Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold334
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1116604
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 144470 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:6729 original size:69 final size:69
Alignment explanation
Indices: 6648--6913 Score: 312
Period size: 66 Copynumber: 3.9 Consensus size: 69
6638 TATTTTAATT
6648 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTTCGGTTTCTTTTTCAATTCT
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTTCGGTTTCTTTTTCAATTCT
6713 ATTA
66 ATTA
*
6717 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTAT-TGTTTCTTTTTC-A--C
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCT-TCGGTTTCTTTTTCAATTC
* *
6778 TTTTC
65 TATTA
* *** *
6783 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTGTAATGTTTCTTTTTCACTTTT
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTTCGGTTTCTTTTTCA--ATT
6848 CTTATTA
64 C-TATTA
* * * *
6855 TTATTAAGGTCTTCCGT-TTCCAACGGAAGA-CCTTAT-TGTTTTCGTTCGGTTTCTTTTTC
1 TTATTAGGGTCTTCCGTCTT-CAGCGGAAGACCCTTCTAT-TATTC-TTCGGTTTCTTTTTC
6914 CCTATTATTA
Statistics
Matches: 170, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
66 60 0.35
68 1 0.01
69 56 0.33
70 2 0.01
71 11 0.06
72 40 0.24
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.48
Consensus pattern (69 bp):
TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTTCGGTTTCTTTTTCAATTCT
ATTA
Found at i:6823 original size:66 final size:66
Alignment explanation
Indices: 6648--6854 Score: 326
Period size: 66 Copynumber: 3.1 Consensus size: 66
6638 TATTTTAATT
*
6648 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCT-TCGGTTTCTTTTTCAATTC
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTAT-TGTTTCTTTTTC-A--C
* *
6712 TATTA
62 TTTTC
6717 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTATTGTTTCTTTTTCACTTTT
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTATTGTTTCTTTTTCACTTTT
6782 C
66 C
* *
6783 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTGTAATGTTTCTTTTTCACTTTT
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTATTGTTTCTTTTTCACTTTT
6848 C
66 C
6849 TTATTA
1 TTATTA
6855 TTATTAAGGT
Statistics
Matches: 132, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
66 74 0.56
68 1 0.01
69 56 0.42
70 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (66 bp):
TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTATTGTTTCTTTTTCACTTTT
C
Found at i:6922 original size:135 final size:134
Alignment explanation
Indices: 6648--6923 Score: 330
Period size: 135 Copynumber: 2.0 Consensus size: 134
6638 TATTTTAATT
**
6648 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTTCGGTTTCTTTTTCAATTCT
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTAAGGTTTCTTTTTCAATTCT
* * * *
6713 ATTATTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTATTGTTTCTTTTTCAC
66 ATTATTATTAAGGTCTTCCGTCTTCAACGGAAGACCCTTATATTATTCTATGGTTTCTTTTTCAC
* *
6778 TTTTC
131 -TCTA
* * *
6783 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTGTAATGTTTCTTTTTCACTTTT
1 TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTAAGGTTTCTTTTTCA--ATT
*
6848 CTTATTATTATTAAGGTCTTCCGT-TTCCAACGGAAGA-CCTTAT-TGTTTTCGT-TCGGTTTCT
64 C-TATTATTATTAAGGTCTTCCGTCTT-CAACGGAAGACCCTTATAT-TATTC-TAT-GGTTTCT
6909 TTTTC-C-CTA
124 TTTTCACTCTA
6918 TTATTA
1 TTATTA
6924 TTATTTTTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
135 63 0.52
136 1 0.01
137 16 0.13
138 42 0.34
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (134 bp):
TTATTAGGGTCTTCCGTCTTCAGCGGAAGACCCTTCTATTATTCTAAGGTTTCTTTTTCAATTCT
ATTATTATTAAGGTCTTCCGTCTTCAACGGAAGACCCTTATATTATTCTATGGTTTCTTTTTCAC
TCTA
Found at i:10386 original size:436 final size:435
Alignment explanation
Indices: 9652--10636 Score: 1475
Period size: 436 Copynumber: 2.3 Consensus size: 435
9642 TTGATGTGAC
* * *
9652 ATCAAGAAAAAGGGGCTGACCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTAAATGATA
1 ATCATGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGG-TCTAAAGTCTTTTAATGATA
* * * **
9717 ACTTGTTACCGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTACCGTTATTT
65 ACTTTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATCC
* * * *
9782 ACCTATACATGGCAATTATTTACTCCTATGTTACGTAATTAGGGATTTTAAGGGGCCAAAAGACC
130 ACATATACATGGCAATCATTCACTCCTATGTTACGTAATTAGGGATTCTAAGGGGCCAAAAGACC
*
9847 AAAACTTTCATGCTAAATATCTCAAAATGGAGGAACATTTTGAAAAGCAATATTGAACAAAAGAT
195 AAAACTTTCATGCTAAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGAT
*
9912 GCTCAAAATATTAAGCTTAACAATAATTAACCATTATTTCTTTGTTATGCGGTCCCTAAAAGGAG
260 GCTCAAAATACTAAGCTTAACAATAATTAACCATTATTTCTTTGTTATGCGGTCCCTAAAAGGAG
* *
9977 TTACAGGGTCGGCCCCTAAAACGACCCTCTCAAAATATCTCGAGAACGGTACAAAATTTGTAAAC
325 TTA-AGGATCGGCCCCTAAAACGACCCTCTCAAAATATCTCAAGAACGGTACAAAATTTGTAAAC
* *
10042 ACATGTTGAACAAAATATGTTTGAATTGATTAAAGCTTTCATTTAAA
389 ACATATTGAACAAAAAATGTTTGAATTGATTAAAGCTTTCATTTAAA
*
10089 ATCATGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGTTTAAAGTCTTTTAATGATAA
1 ATCATGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGTCTAAAGTCTTTTAATGATAA
10154 CTTTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATCCA
66 CTTTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATCCA
* * * *
10219 CATATACATGGTAATCATTCCCTCCTATGTTACGTAATTAGGGATTCTAAGGGGCCAGAAGTCCA
131 CATATACATGGCAATCATTCACTCCTATGTTACGTAATTAGGGATTCTAAGGGGCCAAAAGACCA
* *
10284 AAACTTTGATGCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATG
196 AAACTTTCATGCTAAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATG
* * * * *
10349 CTCAAAATACTGAGCTTAACAATAATTAACCATTATTTCTTTGTTATGTGGTCCTTTAAGGGAGT
261 CTCAAAATACTAAGCTTAACAATAATTAACCATTATTTCTTTGTTATGCGGTCCCTAAAAGGAGT
** * * **
10414 TAAGGATCGGCTTCTAAAACGACCCTCTCAAGATATCTCAAGAATGGTACAAAATTTGTAATTAC
326 TAAGGATCGGCCCCTAAAACGACCCTCTCAAAATATCTCAAGAACGGTACAAAATTTGTAAACAC
* * * * * *
10479 TTATTGAACAAAAAATGTTTTAATTGATTAGAGTTTTTATTTGAA
391 ATATTGAACAAAAAATGTTTGAATTGATTAAAGCTTTCATTTAAA
* * * * *
10524 ATCTTGAAACAGAGGCTGGCCCTTTAAATAAGGGGCTGAGGGGGCCTAAAGTCTTTTAATGATAA
1 ATCATGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGTCTAAAGTCTTTTAATGATAA
* * * * * *
10589 CTTTTTACTGAGAGATTTTTTGTGAAAGGTTATAGAAGCAAATATGTT
66 CTTTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTT
10637 TATCCCACAG
Statistics
Matches: 494, Mismatches: 54, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
435 193 0.39
436 259 0.52
437 42 0.09
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (435 bp):
ATCATGAAAAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGTCTAAAGTCTTTTAATGATAA
CTTTTTACTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATCCA
CATATACATGGCAATCATTCACTCCTATGTTACGTAATTAGGGATTCTAAGGGGCCAAAAGACCA
AAACTTTCATGCTAAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATG
CTCAAAATACTAAGCTTAACAATAATTAACCATTATTTCTTTGTTATGCGGTCCCTAAAAGGAGT
TAAGGATCGGCCCCTAAAACGACCCTCTCAAAATATCTCAAGAACGGTACAAAATTTGTAAACAC
ATATTGAACAAAAAATGTTTGAATTGATTAAAGCTTTCATTTAAA
Found at i:12561 original size:435 final size:436
Alignment explanation
Indices: 11827--13331 Score: 2220
Period size: 435 Copynumber: 3.5 Consensus size: 436
11817 ACACCAAGAG
* *
11827 AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGAGGGCTCTAAAGTCTTTTAATGATAACTTTTCA
1 AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAATGATAACTTTTTA
* * * * *
11892 CTGTGAAAAAATTAGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGCTATAT-ACCTAGA
66 CTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTAT-TCACCTATA
* * *
11956 CTTGG-ATATTATTTACTCCTATGTTACGTAATTAGGGGTTTTAAGGGGCCAGAAGTCCAAAACT
130 CATGGCA-ATCATTTACT-CTATGTTACGTAATTAGGAGTTTTAAGGGGCCAGAAGTCCAAAACT
*
12020 TTGATGCTTAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATGCTCAA
193 TTGATGCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATGCTCAA
*
12085 AAT-TCTGAGCTTAACAATCTGCAACCATAATTTCTTTGTTATGCGGTCCCTAAAAGGAGTTGCA
258 AATAT-TGAGCTTAACAATCTGCAACCATAATTTCTTTGTTATGCGGTCCCTAAAAGGAGTTACA
*
12149 GGGTCGGCCCCTAAAACGACCCTCTCAGGATATCTCGAGAACGGTACAAAATTTGTAAACACTTG
322 GGGTCGGCCCCTAAAACGACCCTCTCAAGATATCTCGAGAACGGTACAAAATTTGTAAACACTTG
12214 TTGAACAAAAAGTGTTTGAATTGATTAGAGCTTTCATTTAAAATCATGAA
387 TTGAACAAAAAGTGTTTGAATTGATTAGAGCTTTCATTTAAAATCATGAA
12264 AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAATGATAACTTTTTA
1 AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAATGATAACTTTTTA
*
12329 CCGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATTCACCTATAC
66 CTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATTCACCTATAC
* *
12394 ATGGCAGTCATTTACT-TCTGTTACGTAATTAGGAGTTTTAAGGGGCCAGAAGTCCAAAACTTTG
131 ATGGCAATCATTTACTCTATGTTACGTAATTAGGAGTTTTAAGGGGCCAGAAGTCCAAAACTTTG
* * *
12458 ATGCTCAATATCTCAAAATGGA-GAACAATTTTGATATGCAATATTGAACAAAAGATGCTCAGAA
196 ATGCTCAATATCTCAAAATGGAGGAA-AATTTTGAAAAGCAATATTGAACAAAAGATGCTCAAAA
* ** *
12522 TATTGAGCTTAACAACCTGTTACCATAATTTCTTTGTTATGCAGTCCCTAAAAGGAGTTACAGGG
260 TATTGAGCTTAACAATCTGCAACCATAATTTCTTTGTTATGCGGTCCCTAAAAGGAGTTACAGGG
* *
12587 TCGGCCCCTAAAATGACCCTCTGAAGATATCTCGAGAACGGTACAAAATTTGTAAACACTTGTTG
325 TCGGCCCCTAAAACGACCCTCTCAAGATATCTCGAGAACGGTACAAAATTTGTAAACACTTGTTG
12652 AACAAAAAGTGTTTGAATTGATTAGAGCTTTCATTTAAAATCATGAA
390 AACAAAAAGTGTTTGAATTGATTAGAGCTTTCATTTAAAATCATGAA
* * ** *
12699 AAAGGGGCTCGCCCTTCAAAAAAGGGGCAAAGGGGGCTCTAAAGTCTTTTAATGATAACTTATTA
1 AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAATGATAACTTTTTA
* * * *
12764 CTGTGAAATATTTTGTGATGCGTTATAGAGGCAATTATGTTCATTCTAATGTTATTTACCTATAC
66 CTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATTCACCTATAC
* * *
12829 ATGGCAGTCATTTACTCCTATGTTACGTAATTAGGAATATTAAGGGGCCAGAAGTCCAAAACTTT
131 ATGGCAATCATTTACT-CTATGTTACGTAATTAGGAGTTTTAAGGGGCCAGAAGTCCAAAACTTT
* * *
12894 TATGCTCAATATTTCAAAATAGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATGCTCAAAA
195 GATGCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATGCTCAAAA
* *
12959 TATTGAGCTTAACAATTTGCAACCATAATTTCTTTGTTATGCGGTCCTTAAAAGGAGTTACAGGG
260 TATTGAGCTTAACAATCTGCAACCATAATTTCTTTGTTATGCGGTCCCTAAAAGGAGTTACAGGG
* * * * * *
13024 TCGGCCCCTAAAACGACTCTGTCAAGATATCTCGAGAATGGTACAGAATTTATAAACACTTCTTG
325 TCGGCCCCTAAAACGACCCTCTCAAGATATCTCGAGAACGGTACAAAATTTGTAAACACTTGTTG
* ** ** * * * *
13089 AACAAAATGTGTTTGAGCTGACAAGA-ATACTC-TTATGACATCA--AA
390 AACAAAAAGTGTTTGAATTGATTAGAGCT-TTCATT-TAAAATCATGAA
* * *
13134 AAAGGGGCTGGCCCTTCAATTAAGGGGCTGAGGGGGCTCTAAAGTATTTTAATGATAAATTTTTA
1 AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAATGATAACTTTTTA
* * * * * *
13199 CTGTAAAATATTTTGTGATACGTTCTAGAGGCAATTAAGTTCATTCTAAGGTTATTCATCTATAC
66 CTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATTCACCTATAC
* * * *
13264 ATGGTAATCATTCACTCCTATGTTATGTAATTAGG-GATTTTAAGGGGCCAGAAGTCCAACACTT
131 ATGGCAATCATTTACT-CTATGTTACGTAATTAGGAG-TTTTAAGGGGCCAGAAGTCCAAAACTT
13328 TGAT
194 TGAT
13332 CTTCAATCTG
Statistics
Matches: 968, Mismatches: 90, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
434 3 0.00
435 581 0.60
436 5 0.01
437 375 0.39
438 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (436 bp):
AAAGGGGCTGGCCCTTCAAATAAGGGGCTGAGGGGGCTCTAAAGTCTTTTAATGATAACTTTTTA
CTGTGAAATATTTTGTGATACGTTATAGAAGCAATTATGTTCATTCTAACGTTATTCACCTATAC
ATGGCAATCATTTACTCTATGTTACGTAATTAGGAGTTTTAAGGGGCCAGAAGTCCAAAACTTTG
ATGCTCAATATCTCAAAATGGAGGAAAATTTTGAAAAGCAATATTGAACAAAAGATGCTCAAAAT
ATTGAGCTTAACAATCTGCAACCATAATTTCTTTGTTATGCGGTCCCTAAAAGGAGTTACAGGGT
CGGCCCCTAAAACGACCCTCTCAAGATATCTCGAGAACGGTACAAAATTTGTAAACACTTGTTGA
ACAAAAAGTGTTTGAATTGATTAGAGCTTTCATTTAAAATCATGAA
Found at i:17226 original size:143 final size:144
Alignment explanation
Indices: 16987--17248 Score: 391
Period size: 143 Copynumber: 1.8 Consensus size: 144
16977 AAACGAGAGG
* * * * * * *
16987 TCTATAGATGAGATGATCGAGTTAGAGATTCAGGAGAGTGCACTCAAGGAGGCCGAGCGCGAGAT
1 TCTATAGAAGAAATGATCGAGTTAAAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCAAGAT
* *
17052 CGAGGAGATCAGGTGAGATATAGCAAAATCAGTAATGACATATTGAGTCTTGGTAATGGGAAAAC
66 CGAGGAGATCAGATGAGATATAGCAAAATCAGTAATGACATATTGACTCTTGGTAATGGGAAAAC
17117 ACAAAATTGACAAA
131 ACAAAATTGACAAA
* *
17131 TCTATAGAAGAAATGATC-AGTTAAAGATCCAGGAGAGGGTACTCAATGAGACCGAGCGCAAGAT
1 TCTATAGAAGAAATGATCGAGTTAAAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCAAGAT
** *
17195 CGAGGAGATCAGATGAGATATAGTGAGATCAGTAATGACATATTGACTCTTGGT
66 CGAGGAGATCAGATGAGATATAGCAAAATCAGTAATGACATATTGACTCTTGGT
17249 GATAAAGGTA
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
143 88 0.85
144 16 0.15
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (144 bp):
TCTATAGAAGAAATGATCGAGTTAAAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCAAGAT
CGAGGAGATCAGATGAGATATAGCAAAATCAGTAATGACATATTGACTCTTGGTAATGGGAAAAC
ACAAAATTGACAAA
Found at i:18148 original size:22 final size:22
Alignment explanation
Indices: 18120--18959 Score: 896
Period size: 22 Copynumber: 38.5 Consensus size: 22
18110 GAGCTCAGGT
* *
18120 TGTCTATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
* *
18142 TGTCTATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
* *
18164 TGTCTATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
*
18186 TGTCAATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
*
18208 TGTCAATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
*
18230 TGTCAATCAATTATACATCTCA
1 TGTCAATCAAATATACATCTCA
* * * *
18252 TGTCTATCAAATATTCATGTTA
1 TGTCAATCAAATATACATCTCA
* * *
18274 TATCAATAAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
*
18296 TGTCAATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
* *
18318 TGTCAATCAAATATACTTCTGA
1 TGTCAATCAAATATACATCTCA
*
18340 TGTCAATCGAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
18362 TGTCAATCAGATATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
18384 TGTAAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
* *
18406 TGTCTATCAAATGTAC-TACTCA
1 TGTCAATCAAATATACAT-CTCA
* *
18428 TATCAATCAAATATATATCTCA
1 TGTCAATCAAATATACATCTCA
18450 TGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
* * *
18472 TTTCAATCAAATAATTCATCACA
1 TGTCAATCAAAT-ATACATCTCA
*
18495 TGTCAATCAAAATATAAATCTCA
1 TGTCAATC-AAATATACATCTCA
*
18518 TGTCAATCAAATATACATCACA
1 TGTCAATCAAATATACATCTCA
18540 TGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
18562 TGTCAATCAAATA-ACTCATCACA
1 TGTCAATCAAATATA--CATCTCA
* * *
18585 TGTAAATCAAATATTCAACTCA
1 TGTCAATCAAATATACATCTCA
* *
18607 TGTCAATCAAATAATTCATCACA
1 TGTCAATCAAAT-ATACATCTCA
*
18630 TGTCAATCAATTATACATCT-A
1 TGTCAATCAAATATACATCTCA
* *
18651 AGTCAATCAAATATACATATCA
1 TGTCAATCAAATATACATCTCA
* * ** * * * **
18673 TAT-TATTGATTGTATATCAAA
1 TGTCAATCAAATATACATCTCA
* *
18694 TATACAATCAAATATACATCTGA
1 TGT-CAATCAAATATACATCTCA
* *
18717 TTTCAATCATATATACATCTCA
1 TGTCAATCAAATATACATCTCA
* *
18739 TGACAATCATATATACA--TC-
1 TGTCAATCAAATATACATCTCA
*
18758 --TCAATCAAATATACATCTGA
1 TGTCAATCAAATATACATCTCA
*
18778 TGTCAATCAAATATACATATCA
1 TGTCAATCAAATATACATCTCA
*
18800 TGTCAATCAAATATACATCTCT
