Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4020056
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 21
Found at i:682193 original size:22 final size:22
Alignment explanation
Indices: 682177--682219 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
682167 AATTTATTAG
*
682177 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
682199 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
682220 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:682412 original size:31 final size:31
Alignment explanation
Indices: 682377--682435 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
682367 AGTTGTATGG
* *
682377 ATTATTTAAATTTCAATATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
*
682408 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
682436 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:684680 original size:2 final size:2
Alignment explanation
Indices: 684673--684702 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
684663 AGCCATTATC
*
684673 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
684703 TATCCACGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:685256 original size:18 final size:18
Alignment explanation
Indices: 685219--685260 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
685209 ATTAATTGTG
***
685219 TAAATTAATAATTCTTTT
1 TAAATTAATAATTAGATT
685237 TAAATTAATAATTAGATT
1 TAAATTAATAATTAGATT
685255 TAAATT
1 TAAATT
685261 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAAATTAATAATTAGATT
Found at i:688295 original size:25 final size:25
Alignment explanation
Indices: 688254--688312 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
688244 CTTTTTTTCA
688254 TTTT-CTCTCTTTG-TTTTTCTCTCT
1 TTTTCCTCTCTTTGTTTTTTC-CTCT
* * *
688278 TTTTCCTCTTTTTTTTTTTTCCTTT
1 TTTTCCTCTCTTTGTTTTTTCCTCT
688303 TTTTCCTCTC
1 TTTTCCTCTC
688313 CAAACCCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 19 0.66
26 6 0.21
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTCCTCTCTTTGTTTTTTCCTCT
Found at i:688296 original size:16 final size:15
Alignment explanation
Indices: 688277--688306 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
688267 TTTTTCTCTC
688277 TTTTTCCTCTTTTTTT
1 TTTTTCCT-TTTTTTT
688293 TTTTTCCTTTTTTT
1 TTTTTCCTTTTTTT
688307 CCTCTCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCCTTTTTTTT
Found at i:688302 original size:23 final size:23
Alignment explanation
Indices: 688245--688304 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
688235 CTTCTTCTTC
*
688245 TTTTTTT-CATTTTCTCTCTTTG
1 TTTTTTTCCTTTTTCTCTCTTTG
* *
688267 TTTTTCTCTCTTTTTC-CTCTTTTT
1 TTTTTTTC-CTTTTTCTCTC-TTTG
688291 TTTTTTTCCTTTTT
1 TTTTTTTCCTTTTT
688305 TTCCTCTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 6 0.19
23 9 0.29
24 16 0.52
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTTTTCCTTTTTCTCTCTTTG
Found at i:689327 original size:133 final size:134
Alignment explanation
Indices: 689007--689437 Score: 500
Period size: 133 Copynumber: 3.2 Consensus size: 134
688997 AGGGATTTGC
* * * ***
689007 TCCACTGTTTCTTCAGGGTAGATT-AGATCAAGG-TAGACTTGTTCCACTGTTACTCAAAAAATA
1 TCCACTGTTACTTCAGGGAAGATTGA-ATCGAGGCT-GACTTGTTCCACTGTTACTCAGGGAATA
* * * * * * * *
689070 TCAAATCTTGAAAGAAAGGGATTTGTTCCGCTTCTGCTTCAGGGAAAATTATATCTGGGGACGTT
64 TCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATCAAATCT-GGGAAGTT
689135 GATTCAT
128 GATTCAT
* * * * *
689142 TCCACTGTCACTT-AAGGAAGATTGAATCGAGGCAGACTTATTCCACTATTACTCAGGGAATATC
1 TCCACTGTTACTTCAGGGAAGATTGAATCGAGGCTGACTTGTTCCACTGTTACTCAGGGAATATC
* * *
689206 AAATCTTGAAAGAGATGGATATGTTTCGCTTCTTCCTGAGGGAAAATCAGATCTGGGAAGTTGAT
66 AAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATCAAATCTGGGAAGTTGAT
689271 TCAT
131 TCAT
689275 TCCACTGTTAC-TCAGGGAAGATTGAATCGAGGCTGACTTGTTCCACTGTTACTCAGGGAATATC
1 TCCACTGTTACTTCAGGGAAGATTGAATCGAGGCTGACTTGTTCCACTGTTACTCAGGGAATATC
* ** * * *
689339 AAATCTTGAAATAGAGGGACCT-ATTC-CTTTTTTCTTGAGGGAAAATCAAATATGGTGACA-TT
66 AAATCTTGAAAGAGAGGGATATGTTTCGC-TTCTTCTTGAGGGAAAATCAAATCTGG-GA-AGTT
689401 GATTCAT
128 GATTCAT
689408 TCCACTGTT-CTTCAGGGAAGATTGAATCGA
1 TCCACTGTTACTTCAGGGAAGATTGAATCGA
689438 AGCAGACTCA
Statistics
Matches: 254, Mismatches: 35, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
131 1 0.00
132 28 0.11
133 128 0.50
134 85 0.33
135 12 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (134 bp):
TCCACTGTTACTTCAGGGAAGATTGAATCGAGGCTGACTTGTTCCACTGTTACTCAGGGAATATC
AAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTTGAGGGAAAATCAAATCTGGGAAGTTGAT
TCAT
Found at i:690389 original size:233 final size:231
Alignment explanation
Indices: 689643--691018 Score: 1638
Period size: 233 Copynumber: 6.0 Consensus size: 231
689633 TTCGGGAAAT
* * * * *
689643 CATGCGAAAACATCATGCCCGAAGGACTTATTGATGGCCCGAAGGACTTATCATCTTACTCGAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* * * * ** *
689708 GGCTTATAGATG-CCCTGAAGGATTTAGGCATCATG-TTCGAAAGACTTACAGATGAACCGAATG
66 GACTTACAGATGACCC-GAAGGATTTAAGCATCATGCTT-GAAAGACTTACTGATGGCCCGAAGG
* * * * * *
689771 ACTTACCAATTTTGGAAATAATATACTATGTAAGAAACTTTTCTTGCTTTTCAAAAATTTTAATT
129 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAA-TTTTCTTACTTTT-AAAAAATTTCATT
* * ** *
689836 TTCAGATTT-AATGATAAACTGTTCTCATTTTTCAAGAAA
192 TTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * * * *
689875 CATGTGAAAACATCCTGCCTGAAGGTCTTGTGGATGGTCCGAAGGACTTATCATCTTTCTCTAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
** * * * *
689940 GGTTTATAGATGACCCAAAGGATTTAATCATCATGCTTGAAAGACTTACTGATGGCCCGAATGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGGCCCGAAGGAC
* *
690005 TTACCAACTTTT-GCAATAGTTTACTAGGTAAGAAATTTTTCTTACTTTTCAAAAATTTCA----
131 TTACCAA-TTTTGGAAATAGTTTACTAGGTAAGAAA-TTTTCTTACTTTTAAAAAATTTCATTTT
* ** * * * *
690065 -A-ATTTATATGAGAATTTTTTCTCAGTTTTCGAGGGT
194 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* ** * * **
690101 CATGTGAAAACATCCTTCCTTAAGGTATAATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* * * *
690166 GACTTACAGATAACCCGAAGGATTTAAGCATTATGATTGAAAGACTTACTGATTGGCCCGAAGAA
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGA-TGGCCCGAAGGA
* * *
690231 CTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAATTTTTTTACTTTTAAAAAATTTCAACTTT
130 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAATTTTCTTACTTTTAAAAAATTTC-ATTTT
*
690296 CAGATTTAAATGAGAAAATTTTCTCATTTTTTGAGAGA
194 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * * *
690334 CATGTGAAAATATCCTGCCCGGAGGTCTTATGGATGGCTC-AGAGGACTTATCATCTGGCTCGAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGA-AGGACTTATCATCTTGCTCGAA
* ** * *
690398 AGACTTACACG-TGACCCAAAGGATTTAAGCATCATGCTCAAAAGACTTACTGGTTGCCCGAAGG
65 AGACTTACA-GATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGGCCCGAAGG
* *
690462 ACTTACCAATTTTAGAAATAGTTTACTAGGTAAGAAA----C-TACTTTTCAAAAATTTCAATTT
129 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAATTTTCTTACTTTTAAAAAATTTC-ATTT
* *
690522 TTAGATTTAAATGAGAAACTTTTCTCA-TTTTTCA-AGA
193 TCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * *
690559 CATGTGAAAACAACATGCCCGAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* *
690624 GACTTACAGATGACCCGAAGGATTTAAACATCATGCTAGAAAGACTTACTGATGGCCCGAAGGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGGCCCGAAGGAC
* * * * *
690689 TTACCAATTTTAGAAACAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAACAATTTTCGTTTT
131 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAA-TTTTCTTACTTTT-AAAAAATTTCATTTT
*
690754 CAGATTTAAATGAGAAACCTTTCTCATTTTTTGAGAGA
194 CAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
* * * *
690792 CATGTGAAAACATCTTGCACAAAGGTCTTATGGATGGACCGAAGGACTTATCATCTTGCTCGAAA
1 CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
* * *
690857 AACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGAC
66 GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGGCCCGAAGGAC
* *
690922 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAATTTTCTTACTTTTCAACAATTTTCATTTT
131 TTACCAATTTTGGAAATAGTTTACTAGGTAAG-AAATTTTCTTACTTTT-AAAAAATTTCATTTT
* * *
690987 TAGATTTAAATGAGAAAGTTTTCTTATTTTTT
194 CAGATTTAAATGAGAAACTTTTCTCATTTTTT
691019 AACTTATAAA
Statistics
Matches: 988, Mismatches: 129, Indels: 53
0.84 0.11 0.05
Matches are distributed among these distances:
224 1 0.00
225 156 0.16
226 152 0.15
227 86 0.09
230 1 0.00
231 43 0.04
232 204 0.21
233 341 0.35
234 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (231 bp):
CATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
GACTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGGCCCGAAGGAC
TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAATTTTCTTACTTTTAAAAAATTTCATTTTCA
GATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGA
Found at i:690785 original size:458 final size:458
Alignment explanation
Indices: 689622--691017 Score: 1695
Period size: 458 Copynumber: 3.0 Consensus size: 458
689612 TTGGAAATTG
* * * * * *
689622 TTTTCTTATTTTTCGGGAAATCATGCGAAAACATCATGCCCGAAGGACTTATTGATGGCCCGAAG
1 TTTTCTCATTTTTCGAGAGA-CATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAG
* * * * * *
689687 GACTTATCATCTTACTCGAAAGGCTTATAGATG-CCCTGAAGGATTTAGGCATCATGTTCGAAAG
65 GACTTATCATCTTGCTCGAAAGACTTACAGATGACCC-GAAGGATTTAAGCATCATGATAGAAAG
* ** * * * *
689751 ACTTACAGATGAACCGAATGACTTACCAATTTTGGAAATAATATACTATGTAAGAAACTTTTCTT
129 ACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTT
* * * ** *
689816 GCTTTTCAAAAATTTTAATTTTCAGATTT-AATGATAAACTGTTCTCATTTTTCAAGAAACATGT
194 ACTTTTCAAAAATTTTCATTTTCAGATTTAAATGAGAAACT-TTCTCATTTTTTGAGAGACATGT
* * * * **
689880 GAAAACATCCTGCCTGAAGGTCTTGTGGATGG-TCCGAAGGACTTATCATCTTTCTCTAAAGGTT
258 GAAAACATCCTGCCCGAAGGTCTTATGGATGGCT-CGAAGGACTTATCATCTTGCTCGAAAGACT
* * * *
689944 TATAGATGACCCAAAGGATTTAATCATCATGCTTGAAAGACTTACTGATGGCCCGAATGACTTAC
322 TACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* ** * * * *
690009 CAACTTTTGCAATAGTTTACTAGGTAAGAAA-T--TTTTCTTACTTTTCAAAAATTTCAAATTTA
387 CAA-TTTTGAAATAGTTTACTAGGTAAGAAACTACTTTTCAAAATTTTC--AATTTTTAGATTTA
* **
690071 TATGAGAATT
449 AATGAGAAAC
* * * * * ** * *
690081 TTTTCTCAGTTTTCGAGGGTCATGTGAAAACATCCTTCCTTAAGGTATAATGGATGGCCCGAAGG
1 TTTTCTCATTTTTCGAGAGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGG
** * * *
690146 ACTTATCATCTTGCTTAAAAGACTTACAGATAACCCGAAGGATTTAAGCATTATGATTGAAAGAC
66 ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGATAGAAAGAC
* * *
690211 TTACTGATTGGCCCGAAGAACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAA-TTTTTTTA
131 TTACTGA-TGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTA
* * *
690275 CTTTT-AAAAAATTTCAACTTTCAGATTTAAATGAGAAAATTTTCTCATTTTTTGAGAGACATGT
195 CTTTTCAAAAATTTTC-ATTTTCAGATTTAAATGAG-AAACTTTCTCATTTTTTGAGAGACATGT
* * *
690339 GAAAATATCCTGCCCGGAGGTCTTATGGATGGCTC-AGAGGACTTATCATCTGGCTCGAAAGACT
258 GAAAACATCCTGCCCGAAGGTCTTATGGATGGCTCGA-AGGACTTATCATCTTGCTCGAAAGACT
* * *
690403 TACACG-TGACCCAAAGGATTTAAGCATCATGCTCAAAAGACTTACTGGTTGCCCGAAGGACTTA
322 TACA-GATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
*
690467 CCAATTTTAGAAATAGTTTACTAGGTAAGAAACTACTTTTCAAAAATTTCAATTTTTAGATTTAA
386 CCAATTTT-GAAATAGTTTACTAGGTAAGAAACTACTTTTCAAAATTTTCAATTTTTAGATTTAA
690532 ATGAGAAAC
450 ATGAGAAAC
* *
690541 TTTTCTCATTTTTC-A-AGACATGTGAAAACAACATGCCCGAAGGTCTTATGGATGGCTCGAAGG
1 TTTTCTCATTTTTCGAGAGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGG
* *
690604 ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAACATCATGCTAGAAAGAC
66 ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGATAGAAAGAC
* *
690669 TTACTGATGGCCCGAAGGACTTACCAATTTTAGAAACAGTTTACTAGGTAAGAAACTTTTCTTAC
131 TTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
* *
690734 TTTTCAACAATTTTCGTTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTTGAGAGACATGTGA
196 TTTTCAAAAATTTTCATTTTCAGATTTAAATGAGAAA-CTTTCTCATTTTTTGAGAGACATGTGA
* * * *
690799 AAACATCTTGCACAAAGGTCTTATGGATGGAC-CGAAGGACTTATCATCTTGCTCGAAAAACTTA
260 AAACATCCTGCCCGAAGGTCTTATGGATGG-CTCGAAGGACTTATCATCTTGCTCGAAAGACTTA
* *
690863 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACCA
324 CAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
690928 ATTTTGGAAATAGTTTACTAGGTAAGAAAATTTTCTTACTTTTCAACAATTTTC-ATTTTTAGAT
389 ATTTT-GAAATAGTTTACTAGGTAAG-AAA----C-TACTTTTCAA-AATTTTCAATTTTTAGAT
*
690992 TTAAATGAGAAAG
446 TTAAATGAGAAAC
*
691005 TTTTCTTATTTTT
1 TTTTCTCATTTTT
691018 TAACTTATAA
Statistics
Matches: 797, Mismatches: 115, Indels: 45
0.83 0.12 0.05
Matches are distributed among these distances:
457 56 0.07
458 414 0.52
459 228 0.29
460 38 0.05
462 10 0.01
463 1 0.00
464 44 0.06
465 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (458 bp):
TTTTCTCATTTTTCGAGAGACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGG
ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGATAGAAAGAC
TTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTAC
TTTTCAAAAATTTTCATTTTCAGATTTAAATGAGAAACTTTCTCATTTTTTGAGAGACATGTGAA
AACATCCTGCCCGAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACA
GATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
TTTGAAATAGTTTACTAGGTAAGAAACTACTTTTCAAAATTTTCAATTTTTAGATTTAAATGAGA
AAC
Found at i:690897 original size:42 final size:41
Alignment explanation
Indices: 690830--690924 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
690820 TATGGATGGA
* *
690830 CCGAAGGACTTATCATCTTGCTCGAAAAACTTACAGATGAC
1 CCGAAGGACTTAGCATCATGCTCGAAAAACTTACAGATGAC
* * ** *
690871 CCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGC
1 CCGAAGGACTT-AGCATCATGCTCGAAAAACTTACAGATGAC
690913 CCGAAGGACTTA
1 CCGAAGGACTTA
690925 CCAATTTTGG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 11 0.24
42 34 0.76
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (41 bp):
CCGAAGGACTTAGCATCATGCTCGAAAAACTTACAGATGAC
Found at i:691018 original size:691 final size:687
Alignment explanation
Indices: 689621--691018 Score: 1791
Period size: 691 Copynumber: 2.0 Consensus size: 687
689611 TTTGGAAATT
* * * *
689621 GTTTTCTTATTTTTCGGGAAATCATGCGAAAACATCATGCCCGAAGGACTTATTGATGGCCCGAA
1 GTTTTCTTATTTTTTGAGAAATCATGCGAAAACATCATGCCCGAAGGACTTATGGATGGCCAGAA
* * * * * * *
689686 GGACTTATCATCTTACTCGAAAGGCTTATAGATGCCCTGAAGGATTTAGGCATCATGTTCGAAAG
66 GGACTTATCATCTGACTCGAAAGACTTACAGATGCCCTAAAGGATTTAAGCATCATGCTCAAAAG
* * *
689751 ACTTACAGATGAACCGAATGACTTACCAATTTTGGAAATAATATACTATGTAAGAAACTTTTCTT
131 ACTTACAGATGAACCGAAGGACTTACCAATTTTAGAAATAATATACTAGGTAAGAAA----TCTT
* * *
689816 GCTTTTCAAAAATTTTAATTTTCAGATTTAATGATAAACTGTTCTCATTTTTCAAGAAACATGTG
192 ACTTTTCAAAAATTTCAATTTTCAGATTTAATGAGAAACTGTTCTCATTTTTCAAG-AACATGTG
* * * * * * **
689881 AAAACATCCTGCCTGAAGGTCTTGTGGATGGTCCGAAGGACTTATCATCTTTCTCTAAAGGTTTA
256 AAAACAACATGCCCGAAGGTCTTATGGATGGTCCGAAGGACTTATCATCTTGCTCGAAAGACTTA
* * * *
689946 TAGATGACCCAAAGGATTTAATCATCATGCTTGAAAGACTTACTGATGGCCCGAATGACTTACCA
