Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_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: 1420948
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:906873 original size:63 final size:63
Alignment explanation
Indices: 906798--906918 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
906788 ACTCTAATAA
*
906798 AATAAAAACATCGAATGCCATTAGTGCATCGATGCATAAGGAGTGCATCGATGCACCCCATTG
1 AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCCCATTG
** * ** *
906861 AATAAAAACATCGAATGTGATTCGTGCACCGATGTTTAAGTAGTGCATCGATGCACCC
1 AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCC
906919 GTTAAGGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (63 bp):
AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCCCATTG
Found at i:907370 original size:20 final size:20
Alignment explanation
Indices: 907325--907379 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
907315 ATGATACAGG
*
907325 TATGTGAATATTGAAAAGAAT
1 TATGTGTATA-TGAAAAGAAT
*
907346 CATGTGTATATGAAATA-AAT
1 TATGTGTATATGAAA-AGAAT
907366 TATGTGCTATATGA
1 TATGTG-TATATGA
907380 GAAGTGATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (20 bp):
TATGTGTATATGAAAAGAAT
Found at i:907557 original size:18 final size:18
Alignment explanation
Indices: 907483--907557 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
907473 AGGGATATAC
*
907483 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAA
* * *
907501 AGTGGTTCTTCGGAATAA
1 AGTGGTCCTTCGGGACAA
*
907519 TTAGTGGTCATTCAGGG-CAA
1 --AGTGGTCCTTC-GGGACAA
907539 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
907557 A
1 A
907558 TACTGAACGA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
17 3 0.07
18 28 0.64
20 11 0.25
21 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAA
Found at i:909618 original size:65 final size:63
Alignment explanation
Indices: 909549--909708 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 63
909539 AATTAAATTG
*
909549 AACATCGAATGCATTTCATGCATCGATGCACA-TACCATGCACCAATGCACTAAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACAGT--CATGCACCAATGCACTAAGGATATTT-TG
909612 AA
63 -A
* * * ** *
909614 AACATCGAATGCATTTGATGCATCGATGCACCAGTCATGCATCGATGCATTTTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGTCATGCACCAATGCACTAAGGATATTTTGA
*
909678 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
909709 TAAGGGTCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 30 0.36
65 47 0.56
66 5 0.06
67 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGTCATGCACCAATGCACTAAGGATATTTTGA
Found at i:910754 original size:13 final size:13
Alignment explanation
Indices: 910736--910761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
910726 TTAGTTGAGT
910736 GTATATGATTATA
1 GTATATGATTATA
910749 GTATATGATTATA
1 GTATATGATTATA
910762 TGAAAATTAG
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GTATATGATTATA
Found at i:914769 original size:16 final size:16
Alignment explanation
Indices: 914750--914780 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
914740 TTATCATTTG
914750 TGTTTATTATGTTTAA
1 TGTTTATTATGTTTAA
914766 TGTTTATTATGTTTA
1 TGTTTATTATGTTTA
914781 CTATTAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (16 bp):
TGTTTATTATGTTTAA
Found at i:916683 original size:16 final size:17
Alignment explanation
Indices: 916655--916688 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
916645 TTTATAAAAT
*
916655 AAATTATATTTTTTTAA
1 AAATTATATTTTTATAA
916672 AAATTA-ATTTTTATAA
1 AAATTATATTTTTATAA
916688 A
1 A
916689 CTATTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTATATTTTTATAA
Found at i:917067 original size:29 final size:27
Alignment explanation
Indices: 917035--917103 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
917025 ATTTAAATGA
* *
917035 AAATATATTATATTTTAATAATTATTAAT
1 AAATATATTAAATTCT-ATAA-TATTAAT
*
917064 AAATATATTTAAATTCTGTAATATTAAT
1 AAATATA-TTAAATTCTATAATATTAAT
917092 AAATATTATTAA
1 AAATA-TATTAA
917104 TTGTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 16 0.46
29 12 0.34
30 7 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (27 bp):
AAATATATTAAATTCTATAATATTAAT
Found at i:917258 original size:19 final size:18
Alignment explanation
Indices: 917213--917261 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
917203 TATTTTTATC
917213 AAATAATATTAAAATAGA
1 AAATAATATTAAAATAGA
* *
917231 ATATGAATATTAAATATATA
1 AAAT-AATATTAAA-ATAGA
917251 AAATAATATTA
1 AAATAATATTA
917262 TTTTCAGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.12
19 16 0.62
20 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATAATATTAAAATAGA
Found at i:920972 original size:267 final size:268
Alignment explanation
Indices: 920497--921060 Score: 760
Period size: 267 Copynumber: 2.1 Consensus size: 268
920487 TCGAGAAACA
* * * *
920497 TTGATTCATTCCACTGTT-CTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCAATGTTGCTCAG
1 TTGATTCATTCCACTGTTACTCAGGGAAGATTGAATCAAGGCAGACTTATTCCAATGTTACTCAG
* * ** * * *
920561 GGATGATCAAATCTGGAAAGAGAGAGATTTGTTCTGCTTCTTCTTGAGGGAAAATTAGATATGGG
66 GAATGATCAAATCTGGAAAGAGAGAGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATATAGA
* *
920626 GACGTTGATTCATTCCACTATTCTTCAGAGAAGATTGAATCGAGGTAAACTTGTTCCACTGTTAC
131 GACGTTGATTCATTCCACTATTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCACTATTAC
* * * * *
920691 TCAGGGAGTATCAAATCTTGAAAT-AGTGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGAT
196 TCAGGGAATATCAAATCTTG-AATGAGAGGGATCTGTTACACTCCTTCTTGAGGGAAAATCAGAC
*
920755 AT-TAGATCG
260 ATGGAGA-CG
* * *
920764 TTGATTCATTCCACTGTTACTCAGGGAAG-TCTGAATCAAGGTAGATTTATTCCACTGTTACTCA
1 TTGATTCATTCCACTGTTACTCAGGGAAGAT-TGAATCAAGGCAGACTTATTCCAATGTTACTCA
* ** * *
920828 GGAAT-ATCAAATCTTGAAAGAGATTGATCTGTTCCACTTCTTCTTGAGTGAAAATCAGATCTAG
65 GGAATGATCAAATCTGGAAAGAGAGAGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATATAG
* * *
920892 AGACTTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTA
130 AGACGTTGATTCATTCCACTATTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCACTATTA
* *
920957 CTTAGGGAATATCAAATCTTGAATGAGAGGGATCTGTTACGCTCCTTCTTGAGGGAAAATCAGAC
195 CTCAGGGAATATCAAATCTTGAATGAGAGGGATCTGTTACACTCCTTCTTGAGGGAAAATCAGAC
* *
921022 ATGGGGACT
260 ATGGAGACG
921031 TTGATTCATTCCACTGTTACTCAGGGAAGA
1 TTGATTCATTCCACTGTTACTCAGGGAAGA
921061 CAAAATCGAG
Statistics
Matches: 258, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
266 3 0.01
267 213 0.83
268 42 0.16
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (268 bp):
TTGATTCATTCCACTGTTACTCAGGGAAGATTGAATCAAGGCAGACTTATTCCAATGTTACTCAG
GAATGATCAAATCTGGAAAGAGAGAGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATATAGA
GACGTTGATTCATTCCACTATTCTTCAGAGAAGATTGAATCGAGGCAAACTTGTTCCACTATTAC
TCAGGGAATATCAAATCTTGAATGAGAGGGATCTGTTACACTCCTTCTTGAGGGAAAATCAGACA
TGGAGACG
Found at i:921070 original size:134 final size:133
Alignment explanation
Indices: 920497--921060 Score: 679
Period size: 134 Copynumber: 4.2 Consensus size: 133
920487 TCGAGAAACA
* * *
920497 TTGATTCATTCCACTGTTCTCAAGGAAGATTGAATCGAGGCAGACTTGTTCCAATGTTGCTCAGG
1 TTGATTCATTCCACTGTTCTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGG
* * * ** * * *