1 TGTCAATCAAATATACATCTCA
18822 TGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
* *
18844 CGTCAATCAAATATACATGTCA
1 TGTCAATCAAATATACATCTCA
* *
18866 TGACAATCAATTATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
18888 TGTCAATCAAAAATACATCTCA
1 TGTCAATCAAATATACATCTCA
* *
18910 T-T---TTAATTATACATCTCA
1 TGTCAATCAAATATACATCTCA
* ** * *
18928 TTTTGATCAATTATATATCTCA
1 TGTCAATCAAATATACATCTCA
18950 TGTCAATCAA
1 TGTCAATCAA
18960 CTAATTTTTT
Statistics
Matches: 692, Mismatches: 106, Indels: 40
0.83 0.13 0.05
Matches are distributed among these distances:
17 13 0.02
18 14 0.02
19 2 0.00
20 2 0.00
21 33 0.05
22 544 0.79
23 80 0.12
24 4 0.01
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (22 bp):
TGTCAATCAAATATACATCTCA
Found at i:18764 original size:17 final size:17
Alignment explanation
Indices: 18719--18775 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
18709 ACATCTGATT
18719 TCAATCATATATACATCTC
1 TCAATCATATATACA--TC
18738 ATGACAATCATATATACATC
1 -T--CAATCATATATACATC
*
18758 TCAATCAAATATACATC
1 TCAATCATATATACATC
18775 T
1 T
18776 GATGTCAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 16 0.47
19 1 0.03
20 3 0.09
22 14 0.41
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (17 bp):
TCAATCATATATACATC
Found at i:19520 original size:35 final size:35
Alignment explanation
Indices: 19474--19993 Score: 562
Period size: 35 Copynumber: 14.9 Consensus size: 35
19464 ACTAGATATA
*
19474 TATCACTGGGCTCAGGGTAAATACAGGACACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * **
19509 TATCACTGGGCTCAGGGTAAATATAGGTCATACAC
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * *
19544 TATCACTGGGATCAGGGTAAATACAGGACACATTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * * * *
19579 TATCACTGAGATC-GAGTAAATACAGGACACATTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * *
19613 TATCACTGAGAC-CAGGGT-AATACAGGACACCCTG
1 TATCACTG-GGCTCAGGGTAAATATAGGACACACTG
*
19647 TATCACTGGGCTCAGGGTAAATATAGGTCACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* *
19682 CATCACTGGGCTCAGGGTAAATATAGGTCACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * *
19717 CATCACTGGGCTTAGGGTAAATATAGGGCACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * * *
19752 TATCTCTGGGCTAATGTTAAATATAGGACACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* *
19787 TATCACTGGGCTCAGGGTTAATATAGGTCACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
*
19822 TATCACTGGGCTCAGGGTAAATATAGGTCACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
*
19857 TATCACTGGGCTCAGGGTAAATATAGGGCACACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
** ** * **
19892 TATCACTAAGCTTGGGGTAGATATAGGATTCACTG
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
* * ** * * * *
19927 TATAATTCAGCT-TGGGTAAATAAAGGATACACTT
1 TATCACTGGGCTCAGGGTAAATATAGGACACACTG
** * *
19961 TATCACTGAACTCGGGGTAAATATAGGATACAC
1 TATCACTGGGCTCAGGGTAAATATAGGACACAC
19994 ATTCACTGAG
Statistics
Matches: 417, Mismatches: 63, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
33 2 0.00
34 82 0.20
35 333 0.80
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (35 bp):
TATCACTGGGCTCAGGGTAAATATAGGACACACTG
Found at i:20195 original size:39 final size:39
Alignment explanation
Indices: 20129--20231 Score: 154
Period size: 39 Copynumber: 2.6 Consensus size: 39
20119 TTATCAGCCA
*
20129 TCTATGCTGTGGGCAGTATGCTTTCTGACACTGTCAGTT-T
1 TCTATGCTGT-GGCAGTATGCTGTCTGACACTGTCA-TTCT
* *
20169 TCTATGGTGTGGCAGTATGCTGTCTGATACTGTCATTCT
1 TCTATGCTGTGGCAGTATGCTGTCTGACACTGTCATTCT
20208 TCTATGCTGTGGCAGTATGCTGTC
1 TCTATGCTGTGGCAGTATGCTGTC
20232 CAAAACTGAC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.03
39 47 0.81
40 9 0.16
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.40
Consensus pattern (39 bp):
TCTATGCTGTGGCAGTATGCTGTCTGACACTGTCATTCT
Found at i:20272 original size:99 final size:99
Alignment explanation
Indices: 20149--20330 Score: 258
Period size: 99 Copynumber: 1.8 Consensus size: 99
20139 GGGCAGTATG
* * * ** * *
20149 CTTTCTGACACTGTCAGTTTTCTATGGTGTGGCAGTATGCTGTCTGATACTGTCATTCT-TCTAT
1 CTTTCTGACACTGTCAGTTTTCTATGCTGTGGCAGTATGCTGCCTGACACTACCA-GCTAACTAT
20213 GCTGTGGCAGTATGCTGTCCAAAACTGACAGTTGT
65 GCTGTGGCAGTATGCTGTCCAAAACTGACAGTTGT
* * *
20248 CTTTCTGATACTGTCAGTTTTCTATGCTGTGGCAGTGTGCTGCCTGACATTACCAGCTAACTATG
1 CTTTCTGACACTGTCAGTTTTCTATGCTGTGGCAGTATGCTGCCTGACACTACCAGCTAACTATG
20313 CTGTGGCAGTATGCTGTC
66 CTGTGGCAGTATGCTGTC
20331 TGACATTGTC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 2 0.03
99 70 0.97
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (99 bp):
CTTTCTGACACTGTCAGTTTTCTATGCTGTGGCAGTATGCTGCCTGACACTACCAGCTAACTATG
CTGTGGCAGTATGCTGTCCAAAACTGACAGTTGT
Found at i:20351 original size:39 final size:39
Alignment explanation
Indices: 20259--20378 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 39
20249 TTTCTGATAC
* * *
20259 TGTCAGTTTTCTATGCTGTGGCAGTGTGCTGCCTGACAT
1 TGTCAGTCTTCTATGCTGTGGCAGTATGCTGTCTGACAT
** *
20298 TACCAG-CTAACTATGCTGTGGCAGTATGCTGTCTGACAT
1 TGTCAGTCT-TCTATGCTGTGGCAGTATGCTGTCTGACAT
* * * *
20337 TGTCAGTCTTCTATGCTGTAGTAGCAGGCTGTCTGACAT
1 TGTCAGTCTTCTATGCTGTGGCAGTATGCTGTCTGACAT
20376 TGT
1 TGT
20379 TTTAATGTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
38 1 0.02
39 63 0.95
40 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (39 bp):
TGTCAGTCTTCTATGCTGTGGCAGTATGCTGTCTGACAT
Found at i:49900 original size:6 final size:7
Alignment explanation
Indices: 49883--49909 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49873 AAACGGTGTT
49883 TTTTTTG
1 TTTTTTG
49890 TTTTTTG
1 TTTTTTG
49897 TTTTTTG
1 TTTTTTG
49904 TTTTTT
1 TTTTTT
49910 TTGGGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (7 bp):
TTTTTTG
Found at i:49900 original size:16 final size:16
Alignment explanation
Indices: 49879--49912 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
49869 GAGGAAACGG
49879 TGTTTTTTTTGTTTTT
1 TGTTTTTTTTGTTTTT
49895 TGTTTTTTGTT-TTTTT
1 TGTTTTTT-TTGTTTTT
49911 TG
1 TG
49913 GGGTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TGTTTTTTTTGTTTTT
Found at i:49923 original size:23 final size:23
Alignment explanation
Indices: 49879--49927 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
49869 GAGGAAACGG
**
49879 TGTTTTTTTTGTTTTTTGTTTTT
1 TGTTTTTTTTGGGTTTTGTTTTT
49902 TGTTTTTTTTGGGGTTTT-TTTTT
1 TGTTTTTTTT-GGGTTTTGTTTTT
49925 TGT
1 TGT
49928 CTTGTAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (23 bp):
TGTTTTTTTTGGGTTTTGTTTTT
Found at i:54299 original size:21 final size:21
Alignment explanation
Indices: 54270--54317 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
54260 ACTTCTTCAG
*
54270 TTCAGCAATGGT-CTGTGTGAT
1 TTCATCAATGGTGC-GTGTGAT
54291 TTCATCAATGGTGCGTGTGAT
1 TTCATCAATGGTGCGTGTGAT
54312 TTCATC
1 TTCATC
54318 TTGCTGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (21 bp):
TTCATCAATGGTGCGTGTGAT
Found at i:56067 original size:2 final size:2
Alignment explanation
Indices: 56062--56117 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
56052 TACCCCCCAC
56062 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
56104 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
56118 GTTATCCATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:57875 original size:2 final size:2
Alignment explanation
Indices: 57868--57913 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
57858 TGTGAAAATA
57868 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
57910 TC TC
1 TC TC
57914 AACTAATGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:61446 original size:42 final size:42
Alignment explanation
Indices: 61387--61725 Score: 468
Period size: 42 Copynumber: 7.8 Consensus size: 42
61377 NNNNNNNNNN
*
61387 AATTGAAATCAATATACCCATAAATGTA-AACATTTTATGTTC
1 AATTGAAATCAATATA-CCATAAATGTATTACATTTTATGTTC
*
61429 AATTGAAATCAATATACCATAAATGTATTACATTTTTTGTTC
1 AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTC
61471 AATTGAAATCAATATACCATAACCATAAACGTATTACATTTTATGTTC
1 AATTGAAATCAATATACCATAA--AT----GTATTACATTTTATGTTC
*
61519 AATTGAAATCAATATACCATAAATGTA-AACATTTTATGTTC
1 AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTC
*
61560 AATTGAAATCAATATACCATAAACGTATTACATTTTATGTTC
1 AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTC
*
61602 AATTGAAATCAATATACATGTACCATAAATGTA-AACATTTTATGTTC
1 AATTGAAATC-A-AT--A--TACCATAAATGTATTACATTTTATGTTC
61649 AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTC
1 AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTC
* **
61691 GATTGAAATCAATATACTGTAAATGTATTACATTT
1 AATTGAAATCAATATACCATAAATGTATTACATTT
61726 GGCTCTGTAT
Statistics
Matches: 270, Mismatches: 12, Indels: 30
0.87 0.04 0.10
Matches are distributed among these distances:
41 63 0.23
42 121 0.45
43 2 0.01
44 4 0.01
45 2 0.01
46 4 0.01
47 23 0.09
48 51 0.19
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (42 bp):
AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTC
Found at i:61573 original size:89 final size:89
Alignment explanation
Indices: 61416--61717 Score: 412
Period size: 89 Copynumber: 3.4 Consensus size: 89
61406 ATAAATGTAA
* *
61416 ACATTTTATGTTCAATTGAAATCAATATACCATAAATGTATTACATTTTTTGTTCAATTGAAATC
1 ACATTTTATGTTCAATTGAAATCAATATACCATAAATGTA-AACATTTTATGTTCAATTGAAATC
61481 AATATACCATAACCATAAACGTATT
65 AATATACCATAACCATAAACGTATT
61506 ACATTTTATGTTCAATTGAAATCAATATACCATAAATGTAAACATTTTATGTTCAATTGAAATC-
1 ACATTTTATGTTCAATTGAAATCAATATACCATAAATGTAAACATTTTATGTTCAATTGAAATCA
61570 A-AT---AT-ACCATAAACGTATT
66 ATATACCATAACCATAAACGTATT
61589 ACATTTTATGTTCAATTGAAATCAATATACATGTACCATAAATGTAAACATTTTATGTTCAATTG
1 ACATTTTATGTTCAATTGAAATC-A-AT--A--TACCATAAATGTAAACATTTTATGTTCAATTG
61654 AAATCAATATACCATAA--AT----GTATT
60 AAATCAATATACCATAACCATAAACGTATT
* **
61678 ACATTTTATGTTCGATTGAAATCAATATACTGTAAATGTA
1 ACATTTTATGTTCAATTGAAATCAATATACCATAAATGTA
61718 TTACATTTGG
Statistics
Matches: 195, Mismatches: 5, Indels: 31
0.84 0.02 0.13
Matches are distributed among these distances:
83 48 0.25
84 3 0.02
85 3 0.02
87 5 0.03
88 2 0.01
89 86 0.44
90 41 0.21
91 2 0.01
93 2 0.01
94 2 0.01
95 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (89 bp):
ACATTTTATGTTCAATTGAAATCAATATACCATAAATGTAAACATTTTATGTTCAATTGAAATCA
ATATACCATAACCATAAACGTATT
Found at i:61627 original size:131 final size:130
Alignment explanation
Indices: 61387--61725 Score: 554
Period size: 131 Copynumber: 2.6 Consensus size: 130
61377 NNNNNNNNNN
61387 AATTGAAATCAATATACCCATAAATGTAAACATTTTATGTTCAATTGAAATCAATATACCATAAA
1 AATTGAAATCAATATA-CCATAAATGTAAACATTTTATGTTCAATTGAAATCAATATACCATAAA
* *
61452 TGTATTACATTTTTTGTTCAATTGAAATCAATATACCATAACCATAAACGTATTACATTTTATGT
65 TGTATTACATTTTATGTTCAATTGAAATCAATATACCATAACCATAAACGTA-AACATTTTATGT
61517 TC
129 TC
*
61519 AATTGAAATCAATATACCATAAATGTAAACATTTTATGTTCAATTGAAATCAATATACCATAAAC
1 AATTGAAATCAATATACCATAAATGTAAACATTTTATGTTCAATTGAAATCAATATACCATAAAT
* *
61584 GTATTACATTTTATGTTCAATTGAAATCAATATA-CATGTACCATAAATGTAAACATTTTATGTT
66 GTATTACATTTTATGTTCAATTGAAATCAATATACCAT-AACCATAAACGTAAACATTTTATGTT
61648 C
130 C
* * **
61649 AATTGAAATCAATATACCATAAATGTATTACATTTTATGTTCGATTGAAATCAATATACTGTAAA
1 AATTGAAATCAATATACCATAAATGTA-AACATTTTATGTTCAATTGAAATCAATATACCATAAA
61714 TGTATTACATTT
65 TGTATTACATTT
61726 GGCTCTGTAT
Statistics
Matches: 195, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
130 43 0.22
131 136 0.70
132 16 0.08
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (130 bp):
AATTGAAATCAATATACCATAAATGTAAACATTTTATGTTCAATTGAAATCAATATACCATAAAT
GTATTACATTTTATGTTCAATTGAAATCAATATACCATAACCATAAACGTAAACATTTTATGTTC
Found at i:64326 original size:28 final size:28
Alignment explanation
Indices: 64286--64370 Score: 161
Period size: 28 Copynumber: 3.0 Consensus size: 28
64276 TAGCTCAAGT
64286 GAGCTATTCTGATCACATTTTGTCTGTC
1 GAGCTATTCTGATCACATTTTGTCTGTC
*
64314 GAGCTATTCTGATCAAATTTTGTCTGTC
1 GAGCTATTCTGATCACATTTTGTCTGTC
64342 GAGCTATTCTGATCACATTTTGTCTGTC
1 GAGCTATTCTGATCACATTTTGTCTGTC
64370 G
1 G
64371 TCCGTCTGTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (28 bp):
GAGCTATTCTGATCACATTTTGTCTGTC
Found at i:65253 original size:166 final size:167
Alignment explanation
Indices: 64558--65256 Score: 1071
Period size: 167 Copynumber: 4.2 Consensus size: 167
64548 AGAAATTTTC
* * * * * *
64558 AAAAATCTTCTTCTCACAAAC-CATAAGACCAGGAAAGCTGAAATTTGTGTGAAAGCATCGTCTG
1 AAAAATCTTCTTCTCAAAAACTAATCAG-CCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAG
* * *
64622 GTAGTATAGATTCAAAGTTGTGAAAATCATGACCCCC-GGGGGTAGGGTGGGGGCCACAATAGGG
65 GTAGTGTAGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGT-GGGGCCACAATAGGG
*
64686 GGTTGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
129 GGTCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
* * *
64725 AATAATCATCTTCTCAAAAATTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAGG
64790 TAGTGTAGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGTGGGGCCACAATAGGGGG
66 TAGTGTAGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGTGGGGCCACAATAGGGGG
64855 TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
131 TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
* *
64892 AAAAACCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAGG
*
64957 TAGTGTGGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGTGGGGCCACAATAGGGGG
66 TAGTGTAGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGTGGGGCCACAATAGGGGG
65022 TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
131 TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
* *
65059 AAAAATCTTCTTCTCAAAAACTAATCAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAGG
* * ** * * *
65124 TAGTGTAGATTCAAAGTTGTGAAAATCATGATACCC-AGGGGTAGGGTGAGGCCACAATGGGGGG
66 TAGTGTAGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGTGGGGCCACAATAGGGGG
* * * **
65188 TCAAAGTTTAACAAAGGAATATATGGAGTAAATCTTT
131 TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
* *
65225 AAAAATCTTCTCCTCAGAAACTAATCAGCCAG
1 AAAAATCTTCTTCTCAAAAACTAATCAGCCAG
65257 ATGATTCTTT
Statistics
Matches: 492, Mismatches: 38, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
166 87 0.18
167 390 0.79
168 15 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (167 bp):
AAAAATCTTCTTCTCAAAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCCTCAGG
TAGTGTAGATACAAAGTTATGAAAATCATGACCCCCGGGGGGTAGGGTGGGGCCACAATAGGGGG
TCGAAGTTTTACATAGGAATATACAGAGTAAATCTTT
Found at i:66422 original size:144 final size:144
Alignment explanation
Indices: 66182--66444 Score: 447
Period size: 144 Copynumber: 1.8 Consensus size: 144
66172 AAAGGACAGG
* * * *
66182 TCTATAGAGGAGATGATCGAGTTAGAGATCCAGGAGAGGGCACTCAAGGAGGCCGAGCGCGAGAT
1 TCTATAGAAGAAATGATCAAGTTAGAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCGAGAT
* *
66247 CGAGGAGATCAGGTGAGATATAGGAAAATCAGTAATGACATATTGAGTCTTGGTAATGGGAAAAC
66 CGAGGAGATCAGATGAGATATAGGAAAATCAGTAATGACATATTGACTCTTGGTAATGGGAAAAC
66312 CCAAAATTGACAAA
131 CCAAAATTGACAAA