321 CAGATGACCCAAAGGATTTAAACATCATGCTAGAAAGACTTACTGATGGCCCGAAGGACTTACCA
* * * *
690011 ACTTTTGCAATAGTTTACTAGGTAAGAAATTTTTCTTACTTTTCAAAAATTTCAAATTTATATGA
386 ACTTTTGAAACAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAAATTTAAATGA
*** * * * *
690076 GAATTTTTTCTCAGTTTTCGAGGGTCATGTGAAAACATCCTTCCTTAAGGTATAATGGATGGCCC
451 GAAACCTTTCTCAGTTTTCGAGAGACATGTGAAAACATCCTTCCTAAAGGTATAATGGATGGACC
* * *
690141 GAAGGACTTATCATCTTGCTTAAAAGACTTACAGATAACCCGAAGGATTTAAGCATTATGATTGA
516 GAAGGACTTATCATCTTGCTGAAAAGACTTACAGATAACCCGAAGGATTTAAGCATCATGATCGA
690206 AAGACTTACTGATTGGCCCGAAGAACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAATTTT
581 AAGACTTACTGATTGGCCCGAAGAACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAATTTT
*
690271 TTTACTTTTAAAAAATTTCAACTTTCAGATTTAAATGAGAAA
646 CTTACTTTTAAAAAATTTCAACTTTCAGATTTAAATGAGAAA
* * * * * * * *
690313 ATTTTCTCATTTTTTGAGAGA-CATGTGAAAATATCCTGCCCGGAGGTCTTATGGATGGCTCAG-
1 GTTTTCTTATTTTTTGAGAAATCATGCGAAAACATCATGCCCGAAGGACTTATGGATGGC-CAGA
*
690376 AGGACTTATCATCTGGCTCGAAAGACTTACACG-TGACCC-AAAGGATTTAAGCATCATGCTCAA
65 AGGACTTATCATCTGACTCGAAAGACTTACA-GATG-CCCTAAAGGATTTAAGCATCATGCTCAA
* * * * *
690439 AAGACTTACTGGTTG-CCCGAAGGACTTACCAATTTTAGAAATAGTTTACTAGGTAAGAAA-C-T
128 AAGACTTAC-AGATGAACCGAAGGACTTACCAATTTTAGAAATAATATACTAGGTAAGAAATCTT
* *
690501 ACTTTTCAAAAATTTCAATTTTTAGATTTAAATGAGAAACTTTTCTCATTTTTCAAG-ACATGTG
192 ACTTTTCAAAAATTTCAATTTTCAGATTT-AATGAGAAACTGTTCTCATTTTTCAAGAACATGTG
690565 AAAACAACATGCCCGAAGGTCTTATGGATGG-CTCGAAGGACTTATCATCTTGCTCGAAAGACTT
256 AAAACAACATGCCCGAAGGTCTTATGGATGGTC-CGAAGGACTTATCATCTTGCTCGAAAGACTT
*
690629 ACAGATGACCCGAAGGATTTAAACATCATGCTAGAAAGACTTACTGATGGCCCGAAGGACTTACC
320 ACAGATGACCCAAAGGATTTAAACATCATGCTAGAAAGACTTACTGATGGCCCGAAGGACTTACC
* *
690694 AA-TTTTAGAAACAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAACAATTTTCGTTTTCAGA
385 AACTTTT-GAAACAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAA-AA------ATTTCAAA
* * * *
690758 TTTAAATGAGAAACCTTTCTCATTTTTTGAGAGACATGTGAAAACAT-CTTGCAC-AAAGGTCTT
442 TTTAAATGAGAAACCTTTCTCAGTTTTCGAGAGACATGTGAAAACATCCTT-C-CTAAAGGTATA
*
690821 ATGGATGGACCGAAGGACTTATCATCTTGCTCGAAAA-ACTTACAGATGACCCGAAGGATTTAAG
505 ATGGATGGACCGAAGGACTTATCATCTTGCT-GAAAAGACTTACAGATAACCCGAAGGATTTAAG
* * * *
690885 CATCATGCTCGAAAGACTTATTGA-TGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAG
569 CATCATGATCGAAAGACTTACTGATTGGCCCGAAGAACTTACCAACTTTGGAAATAGTTTACTAG
* * * *
690949 GTAAGAAAATTTTCTTACTTTTCAACAATTTTC-ATTTTTAGATTTAAATGAGAAA
634 GTAAG-AAATTTTCTTACTTTT-AAAAAATTTCAACTTTCAGATTTAAATGAGAAA
691004 GTTTTCTTATTTTTT
1 GTTTTCTTATTTTTT
691019 AACTTATAAA
Statistics
Matches: 609, Mismatches: 78, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
683 5 0.01
684 160 0.26
685 29 0.05
686 26 0.04
690 46 0.08
691 305 0.50
692 38 0.06
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (687 bp):
GTTTTCTTATTTTTTGAGAAATCATGCGAAAACATCATGCCCGAAGGACTTATGGATGGCCAGAA
GGACTTATCATCTGACTCGAAAGACTTACAGATGCCCTAAAGGATTTAAGCATCATGCTCAAAAG
ACTTACAGATGAACCGAAGGACTTACCAATTTTAGAAATAATATACTAGGTAAGAAATCTTACTT
TTCAAAAATTTCAATTTTCAGATTTAATGAGAAACTGTTCTCATTTTTCAAGAACATGTGAAAAC
AACATGCCCGAAGGTCTTATGGATGGTCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGAT
GACCCAAAGGATTTAAACATCATGCTAGAAAGACTTACTGATGGCCCGAAGGACTTACCAACTTT
TGAAACAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAAATTTAAATGAGAAAC
CTTTCTCAGTTTTCGAGAGACATGTGAAAACATCCTTCCTAAAGGTATAATGGATGGACCGAAGG
ACTTATCATCTTGCTGAAAAGACTTACAGATAACCCGAAGGATTTAAGCATCATGATCGAAAGAC
TTACTGATTGGCCCGAAGAACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAATTTTCTTAC
TTTTAAAAAATTTCAACTTTCAGATTTAAATGAGAAA
Found at i:692516 original size:2 final size:2
Alignment explanation
Indices: 692511--692545 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
692501 TGTGTTTGTG
692511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
692546 ATCGCCTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:693537 original size:54 final size:54
Alignment explanation
Indices: 693459--693578 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 54
693449 ATAAGTTCTT
* ** * * *
693459 TGGGGTGCACACGTAGTGAAGATACGGTCATTCATAAGCTCATTGTGGATT-TCG
1 TGGGTTGCACACGTAGTGAAGATACAATCATTCATAAACTCATTATGAATTAT-G
* ** * *
693513 TGGGTTGCACACTTAGTGTCGATACAATCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACGTAGTGAAGATACAATCATTCATAAACTCATTATGAATTATG
693567 TGGGTTGCACAC
1 TGGGTTGCACAC
693579 ACAGTTCCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (54 bp):
TGGGTTGCACACGTAGTGAAGATACAATCATTCATAAACTCATTATGAATTATG
Found at i:693601 original size:54 final size:54
Alignment explanation
Indices: 693543--693962 Score: 582
Period size: 54 Copynumber: 7.8 Consensus size: 54
693533 GATACAATCG
* ** *
693543 TTCATAAACTTATTATGAATTATGTGGGTTGCACACACAGTTCCAATACGGAAA
1 TTCATAAACTTATTATGAATTATTTAAGTTGCACACACAGTGCCAATACGGAAA
* * * *
693597 TTCATAAACTTATTATGAATT-TCTTAAGTTGCACACTCAATGCCAACACAGAAA
1 TTCATAAACTTATTATGAATTAT-TTAAGTTGCACACACAGTGCCAATACGGAAA
*
693651 TTCATAAACTTATTATGAATT-TCTTAAGTTGCACACACAGTGCCAAAACGGAAA
1 TTCATAAACTTATTATGAATTAT-TTAAGTTGCACACACAGTGCCAATACGGAAA
* *
693705 TTCATAAACTTATTATGAATT-TATTAAGTTGCACATACAGTGCCAATACAGAAA
1 TTCATAAACTTATTATGAATTAT-TTAAGTTGCACACACAGTGCCAATACGGAAA
* * * *
693759 TTCATGAATTTATTATGAATTTTTTAAGTTGCACACACAATGCCAATACGGAAA
1 TTCATAAACTTATTATGAATTATTTAAGTTGCACACACAGTGCCAATACGGAAA
* *
693813 TTCATAAACTTATTATGAATT-TATTAAGTTACACACACAGTGCCAATACGAAAA
1 TTCATAAACTTATTATGAATTAT-TTAAGTTGCACACACAGTGCCAATACGGAAA
*
693867 TTCATAAACTTAATATGAATT-TCTTAAGTTGCACACACAGTGCCAATACGGAAA
1 TTCATAAACTTATTATGAATTAT-TTAAGTTGCACACACAGTGCCAATACGGAAA
693921 TTCATAAACTTATTATGAATT-TATTAAGTTGCACACACAGTG
1 TTCATAAACTTATTATGAATTAT-TTAAGTTGCACACACAGTG
693963 TCATTCGGTA
Statistics
Matches: 331, Mismatches: 32, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
53 2 0.01
54 328 0.99
55 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (54 bp):
TTCATAAACTTATTATGAATTATTTAAGTTGCACACACAGTGCCAATACGGAAA
Found at i:693655 original size:108 final size:108
Alignment explanation
Indices: 693543--693962 Score: 648
Period size: 108 Copynumber: 3.9 Consensus size: 108
693533 GATACAATCG
* ** *
693543 TTCATAAACTTATTATGAATTAT-GTGGGTTGCACACACAGTTCCAATACGGAAATTCATAAACT
1 TTCATAAACTTATTATGAATT-TCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACT
* * *
693607 TATTATGAATTTCTTAAGTTGCACACTCAATGCCAACACAGAAA
65 TATTATGAATTTATTAAGTTGCACACTCAGTGCCAATACAGAAA
*
693651 TTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAAAACGGAAATTCATAAACTT
1 TTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
693716 ATTATGAATTTATTAAGTTGCACA-TACAGTGCCAATACAGAAA
66 ATTATGAATTTATTAAGTTGCACACT-CAGTGCCAATACAGAAA
* * * *
693759 TTCATGAATTTATTATGAATTTTTTAAGTTGCACACACAATGCCAATACGGAAATTCATAAACTT
1 TTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
* *
693824 ATTATGAATTTATTAAGTTACACACACAGTGCCAATAC-GAAAA
66 ATTATGAATTTATTAAGTTGCACACTCAGTGCCAATACAG-AAA
*
693867 TTCATAAACTTAATATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
1 TTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
*
693932 ATTATGAATTTATTAAGTTGCACACACAGTG
66 ATTATGAATTTATTAAGTTGCACACTCAGTG
693963 TCATTCGGTA
Statistics
Matches: 287, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
107 3 0.01
108 284 0.99
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (108 bp):
TTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
ATTATGAATTTATTAAGTTGCACACTCAGTGCCAATACAGAAA
Found at i:693738 original size:162 final size:162
Alignment explanation
Indices: 693543--693959 Score: 656
Period size: 162 Copynumber: 2.6 Consensus size: 162
693533 GATACAATCG
** *
693543 TTCATAAACTTATTATGAA-TTATGTGGGTTGCACACACAGTTCCAATACGGAAATTCATAAACT
1 TTCATAAACTTATTATGAATTTAT-TAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACT
* *
693607 TATTATGAATTTCTTAAGTTGCACACTCAATGCCAACACAGAAATTCATAAACTTATTATGAATT
65 TATTATGAATTTATTAAGTTGCACACACAATGCCAACACAGAAATTCATAAACTTATTATGAATT
* * *
693672 TCTTAAGTTGCACACACAGTGCCAAAACGGAAA
130 TATTAAGTTACACACACAGTGCCAAAACGAAAA
* * * *
693705 TTCATAAACTTATTATGAATTTATTAAGTTGCACATACAGTGCCAATACAGAAATTCATGAATTT
1 TTCATAAACTTATTATGAATTTATTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
* * *
693770 ATTATGAATTTTTTAAGTTGCACACACAATGCCAATACGGAAATTCATAAACTTATTATGAATTT
66 ATTATGAATTTATTAAGTTGCACACACAATGCCAACACAGAAATTCATAAACTTATTATGAATTT
*
693835 ATTAAGTTACACACACAGTGCCAATACGAAAA
131 ATTAAGTTACACACACAGTGCCAAAACGAAAA
* *
693867 TTCATAAACTTAATATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
1 TTCATAAACTTATTATGAATTTATTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
693932 ATTATGAATTTATTAAGTTGCACACACA
66 ATTATGAATTTATTAAGTTGCACACACA
693960 GTGTCATTCG
Statistics
Matches: 232, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
162 228 0.98
163 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (162 bp):
TTCATAAACTTATTATGAATTTATTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTT
ATTATGAATTTATTAAGTTGCACACACAATGCCAACACAGAAATTCATAAACTTATTATGAATTT
ATTAAGTTACACACACAGTGCCAAAACGAAAA
Found at i:699919 original size:3 final size:3
Alignment explanation
Indices: 699913--699943 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
699903 AAAAATTAAT
*
699913 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
699944 GGTAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:714092 original size:19 final size:18
Alignment explanation
Indices: 714039--714093 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
714029 TTTTTGTACC
*
714039 TAAAAATAAAT-ATAAAA
1 TAAATATAAATAATAAAA
714056 TAAATATAAATAATTAAAA
1 TAAATATAAATAA-TAAAA
714075 TAAATGA-AAACTAATAAAA
1 TAAAT-ATAAA-TAATAAAA
714094 ATGGGTTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.30
18 1 0.03
19 18 0.55
20 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
TAAATATAAATAATAAAA
Found at i:715281 original size:20 final size:20
Alignment explanation
Indices: 715252--715290 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
715242 AGAGCTCATA
*
715252 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
715272 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
715291 GTGGTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:720630 original size:9 final size:9
Alignment explanation
Indices: 720612--720647 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
720602 CATTCTCTTG
720612 AAAA-TGAA
1 AAAATTGAA
720620 AAAATTGAA
1 AAAATTGAA
720629 AAAATTGAA
1 AAAATTGAA
720638 AAAATTGAA
1 AAAATTGAA
720647 A
1 A
720648 TGAAAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (9 bp):
AAAATTGAA
Found at i:727665 original size:13 final size:13
Alignment explanation
Indices: 727647--727672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
727637 GAAGTCAAAC
727647 AAATCCTTGAGAA
1 AAATCCTTGAGAA
727660 AAATCCTTGAGAA
1 AAATCCTTGAGAA
727673 GGTGGTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AAATCCTTGAGAA
Found at i:729498 original size:20 final size:20
Alignment explanation
Indices: 729457--729499 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
729447 TCTAAGATCT
*
729457 CATTTAGGATCATGTAGATG
1 CATTTAGGATCATATAGATG
*
729477 CATTTAGGAAT-ATATAGTTG
1 CATTTAGG-ATCATATAGATG
729497 CAT
1 CAT
729500 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGATCATATAGATG
Found at i:736193 original size:10 final size:10
Alignment explanation
Indices: 736180--736224 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
736170 CTTTTTGATA
*
736180 TTTTTTCTCT
1 TTTTTTTTCT
736190 TTTTTTTTC-
1 TTTTTTTTCT
736199 TTTTTTTTCT
1 TTTTTTTTCT
736209 TTTTTTTTCT
1 TTTTTTTTCT
736219 TTTTTT
1 TTTTTT
736225 GTCGAATGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
9 9 0.27
10 24 0.73
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:736213 original size:19 final size:19
Alignment explanation
Indices: 736161--736224 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
736151 CTACCCTTTA
* ** *
736161 TTTTTTTTCCTTTTTGATA
1 TTTTTTTTCTTTTTTTTTC
*
736180 TTTTTTCTCTTTTTTTTTC
1 TTTTTTTTCTTTTTTTTTC
736199 TTTTTTTTCTTTTTTTTTC
1 TTTTTTTTCTTTTTTTTTC
736218 TTTTTTT
1 TTTTTTT
736225 GTCGAATGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.03, C:0.11, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTTTC
Found at i:737799 original size:45 final size:45
Alignment explanation
Indices: 737720--738192 Score: 320
Period size: 45 Copynumber: 10.6 Consensus size: 45
737710 TACTGAAAGG
* ** * * *
737720 TTGACTCTTCTTCGTGAGGAAGTAAAAAAGGACAACACTAAAATA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
* * * *
737765 TTTACTCCTCTTCACGAAAAAATCAAGTAA-GACAACACCGAAAA-A
1 TTGACTCCTCTTCACGAGAAAGTCAAG-AAGGACAACA-CTAAAATA
* * * * *
737810 TTAACTTCTCTTCGA-GGGAAAGTCAAGAAGGATAACACTAAAAGA
1 TTGACTCCTCTTC-ACGAGAAAGTCAAGAAGGACAACACTAAAATA
*
737855 TTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAATA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
* * * * *
737900 TTGACTCCTCTTCACAAGAAAGTTAAAGAA-GATAACA-TCGAAAGA
1 TTGACTCCTCTTCACGAGAAAG-TCAAGAAGGACAACACT-AAAATA
* * *
737945 TTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACAGTAAAAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
* * * * * ** * * *
737990 TTGACTCATCCTCGCGATAAAGTCAAGAATGACAATTCTGAGAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
* * * * *** * * * *
738035 TTGACTTCTATTCACAAGAAAGTTAAGAATCCCAATACTGAGAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
* * *
738080 TTGACTTCTCTTCACGAGAAAGTCAA-AA--ATAACACTAAAAAA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
* * * * * *
738122 TTGACTTCTATTCACAAGAAAGTCAAG-A--ATAACACTGAAAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
**
738164 TTGACTCCTCTTCACGAGGGAGTCAAGAA
1 TTGACTCCTCTTCACGAGAAAGTCAAGAA
738193 TAACAAAGAT
Statistics
Matches: 344, Mismatches: 72, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
42 67 0.19
43 1 0.00
44 16 0.05
45 245 0.71
46 15 0.04
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (45 bp):
TTGACTCCTCTTCACGAGAAAGTCAAGAAGGACAACACTAAAATA
Found at i:737966 original size:135 final size:134
Alignment explanation
Indices: 737715--738230 Score: 450
Period size: 135 Copynumber: 3.9 Consensus size: 134
737705 GATACTACTG
* * * * * * * *
737715 AAAGGTTGACTCTTCTTCGTGAGGAAGTAAAAAAGGACAACACTAAAATATTTACTCCTCTTCAC
1 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCAC
* * * * * * * *
737780 GAA-AAAATCAAGTAAGACAACACCGAAAAATTAACTTCTCTTCGAGGGAAAGTCAAGAAGGATA
66 -AAGAAAGTTAAG-AAGATAACATCGAAAGATTGACTTCTCTTCGCGAGAAAGTCAAGAAGGATA
737844 ACACTA
129 ACACTA
*
737850 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCAC
1 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCAC
* *
737915 AAGAAAGTTAAAGAAGATAACATCGAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAA
66 AAGAAAGTT-AAGAAGATAACATCGAAAGATTGACTTCTCTTCGCGAGAAAGTCAAGAAGGATAA
*
737980 CAGTA
130 CACTA
* * * * ** * * * *
737985 AAAGATTGACTCATCCTCGCGATAAAGTCAAGAATGACAATTCTGAGAGATTGACTTCTATTCAC
1 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCAC
** * *
738050 AAGAAAGTTAAG-A-ATCCCAATACTGAGAGATTGACTTCTCTTCACGAGAAAGTCAA-AA--AT
66 AAGAAAGTTAAGAAGATAAC-AT-C-GAAAGATTGACTTCTCTTCGCGAGAAAGTCAAGAAGGAT
738110 AACACTA
128 AACACTA
* * * * * * *
738117 AAAAATTGACTTCTATTCACAAGAAAGTCAAG-A--ATAACACTGAAAGATTGACTCCTCTTCAC
1 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCAC
* ** * * *
738179 GAGGGAGTCAAG-A-AT-A-A-C-AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA
66 AAGAAAGTTAAGAAGATAACATCGAAAGATTGACTTCTCTTCGCGAGAAAGTCAAGAA
738231 TAACAAAGAT
Statistics
Matches: 318, Mismatches: 57, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
122 29 0.09
123 2 0.01
124 1 0.00
126 1 0.00
129 34 0.11
131 1 0.00
132 34 0.11
133 3 0.01
134 8 0.03
135 202 0.64
136 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (134 bp):
AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCAC
AAGAAAGTTAAGAAGATAACATCGAAAGATTGACTTCTCTTCGCGAGAAAGTCAAGAAGGATAAC
ACTA
Found at i:738150 original size:87 final size:80
Alignment explanation
Indices: 738034--738755 Score: 520
Period size: 80 Copynumber: 8.9 Consensus size: 80
738024 ATTCTGAGAG
* * * *
738034 ATTGACTTCTATTCACAAGAAAGTTAAGAATCCCAATACTGAGAGATTGACTTCTCTTCACGAGA
1 ATTGACTTCTATTCACAAGAAAGTCAAGAAT---AACACTGAAAGATTGACTCCTCTTCACGAGA
738099 AAGTCAAAAATAACACTAAAAA
63 AAGTCAAAAAT-A-AC--AAAA
**
738121 ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGGGAG
1 ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAAG
* *
738186 TCAAGAATAACAAAG
66 TCAAAAATAACAAAA
* * * * * * * *
738201 ATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-AC--AAAGATTTATTGCTCTTCATGAGGAAG
1 ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAAG
* * * *
738262 CCAAGAATAATAAAG
66 TCAAAAATAACAAAA
* * *** * **
738277 ATTGACCTCTCTTCACAAGAAAGTCAAGAATAATGTTGAAAGATTGACCCCTCTTCACGAGGGAG
1 ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAAG
* *
738342 TCAAGAATAACAAAG
66 TCAAAAATAACAAAA
* * * * * **
738357 ATTGACTTATCTTCACGAA-AAAGTCAATAATAACATTGAAAGATTAACTCCTCTTCACGAGGGA
1 ATTGACTTCTATTCAC-AAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAA
* *
738421 GTCAAGAATAACAAAG
65 GTCAAAAATAACAAAA
* * * * * * * **
738437 ATTAACTTCTCTTCACAAGTAAGTCAAGATTGACATTAAAAGATTGACTCCTCTTCACGAGGGAG
1 ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAAG
* *
738502 TCAAGAATAACAAAG
66 TCAAAAATAACAAAA
** * * * * **
738517 ATTGACTTCTATTCATGAGAAAGTCAAGAATGATATTGAAAGATTGACTCCTCTTCGCGAGGGAG
1 ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAAG
* *
738582 TCAAGAATAACAAAG
66 TCAAAAATAACAAAA
* * * * * ** * *
738597 ATTGACTTTTCTTCACGAA-AAAGTAAAAAATAACATTGGGAGATTGACTTCTCTTCACGAGGAA
1 ATTGACTTCTATTCAC-AAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAA
* *
738661 GTCAAGAAAGACAATATTGAAA
65 GTC-A-AAA-ATAACA---AAA
* * * * * * *
738683 GATTGATTTCTCTTCACGAGGAAGTAAAGAAAGATAATACTGAAAGATTGACTTCTCTTCACGAG
1 -ATTGACTTCTATTCACAAGAAAGTCAAG--A-ATAACACTGAAAGATTGACTCCTCTTCACGAG
*
738748 GAAGTCAA
62 AAAGTCAA
738756 TAATGACATT
Statistics
Matches: 536, Mismatches: 81, Indels: 35
0.82 0.12 0.05
Matches are distributed among these distances:
76 63 0.12
77 1 0.00
78 2 0.00
79 3 0.01
80 327 0.61
81 4 0.01
82 4 0.01
83 5 0.01
84 36 0.07
86 3 0.01
87 51 0.10
88 1 0.00
89 2 0.00
90 34 0.06
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (80 bp):
ATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGAAAG
TCAAAAATAACAAAA
Found at i:738331 original size:42 final size:39
Alignment explanation
Indices: 738077--739116 Score: 634
Period size: 42 Copynumber: 25.4 Consensus size: 39
738067 CAATACTGAG
* * *
738077 AGATTGACTTCTCTTCACGAGAAAGTCAAAAATAACACTAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
* * * * *
738119 AAATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
* *
738161 AGATTGACTCCTCTTCACGAGGGAGTCAAGAATAA-CAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
738199 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA-CAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
* * *
738237 AGATTTA-TTGCTCTTCATGAGGAAGCCAAGAATAAT-AA
1 AGATTGACTT-CTCTTCACGAGGAAGTCAAGAATAATCAA
* * * *
738275 AGATTGACCTCTCTTCACAAGAAAGTCAAGAATAATGTTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA---TCAA
** *
738317 AGATTGACCCCTCTTCACGAGGGAGTCAAGAATAA-CAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
* ** * *
738355 AGATTGACTTATCTTCACGAAAAAGTCAATAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
* * *
738397 AGATTAACTCCTCTTCACGAGGGAGTCAAGAATAA-CAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
* * * * *
738435 AGATTAACTTCTCTTCACAAGTAAGTCAAGATTGACATTAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
* *
738477 AGATTGACTCCTCTTCACGAGGGAGTCAAGAATAA-CAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
* * * *
738515 AGATTGACTTCTATTCATGAGAAAGTCAAGAATGATATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
* * *
738557 AGATTGACTCCTCTTCGCGAGGGAGTCAAGAATAA-CAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
* ** * * *
738595 AGATTGACTTTTCTTCACGAAAAAGTAAAAAATAA-CATTGGG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCA----A
* *
738637 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTC----AAG--AATAATCAA
* *
738682 AGATTGATTTCTCTTCACGAGGAAGTAAAGAAAGATAATACTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAG--A-ATAAT-C--AA
* *
738727 AGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
** * *
738769 AGATTGAC-TCTTCTTCGTGAGGGAGTCAA-ACTAA-CAA
1 AGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAATCAA
* * *
738806 AGATTGACTTCTCTTCACGAGGAAATCAAAAATAA-CATTGGG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCA----A
* *
738848 AGATTGACTTCTCTTCACGGGGAAGTCAAGAAAGACAATACTAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAG--A-ATAAT-C--AA
* * * *
738893 ATATTGACTTCTTTTCACGAGGAAGTCAATAATGAAATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT--AA-TCAA
*** *
738935 AGATTGAC-TCTTCTTTGTGAGGGAGTCAAGAATAAT-AA
1 AGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAATCAA
* * * ***
738973 AGATTGACTTCTTTTCATGAGGAAGTCAAAAATAGCATTGGG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATA--A-TCAA
* * *
739015 AGATTAACTTCTCTTCACGAGGAAGTTAAGAAAGACAATACTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAG--A-ATAAT-C--AA
** *
739060 AGATTGACTTCTCTTCACGAATAAGTCAAGAATGACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A-TCAA
*
739102 AGATTGACTCCTCTT
1 AGATTGACTTCTCTT
739117 AACAAAAGAG
Statistics
Matches: 781, Mismatches: 148, Indels: 138
0.73 0.14 0.13
Matches are distributed among these distances:
37 26 0.03
38 251 0.32
39 8 0.01
40 11 0.01
41 17 0.02
42 333 0.43
43 6 0.01
44 6 0.01
45 114 0.15
46 2 0.00
47 1 0.00
48 4 0.01
49 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (39 bp):
AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAATCAA
Found at i:738358 original size:80 final size:80
Alignment explanation
Indices: 738032--738668 Score: 737
Period size: 80 Copynumber: 7.9 Consensus size: 80
738022 CAATTCTGAG
* * * * * *
738032 AGATTGACTTCTATTCACAAGAAAGTTAAGAATCCCAATACTGAGAGATTGACTTCTCTTCACGA
1 AGATTGACTTCTCTTCACAAGAAAGTCAAGAAT---AACATTGAAAGATTGACTCCTCTTCACGA
** *
738097 GAAAGTCAAAAATAACACTAAA
63 GGGAGTCAAGAAT-A-AC--AA
* * *
738119 AAATTGACTTCTATTCACAAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCACGAGGG
1 AGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
738184 AGTCAAGAATAACAA
66 AGTCAAGAATAACAA
* * * * * * *
738199 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAAGATTTATTGCTCTTCATGAGGA
1 AGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
* *
738260 AGCCAAGAATAATAA
66 AGTCAAGAATAACAA
* ** *
738275 AGATTGACCTCTCTTCACAAGAAAGTCAAGAATAATGTTGAAAGATTGACCCCTCTTCACGAGGG
1 AGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
738340 AGTCAAGAATAACAA
66 AGTCAAGAATAACAA
* * *
738355 AGATTGACTTATCTTCACGAA-AAAGTCAATAATAACATTGAAAGATTAACTCCTCTTCACGAGG
1 AGATTGACTTCTCTTCAC-AAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGG
738419 GAGTCAAGAATAACAA
65 GAGTCAAGAATAACAA
* * * * *
738435 AGATTAACTTCTCTTCACAAGTAAGTCAAGATTGACATTAAAAGATTGACTCCTCTTCACGAGGG
1 AGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
738500 AGTCAAGAATAACAA
66 AGTCAAGAATAACAA
* ** * * *
738515 AGATTGACTTCTATTCATGAGAAAGTCAAGAATGATATTGAAAGATTGACTCCTCTTCGCGAGGG
1 AGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
738580 AGTCAAGAATAACAA
66 AGTCAAGAATAACAA
* * * ** *
738595 AGATTGACTTTTCTTCACGAA-AAAGTAAAAAATAACATTGGGAGATTGACTTCTCTTCACGAGG
1 AGATTGACTTCTCTTCAC-AAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGG
*
738659 AAGTCAAGAA
65 GAGTCAAGAA
738669 AGACAATATT
Statistics
Matches: 475, Mismatches: 68, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
76 65 0.14
79 2 0.00
80 335 0.71
81 3 0.01
82 2 0.00
83 1 0.00
84 36 0.08
87 31 0.07
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (80 bp):
AGATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGG
AGTCAAGAATAACAA
Found at i:738694 original size:45 final size:45
Alignment explanation
Indices: 737850--739116 Score: 426
Period size: 42 Copynumber: 30.4 Consensus size: 45
737840 GATAACACTA
* * * * * * *
737850 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * * * * * * *
737895 AAATATTGACTCCTCTTCACAAGAAAGTTAA-AGAAGATAACATCG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGA-AAGACAATATTG
* * * * * * *
737940 AAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACAGTA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * ** *
737985 AAAGATTGAC-TCATCCTCGCGATAAAGTCAAGAATGACAAT-TCTG
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAAAGACAATAT-TG
* * * * * *** *
738030 AGAGATTGACTTCTATTCACAAGAAAGTTAAGAATCCCAATACTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * * *
738075 AGAGATTGACTTCTCTTCACGAGAAAGTCAA-AAATAACACTA---
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAA-GACAATATTG
* * * * *
738117 AAAAATTGACTTCTATTCACAAGAAAGTCAAGAATA-AC---ACTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* *
738159 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATA-AC-------
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
738197 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATA-AC-------
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* * * *
738235 AAAGATTTA-TTGCTCTTCATGAGGAAG-C---CAAG--AATAAT-
1 AAAGATTGACTT-CTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * * * *
738273 AAAGATTGACCTCTCTTCACAAGAAAGTCAAG--A-ATAATGTTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
** *
738315 AAAGATTGACCCCTCTTCACGAGGGAGTCAAGAATA-AC-------
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* ** *
738353 AAAGATTGACTTATCTTCACGAAAAAGTCAATAATA-AC---ATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* * *
738395 AAAGATTAACTCCTCTTCACGAGGGAGTCAAGAATA-AC-------
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* * * ** *
738433 AAAGATTAACTTCTCTTCACAAGTAAGTCAAGATTGAC---ATTA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* *
738475 AAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATA-AC-------
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* * * *
738513 AAAGATTGACTTCTATTCATGAGAAAGTCAAGAATG---ATATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * *
738555 AAAGATTGACTCCTCTTCGCGAGGGAGTCAAGAATA-AC-------
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTG
* ** * *
738593 AAAGATTGACTTTTCTTCACGAAAAAGT-AA-AAA-ATAACATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
**
738635 GGAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * * *
738680 AAAGATTGATTTCTCTTCACGAGGAAGTAAAGAAAGATAATACTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* *
738725 AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGAC---ATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
** * **
738767 AAAGATTGAC-TCTTCTTCGTGAGGGAGTC----AA-AC--TA-AC
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * *
738804 AAAGATTGACTTCTCTTCACGAGGAAATC-A-AAA-ATAACATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
** * * *
738846 GGAGATTGACTTCTCTTCACGGGGAAGTCAAGAAAGACAATACTA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * * *
738891 AAATATTGACTTCTTTTCACGAGGAAGTCAATAATG--AA-ATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
*** * *
738933 AAAGATTGAC-TCTTCTTTGTGAGGGAGTC----AAG--AATAAT-
1 AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAAAGACAATATTG
* * *
738971 AAAGATTGACTTCTTTTCATGAGGAAGTCAA-AAATAGC---ATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGA-CAATATTG
** * * *
739013 GGAGATTAACTTCTCTTCACGAGGAAGTTAAGAAAGACAATACTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
** *
739058 AAAGATTGACTTCTCTTCACGAATAAGTCAAGAATGAC---ATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
*
739100 AAAGATTGACTCCTCTT
1 AAAGATTGACTTCTCTT
739117 AACAAAAGAG
Statistics
Matches: 939, Mismatches: 197, Indels: 175
0.72 0.15 0.13
Matches are distributed among these distances:
33 1 0.00
34 1 0.00
35 2 0.00
36 2 0.00
37 29 0.03
38 221 0.24
39 10 0.01
40 1 0.00
41 13 0.01
42 319 0.34
43 11 0.01
44 11 0.01
45 315 0.34
46 3 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (45 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAAGACAATATTG
Found at i:739046 original size:80 final size:80
Alignment explanation
Indices: 738725--739116 Score: 263
Period size: 87 Copynumber: 4.7 Consensus size: 80
738715 GATAATACTG
* * * * **
738725 AAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATTGAAAGATTGACTCTTCTTCGTGAG
1 AAAGATTGACTTCTTTTCACGAGGAAGTCAAAAATGAAATTGAAAGATTAACTCTTCTTCACGAG
* * *
738790 GGAGTCAA-ACTAAC
66 GAAGTCAAGAATAAT
* * ** *
738804 AAAGATTGACTTCTCTTCACGAGGAAATCAAAAAT-AACATTGGGAGATTGACT-TCTCTTCACG
1 AAAGATTGACTTCTTTTCACGAGGAAGTCAAAAATGAA-ATTGAAAGATTAACTCT-TCTTCACG
* *
738867 GGGAAGTCAAGAAAGACAATACT
64 AGGAAGTC----AAG--AATAAT
* * * ***
738890 AAAATATTGACTTCTTTTCACGAGGAAGTCAATAATGAAATTGAAAGATTGACTCTTCTTTGTGA
1 -AAAGATTGACTTCTTTTCACGAGGAAGTCAAAAATGAAATTGAAAGATTAACTCTTCTTCACGA
*
738955 GGGAGTCAAGAATAAT
65 GGAAGTCAAGAATAAT
* * **
738971 AAAGATTGACTTCTTTTCATGAGGAAGTCAAAAAT-AGCATTGGGAGATTAACT-TCTCTTCACG
1 AAAGATTGACTTCTTTTCACGAGGAAGTCAAAAATGA-AATTGAAAGATTAACTCT-TCTTCACG
* *
739034 AGGAAGTTAAGAAAGACAATACT
64 AGGAAG-T---CAAG--AATAAT
* ** * * * *
739057 GAAAGATTGACTTCTCTTCACGAATAAGTCAAGAATGACATTGAAAGATTGACTCCTCTT
1 -AAAGATTGACTTCTTTTCACGAGGAAGTCAAAAATGAAATTGAAAGATTAACTCTTCTT
739117 AACAAAAGAG
Statistics
Matches: 244, Mismatches: 46, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
78 2 0.01
79 60 0.25