920562 G-ATGATCAAATCTGGAAAGAGAGAGATTTGTTCTGCTTCTTCTTGAGGGAAAATTAGATATGGG
66 GAAT-ATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGACATGGA
920626 GACG
130 GACG
* * * *
920630 TTGATTCATTCCACTATTCTTCAGAGAAGATTGAATCGAGGTAAACTTGTTCCACTGTTACTCAG
1 TTGATTCATTCCACTGTTC-TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAG
* * * * *
920695 GGAGTATCAAATCTTGAAATAGTGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGATAT-TA
65 GGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGACATGGA
920759 GATCG
130 GA-CG
* * * *
920764 TTGATTCATTCCACTGTTACTCAGGGAAG-TCTGAATCAAGGTAGATTTATTCCACTGTTACTCA
1 TTGATTCATTCCACTGTT-CTCAGGGAAGAT-TGAATCGAGGCAGACTTGTTCCACTGTTACTCA
** * *
920828 -GGAATATCAAATCTTGAAAGAGATTGATCTGTTCCACTTCTTCTTGAGTGAAAATCAGATC-TA
64 GGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGA-CATG
*
920891 GAGACT
128 GAGACG
* * *
920897 TTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTTAG
1 TTGATTCATTCCACTGTTC-TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAG
* * * * *
920962 GGAATATCAAATCTTGAATGAGAGGGATCTGTTACGCTCCTTCTTGAGGGAAAATCAGACATGGG
65 GGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGACATGGA
*
921027 GACT
130 GACG
921031 TTGATTCATTCCACTGTTACTCAGGGAAGA
1 TTGATTCATTCCACTGTT-CTCAGGGAAGA
921061 CAAAATCGAG
Statistics
Matches: 369, Mismatches: 50, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
132 1 0.00
133 130 0.35
134 235 0.64
135 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (133 bp):
TTGATTCATTCCACTGTTCTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGG
GAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTTGAGGGAAAATCAGACATGGAG
ACG
Found at i:921706 original size:42 final size:41
Alignment explanation
Indices: 921637--921732 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
921627 TTATGGATGG
* *
921637 CCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAAATGA
1 CCCGAAGGACTTAGCATCATGCTCGAAAGACTTACAAATGA
* ** *
921678 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACAAATGA
921720 CCCGAAGGACTTA
1 CCCGAAGGACTTA
921733 CCAATTTCGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 12 0.26
42 35 0.74
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (41 bp):
CCCGAAGGACTTAGCATCATGCTCGAAAGACTTACAAATGA
Found at i:921774 original size:232 final size:230
Alignment explanation
Indices: 921363--922121 Score: 1029
Period size: 232 Copynumber: 3.3 Consensus size: 230
921353 ATTTTTTTTT
* * * * * * *
921363 AAAATCATGTGAAAACATCTTGCACGAATGACTTATAGATGGCCGGAAGAACTTATCATCTTACT
1 AAAA-CATGTGAAAACATCCTGCTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCT
* * * *
921428 GGAAAGGCTTATAGATGACCCGAAGGATTTAAGCATCATGCTCCAAAGACTTACTGATGGCCCGA
65 CGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGA
* * * * *
921493 AAGACTTACCAATTTTGAATATATTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAAAATTGCA
130 AGGACTTACCAATTTGGAA-ATAGTTTACTAGGTAAGAAATTTTTCTTACTTTTCAAAAATTTCA
*
921558 ATTTTCATATTTAAATGAGAATATTTTTTCATTTTTCG
194 ATTTTCATATTTAAATGAGAA-ATTTTCTCATTTTTCG
* *
921596 AAAGCATGTGAAAACATCCTGCTC-AGAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCT
1 AAAACATGTGAAAACATCCTGCTCGA-AGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCT
*
921660 CGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGA
65 CGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGA
*
921725 AGGACTTACCAATTTCGGAAATAGTTTACTCGGTAAGAAATTTTTCTTACTTTTCAAAAATTTCA
130 AGGACTTACCAATTT-GGAAATAGTTTACTAGGTAAGAAATTTTTCTTACTTTTCAAAAATTTC-
* * *
921790 AATTTT-AGATTTAAATGAGAAACGTTTCTCATTTTTCA
193 AATTTTCATATTTAAATGAGAAA-TTTTCTCATTTTTCG
* *
921828 AAAATATGTGAAAACATCCTACTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTC
1 AAAACATGTGAAAACATCCTGCTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTC
* * *
921893 GAAAAACTGACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAA
66 GAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAA
* *
921958 GGACTTACCAATTTTGTAAATAGTTTATTA-GTAAGAAATTTTTCTTACTTTTCAAAAATTTCAA
131 GGACTTACCAA-TTTGGAAATAGTTTACTAGGTAAGAAATTTTTCTTACTTTTCAAAAATTTCAA
*
922022 TTTTCATATTTAAATGAGAAAATTTTCTCATTTTTTG
195 TTTTCATATTTAAATGAG-AAATTTTCTCATTTTTCG
* * * * * **
922059 AAAAAAAATATATGAAAACATCCTGCCCGAAGGTCTTATGGATGACCTAAAGGACTTATCATC
1 ----AAAACATGTGAAAACATCCTGCTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATC
922122 CGAAGGATTT
Statistics
Matches: 468, Mismatches: 46, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
230 6 0.01
231 58 0.12
232 336 0.72
233 16 0.03
235 52 0.11
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (230 bp):
AAAACATGTGAAAACATCCTGCTCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTC
GAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAA
GGACTTACCAATTTGGAAATAGTTTACTAGGTAAGAAATTTTTCTTACTTTTCAAAAATTTCAAT
TTTCATATTTAAATGAGAAATTTTCTCATTTTTCG
Found at i:921958 original size:42 final size:41
Alignment explanation
Indices: 921863--921964 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
921853 AAGGTCTTAT
* *
921863 AGATGGCCCGAAGGACTTATCATCTTGCTCGAAAAACTGAC
1 AGATGGCCCGAAGGACTTAGCATCATGCTCGAAAAACTGAC
* * * *
921904 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
1 AGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAAACTGAC
* *
921946 TGATGGCTCGAAGGACTTA
1 AGATGGCCCGAAGGACTTA
921965 CCAATTTTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (41 bp):
AGATGGCCCGAAGGACTTAGCATCATGCTCGAAAAACTGAC
Found at i:923241 original size:233 final size:233
Alignment explanation
Indices: 922287--923401 Score: 1541
Period size: 233 Copynumber: 4.8 Consensus size: 233
922277 AAAACATCAT
* * * *
922287 GCCCGAAGGCCTTATCATCTTGCTCAAAAAACTTACAAATGACCCGAAGGATTTAAGCAGCATGC
1 GCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
* **
922352 TCGAAAGTCTTACTGATGTTCCGAAGGACTTACCAATTTTGGAAATAGTTTACTA-GTAAGAAAC
66 TCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
* * *
922416 TTTTATTACTTTTCAAAAATTTC-A---T---ATTTAAATGAGAAAATTTTCTCATTTTTTGAAA
131 TTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA-TTTTTCAAA
*
922474 AAA-ATGTGAAAACATCCTGCCTGAAGGTCTTATGGATG
195 AAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG
* * * * *
922512 GCCCGAAGGACATATCATCTTGCTCGAAAGACTTACAGATTACCCGAAGGATTTAAGTATCATGT
1 GCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
* * * * *
922577 TTGAAAGACTTACTAATGACCTGAAAGACTTAACCAATTTTGGAAATAGTTTACTAGGTAAGAAA
66 TCGAAAGACTTACTGATGGCCCGAAGGACTT-ACCAATTTTGGAAATAGTTTACTAGGTAAGAAA
* **
922642 CTTTTCTTACTTTTCAAAAATTTCAATTTTCACATTTAAATGAGAAACTTTTCTCATTTTTTGAA
130 CTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAA
* *
922707 AAACATGTGAAAACATCATGCCCGAAGGTCTTGTGGATG
195 AAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG
* *
922746 GCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA-AAGACCCGAAGGATTTAAGCATCATGC
1 GCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
* * *
922810 TCGAAAGAGTTACTGATGGCTCGAAGGACTTACAAATTTTGGAAATAGTTTACTAGGTAAGAAAC
66 TCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
* * * * *
922875 TTTCCTTACTTTTAAAAAAAAATTCAACTTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCAA
131 TTTTCTTACTTTT--CAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAA
* * * *
922940 GAAACATGTGAAAACATCCTACCCAAAGGTCTTGTGGATG
194 AAAACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG
* * * * * * *
922980 GCCCAAAGGACTTTTTATATTTCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGAATCATGT
1 GCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
* * * *
923045 TCAAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACTATGTAAGAAAA
66 TCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
*
923110 TTTTATTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAA
131 TTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAA
*
923175 AACATGTGAAAACATCTTGCCCGAAGGTCTTATGGATG
196 AACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG
* * ** *
923213 GCCCGAAAGACTTATCATCTTGCTCAAAAGACTTATAGATGACCTAAAGTATTTAAGCATCATGC
1 GCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
* *
923278 TCGAAAGACTTACTGATGGCCTGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAA
66 TCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
* * * *
923343 TTTTCTCACTTTTCAAAATTTTCAATTTTCATATTT-AATGAGAAACCTTTCTCATTTTT
131 TTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTT
923402 TAACTTATAA
Statistics
Matches: 781, Mismatches: 96, Indels: 19
0.87 0.11 0.02
Matches are distributed among these distances:
225 80 0.10
226 24 0.03
227 31 0.04
228 1 0.00
231 1 0.00
232 67 0.09
233 284 0.36
234 200 0.26
235 93 0.12
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (233 bp):
GCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGC
TCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
TTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAA
AACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG
Found at i:923308 original size:468 final size:463
Alignment explanation
Indices: 922143--923401 Score: 1648
Period size: 468 Copynumber: 2.8 Consensus size: 463
922133 ATAATGTGTG
* * *
922143 AAAGACTTACTAATGACCTGAAAGACTT-ACCAATTTTGGAAATAGTTTACTGGGTAAGAAACTT
1 AAAGACTTACTAATGACCTCAAAGACTTAACCAATTTTGGAAATAGTTTACTAGGTAAGAAAATT
* * * *
922207 TTGTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACGTTTCTCA-TTTTCGAAAAA
66 TTATTACTTTTCAAAAATTTCAATTTTCACATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAA
922271 CATGTGAAAACATCATGCCC----G----A---A-GG--C------CTTATCATCTTGCTCAAAA
131 CATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAA
* * * *
922316 AACTTACAAATGACCCGAAGGATTTAAGCAGCATGCTCGAAAGTCTTACTGATGTTCC-GAAGGA
196 GACTTAC-AATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG-GCCTGAAGGA
* *
922380 CTTACCAATTTTGGAAATAGTTTACTA-GTAAGAAACTTTTATTACTTTT--CAAA---AATTTC
259 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTAAAAAATTCAATTTC
** * * **
922439 ATATTTAAATGAGAAAATTTTCTCATTTTTTGAAAAAAATGTGAAAACATCCTGCCTGAAGGTCT
324 ATATTTAAATGAGAAACCTTTCTCA-TTTTTCAAAAAAATGTGAAAACATCCTACCCAAAGGTCT
* * * *
922504 TATGGATGGCCCGAAGGACATATCATCTTGCTCGAAAGACTTACAGATTACCCGAAGGATTTAAG
388 TATGGATGGCCCAAAGGACATATCATATTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAG
* **
922569 TATCATGTTTG
453 AATCATGTTCA
* *
922580 AAAGACTTACTAATGACCTGAAAGACTTAACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTT
1 AAAGACTTACTAATGACCTCAAAGACTTAACCAATTTTGGAAATAGTTTACTAGGTAAGAAAATT
* **
922645 TTCTTACTTTTCAAAAATTTCAATTTTCACATTTAAATGAGAAACTTTTCTCATTTTTTGAAAAA
66 TTATTACTTTTCAAAAATTTCAATTTTCACATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAA
* *
922710 CATGTGAAAACATCATGCCCGAAGGTCTTGTGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA
131 CATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAA
* *
922775 GACTTACAAAGACCCGAAGGATTTAAGCATCATGCTCGAAAGAGTTACTGATGG-CTCGAAGGAC
196 GACTTACAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCT-GAAGGAC
* *
922839 TTACAAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTCCTTACTTTTAAAAAAAAATTCAACT
260 TTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTT---AAAAAATTCAA-T
* *
922904 TTCAGATTTAAATGAGAAACCTTTCTCATTTTTCAAGAAACATGTGAAAACATCCTACCCAAAGG
321 TTCATATTTAAATGAGAAACCTTTCTCATTTTTCAA-AAAAATGTGAAAACATCCTACCCAAAGG
* * * * *
922969 TCTTGTGGATGGCCCAAAGGACTTTTTATATTTCTCAAAAGACTTACAGATGACCCGAAGGATTT
385 TCTTATGGATGGCCCAAAGGACATATCATATTGCTCAAAAGACTTACAGATGACCCGAAGGATTT
923034 AAGAATCATGTTCA
450 AAGAATCATGTTCA
* * *
923048 AAAGACTTACTGATGGCC-CAAAGGACTT-ACCAATTTTGGAAATAGTTTACTATGTAAGAAAAT
1 AAAGACTTACTAATGACCTCAAA-GACTTAACCAATTTTGGAAATAGTTTACTAGGTAAGAAAAT
*
923111 TTTATTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAAA
65 TTTATTACTTTTCAAAAATTTCAATTTTCACATTTAAATGAGAAACTTTTCTCATTTTTCAAAAA
* *
923176 ACATGTGAAAACATCTTGCCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCAAA
130 ACATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAA
* ** *
923241 AGACTTATAGATGACCTAAAGTATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGA
195 AGACTTACA-ATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGA
* * **
923306 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAATTTTCTCACTTTTCAAAATTTTCAATTT
259 CTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTT-AAAAAATTCAA-TT
923371 TCATATTT-AATGAGAAACCTTTCTCATTTTT
322 TCATATTTAAATGAGAAACCTTTCTCATTTTT
923402 TAACTTATAA
Statistics
Matches: 719, Mismatches: 65, Indels: 48
0.86 0.08 0.06
Matches are distributed among these distances:
437 28 0.04
438 85 0.12
439 30 0.04
443 1 0.00
450 1 0.00
451 2 0.00
453 1 0.00
456 1 0.00
458 74 0.10
459 44 0.06
464 3 0.00
465 23 0.03
466 18 0.03
467 175 0.24
468 231 0.32
469 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (463 bp):
AAAGACTTACTAATGACCTCAAAGACTTAACCAATTTTGGAAATAGTTTACTAGGTAAGAAAATT
TTATTACTTTTCAAAAATTTCAATTTTCACATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAA
CATGTGAAAACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAA
GACTTACAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACT
TACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTAAAAAATTCAATTTCAT
ATTTAAATGAGAAACCTTTCTCATTTTTCAAAAAAATGTGAAAACATCCTACCCAAAGGTCTTAT
GGATGGCCCAAAGGACATATCATATTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAGAAT
CATGTTCA
Found at i:925248 original size:3 final size:3
Alignment explanation
Indices: 925240--925265 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
925230 TGTATAATCT
925240 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
925266 TTATTAACCT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:930794 original size:2 final size:2
Alignment explanation
Indices: 930787--930813 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
930777 ATAAAATGAT
930787 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
930814 TAAATATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:931951 original size:24 final size:24
Alignment explanation
Indices: 931906--931955 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
931896 TGGTGGTTGG
931906 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
931930 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
931954 TT
1 TT
931956 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:936664 original size:24 final size:24
Alignment explanation
Indices: 936619--936668 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