66326 TCTATAGAAGAAATGATCAAGTTAGAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCGAGAT
1 TCTATAGAAGAAATGATCAAGTTAGAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCGAGAT
*
66391 CGAGGAGATCAGATGAGATATAGTG-AGATCAGTAATGACATATTGACTCTTGGT
66 CGAGGAGATCAGATGAGATATAG-GAAAATCAGTAATGACATATTGACTCTTGGT
66445 GATAAAGGAA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
144 110 0.99
145 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (144 bp):
TCTATAGAAGAAATGATCAAGTTAGAGATCCAGGAGAGGGCACTCAAGGAGACCGAGCGCGAGAT
CGAGGAGATCAGATGAGATATAGGAAAATCAGTAATGACATATTGACTCTTGGTAATGGGAAAAC
CCAAAATTGACAAA
Found at i:67338 original size:22 final size:22
Alignment explanation
Indices: 67308--67566 Score: 419
Period size: 22 Copynumber: 11.8 Consensus size: 22
67298 GAGCTCAGGT
* * *
67308 TGTCTATCAAATATACACCTGA
1 TGTCAATCAAATATACATCTCA
*
67330 TGTCAATCAATTATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
67352 TATCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
67374 TGTCAATCAAATATTCATCTCA
1 TGTCAATCAAATATACATCTCA
*
67396 TGTCAATCAAATATGCATCTCA
1 TGTCAATCAAATATACATCTCA
67418 TGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
67440 TGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
67462 TGTAAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
*
67484 TGTCAATCAAATATACATCACA
1 TGTCAATCAAATATACATCTCA
* *
67506 TGTCAATCAATTATACATCTAA
1 TGTCAATCAAATATACATCTCA
67528 TGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCA
67550 TGTCAATCAAATATACA
1 TGTCAATCAAATATACA
67567 ATCAAATATA
Statistics
Matches: 219, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 219 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (22 bp):
TGTCAATCAAATATACATCTCA
Found at i:67377 original size:44 final size:44
Alignment explanation
Indices: 67308--67665 Score: 452
Period size: 44 Copynumber: 8.4 Consensus size: 44
67298 GAGCTCAGGT
* * * *
67308 TGTCTATCAAATATACACCTGATGTCAATCAATTATACATCTCA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
* *
67352 TATCAATCAAATATACATCTCATGTCAATCAAATATTCATCTCA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
*
67396 TGTCAATCAAATATGCATCTCATGTCAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
*
67440 TGTCAATCAAATATACATCTCATGTAAATCAAATATACATCTCA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
* * *
67484 TGTCAATCAAATATACATCACATGTCAATCAATTATACATCTAA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
67528 TGTCAATCAAATATACATCTCATGTCAATC-AA-AT--A--T-A
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
* * *
67565 ---CAATCAAATATACATTTGATTTCAATC--ATATACATCTCA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
* * *
67604 TGTCAATCAATTATACATCTCATGTCAATGAAAAATACATCTCA
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
* * *
67648 TTTAAATCAATTATACAT
1 TGTCAATCAAATATACAT
67666 GTACATCTCA
Statistics
Matches: 275, Mismatches: 28, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
33 1 0.00
34 26 0.09
36 1 0.00
37 1 0.00
38 2 0.01
39 1 0.00
40 1 0.00
42 24 0.09
43 1 0.00
44 217 0.79
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.34
Consensus pattern (44 bp):
TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCA
Found at i:67424 original size:66 final size:66
Alignment explanation
Indices: 67308--67665 Score: 452
Period size: 66 Copynumber: 5.6 Consensus size: 66
67298 GAGCTCAGGT
* * * * *
67308 TGTCTATCAAATATACACCTGATGTCAATCAATTATACATCTCATATCAATCAAATATACATCTC
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTC
67373 A
66 A
* *
67374 TGTCAATCAAATATTCATCTCATGTCAATCAAATATGCATCTCATGTCAATCAAATATACATCTC
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTC
67439 A
66 A
* *
67440 TGTCAATCAAATATACATCTCATGTAAATCAAATATACATCTCATGTCAATCAAATATACATCAC
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTC
67505 A
66 A
* *
67506 TGTCAATCAATTATACATCTAATGTCAATCAAATATACATCTCATGTCAATC-AA-AT--A--T-
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTC
67564 A
66 A
* * * *
67565 ---CAATCAAATATACATTTGATTTCAATC--ATATACATCTCATGTCAATCAATTATACATCTC
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTC
67625 A
66 A
* * * * *
67626 TGTCAATGAAAAATACATCTCATTTAAATCAATTATACAT
1 TGTCAATCAAATATACATCTCATGTCAATCAAATATACAT
67666 GTACATCTCA
Statistics
Matches: 254, Mismatches: 26, Indels: 24
0.84 0.09 0.08
Matches are distributed among these distances:
54 20 0.08
55 1 0.00
56 25 0.10
58 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 1 0.00
64 24 0.09
65 2 0.01
66 177 0.70
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.34
Consensus pattern (66 bp):
TGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTCATGTCAATCAAATATACATCTC
A
Found at i:67619 original size:76 final size:78
Alignment explanation
Indices: 67487--67642 Score: 226
Period size: 76 Copynumber: 2.0 Consensus size: 78
67477 CATCTCATGT
67487 CAATCAAATATACATCACATGTCAATCAATTATACATCTAATGTCAATCAAATATACATCTCATG
1 CAATCAAATATACATCACATGTCAATCAATTATACATCTAATGTCAATCAAATATACATCTCATG
*
67552 TCAATCAAATATA
66 TCAATCAAAAATA
*** * * *
67565 CAATCAAATATACATTTGATTTCAATC-A-TATACATCTCATGTCAATCAATTATACATCTCATG
1 CAATCAAATATACATCACATGTCAATCAATTATACATCTAATGTCAATCAAATATACATCTCATG
*
67628 TCAATGAAAAATA
66 TCAATCAAAAATA
67641 CA
1 CA
67643 TCTCATTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
76 46 0.66
77 1 0.01
78 23 0.33
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (78 bp):
CAATCAAATATACATCACATGTCAATCAATTATACATCTAATGTCAATCAAATATACATCTCATG
TCAATCAAAAATA
Found at i:67621 original size:22 final size:22
Alignment explanation
Indices: 67565--67665 Score: 107
Period size: 22 Copynumber: 4.7 Consensus size: 22
67555 ATCAAATATA
* * *
67565 CAATCAAATATACATTTGATTT
1 CAATCAAATATACATCTCATGT
67587 CAATC--ATATACATCTCATGT
1 CAATCAAATATACATCTCATGT
*
67607 CAATCAATTATACATCTCATGT
1 CAATCAAATATACATCTCATGT
* * *
67629 CAATGAAAAATACATCTCATTT
1 CAATCAAATATACATCTCATGT
* *
67651 AAATCAATTATACAT
1 CAATCAAATATACAT
67666 GTACATCTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.26
22 48 0.74
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.36
Consensus pattern (22 bp):
CAATCAAATATACATCTCATGT
Found at i:67642 original size:98 final size:99
Alignment explanation
Indices: 67466--67664 Score: 292
Period size: 98 Copynumber: 2.0 Consensus size: 99
67456 ATCTCATGTA
67466 AATCAAATATACATCTCATGTCAATCAAATATACATCACATGTCAATCAATTATACATCTAATGT
1 AATCAAATATACATCTCATGTCAATC-AATATACATCACATGTCAATCAATTATACATCTAATGT
* *
67531 CAATCAAATATACATCTCATGTCAATCAAATATAC
65 CAATCAAAAATACATCTCATGTAAATCAAATATAC
* * * * *
67566 AATCAAATATACATTTGATTTCAATC-ATATACATCTCATGTCAATCAATTATACATCTCATGTC
1 AATCAAATATACATCTCATGTCAATCAATATACATCACATGTCAATCAATTATACATCTAATGTC
* * *
67630 AATGAAAAATACATCTCATTTAAATCAATTATAC
66 AATCAAAAATACATCTCATGTAAATCAAATATAC
67664 A
1 A
67665 TGTACATCTC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 66 0.74
100 23 0.26
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (99 bp):
AATCAAATATACATCTCATGTCAATCAATATACATCACATGTCAATCAATTATACATCTAATGTC
AATCAAAAATACATCTCATGTAAATCAAATATAC
Found at i:68269 original size:35 final size:35
Alignment explanation
Indices: 68220--69308 Score: 806
Period size: 35 Copynumber: 30.3 Consensus size: 35
68210 CTAGATATAC
* *
68220 ATCACTGAGATCAGGGTAAATACAGGGCACATTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * *
68255 ATCACTGGGCTCAGGGTAAATACAGGTCACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* *
68290 ATCACTGGGATCAGGGTAAATACAGGTCACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
*
68325 ATCACTGGGATCAGGGTAAATACAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
*
68360 ATCACTGAGATCAGGGTAAATACAGGTCACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* *
68395 ATCACTGGGATCAGGGTAAATACTGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* *
68430 ATCACTGAGATCAGAGTAAATACTGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
*
68465 ATCACTGAGATCAGGGTAAATATAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * ** * * * *
68500 ATCATTGACA-CACTGTATCACTGAGATCAGAGTAAATACTGG
1 ATCACTGAGATCAGGGTA--A---ATA-CAG-G-ACACACTGT
* * * *
68542 ACACACTGTATCACAGGGCTCAGGGTAAATACTGGACACACTGT
1 A-TCACTG-A-GAT------CAGGGTAAATACAGGACACACTGT
* *
68586 ATCACTGGGATCAGGGTAAATACAGGACACACGGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * *
68621 ATCACAGGGCTCGGGGTAAATACAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * *
68656 ATCACTGGGCTCAGGGTAAATATAGGTCACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * *
68691 ATCACAGGGCTCAGGGTAAATACAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
68726 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
68761 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
*
68796 ATCACTGAGATCAGGGTAAATACAGGGCACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* ** * * * * *
68831 ATCACTGACA-CACTGTATCACTGAGATCAGGGTAAATACAGG
1 ATCACTGAGATCAGGGTA--A---ATA-CA-GG-ACACACTGT
* *
68873 ACACACTGTATCACAGGGCTCAGGGTAAATACAGGACACACTGT
1 A-TCACTG-A-GA------TCAGGGTAAATACAGGACACACTGT
* * * *
68917 ATCACAGGGCTCAGGGTAAATACAGGACTCACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * *
68952 GTCTCT-AGGCTCAGGGTAAATGCAGGACACACTGT
1 ATCACTGA-GATCAGGGTAAATACAGGACACACTGT
* * * * *
68987 ATCACTGGGCTCAGGGTAAATATAGGTCACACTGC
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * * *
69022 ATCACTGGGCTCAGGGTAAATATAGGTCACACTGC
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * * * * *
69057 ATCACTGGGCTAATGTTAAATATAGGGCACCACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACA-CACTGT
* * * * * * *
69093 ATCTCTGGGCTAATGTTAAATATAGGACACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * * * *
69128 ATCACTGGGCTTAAGGTAAATACAAGACACATTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * *
69163 GTCACTGAGCTCAGGGTAAATATAGGTCACACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * ** * * **
69198 ATCACTAAGCTTGGGGTAGATATAGGATTCACTGT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* * * * * * * *
69233 ATAATTCAGCT-TGGGTAAATAAAGGATACACTTT
1 ATCACTGAGATCAGGGTAAATACAGGACACACTGT
* *
69267 ATCACTGA-ACTCAGGGTAAATATAGGATACACT-T
1 ATCACTGAGA-TCAGGGTAAATACAGGACACACTGT
69301 -TCACTGAG
1 ATCACTGAG
69309 CTATATATTT
Statistics
Matches: 877, Mismatches: 135, Indels: 85
0.80 0.12 0.08
Matches are distributed among these distances:
33 7 0.01
34 35 0.04
35 717 0.82
36 34 0.04
39 4 0.00
40 4 0.00
41 4 0.00
42 12 0.01
43 18 0.02
44 15 0.02
45 7 0.01
46 4 0.00
47 4 0.00
50 2 0.00
52 10 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (35 bp):
ATCACTGAGATCAGGGTAAATACAGGACACACTGT
Found at i:68535 original size:51 final size:51
Alignment explanation
Indices: 68455--68554 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
68445 GTAAATACTG
*
68455 GACACACTGTATCACTGAGATCAGGGTAAATA-TAGGACACACTGTATCATT
1 GACACACTGTATCACTGAGATCAGAGTAAATACT-GGACACACTGTATCATT
68506 GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCA
1 GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCA
68555 CAGGGCTCAG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (51 bp):
GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCATT
Found at i:68565 original size:86 final size:86
Alignment explanation
Indices: 68420--68589 Score: 297
Period size: 86 Copynumber: 2.0 Consensus size: 86
68410 GTAAATACTG
*
68420 GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCACTGAGATCAGGGTAAA
1 GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCACAGAGATCAGGGTAAA
68485 TA-TAGGACACACTGTATCATT
66 TACT-GGACACACTGTATCATT
* *
68506 GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCACAGGGCTCAGGGTAAA
1 GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCACAGAGATCAGGGTAAA
68571 TACTGGACACACTGTATCA
66 TACTGGACACACTGTATCA
68590 CTGGGATCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 79 0.99
87 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (86 bp):
GACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCACAGAGATCAGGGTAAA
TACTGGACACACTGTATCATT
Found at i:68832 original size:331 final size:331
Alignment explanation
Indices: 68230--69170 Score: 1371
Period size: 331 Copynumber: 2.8 Consensus size: 331
68220 ATCACTGAGA
* * *
68230 TCAGGGTAAATACAGGGCACATTGTATCACTGGGCTCAGGGTAAATACAGGTCACACTGTATCAC
1 TCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATACAGGACACACTGTATCAC
* * * * * *
68295 TGGGATCAGGGTAAATACAGGTCACACTGTATCACTGGGATCAGGGTAAATACAGGACACACTGT
66 AGGGCTCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATATAGGTCACACTGT
* * *
68360 ATCACTGAGATCAGGGTAAATACAGGTCACACTGTATCACTGGGATCAGGGTAAATACTGGACAC
131 ATCACTGGGCTCAGGGTAAATACAGGTCACACTGTATCACTGGGATCAGGGTAAATACAGGACAC
* * *
68425 ACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCACTGAGATCAGGGTAAATATAG
196 ACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATACAG
* *
68490 GACACACTGTATCATTGACACACTGTATCACTGAGATCAGAGTAAATACTGGACACACTGTATCA
261 GACACACTGTATCACTGACACACTGTATCACTGAGATCAGAGTAAATACAGGACACACTGTATCA
68555 CAGGGC
326 CAGGGC
* * *
68561 TCAGGGTAAATACTGGACACACTGTATCACTGGGATCAGGGTAAATACAGGACACACGGTATCAC
1 TCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATACAGGACACACTGTATCAC
*
68626 AGGGCTCGGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATATAGGTCACACTGT
66 AGGGCTCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATATAGGTCACACTGT
* * *
68691 ATCACAGGGCTCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATACAGGACAC
131 ATCACTGGGCTCAGGGTAAATACAGGTCACACTGTATCACTGGGATCAGGGTAAATACAGGACAC
68756 ACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATACAG
196 ACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATACAG
* *
68821 GGCACACTGTATCACTGACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCA
261 GACACACTGTATCACTGACACACTGTATCACTGAGATCAGAGTAAATACAGGACACACTGTATCA
68886 CAGGGC
326 CAGGGC
* * * *
68892 TCAGGGTAAATACAGGACACACTGTATCACAGGGCTCAGGGTAAATACAGGACTCACTGTGTCTC
1 TCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATACAGGACACACTGTATCAC
*
68957 TA-GGCTCAGGGTAAATGCAGGACACACTGTATCACTGGGCTCAGGGTAAATATAGGTCACACTG
66 -AGGGCTCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATATAGGTCACACTG
* * * * * * * * *
69021 CATCACTGGGCTCAGGGTAAATATAGGTCACACTGCATCACTGGGCTAATGTTAAATATAGGGCA
130 TATCACTGGGCTCAGGGTAAATACAGGTCACACTGTATCACTGGGATCAGGGTAAATACAGGACA
* * * * * * * * * * *
69086 CCACTGTATCTCTGGGCTAATGTTAAATATAGGACACACTGTATCACTGGGCTTAAGGTAAATAC
195 -CACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATAC
* * *
69151 AAGACACATTGTGTCACTGA
259 AGGACACACTGTATCACTGA
69171 GCTCAGGGTA
Statistics
Matches: 546, Mismatches: 62, Indels: 3
0.89 0.10 0.00
Matches are distributed among these distances:
331 476 0.87
332 70 0.13
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (331 bp):
TCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATACAGGACACACTGTATCAC
AGGGCTCAGGGTAAATACAGGACACACTGTATCACTGGGCTCAGGGTAAATATAGGTCACACTGT
ATCACTGGGCTCAGGGTAAATACAGGTCACACTGTATCACTGGGATCAGGGTAAATACAGGACAC
ACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATACAG
GACACACTGTATCACTGACACACTGTATCACTGAGATCAGAGTAAATACAGGACACACTGTATCA
CAGGGC
Found at i:68844 original size:16 final size:16
Alignment explanation
Indices: 68823--68854 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68813 AAATACAGGG
68823 CACACTGTATCACTGA
1 CACACTGTATCACTGA
68839 CACACTGTATCACTGA
1 CACACTGTATCACTGA
68855 GATCAGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (16 bp):
CACACTGTATCACTGA
Found at i:68846 original size:51 final size:51
Alignment explanation
Indices: 68786--68886 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
68776 GTAAATACAG
*
68786 GACACACTGTATCACTGAGATCAGGGTAAATACAGGGCACACTGTATCACT
1 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACT
68837 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCAC
1 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCAC
68887 AGGGCTCAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (51 bp):
GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACT
Found at i:68896 original size:86 final size:86
Alignment explanation
Indices: 68751--68921 Score: 306
Period size: 86 Copynumber: 2.0 Consensus size: 86
68741 GTAAATACAG
*
68751 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAA
1 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACAGAGATCAGGGTAAA
*
68816 TACAGGGCACACTGTATCACT
66 TACAGGACACACTGTATCACT
* *
68837 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACAGGGCTCAGGGTAAA
1 GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACAGAGATCAGGGTAAA
68902 TACAGGACACACTGTATCAC
66 TACAGGACACACTGTATCAC
68922 AGGGCTCAGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (86 bp):
GACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACAGAGATCAGGGTAAA
TACAGGACACACTGTATCACT
Found at i:68947 original size:18 final size:18
Alignment explanation
Indices: 68857--68947 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 18
68847 ATCACTGAGA
68857 TCAGGGTAAATACAGGAC
1 TCAGGGTAAATACAGGAC
* ** *
68875 ACACTGT--ATCACAGGGC
1 TCAGGGTAAAT-ACAGGAC
68892 TCAGGGTAAATACAGGAC
1 TCAGGGTAAATACAGGAC
* ** *
68910 ACACTGT--ATCACAGGGC
1 TCAGGGTAAAT-ACAGGAC
68927 TCAGGGTAAATACAGGAC
1 TCAGGGTAAATACAGGAC
68945 TCA
1 TCA
68948 CTGTGTCTCT
Statistics
Matches: 51, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
16 4 0.08
17 20 0.39
18 23 0.45
19 4 0.08
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (18 bp):
TCAGGGTAAATACAGGAC
Found at i:68967 original size:156 final size:156
Alignment explanation
Indices: 68683--68993 Score: 471
Period size: 156 Copynumber: 2.0 Consensus size: 156
68673 AAATATAGGT
* * *
68683 CACACTGTATCACAGGGCTCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGTAAATA
1 CACACTGTATCACAGAGATCAGGGTAAATACAGGACACACTGTATCACAGAGATCAGGGTAAATA
*
68748 CAGGACACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGT
66 CAGGACACACTGTATCACAGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGT
*
68813 AAATACAGGGCACACTGTATCACTGA
131 AAATACAGGACACACTGTATCACTGA
* * *
68839 CACACTGTATCACTGAGATCAGGGTAAATACAGGACACACTGTATCACAGGGCTCAGGGTAAATA
1 CACACTGTATCACAGAGATCAGGGTAAATACAGGACACACTGTATCACAGAGATCAGGGTAAATA
* * * * * *
68904 CAGGACACACTGTATCACAGGGCTCAGGGTAAATACAGGACTCACTGTGTCTCT-AGGCTCAGGG
66 CAGGACACACTGTATCACAGAGATCAGGGTAAATACAGGACACACTGTATCACTGA-GATCAGGG
*
68968 TAAATGCAGGACACACTGTATCACTG
130 TAAATACAGGACACACTGTATCACTG
68994 GGCTCAGGGT
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
155 1 0.01
156 138 0.99
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (156 bp):
CACACTGTATCACAGAGATCAGGGTAAATACAGGACACACTGTATCACAGAGATCAGGGTAAATA
CAGGACACACTGTATCACAGAGATCAGGGTAAATACAGGACACACTGTATCACTGAGATCAGGGT
AAATACAGGACACACTGTATCACTGA
Found at i:69459 original size:39 final size:39
Alignment explanation
Indices: 69416--69815 Score: 444
Period size: 39 Copynumber: 10.3 Consensus size: 39
69406 TTATCAGCCA
* *
69416 TCTATGCTGTGGCAGTATGCTGTCTGACACTGTCAGTTT
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
* *
69455 TCTATGGTGTGGCAGTATGCTGTCTGATACTGTCATTCT
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
* ** * **
69494 TCTATGCAGTGGCAGTATGCTGTCCAAAACTAACAGT-T
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
* * * * * *
69532 GTCTTTGCTATGGCAGTAGGTTTTCTGATACTGTCAGTTT
1 -TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
*
69572 TCTATGCTGTGGCAGTATGCTCTCTGATACTGTCAGTCT
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
* * * * * * *
69611 TCTATGCTGTGGCAGTGTGCTGCCTGACATTATCAGCCA
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
*
69650 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTGT
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
* *
69689 TTTATGCTGCGGCAGTATGCTGTCTGATACTGTCAGTCT
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
* * * * ** * *
69728 TCTATGCTGTGGCAGTGTGCTGCCTGACATTACCAGCCA
1 TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
*
69767 TCTATGCTGTGGCAGTATGCTGTCTGACA-TCGTCAGTCT
1 TCTATGCTGTGGCAGTATGCTGTCTGATACT-GTCAGTCT
69806 TCTATGCTGT
1 TCTATGCTGT
69816 AGTAGCAGAC
Statistics
Matches: 294, Mismatches: 64, Indels: 6
0.81 0.18 0.02
Matches are distributed among these distances:
38 2 0.01
39 291 0.99
40 1 0.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (39 bp):
TCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTCT
Found at i:69832 original size:117 final size:117
Alignment explanation
Indices: 69401--69815 Score: 584
Period size: 117 Copynumber: 3.5 Consensus size: 117
69391 GTCTGCTACA
*
69401 TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACACTGTCAGTTTTCTATGGTGTG
1 TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACACTGTCAGTTTTCTATGCTGTG
* * *
69466 GCAGTATGCTGTCTGATACTGTCATTCTTCTATGCAGTGGCAGTATGCTGTCC
66 GCAGTATGCTGTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTG-CC
* * * * *** * * * * * *
69519 -AAAACTAACAGTTGTCTTTGCTATGGCAGTAGGTTTTCTGATACTGTCAGTTTTCTATGCTGTG
1 TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACACTGTCAGTTTTCTATGCTGTG
*
69583 GCAGTATGCTCTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTGCC
66 GCAGTATGCTGTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTGCC
* *
69635 TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGATACTGTCAGTGTTT-TATGCTGC
1 TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACACTGTCAGT-TTTCTATGCTGT
69699 GGCAGTATGCTGTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTGCC
65 GGCAGTATGCTGTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTGCC
* *
69752 TGACATTACCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACA-TCGTCAGTCTTCTATGCTGT
1 TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACACT-GTCAGTTTTCTATGCTGT
69816 AGTAGCAGAC
Statistics
Matches: 257, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
116 5 0.02
117 249 0.97
118 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (117 bp):
TGACATTATCAGCCATCTATGCTGTGGCAGTATGCTGTCTGACACTGTCAGTTTTCTATGCTGTG
GCAGTATGCTGTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTGCC
Found at i:69833 original size:78 final size:78
Alignment explanation
Indices: 69691--69836 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 78
69681 GTCAGTGTTT
* * * *
69691 TATGCTGCGGCAGTATGCTGTCTGATACTGTCAGTCTTCTATGCTGTGGCAGTGTGCTGCCTGAC
1 TATGCTGCGGCAGTATGCTGTCTGACACTGTCAGTCTTCTATGCTGTAGCAGAGTACTGCCTGAC
69756 ATTACCAGCCATC
66 ATTACCAGCCATC
* * *
69769 TATGCTGTGGCAGTATGCTGTCTGACA-TCGTCAGTCTTCTATGCTGTAGTAGCAG-ACTGTCTG
1 TATGCTGCGGCAGTATGCTGTCTGACACT-GTCAGTCTTCTATGCTGTAGCAG-AGTACTGCCTG
69832 ACATT
64 ACATT
69837 GTTTTAATGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.02
78 57 0.97
79 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (78 bp):
TATGCTGCGGCAGTATGCTGTCTGACACTGTCAGTCTTCTATGCTGTAGCAGAGTACTGCCTGAC
ATTACCAGCCATC
Found at i:72538 original size:54 final size:54
Alignment explanation
Indices: 72460--72820 Score: 521
Period size: 54 Copynumber: 6.7 Consensus size: 54
72450 AACGGGACCA
* * * * **
72460 ATCAGAAGCCACCGGTACCTCCAAAGTAGGTCACAACAAATATCTTCCAATAAA
1 ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
*
72514 ATCGGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
1 ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
72568 ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
1 ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
*
72622 ATCAGAAACCACC-GTGACCCCCAAAGTAGGTCACAACAAATATCATCCAATATC
1 ATCAGAAACCACCAGT-ACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
* * * *
72676 ATCAGGAACCA-CTGTTACCTCCAAAGTTGGTCACAACAAATATCCTCCAATATC
1 ATCAGAAACCACCAG-TACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
*
72730 ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATG
1 ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
* * * *
72784 ATTAGAAACCACCTA-TTCTCCCAAAGTTGGTCACAAC
1 ATCAGAAACCACC-AGTACCCCCAAAGTAGGTCACAAC
72821 TCAATGCAAC
Statistics
Matches: 280, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
53 3 0.01
54 273 0.98
55 4 0.01
ACGTcount: A:0.39, C:0.31, G:0.11, T:0.19
Consensus pattern (54 bp):
ATCAGAAACCACCAGTACCCCCAAAGTAGGTCACAACAAATATCCTCCAATATC
Found at i:77070 original size:11 final size:11
Alignment explanation
Indices: 77054--77110 Score: 96
Period size: 11 Copynumber: 5.2 Consensus size: 11
77044 AATCCATGCC
*
77054 CTGTGTATCGG
1 CTGTATATCGG
*
77065 CTGTGTATCGG
1 CTGTATATCGG
77076 CTGTATATCGG
1 CTGTATATCGG
77087 CTGTATATCGG
1 CTGTATATCGG
77098 CTGTATATCGG
1 CTGTATATCGG
77109 CT
1 CT
77111 TGATTTCTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
11 45 1.00
ACGTcount: A:0.14, C:0.19, G:0.30, T:0.37
Consensus pattern (11 bp):
CTGTATATCGG
Found at i:78942 original size:1 final size:1
Alignment explanation
Indices: 78936--78960 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
78926 GGCAGGCAGG
78936 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
78961 AAGGCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:80343 original size:42 final size:42
Alignment explanation
Indices: 80284--80485 Score: 306
Period size: 42 Copynumber: 4.8 Consensus size: 42
80274 TCATAGAAGA
80284 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
1 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
80326 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
1 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
* * *
80368 ACTCCTATACACAAGCCTATATACGAGACCGA-TTTCATAGAAG-A
1 ACTCCTATACACAAGCCTATATACGAGACCAACTGTC-T-G--GTT
80412 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
1 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
80454 ACTCCTATACACAAGCC--TATACGAGA-CAACTG
1 ACTCCTATACACAAGCCTATATACGAGACCAACTG
80486 ACTGACTGGT
Statistics
Matches: 148, Mismatches: 6, Indels: 15
0.88 0.04 0.09
Matches are distributed among these distances:
39 6 0.04
40 9 0.06
41 4 0.03
42 91 0.61
43 2 0.01
44 32 0.22
45 4 0.03
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (42 bp):
ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTT
Found at i:80441 original size:86 final size:84
Alignment explanation
Indices: 80284--80485 Score: 306
Period size: 86 Copynumber: 2.4 Consensus size: 84
80274 TCATAGAAGA
*
80284 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTTACTCCTATACACAAGCCTATATA
1 ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTAACTCCTATACACAAGCCTATATA
80349 CGAGACCAACTGTCTGGTT
66 CGAGACCAACTGTCTGGTT
* *
80368 ACTCCTATACACAAGCCTATATACGAGACCGA-TTTCATAGAAG-AACTCCTATACACAAGCCTA
1 ACTCCTATACACAAGCCTATATACGAGACCAACTGTC-T-G--GTAACTCCTATACACAAGCCTA
80431 TATACGAGACCAACTGTCTGGTT
62 TATACGAGACCAACTGTCTGGTT
80454 ACTCCTATACACAAGCC--TATACGAGA-CAACTG
1 ACTCCTATACACAAGCCTATATACGAGACCAACTG
80486 ACTGACTGGT
Statistics
Matches: 108, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
83 5 0.05
84 42 0.39
85 1 0.01
86 59 0.55
87 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (84 bp):
ACTCCTATACACAAGCCTATATACGAGACCAACTGTCTGGTAACTCCTATACACAAGCCTATATA
CGAGACCAACTGTCTGGTT
Found at i:80888 original size:25 final size:25
Alignment explanation
Indices: 80859--80934 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
80849 TTCACACATG
* *
80859 ATTTAAACTGTAGTCAAGTAGATTC
1 ATTTAAATTGTAGTCAGGTAGATTC
80884 ATTTAAATTGTAGTCAGGTAGATTC
1 ATTTAAATTGTAGTCAGGTAGATTC
*
80909 ATTTAAATTGTAGTCGGGTAGATTC
1 ATTTAAATTGTAGTCAGGTAGATTC
80934 A
1 A
80935 CTAGTATTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (25 bp):
ATTTAAATTGTAGTCAGGTAGATTC
Found at i:81852 original size:30 final size:30
Alignment explanation
Indices: 81818--81878 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
81808 AGCGTCATTC
81818 TACAAGTAGTCAAATTTATCAACTCATAAT
1 TACAAGTAGTCAAATTTATCAACTCATAAT
81848 TACAAGTAGTCAAATTTATCAACTCATAAT
1 TACAAGTAGTCAAATTTATCAACTCATAAT
81878 T
1 T
81879 CAGAACAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (30 bp):
TACAAGTAGTCAAATTTATCAACTCATAAT
Found at i:82124 original size:14 final size:14
Alignment explanation
Indices: 82105--82132 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82095 TGCTATTTTT
82105 ATAAATTGATCTTC
1 ATAAATTGATCTTC
82119 ATAAATTGATCTTC
1 ATAAATTGATCTTC
82133 GTTTTAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
ATAAATTGATCTTC
Found at i:83516 original size:36 final size:36
Alignment explanation
Indices: 83469--83576 Score: 153
Period size: 36 Copynumber: 3.0 Consensus size: 36
83459 CATGTCACCT
* *
83469 ACGAGCCACCTACATGTGGCCGAGATATATTGCTAA
1 ACGAGCCACCTACACGTGGCCGAGATATATAGCTAA
* * *
83505 ACGAGCCACCTACACGTGCCCGAGACATATAGCTGA
1 ACGAGCCACCTACACGTGGCCGAGATATATAGCTAA
* *
83541 ACGAGCCACCTACACGTGGCTGAGATATATCGCTAA
1 ACGAGCCACCTACACGTGGCCGAGATATATAGCTAA
83577 CTAAAAATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (36 bp):
ACGAGCCACCTACACGTGGCCGAGATATATAGCTAA
Found at i:85500 original size:51 final size:50
Alignment explanation
Indices: 85414--85709 Score: 304
Period size: 51 Copynumber: 5.9 Consensus size: 50
85404 AATAAAGGTC
*
85414 AAACAGAGGCTGATATCA--GACGTCTTGTTAACATCAATAATTCACAGTG
1 AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACAATTCA-AGTG
* * *
85463 AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACAATACAACTT
1 AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACAATTCAAGTG
*
85513 AAACAGAGGCTGATAT--CTGACGTCAATCTAAATGTTAACATCAATAATTCACAGTG
1 AAACAGAGGCTGATATCACTGACG----TCT---TGTTAACATCAACAATTCA-AGTG
* *
85569 AAACAGAGGCTGATATCACTGACGACTTGTTAACATCAA-ATTTTCAAAGTG
1 AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACA-ATTC-AAGTG
* * * * *
85620 AAACAGAGGCTGATATCA--GATGTCATGTTAACATCAACAATACAACTA
1 AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACAATTCAAGTG
* *
85668 AAACAGAGGCTGATATCACCGACGTTTTGTT-A-ATCAACAATT
1 AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACAATT
85710 ACCAATATTA
Statistics
Matches: 209, Mismatches: 21, Indels: 35
0.79 0.08 0.13
Matches are distributed among these distances:
48 36 0.17
49 37 0.18
50 28 0.13
51 61 0.29
52 4 0.02
54 2 0.01
55 17 0.08
56 18 0.09
58 6 0.03
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (50 bp):
AAACAGAGGCTGATATCACTGACGTCTTGTTAACATCAACAATTCAAGTG
Found at i:89025 original size:17 final size:18
Alignment explanation
Indices: 88987--89028 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88977 GTGAAGGAAC
88987 CAATCACTGATACGGTAT
1 CAATCACTGATACGGTAT
89005 CAATCACTGAT-CGAG-AT
1 CAATCACTGATACG-GTAT
89022 CAATCAC
1 CAATCAC
89029 CTACACAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (18 bp):
CAATCACTGATACGGTAT
Found at i:89129 original size:46 final size:47
Alignment explanation
Indices: 89062--89201 Score: 255
Period size: 47 Copynumber: 3.0 Consensus size: 47
89052 TTAGTGGACT
89062 CCTAGCTACTGGGTCATTACCTGCCATACTTGGTGT-CCCCACCAGA
1 CCTAGCTACTGGGTCATTACCTGCCATACTTGGTGTCCCCCACCAGA
*
89108 CCTAGCTACTGGGTCATTACCTGCCATACTTGGTGTCCCCCACCAAA
1 CCTAGCTACTGGGTCATTACCTGCCATACTTGGTGTCCCCCACCAGA
*
89155 CCTAGCTACTGGGTCATTACCTGCCATACTTAGTGTCCCCCACCAGA
1 CCTAGCTACTGGGTCATTACCTGCCATACTTGGTGTCCCCCACCAGA
89202 AGTTCTGGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 36 0.40
47 54 0.60
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.26
Consensus pattern (47 bp):
CCTAGCTACTGGGTCATTACCTGCCATACTTGGTGTCCCCCACCAGA
Found at i:90331 original size:24 final size:24
Alignment explanation
Indices: 90311--90994 Score: 1019
Period size: 24 Copynumber: 28.5 Consensus size: 24
90301 GACGTACCGG
90311 AACTCAGAGATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90335 AACTCAGAGACTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90359 AACTCAGAGACTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90383 AACTCAGAGACTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90407 AACTCAGAGATTGACTTCTACTAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90431 AACTCAGAGACTGACTTGTACTAA
1 AACTCAGAGATTGACTTGTACTAC
* *
90455 AACTCAGAGACTGACTTGTACTAA
1 AACTCAGAGATTGACTTGTACTAC
*
90479 AACTCAGAGATTGACTTGTACTAG
1 AACTCAGAGATTGACTTGTACTAC
*
90503 AACTCAGAGATTGACTTATACTAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90527 AACTTAGAGATTGAGTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
90551 AACTCAGAGATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90575 AACTCTG-CATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90598 AACTCAGAGACTGACTTGTACCAC
1 AACTCAGAGATTGACTTGTACTAC
* **
90622 AATTCAGAGGCTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90646 AACTCAGAGATTGACTTGTACCAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90670 AATTCAGAGACTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
90694 AACTCAGAGATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
90718 AACTCAGAGATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
* * *
90742 AACTCAAAGACTGACTTGTACTAT
1 AACTCAGAGATTGACTTGTACTAC
90766 AACTCAGAGATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90790 AACTCAGAGATTGACTTCTACTAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90814 AACTCAGAGACTGACTTGTACTAA
1 AACTCAGAGATTGACTTGTACTAC
* *
90838 AACTCAGAGATTGACTTGCACCAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90862 AACTCTGAGATTGACTTGTTCTAC
1 AACTCAGAGATTGACTTGTACTAC
*
90886 AACTCAGAGATTGACTTATACTAC
1 AACTCAGAGATTGACTTGTACTAC
* *
90910 AACTCAGAGATTGGCTTGTTCTAC
1 AACTCAGAGATTGACTTGTACTAC
* * *
90934 AACTAAGAGATTGGCTTGTTCTAC
1 AACTCAGAGATTGACTTGTACTAC
90958 AACTCAGAGATTGACTTGTACTAC
1 AACTCAGAGATTGACTTGTACTAC
90982 AACTCAGAGATTG
1 AACTCAGAGATTG
90995 GTGTTTAAAT
Statistics
Matches: 598, Mismatches: 61, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
23 21 0.04
24 577 0.96
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (24 bp):
AACTCAGAGATTGACTTGTACTAC
Found at i:91290 original size:20 final size:20
Alignment explanation
Indices: 91265--91319 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
91255 CTGCCAGGTG
91265 AGAGAACCAATCAGTGGGAC
1 AGAGAACCAATCAGTGGGAC
91285 AGAGAACCAATCAGTGGGAC
1 AGAGAACCAATCAGTGGGAC
91305 AGAGAACCAATCAGT
1 AGAGAACCAATCAGT
91320 CACAGCACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.27, T:0.11
Consensus pattern (20 bp):
AGAGAACCAATCAGTGGGAC
Found at i:91613 original size:18 final size:18
Alignment explanation
Indices: 91590--92053 Score: 490
Period size: 18 Copynumber: 25.8 Consensus size: 18
91580 CATTTTTGAG
91590 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTA
**
91608 TAGGGTATATATGTGGTA
1 TAGGGTATACCTGTGGTA
*
91626 TAGGGCATACCTGTGGT-
1 TAGGGTATACCTGTGGTA
* *
91643 TAAAGATATACCTGTGGTA
1 T-AGGGTATACCTGTGGTA
91662 TAGGGTATACCTGTGGT-
1 TAGGGTATACCTGTGGTA
*
91679 TAAGGGTATACCAGTGGTA
1 T-AGGGTATACCTGTGGTA
* *
91698 TAGGGTTTACCTTTGGGT-
1 TAGGGTATACCTGT-GGTA
*
91716 TAGGGTATATCTGTGGTA
1 TAGGGTATACCTGTGGTA
91734 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTA
*
91752 TAGGGTATACCAGTGGTA
1 TAGGGTATACCTGTGGTA
* *
91770 TAGGGTTTACCTTTGGGT-
1 TAGGGTATACCTGT-GGTA
*
91788 TAGGGTATATCTGTGGTA
1 TAGGGTATACCTGTGGTA
*
91806 TAGGGTATACCTGTGGTT
1 TAGGGTATACCTGTGGTA
*
91824 TAGGGTATACCTGTGGTT
1 TAGGGTATACCTGTGGTA
91842 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTA
** *
91860 TATAGTATACCTGTGGTT
1 TAGGGTATACCTGTGGTA
91878 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTA
* **
91896 TAGGGTTTATTTGTGG-A
1 TAGGGTATACCTGTGGTA
91913 TTAGGGTATACCTGTGGTA
1 -TAGGGTATACCTGTGGTA
**
91932 TATAGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTA
*
91950 TAGGGTATATCTGTGGTA
1 TAGGGTATACCTGTGGTA
* **
91968 TAGGGTTTATTTGTGG-A
1 TAGGGTATACCTGTGGTA
* * *
91985 TTAGGGTATATCTGGGGTT
1 -TAGGGTATACCTGTGGTA
* * * *
92004 TAGGGTTTATCTGTAGTT
1 TAGGGTATACCTGTGGTA
* *
92022 TAGGGTACACCTGTGTTA
1 TAGGGTATACCTGTGGTA
**
92040 TAAAGTATACCTGT
1 TAGGGTATACCTGT
92054 AGTTTAGAAT
Statistics
Matches: 371, Mismatches: 63, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
17 10 0.03
18 352 0.95
19 9 0.02
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (18 bp):
TAGGGTATACCTGTGGTA
Found at i:92473 original size:18 final size:18
Alignment explanation
Indices: 92450--92704 Score: 251
Period size: 18 Copynumber: 14.2 Consensus size: 18
92440 NNNNNNNNNN
92450 TAGGGTATACCTGTGGTT
1 TAGGGTATACCTGTGGTT
92468 TAGGGTATACCTGTGGTT
1 TAGGGTATACCTGTGGTT
*
92486 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTT
**
92504 TATAGTATACCTGTGGTT
1 TAGGGTATACCTGTGGTT
*
92522 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTT
* ** *
92540 TAGGGTTTATTTGTGGAT
1 TAGGGTATACCTGTGGTT
*
92558 TAGGGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTT
** *
92576 TATAGTATACCTGTGGTA
1 TAGGGTATACCTGTGGTT
* *
92594 TAGGGTATATCTGTGGTA
1 TAGGGTATACCTGTGGTT
* ** *
92612 TAGGGTTTATTTGTGGAT
1 TAGGGTATACCTGTGGTT
* *
92630 TAGGGTATATCTGGGGTT
1 TAGGGTATACCTGTGGTT
* * *
92648 TAGGGTTTATCTGTAGTT
1 TAGGGTATACCTGTGGTT
*
92666 TAGGGTACACCTGT-GTT
1 TAGGGTATACCTGTGGTT
** *
92683 ATAAAGTATACCTGTAGTT
1 -TAGGGTATACCTGTGGTT
92702 TAG
1 TAG
92705 AATTACACAG
Statistics
Matches: 195, Mismatches: 40, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
17 3 0.02
18 189 0.97
19 3 0.02
ACGTcount: A:0.21, C:0.09, G:0.30, T:0.40
Consensus pattern (18 bp):
TAGGGTATACCTGTGGTT
Found at i:92567 original size:72 final size:72
Alignment explanation
Indices: 92450--92685 Score: 319
Period size: 72 Copynumber: 3.3 Consensus size: 72
92440 NNNNNNNNNN
* * ** *
92450 TAGGGTATACCTGTGGTTTAGGGTATACCTGTGGTTTAGGGTATACCTGTGGTATATAGTATACC
1 TAGGGTATACCTGTGGTATAGGGTTTATTTGTGGATTAGGGTATACCTGTGGTATATAGTATACC
92515 TGTGGTT
66 TGTGGTT
92522 TAGGGTATACCTGTGGTATAGGGTTTATTTGTGGATTAGGGTATACCTGTGGTATATAGTATACC
1 TAGGGTATACCTGTGGTATAGGGTTTATTTGTGGATTAGGGTATACCTGTGGTATATAGTATACC
*
92587 TGTGGTA
66 TGTGGTT
* * * * ** * *
92594 TAGGGTATATCTGTGGTATAGGGTTTATTTGTGGATTAGGGTATATCTGGGGTTTAGGGTTTATC
1 TAGGGTATACCTGTGGTATAGGGTTTATTTGTGGATTAGGGTATACCTGTGGTATATAGTATACC
*
92659 TGTAGTT
66 TGTGGTT
* *
92666 TAGGGTACACCTGTGTTATA
1 TAGGGTATACCTGTGGTATA
92686 AAGTATACCT
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 145 1.00
ACGTcount: A:0.20, C:0.08, G:0.31, T:0.40
Consensus pattern (72 bp):
TAGGGTATACCTGTGGTATAGGGTTTATTTGTGGATTAGGGTATACCTGTGGTATATAGTATACC
TGTGGTT
Found at i:93291 original size:2 final size:2
Alignment explanation
Indices: 93284--93308 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93274 ATGCATACCA
93284 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 A
93309 ATTAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95976 original size:48 final size:48
Alignment explanation
Indices: 95905--96102 Score: 308
Period size: 48 Copynumber: 4.1 Consensus size: 48
95895 TAACTTACAG
95905 TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTATAACATGGGA
1 TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTATAACATGGGA
*
95953 TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTCTAACATAGGG-
1 TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTATAACAT-GGGA
** * * *
96001 TGTCCCCTGTTATTGTAGCATAGCTGTGATTCTGACTGTAACGTGGGG
1 TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTATAACATGGGA
* *
96049 TGTAACCTATTATTGTAGCATAGCTGTGATTCTGACTATAACATGGAA
1 TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTATAACATGGGA
96097 TGTAAC
1 TGTAAC
96103 AAGCTTACAA
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 3 0.02
48 130 0.96
49 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (48 bp):
TGTAACCTGTTATTGTAGCATAGCTGTGATTCTGACTATAACATGGGA
Found at i:96213 original size:30 final size:30
Alignment explanation
Indices: 96176--96643 Score: 467
Period size: 30 Copynumber: 15.4 Consensus size: 30
96166 TAATAATATT
*
96176 CTCTGTAATAGTAACCACAATTACAATGTG
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * *
96206 TTATGTAATAG-AACCCACAATTACAATGTG
1 CTCTGTAATAGTAA-CCACAATTACAATGTA
* * * * * * *
96236 TTATGTTATAGTCATCACAATTACAAGGCA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * *
96266 CTCTGTAATAGTCACCACAATTACAAGGCA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * *
96296 CTCTGTAATAGTCACCACAATTACAAGGCA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * *
96326 CTCTGTAATACAACAG-ACACCACAATTACTAGGCA
1 CTCTGTAAT-----AGTA-ACCACAATTACAATGTA
*
96361 CTCTGTAATAGTCACCACAATTACAATGTA
1 CTCTGTAATAGTAACCACAATTACAATGTA
*
96391 CTCTGTAATAG-ATACCACAATTACAATGTT
1 CTCTGTAATAGTA-ACCACAATTACAATGTA
* *
96421 GTCTGTAATAGTCACCACAATTACAATGTA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * *
96451 CTCTGTAATAGTTACCACAATTACAAGGCA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* *
96481 CTCTGTAATAGTCACCACAATTACAATTTA
1 CTCTGTAATAGTAACCACAATTACAATGTA
*
96511 CTCTGTAATAATAACCACAATTACAATGTA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * * *
96541 CTTTGTAATAGTAAGCATAATTGCAATGTA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* * *
96571 CTCTGTCATAGTAACCATAATTACAAGGTA
1 CTCTGTAATAGTAACCACAATTACAATGTA
* *
96601 CTTTGTAATAGTAACCATAATTACAA-GATA
1 CTCTGTAATAGTAACCACAATTACAATG-TA
*
96631 CTCTGTGATAGTA
1 CTCTGTAATAGTA
96644 TCTTTAATTA
Statistics
Matches: 378, Mismatches: 48, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.01
30 347 0.92
31 1 0.00
35 27 0.07
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (30 bp):
CTCTGTAATAGTAACCACAATTACAATGTA
Found at i:105851 original size:24 final size:24
Alignment explanation
Indices: 105819--105870 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
105809 ATTAGCCAAG
*
105819 AGTTATTGCATCATTGAGTGAAAC
1 AGTTATTGCATCATTGAGTCAAAC
*
105843 AGTTATTGCATCATTGAGTCAAAG
1 AGTTATTGCATCATTGAGTCAAAC
105867 AGTT
1 AGTT
105871 TTCATTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (24 bp):
AGTTATTGCATCATTGAGTCAAAC
Found at i:109878 original size:15 final size:15
Alignment explanation
Indices: 109858--109892 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
109848 ACAAAAAGCA
*
109858 TTTCTGTTCATACTT
1 TTTCTGTTAATACTT
109873 TTTCTGTTAATACTT
1 TTTCTGTTAATACTT
109888 TTTCT
1 TTTCT
109893 TTCTCTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (15 bp):
TTTCTGTTAATACTT
Found at i:110458 original size:50 final size:50
Alignment explanation
Indices: 110383--110651 Score: 511
Period size: 50 Copynumber: 5.4 Consensus size: 50
110373 TCTACGGACC
* *
110383 CTGGACAAAGTAATAGCTCACCTGGACTTTCTCCTCTGTGACGTGGATTT
1 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
110433 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
1 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
*
110483 CTGGACAAAATAATAGCTCACCTGGACATTCCCCTCTGTGACGTGGATTT
1 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
110533 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
1 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
110583 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
1 CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
110633 CTGGACAAAATAATAGCTC
1 CTGGACAAAATAATAGCTC
110652 NNNNNNNNNN
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 215 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
CTGGACAAAATAATAGCTCACCTGGACATTCTCCTCTGTGACGTGGATTT
Found at i:121061 original size:57 final size:57
Alignment explanation
Indices: 120982--121128 Score: 195
Period size: 57 Copynumber: 2.6 Consensus size: 57
120972 CACGGCCTGA
* * *
120982 GGGTACTGTCGATGGAGGGAACCCTGACCTAGCAGACAAATTCTCTAACTTTTTATT
1 GGGTCCTGTGGATGGAGGGAACCCTGACCTAGCAGACAAATTCTATAACTTTTTATT
* * *
121039 GGGTCCTGTGGATGGAGGGAACCCTGACCTAGCGGACCAATTCTATGACTTTTTATT
1 GGGTCCTGTGGATGGAGGGAACCCTGACCTAGCAGACAAATTCTATAACTTTTTATT
* * ** *
121096 GGATCCTCTGGATAAAGGGAACCCTGACTTAGC
1 GGGTCCTGTGGATGGAGGGAACCCTGACCTAGC
121129 TGACTGATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 79 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (57 bp):
GGGTCCTGTGGATGGAGGGAACCCTGACCTAGCAGACAAATTCTATAACTTTTTATT
Found at i:125264 original size:28 final size:28
Alignment explanation
Indices: 125224--125282 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
125214 TGATAGTTTG
125224 TCAGAATTAATGAAGTCTTAGCCTGGTC
1 TCAGAATTAATGAAGTCTTAGCCTGGTC
125252 TCAGAATTAATGAAGTCTTAGCCTGGTC
1 TCAGAATTAATGAAGTCTTAGCCTGGTC
125280 TCA
1 TCA
125283 ATTTTACCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (28 bp):
TCAGAATTAATGAAGTCTTAGCCTGGTC
Found at i:125380 original size:28 final size:28
Alignment explanation
Indices: 125332--125838 Score: 539
Period size: 28 Copynumber: 17.6 Consensus size: 28
125322 CAGAGTTAGT
* *
125332 AGTCTTGGCCTAGTCTCAGAGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* * *
125360 AATTTTAGACTGGTCTCAGAGTTATGTAATGA
1 AGTCTTAGCCTGGTCTCAGAG---T-TAATGA
125392 AGTCTTAGCCTGGTCTCAGAGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
125420 AGTCTTAGCCTGGTCTCAGAGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
*
125448 AGTCTTAGCCTGGTGTCAGAGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* * *