80 54 0.22
81 6 0.02
83 5 0.02
84 3 0.01
86 8 0.03
87 102 0.42
88 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (80 bp):
AAAGATTGACTTCTTTTCACGAGGAAGTCAAAAATGAAATTGAAAGATTAACTCTTCTTCACGAG
GAAGTCAAGAATAAT
Found at i:739068 original size:167 final size:166
Alignment explanation
Indices: 738637--739116 Score: 692
Period size: 167 Copynumber: 2.9 Consensus size: 166
738627 TAACATTGGG
* ** *
738637 AGATTGACTTCTCTTCACGAGGAAGTCAAGAA-AGACAATATTGAAAGATTGATTTCTCTTCACG
1 AGATTGACTTCTCTTCACGAGGAAGTCAAAAATAG-C---ATTGGGAGATTGACTTCTCTTCACG
*
738701 AGGAAGTAAAGAAAGATAATACTGAAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATT
62 AGGAAGTAAAGAAAGACAATACTGAAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATT
*
738766 GAAAGATTGACTCTTCTTCGTGAGGGAGTCAAACTAACAA
127 GAAAGATTGACTCTTCTTCGTGAGGGAGTCAAAATAACAA
* * *
738806 AGATTGACTTCTCTTCACGAGGAAATCAAAAATAACATTGGGAGATTGACTTCTCTTCACGGGGA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAAAATAGCATTGGGAGATTGACTTCTCTTCACGAGGA
* * * * *
738871 AGTCAAGAAAGACAATACTAAAATATTGACTTCTTTTCACGAGGAAGTCAATAATGAAATTGAAA
66 AGTAAAGAAAGACAATACTGAAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATTGAAA
* *
738936 GATTGACTCTTCTTTGTGAGGGAGTCAAGAATAATAA
131 GATTGACTCTTCTTCGTGAGGGAGTCAA-AATAACAA
* * *
738973 AGATTGACTTCTTTTCATGAGGAAGTCAAAAATAGCATTGGGAGATTAACTTCTCTTCACGAGGA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAAAATAGCATTGGGAGATTGACTTCTCTTCACGAGGA
* ** *
739038 AGTTAAGAAAGACAATACTGAAAGATTGACTTCTCTTCACGAATAAGTCAAGAATGACATTGAAA
66 AGTAAAGAAAGACAATACTGAAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATTGAAA
*
739103 GATTGACTCCTCTT
131 GATTGACTCTTCTT
739117 AACAAAAGAG
Statistics
Matches: 278, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
166 111 0.40
167 135 0.49
169 31 0.11
170 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (166 bp):
AGATTGACTTCTCTTCACGAGGAAGTCAAAAATAGCATTGGGAGATTGACTTCTCTTCACGAGGA
AGTAAAGAAAGACAATACTGAAAGATTGACTTCTCTTCACGAGGAAGTCAATAATGACATTGAAA
GATTGACTCTTCTTCGTGAGGGAGTCAAAATAACAA
Found at i:740386 original size:43 final size:44
Alignment explanation
Indices: 740281--740389 Score: 134
Period size: 43 Copynumber: 2.5 Consensus size: 44
740271 TTGTATTCCC
*
740281 GGATGATATGGGCCTTCAAAAAATGTCCTAACATTTATTATTTCTT
1 GGATGATATGGGCCTTC--AAAATGTCCCAACATTTATTATTTCTT
* * *
740327 --ACTGATTTGGGTCTTCAAAATGTCCCAATATTTATTATTT-TT
1 GGA-TGATATGGGCCTTCAAAATGTCCCAACATTTATTATTTCTT
740369 GGATGATATGGGCCTTCAAAA
1 GGATGATATGGGCCTTCAAAA
740390 ATACCCTAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.04
43 38 0.70
44 2 0.04
45 12 0.22
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (44 bp):
GGATGATATGGGCCTTCAAAATGTCCCAACATTTATTATTTCTT
Found at i:743969 original size:20 final size:20
Alignment explanation
Indices: 743934--743974 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
743924 AATCTACTTG
743934 ATCATGAAACCCTTTA-TCC
1 ATCATGAAACCCTTTACTCC
*
743953 ATCATGAAAACCTTTTACTCC
1 ATCATG-AAACCCTTTACTCC
743974 A
1 A
743975 ATGACCACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (20 bp):
ATCATGAAACCCTTTACTCC
Found at i:747662 original size:9 final size:9
Alignment explanation
Indices: 747643--747689 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
747633 ATATGGATCT
747643 ATATAAAATA
1 ATAT-AAATA
747653 ATATAAATA
1 ATATAAATA
747662 ATATAAAT-
1 ATATAAATA
747670 ATA-AAATA
1 ATATAAATA
747678 ATA-ATAATA
1 ATATA-AATA
747687 ATA
1 ATA
747690 ATAACGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.11
8 7 0.20
9 20 0.57
10 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATATAAATA
Found at i:760321 original size:4 final size:4
Alignment explanation
Indices: 760312--760337 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
760302 TACCAAAGAA
760312 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
760338 GAGAAGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:766175 original size:2 final size:2
Alignment explanation
Indices: 766168--766210 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
766158 TATTTTACAC
*
766168 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
766210 A
1 A
766211 GTTGGCAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:766277 original size:37 final size:35
Alignment explanation
Indices: 766237--766629 Score: 367
Period size: 37 Copynumber: 10.8 Consensus size: 35
766227 TGAAAATACG
*
766237 TATATAATATATTGTTTCTAAAAACATTTTGAAAAT
1 TATATAATATATAGTTT-TAAAAACATTTTGAAAAT
* *
766273 GTATATAATATATAGTTTTTAAAACACTTTTGAAAAC
1 -TATATAATATATAGTTTTAAAAACA-TTTTGAAAAT
*
766310 TATATAATATATAGTTTTTAAAACATTTTAGAAAAT
1 TATATAATATATAGTTTTAAAAACATTTT-GAAAAT
766346 ATATATAATATATAG---T-------TTTTGAAAACT
1 -TATATAATATATAGTTTTAAAAACATTTTGAAAA-T
* * *
766373 TATATCATATATAGTTTTTGAAAACATTTTTTAAAACT
1 TATATAATATATAG-TTTTAAAAACA-TTTTGAAAA-T
*
766411 TATATAATATATAGTTTTTAAAATCATTTTGAAAACT
1 TATATAATATATAG-TTTTAAAAACATTTTGAAAA-T
*
766448 TATATAATATATAGTTTTTAAAAACATTTTTTAAAAAACT
1 TATATAATATATAG-TTTTAAAAACA--TTTT-GAAAA-T
766488 TATATAATATATAGTTTTAAAAACATTTTTGAAAACT
1 TATATAATATATAGTTTTAAAAACA-TTTTGAAAA-T
766525 TATATAATATATAGTTTTAAAAACATTTTTTGAAAAAT
1 TATATAATATATAGTTTTAAAAACA--TTTTG-AAAAT
*
766563 TATATAATATATAGTTTTAAAATA-TTTCTTGAAAAT
1 TATATAATATATAGTTTTAAAA-ACATT-TTGAAAAT
* * *
766599 ATATTATATTATATGGTTTTGAAAACATTTT
1 -TA-TATAATATATAGTTTTAAAAACATTTT
766630 TTTTAAAAAC
Statistics
Matches: 312, Mismatches: 18, Indels: 52
0.82 0.05 0.14
Matches are distributed among these distances:
26 18 0.06
27 5 0.02
30 1 0.00
34 1 0.00
35 4 0.01
36 44 0.14
37 113 0.36
38 86 0.28
39 20 0.06
40 20 0.06
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAAT
Found at i:766376 original size:28 final size:26
Alignment explanation
Indices: 766347--766397 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
766337 TTAGAAAATA
766347 TATATAATATATAGTTTTTGAAAACT
1 TATATAATATATAGTTTTTGAAAACT
*
766373 TATATCATATATAGTTTTTGAAAAC
1 TATATAATATATAGTTTTTGAAAAC
766398 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (26 bp):
TATATAATATATAGTTTTTGAAAACT
Found at i:766403 original size:38 final size:37
Alignment explanation
Indices: 766361--766663 Score: 360
Period size: 38 Copynumber: 7.9 Consensus size: 37
766351 TAATATATAG
* *
766361 TTTTTGAAAACTTATATCATATATAGTTTTTGAAAACA
1 TTTTTGAAAACTTATATAATATATAG-TTTTAAAAACA
* *
766399 TTTTTTAAAACTTATATAATATATAGTTTTTAAAATCA
1 TTTTTGAAAACTTATATAATATATAG-TTTTAAAAACA
766437 -TTTTGAAAACTTATATAATATATAGTTTTTAAAAACA
1 TTTTTGAAAACTTATATAATATATAG-TTTTAAAAACA
*
766474 TTTTTTAAAAAACTTATATAATATATAGTTTTAAAAACA
1 -TTTTT-GAAAACTTATATAATATATAGTTTTAAAAACA
766513 TTTTTGAAAACTTATATAATATATAGTTTTAAAAACA
1 TTTTTGAAAACTTATATAATATATAGTTTTAAAAACA
* *
766550 TTTTTTGAAAAATTATATAATATATAGTTTT-AAAATA
1 -TTTTTGAAAACTTATATAATATATAGTTTTAAAAACA
* * *
766587 TTTCTTGAAAA-TATATTATATTATATGGTTTTGAAAACA
1 TTT-TTGAAAACT-TA-TATAATATATAGTTTTAAAAACA
* * *
766626 TTTTTTTTAAAAACATATATAAAATATAGTTTTAAAAA
1 ---TTTTTGAAAACTTATATAATATATAGTTTTAAAAA
766664 TATATTTTTT
Statistics
Matches: 234, Mismatches: 19, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
36 4 0.02
37 80 0.34
38 82 0.35
39 20 0.09
40 37 0.16
41 8 0.03
42 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (37 bp):
TTTTTGAAAACTTATATAATATATAGTTTTAAAAACA
Found at i:766441 original size:75 final size:76
Alignment explanation
Indices: 766361--766662 Score: 411
Period size: 75 Copynumber: 4.0 Consensus size: 76
766351 TAATATATAG
* *
766361 TTTTTGAAAACTTATATCATATATAGTTTTTGAAAACATTTTTT-AAAACTTATATAATATATAG
1 TTTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTTTAAAAACTTATATAATATATAG
766425 TTTTTAAAATCA
66 -TTTTAAAATCA
766437 -TTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTTTAAAAAACTTATATAATATATA
1 TTTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTTT-AAAAACTTATATAATATATA
*
766501 GTTTTAAAAACA
65 GTTTTAAAATCA
766513 TTTTTGAAAACTTATATAATATATAG-TTTTAAAAACATTTTTTGAAAAA-TTATATAATATATA
1 TTTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTTT-AAAAACTTATATAATATATA
766576 GTTTTAAAAT-A
65 GTTTTAAAATCA
* * * * *
766587 TTTCTTGAAAA--TATATTATATTATATGGTTTTGAAAACATTTTTTTTAAAAACATATATAAAA
1 TTT-TTGAAAACTTATATAATA-TATA-GTTTTTAAAAACA--TTTTTTAAAAACTTATATAATA
766650 TATAGTTTTAAAA
61 TATAGTTTTAAAA
766663 ATATATTTTT
Statistics
Matches: 207, Mismatches: 9, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
73 8 0.04
74 8 0.04
75 72 0.35
76 42 0.20
77 50 0.24
78 27 0.13
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (76 bp):
TTTTTGAAAACTTATATAATATATAGTTTTTAAAAACATTTTTTAAAAACTTATATAATATATAG
TTTTAAAATCA
Found at i:766702 original size:18 final size:17
Alignment explanation
Indices: 766668--766706 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
766658 TAAAAATATA
*
766668 TTTTTTATTTTTTTTAT
1 TTTTTTATTTTTGTTAT
*
766685 TTTTTTGTTATTTGTTAT
1 TTTTTTATT-TTTGTTAT
766703 TTTT
1 TTTT
766707 ATTTTTCTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (17 bp):
TTTTTTATTTTTGTTAT
Found at i:767930 original size:30 final size:29
Alignment explanation
Indices: 767896--767968 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
767886 TTTTAATATA
767896 TATTTATTCTCTTATT-A-TTATTATTATTAT
1 TATTTATT-TCTT-TTGATTTATTATT-TTAT
*
767926 TATTTATTTGTTTTGATTTATTATTTTAT
1 TATTTATTTCTTTTGATTTATTATTTTAT
*
767955 TATTCTATTACTTT
1 TATT-TATTTCTTT
767969 GTTGTTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 2 0.05
29 12 0.32
30 23 0.62
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (29 bp):
TATTTATTTCTTTTGATTTATTATTTTAT
Found at i:767969 original size:29 final size:30
Alignment explanation
Indices: 767913--767969 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
767903 TCTCTTATTA
**
767913 TTATTATTATTATTATTTATTTGTTTTGAT
1 TTATTATTATTATTATTTATTTACTTTGAT
767943 TTATTATT-TTATTATTCTA-TTACTTTG
1 TTATTATTATTATTATT-TATTTACTTTG
767970 TTGTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (30 bp):
TTATTATTATTATTATTTATTTACTTTGAT
Found at i:767974 original size:37 final size:36
Alignment explanation
Indices: 767907--767977 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 36
767897 ATTTATTCTC
*
767907 TTATTATTATTATTATTATTATTTATTTGTTTTGAT
1 TTATTATTATTATTATTATTATTTAGTTGTTTTGAT
767943 TTATTATT-TTATTATTCTATTACTTT-GTTGTTTTG
1 TTATTATTATTATTA-T-TATTA-TTTAGTTGTTTTG
767978 TTGATTTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 6 0.19
36 9 0.29
37 13 0.42
38 3 0.10
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (36 bp):
TTATTATTATTATTATTATTATTTAGTTGTTTTGAT
Found at i:769065 original size:12 final size:13
Alignment explanation
Indices: 769042--769075 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
769032 CCCTAACTCT
*
769042 TTTCAGTTTTTTC
1 TTTCATTTTTTTC
769055 TTTC-TTTTTTTC
1 TTTCATTTTTTTC
769067 TTTCATTTT
1 TTTCATTTT
769076 AATTTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTCATTTTTTTC
Found at i:770670 original size:96 final size:95
Alignment explanation
Indices: 770501--770749 Score: 348
Period size: 96 Copynumber: 2.7 Consensus size: 95
770491 AATATTACAT
* ** *
770501 ATATACAATAAAGCTTGAATTGTCCCTCTAAAATAATTGGTTAAACGCCCCGTCTTTATGGATAA
1 ATATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
* *
770566 GATTCAGCTAAGCCTGATAAAGGTAATTATA
66 GATGCAGCT-AGCCTGATAAAAGTAATTATA
770597 ATATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
1 ATATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
* * *
770662 TATGCAGCTAGCCTGATAAAAGTGATTTTA
66 GATGCAGCTAGCCTGATAAAAGTAATTATA
*
770692 ATAT-C--TATA--TT-AAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
1 ATATACAATAAAGCTTGAA-TTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
770750 TCAGCTAGCC
Statistics
Matches: 142, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
89 2 0.01
90 46 0.32
92 3 0.02
94 1 0.01
95 22 0.15
96 68 0.48
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (95 bp):
ATATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
GATGCAGCTAGCCTGATAAAAGTAATTATA
Found at i:772023 original size:84 final size:85
Alignment explanation
Indices: 771875--772091 Score: 285
Period size: 85 Copynumber: 2.6 Consensus size: 85
771865 AACTATTAGT
* * *
771875 AGTATAACTCAAGGCGATAAAGGTTATCTGCCAGCC-AAGACCTTCGAATTCGATTACACTCAGC
1 AGTATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCGATTACACTCAGC
771939 TTC-AAGGCACATCATTTGC
66 TTCGAAGGCACATCATTTGC
* ** * *
771958 AGTATAACTCAAGGCTAGAAGGGTTATCTGCCAATAAAAGACATTCGAGTTCGATTACACTCAGC
1 AGTATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCGATTACACTCAGC
*
772023 TTCGAGGGCACATCATTTGC
66 TTCGAAGGCACATCATTTGC
* ** * * *
772043 AGCATCGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAA
1 AGTATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAA
772092 ACCAAAGACC
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
83 30 0.27
84 29 0.26
85 53 0.47
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (85 bp):
AGTATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCGATTACACTCAGC
TTCGAAGGCACATCATTTGC
Found at i:772096 original size:16 final size:16
Alignment explanation
Indices: 772075--772106 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
772065 GCTATCTGCC
772075 AACCAAAGACCTTCGA
1 AACCAAAGACCTTCGA
772091 AACCAAAGACCTTCGA
1 AACCAAAGACCTTCGA
772107 GTTCGACTAC
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:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (16 bp):
AACCAAAGACCTTCGA
Found at i:772247 original size:84 final size:84
Alignment explanation
Indices: 772095--773356 Score: 1271
Period size: 84 Copynumber: 15.0 Consensus size: 84
772085 CTTCGAAACC
* * * * *
772095 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTATATCATTTGTAGCACAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
772160 GAAGGGTTATCTGCCAACA
66 GAAGGGTTATCTGCCAACA
* * * * * * * *
772179 AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
** *
772244 GAAGGACTATCTGCCAACC
66 GAAGGGTTATCTGCCAACA
* * ** * *
772263 AAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGTGCATTATTTACAGCATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
* *
772328 GAAGGGTTATATGTCAAC-
66 GAAGGGTTATCTGCCAACA
* * ** * * * * *
772346 AAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
772411 GAAGGGCTATCTGCCAACA
66 GAAGGGTTATCTGCCAACA
* * * *
772430 CAAGACCATCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
772495 GAAGGGTTATC-CCTCAA-A
66 GAAGGGTTATCTGC-CAACA
* ** * * * * * *
772513 AAAAATATTCGAGTTCTACTACTCTCATCTCCAAGGCACATCATTTACAGTATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
772578 GAAGGGTTATCTGTCAAC-
66 GAAGGGTTATCTGCCAACA
* * * * * * *
772596 AAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCTCATCATTTGAAGCATAACTTAAGTCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
* *