936609 TGGTGGTTGG
936619 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
936643 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
936667 TT
1 TT
936669 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:940966 original size:14 final size:16
Alignment explanation
Indices: 940943--940979 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
940933 TTACTAACTC
*
940943 TCTTTCAAA-TTCTCA
1 TCTTTAAAATTTCTCA
940958 -CTTTAAAATTTCTCA
1 TCTTTAAAATTTCTCA
940973 TCTTTAA
1 TCTTTAA
940980 TCCTTCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 6 0.32
16 6 0.32
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (16 bp):
TCTTTAAAATTTCTCA
Found at i:945891 original size:17 final size:17
Alignment explanation
Indices: 945869--945901 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
945859 CCCGGTTCCA
*
945869 ACCCGACCTGACCGTTG
1 ACCCGACCCGACCGTTG
945886 ACCCGACCCGACCGTT
1 ACCCGACCCGACCGTT
945902 AACCGTTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.15
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:945994 original size:29 final size:29
Alignment explanation
Indices: 945927--945982 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
945917 ACTGTTGACC
* *
945927 GGTGTTATTTTAGTAATTAATTTGAAATA
1 GGTGATATTTTAGTAATTAATTTAAAATA
945956 GGTGATATTTTAG-AATTTAATTTAAAA
1 GGTGATATTTTAGTAA-TTAATTTAAAA
945983 ATGGTGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTAATTTAAAATA
Found at i:946983 original size:43 final size:42
Alignment explanation
Indices: 946915--947082 Score: 257
Period size: 42 Copynumber: 4.0 Consensus size: 42
946905 GGAAGTATTA
946915 CCAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTC
1 CCAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTC
* *
946957 CCAGGTCCCTTTTGCTGTGTGTGAAGGTAAGCCTTACAGTTTA
1 CCAGGTCCC-TTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTC
947000 CCAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTACAGTTTC
1 CCAGGTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTTTC
* * * *
947042 TCAGGTCCCTTTGCTGTGTGCAAAGATAAACCTTACAGTTT
1 CCAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTT
947083 TCCTAGGCTC
Statistics
Matches: 116, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.02
42 72 0.62
43 42 0.36
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (42 bp):
CCAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTC
Found at i:954356 original size:42 final size:41
Alignment explanation
Indices: 954288--954454 Score: 253
Period size: 42 Copynumber: 4.0 Consensus size: 41
954278 GGAAGTATTA
* *
954288 CCAGGTCCCTTTGCTGTATGCAAAGGTAAGCCTTACAGTTTC
1 CCAGGTCCCTTTGATGTGTGC-AAGGTAAGCCTTACAGTTTC
* *
954330 CCAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTA
1 CCAGGTCCCTTTGATGTGTGC-AAGGTAAGCCTTACAGTTTC
954372 CCAGGTCCCTTTGATGTGTGCAAGGGTAAGCCTTACAGTTTC
1 CCAGGTCCCTTTGATGTGTGCAA-GGTAAGCCTTACAGTTTC
*
954414 CCAGGTCCCTTTGATGTGTGCAAGGATAAACCTTACAGTTT
1 CCAGGTCCCTTTGATGTGTGCAAGG-TAAGCCTTACAGTTT
954455 TCCTAGGCTC
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
41 4 0.03
42 113 0.97
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (41 bp):
CCAGGTCCCTTTGATGTGTGCAAGGTAAGCCTTACAGTTTC
Found at i:954426 original size:84 final size:84
Alignment explanation
Indices: 954285--954454 Score: 279
Period size: 84 Copynumber: 2.0 Consensus size: 84
954275 GAAGGAAGTA
* *
954285 TTACCAGGTCCCTTTGCTGTATGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGCTGTGTG
1 TTACCAGGTCCCTTTGATGTATGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTG
*
954350 CGAAGG-TAAGCCTTACAGT
66 C-AAGGATAAACCTTACAGT
* *
954369 TTACCAGGTCCCTTTGATGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTG
1 TTACCAGGTCCCTTTGATGTATGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTG
954434 CAAGGATAAACCTTACAGT
66 CAAGGATAAACCTTACAGT
954453 TT
1 TT
954455 TCCTAGGCTC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 4 0.05
84 76 0.95
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (84 bp):
TTACCAGGTCCCTTTGATGTATGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTGATGTGTG
CAAGGATAAACCTTACAGT
Found at i:967308 original size:15 final size:16
Alignment explanation
Indices: 967288--967322 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
967278 GATTTTTAAA
967288 TCAAAATATTC-TTTT
1 TCAAAATATTCATTTT
*
967303 TCAAAATTTTCATTTT
1 TCAAAATATTCATTTT
967319 TCAA
1 TCAA
967323 TTTTAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (16 bp):
TCAAAATATTCATTTT
Found at i:969233 original size:30 final size:30
Alignment explanation
Indices: 969197--969269 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
969187 TCCTTTTGTA
969197 AAGGGATCGATCCAAAACCTACTGGAATCC
1 AAGGGATCGATCCAAAACCTACTGGAATCC
* *
969227 AAGGGATCAATCCAAAACCTATTGGAATCC
1 AAGGGATCGATCCAAAACCTACTGGAATCC
969257 AAGGGATCGATCC
1 AAGGGATCGATCC
969270 TTTTGCTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (30 bp):
AAGGGATCGATCCAAAACCTACTGGAATCC
Found at i:982551 original size:19 final size:19
Alignment explanation
Indices: 982503--982542 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
982493 AAAAATATAT
982503 ATCTTTCATTTAACTTTGA
1 ATCTTTCATTTAACTTTGA
982522 ATCTTTCATTTAACTTTGA
1 ATCTTTCATTTAACTTTGA
982541 AT
1 AT
982543 TATATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (19 bp):
ATCTTTCATTTAACTTTGA
Found at i:983168 original size:14 final size:15
Alignment explanation
Indices: 983132--983165 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
983122 TAGTGGTTAA
*
983132 TATAATTTTTGATAT
1 TATAATTTTTCATAT
*
983147 TATAATTTTTCATGT
1 TATAATTTTTCATAT
983162 TATA
1 TATA
983166 TTTATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (15 bp):
TATAATTTTTCATAT
Found at i:990293 original size:298 final size:300
Alignment explanation
Indices: 989602--990410 Score: 1083
Period size: 298 Copynumber: 2.7 Consensus size: 300
989592 TGTCTTAGCT
*
989602 TTTGCAAATATAGAACTTGGAACTAGTATTTGATCAACAAATAAACAAATTTCATTATTACATTG
1 TTTGCAAATATAGAACTTGGAACTAGTATTTGAGCAACAAATAAACAAATTTCATTATTACATTG
*
989667 TTGATAGTTTCACTGATTAAATGATATTAATATTTTTTTCTTATTTAAGATTAGAATTTTAGAAC
66 TTGATAGTTTCACTGATTAAATGATATT-A-ATTTTCTT-TTATTTAAGATTAGAATTTTAGAAC
* * *
989732 ATGTTAAATGAGTTCAGTGATAAAACAGTGTATTGTTATCTTTTAAAGTCTCATATTTAAACAAT
128 ATGTTAAATGAGTTCAGTGATAAAAGAGTGTATTGTTATCTATTAAAGTCTCATATTCAAACAAT
* * *
989797 TGTATCTATAAAATGTATGTGCTAATCATCTATGAGCTAAGAAAATTTGTGAAATTTACCTCAAC
193 TGTATCTATAAAACGTATGCGCTAATCATCTATGAACTAAGAAAA-TTGT---ATTTACCTCAAC
* *
989862 TAATATTGAATTTTGTATTTGTTTTCTTCTTTGGCTTTTATAATTGC
254 TAATATTGAATTTTGTATTAGCTTTCTTCTTTGGCTTTTATAATTGC
* * * *
989909 TTTGCAGATATAGAACTTGGAACTAGTATTTGAGCAACCAATAAACAAATTTTATTATTACACTG
1 TTTGCAAATATAGAACTTGGAACTAGTATTTGAGCAACAAATAAACAAATTTCATTATTACATTG
* *
989974 TTGATAGTTTCACTGATTAAATGATATTAATTTTCTTTTATTTAAGATTAGAATCTTAGATCATG
66 TTGATAGTTTCACTGATTAAATGATATTAATTTTCTTTTATTTAAGATTAGAATTTTAGAACATG
* * **
990039 TTAAATGAGTTCAGTGATAAAAGAGTGTATTGTTATCTATTAAGGTCTCA-AGTTCGAGTAATTG
131 TTAAATGAGTTCAGTGATAAAAGAGTGTATTGTTATCTATTAAAGTCTCATA-TTCAAACAATTG
* * * * *
990103 TATCTATAAGACGTGTGCGTTCATTATCTATGAACTAAGAAAA-T-T-TTTACC-CTAACTAATA