125476 AGTCTAAGCCTGGTCTCAGAGTGATTGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* * *
125504 AGTCTTAGCCTGGTGTCAGAGTGAGTGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
*
125532 AGTCTTAGCCTGGTGTCAGAGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* *
125560 AGTCTTAGCCTGGTGTCAGAGTGAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* *
125588 AGTTTTAGCCATTTCAGCCTCGTCTCAGAGTTAATAA
1 AG---T---C--TT-AGCCTGGTCTCAGAGTTAATGA
* * * *
125625 AGTTTTATCCTGGTCCCAGGGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* *
125653 AGTCTTAGCCTGGTCTCATAGTTAATAA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* * * *
125681 AGTTTTATCCTGGTCCCAGGGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* *
125709 AGTCTCAGCCTGGTCTCAGAGTTAATAA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
* * * *
125737 AGTTTTATCCTGGTCCCAGGGTTAATGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
*
125765 AGTCTTAGCCTGGTCTCAGAGTGT-GTGA
1 AGTCTTAGCCTGGTCTCAGAGT-TAATGA
* * **
125793 AGTCTTAGACTGGTCTCAGAGTGAGGGA
1 AGTCTTAGCCTGGTCTCAGAGTTAATGA
125821 AGTCTTAGCCTGGTCTCA
1 AGTCTTAGCCTGGTCTCA
125839 ATTTTACCCC
Statistics
Matches: 402, Mismatches: 62, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
28 348 0.87
29 4 0.01
31 2 0.00
32 24 0.06
34 2 0.00
36 2 0.00
37 20 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (28 bp):
AGTCTTAGCCTGGTCTCAGAGTTAATGA
Found at i:125728 original size:149 final size:149
Alignment explanation
Indices: 125463--125835 Score: 377
Period size: 149 Copynumber: 2.6 Consensus size: 149
125453 TAGCCTGGTG
* * * *
125463 TCAGAGTTAATGAAGTCTAAGCCTGGTCTCAGAGTGATTGAAGTCTTAGCCTGGTGTCAGAGTGA
1 TCAGAGTTAATAAAGTCTAAGCCTGGTCCCAGAGTGAATGAAGTCTTAGCCTGGTCTCAGAGTGA
* * ** * * *
125528 GTGAAGTCTTAGCCTGGTGTCAGAGTTAATGAAGTCTTAGCCTGGTGTCAGAGTGAATGAAGTTT
66 ATAAAGTCTTAGCCTGGTCCCAGAGTTAATGAAGTCTCAGCCTGGTCTCAGAGTGAATAAAGTTT
125593 TAGCCATTTCAGCCTCGTC
131 TAGCCATTTCAGCCTCGTC
* * * * * * *
125612 TCAGAGTTAATAAAGTTTTATCCTGGTCCCAGGGTTAATGAAGTCTTAGCCTGGTCTCATAGTTA
1 TCAGAGTTAATAAAGTCTAAGCCTGGTCCCAGAGTGAATGAAGTCTTAGCCTGGTCTCAGAGTGA
* * * *
125677 ATAAAGTTTTATCCTGGTCCCAGGGTTAATGAAGTCTCAGCCTGGTCTCAGAGTTAATAAAGTTT
66 ATAAAGTCTTAGCCTGGTCCCAGAGTTAATGAAGTCTCAGCCTGGTCTCAGAGTGAATAAAGTTT
*
125742 T----A--T---CCTGGTC
131 TAGCCATTTCAGCCTCGTC
* * * * * ** *
125752 CCAGGGTTAATGAAGTCTTAGCCTGGTCTCAGAGTGTGTGAAGTCTTAGACTGGTCTCAGAGTGA
1 TCAGAGTTAATAAAGTCTAAGCCTGGTCCCAGAGTGAATGAAGTCTTAGCCTGGTCTCAGAGTGA
***
125817 GGGAAGTCTTAGCCTGGTC
66 ATAAAGTCTTAGCCTGGTC
125836 TCAATTTTAC
Statistics
Matches: 183, Mismatches: 41, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
140 72 0.39
143 1 0.01
145 1 0.01
149 109 0.60
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (149 bp):
TCAGAGTTAATAAAGTCTAAGCCTGGTCCCAGAGTGAATGAAGTCTTAGCCTGGTCTCAGAGTGA
ATAAAGTCTTAGCCTGGTCCCAGAGTTAATGAAGTCTCAGCCTGGTCTCAGAGTGAATAAAGTTT
TAGCCATTTCAGCCTCGTC
Found at i:131671 original size:24 final size:24
Alignment explanation
Indices: 131644--131712 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
131634 GGAACGATCG
*
131644 CCAAGGTCGAGT-TTAGAACGGTCC
1 CCAAGGTCGAGTCTT-GAAAGGTCC
131668 CCAAGGTCGAGTCTTGAAAGGTCC
1 CCAAGGTCGAGTCTTGAAAGGTCC
** * *
131692 CCTCGATCTAGTCTTGAAAGG
1 CCAAGGTCGAGTCTTGAAAGG
131713 GGATCAGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (24 bp):
CCAAGGTCGAGTCTTGAAAGGTCC
Found at i:132970 original size:29 final size:29
Alignment explanation
Indices: 132887--132974 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
132877 ATTAACCAAT
* * *
132887 AGTGTAGAATATTAATGTAATTATTCAAT
1 AGTGTAGAATATTAATGTAATAATTAAAC
*
132916 AGTGTAGATTATTAATGTAATAATTAAAC
1 AGTGTAGAATATTAATGTAATAATTAAAC
*
132945 AGTGTAGAATGTTAATGTAATAATTAAAC
1 AGTGTAGAATATTAATGTAATAATTAAAC
132974 A
1 A
132975 TTTCTTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (29 bp):
AGTGTAGAATATTAATGTAATAATTAAAC
Found at i:136757 original size:177 final size:176
Alignment explanation
Indices: 136461--136813 Score: 697
Period size: 177 Copynumber: 2.0 Consensus size: 176
136451 AATTCCGTTA
136461 AACATTTTCAGTTTCTTCTACCTTATGTTGCATGTAAATTTATTAATCTGTTGCATGATATTCTC
1 AACATTTTCAGTTTCTTCTACCTTATGTTGCATGTAAATTTATTAATCTGTTGCATGATATTCTC
136526 TGTAGTAACTCTCTGCATGAATGTATAAACATGAAAAAAGATTCTATATCGATGACAATGTTTCT
66 TGTAGTAACTCTCTGCATGAATGTATAAACATGAAAAAAGATTCTATATCGATGACAATGTTTCT
136591 TCTTTTTGAATAGGTCTCCAAGTTTCAAGCTGATATGTGCCGCAGC
131 TCTTTTTGAATAGGTCTCCAAGTTTCAAGCTGATATGTGCCGCAGC
136637 NAACATTTTCAGTTTCTTCTACCTTATGTTGCATGTAAATTTATTAATCTGTTGCATGATATTCT
1 -AACATTTTCAGTTTCTTCTACCTTATGTTGCATGTAAATTTATTAATCTGTTGCATGATATTCT
136702 CTGTAGTAACTCTCTGCATGAATGTATAAACATGAAAAAAGATTCTATATCGATGACAATGTTTC
65 CTGTAGTAACTCTCTGCATGAATGTATAAACATGAAAAAAGATTCTATATCGATGACAATGTTTC
136767 TTCTTTTTGAATAGGTCTCCAAGTTTCAAGCTGATATGTGCCGCAGC
130 TTCTTTTTGAATAGGTCTCCAAGTTTCAAGCTGATATGTGCCGCAGC
136814 TGCGAAAAAG
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 176 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (176 bp):
AACATTTTCAGTTTCTTCTACCTTATGTTGCATGTAAATTTATTAATCTGTTGCATGATATTCTC
TGTAGTAACTCTCTGCATGAATGTATAAACATGAAAAAAGATTCTATATCGATGACAATGTTTCT
TCTTTTTGAATAGGTCTCCAAGTTTCAAGCTGATATGTGCCGCAGC
Found at i:139742 original size:181 final size:178
Alignment explanation
Indices: 139433--139841 Score: 702
Period size: 181 Copynumber: 2.3 Consensus size: 178
139423 GCTGGCGAAG
139433 ATGACAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTC
1 ATGA-AAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTC
139498 ATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTATTCTTTTGCAGATCAATTGTA
65 ATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTATTCTTTTGCAGATCAATTGTA
*
139563 CATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTTCTGATAATTT
130 CATATATCAGAGGTGTGCATATTGCTAGGATTTTGA-TTTCCGATAATTT
139613 ATCGAAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCT
1 AT-G-AAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCT
* *
139678 CGTTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCAGATCAATTGT
64 CATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTATTCTTTTGCAGATCAATTGT
139743 ACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTT
129 ACATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTT
* *
139793 ATGAAAAA-A--A--TTTTGAACTTCGTCATTTTTTGGCAAAATGTTGCATATA
1 ATGAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATA
139842 CATGTAGGGT
Statistics
Matches: 222, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
173 37 0.17
175 1 0.00
177 1 0.00
178 5 0.02
179 1 0.00
180 16 0.07
181 160 0.72
182 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (178 bp):
ATGAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTGCATATAGGGTACCCTCA
TTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTATTCTTTTGCAGATCAATTGTAC
ATATATCAGAGGTGTGCATATTGCTAGGATTTTGATTTCCGATAATTT
Found at i:147225 original size:13 final size:13
Alignment explanation
Indices: 147196--147228 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
147186 ATAAATAAAA
147196 AAAATTCATATAT
1 AAAATTCATATAT
147209 --AATTCATATAT
1 AAAATTCATATAT
147220 AAAATTCAT
1 AAAATTCAT
147229 CAAATCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATTCATATAT
Found at i:149469 original size:16 final size:16
Alignment explanation
Indices: 149448--149478 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
149438 GAATTGTTCT
*
149448 TTCTTTCTTTATTTAC
1 TTCTTTATTTATTTAC
149464 TTCTTTATTTATTTA
1 TTCTTTATTTATTTA
149479 ATATTTTCCC
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:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTTATTTATTTAC
Found at i:149545 original size:15 final size:15
Alignment explanation
Indices: 149525--149566 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
149515 TACTTATTGA
149525 TAATTTTCCTACCTC
1 TAATTTTCCTACCTC
149540 TAATTTTCCTACCTC
1 TAATTTTCCTACCTC
149555 TAATTTTCCTAC
1 TAATTTTCCTAC
149567 TTTTACGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTTCCTACCTC
Found at i:149943 original size:20 final size:20
Alignment explanation
Indices: 149918--149959 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
149908 ATATTGACTT
149918 TAATATATGTATGGGGATGA
1 TAATATATGTATGGGGATGA
*
149938 TAATATATGTATGGGGGTGA
1 TAATATATGTATGGGGATGA
149958 TA
1 TA
149960 GGTTTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (20 bp):
TAATATATGTATGGGGATGA
Found at i:150874 original size:16 final size:16
Alignment explanation
Indices: 150853--151082 Score: 201
Period size: 16 Copynumber: 15.4 Consensus size: 16
150843 TTTCTGGTAC
*
150853 TTTACTGTTGGAATAG
1 TTTACTGTTAGAATAG
*
150869 TTTACTGTTAAAATAG
1 TTTACTGTTAGAATAG
150885 TTTACTGTTAGAATAG
1 TTTACTGTTAGAATAG
150901 TTTACTGTTAG-A-A-
1 TTTACTGTTAGAATAG
150914 --TA--GTT-GAATAG
1 TTTACTGTTAGAATAG
*
150925 TTTACTGTTTGAATAG
1 TTTACTGTTAGAATAG
150941 TTTACTGTTAG-A-A-
1 TTTACTGTTAGAATAG
150954 --TA--GTT-GAATAG
1 TTTACTGTTAGAATAG
*
150965 TTTACTGTTTGAATAG
1 TTTACTGTTAGAATAG
*
150981 TTTACTGTTTGAATAG
1 TTTACTGTTAGAATAG
150997 TTTACTGTTAGAATAG
1 TTTACTGTTAGAATAG
151013 TTTACTGTTAGAATAG
1 TTTACTGTTAGAATAG
* * * *
151029 TTGAATAGTT-TACT-G
1 TTTACT-GTTAGAATAG
* *
151044 TTAGAATAGTT-GAATAG
1 TT-TACT-GTTAGAATAG
151061 TTTACTGTTAGAATAG
1 TTTACTGTTAGAATAG
151077 TTTACT
1 TTTACT
151083 ACCATTAACA
Statistics
Matches: 181, Mismatches: 13, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.01
9 8 0.04
10 2 0.01
11 4 0.02
13 4 0.02
14 2 0.01
15 14 0.08
16 139 0.77
17 6 0.03
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (16 bp):
TTTACTGTTAGAATAG
Found at i:150927 original size:24 final size:24
Alignment explanation
Indices: 150895--151078 Score: 210
Period size: 24 Copynumber: 8.0 Consensus size: 24
150885 TTTACTGTTA
150895 GAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTT
150919 GAATAGTTTAC---T-G--T--TT
1 GAATAGTTTACTGTTAGAATAGTT
150935 GAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTT
*
150959 GAATAGTTTACTGTTTGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTT
* * * * *
150983 TACT-GTTTGAATAGTT-TACT-GTT
1 GAATAGTTT-ACT-GTTAGAATAGTT
151006 AGAATAGTTTACTGTTAGAATAGTT
1 -GAATAGTTTACTGTTAGAATAGTT
151031 GAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTT
151055 GAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTT
151079 TACTACCATT
Statistics
Matches: 135, Mismatches: 11, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
16 13 0.10
18 1 0.01
19 1 0.01
20 2 0.01
21 1 0.01
22 1 0.01
23 10 0.07
24 96 0.71
25 10 0.07
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (24 bp):
GAATAGTTTACTGTTAGAATAGTT
Found at i:150939 original size:40 final size:40
Alignment explanation
Indices: 150880--151054 Score: 276
Period size: 40 Copynumber: 4.6 Consensus size: 40
150870 TTACTGTTAA
150880 AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
1 AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
*
150920 AATAGTTTACTGTTTGAATAGTTTACTGTTAGAATAGTTG
1 AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
*
150960 AATAGTTTACTGTTTGAATAGTTTAC---T-G--T--TTG
1 AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
150992 AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
1 AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
151032 AATAGTTTACTGTTAGAATAGTT
1 AATAGTTTACTGTTAGAATAGTT
151055 GAATAGTTTA
Statistics
Matches: 125, Mismatches: 2, Indels: 16
0.87 0.01 0.11
Matches are distributed among these distances:
32 28 0.22
34 1 0.01
35 1 0.01
36 2 0.02
37 1 0.01
38 1 0.01
40 91 0.73
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (40 bp):
AATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTG
Found at i:150949 original size:56 final size:56
Alignment explanation
Indices: 150863--151054 Score: 289
Period size: 56 Copynumber: 3.4 Consensus size: 56
150853 TTTACTGTTG
*
150863 GAATAGTTTACTGTTAAAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTT
* * * * *
150919 GAATAGTTTACTGTTTGAATAGTTTACTGTTAGAATAGTTGAATAGTT-TACT-GTTT
1 GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACT-GTTAGAATAG-TT
*
150975 GAATAGTTTACTGTTTGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTT
151031 GAATAGTTTACTGTTAGAATAGTT
1 GAATAGTTTACTGTTAGAATAGTT
151055 GAATAGTTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
55 4 0.03
56 113 0.93
57 4 0.03
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.44
Consensus pattern (56 bp):
GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTT
Found at i:151033 original size:96 final size:96
Alignment explanation
Indices: 150863--151082 Score: 345
Period size: 96 Copynumber: 2.3 Consensus size: 96
150853 TTTACTGTTG
* *
150863 GAATAGTTTACTGTTAAAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTGAATAGTTT
1 GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTGAATAGTTG
*
150928 ACTGTTTGAATAGTTTACTGTTAGAATAGTT
66 AATGTTTGAATAGTTTACTGTTAGAATAGTT
* * * *
150959 GAATAGTTTACTGTTTGAATAGTTTACTGTTTGAATAGTTTACTGTTAGAATAGTTTACT-GTTA
1 GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTGAATAGTT-
151023 GAATAG-TTGAATAGTTTACTGTTAGAATAGTT
65 GAAT-GTTTGAATAGTTTACTGTTAGAATAGTT
151055 GAATAGTTTACTGTTAGAATAGTTTACT
1 GAATAGTTTACTGTTAGAATAGTTTACT
151083 ACCATTAACA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
95 3 0.03
96 110 0.96
97 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.44
Consensus pattern (96 bp):
GAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTTACTGTTAGAATAGTTGAATAGTTG
AATGTTTGAATAGTTTACTGTTAGAATAGTT
Found at i:151075 original size:40 final size:40
Alignment explanation
Indices: 150890--151083 Score: 175
Period size: 40 Copynumber: 4.8 Consensus size: 40
150880 AATAGTTTAC
* * * * *
150890 TGTTAGAATAGTTTACTGTTAGAATAGTTGAATAGTTTAC
1 TGTTTGAATAGTTTACTGTTAGAATAGTTTACTAGTTGAA
* * * *
150930 TGTTTGAATAGTTTACTGTTAGAATAGTTGAATAGTTTAC
1 TGTTTGAATAGTTTACTGTTAGAATAGTTTACTAGTTGAA
*
150970 TGTTTGAATAGTTTACTGTTTGAATAGTTTACT-GTTAGAA
1 TGTTTGAATAGTTTACTGTTAGAATAGTTTACTAGTT-GAA
* * *
151010 TAGTTT-ACT-GTTAGAATAGTT-GAATAGTTTACT-GTTAGAA
1 T-GTTTGAATAGTT-TACT-GTTAGAATAGTTTACTAGTT-GAA
151050 TAG-TTGAATAGTTTACTGTTAGAATAGTTTACTA
1 T-GTTTGAATAGTTTACTGTTAGAATAGTTTACTA
151084 CCATTAACAT
Statistics
Matches: 134, Mismatches: 12, Indels: 15
0.83 0.07 0.09
Matches are distributed among these distances:
39 11 0.08
40 113 0.84
41 10 0.07
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (40 bp):
TGTTTGAATAGTTTACTGTTAGAATAGTTTACTAGTTGAA
Found at i:161368 original size:18 final size:18
Alignment explanation
Indices: 161348--161712 Score: 448
Period size: 18 Copynumber: 20.3 Consensus size: 18
161338 GGTGTTACCT
* *
161348 GGACAACCAGGATTTAAT
1 GGACAACCTGGATTTAAC
*
161366 GGACAACCTGG-TTTAAAT
1 GGACAACCTGGATTT-AAC
* * *
161384 GGACAGCCAGGATTCAAC
1 GGACAACCTGGATTTAAC
* *
161402 GGTCAACCCGGATTTAAC
1 GGACAACCTGGATTTAAC
*
161420 GGACAACCCGGATTTAAC
1 GGACAACCTGGATTTAAC
* *
161438 GGACAACCCGGATTTAAT
1 GGACAACCTGGATTTAAC
*