772661 GAAGGGCTATCTGCCAACC
66 GAAGGGTTATCTGCCAACA
* * * * *
772680 AAAGACCCTCGAGTTTGACTACGCTCAGCTTCGAGGGCACATCATTTGCTGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGCT
* *
772745 AGAAGGGTTATATGTCAAC-
65 AGAAGGGTTATCTGCCAACA
* * * ** * *
772764 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAATA-GCACATCATTTGCAACATAGCTTTAGTCG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-AGGCACATCATTTGCAGCATAACTCAAGGCT
* *
772828 ATAAGGGTTATCTGCCAACC
65 AGAAGGGTTATCTGCCAACA
* *
772848 AAAGACCCTT-GAGTTCGACTACGCTCAGCTTCCAGGGCACATCATTTGCAGCATAACTCAAGGC
1 AAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGC
**
772912 TAGAAGGGTTATCTATCAAC-
64 TAGAAGGGTTATCTGCCAACA
* * * * ** *
772932 AAAGACCTTCGTGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAATCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
772997 GAAGGGTTATCTGCCAACC
66 GAAGGGTTATCTGCCAACA
** * ** * *
773016 AAAGATTTTCGAGTTCGATTATACTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAAGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
773081 GAAGGGTTATCTACCAACA
66 GAAGGGTTATCTGCCAACA
* * * * * * * * * * *
773100 AAAGACCTTTGATTTCGACTGCGCTTAGCACCAAGGCACATCATTTGCAACATAGCTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
* * * *
773165 TAAGGGCTATATGCCAACC
66 GAAGGGTTATCTGCCAACA
* * * *
773184 AAAGACCTTTGAGTTCGATTACGCTCAGCTCAATGGCACATCATTTGCAGCTTAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
773249 GAAGGGTTATCTACCAACA
66 GAAGGGTTATCTGCCAACA
* * * * * * * *
773268 CAAGACCTTCGAGGTCGATTACACTCAGCTCAGAGGCAAATCAAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGGC
* * **
773333 AAGAAGGGCTATCTATCAACA
64 TAGAAGGGTTATCTGCCAACA
773354 AAA
1 AAA
773357 TTATCGAGTT
Statistics
Matches: 953, Mismatches: 210, Indels: 28
0.80 0.18 0.02
Matches are distributed among these distances:
83 295 0.31
84 530 0.56
85 90 0.09
86 38 0.04
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
GAAGGGTTATCTGCCAACA
Found at i:772977 original size:251 final size:249
Alignment explanation
Indices: 772091--773346 Score: 1293
Period size: 251 Copynumber: 5.0 Consensus size: 249
772081 AGACCTTCGA
* * * * *
772091 AACCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGTATATCATTTGTAGCACAACTCAA
1 AACCAAAGACCCTT-GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
* * * * * * *
772155 GGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGACACAT
65 GTCTAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * **
772220 CATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
129 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTAC
* * ** * * *
772285 GCTCAGCTCCAAGGTGCATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTC
193 ACTCAGCT-CAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC
* * ** * * *
772343 AA-CAAAGA-CCTTCGAGTTTGATTACATTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAA
1 AACCAAAGACCCTT-GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAA
* * *
772406 GTCGAGAAGGGCTATCTGCCAACACAAGACCATCGAGTTCAACTACGCTCAGCTCCAAGGCACAT
65 GTCTAGAAGGGCTATCTGCCAACA-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * ** * *
772471 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATC-CCTCAAAAAAAATATTCGAGTTCTACTAC
129 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGC-CAACAAAGACCTTCGAGTTCGATTAC
* * * * *
772535 TCTCATCTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTC
193 ACTCAGCT-CAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC
* * * *
772593 AA-CAAAGACCTTTGAGTTCGACTACACTCAGCT-CAACGGCTCATCATTTGAAGCATAACTTAA
1 AACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAA
* * * *
772656 GTCTAGAAGGGCTATCTGCCAACCAAAGACCCTCGAGTTTGACTACGCTCAGCTTCGAGGGCACA
65 GTCTAGAAGGGCTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACA
* * * * *
772721 TCATTTGCTGCATAACTCAAGGCTAGAAGGGTTATATGTCAACAAAGACCTTTGAGTTCGACTAC
128 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTAC
* * * * ** * * *
772786 GCTCAGCTCAATAGCACATCATTTGCAACATAGCTTTAGTCGATAAGGGTTATCTGCC
193 ACTCAGCTCAA-AGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC
* *
772844 AACCAAAGACCCTTGAGTTCGACTACGCTCAGCTTCCAGGGCACATCATTTGCAGCATAACTCAA
1 AACCAAAGACCCTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA
* * ** * *
772909 GGCTAGAAGGGTTATCTATCAACAAAGACCTTCGTGTTCGACTACGCTCAGCTCCAAGGCATATC
65 GTCTAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* ** * ** *
772974 ATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGATTTTCGAGTTCGATTATA
130 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACA
* * * *
773039 CTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAAGCTAGAAGGGTTATCTACC
194 CTCAGCTCAAA-GCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC
* * * * * * * *
773096 AACAAAAGACCTTTGATTTCGACTGCGCTTAGCACCAAGGCACATCATTTGCAACATAGCTTAAG
1 AACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
* * * * *
773161 TCAATAAGGGCTATATGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCT-CAATGGCACAT
66 TCTAGAAGGGCTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACAT
* * *
773225 CATTTGCAGCTTAACTCAAGGCTAGAAGGGTTATCTACCAACACAAGACCTTCGAGGTCGATTAC
129 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACA-AAGACCTTCGAGTTCGATTAC
* * * * *
773290 ACTCAGCTCAGAGGCAAATCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCT
193 ACTCAGCTCA-AAGCACATC--ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
773347 ATCAACAAAA
Statistics
Matches: 827, Mismatches: 158, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
249 2 0.00
250 166 0.20
251 335 0.41
252 250 0.30
253 43 0.05
254 31 0.04
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (249 bp):
AACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
TCTAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
TTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACT
CAGCTCAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC
Found at i:773906 original size:2 final size:2
Alignment explanation
Indices: 773899--773931 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
773889 ATTTTATTTT
773899 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
773932 TACATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:774023 original size:37 final size:35
Alignment explanation
Indices: 773983--774345 Score: 332
Period size: 37 Copynumber: 9.7 Consensus size: 35
773973 TGAAAATACG
773983 TATATAATATATAGTTTCTAAAAACATTTTGAAAAT
1 TATATAATATATAGTTT-TAAAAACATTTTGAAAAT
* *
774019 GTATATAATATATAGTTTTTAAAACACTTTTGAAAAC
1 -TATATAATATATAGTTTTAAAAACA-TTTTGAAAAT
* *
774056 TATATAATATATAGTTTTTAAAACATCTTAGAAAAT
1 TATATAATATATAGTTTTAAAAACAT-TTTGAAAAT
*
774092 ATATATAATATATAGTTTTTAAAATCATTTTGAAAACT
1 -TATATAATATATAG-TTTTAAAAACATTTTGAAAA-T
* *
774130 TATATAATATATAGTTTTTGAAAACATTTTTTAAAAAACT
1 TATATAATATATAG-TTTTAAAAACA--TTTT-GAAAA-T
774170 TATATAATATATAGTTTTAAAAACAATTTTGAAAACT
1 TATATAATATATAGTTTTAAAAAC-ATTTTGAAAA-T
* *
774207 TATATAAATATATAGTTTTAAAAATATTTTTGAAAAAA
1 TATAT-AATATATAGTTTTAAAAACA-TTTTG-AAAAT
****
774245 TATATAATATATAGTTTT-AATTTTTTTTAGAAAAT
1 TATATAATATATAGTTTTAAAAACATTTT-GAAAAT
* * *
774280 ATATTATATTATATGGTTTTGAAAAACATTTTAAAAAAAAT
1 -TA-TATAATATATAGTTTT-AAAAACATTTT---GAAAAT
*
774321 CATATATAAAATATAGTTTTAAAAA
1 --TATATAATATATAGTTTTAAAAA
774346 ATATTTTTAT
Statistics
Matches: 278, Mismatches: 28, Indels: 37
0.81 0.08 0.11
Matches are distributed among these distances:
35 9 0.03
36 45 0.16
37 110 0.40
38 43 0.15
39 23 0.08
40 26 0.09
41 19 0.07
42 3 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAAT
Found at i:774217 original size:38 final size:37
Alignment explanation
Indices: 773983--774264 Score: 333
Period size: 37 Copynumber: 7.5 Consensus size: 37
773973 TGAAAATACG
773983 TATATAATATATAGTTTCTAAAAAC-ATTTTGAAAA-T
1 TATATAATATATAGTTT-TAAAAACAATTTTGAAAACT
* *
774019 GTATATAATATATAGTTTTTAAAACACTTTTGAAAAC-
1 -TATATAATATATAGTTTTAAAAACAATTTTGAAAACT
* *
774056 TATATAATATATAGTTTTTAAAAC-ATCTTAGAAAA-T
1 TATATAATATATAGTTTTAAAAACAAT-TTTGAAAACT
*
774092 ATATATAATATATAGTTTTTAAAATC-ATTTTGAAAACT
1 -TATATAATATATAG-TTTTAAAAACAATTTTGAAAACT
* * *
774130 TATATAATATATAGTTTTTGAAAACATTTTTTAAAAAACT
1 TATATAATATATAG-TTTTAAAAACA-ATTTT-GAAAACT
774170 TATATAATATATAGTTTTAAAAACAATTTTGAAAACT
1 TATATAATATATAGTTTTAAAAACAATTTTGAAAACT
* * **
774207 TATATAAATATATAGTTTTAAAAATATTTTTGAAAAAA
1 TATAT-AATATATAGTTTTAAAAACAATTTTGAAAACT
774245 TATATAATATATAGTTTTAA
1 TATATAATATATAGTTTTAA
774265 TTTTTTTTAG
Statistics
Matches: 216, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.00
36 37 0.17
37 96 0.44
38 48 0.22
39 14 0.06
40 20 0.09
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (37 bp):
TATATAATATATAGTTTTAAAAACAATTTTGAAAACT
Found at i:774287 original size:77 final size:73
Alignment explanation
Indices: 773983--774344 Score: 372
Period size: 73 Copynumber: 4.8 Consensus size: 73
773973 TGAAAATACG
** * *
773983 TATATAATATATAGTTTCTAAAAACATTTT-GAAAATGTATATAATATATAGTTTTTAAAACACT
1 TATATAATATATAGTTT-TAAAAACATTTTAGAAAAAATATATAATATATAG-TTTTAAAATAAT
774047 TTTGAAAAC-
64 TTTGAAAACT
* * * *
774056 TATATAATATATAGTTTTTAAAACATCTTAGAAAATATATATAATATATAGTTTTTAAAATCATT
1 TATATAATATATAGTTTTAAAAACATTTTAGAAAAAATATATAATATATAG-TTTTAAAATAATT
774121 TTGAAAACT
65 TTGAAAACT
* ** *
774130 TATATAATATATAGTTTTTGAAAACATTTTTTAAAAAACTTATATAATATATAGTTTTAAAAACA
1 TATATAATATATAG-TTTTAAAAACATTTTAGAAAAAA--TATATAATATATAGTTTT-AAAATA
774195 ATTTTGAAAACT
62 ATTTTGAAAACT
* * * **
774207 TATATAAATATATAGTTTTAAAAATATTTTTGAAAAAATATATAATATATAGTTTT-AATTTTTT
1 TATAT-AATATATAGTTTTAAAAACATTTTAGAAAAAATATATAATATATAGTTTTAAAATAATT
774271 TTAGAAAA-T
65 TT-GAAAACT
* * * *
774280 ATATTATATTATATGGTTTTGAAAAACATTTTAAAAAAAATCATATATAAAATATAGTTTTAAAA
1 -TA-TATAATATATAGTTTT-AAAAACATTTT-AGAAAAA--ATATATAATATATAGTTTTAAAA
774345 AATATTTTTA
Statistics
Matches: 247, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
72 10 0.04
73 63 0.26
74 32 0.13
75 49 0.20
76 9 0.04
77 55 0.22
78 27 0.11
79 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (73 bp):
TATATAATATATAGTTTTAAAAACATTTTAGAAAAAATATATAATATATAGTTTTAAAATAATTT
TGAAAACT
Found at i:774287 original size:114 final size:111
Alignment explanation
Indices: 773983--774353 Score: 343
Period size: 115 Copynumber: 3.3 Consensus size: 111
773973 TGAAAATACG
* **
773983 TATAT-AATATATAGTTTCTAAAAACA-TTTTGAAAATGTATATAATATATAGTTTTTAAAACA-
1 TATATAAATATATAGTTT-TAAAAATATTTTTGAAAAAATATATAATATATAGTTTTT-AAACAT
* * * * *
774045 CTTTT--GAAAACTATATAATATATAGTTTTTAAAACATCTTAGAAAA-
64 TTTTTAAAAAAATTATATAATATATAGTTTTAAAAACAT-TTTGAAAAC
* **
774091 TATATATAATATATAGTTTTTAAAATCA-TTTTGAAAACTTATATAATATATAGTTTTTGAAAAC
1 TATATA-AATATATAGTTTTAAAAAT-ATTTTTGAAAAAATATATAATATATAGTTTTT--AAAC
*
774155 ATTTTTTAAAAAACTTATATAATATATAGTTTTAAAAACAATTTTGAAAAC
62 ATTTTTTAAAAAAATTATATAATATATAGTTTTAAAAAC-ATTTTGAAAAC
**
774206 TTATATAAATATATAGTTTTAAAAATATTTTTGAAAAAATATATAATATATAG-TTTT-AATTTT
1 -TATATAAATATATAGTTTTAAAAATATTTTTGAAAAAATATATAATATATAGTTTTTAAACATT
* *
774269 TTTTAGAAAATATATTATAT--TATATGGTTTTGAAAAACATTTTAAAAAAAATC
65 TTTTA-AAAA-A-ATTATATAATATATAGTTTT-AAAAACATTTT---GAAAA-C
774322 ATATATAAA-ATATAGTTTTAAAAAATATTTTT
1 -TATATAAATATATAGTTTT-AAAAATATTTTT
774354 ATTATTTTTT
Statistics
Matches: 224, Mismatches: 19, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
108 5 0.02
109 5 0.02
110 41 0.18
111 15 0.07
112 23 0.10
113 7 0.03
114 44 0.20
115 57 0.25
116 27 0.12
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (111 bp):
TATATAAATATATAGTTTTAAAAATATTTTTGAAAAAATATATAATATATAGTTTTTAAACATTT
TTTAAAAAAATTATATAATATATAGTTTTAAAAACATTTTGAAAAC
Found at i:774364 original size:10 final size:10
Alignment explanation
Indices: 774349--774384 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
774339 TTAAAAAATA
774349 TTTTTATTAT
1 TTTTTATTAT
774359 TTTTTATTAT
1 TTTTTATTAT
*
774369 TTATTATTTAT
1 TTTTTA-TTAT
774380 TTTTT
1 TTTTT
774385 TCTCGTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:775583 original size:11 final size:11
Alignment explanation
Indices: 775549--775626 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
775539 AATTTAACCT
775549 TTTTTATTTT-
1 TTTTTATTTTA
* *
775559 TTTCTATTTCA
1 TTTTTATTTTA
775570 TTTTTATTTTA
1 TTTTTATTTTA
775581 TTTTT-TTAATATA
1 TTTTTATT--T-TA
* *
775594 TTTTTATTCTC
1 TTTTTATTTTA
*
775605 TTATTATTATTA
1 TTTTTATT-TTA
775617 TTATTTATTT
1 TT-TTTATTT
775627 GTTTTGATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
10 10 0.20
11 22 0.43
12 5 0.10
13 12 0.24
14 2 0.04
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:775596 original size:24 final size:26
Alignment explanation
Indices: 775550--775601 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
775540 ATTTAACCTT
* *
775550 TTTTATTTTTTTCTATTTCATTTTTA
1 TTTTATTTTTTTCAATATCATTTTTA
775576 TTTTATTTTTTT-AATAT-ATTTTTA
1 TTTTATTTTTTTCAATATCATTTTTA
775600 TT
1 TT
775602 CTCTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 3 0.12
26 12 0.50
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTATTTTTTTCAATATCATTTTTA
Found at i:775661 original size:29 final size:30
Alignment explanation
Indices: 775605--775661 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
775595 TTTTATTCTC
**
775605 TTATTATTATTATTATTTATTTGTTTTGAT
1 TTATTATTATTATTATTTATTTACTTTGAT
775635 TTATTATT-TTATTATTCTA-TTACTTTG
1 TTATTATTATTATTATT-TATTTACTTTG
775662 TTGTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (30 bp):
TTATTATTATTATTATTTATTTACTTTGAT
Found at i:776666 original size:21 final size:21
Alignment explanation
Indices: 776642--776686 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
776632 TATTTTTATA
* *
776642 TTTTGAAATTAAATTTAATAT
1 TTTTCAAACTAAATTTAATAT
* *
776663 TTTTCATACTAAATTTATTAT
1 TTTTCAAACTAAATTTAATAT
776684 TTT
1 TTT
776687 CATATTTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTCAAACTAAATTTAATAT
Found at i:776688 original size:20 final size:21
Alignment explanation
Indices: 776651--776690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
776641 ATTTTGAAAT
776651 TAAATTTAATATTTTTCATAC
1 TAAATTTAATATTTTTCATAC
*
776672 TAAATTTATTA-TTTTCATA
1 TAAATTTAATATTTTTCATA
776691 TTTCTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAATTTAATATTTTTCATAC
Found at i:778031 original size:20 final size:18
Alignment explanation
Indices: 777995--778060 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
777985 ATTTGTCTCA
777995 AAGGACCACTATGTTCCG
1 AAGGACCACTATGTTCCG
778013 AAGGACCACTGATTGTTCCG
1 AAGGACCACT-A-TGTTCCG
*
778033 AAGAACCACTATG-TCTCG
1 AAGGACCACTATGTTC-CG
778051 AAGGACCACT
1 AAGGACCACT
778061 GATTATCCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.05
18 23 0.53
19 2 0.05
20 16 0.37
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (18 bp):
AAGGACCACTATGTTCCG
Found at i:779666 original size:12 final size:12
