACCTAAGAATACAAATTAAATGATAGACATTAGCATAGTAATAG
Found at i:100095999 original size:40 final size:40
Alignment explanation
Indices: 100095944--100096241 Score: 440
Period size: 40 Copynumber: 7.5 Consensus size: 40
100095934 TGGATGATAA
* * *
100095944 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
100095984 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
100096024 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
100096064 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
100096104 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
100096144 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
100096184 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
100096224 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
100096242 TACTTGGCTT
Statistics
Matches: 239, Mismatches: 17, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
39 16 0.07
40 223 0.93
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:100104203 original size:40 final size:40
Alignment explanation
Indices: 100104148--100104405 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
100104138 TGGATGATAA
* * *
100104148 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTTATTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
100104188 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
100104228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
100104268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
100104308 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
100104348 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
100104388 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
100104406 TACTTGGCTT
Statistics
Matches: 203, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.08
40 187 0.92
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:100112672 original size:120 final size:122
Alignment explanation
Indices: 100112508--100112731 Score: 319
Period size: 122 Copynumber: 1.9 Consensus size: 122
100112498 CCAACCTAAC
* * * * *
100112508 CATGAGAATGAAAATAGTAATGTCATGGGTGTGGGGTTTTCCT-A-ATCTTGATTTAACACGGAA
1 CATGAGAATGAAAATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAAA
* * *
100112571 TGTATGGTAACTAACCTAAGAATGCAAATTAAATAATAGGCATTAATATAGTAATAG
66 TGCATGATAACTAACCTAAGAATACAAATTAAATAATAGGCATTAATATAGTAATAG
*
100112628 CATGAGAAT-AAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAA
1 CATGAGAATGAA-AATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAA
* *
100112692 ATGCATGATAACTAACCTAAGAATATAAATTAAATGATAG
65 ATGCATGATAACTAACCTAAGAATACAAATTAAATAATAG
100112732 AATAATGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
119 2 0.02
120 37 0.41
121 1 0.01
122 50 0.56
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (122 bp):
CATGAGAATGAAAATAGTAATGTCATGGGTATGAGGTTTTCCTAAGAACTCGATTTAACACGAAA
TGCATGATAACTAACCTAAGAATACAAATTAAATAATAGGCATTAATATAGTAATAG
Found at i:100114639 original size:18 final size:18
Alignment explanation
Indices: 100114616--100114652 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
100114606 GATAGATCAA
100114616 TAAAGAGATTCAATTTTG
1 TAAAGAGATTCAATTTTG
100114634 TAAAGAGATTCAATTTTG
1 TAAAGAGATTCAATTTTG
100114652 T
1 T
100114653 GTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TAAAGAGATTCAATTTTG
Found at i:100117300 original size:9 final size:9
Alignment explanation
Indices: 100117270--100117311 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
100117260 CCTCTTCATG
*
100117270 TTTCTTTGTT
1 TTTCTTT-TC
*
100117280 TTTCTTCT-
1 TTTCTTTTC
100117288 TTTCTTTTC
1 TTTCTTTTC
100117297 TTTCTTTTC
1 TTTCTTTTC
100117306 TTTCTT
1 TTTCTT
100117312 CCCCTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.24
9 16 0.55
10 6 0.21
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:100117301 original size:14 final size:14
Alignment explanation
Indices: 100117270--100117308 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
100117260 CCTCTTCATG
100117270 TTTCTTTGT-TTTTC
1 TTTCTTT-TCTTTTC
100117284 -TTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
100117297 TTTCTTTTCTTT
1 TTTCTTTTCTTT
100117309 CTTCCCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 11 0.48
14 11 0.48
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTCTTTTCTTTTC
Found at i:100117453 original size:21 final size:21
Alignment explanation
Indices: 100117427--100117468 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
100117417 AAACTTAAGA
100117427 AAATTTAAGCGTTACAATAGT
1 AAATTTAAGCGTTACAATAGT
*
100117448 AAATTTGAGCGTTACAATAGT
1 AAATTTAAGCGTTACAATAGT
100117469 GGAGGAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
AAATTTAAGCGTTACAATAGT
Found at i:100120692 original size:28 final size:27
Alignment explanation
Indices: 100120652--100120707 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
100120642 AAATATAGGC
* *
100120652 TGGGCCTGAGCCCATTACAGATTCAGTT
1 TGGGCCTGAGCCCAAT-CAGATACAGTT
**
100120680 TGGGCCTTTGCCCAATCAGATACAGTT
1 TGGGCCTGAGCCCAATCAGATACAGTT
100120707 T
1 T
100120708 CACAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (27 bp):
TGGGCCTGAGCCCAATCAGATACAGTT
Found at i:100121697 original size:34 final size:33
Alignment explanation
Indices: 100121651--100121714 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
100121641 TTGAACAGTC
100121651 TGGGCTTAAGCCC-ATATCAGTAGCAATATCAATG
1 TGGGCTTAAGCCCAAT-TCAGTA-CAATATCAATG
*
100121685 TGGGCCTT-AGCCCAATTCAGTACAGTATCA
1 TGGG-CTTAAGCCCAATTCAGTACAATATCA
100121715 GTAATGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 7 0.26
34 15 0.56
35 5 0.19