195 TATCTATAAAACGTATGCGCTAATCATCTATGAACTAAGAAAATTGTATTTACCTC-AACTAATA
*
990164 TTGAATTTTCGTCTTAGCTTTCTTCTTTGGCTTTTATAATTGC
259 TTGAATTTT-GTATTAGCTTTCTTCTTTGGCTTTTATAATTGC
* * * *
990207 TTTGCAAATATATACCTTGGAACTAATATTTGAGCAACAAATAAACAAACTTCATTATTACATTG
1 TTTGCAAATATAGAACTTGGAACTAGTATTTGAGCAACAAATAAACAAATTTCATTATTACATTG
* ** *
990272 TTGATAGTTTCACTTATTAAATGATATTAATAATCTTTTATTTAAGATTAGAATTTTAGAACATT
66 TTGATAGTTTCACTGATTAAATGATATTAATTTTCTTTTATTTAAGATTAGAATTTTAGAACATG
* * * * * * ** *
990337 TTAAATGACTTCAGTAATGAAAGGGTGTCTTGTTCTCTCCTAAAGTCTTA-AGTT-AAACAATTG
131 TTAAATGAGTTCAGTGATAAAAGAGTGTATTGTTATCTATTAAAGTCTCATA-TTCAAACAATTG
990400 TATCTATAAAA
195 TATCTATAAAA
990411 ATTTGTGCAT
Statistics
Matches: 445, Mismatches: 54, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
296 1 0.00
297 39 0.09
298 190 0.43
301 1 0.00
302 1 0.00
303 1 0.00
304 116 0.26
305 7 0.02
306 1 0.00
307 88 0.20
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (300 bp):
TTTGCAAATATAGAACTTGGAACTAGTATTTGAGCAACAAATAAACAAATTTCATTATTACATTG
TTGATAGTTTCACTGATTAAATGATATTAATTTTCTTTTATTTAAGATTAGAATTTTAGAACATG
TTAAATGAGTTCAGTGATAAAAGAGTGTATTGTTATCTATTAAAGTCTCATATTCAAACAATTGT
ATCTATAAAACGTATGCGCTAATCATCTATGAACTAAGAAAATTGTATTTACCTCAACTAATATT
GAATTTTGTATTAGCTTTCTTCTTTGGCTTTTATAATTGC
Found at i:994170 original size:77 final size:75
Alignment explanation
Indices: 994075--994363 Score: 205
Period size: 78 Copynumber: 3.8 Consensus size: 75
994065 TCGATTTTTG
* *
994075 AAAATATGTATATAATATGGTTTTGAAAATACGTTTTTGAAAACGTATAATATATAGTTTTGAAA
1 AAAATAT-AATAT-ATATGGTTTTAAAAAT-CGTTTTTGAAAACGTATAATATATAGTTTTGAAA
* *
994140 ATATATTTTTAAA
63 ACACATTTTTAAA
* * * * * *
994153 AAAATCAT-ATGATATATGGTTTTTTAAAATCGGTTTTGGAAGACATATAATATATAATTTTAAA
1 AAAAT-ATAAT-ATATATGG-TTTTAAAAATC-GTTTTTGAAAACGTATAATATATAGTTTTGAA
*
994217 AACACATTTTTTAA
62 AACACATTTTTAAA
* **
994231 AACATATAATATATAATTTTTTTAAAAATTTC-TTTTTGAAAACGTAT-ATAATATAGTTTTTGA
1 AAAATATAATATAT-ATGGTTTTAAAAA--TCGTTTTTGAAAACGTATAAT-ATATAG-TTTTGA
*
994294 AAACGA-ATTTTTGAA
61 AAAC-ACATTTTTAAA
* * ** * * **
994309 AACATATAATATACA--GTTTTTTAAAT-ATTTTTGAAAACATATAACGTATAGTTTT
1 AAAATATAATATATATGGTTTTAAAAATCGTTTTTGAAAACGTATAATATATAGTTTT
994364 TAAATATTTT
Statistics
Matches: 172, Mismatches: 26, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
72 4 0.02
73 20 0.12
74 1 0.01
75 7 0.04
76 2 0.01
77 41 0.24
78 92 0.53
79 5 0.03
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (75 bp):
AAAATATAATATATATGGTTTTAAAAATCGTTTTTGAAAACGTATAATATATAGTTTTGAAAACA
CATTTTTAAA
Found at i:994369 original size:34 final size:35
Alignment explanation
Indices: 994300--994379 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
994290 TTGAAAACGA
*
994300 ATTTTTGAAAACATATAATATACAGTTTTTTAAAT
1 ATTTTTGAAAACATATAACATACAGTTTTTTAAAT
* *
994335 ATTTTTGAAAACATATAACGTATAG-TTTTTAAAT
1 ATTTTTGAAAACATATAACATACAGTTTTTTAAAT
994369 ATTTTTTGAAA
1 A-TTTTTGAAA
994380 TATATACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 10 0.24
35 31 0.76
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (35 bp):
ATTTTTGAAAACATATAACATACAGTTTTTTAAAT
Found at i:994440 original size:4 final size:5
Alignment explanation
Indices: 994400--994446 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
994390 TTATTATTAG
994400 TATTT TATTT TCCATTTT TATTT TATTT TATTT TA-TT TA-TT TATTT
1 TATTT TATTT T--A-TTT TATTT TATTT TATTT TATTT TATTT TATTT
994446 T
1 T
994447 TCTTATTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.21
5 24 0.63
6 1 0.03
7 1 0.03
8 4 0.11
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:995656 original size:23 final size:22
Alignment explanation
Indices: 995615--995661 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
995605 TATTATTTAA
* *
995615 TATTTTTTATTTTATTTTATTT
1 TATTTTTTATTTAAGTTTATTT
995637 TATTTTATTATTTAAGTTTATTT
1 TATTTT-TTATTTAAGTTTATTT
995660 TA
1 TA
995662 ACTTTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TATTTTTTATTTAAGTTTATTT
Found at i:995661 original size:5 final size:5
Alignment explanation
Indices: 995619--995645 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
995609 ATTTAATATT
995619 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
995646 ATTTAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:998930 original size:66 final size:66
Alignment explanation
Indices: 998803--998933 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
998793 ATTGATCAAA
* * * *
998803 TCGATGTGACTCGTGTACCTTTGTGATGTATAAGGTGAAGTGTTAATTGAATATCGTACAGATCA
1 TCGATGTGACTCGTGTACCTTTGTAATGCATAAGGTGAAGTGATAATTGAATATCGCACAGATCA
998868 T
66 T
* *
998869 TCGATGTGACTCGTGTATCTTTGTAATGCATAAGGTGGAGTGATAATTGAATA-CTGCACAGATC
1 TCGATGTGACTCGTGTACCTTTGTAATGCATAAGGTGAAGTGATAATTGAATATC-GCACAGATC
998933 A
65 A
998934 CTCGGTGTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (66 bp):
TCGATGTGACTCGTGTACCTTTGTAATGCATAAGGTGAAGTGATAATTGAATATCGCACAGATCA
T
Found at i:1000544 original size:20 final size:20
Alignment explanation
Indices: 1000488--1000611 Score: 160
Period size: 20 Copynumber: 6.2 Consensus size: 20
1000478 AAATGACCAA
*
1000488 CAAATTCGCAACAC-GAACT
1 CAAATTCGCAACACAGAAGT
* * *
1000507 CCAATTTTGCAACCCAGAAGT
1 -CAAATTCGCAACACAGAAGT
*
1000528 CAAATTCACAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
*
1000548 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACACAGAAGT
*
1000568 CAAATTCGTAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
*
1000588 CAAATTCGCAACACAGATGT
1 CAAATTCGCAACACAGAAGT
1000608 CAAA
1 CAAA
1000612 GCGCGTTTAT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
20 85 0.96
21 4 0.04
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACACAGAAGT
Found at i:1001187 original size:20 final size:20
Alignment explanation
Indices: 1001162--1001220 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
1001152 GATTTTGTCA
1001162 TTGTGATTTTCATGTTCGCG
1 TTGTGATTTTCATGTTCGCG
1001182 TTGTGATTTTCATGTTCGCG
1 TTGTGATTTTCATGTTCGCG
* *
1001202 TTGCGATTTTCATTTTCGC
1 TTGTGATTTTCATGTTCGC
1001221 ATTGCGAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (20 bp):
TTGTGATTTTCATGTTCGCG
Found at i:1001225 original size:20 final size:20
Alignment explanation
Indices: 1001160--1001227 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
1001150 GCGATTTTGT
*
1001160 CATTGTGATTTTCATGTTCG
1 CATTGCGATTTTCATGTTCG
* *
1001180 CGTTGTGATTTTCATGTTCG
1 CATTGCGATTTTCATGTTCG
* *
1001200 CGTTGCGATTTTCATTTTCG
1 CATTGCGATTTTCATGTTCG
1001220 CATTGCGA
1 CATTGCGA
1001228 ATTTAAGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (20 bp):
CATTGCGATTTTCATGTTCG
Found at i:1001238 original size:20 final size:20
Alignment explanation
Indices: 1001196--1001238 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1001186 GATTTTCATG
* * * *
1001196 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGAATTTAAGT
1001216 TTCGCATTGCGAATTTAAGT
1 TTCGCATTGCGAATTTAAGT
1001236 TTC
1 TTC
1001239 AGAAACTACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGAATTTAAGT
Found at i:1003020 original size:63 final size:64
Alignment explanation
Indices: 1002925--1003064 Score: 169