Alignment explanation
Indices: 779619--779659 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
779609 TATATATATG
* *
779619 AAATTATATTTA
1 AAATTAAATTAA
779631 AAATTAAATTAA
1 AAATTAAATTAA
779643 AAATTAAATTAA
1 AAATTAAATTAA
779655 AAATT
1 AAATT
779660 TATTTAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATTAAATTAA
Found at i:780018 original size:20 final size:20
Alignment explanation
Indices: 779993--780033 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
779983 TTTAAATATT
779993 TTATATTAGATAAATTTAGC
1 TTATATTAGATAAATTTAGC
780013 TTATATTAGATAAATTTAGC
1 TTATATTAGATAAATTTAGC
780033 T
1 T
780034 CAGACCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
TTATATTAGATAAATTTAGC
Found at i:788274 original size:40 final size:40
Alignment explanation
Indices: 788224--788301 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
788214 CCGACTCAAA
*
788224 ATATTATATATCGTCCACCCTA-TCCGACCAGATCCGAAT
1 ATATTATATATCCTCCACCCTATTCCGACCAGATCCGAAT
* * *
788263 ATATATATATATCCTCCACTCTATTCTGACCCGATCCGA
1 ATAT-TATATATCCTCCACCCTATTCCGACCAGATCCGA
788302 CCCGGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.12
40 16 0.48
41 13 0.39
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (40 bp):
ATATTATATATCCTCCACCCTATTCCGACCAGATCCGAAT
Found at i:803387 original size:23 final size:22
Alignment explanation
Indices: 803344--803388 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
803334 GATATTCTAT
803344 AAATTAAATATAAAAATACTAA
1 AAATTAAATATAAAAATACTAA
803366 AAATTAAATTATTAAAAA-ACTAA
1 AAATTAAA-TA-TAAAAATACTAA
803389 TTTAAGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 7 0.33
24 6 0.29
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATTAAATATAAAAATACTAA
Found at i:804198 original size:6 final size:6
Alignment explanation
Indices: 804188--804258 Score: 97
Period size: 6 Copynumber: 11.3 Consensus size: 6
804178 GGATTTTAGT
* *
804188 TTGAAT TTGAAT TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
804236 TTGAAAAA TTGAAA TTGAGAA TT
1 TTG--AAA TTGAAA TTGA-AA TT
804259 ATCACTTGTT
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
6 51 0.84
7 4 0.07
8 6 0.10
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (6 bp):
TTGAAA
Found at i:805943 original size:796 final size:796
Alignment explanation
Indices: 804411--806003 Score: 3051
Period size: 796 Copynumber: 2.0 Consensus size: 796
804401 TTTATTTACT
*
804411 TTAAATTTTTATTTTACTTTATTTAAAAATGCTAAGTATGATTTTTATCATGCTTAGCTAATTTT
1 TTAAATTTTTATTTTACTTTATTTAAAAATACTAAGTATGATTTTTATCATGCTTAGCTAATTTT
*
804476 CCAATAAGCCAAAGGCTTAAGTGATAACTCAATTTCAATAGTGAGAATTGAAAAACACCTAATAT
66 CCAATAACCCAAAGGCTTAAGTGATAACTCAATTTCAATAGTGAGAATTGAAAAACACCTAATAT
*
804541 ATTCGAATATAATTCTTAATTTTCTGAAAATTTAGATTGGAAATTGACCTTTCTTTTTAAAATTT
131 ATTCGAATATAATTCTTAATTTTCTGAAAATTTAGATTGGAAATTGACATTTCTTTTTAAAATTT
804606 CTACACTTTCAATTCAAAAAGAGCTTGTTGGTTTGATTGTTGTTCTGATTTAAAGTTAGGAGAAA
196 CTACACTTTCAATTCAAAAAGAGCTTGTTGGTTTGATTGTTGTTCTGATTTAAAGTTAGGAGAAA
804671 GAATTGGCTTGTAGCAAATTCGACTTCCTGTGAACACACTTAGCGACGGTCCGCTAAGGGAAATT
261 GAATTGGCTTGTAGCAAATTCGACTTCCTGTGAACACACTTAGCGACGGTCCGCTAAGGGAAATT
804736 GAGATCGGGTTCGATTCTCATTGAGACAACATAACTCGAGTCAGAATTTTCAATGGTTAAATTAT
326 GAGATCGGGTTCGATTCTCATTGAGACAACATAACTCGAGTCAGAATTTTCAATGGTTAAATTAT
* * *
804801 ATTGGTGCTAGAGACGATTGTCGTGGTTACTCCAAATAAGGACTAAATTCTAAAGATTAGTTTTG
391 ATTGGTGCTAGAGACGATTGTAGTGGTTACTCCAAATAAGGACTAAATTCCAAAGATTAGCTTTG
*
804866 GATTGTTGGTTTACCGGAGAGAAAAGTAAGTTACAAGGGTTGGGCCTTGTAGACTGTAACTGACA
456 GATTGTTGGTTTACCGGAGAGAAAAGTAAGTTACAAGGGTCGGGCCTTGTAGACTGTAACTGACA
804931 TATATCTAGAGTAAAATCCACTTTGATAATCAATTGGGATTTTTTTTGCTCAACAACTTGTAATT
521 TATATCTAGAGTAAAATCCACTTTGATAATCAATTGGGATTTTTTTTGCTCAACAACTTGTAATT
*
804996 TTTATTTCACTCGAAGGGAAAATATGTCCCCAACTAAGAGCCTCATTAAAAACCCCCTAATCCTA
586 TTTATTTCACTCGAAGGGAAAACATGTCCCCAACTAAGAGCCTCATTAAAAACCCCCTAATCCTA
*
805061 CATGGGGAAAAGAGTACTCCATAGTTGGGGAGAAACACATAAAACATTAATACACAAAATCAAGA
651 CATGGGGAAAAGAGTACTCCACAGTTGGGGAGAAACACATAAAACATTAATACACAAAATCAAGA
805126 GATAAAATACACACCTAATATCGAACTACCCCACCTATGACAAAATTCACAAATTGCAGTCATGA
716 GATAAAATACACACCTAATATCGAACTACCCCACCTATGACAAAATTCACAAATTGCAGTCATGA
805191 AAATGACCTCGCTACA
781 AAATGACCTCGCTACA
*
805207 TTAAATTTTTATTTTACTTTATTTAAAAATACTAAGTATGATTTTTGTCATGCTTAGCTAATTTT
1 TTAAATTTTTATTTTACTTTATTTAAAAATACTAAGTATGATTTTTATCATGCTTAGCTAATTTT
805272 CCAATAACCCAAAGGCTTAAGTGATAACTCAATTTCAATAGTGAGAATTGAAAAACACCTAATAT
66 CCAATAACCCAAAGGCTTAAGTGATAACTCAATTTCAATAGTGAGAATTGAAAAACACCTAATAT
805337 ATTCGAATATAATTCTTAATTTTCTGAAAATTTAGATTGGAAATTGACATTTCTTTTTAAAATTT
131 ATTCGAATATAATTCTTAATTTTCTGAAAATTTAGATTGGAAATTGACATTTCTTTTTAAAATTT
805402 CTACACTTTCAATTCAAAAAGAGCTTGTTGGTTTGATTGTTGTTCTGATTTAAAGTTAGGAGAAA
196 CTACACTTTCAATTCAAAAAGAGCTTGTTGGTTTGATTGTTGTTCTGATTTAAAGTTAGGAGAAA
805467 GAATTGGCTTGTAGCAAATTCGACTTCCTGTGAACACACTTAGCGACGGTCCGCTAAGGGAAATT
261 GAATTGGCTTGTAGCAAATTCGACTTCCTGTGAACACACTTAGCGACGGTCCGCTAAGGGAAATT
805532 GAGATCGGGTTCGATTCTCATTGAGACAACATAACTCGAGTCAGAATTTTCAATGGTTAAATTAT
326 GAGATCGGGTTCGATTCTCATTGAGACAACATAACTCGAGTCAGAATTTTCAATGGTTAAATTAT
*
805597 ATTGGTGCTAGAGACGATTGTATTGGTTACTCCAAATAAGGACTAAATTCCAAAGATTAGCTTTG
391 ATTGGTGCTAGAGACGATTGTAGTGGTTACTCCAAATAAGGACTAAATTCCAAAGATTAGCTTTG
805662 GATTGTTGGTTTACCGGAGAGAAAAGTAAGTTACAAGGGTCGGGCCTTGTAGACTGTAACTGACA
456 GATTGTTGGTTTACCGGAGAGAAAAGTAAGTTACAAGGGTCGGGCCTTGTAGACTGTAACTGACA
*
805727 TATATCTAGAGTAAAATCCACTTTGATAATCAATTGGGATTTTTTTTGCTCAACAAGTTGTAATT
521 TATATCTAGAGTAAAATCCACTTTGATAATCAATTGGGATTTTTTTTGCTCAACAACTTGTAATT
* *
805792 TTTATTTCACTCGGAGGGAAAACATGTCCCCAACTAAGTGCCTCATTAAAAACCCCCTAATCCTA
586 TTTATTTCACTCGAAGGGAAAACATGTCCCCAACTAAGAGCCTCATTAAAAACCCCCTAATCCTA
805857 CATGGGGAAAAGAGTACTCCACAGTTGGGGAGAAACACATAAAACATTAATACACAAAATCAAGA
651 CATGGGGAAAAGAGTACTCCACAGTTGGGGAGAAACACATAAAACATTAATACACAAAATCAAGA
*
805922 GATAAAATACACACCTAATATCGAACTGCCCCACCTATGACAAAATTCACAAATTGCAGTCATGA
716 GATAAAATACACACCTAATATCGAACTACCCCACCTATGACAAAATTCACAAATTGCAGTCATGA
805987 AAATGACCTCGCTACA
781 AAATGACCTCGCTACA
806003 T
1 T
806004 CTAGCAGGAT
Statistics
Matches: 782, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
796 782 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (796 bp):
TTAAATTTTTATTTTACTTTATTTAAAAATACTAAGTATGATTTTTATCATGCTTAGCTAATTTT
CCAATAACCCAAAGGCTTAAGTGATAACTCAATTTCAATAGTGAGAATTGAAAAACACCTAATAT
ATTCGAATATAATTCTTAATTTTCTGAAAATTTAGATTGGAAATTGACATTTCTTTTTAAAATTT
CTACACTTTCAATTCAAAAAGAGCTTGTTGGTTTGATTGTTGTTCTGATTTAAAGTTAGGAGAAA
GAATTGGCTTGTAGCAAATTCGACTTCCTGTGAACACACTTAGCGACGGTCCGCTAAGGGAAATT
GAGATCGGGTTCGATTCTCATTGAGACAACATAACTCGAGTCAGAATTTTCAATGGTTAAATTAT
ATTGGTGCTAGAGACGATTGTAGTGGTTACTCCAAATAAGGACTAAATTCCAAAGATTAGCTTTG
GATTGTTGGTTTACCGGAGAGAAAAGTAAGTTACAAGGGTCGGGCCTTGTAGACTGTAACTGACA
TATATCTAGAGTAAAATCCACTTTGATAATCAATTGGGATTTTTTTTGCTCAACAACTTGTAATT
TTTATTTCACTCGAAGGGAAAACATGTCCCCAACTAAGAGCCTCATTAAAAACCCCCTAATCCTA
CATGGGGAAAAGAGTACTCCACAGTTGGGGAGAAACACATAAAACATTAATACACAAAATCAAGA
GATAAAATACACACCTAATATCGAACTACCCCACCTATGACAAAATTCACAAATTGCAGTCATGA
AAATGACCTCGCTACA
Found at i:814045 original size:116 final size:116
Alignment explanation
Indices: 813841--814066 Score: 434
Period size: 116 Copynumber: 1.9 Consensus size: 116
813831 TTATTTTTAT
813841 GCTATTATCCCCGCCTACAAATTAAATATACTATCAAATTTTATAAAAACATGAAAAATTGTTTA
1 GCTATTATCCCCGCCTACAAATTAAATATACTATCAAATTTTATAAAAACATGAAAAATTGTTTA
813906 AGTATTATTAATAAATGATAAGTATTCATTGCCAATCTTTAATTGTGTGAA
66 AGTATTATTAATAAATGATAAGTATTCATTGCCAATCTTTAATTGTGTGAA
*
813957 GCTATTATCCCCGCCTACAAATTAAATATACTATCAAATTTTATAAAAACGTGAAAAATTGTTTA
1 GCTATTATCCCCGCCTACAAATTAAATATACTATCAAATTTTATAAAAACATGAAAAATTGTTTA
*
814022 AGTATTATTAATAATTGATAAGTATTCATTGCCAATCTTTAATTG
66 AGTATTATTAATAAATGATAAGTATTCATTGCCAATCTTTAATTG
814067 GGATCACACA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 108 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (116 bp):
GCTATTATCCCCGCCTACAAATTAAATATACTATCAAATTTTATAAAAACATGAAAAATTGTTTA
AGTATTATTAATAAATGATAAGTATTCATTGCCAATCTTTAATTGTGTGAA
Found at i:825413 original size:132 final size:132
Alignment explanation
Indices: 825149--825551 Score: 589
Period size: 132 Copynumber: 3.1 Consensus size: 132
825139 AATGGAAACG
* * * *
825149 TTGAAAACATCC-AGCACTGAAGGTCTTACGGACGGCCCGAAGGACTT-A-TCATCTTGCTCGAA
1 TTGAAAACATCCTA-CACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAGT-ATCATGCTCGGA
* * * *
825211 AGACTTA-TAGATGACCCGAAGGATTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAAA
64 AGACTTACT-GATGGCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTC-TAAAA
*
825275 TCTCAT
127 TATCAT
825281 TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAGTATCATGCTCGGAAG
1 TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAGTATCATGCTCGGAAG
* *
825346 ACTTACTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAACATATC
66 ACTTACTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATATC
825411 AT
131 AT
* * * * *
825413 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGGAGGACTTACGAATCATTCTCGGAAG
1 TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAGTATCATGCTCGGAAG
*
825478 ACTTACTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGGTTAGTTTCTAAAATATC
66 ACTTACTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATATC
825543 AT
131 AT
825545 TTGAAAA
1 TTGAAAA
825552 TATCATGTTG
Statistics
Matches: 248, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
132 183 0.74
133 63 0.25
134 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (132 bp):
TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAGTATCATGCTCGGAAG
ACTTACTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATATC
AT
Found at i:835918 original size:20 final size:20
Alignment explanation
Indices: 835893--835941 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
835883 TCCAGTACTA
*
835893 AAGGTCTTACGGATGGCTCG
1 AAGGTCTTACGGATGGCCCG
835913 AAGGTCTTACGGATGGCCCG
1 AAGGTCTTACGGATGGCCCG
*
835933 AAGGACTTA
1 AAGGTCTTA
835942 TCATCTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.22
Consensus pattern (20 bp):
AAGGTCTTACGGATGGCCCG
Found at i:836162 original size:132 final size:132
Alignment explanation
Indices: 835912--836428 Score: 732
Period size: 132 Copynumber: 3.9 Consensus size: 132
835902 CGGATGGCTC
* * * * * * * *
835912 GAAGGTCTTACGGATGGCCCGAAGGACTTA-TCATCTTGCTTGAAAGACTTATAGATGACCCGAA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAGACTTACAGATGGCCCGGA
* * * * *
835976 GGATTTAAAAATCAAGAAACCCCCGAAGGCATAGTTTCTTAAAATCTCATTTGAAAACATCCTGC
66 GGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTC-TAAAATATCATTTGAAAACATCCTGC
836041 ACT
130 ACT
* * ** *
836044 GAAGGTCTTATGGATGGCCCGAAGGACTTACACATCATGCTCAGAAGACTTATTGATGGCACGGA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAGACTTACAGATGGCCCGGA
* * *
836109 CGATTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATCATTTGAAAACATCATGCA
66 GGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATCATTTGAAAACATCCTGCA
*
836174 TT
131 CT
** *
836176 GAAGGTCTTATGGATGGCCCCCAGGACTTACGCATCATGCTCGGAAGACTTACTGATGGCCCGGA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAGACTTACAGATGGCCCGGA
*
836241 GGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATAGCATTTGAAAACATCCTGCA
66 GGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATCATTTGAAAACATCCTGCA
836306 CT
131 CT
*
836308 GAAGGTCTTATGGATGGCCC-AGAGGGCTTACGCATCATGCTCGGAAGACTTACAGATGGCCCGG
1 GAAGGTCTTATGGATGGCCCGA-AGGACTTACGCATCATGCTCGGAAGACTTACAGATGGCCCGG
* * *
836372 AGGACTTACAAATCAAGAGACCCCCGAAGGGTTAGTTTCTAAAATATCATTTGAAAA
65 AGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATCATTTGAAAA
836429 TATCATGTTG
Statistics
Matches: 348, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
132 289 0.83
133 59 0.17
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (132 bp):
GAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAGACTTACAGATGGCCCGGA
GGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATCATTTGAAAACATCCTGCA
CT
Found at i:838361 original size:24 final size:24
Alignment explanation
Indices: 838334--838380 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
838324 CTATTTTCTT
838334 CTTTCTTCGTT-TTTTCTTTTTTTC
1 CTTT-TTCGTTCTTTTCTTTTTTTC
**
838358 CTTTTTTTTTCTTTTCTTTTTTT
1 CTTTTTCGTTCTTTTCTTTTTTT
838381 TTCTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (24 bp):
CTTTTTCGTTCTTTTCTTTTTTTC
Found at i:838376 original size:15 final size:15
Alignment explanation
Indices: 838343--838391 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
838333 TCTTTCTTCG
838343 TTTTTTCTTT-TTTTCC
1 TTTTTT-TTTCTTTT-C
838359 TTTTTTTTTCTTTTC
1 TTTTTTTTTCTTTTC
838374 TTTTTTTTTCTTTT-
1 TTTTTTTTTCTTTTC
838388 TTTT
1 TTTT
838392 ATATCTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.12
15 18 0.56
16 10 0.31
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTCTTTTC
Found at i:838382 original size:10 final size:10
Alignment explanation
Indices: 838343--838391 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
838333 TCTTTCTTCG
838343 TTTTTTCTTTT
1 TTTTTTC-TTT
*
838354 TTTCCTTTTTTT
1 TTT--TTTCTTT
838366 TTCTTTTCTTT
1 TT-TTTTCTTT
838377 TTTTTTCTTT
1 TTTTTTCTTT
838387 TTTTT
1 TTTTT
838392 ATATCTCTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 13 0.39
11 11 0.33
12 5 0.15
13 4 0.12
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:838387 original size:24 final size:23
Alignment explanation
Indices: 838343--838410 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
838333 TCTTTCTTCG
*
838343 TTTTTTCTTTTTTTCCTTTTTTT
1 TTTTTTCTTTTTTTTCTTTTTTT
838366 TTCTTTTCTTTTTTTTTCTTTTTTT
1 TT-TTTTC-TTTTTTTTCTTTTTTT
* * *
838391 TATATCTCTTCTTTTTCTTT
1 T-TTTTTCTTTTTTTTCTTT
838411 ATGTGTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 2 0.05
24 16 0.42
25 19 0.50
26 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTCTTTTTTT
Found at i:843886 original size:29 final size:30
Alignment explanation
Indices: 843834--843897 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
843824 AAACATGAAC
*
843834 TTAAAGGATTAAAATAACATAAACGATA-AT
1 TTAAAGGATTAAAATAACAAAAAC-ATACAT
* *
843864 TTAAGGGATT-AAATAGCAAAAACATACAT
1 TTAAAGGATTAAAATAACAAAAACATACAT
843893 TTAAA
1 TTAAA
843898 TGACAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 17 0.59
30 9 0.31
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.27
Consensus pattern (30 bp):
TTAAAGGATTAAAATAACAAAAACATACAT
Found at i:845916 original size:3 final size:3
Alignment explanation
Indices: 845908--845960 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
845898 ATGATATTAG
*
845908 TAA TAA TAA TAA TAA TAA TAAA TAA -ATA TAA TAA TAA TAA -ATA TAC
1 TAA TAA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TA-A TAA
845954 TAA TAA T