161456 GGACAACCTGG-TTTAAAT
1 GGACAACCTGGATTT-AAC
* * *
161474 GGACAGCCAGGATTTAAT
1 GGACAACCTGGATTTAAC
*
161492 GGTCAACCTGGATTTAAC
1 GGACAACCTGGATTTAAC
161510 GGACAACCTGGATTTAAC
1 GGACAACCTGGATTTAAC
*
161528 GGACAACCTGGATTTAAT
1 GGACAACCTGGATTTAAC
*
161546 GGACAACCTGGTTTTAAC
1 GGACAACCTGGATTTAAC
161564 GGACAACCTGGATTTAAC
1 GGACAACCTGGATTTAAC
161582 GGACAACCTGGATTTAAC
1 GGACAACCTGGATTTAAC
* *
161600 GGACAACCCGGATTTAAT
1 GGACAACCTGGATTTAAC
*
161618 GGACAACCTGG-TTTAAAT
1 GGACAACCTGGATTT-AAC
* * *
161636 GGACAGCCAGGATTTAAT
1 GGACAACCTGGATTTAAC
*
161654 GGTCAACCTGGATTTAAC
1 GGACAACCTGGATTTAAC
*
161672 GGACAACCCGGATTTAAC
1 GGACAACCTGGATTTAAC
161690 GGACAACCTGGATTTAAC
1 GGACAACCTGGATTTAAC
161708 GGACA
1 GGACA
161713 GCCAGGTTTT
Statistics
Matches: 306, Mismatches: 35, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
17 9 0.03
18 289 0.94
19 8 0.03
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (18 bp):
GGACAACCTGGATTTAAC
Found at i:161505 original size:90 final size:90
Alignment explanation
Indices: 161348--161712 Score: 518
Period size: 90 Copynumber: 4.1 Consensus size: 90
161338 GGTGTTACCT
* * * *
161348 GGACAACCAGGATTTAATGGACAACCTGGTTTAAATGGACAGCCAGGATTCAACGGTCAACCCGG
1 GGACAACCTGGATTTAATGGACAACCTGGTTTAAATGGACAACCAGGATTTAACGGACAACCCGG
161413 ATTTAACGGACAACCCGGATTTAAC
66 ATTTAACGGACAACCCGGATTTAAC
* * * * *
161438 GGACAACCCGGATTTAATGGACAACCTGGTTTAAATGGACAGCCAGGATTTAATGGTCAACCTGG
1 GGACAACCTGGATTTAATGGACAACCTGGTTTAAATGGACAACCAGGATTTAACGGACAACCCGG
*
161503 ATTTAACGGACAACCTGGATTTAAC
66 ATTTAACGGACAACCCGGATTTAAC
* * * *
161528 GGACAACCTGGATTTAATGGACAACCTGGTTTTAACGGACAACCTGGATTTAACGGACAACCTGG
1 GGACAACCTGGATTTAATGGACAACCTGGTTTAAATGGACAACCAGGATTTAACGGACAACCCGG
*
161593 ATTTAACGGACAACCCGGATTTAAT
66 ATTTAACGGACAACCCGGATTTAAC
* * * *
161618 GGACAACCTGG-TTTAAATGGACAGCCAGGATTT-AATGGTCAACCTGGATTTAACGGACAACCC
1 GGACAACCTGGATTT-AATGGACAACCTGG-TTTAAATGGACAACCAGGATTTAACGGACAACCC
*
161681 GGATTTAACGGACAACCTGGATTTAAC
64 GGATTTAACGGACAACCCGGATTTAAC
161708 GGACA
1 GGACA
161713 GCCAGGTTTT
Statistics
Matches: 252, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
89 3 0.01
90 246 0.98
91 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (90 bp):
GGACAACCTGGATTTAATGGACAACCTGGTTTAAATGGACAACCAGGATTTAACGGACAACCCGG
ATTTAACGGACAACCCGGATTTAAC
Found at i:161849 original size:18 final size:18
Alignment explanation
Indices: 161825--161908 Score: 96
Period size: 18 Copynumber: 4.7 Consensus size: 18
161815 CGGATTTCCC
* *
161825 GGACAACCAGGAATGCCC
1 GGACAACCAGGGATGCCA
*
161843 GGTCAACCAGGGATGCCA
1 GGACAACCAGGGATGCCA
161861 GGACAACCAGGGATGCCA
1 GGACAACCAGGGATGCCA
* * * * *
161879 GGTCAGCAAGGGTTACCA
1 GGACAACCAGGGATGCCA
161897 GGACAACCAGGG
1 GGACAACCAGGG
161909 GGTTTTCCCG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.31, C:0.27, G:0.33, T:0.08
Consensus pattern (18 bp):
GGACAACCAGGGATGCCA
Found at i:161877 original size:36 final size:36
Alignment explanation
Indices: 161825--161908 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
161815 CGGATTTCCC
* * * *
161825 GGACAACCAGGAATGCCCGGTCAACCAGGGATGCCA
1 GGACAACCAGGGATGCCAGGTCAACAAGGGATACCA
* *
161861 GGACAACCAGGGATGCCAGGTCAGCAAGGGTTACCA
1 GGACAACCAGGGATGCCAGGTCAACAAGGGATACCA
161897 GGACAACCAGGG
1 GGACAACCAGGG
161909 GGTTTTCCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.33, T:0.08
Consensus pattern (36 bp):
GGACAACCAGGGATGCCAGGTCAACAAGGGATACCA
Found at i:163511 original size:22 final size:22
Alignment explanation
Indices: 163483--163528 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
163473 TTGATGTGTC
163483 ATTCCAAAAACTCAAGCAATAT
1 ATTCCAAAAACTCAAGCAATAT
163505 ATTCCAAAAACTCAAGCAATAT
1 ATTCCAAAAACTCAAGCAATAT
163527 AT
1 AT
163529 GCTATATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.24
Consensus pattern (22 bp):
ATTCCAAAAACTCAAGCAATAT
Found at i:166443 original size:2 final size:2
Alignment explanation
Indices: 166436--166512 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
166426 TGTGCCAAGC
166436 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
166478 CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
166513 AGTTGTGTGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:168978 original size:42 final size:42
Alignment explanation
Indices: 168960--169371 Score: 598
Period size: 42 Copynumber: 9.8 Consensus size: 42
168950 TCTAAATTTT
* * *
168960 AGGACAGATCCATTGAATATAAGGAGAGACCCTTCAACTTTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
169002 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
*
169044 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAAATTTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
169086 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
* **
169128 AGGACAGATCCTTTGGATATTAGGAGAGATCCTTTGGA-TATT-
1 AGGACAGATCCTTTGGATATTAGGAGAGA-CCCTTCAACT-TTA
* *
169170 AGGACAGATCCTTGGGATATTAGGAGAGACCCTTCAACTGTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
* **
169212 AGGACAGATCCTTTGGATATTAGGAGAGATCCTTTGGA-TATT-
1 AGGACAGATCCTTTGGATATTAGGAGAGA-CCCTTCAACT-TTA
* *
169254 AGGACAGATCCTTGGGATATTAGGAGAGACCCTTCAACTGTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
*
169296 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTGTA
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
* * *
169338 AGGACAGATCCTTTGGATATCAGGACAGATCCTT
1 AGGACAGATCCTTTGGATATTAGGAGAGACCCTT
169372 GGGATATTAG
Statistics
Matches: 335, Mismatches: 27, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
41 12 0.04
42 310 0.93
43 13 0.04
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGGACAGATCCTTTGGATATTAGGAGAGACCCTTCAACTTTA
Found at i:169424 original size:42 final size:42
Alignment explanation
Indices: 169359--169459 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
169349 TTTGGATATC
* * *
169359 AGGACAGATCCTTGGGATATTAGGAGAGACCCT-TCAACTGTA
1 AGGACAGATCCTTTGAATATTAGGACAGACCCTCTCAAC-GTA
* * * *
169401 AGGACAGATCCTTTGAATGTTAGGTCAGACCCTCTGAACGTT
1 AGGACAGATCCTTTGAATATTAGGACAGACCCTCTCAACGTA
* *
169443 AGAACAGACCCTTTGAA
1 AGGACAGATCCTTTGAA
169460 CGACGCATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 45 0.92
43 4 0.08
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (42 bp):
AGGACAGATCCTTTGAATATTAGGACAGACCCTCTCAACGTA
Found at i:169452 original size:63 final size:63
Alignment explanation
Indices: 169070--169455 Score: 201
Period size: 63 Copynumber: 6.1 Consensus size: 63
169060 ATATTAGGAG
* * * * * * * *
169070 AGACCCTTCAAATTTAAGGACAGATCCTTTGGATATTAGGAGAGACCCTT-CAACTTTAAGGAC
1 AGACCCTTCAACTGTAAGGACAGATCCTTTGAATATCAGGACAGACCCTTGGAACATT-AGAAC
* ** * * * * * * * * * *
169133 AGATCCTTTGGA-TATTAGGAGAGATCCTTTGGATATTAGGACAGATCCTTGGGATATTAGGAG
1 AGA-CCCTTCAACTGTAAGGACAGATCCTTTGAATATCAGGACAGACCCTTGGAACATTAGAAC
* * * * * *
169196 AGACCCTTCAACTGTAAGGACAGATCCTTTGGATATTAGGAGAGATCCTTTGG-ATATTAGGAC
1 AGACCCTTCAACTGTAAGGACAGATCCTTTGAATATCAGGACAGA-CCCTTGGAACATTAGAAC
* ** * * * * * * * * * *
169259 AGATCCTTGGGA-TATTAGGAGAGA-CCCTTCAACTGTAAGGACAGATCCTTTGG-ATATTAGGA
1 AGACCCTT-CAACTGTAAGGACAGATCCTTTGAA-TATCAGGACAGA-CCCTTGGAACATTAGAA
*
169321 G
63 C
* * * * * *
169322 AGACCCTTCAACTGTAAGGACAGATCCTTTGGATATCAGGACAGATCCTTGGGATATTAGGAG
1 AGACCCTTCAACTGTAAGGACAGATCCTTTGAATATCAGGACAGACCCTTGGAACATTAGAAC
* * * *
169385 AGACCCTTCAACTGTAAGGACAGATCCTTTGAATGTTAGGTCAGACCCTCT-GAACGTTAGAAC
1 AGACCCTTCAACTGTAAGGACAGATCCTTTGAATATCAGGACAGACCCT-TGGAACATTAGAAC
169448 AGACCCTT
1 AGACCCTT
169456 TGAACGACGC
Statistics
Matches: 254, Mismatches: 59, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
62 16 0.06
63 218 0.86
64 20 0.08
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (63 bp):
AGACCCTTCAACTGTAAGGACAGATCCTTTGAATATCAGGACAGACCCTTGGAACATTAGAAC
Found at i:172349 original size:2 final size:2
Alignment explanation
Indices: 172342--172397 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
172332 NNNNNNNNNN
172342 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
172384 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
172398 GAGACTGATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:176366 original size:18 final size:18
Alignment explanation
Indices: 176295--176366 Score: 126
Period size: 18 Copynumber: 4.0 Consensus size: 18
176285 AAAGAAGCAA
*
176295 CCTACTCCTCACAAACAA
1 CCTACTCCTCACAAACAG
176313 CCTACTCCTCACAAACAG
1 CCTACTCCTCACAAACAG
*
176331 CCTACTCCTCAAAAACAG
1 CCTACTCCTCACAAACAG
176349 CCTACTCCTCACAAACAG
1 CCTACTCCTCACAAACAG
176367 TCCAATTCTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.36, C:0.43, G:0.04, T:0.17
Consensus pattern (18 bp):
CCTACTCCTCACAAACAG
Found at i:177996 original size:19 final size:19
Alignment explanation
Indices: 177974--178013 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
177964 TTTCGGATGC
* *
177974 TGGAGGAGGTTAAGGTTTT
1 TGGAGCAGGTTAAAGTTTT
177993 TGGAGCAGGTTAAAGTTTT
1 TGGAGCAGGTTAAAGTTTT
178012 TG
1 TG
178014 TTGCGGGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.38, T:0.38
Consensus pattern (19 bp):
TGGAGCAGGTTAAAGTTTT
Found at i:178004 original size:177 final size:175
Alignment explanation
Indices: 177695--178656 Score: 1336
Period size: 177 Copynumber: 5.4 Consensus size: 175
177685 TCTAACCTAT
* * * * * *
177695 TACTTGTCCTATCTTCACCAAACTTGCATGGATGGTGTGCCTTATGATACTGATGCACCAGACAG
1 TACTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
* * * * * *
177760 GCTTGAGTGCTGAATCTGAGCTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTGTTGGACCAGG
66 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG
*
177825 TTAAAGTTTTTGTTGCAGGTGCCCTTTGATAGCAGTATCTTAGTTAC
131 TTAAAGTTTTTGTTGCAGGTGCCCTCTGAT-G-AGTATCTTAGTTAC
* * * * *
177872 TGCTGGT-CTGTACTTCACCAAACTTGCATGGATGGTGTGCCTTATGATACTGATGCACCAGACA
1 TACTGGTCCT-AACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACA
* * * * *
177936 GGCTTGAGTGCTGAATCTGAGCTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAG
65 AGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTG
* * *
178001 GTTAAAGTTTTTGTTGCGGGTGCCCAT-TGATAGCAATATCTAAGTTAC
130 GTTAAAGTTTTTGTTGCAGGTGCCC-TCTGAT-G-AGTATCTTAGTTAC
* * * * *
178049 TACTGGTCCTAACTTCACCAAATTTGTATGGGTGATGCGTCATATGATACTGATGCACCTGACAA
1 TACTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
*
178114 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGG
66 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG
*
178179 TTAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTAATCTTAGTTAC
131 TTAAAGTTTTTGTTGCAGGTGCCCTCTGATGAGT-ATCTTAGTTAC
*
178225 TACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
1 TACTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
*
178290 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGG
66 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG
*
178355 TT-AAGTTTTTGTTGCAGGTGCCCTCTGATGATGATATCTTAGTTAT
131 TTAAAGTTTTTGTTGCAGGTGCCCTCTGATGA-G-TATCTTAGTTAC
*
178401 TACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
1 TACTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
*
178466 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGG
66 GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG
*** *
178531 TTAGATAAAGTTTTTGAAACAGGTGCCCTCTGATGATGATATCTTAGTTAT
131 -T---TAAAGTTTTTGTTGCAGGTGCCCTCTGATGA-G-TATCTTAGTTAC
* * * * * *
178582 TACTAGTCCTTACTTCACCAGACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAG
1 TACTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
178647 GCTTGAATGC
66 GCTTGAATGC
178657 ATAGTCTGGT
Statistics
Matches: 727, Mismatches: 46, Indels: 20
0.92 0.06 0.03
Matches are distributed among these distances:
175 31 0.04
176 280 0.39
177 303 0.42
178 3 0.00
180 1 0.00
181 109 0.15
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (175 bp):
TACTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAA
GCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGG
TTAAAGTTTTTGTTGCAGGTGCCCTCTGATGAGTATCTTAGTTAC
Found at i:178496 original size:352 final size:352
Alignment explanation
Indices: 177692--178656 Score: 1391
Period size: 352 Copynumber: 2.7 Consensus size: 352
177682 GTATCTAACC
* * * * * *
177692 TATTACTTGTCCTATCTTCACCAAACTTGCATGGATGGTGTGCCTTATGATACTGATGCACCAGA
1 TATTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGA
* * * * * *
177757 CAGGCTTGAGTGCTGAATCTGAGCTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTGTTGGACC
66 CAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGC
* * * *
177822 AGGTTAAAGTTTTTGTTGCAGGTGCCCTTTGATAGCAGT-ATCTTAGTTACTGCTGGT-CTGTAC
131 TGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGAT-G-ATTAATCTTAGTTACTACTGGTCCT-TAC
* * *
177885 TTCACCAAACTTGCATGGATGGTGTGCCTTATGATACTGATGCACCAGACAGGCTTGAGTGCTGA
193 TTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAATGCTGA
* * *
177950 ATCTGAGCTATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGTTTTTGT
258 ATCTGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGT
*
178015 TGCGGGTGCCCATTGATAGCAATATCTAAGT
323 TGCAGGTGCCCATTGATAG-AATATCTAAGT
* * * * *
178046 TACTACTGGTCCTAACTTCACCAAATTTGTATGGGTGATGCGTCATATGATACTGATGCACCTGA
1 TATTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGA
*
178111 CAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGC
66 CAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGC
*
178176 TGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTAATCTTAGTTACTACTGGTCCTAACTTC
131 TGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTAATCTTAGTTACTACTGGTCCTTACTTC
* * *
178241 ACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGACAAGCTTGAATGCTGAATC
196 ACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAATGCTGAATC
*
178306 TGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGGTT-AAGTTTTTGTTGC
261 TGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGTTGC
*
178370 AGGTGCCC-TCTGAT-GATGATATCTTAGT
326 AGGTGCCCAT-TGATAGA--ATATCTAAGT
178398 TATTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGA
1 TATTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGA
*
178463 CAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGC
66 CAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGC
*** * * *
178528 TGGTTAGATAAAGTTTTTGAAACAGGTGCCCTCTGATGATGATATCTTAGTTATTACTAGTCCTT
131 TGG-T---TAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTA-ATCTTAGTTACTACTGGTCCTT
* *
178593 ACTTCACCAGACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAATGC
191 ACTTCACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAATGC
178657 ATAGTCTGGT
Statistics
Matches: 547, Mismatches: 54, Indels: 17
0.89 0.09 0.03
Matches are distributed among these distances:
350 1 0.00
351 2 0.00
352 161 0.29
353 130 0.24
354 145 0.27
356 30 0.05
357 78 0.14
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (352 bp):
TATTACTGGTCCTAACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGA
CAAGCTTGAATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGC
TGGTTAAAGTTTTTGTTGCAGGTGCCCTCTGATGATTAATCTTAGTTACTACTGGTCCTTACTTC
ACCAAACTTGCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTGAATGCTGAATC
TGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGTTGC
AGGTGCCCATTGATAGAATATCTAAGT
Found at i:179345 original size:20 final size:20
Alignment explanation
Indices: 179322--179364 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
179312 TATGATAAAG
179322 TATTGTATGATATGAAACAA
1 TATTGTATGATATGAAACAA
* *
179342 TATTGTTTGATATGATACAA
1 TATTGTATGATATGAAACAA
179362 TAT
1 TAT
179365 GATATCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (20 bp):
TATTGTATGATATGAAACAA
Found at i:179458 original size:18 final size:18
Alignment explanation
Indices: 179435--179469 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
179425 TTGATATTTT
179435 ATGATA-TGATTATGTATC
1 ATGATATTG-TTATGTATC
179453 ATGATATTGTTATGTAT
1 ATGATATTGTTATGTAT
179470 AGTATTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (18 bp):
ATGATATTGTTATGTATC
Found at i:179642 original size:15 final size:15
Alignment explanation
Indices: 179585--179634 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
179575 GTATCCTATG
179585 ATACAATATTGTATA
1 ATACAATATTGTATA
* * *
179600 TTCTATAATATTGTATC
1 --ATACAATATTGTATA
179617 ATACAATATTGTATA
1 ATACAATATTGTATA
179632 ATA
1 ATA
179635 TGATATTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 15 0.56
17 12 0.44
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (15 bp):
ATACAATATTGTATA
Found at i:179692 original size:15 final size:15
Alignment explanation
Indices: 179674--179798 Score: 101
Period size: 15 Copynumber: 7.8 Consensus size: 15
179664 ATCACATGGA
179674 ATTGTATTATATGAT
1 ATTGTATTATATGAT
*
179689 ATTGTAATATTATATAAT
1 ATTG---TATTATATGAT
*
179707 ATTGTATTATACGAT
1 ATTGTATTATATGAT
*
179722 ATTGTATGATATGAT
1 ATTGTATTATATGAT
179737 ATTGGT-TTATATGAT
1 ATT-GTATTATATGAT
*
179752 A-TGTTATCATATCACATGAA
1 ATTG-TAT--TAT---ATGAT
179772 ATTGTATTATATGAT
1 ATTGTATTATATGAT
*
179787 ATTGTAATATAT
1 ATTGTATTATAT
179799 TTTATTGTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.01
14 2 0.02
15 54 0.61
16 2 0.02
17 3 0.03
18 17 0.19
20 8 0.09
21 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (15 bp):
ATTGTATTATATGAT
Found at i:179701 original size:18 final size:18
Alignment explanation
Indices: 179678--179712 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
179668 CATGGAATTG
*
179678 TATTATATGATATTGTAA
1 TATTATATAATATTGTAA
179696 TATTATATAATATTGTA
1 TATTATATAATATTGTA
179713 TTATACGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
TATTATATAATATTGTAA
Found at i:179713 original size:98 final size:98
Alignment explanation
Indices: 179590--179796 Score: 294
Period size: 98 Copynumber: 2.1 Consensus size: 98
179580 CTATGATACA
*
179590 ATATTGT-ATATTCTATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTCAGA-AA
1 ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTT-AGATAA
*
179653 TATAG-AATAATATCACATGGAATTGTATTATATG
65 TAT-GTAATAATATCACATGAAATTGTATTATATG
* * * * *
179687 ATATTGTAATATTATATAATATTGTATTATACGATATTGTATGATATGATATTGGTTTATATGAT
1 ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTAGATAAT
* *
179752 ATGTTATCATATCACATGAAATTGTATTATATG
66 ATGTAATAATATCACATGAAATTGTATTATATG
179785 ATATTGTAATAT
1 ATATTGTAATAT
179797 ATTTTATTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
97 10 0.10
98 88 0.90
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.45
Consensus pattern (98 bp):
ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTAGATAAT
ATGTAATAATATCACATGAAATTGTATTATATG
Found at i:179806 original size:30 final size:30
Alignment explanation
Indices: 179674--179816 Score: 103
Period size: 30 Copynumber: 4.5 Consensus size: 30
179664 ATCACATGGA
*
179674 ATTGTATTATATGATATTGTAATATTATATAAT
1 ATTGTATTATATGATATTGT-A-A-TATATGAT
*
179707 ATTGTATTATACGATATTGT-ATGATATGAT
1 ATTGTATTATATGATATTGTAAT-ATATGAT
*
179737 ATTGGT-TTATATGATA-TGTTATCATATCACATGAA
1 ATT-GTATTATATGATATTG-TA--ATAT---ATGAT
**
179772 ATTGTATTATATGATATTGTAATATATTTT
1 ATTGTATTATATGATATTGTAATATATGAT
* *
179802 ATTGTGTCATATGAT
1 ATTGTATTATATGAT
179817 GCAATATGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
29 3 0.03
30 35 0.39
31 2 0.02
32 2 0.02
33 25 0.28
34 2 0.02
35 19 0.21
36 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTGTATTATATGATATTGTAATATATGAT
Found at i:180046 original size:13 final size:13
Alignment explanation
Indices: 180028--180052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180018 TGATGTATTA
180028 TGTAATATGATAT
1 TGTAATATGATAT
180041 TGTAATATGATA
1 TGTAATATGATA
180053 CTATATTGTA
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTAATATGATAT
Found at i:181098 original size:20 final size:20
Alignment explanation
Indices: 181073--181125 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
181063 ACATGATTCC
*
181073 TATGATATAATATTGTATGA
1 TATGATATAATATTGTATAA
* *
181093 TATGATATACTATTGTTTAA
1 TATGATATAATATTGTATAA
*
181113 TATGATGTAATAT
1 TATGATATAATAT
181126 CATGTTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (20 bp):
TATGATATAATATTGTATAA
Found at i:181345 original size:16 final size:16
Alignment explanation
Indices: 181324--181361 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
181314 TAGTAATCAC
*
181324 TCTGTCCGTCCGTCCT
1 TCTGTCCGTCCGTCCG
*
181340 TCTGTCGGTCCGTCCG
1 TCTGTCCGTCCGTCCG
181356 TCTGTC
1 TCTGTC
181362 ACTCTTCCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.39, G:0.24, T:0.37
Consensus pattern (16 bp):
TCTGTCCGTCCGTCCG
Found at i:181581 original size:31 final size:31
Alignment explanation
Indices: 181541--181607 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
181531 ACTATGCATA
181541 AGAA-GAATGGGCAAAGAGAGATAACTGCTG
1 AGAATGAATGGGCAAAGAGAGATAACTGCTG
181571 AGAATGAATGGGCAAAGAGAGATAACTGCTG
1 AGAATGAATGGGCAAAGAGAGATAACTGCTG
181602 AGAATG
1 AGAATG
181608 TTACCATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.43, C:0.09, G:0.33, T:0.15
Consensus pattern (31 bp):
AGAATGAATGGGCAAAGAGAGATAACTGCTG
Found at i:182517 original size:50 final size:51
Alignment explanation
Indices: 182463--182581 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 51
182453 ATGATACAAT
* * *
182463 ATTGTAAAATATTATATTGGTTT-CTATAATA-TAGTATAATATCACATGAA
1 ATTGTATAATATAATATTGGTTTAATATAATATTAGT-TAATATCACATGAA
* * * *
182513 ATTGTATAATATGATATT-GTTTAATATGATATTGGTTTATATCACATGAA
1 ATTGTATAATATAATATTGGTTTAATATAATATTAGTTAATATCACATGAA
182563 ATTGTATAATATAATATTG
1 ATTGTATAATATAATATTG
182582 AAATTTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
49 4 0.07
50 52 0.88
51 3 0.05
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (51 bp):
ATTGTATAATATAATATTGGTTTAATATAATATTAGTTAATATCACATGAA
Found at i:182554 original size:15 final size:15
Alignment explanation
Indices: 182508--182551 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
182498 ATAATATCAC
* *
182508 ATGAAATTGTATAAT
1 ATGATATTGTTTAAT
182523 ATGATATTGTTTAAT
1 ATGATATTGTTTAAT
182538 ATGATATTGGTTTA
1 ATGATATT-GTTTA
182552 TATCACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (15 bp):
ATGATATTGTTTAAT
Found at i:182752 original size:15 final size:15
Alignment explanation
Indices: 182732--182763 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
182722 ATGCATCAAA
182732 ATACAATAAAGTATC
1 ATACAATAAAGTATC
*
182747 ATACAATACAGTATC
1 ATACAATAAAGTATC
182762 AT
1 AT
182764 TCTATATTAT
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:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (15 bp):
ATACAATAAAGTATC
Found at i:182852 original size:20 final size:20
Alignment explanation
Indices: 182822--182877 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
182812 ATGTACATTG
*
182822 TAATATGATATTGCATCATA
1 TAATATGATATTGCATAATA
*
182842 TAATACT-ATATTGTATAATA
1 TAATA-TGATATTGCATAATA
*
182862 TATTATGATATTGCAT
1 TAATATGATATTGCAT
182878 GATGTGATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (20 bp):
TAATATGATATTGCATAATA
Found at i:193730 original size:36 final size:37
Alignment explanation
Indices: 193658--193731 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
193648 ATAAGTCGGA
*
193658 ATGTTAATCCCCCCGCTGCAGTGTGCAGTAATCTGTT
1 ATGTTAATCCCCCCGCTGCAGTGTGCAGTAAGCTGTT
*
193695 ATGTTAAT-CCCCCGCTGCAGTGTGCAGTAGGCTGTT
1 ATGTTAATCCCCCCGCTGCAGTGTGCAGTAAGCTGTT
193731 A
1 A
193732 AGCAGTCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 27 0.77
37 8 0.23
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (37 bp):
ATGTTAATCCCCCCGCTGCAGTGTGCAGTAAGCTGTT
Found at i:194695 original size:1 final size:1
Alignment explanation
Indices: 194689--194713 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
194679 AACAGAGAAC
194689 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
194714 NAGTTTACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:194893 original size:80 final size:80
Alignment explanation
Indices: 194804--195046 Score: 405
Period size: 80 Copynumber: 3.0 Consensus size: 80
194794 TTCATCACCT
194804 TTGTAAGGAGTTTATAAGTACAACTGTTACCAGAATGTATAGTTTATTTTTACCATACCTTAAAC
1 TTGTAAGGAGTTTATAAGTACAACTGTTACCAGAATGTATAGTTTATTTTTACCATACCTTAAAC
194869 TGTAAATTAGCATAA
66 TGTAAATTAGCATAA
**
194884 TTGTAAGGAGTTTATAAGTACAACTGTTACCAGAATGTATAGTTTATTTTTACCATACCCCAAAC
1 TTGTAAGGAGTTTATAAGTACAACTGTTACCAGAATGTATAGTTTATTTTTACCATACCTTAAAC
194949 TGTAAATTAGCATAA
66 TGTAAATTAGCATAA
* * * * *
194964 TTGTAAGGAGTTTATAAATACAACTGTTATACCAGAATGTATAGTTTATTCTAATCATATCTTAA
1 TTGTAAGGAGTTTATAAGTACAACTG-T-TACCAGAATGTATAGTTTATTTTTACCATACCTTAA
195029 ACTGTAAATTAGCATAA
64 ACTGTAAATTAGCATAA
195046 T
1 T
195047 CTCTATAAAT
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 103 0.68
81 1 0.01
82 48 0.32
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (80 bp):
TTGTAAGGAGTTTATAAGTACAACTGTTACCAGAATGTATAGTTTATTTTTACCATACCTTAAAC
TGTAAATTAGCATAA
Found at i:199282 original size:16 final size:18
Alignment explanation
Indices: 199263--199295 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
199253 AAAATTAATG
199263 TAAA-TTAATG-TATCAT
1 TAAATTTAATGTTATCAT
199279 TAAATTTAATGTTATCA
1 TAAATTTAATGTTATCA
199296 ACTACATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (18 bp):
TAAATTTAATGTTATCAT
Found at i:204188 original size:31 final size:31
Alignment explanation
Indices: 204153--204326 Score: 177
Period size: 31 Copynumber: 5.1 Consensus size: 31
204143 GTGTACACAG
*
204153 GTACATAACAATAAGTCTTACCCCCAGGTGT
1 GTACATAACAGTAAGTCTTACCCCCAGGTGT
204184 GTACATAACAGTAAGTCTTACCCCCAGGTGT
1 GTACATAACAGTAAGTCTTACCCCCAGGTGT
*
204215 GTAAACAGGTACATTACGGTAAGTCTTACCCCCAGGTGTGT
1 GT--ACA--T--A--ACAGTAAGTCTTACCCCCA-G-GTGT
204256 ACACAGGTACATAACAGTAAGTCTTACCCCCAGGTGT
1 ------GTACATAACAGTAAGTCTTACCCCCAGGTGT
*
204293 GTATATAACAGTAAGTCTTACCCCCAGGTGT
1 GTACATAACAGTAAGTCTTACCCCCAGGTGT
204324 GTA
1 GTA
204327 AACAGGTACA
Statistics
Matches: 123, Mismatches: 4, Indels: 32
0.77 0.03 0.20
Matches are distributed among these distances:
31 65 0.53
33 3 0.02
35 1 0.01
37 5 0.04
38 1 0.01
39 36 0.29
40 1 0.01
41 5 0.04
43 1 0.01
45 3 0.02
47 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (31 bp):
GTACATAACAGTAAGTCTTACCCCCAGGTGT
Found at i:204188 original size:39 final size:39
Alignment explanation
Indices: 204142--204493 Score: 337
Period size: 39 Copynumber: 9.4 Consensus size: 39
204132 TTACCCCTGA
*
204142 TGTGTACACAGGTACATAACAATAAGTCTTACCCCCA-G
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
204180 -GTGT------GTACATAACAGTAAGTCTTACCCCCAGG
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
* * *
204212 TGTGTAAACAGGTACATTACGGTAAGTCTTACCCCCAGG
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
204251 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
204290 TGTGT----A--T--ATAACAGTAAGTCTTACCCCCAGG
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
* *
204321 TGTGTAAACAGGTACATAACGGTAAGTCTTACCCCCAGG
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
* * * *
204360 TGTGTAAACAGGTACAAAACAGTAAAAGACTTA-CCCCAGA
1 TGTGTACACAGGTACATAACAGT--AAGTCTTACCCCCAGG
* * * * * * * *
204400 TATGTACATAGGAACAAAAAAGTAAAATTTTTA-CACCAGG
1 TGTGTACACAGGTACATAACAGT--AAGTCTTACCCCCAGG
* *
204440 TGTGTGCACAGGTACATAACAGTAAGTCTTA-CCACAGG
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
204478 TGTGTCTACACAGGTA
1 TGTG--TACACAGGTA
204494 GATCATAGAA
Statistics
Matches: 262, Mismatches: 32, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
31 54 0.21
32 1 0.00
33 5 0.02
35 2 0.01
37 5 0.02
38 15 0.06
39 111 0.42
40 62 0.24
41 7 0.03
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (39 bp):
TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGG
Found at i:204243 original size:70 final size:73
Alignment explanation
Indices: 204142--204384 Score: 265
Period size: 70 Copynumber: 3.3 Consensus size: 73
204132 TTACCCCTGA
* *
204142 TGTGTACACAGGTACATAACAATAAGTCTTACCCCCA-G-GTGT-GTACATAACAGTAAGTCTTA
1 TGTGTAAACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGTAGTACATAACAGTAAGTCTTA
204204 CCCCCAGG
66 CCCCCAGG
* *
204212 TGTGTAAACAGGTACATTACGGTAAGTCTTACCCCCAGGTGTGTACACAGGTACATAACAGTAAG
1 TGTGTAAACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGT----A-GTACATAACAGTAAG
204277 TCTTACCCCCAGG
61 TCTTACCCCCAGG
*
204290 TGTGT----A--T--ATAACAGTAAGTCTTACCCCCAGGTGTGTAAACAGGTACATAACGGTAAG
1 TGTGTAAACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGT----A-GTACATAACAGTAAG
204347 TCTTACCCCCAGG
61 TCTTACCCCCAGG
*
204360 TGTGTAAACAGGTACAAAACAGTAA
1 TGTGTAAACAGGTACATAACAGTAA
204385 AAGACTTACC
Statistics
Matches: 148, Mismatches: 9, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
70 97 0.66
71 1 0.01
72 5 0.03
74 2 0.01
76 1 0.01
78 42 0.28
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (73 bp):
TGTGTAAACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGTAGTACATAACAGTAAGTCTTA
CCCCCAGG
Found at i:204278 original size:109 final size:109
Alignment explanation
Indices: 204142--204384 Score: 441
Period size: 109 Copynumber: 2.2 Consensus size: 109
204132 TTACCCCTGA
*
204142 TGTGTACACAGGTACATAACAATAAGTCTTACCCCCAGGTGTGTACATAACAGTAAGTCTTACCC
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGTACATAACAGTAAGTCTTACCC
*
204207 CCAGGTGTGTAAACAGGTACATTACGGTAAGTCTTACCCCCAGG
66 CCAGGTGTGTAAACAGGTACATAACGGTAAGTCTTACCCCCAGG
*
204251 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGTATATAACAGTAAGTCTTACCC
1 TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGTACATAACAGTAAGTCTTACCC
204316 CCAGGTGTGTAAACAGGTACATAACGGTAAGTCTTACCCCCAGG
66 CCAGGTGTGTAAACAGGTACATAACGGTAAGTCTTACCCCCAGG
* *
204360 TGTGTAAACAGGTACAAAACAGTAA
1 TGTGTACACAGGTACATAACAGTAA
204385 AAGACTTACC
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 129 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (109 bp):
TGTGTACACAGGTACATAACAGTAAGTCTTACCCCCAGGTGTGTACATAACAGTAAGTCTTACCC
CCAGGTGTGTAAACAGGTACATAACGGTAAGTCTTACCCCCAGG
Done.