Period size: 63 Copynumber: 2.2 Consensus size: 64
1002915 TTAGGGGAGT
* *
1002925 TACGTGATGAGGT-CGGTGCTTTGCGTCATGAGGTCGG-TACTTTTCGTGAAGACAATGGTGCGC
1 TACGTGATGAGGTACGGTGCTTTACGTCATGAGGT-GGATACTTTTCGCGAAGACAATGGTGCGC
* ** ** *
1002988 TACGTGATGAGGTACGGT-CTTTATGTGGTGAGGTGGATTTTTTTCGCGATGACAATGGTGCGC
1 TACGTGATGAGGTACGGTGCTTTACGTCATGAGGTGGATACTTTTCGCGAAGACAATGGTGCGC
*
1003051 TACGTGGTGAGGTA
1 TACGTGATGAGGTA
1003065 TCTACTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
62 2 0.03
63 60 0.91
64 4 0.06
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (64 bp):
TACGTGATGAGGTACGGTGCTTTACGTCATGAGGTGGATACTTTTCGCGAAGACAATGGTGCGC
Found at i:1003073 original size:63 final size:62
Alignment explanation
Indices: 1002965--1003084 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
1002955 AGGTCGGTAC
* *
1002965 TTTTCGTGAAGACAATGGTGCGCTACGTGATGAGGTACGGTCTTTATGTGGTGAGGTGGATTT
1 TTTTCGCGAAGACAATGGTGCGCTACGTGATGAGGTAC-GTCTTTATGTGATGAGGTGGATTT
* *
1003028 TTTTCGCGATGACAATGGTGCGCTACGTGGTGAGGTATC-TACTTTATGTGATGAGGT
1 TTTTCGCGAAGACAATGGTGCGCTACGTGATGAGGTA-CGT-CTTTATGTGATGAGGT
1003085 AGCCTCTCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
62 1 0.02
63 49 0.96
64 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.33, T:0.35
Consensus pattern (62 bp):
TTTTCGCGAAGACAATGGTGCGCTACGTGATGAGGTACGTCTTTATGTGATGAGGTGGATTT
Found at i:1003205 original size:4 final size:4
Alignment explanation
Indices: 1003196--1003229 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
1003186 TTTTTCAGCA
* *
1003196 TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1003230 TCAGCGGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:1003403 original size:21 final size:21
Alignment explanation
Indices: 1003379--1003476 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
1003369 CCTGTCATCG
**
1003379 TTCAAGAGGTGCCTCCTATCA
1 TTCAAGAGGCCCCTCCTATCA
**
1003400 TTCAAGAGGCGTCTCCTATCA
1 TTCAAGAGGCCCCTCCTATCA
*
1003421 TTCAAGAGGCCCCT-CTCATCG
1 TTCAAGAGGCCCCTCCT-ATCA
* *
1003442 CTCAAGAGGCCCCTCCTACCA
1 TTCAAGAGGCCCCTCCTATCA
*
1003463 TTCAAGAAGCCCCT
1 TTCAAGAGGCCCCT
1003477 ATCATCGTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.94
22 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCA
Found at i:1003447 original size:42 final size:42
Alignment explanation
Indices: 1003401--1003515 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
1003391 CTCCTATCAT
** * * *
1003401 TCAAGAGGCGTCTCCTATCATTCAAGAGGCCCCTCTCATCGC
1 TCAAGAGGCCCCTCCTACCATTCAAGAAGCCCCTATCATCGC
*
1003443 TCAAGAGGCCCCTCCTACCATTCAAGAAGCCCCTATCATCGT
1 TCAAGAGGCCCCTCCTACCATTCAAGAAGCCCCTATCATCGC
* *
1003485 TCAAGAGGTCCCTTCC-ACCGTTCAAG-AGCCC
1 TCAAGAGG-CCCCTCCTACCATTCAAGAAGCCC
1003516 GATTCACATG
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 5 0.08
42 53 0.83
43 6 0.09
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCTACCATTCAAGAAGCCCCTATCATCGC
Found at i:1003487 original size:21 final size:20
Alignment explanation
Indices: 1003421--1003512 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 20
1003411 TCTCCTATCA
*
1003421 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCT-TCACCG
* * *
1003442 CTCAAGAGGCCCCTCCTACCA
1 TTCAAGAGGCCCCTTC-ACCG
* *
1003463 TTCAAGAAGCCCCTATCATCG
1 TTCAAGAGGCCCCT-TCACCG
*
1003484 TTCAAGAGGTCCCTTCCACCG
1 TTCAAGAGGCCCCTT-CACCG
1003505 TTCAAGAG
1 TTCAAGAG
1003513 CCCGATTCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.04
21 53 0.95
22 1 0.02
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (20 bp):
TTCAAGAGGCCCCTTCACCG
Found at i:1003510 original size:63 final size:62
Alignment explanation
Indices: 1003377--1003512 Score: 143
Period size: 63 Copynumber: 2.2 Consensus size: 62
1003367 CACCTGTCAT
** * * *
1003377 CGTTCAAGAGGTGCCTCCTATCATTCAAGAGGCGTCTCCTATCATTCAAGAGGCCCCTCTCAT
1 CGTTCAAGAGGCCCCTCCTACCATTCAAGAAGCG-CTCCTATCATTCAAGAGGCCCCTCTCAC
* *
1003440 CGCTCAAGAGGCCCCTCCTACCATTCAAGAAGC-C-CCTATCATCGTTCAAGAGGTCCCT-TCCA
1 CGTTCAAGAGGCCCCTCCTACCATTCAAGAAGCGCTCCTATCA---TTCAAGAGGCCCCTCT-CA
1003502 C
62 C
1003503 CGTTCAAGAG
1 CGTTCAAGAG
1003513 CCCGATTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
60 7 0.11
61 1 0.02
62 1 0.02
63 52 0.85
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (62 bp):
CGTTCAAGAGGCCCCTCCTACCATTCAAGAAGCGCTCCTATCATTCAAGAGGCCCCTCTCAC
Found at i:1004927 original size:65 final size:64
Alignment explanation
Indices: 1004816--1004974 Score: 255
Period size: 65 Copynumber: 2.5 Consensus size: 64
1004806 TTAATTGAAT
*
1004816 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTT
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA-TTTTCTGCTT
1004881 G
64 G
* *
1004882 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTCTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTCTGCTTG
* *
1004946 TTTAATTGATTTGAAAAAGTTTATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
1004975 GTTTATTCAA
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
64 37 0.42
65 47 0.53
66 4 0.05
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTCTGCTTG
Found at i:1005412 original size:18 final size:18
Alignment explanation
Indices: 1005389--1005424 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1005379 AAGCCGGTTG
*
1005389 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1005407 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1005425 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1007775 original size:24 final size:24
Alignment explanation
Indices: 1007696--1007766 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
1007686 CAAAATCCGA
1007696 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1007720 GTATTGACCAAGATCAAAGTCCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1007744 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1007767 AATACTGACT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1008541 original size:14 final size:15
Alignment explanation
Indices: 1008505--1008542 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1008495 GAAATCATTG
1008505 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
1008520 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
1008535 AAAAATTA
1 AAAAATTA
1008543 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:1008760 original size:19 final size:19
Alignment explanation
Indices: 1008724--1008828 Score: 124
Period size: 19 Copynumber: 5.4 Consensus size: 19
1008714 TTCGTGTTGT
* *
1008724 GAATTCGAAAATCGAGTTTC
1 GAATTTGAAATTC-AGTTTC
1008744 GAATTTGAAATTCAGTTGT-
1 GAATTTGAAATTCAGTT-TC
1008763 GAATTTGAAATTCAGTTGT-
1 GAATTTGAAATTCAGTT-TC
*
1008782 GAATTTGAAATTCAGTTGC
1 GAATTTGAAATTCAGTTTC
1008801 GAATTTGAAATTCAGTGTTGC
1 GAATTTGAAATTCAGT-TT-C
1008822 GAATTTG
1 GAATTTG
1008829 GCAAACGCGT
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
19 56 0.73
20 13 0.17
21 8 0.10
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (19 bp):
GAATTTGAAATTCAGTTTC
Found at i:1008791 original size:38 final size:38
Alignment explanation
Indices: 1008719--1008828 Score: 150
Period size: 38 Copynumber: 2.8 Consensus size: 38
1008709 TTAAATTCGT
* *
1008719 GTTGTGAATTCGAAAATCGAGTTTCGAATTTGAAATTCA