1 TAA TAA T
845961 CTTTTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:847050 original size:18 final size:18
Alignment explanation
Indices: 847029--847076 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
847019 CTAGTTGTAA
*
847029 CTGAACCTGCTGTTGCAT
1 CTGAACCTGCTGCTGCAT
* *
847047 CTGAACTTGCTGCTGCGT
1 CTGAACCTGCTGCTGCAT
*
847065 CTGACCCTGCTG
1 CTGAACCTGCTG
847077 GTGCTCTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.12, C:0.31, G:0.25, T:0.31
Consensus pattern (18 bp):
CTGAACCTGCTGCTGCAT
Found at i:855179 original size:3 final size:3
Alignment explanation
Indices: 855171--855196 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
855161 GGACGAAAGG
855171 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
855197 ATTACGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:870391 original size:33 final size:33
Alignment explanation
Indices: 870346--870415 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
870336 TGTAACTAGA
*
870346 AAATAAAGCCGTCAAAAG-AAAACCCAGA-AATTC
1 AAATAAACCCGTCAAAAGCAAAA-CC-GATAATTC
*
870379 AAATAAACCCGTCTAAAGCAAAACCGATAATTC
1 AAATAAACCCGTCAAAAGCAAAACCGATAATTC
870412 AAAT
1 AAAT
870416 GCAGATAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 2 0.06
33 27 0.82
34 4 0.12
ACGTcount: A:0.53, C:0.21, G:0.10, T:0.16
Consensus pattern (33 bp):
AAATAAACCCGTCAAAAGCAAAACCGATAATTC
Found at i:875461 original size:20 final size:19
Alignment explanation
Indices: 875419--875462 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
875409 ACCATTTTTT
*
875419 TTTTAAAAAATCAATATTA
1 TTTTAAAAAATCAATATGA
875438 TTTTAAAAAAT-AATTATGA
1 TTTTAAAAAATCAA-TATGA
875457 CTTTTA
1 -TTTTA
875463 TTTGAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 15 0.68
20 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAAAATCAATATGA
Found at i:876475 original size:60 final size:59
Alignment explanation
Indices: 876342--876485 Score: 184
Period size: 59 Copynumber: 2.4 Consensus size: 59
876332 CATATTCAAT
* * *
876342 TTAAAGAACCAAAATAGCAAAAACAGAAACTTAAAGGACTAAATAGAAAAAATAAAAAC
1 TTAAAGGACTAAAATAGCAAAAACAGAAACTTAAAGGACTAAATAGAAAAAACAAAAAC
* * * *
876401 TTAAAGGACTAAAATAGAAAAAATAGAAATTTAAAGGACTAAAATA-ACAAGAACAAAAA-
1 TTAAAGGACTAAAATAGCAAAAACAGAAACTTAAAGGACT-AAATAGA-AAAAACAAAAAC
876460 TATAAAGGACTAAAATAGCAAAAACA
1 T-TAAAGGACTAAAATAGCAAAAACA
876486 AAAATTCAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 37 0.51
60 36 0.49
ACGTcount: A:0.64, C:0.10, G:0.11, T:0.15
Consensus pattern (59 bp):
TTAAAGGACTAAAATAGCAAAAACAGAAACTTAAAGGACTAAATAGAAAAAACAAAAAC
Found at i:876476 original size:15 final size:15
Alignment explanation
Indices: 876402--876476 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
876392 AATAAAAACT
876402 TAAAGGACTAAAATA
1 TAAAGGACTAAAATA
* * * *
876417 GAAA-AAATAGAAATT
1 TAAAGGACTA-AAATA
876432 TAAAGGACTAAAATA
1 TAAAGGACTAAAATA
* *
876447 -ACAAGAACAAAAATA
1 TA-AAGGACTAAAATA
876462 TAAAGGACTAAAATA
1 TAAAGGACTAAAATA
876477 GCAAAAACAA
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 4 0.09
15 36 0.82
16 4 0.09
ACGTcount: A:0.64, C:0.07, G:0.12, T:0.17
Consensus pattern (15 bp):
TAAAGGACTAAAATA
Found at i:876486 original size:30 final size:29
Alignment explanation
Indices: 876342--876491 Score: 167
Period size: 30 Copynumber: 5.1 Consensus size: 29
876332 CATATTCAAT
* * *
876342 TTAAAGAACCAAAATAGCAAAAACAGAAAC
1 TTAAAGGACTAAAATAGCAAAAACA-AAAA
* *
876372 TTAAAGGACT-AAATAGAAAAAATAAAAA
1 TTAAAGGACTAAAATAGCAAAAACAAAAA
* * *
876400 CTTAAAGGACTAAAATAGAAAAAATAGAAAT
1 -TTAAAGGACTAAAATAGCAAAAACA-AAAA
* *
876431 TTAAAGGACTAAAATAACAAGAACAAAAA
1 TTAAAGGACTAAAATAGCAAAAACAAAAA
876460 TATAAAGGACTAAAATAGCAAAAACAAAAA
1 T-TAAAGGACTAAAATAGCAAAAACAAAAA
876490 TT
1 TT
876492 CAGAGGGTTG
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
28 3 0.03
29 27 0.26
30 70 0.68
31 3 0.03
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.16
Consensus pattern (29 bp):
TTAAAGGACTAAAATAGCAAAAACAAAAA
Found at i:876491 original size:60 final size:59
Alignment explanation
Indices: 876342--876491 Score: 187
Period size: 60 Copynumber: 2.5 Consensus size: 59
876332 CATATTCAAT
* * * *
876342 TTAAAGAACCAAAATAGCAAAAACAGAAACTTAAAGGACTAAATAGAAAAAATAAAAAC
1 TTAAAGGACTAAAATAGCAAAAACAGAAATTTAAAGGACTAAATAGAAAAAACAAAAAC
* * *
876401 TTAAAGGACTAAAATAGAAAAAATAGAAATTTAAAGGACTAAAATA-ACAAGAACAAAAA-
1 TTAAAGGACTAAAATAGCAAAAACAGAAATTTAAAGGACT-AAATAGA-AAAAACAAAAAC
*
876460 TATAAAGGACTAAAATAGCAAAAACAAAAATT
1 T-TAAAGGACTAAAATAGCAAAAACAGAAATT
876492 CAGAGGGTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 37 0.47
60 41 0.53
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.16
Consensus pattern (59 bp):
TTAAAGGACTAAAATAGCAAAAACAGAAATTTAAAGGACTAAATAGAAAAAACAAAAAC
Found at i:877960 original size:3 final size:3
Alignment explanation
Indices: 877954--877993 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
877944 TTTGTAGTAG
877954 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
877994 ATATTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:881607 original size:291 final size:290
Alignment explanation
Indices: 881083--881669 Score: 1156
Period size: 291 Copynumber: 2.0 Consensus size: 290
881073 AAAGGTCTAA
881083 GGATCAATATTGAAAAGACAGAGTATTTATGTTCAAACTTCAGTGGGAACCAAAACGATGAAGAT
1 GGATCAATATTGAAAAGACAGAGTATTTATGTTCAAACTTCAGTGGGAACCAAAACGATGAAGAT
*
881148 GTAGAAGTATGCATAGAAGGACACGTTCTACCCTCAAAGGATTGTTTTAAGTACCTAGGGTCTAT
66 GTAGAAGTATGCATAGAAGGACACGTTCTACCCTCAAAGGATTGTTTTAAGTACCTAGGGCCTAT
881213 GATACATAAGGATGGGGGTGTAGATGATGACGTTACACACCGTATAAAGGCGGGATGGCTAAAGT
131 GATACATAAGGATGGGGGTGTAGATGATGACGTTACACACCGTATAAAGGCGGGATGGCTAAAGT
881278 GGAGGGCAGCTACTGGAGTTTTGTGTGACAAGAAGGTGCCTCAAAAACTTAAGGGAAAATTTTAT
196 GGAGGGCAGCTACTGGAGTTTTGTGTGACAAGAAGGTGCCTCAAAAACTTAAGGGAAAATTTTAT
881343 AGAATGGCAATAAGACCAGCGTCGTTGTACT
261 AGAATGGCAATAAGACCAGCGTCGTTGTA-T
881374 GGATCAATATTGAAAAGACAGAGTATTTATGTTCAAACTTCAGTGGGAACCAAAACGATGAAGAT
1 GGATCAATATTGAAAAGACAGAGTATTTATGTTCAAACTTCAGTGGGAACCAAAACGATGAAGAT
881439 GTAGAAGTATGCATAGAAGGACACGTTCTACCCTCAAAGGATTGTTTTAAGTACCTAGGGCCTAT
66 GTAGAAGTATGCATAGAAGGACACGTTCTACCCTCAAAGGATTGTTTTAAGTACCTAGGGCCTAT
881504 GATACATAAGGATGGGGGTGTAGATGATGACGTTACACACCGTATAAAGGCGGGATGGCTAAAGT
131 GATACATAAGGATGGGGGTGTAGATGATGACGTTACACACCGTATAAAGGCGGGATGGCTAAAGT
881569 GGAGGGCAGCTACTGGAGTTTTGTGTGACAAGAAGGTGCCTCAAAAACTTAAGGGAAAATTTTAT
196 GGAGGGCAGCTACTGGAGTTTTGTGTGACAAGAAGGTGCCTCAAAAACTTAAGGGAAAATTTTAT
881634 AGAATGGCAATAAGACCAGCGTCGTTGTAT
261 AGAATGGCAATAAGACCAGCGTCGTTGTAT
881664 GGATCA
1 GGATCA
881670 GAATGTTGGG
Statistics
Matches: 295, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
290 7 0.02
291 288 0.98
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (290 bp):
GGATCAATATTGAAAAGACAGAGTATTTATGTTCAAACTTCAGTGGGAACCAAAACGATGAAGAT
GTAGAAGTATGCATAGAAGGACACGTTCTACCCTCAAAGGATTGTTTTAAGTACCTAGGGCCTAT
GATACATAAGGATGGGGGTGTAGATGATGACGTTACACACCGTATAAAGGCGGGATGGCTAAAGT
GGAGGGCAGCTACTGGAGTTTTGTGTGACAAGAAGGTGCCTCAAAAACTTAAGGGAAAATTTTAT
AGAATGGCAATAAGACCAGCGTCGTTGTAT
Found at i:882907 original size:131 final size:132
Alignment explanation
Indices: 882628--882935 Score: 379
Period size: 131 Copynumber: 2.3 Consensus size: 132
882618 GTCGTCTAAT
** * * * **
882628 GGTGACACAACTCTTACGCGATGAGGAGATCTGGTCGATGGATGACACAGTTCCTACGTGATGAG
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATGAG
* * * * * *
882693 GACGACTGGCCATCTTTAGGGAGGGTGATAACTCGGTTCCTACGGAATGAGGACGGTTGGTTATC
66 GACAACAGACCATCTTTAGGGA--GTGATAACACGGTTCCTACGGAATGAGGACGGCTAGTTATC
882758 TAGG
129 TAGG
* * *
882762 GGTGACACGGCTCCTACGTGATGAGTAGGTCTGGTCGGGGGATGACGC-GATTTCTACGTGATGA
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAG-TTCCTACGTGATGA
*
882826 GGACAACAGACCATCTTTAGGGA-TGATAACACGGTTCCTACGTG-ATGAGGATGGCTAGTTATC
65 GGACAACAGACCATCTTTAGGGAGTGATAACACGGTTCCTACG-GAATGAGGACGGCTAGTTATC
*
882889 TATG
129 TAGG
* *
882893 GGTGACACGGCTCCTACGTGATGAGGAAGTCTGGTCAGGGGAT
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGAT
882936 AACATGGTTC
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
131 77 0.51
132 1 0.01
133 1 0.01
134 72 0.48
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (132 bp):
GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGTGATGAG
GACAACAGACCATCTTTAGGGAGTGATAACACGGTTCCTACGGAATGAGGACGGCTAGTTATCTA
GG
Found at i:882970 original size:131 final size:132
Alignment explanation
Indices: 882702--882976 Score: 329
Period size: 131 Copynumber: 2.1 Consensus size: 132
882692 GGACGACTGG
* * *
882702 CCATCTTTAGGGAGGGTGATAACTCGGTTCCTACGGAATGAGGACGGTTGGTTATCTAGGGGTGA
1 CCATCTTTAGGGA--GTGATAACACGGTTCCTACGGAATGAGGACGGCTAGTTATCTAGGGGTGA
* * * * * * **
882767 CACGGCTCCTACGTGATGAGTAGGTCTGGTCGGGGGATGACGCGATTTCTACGTGATGAGGACAA
64 CACGGCTCCTACGTGATGAGGAAGTCTGGTCAGGGGATAACACGATTCCTACACGATGAGGACAA
*
882832 CAGA
129 CAAA
* *
882836 CCATCTTTAGGGA-TGATAACACGGTTCCTACGTG-ATGAGGATGGCTAGTTATCTATGGGTGAC
1 CCATCTTTAGGGAGTGATAACACGGTTCCTACG-GAATGAGGACGGCTAGTTATCTAGGGGTGAC
* * * ** *
882899 ACGGCTCCTACGTGATGAGGAAGTCTGGTCAGGGGATAACATGGTTCCTATACGATGAGGATGAT
65 ACGGCTCCTACGTGATGAGGAAGTCTGGTCAGGGGATAACACGATTCCTACACGATGAGGACAAC
882964 AAA
130 AAA
882967 CCATCTTTAG
1 CCATCTTTAG
882977 TGATAATGTT
Statistics
Matches: 120, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
131 106 0.88
132 1 0.01
134 13 0.11
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (132 bp):
CCATCTTTAGGGAGTGATAACACGGTTCCTACGGAATGAGGACGGCTAGTTATCTAGGGGTGACA
CGGCTCCTACGTGATGAGGAAGTCTGGTCAGGGGATAACACGATTCCTACACGATGAGGACAACA
AA
Found at i:883190 original size:63 final size:66
Alignment explanation
Indices: 882983--883337 Score: 291
Period size: 66 Copynumber: 5.4 Consensus size: 66
882973 TTAGTGATAA
* * * *
882983 TGTTTCAAGGGAAACAGA-CTCAAAGAT-GATGCTTCAAGAGAAGCTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGGGAAAC-GATCTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
883046 TT
65 TT
** * *
883048 CATTTCAAGGGAAACGATCTCAAAGATGGGTGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAAC
1 TGTTTCAAGGGAAACGATCTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
883113 T
66 T
* * * * *
883114 TGTTTCAAGGGAAACAATATCAAAGTTTGGTGTTTC-A-TG-AACTGTCTCAAGGGAGACAAAAT
1 TGTTTCAAGGGAAACGATCTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
883176 T
66 T
* ** * * * **
883177 TGTTTCAAAGGAAACGATCTCAAAGAT-TTTACGTTTCAAAAGAAACTATCTTAAGAAAGACAAG
1 TGTTTCAAGGGAAACGATCTCAAAGATGGGT--GTTTCAAGAGAAACTGTCTCAAGGGAGACAA-
883241 AACTT
63 AA-TT
* * * * * *
883246 TGTTTCAAGAGG-AACAAACTTAAAGAT---TTTTTCCAAAAGAAACTGTCTCAAGAGAGACAAA
1 TGTTTCAAG-GGAAACGATCTCAAAGATGGGTGTTT-CAAGAGAAACTGTCTCAAGGGAGACAAA
883307 ACTT
64 A-TT
* *
883311 TGTTTCCAGAGAAACAGA-CTCAAAGAT
1 TGTTTCAAGGGAAAC-GATCTCAAAGAT
883338 TATAAATTTT
Statistics
Matches: 237, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.00
63 45 0.19
64 9 0.04
65 51 0.22
66 88 0.37
67 17 0.07
68 2 0.01
69 22 0.09
70 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (66 bp):
TGTTTCAAGGGAAACGATCTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
T
Found at i:883427 original size:37 final size:36
Alignment explanation
Indices: 883370--883454 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
883360 ACAACTTCAG
* * *
883370 AATTTGTATCTTAAAGAAAAAT-TTTCCCAGTGAGACGA
1 AATTTGT-T-TTAAAGAAAAATGTCT-CAAGTGAGACAA
883408 AATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAA
1 AATTTGTTTTAA-AGAAAAATGTCTCAAGTGAGACAA
883445 AATTTGTTTT
1 AATTTGTTTT
883455 TCAGAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 4 0.10
37 29 0.69
38 9 0.21
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (36 bp):
AATTTGTTTTAAAGAAAAATGTCTCAAGTGAGACAA
Found at i:884666 original size:13 final size:13
Alignment explanation
Indices: 884648--884721 Score: 64
Period size: 13 Copynumber: 5.8 Consensus size: 13
884638 TATTAGCCTC
884648 TTTTTTCTTTATT
1 TTTTTTCTTTATT
884661 TTTTTTCTTTACTT
1 TTTTTTCTTTA-TT
* **
884675 TGTCTTTCTTTGCT
1 T-TTTTTCTTTATT
*
884689 TTGTTTC--TA-T
1 TTTTTTCTTTATT
*
884699 CTTTTTCTTTATT
1 TTTTTTCTTTATT
884712 TTTTTTCTTT
1 TTTTTTCTTT
884722 TTGTTTCGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
10 6 0.12
11 1 0.02
12 2 0.04
13 26 0.54
14 5 0.10
15 8 0.17
ACGTcount: A:0.05, C:0.14, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTTTCTTTATT
Found at i:884682 original size:15 final size:15
Alignment explanation
Indices: 884651--884692 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
884641 TAGCCTCTTT
*
884651 TTTCTTTA-TTT-TT
1 TTTCTTTACTTTGTC
884664 TTTCTTTACTTTGTC
1 TTTCTTTACTTTGTC
*
884679 TTTCTTTGCTTTGT
1 TTTCTTTACTTTGT
884693 TTCTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
14 3 0.12
15 14 0.56
ACGTcount: A:0.05, C:0.14, G:0.07, T:0.74
Consensus pattern (15 bp):
TTTCTTTACTTTGTC
Found at i:888430 original size:142 final size:140
Alignment explanation
Indices: 888177--888434 Score: 471
Period size: 142 Copynumber: 1.8 Consensus size: 140
888167 TTCACAATAC
888177 ACATATATATAGTTGTAATATAAAAATACATATACATGTAGGATTAGAACAAATTAAGATATTAC
1 ACATATATATAGTTGTAATATAAAAATACATATACATGTAGGATTAGAACAAATTAAGATATTAC
* *
888242 AAATCAAAATACAAATAATAAAAACAATAAATAATCATGTAGGATTTGAAAGCTAATAATGACTA
66 AAATCAAAATACAAATAATAAAAACAATAAATAATCATATACGATTT-AAAGCTAATAATGACTA
888307 TTTAAAATAAT
130 TTTAAAATAAT
888318 ACATATATATAGTTGTAATATAAAAAATACATATACATGTAGGATTAGAACAAATTAAGATATTA
1 ACATATATATAGTTGTAATAT-AAAAATACATATACATGTAGGATTAGAACAAATTAAGATATTA
*
888383 CAAATCAAAATACAAATAATAAAAACAATAAATAATCATATTCGATTTAAAG
65 CAAATCAAAATACAAATAATAAAAACAATAAATAATCATATACGATTTAAAG
888435 GACCAAAATA
Statistics
Matches: 113, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
141 25 0.22
142 88 0.78
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (140 bp):
ACATATATATAGTTGTAATATAAAAATACATATACATGTAGGATTAGAACAAATTAAGATATTAC
AAATCAAAATACAAATAATAAAAACAATAAATAATCATATACGATTTAAAGCTAATAATGACTAT
TTAAAATAAT
Found at i:888490 original size:29 final size:30
Alignment explanation
Indices: 888429--888575 Score: 201
Period size: 30 Copynumber: 5.0 Consensus size: 30
888419 CATATTCGAT
* * *
888429 TTAAAGGACCAAAATAGAAAAAACAAAAAC
1 TTAAAGGACTAAAATAGCAAAAACAGAAAC
*
888459 TTAAAGGACTAAAATAGCAAAAA-ATAAAC
1 TTAAAGGACTAAAATAGCAAAAACAGAAAC
*
888488 TTAAAGGACT-AAATAGCAAAAATAGAAAC
1 TTAAAGGACTAAAATAGCAAAAACAGAAAC
*
888517 TTAAAGGACTAAAATAGCAAGAACAGAAA-
1 TTAAAGGACTAAAATAGCAAAAACAGAAAC
*
888546 TATAAAGGACTAAAATAGCAAAAATAGAAA
1 T-TAAAGGACTAAAATAGCAAAAACAGAAA
888576 TTCAGAGGGT
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
28 12 0.11
29 31 0.29
30 63 0.59
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAACAGAAAC
Found at i:895447 original size:190 final size:190
Alignment explanation
Indices: 895067--895939 Score: 1291