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (33 bp):
TGGGCTTAAGCCCAATTCAGTACAATATCAATG
Found at i:100128307 original size:26 final size:26
Alignment explanation
Indices: 100128278--100128331 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
100128268 CTCGGCGACT
100128278 ATGCAGAATCAGAACCCGGAGCCCGC
1 ATGCAGAATCAGAACCCGGAGCCCGC
100128304 ATGCAGAATCAGAACCCGGAGCCCGC
1 ATGCAGAATCAGAACCCGGAGCCCGC
100128330 AT
1 AT
100128332 CTGATCAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.33, G:0.26, T:0.09
Consensus pattern (26 bp):
ATGCAGAATCAGAACCCGGAGCCCGC
Found at i:100142114 original size:32 final size:32
Alignment explanation
Indices: 100142078--100142215 Score: 116
Period size: 33 Copynumber: 4.2 Consensus size: 32
100142068 ACTCGAGGTG
* *
100142078 TACATTTCTTTCCGAGTGGTACACACAAAGTA
1 TACATTTCTTTCCAAATGGTACACACAAAGTA
* *
100142110 TACATTTCCTTTTCAAATGGTATACACAAAGTA
1 TACATTT-CTTTCCAAATGGTACACACAAAGTA
* ** * *
100142143 TACCTAACCTTTCCAAGT-GTACACACAAAGTG
1 TACAT-TTCTTTCCAAATGGTACACACAAAGTA
** * *
100142175 TACATAAACTTTTCAAATGGTATACACAAAGTA
1 TACAT-TTCTTTCCAAATGGTACACACAAAGTA
*
100142208 TACCTTTC
1 TACATTTC
100142216 CTTTTCACAT
Statistics
Matches: 83, Mismatches: 20, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
32 34 0.41
33 49 0.59
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.32
Consensus pattern (32 bp):
TACATTTCTTTCCAAATGGTACACACAAAGTA
Found at i:100142219 original size:65 final size:66
Alignment explanation
Indices: 100142085--100142212 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 66
100142075 GTGTACATTT
* ***
100142085 CTTTCCGAGTGGTACACACAAAGTATACATTTCCTTTTCAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGTGGTACACACAAAGTATACATAAACTTTTCAAATGGTATACACAAAGTATACCTAA
100142150 C
66 C
*
100142151 CTTTCCAAGT-GTACACACAAAGTGTACATAAACTTTTCAAATGGTATACACAAAGTATACCT
1 CTTTCCAAGTGGTACACACAAAGTATACATAAACTTTTCAAATGGTATACACAAAGTATACCT
100142213 TTCCTTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 48 0.84
66 9 0.16
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (66 bp):
CTTTCCAAGTGGTACACACAAAGTATACATAAACTTTTCAAATGGTATACACAAAGTATACCTAA
C
Found at i:100142222 original size:33 final size:33
Alignment explanation
Indices: 100142094--100142210 Score: 146
Period size: 33 Copynumber: 3.6 Consensus size: 33
100142084 TCTTTCCGAG
**
100142094 TGGTACACACAAAGTATACATTTCCTTTTCAAA
1 TGGTACACACAAAGTATACATAACCTTTTCAAA
* * * *
100142127 TGGTATACACAAAGTATACCTAACCTTTCCAAG
1 TGGTACACACAAAGTATACATAACCTTTTCAAA
* *
100142160 T-GTACACACAAAGTGTACATAAACTTTTCAAA
1 TGGTACACACAAAGTATACATAACCTTTTCAAA
*
100142192 TGGTATACACAAAGTATAC
1 TGGTACACACAAAGTATAC
100142211 CTTTCCTTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
32 26 0.38
33 43 0.62
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (33 bp):
TGGTACACACAAAGTATACATAACCTTTTCAAA
Found at i:100142257 original size:29 final size:29
Alignment explanation
Indices: 100142215--100142313 Score: 180
Period size: 29 Copynumber: 3.4 Consensus size: 29
100142205 GTATACCTTT
100142215 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
100142244 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
100142273 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
100142302 CCTTTTCACATT
1 CCTTTTCACATT
100142314 GTACACACAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:100145769 original size:22 final size:21
Alignment explanation
Indices: 100145727--100145769 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
100145717 AAATCTGTCG
**
100145727 AAAATAATCAAAATTTGATAT
1 AAAATAATCAAAATTCAATAT
*
100145748 AAAATTAATTAAAATTCAATAT
1 AAAA-TAATCAAAATTCAATAT
100145770 GTTCATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAATCAAAATTCAATAT
Found at i:100147747 original size:3 final size:3
Alignment explanation
Indices: 100147739--100147776 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
100147729 CTCTGTGGGA
*
100147739 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
100147777 AGGATCCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:100148326 original size:15 final size:16
Alignment explanation
Indices: 100148308--100148340 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
100148298 TTTGCTATTA
100148308 ATTTATTAAA-AAAAT
1 ATTTATTAAATAAAAT
100148323 ATTTATTAAATAAAAT
1 ATTTATTAAATAAAAT
100148339 AT
1 AT
100148341 GATCAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTATTAAATAAAAT
Found at i:100148418 original size:22 final size:19
Alignment explanation
Indices: 100148379--100148420 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
100148369 TGGAAAGTTG
100148379 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
100148398 ATAATACATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
100148420 A
1 A
100148421 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:100150016 original size:15 final size:13
Alignment explanation
Indices: 100149987--100150013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100149977 GCTCGGCAGG
100149987 GACACGCCCGTGT
1 GACACGCCCGTGT
100150000 GACACGCCCGTGT
1 GACACGCCCGTGT
100150013 G
1 G
100150014 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:100157201 original size:30 final size:30
Alignment explanation
Indices: 100157144--100157201 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
100157134 TTTTCGAGCA
**
100157144 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
100157174 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
100157202 ATATGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Done.