1 GTTGTGAATTTGAAATTC-AGTTTCGAATTTGAAATTCA
1008758 GTTGTGAATTTGAAATTCAGTTGT-GAATTTGAAATTCA
1 GTTGTGAATTTGAAATTCAGTT-TCGAATTTGAAATTCA
*
1008796 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTG
1 GTTGTGAATTTGAAATTCAGT-TT-CGAATTTG
1008829 GCAAACGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 39 0.61
39 18 0.28
40 7 0.11
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (38 bp):
GTTGTGAATTTGAAATTCAGTTTCGAATTTGAAATTCA
Found at i:1012764 original size:25 final size:25
Alignment explanation
Indices: 1012729--1012785 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
1012719 TACCCTTGCT
*
1012729 AGGGTTTCTAATACCCTAAGCTTCA
1 AGGGTTCCTAATACCCTAAGCTTCA
1012754 AGGGTTCCTAATACCCTAAGCTTCA
1 AGGGTTCCTAATACCCTAAGCTTCA
1012779 AGGGTTC
1 AGGGTTC
1012786 ATTAGGCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (25 bp):
AGGGTTCCTAATACCCTAAGCTTCA
Found at i:1016870 original size:22 final size:24
Alignment explanation
Indices: 1016843--1016886 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1016833 TTTTCTGTAA
1016843 AATATCT-TTTA-TATAAAATCTT
1 AATATCTATTTATTATAAAATCTT
*
1016865 AATATCTATTTATTATATAATC
1 AATATCTATTTATTATAAAATC
1016887 AATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATCTATTTATTATAAAATCTT
Found at i:1016890 original size:22 final size:21
Alignment explanation
Indices: 1016843--1016891 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
1016833 TTTTCTGTAA
1016843 AATATCTTTTATATAAAATCTT
1 AATATCTTTTATATAAAATC-T
*
1016865 AATATCTATTTATTATATAATC-
1 AATATCT-TTTA-TATAAAATCT
1016887 AATAT
1 AATAT
1016892 ATTTAGGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 12 0.50
23 4 0.17
24 8 0.33
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATCTTTTATATAAAATCT
Found at i:1019727 original size:43 final size:43
Alignment explanation
Indices: 1019534--1019739 Score: 229
Period size: 43 Copynumber: 4.8 Consensus size: 43
1019524 TTTTAACAAA
* * * * *
1019534 AAACGCCGCAATAGGTATTGATATTTAGC-GCGTTTGTGTGAC
1 AAACGCCGCAATAGGTGTTGATGTTTAGCAGCGTTTTTCTCAC
* *
1019576 AAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCTGAC
1 AAACGCCGCAATAGGTGTTGATGTTTAGCAGCGTTTTTCTCAC
*
1019619 AAACGCCGCAATAGGT-TATGATGTTTAGTAGCGTTTTTCTCTA-
1 AAACGCCGCAATAGGTGT-TGATGTTTAGCAGCGTTTTTCTC-AC
* * * *
1019662 AAACGCCGCAGTAGGTGTTGATGTTTTGCGGCATTTTTCTCAC
1 AAACGCCGCAATAGGTGTTGATGTTTAGCAGCGTTTTTCTCAC
* * * *
1019705 AAATGCCGCAGTAGGTGTTGATGTTTTGCGGCGTT
1 AAACGCCGCAATAGGTGTTGATGTTTAGCAGCGTT
1019740 GTTGCTAAAA
Statistics
Matches: 146, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
42 30 0.21
43 114 0.78
44 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATGTTTAGCAGCGTTTTTCTCAC
Found at i:1020190 original size:21 final size:21
Alignment explanation
Indices: 1020153--1020196 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1020143 TACTAATATA
*
1020153 CTGCTTCTCTTTGTGCTGCCG
1 CTGCTTCTCTTTCTGCTGCCG
*
1020174 CTGCTTCT-TTCTCTGCTTCCG
1 CTGCTTCTCTT-TCTGCTGCCG
1020195 CT
1 CT
1020197 ACTGCTCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.00, C:0.36, G:0.18, T:0.45
Consensus pattern (21 bp):
CTGCTTCTCTTTCTGCTGCCG
Found at i:1020240 original size:21 final size:21
Alignment explanation
Indices: 1020183--1020241 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
1020173 GCTGCTTCTT
*
1020183 TCTCTGCTTCCGC-TACTGCTC
1 TCTCTGCTTCC-CTTGCTGCTC
** **
1020204 TGGCTGCTTCTGTTGCTGCTC
1 TCTCTGCTTCCCTTGCTGCTC
1020225 TCTCTGCTTCCCTTGCT
1 TCTCTGCTTCCCTTGCT
1020242 TCATTTTCCG
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.37, G:0.19, T:0.42
Consensus pattern (21 bp):
TCTCTGCTTCCCTTGCTGCTC
Found at i:1021794 original size:4 final size:4
Alignment explanation
Indices: 1021785--1021817 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
1021775 TTATAACATT
*
1021785 ATAA ATAA ATAA ATAA ATAA ATGA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1021818 ATCGTACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:1029552 original size:41 final size:41
Alignment explanation
Indices: 1029515--1029848 Score: 152
Period size: 41 Copynumber: 8.1 Consensus size: 41
1029505 TGAAAAATGT
*
1029515 CACTATAGATGAACCCTATTACGACATTTGTATAAAAACAC
1 CACTATAGATGAACCCTATTACGACATTTGTATAAAAACGC
* * * * *
1029556 CGCTAAAG-T-ACTACTCTATTGCGACGTTTGT-TAAAAAACGC
1 CACTATAGATGA--ACCCTATTACGACATTTGTAT-AAAAACGC
*
1029597 CACTATAGATGAACCCTATTACGACATTTGTATAAAAAAACGT
1 CACTATAGATGAACCCTATTACGACATTTGTAT--AAAAACGC
** * * *
1029640 TGC-A-A-ATGACTACTCTATTGCGGCATTTGT-TGAAAAACGC
1 CACTATAGATGA--ACCCTATTACGACATTTGTAT-AAAAACGC
* * *
1029680 CACTATAGATGAACTCTATTAC-AGCATTTATTTAAAAACGC
1 CACTATAGATGAACCCTATTACGA-CATTTGTATAAAAACGC
* * * * * * **
1029721 CGCTAAAG-T-ACTACTCTATTATGGCGTTTGT-TGAAAAATAC
1 CACTATAGATGA--ACCCTATTACGACATTTGTAT-AAAAACGC
** * * * * *
1029762 CACTATAGATGAACATTA-TAGTGGCGTTTGTTTAAAAACAC
1 CACTATAGATGAACCCTATTA-CGACATTTGTATAAAAACGC
* * * * *
1029803 CACTATAGATGAGCCCTATTACGGCGTTTGTGTATAAACGC
1 CACTATAGATGAACCCTATTACGACATTTGTATAAAAACGC
1029844 CACTA
1 CACTA
1029849 ATTGTACCAT
Statistics
Matches: 226, Mismatches: 44, Indels: 46
0.72 0.14 0.15
Matches are distributed among these distances:
39 2 0.01
40 18 0.08
41 166 0.73
42 25 0.11
43 15 0.07
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (41 bp):
CACTATAGATGAACCCTATTACGACATTTGTATAAAAACGC
Found at i:1029561 original size:82 final size:82
Alignment explanation
Indices: 1029475--1029775 Score: 365
Period size: 82 Copynumber: 3.7 Consensus size: 82
1029465 TATAAACGCA
* * * * *
1029475 GCTAAAGTACTACTCTATTGCAATATTTTTTGAAAAATGTCACTATAGATGAACCCTATTACGAC
1 GCTAAAGTACTACTCTATTGCGACATTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGAC
1029540 ATTTGTATAAAAACACC
66 ATTTGTATAAAAACACC
* *
1029557 GCTAAAGTACTACTCTATTGCGACGTTTGTTAAAAAACGCCACTATAGATGAACCCTATTACGAC
1 GCTAAAGTACTACTCTATTGCGACATTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGAC
*
1029622 ATTTGTATAAAAA-AAC
66 ATTTGTATAAAAACACC
* * *
1029638 GTTGCAAA-TGACTACTCTATTGCGGCATTTGTTGAAAAACGCCACTATAGATGAACTCTATTAC
1 GCT--AAAGT-ACTACTCTATTGCGACATTTGTTGAAAAACGCCACTATAGATGAACCCTATTAC
* * *
1029702 -AGCATTTATTTAAAAACGCC
63 GA-CATTTGTATAAAAACACC
** * * **
1029722 GCTAAAGTACTACTCTATTATGGCGTTTGTTGAAAAATACCACTATAGATGAAC
1 GCTAAAGTACTACTCTATTGCGACATTTGTTGAAAAACGCCACTATAGATGAAC
1029776 ATTATAGTGG
Statistics
Matches: 190, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
81 4 0.02
82 117 0.62
83 66 0.35
84 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (82 bp):
GCTAAAGTACTACTCTATTGCGACATTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGAC
ATTTGTATAAAAACACC
Found at i:1030628 original size:18 final size:18
Alignment explanation
Indices: 1030605--1030641 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1030595 GGAATGTTTC
*
1030605 TGATGGAATTGGAATCTG
1 TGATGGAATTGAAATCTG
1030623 TGATGGAATTGAAATCTG
1 TGATGGAATTGAAATCTG
1030641 T
1 T
1030642 TGGCAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (18 bp):
TGATGGAATTGAAATCTG
Found at i:1031987 original size:3 final size:3
Alignment explanation
Indices: 1031974--1032080 Score: 205
Period size: 3 Copynumber: 35.7 Consensus size: 3