Period size: 190 Copynumber: 4.6 Consensus size: 190
895057 AAAGAATATG
* * * * *
895067 TTTCACCACTCTTCCGTGAAGT-TTAGACTCAAACTTGGA-TTAC-TCCACTACTCTT-TCGTGG
1 TTTCACTACTCTTCCGTGAA-TATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCT-GTGG
* * * *
895128 AGTTCTCGTACTTTGCTGAAAAATCCGTTCCACTACTATTTCGTGGAG---AG--CGAATTTTG-
64 AGTTCTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTCGTGGAGTTTAGATTGAA-TTTGC
* *
895187 ATCTTGCTTCTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
128 TTC-TGCTTTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
*
895251 TTTCACTACTCTTCCATGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCTGTGGAG
1 TTTCACTACTCTTCCGTGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCTGTGGAG
*
895316 TTCTTATACTTTGCTGAAAAATCTGTTCCACTACTCTTTCGTGGAGTTTAGATTGAATTTGCTTC
66 TTCTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTCGTGGAGTTTAGATTGAATTTGCTTC
*
895381 TGCTTTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGATTTGACAAGAATCTAA
131 TGCTTTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
*
895441 TTTCACTACTCTTCCGTGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCCGTGGAG
1 TTTCACTACTCTTCCGTGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCTGTGGAG
* * * *
895506 TTCTCATACTTTGCTAAAAAATATGTTCCACTACTCTTTCGTGGAGTTTAGATTGAATTTGTTTA
66 TTCTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTCGTGGAGTTTAGATTGAATTTGCTTC
* * *
895571 TGTTTTTACTTCACTACTCTTCCATGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
131 TGCTTTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
* *
895631 TTTCACTACTCTTCCGTAAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCCGTGGAG
1 TTTCACTACTCTTCCGTGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCTGTGGAG
* *
895696 TTCTCATACTTTGCTGAAAAATCCT-TTCCACTACTCTTTCGTGGAGTTTAGATTAAATTTTCTT
66 TTCTCATACTTTGCTGAAAAAT-CTGTTCCACTACTCTTTCGTGGAGTTTAGATTGAATTTGCTT
* * * *
895760 CTGATGTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGATAAAAATCTAA
130 CTGCTTTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
* * * *
895821 TTTCACTACTCTTCCATGAATATCATATTCAAAGTTAGATTTGCTTCCACTACTCTTTTGTGGAG
1 TTTCACTACTCTTCCGTGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCTGTGGAG
* * *
895886 TTCTCATACTTTGCTGAAAATTCCGTTCCGCTACTCTTTCGTGGAGTTTAGATT
66 TTCTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTCGTGGAGTTTAGATT
895940 TATGATTGAA
Statistics
Matches: 630, Mismatches: 47, Indels: 18
0.91 0.07 0.03
Matches are distributed among these distances:
183 1 0.00
184 32 0.05
185 3 0.00
186 60 0.10
187 1 0.00
189 3 0.00
190 524 0.83
191 6 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (190 bp):
TTTCACTACTCTTCCGTGAATATCAGATTCAAAGTTGGATTTGCTTCCACTACTCTTCTGTGGAG
TTCTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTCGTGGAGTTTAGATTGAATTTGCTTC
TGCTTTTGCTTCACTACTCTTCCGTGAAGTTTGAAAATGATTGACTTGACAAGAATCTAA
Found at i:896437 original size:22 final size:22
Alignment explanation
Indices: 896412--896463 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
896402 AGTAAAGCTT
*
896412 TCGTCTTTGAAAAGAGAATATA
1 TCGTCTTTGAAAAAAGAATATA
*
896434 TCGTCTTTGAAAAAAGAATCTA
1 TCGTCTTTGAAAAAAGAATATA
*
896456 TCATCTTT
1 TCGTCTTT
896464 ACAAAATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
TCGTCTTTGAAAAAAGAATATA
Found at i:908942 original size:20 final size:18
Alignment explanation
Indices: 908917--908964 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 18
908907 GTCAAAGTTT
908917 TGGTCAACAGTGGTCAACGC
1 TGGTCAAC-G-GGTCAACGC
908937 TGGTCAACGGGTCAA--C
1 TGGTCAACGGGTCAACGC
908953 -GGTCAACGGGTC
1 TGGTCAACGGGTC
908965 GGGTCAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.43
16 1 0.04
18 6 0.21
19 1 0.04
20 8 0.29
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (18 bp):
TGGTCAACGGGTCAACGC
Found at i:908971 original size:13 final size:13
Alignment explanation
Indices: 908938--908982 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
908928 GGTCAACGCT
*
908938 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
908953 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
908966 GGTCAACAGGTCG
1 GGTCAACGGGTCG
908979 GGTC
1 GGTC
908983 GGGTCGGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
15 12 0.43
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:908977 original size:8 final size:8
Alignment explanation
Indices: 908918--908964 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
908908 TCAAAGTTTT
908918 GGTCAACAG
1 GGTCAAC-G
908927 TGGTCAACG
1 -GGTCAACG
908936 CTGGTCAACG
1 --GGTCAACG
908946 GGTCAAC-
1 GGTCAACG
908953 GGTCAACG
1 GGTCAACG
908961 GGTC
1 GGTC
908965 GGGTCAACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.20
8 11 0.31
9 1 0.03
10 16 0.46
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:913003 original size:10 final size:10
Alignment explanation
Indices: 912988--913013 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
912978 AATATAACTT
912988 GTTCATGTTC
1 GTTCATGTTC
912998 GTTCATGTTC
1 GTTCATGTTC
913008 GTTCAT
1 GTTCAT
913014 TTAAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (10 bp):
GTTCATGTTC
Found at i:913366 original size:14 final size:14
Alignment explanation
Indices: 913347--913374 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
913337 CCTATGTTCG
913347 AACATAAATGAACA
1 AACATAAATGAACA
913361 AACATAAATGAACA
1 AACATAAATGAACA
913375 TATAATCGAA
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:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACA
Found at i:913503 original size:6 final size:6
Alignment explanation
Indices: 913492--913539 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
913482 ATTTATTTAC
913492 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT
913540 TTATATTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
AACCCT
Found at i:915278 original size:20 final size:20
Alignment explanation
Indices: 915253--915292 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
915243 GAAATATTAA
915253 TAATATAAAGCAAAATTTAT
1 TAATATAAAGCAAAATTTAT
915273 TAATATAAAGCAAAATTTAT
1 TAATATAAAGCAAAATTTAT
915293 GTAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
TAATATAAAGCAAAATTTAT
Found at i:915302 original size:20 final size:20
Alignment explanation
Indices: 915253--915302 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
915243 GAAATATTAA
*
915253 TAATATAAAGCAAAATTTAT
1 TAATAAAAAGCAAAATTTAT
*
915273 TAATATAAAGCAAAATTTAT
1 TAATAAAAAGCAAAATTTAT
915293 GTAA-AAAAAG
1 -TAATAAAAAG
915303 ATAGTTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (20 bp):
TAATAAAAAGCAAAATTTAT
Found at i:921824 original size:19 final size:19
Alignment explanation
Indices: 921802--921840 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
921792 GTTTACAATC
* *
921802 AATTCTAAAGTTTTTATTT
1 AATTATAAACTTTTTATTT
*
921821 AATTATAGACTTTTTATTT
1 AATTATAAACTTTTTATTT
921840 A
1 A
921841 TTTTGTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTATAAACTTTTTATTT
Found at i:921879 original size:44 final size:47
Alignment explanation
Indices: 921812--921906 Score: 106
Period size: 44 Copynumber: 2.1 Consensus size: 47
921802 AATTCTAAAG
* * *
921812 TTTTTATTTAATTATAGACTTTTTAT-TTATTTTG-T-TTCTTATTT
1 TTTTTATTTAATTATACAATTTTTATATTATTTAGTTCTTCTTATTT
* * * *
921856 TTTTTATTTAATTTTTCAATTTTTTTATTATTTAGTTCTTTTTATTT
1 TTTTTATTTAATTATACAATTTTTATATTATTTAGTTCTTCTTATTT
921903 TTTT
1 TTTT
921907 AGTTGTATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
44 21 0.51
45 7 0.17
46 1 0.02
47 12 0.29
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (47 bp):
TTTTTATTTAATTATACAATTTTTATATTATTTAGTTCTTCTTATTT
Found at i:921902 original size:25 final size:24
Alignment explanation
Indices: 921831--921929 Score: 78
Period size: 25 Copynumber: 4.1 Consensus size: 24
921821 AATTATAGAC
* *
921831 TTTTTATTTATTTTG-TTTCTTA-T
1 TTTTTA-TTATTTAGTTTTTTTATT
* **
921854 TTTTT-TTATTTAATTTTTCAATT
1 TTTTTATTATTTAGTTTTTTTATT
921877 TTTTTATTATTTAGTTCTTTTTATT
1 TTTTTATTATTTAGTT-TTTTTATT
* * *
921902 TTTTTAGTTGTATAGTTTTCTTATT
1 TTTTTA-TTATTTAGTTTTTTTATT
921927 TTT
1 TTT
921930 AGTTTGTTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
21 6 0.10
22 4 0.07
23 11 0.18
24 9 0.15
25 22 0.37
26 8 0.13
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTATTATTTAGTTTTTTTATT
Found at i:921903 original size:24 final size:22
Alignment explanation
Indices: 921831--921906 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 22
921821 AATTATAGAC
*
921831 TTTTTATTTATTTTGTTTCTTATTT
1 TTTTTATTTA-ATT-TTT-TTATTT
**
921856 TTTTTATTTAATTTTTCAATTTT
1 TTTTTATTTAATTTTTTTA-TTT
*
921879 TTTATTATTTAGTTCTTTTTATTT
1 TTT-TTATTTAATT-TTTTTATTT
921903 TTTT
1 TTTT
921907 AGTTGTATAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.02
23 10 0.24
24 17 0.40
25 14 0.33
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTTTATTTAATTTTTTTATTT
Found at i:927416 original size:15 final size:15
Alignment explanation
Indices: 927396--927426 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
927386 TTAAATTTAT
927396 ACCCATTTCCACCCA
1 ACCCATTTCCACCCA
927411 ACCCATTTCCACCCA
1 ACCCATTTCCACCCA
927426 A
1 A
927427 ATTAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (15 bp):
ACCCATTTCCACCCA
Found at i:932449 original size:31 final size:31
Alignment explanation
Indices: 932413--932520 Score: 144
Period size: 31 Copynumber: 3.5 Consensus size: 31
932403 TGAAAAAAAA
*
932413 AAGTTTTGGTCACTTACCTTATTGTATTATT
1 AAGTTTTGGTCACTTACGTTATTGTATTATT
* *
932444 AAGTTTTGGTCACTTACGTTATTATGTTATT
1 AAGTTTTGGTCACTTACGTTATTGTATTATT
* * *
932475 AAGTTTTGGTCACTTATGTTATCGTTTTATT
1 AAGTTTTGGTCACTTACGTTATTGTATTATT
* *
932506 AAGCTTTGATCACTT
1 AAGTTTTGGTCACTT
932521 GGGCATTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (31 bp):
AAGTTTTGGTCACTTACGTTATTGTATTATT
Found at i:933815 original size:51 final size:47
Alignment explanation
Indices: 933733--933844 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 47
933723 AGTAACTACT
*
933733 TAATAAAATAATAATAAACTAAAAATGATGTTTTGATTATATCCTAATTTC
1 TAATAAAATAATAATAAACTAAAAATAATGTTTT-A--A-ATCCTAATTTC
* * *
933784 TAATAAAATAGTAATAAACTAAAGATAATGTTTTAAATCTTAATTTC
1 TAATAAAATAATAATAAACTAAAAATAATGTTTTAAATCCTAATTTC
933831 TAATAAAATAATAA
1 TAATAAAATAATAA
933845 ATCATAATGC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 23 0.41
48 1 0.02
50 1 0.02
51 31 0.55
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (47 bp):
TAATAAAATAATAATAAACTAAAAATAATGTTTTAAATCCTAATTTC
Found at i:936493 original size:14 final size:14
Alignment explanation
Indices: 936474--936512 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
936464 TTTTTTGGAT
936474 ATTTTTTCTTTTCG
1 ATTTTTTCTTTTCG
936488 ATTTTTTCTTTTCG
1 ATTTTTTCTTTTCG
*
936502 -CTTTTTCTTTT
1 ATTTTTTCTTTT
936513 TTTCCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (14 bp):
ATTTTTTCTTTTCG
Found at i:936535 original size:14 final size:14
Alignment explanation
Indices: 936475--936535 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
936465 TTTTTGGATA
**
936475 TTTTTTCTTTTCGA
1 TTTTTTCTTTTCTT
936489 TTTTTTCTTTTCGCTT
1 TTTTTTCTTTT--CTT
*
936505 TTTCTTT-TTTTCCT
1 TTT-TTTCTTTTCTT
936519 TTTTTTCTTTTCTT
1 TTTTTTCTTTTCTT
936533 TTT
1 TTT
936536 GAGAAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 3 0.08
14 25 0.64
16 8 0.21
17 3 0.08
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTCTTTTCTT
Found at i:938397 original size:2 final size:2
Alignment explanation
Indices: 938390--938462 Score: 57
Period size: 2 Copynumber: 37.0 Consensus size: 2
938380 TACCTTCCTT
* *
938390 TA TA TA TA GTA TA TA T- TA TA TA CA T- TCA TA -A TA TA -A CCA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA -TA
938429 TA TGA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
938463 AACACATGCC
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
1 5 0.08
2 48 0.81
3 6 0.10
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:941801 original size:83 final size:83
Alignment explanation
Indices: 941673--942017 Score: 383
Period size: 82 Copynumber: 4.2 Consensus size: 83
941663 TTTAGCGGTA
* * * ** *
941673 TTTTTATACAAATGTCGTAATAGGGTTTATCTATAGTGGTATTTTTTCAACAAACACCACAACAG
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGTGTTTTTTCAACAAATGCCGCAACAG
941738 AGTAGTACTTTAGCGAAG
66 AGTAGTACTTTAGCGAAG
* * *
941756 TTTTTATACAAATGCCGTAATAGGGTTTATCTATAGTAGTGTTTTTTCAACAAATGTCGCAACAG
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGTGTTTTTTCAACAAATGCCGCAACAG
* *
941821 AGAAGTACTTTAGCGGTA-
66 AGTAGTACTTTAGC-GAAG
* * * * * *
941839 TTTTTATACAAACGCCGTAACAGGGTTCATCTATAGCGG-CTTTGTTCAACAAATGCTGCAACAG
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGTGTTTTTTCAACAAATGCCGCAACAG
**
941903 AGTAGTA-TTGTAGCGGTG
66 AGTAGTACTT-TAGCGAAG
* * * * * *
941921 TTTTTACACAAATGCCATAATAGGGTTCATCTATAGTGGCG-TTTTTCAATAAATGCTGCAAGAG
1 TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGTGTTTTTTCAACAAATGCCGCAACAG
* *
941985 AGGAGTACTTTAGCGACG
66 AGTAGTACTTTAGCGAAG
* *
942003 TTTGTATAAAAATGC
1 TTTTTATACAAATGC
942018 TACTATAGGA
Statistics
Matches: 221, Mismatches: 36, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
81 3 0.01
82 109 0.49
83 107 0.48
84 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (83 bp):
TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGTGTTTTTTCAACAAATGCCGCAACAG
AGTAGTACTTTAGCGAAG
Found at i:941926 original size:82 final size:82
Alignment explanation
Indices: 941661--941999 Score: 407
Period size: 83 Copynumber: 4.1 Consensus size: 82
941651 CAAAATGGTA
* * *
941661 ACTTTAGCGGTATTTTTATACAAATGTCGTAATAGGGTTTATCTATAGTGGTATTTTTTCAACAA
1 ACTTTAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGG-CTTTTTTCAACAA
** **
941726 ACACCACAACAGAGTAGT
65 ATGCTGCAACAGAGTAGT
* *
941744 ACTTTAGC-GAAGTTTTTATACAAATGCCGTAATAGGGTTTATCTATAGTAGTG-TTTTTTCAAC
1 ACTTTAGCGGTA-TTTTTATACAAATGCCGTAATAGGGTTCATCTATAGT-G-GCTTTTTTCAAC
*
941807 AAATG-TCGCAACAGAGAAGT
63 AAATGCT-GCAACAGAGTAGT
* * * *
941827 ACTTTAGCGGTATTTTTATACAAACGCCGTAACAGGGTTCATCTATAGCGGCTTTGTTCAACAAA
1 ACTTTAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCTTTTTTCAACAAA
941892 TGCTGCAACAGAGTAGT
66 TGCTGCAACAGAGTAGT
* * * * *
941909 A-TTGTAGCGGTGTTTTTACACAAATGCCATAATAGGGTTCATCTATAGTGGCGTTTTTCAATAA
1 ACTT-TAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCTTTTTTCAACAA
* *
941973 ATGCTGCAAGAGAGGAGT
65 ATGCTGCAACAGAGTAGT
941991 ACTTTAGCG
1 ACTTTAGCG
942000 ACGTTTGTAT
Statistics
Matches: 222, Mismatches: 25, Indels: 19
0.83 0.09 0.07
Matches are distributed among these distances:
81 3 0.01
82 103 0.46
83 112 0.50
84 3 0.01
85 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (82 bp):
ACTTTAGCGGTATTTTTATACAAATGCCGTAATAGGGTTCATCTATAGTGGCTTTTTTCAACAAA
TGCTGCAACAGAGTAGT
Done.