1031964 GGCCATTACC
*
1031974 TAA TCA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1032022 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1032070 TAA TAA TAA TA
1 TAA TAA TAA TA
1032081 TAAAAAAGGG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1044123 original size:15 final size:15
Alignment explanation
Indices: 1044103--1044131 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1044093 AGGACTAGTC
1044103 AGTTTCCTAGTTTAG
1 AGTTTCCTAGTTTAG
1044118 AGTTTCCTAGTTTA
1 AGTTTCCTAGTTTA
1044132 AATCCTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (15 bp):
AGTTTCCTAGTTTAG
Found at i:1047233 original size:20 final size:20
Alignment explanation
Indices: 1047208--1047258 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1047198 TGATGTAAGT
1047208 GGTATCGATACTAAGAGAAG
1 GGTATCGATACTAAGAGAAG
*
1047228 GGTATCAATACTAAGAGAAG
1 GGTATCGATACTAAGAGAAG
1047248 GGTATCGATAC
1 GGTATCGATAC
1047259 CAGGCAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (20 bp):
GGTATCGATACTAAGAGAAG
Found at i:1048525 original size:45 final size:45
Alignment explanation
Indices: 1048461--1048577 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 45
1048451 ATGAATTAAA
*
1048461 AAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAATTG
1 AAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAAATG
* ** * * *
1048506 AAATGCATATGAGTGCATTATTGAAAAGAAATGATGCCATAAATG
1 AAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAAATG
*
1048551 AAATACATATGGGTGCATTATTGGCAT
1 AAATGCATATGGGTGCATTATTGGCAT
1048578 TGGCATGAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAAATG
Found at i:1048528 original size:23 final size:23
Alignment explanation
Indices: 1048461--1048573 Score: 72
Period size: 23 Copynumber: 5.0 Consensus size: 23
1048451 ATGAATTAAA
*
1048461 AAATGCATATGGGTGCATTATTG
1 AAATGCATATGAGTGCATTATTG
** * * *
1048484 GCATG-AAAGGA-TGACATAATTG
1 AAATGCATATGAGTG-CATTATTG
1048506 AAATGCATATGAGTGCATTATTG
1 AAATGCATATGAGTGCATTATTG
* * * *
1048529 AAAAG-AAATGA-TGCCATAAATG
1 AAATGCATATGAGTG-CATTATTG
* *
1048551 AAATACATATGGGTGCATTATTG
1 AAATGCATATGAGTGCATTATTG
1048574 GCATTGGCAT
Statistics
Matches: 63, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
21 4 0.06
22 27 0.43
23 28 0.44
24 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (23 bp):
AAATGCATATGAGTGCATTATTG
Found at i:1054797 original size:20 final size:20
Alignment explanation
Indices: 1054772--1054819 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1054762 CGATGTAAGT
1054772 GGTATCGATACTAAGAGAAG
1 GGTATCGATACTAAGAGAAG
* *
1054792 GGTATCAATACTGAGAGAAG
1 GGTATCGATACTAAGAGAAG
1054812 GGTA-CGAT
1 GGTATCGAT
1054820 TCCAGTCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (20 bp):
GGTATCGATACTAAGAGAAG
Found at i:1055385 original size:45 final size:45
Alignment explanation
Indices: 1055321--1055532 Score: 255
Period size: 45 Copynumber: 4.7 Consensus size: 45
1055311 TGAATTAAAA
* * *
1055321 AAATGCATATGGGTGCATTATTGGCATTAAAGGATATCATAATTG
1 AAATGCATATGGGTGCATTATTGGCATGAAAAGATACCATAATTG
* * *
1055366 AAATGCATATGAGTGCATTATTGGCATGAAAAAATGCCATAATTG
1 AAATGCATATGGGTGCATTATTGGCATGAAAAGATACCATAATTG
* * * *
1055411 AAATGCATATGGGTGCATTATTGACAAGAAATGATGCCATAATTG
1 AAATGCATATGGGTGCATTATTGGCATGAAAAGATACCATAATTG
***
1055456 AAATGCATATGGGTGCATTATTGGCATGAAAAGAATGGTATAATTG
1 AAATGCATATGGGTGCATTATTGGCATGAAAAG-ATACCATAATTG
**
1055502 AAAATGCATAAT-GGTGCATTATAAGCATGAA
1 -AAATGCAT-ATGGGTGCATTATTGGCATGAA
1055533 TGGATGCTAT
Statistics
Matches: 146, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 109 0.75
46 10 0.07
47 25 0.17
48 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTATTGGCATGAAAAGATACCATAATTG
Found at i:1055388 original size:23 final size:23
Alignment explanation
Indices: 1055362--1055478 Score: 82
Period size: 23 Copynumber: 5.2 Consensus size: 23
1055352 GGATATCATA
1055362 ATTGAAATGCATATGAGTGCATT
1 ATTGAAATGCATATGAGTGCATT
** ** * *
1055385 ATTGGCATG-A-AAAAATGCCATA
1 ATTGAAATGCATATGAGTG-CATT
*
1055407 ATTGAAATGCATATGGGTGCATT
1 ATTGAAATGCATATGAGTGCATT
* *
1055430 ATTGACAA-G-AAATGA-TGCCATA
1 ATTGA-AATGCATATGAGTG-CATT
*
1055452 ATTGAAATGCATATGGGTGCATT
1 ATTGAAATGCATATGAGTGCATT
1055475 ATTG
1 ATTG
1055479 GCATGAAAAG
Statistics
Matches: 67, Mismatches: 19, Indels: 16
0.66 0.19 0.16
Matches are distributed among these distances:
21 8 0.12
22 24 0.36
23 28 0.42
24 7 0.10
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (23 bp):
ATTGAAATGCATATGAGTGCATT
Found at i:1055430 original size:90 final size:92
Alignment explanation
Indices: 1055320--1055523 Score: 297
Period size: 90 Copynumber: 2.2 Consensus size: 92
1055310 ATGAATTAAA
* ** *
1055320 AAAATGCATATGGGTGCATTATTGGCATTAAAGGATATCATAATTGAAATGCATATGAGTGCATT
1 AAAATGCATATGGGTGCATTATTGACAAGAAAGGATACCATAATTGAAATGCATATGAGTGCATT
1055385 ATTGGCATGAAAA-AATGCCATAATTG
66 ATTGGCATGAAAAGAATGCCATAATTG
* * *
1055411 -AAATGCATATGGGTGCATTATTGACAAGAAATGATGCCATAATTGAAATGCATATGGGTGCATT
1 AAAATGCATATGGGTGCATTATTGACAAGAAAGGATACCATAATTGAAATGCATATGAGTGCATT
**
1055475 ATTGGCATGAAAAGAATGGTATAATTG
66 ATTGGCATGAAAAGAATGCCATAATTG
1055502 AAAATGCATAAT-GGTGCATTAT
1 AAAATGCAT-ATGGGTGCATTAT
1055524 AAGCATGAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
90 70 0.69
91 11 0.11
92 18 0.18
93 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.30
Consensus pattern (92 bp):
AAAATGCATATGGGTGCATTATTGACAAGAAAGGATACCATAATTGAAATGCATATGAGTGCATT
ATTGGCATGAAAAGAATGCCATAATTG
Found at i:1056561 original size:13 final size:13
Alignment explanation
Indices: 1056539--1056588 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
1056529 TTAAACTGAT
*
1056539 CTTTTTAAAAATA
1 CTTTTCAAAAATA
1056552 CTTTTCAAAAATCA
1 CTTTTCAAAAAT-A
* * *
1056566 CTTTTTAACATTA
1 CTTTTCAAAAATA
1056579 CTTTTCAAAA
1 CTTTTCAAAA
1056589 TTGTTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
CTTTTCAAAAATA
Found at i:1059257 original size:36 final size:36
Alignment explanation
Indices: 1059217--1059289 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
1059207 GGTACCCCAC
**
1059217 GCATCGAGTCTTCCTCCTTAAAGCTCAGTGCCCCTT
1 GCATCGACACTTCCTCCTTAAAGCTCAGTGCCCCTT
* * *
1059253 GCATCGACACTTCCTCCTTGAAGTTTAGTGCCCCTT
1 GCATCGACACTTCCTCCTTAAAGCTCAGTGCCCCTT
1059289 G
1 G
1059290 TTGCATCGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.16, C:0.34, G:0.18, T:0.32
Consensus pattern (36 bp):
GCATCGACACTTCCTCCTTAAAGCTCAGTGCCCCTT
Found at i:1059696 original size:305 final size:307
Alignment explanation
Indices: 1059149--1060006 Score: 1382
Period size: 305 Copynumber: 2.8 Consensus size: 307
1059139 GATGTATATC
* * *
1059149 TTTTCCATCAGTCGCATTAACCCAAAAATGCATCAAC-CATCCTTTCTCCACGGAG-TGTGGTAC
1 TTTTCCATCAGTCGTATTAACCCAAAAATGCATCAACTC-TCCTTTCTCCACGGAGCT-TAGTGC
** *
1059212 CCCACGCATCGAGTCTTCCTCCTTAAAGCTCAGTGCCCCTTGCATCGACACTTCCTCCTTGAAGT
64 CCCACGCATCGAGTCTTCCTCCTTAAAGCTTGGTGCCCCTTGCATCGA-ACTTCATCCTTGAAGT
* * * * * * *
1059277 TTAGTGCCCCTTGTTGCATCGTTTCTTCCCCTTTGAAGTTCGATGCCTTTACCATCTCACCAATT
128 TTAGCGCCCTTTGTTGCATCGATTCTTCCTCTTTGAAGTCCGGTGCCTTTACCACCTCACCAATT
* *
1059342 GGTGGTTCCTCCATGTTCTTAGAAAGCTCGGGTCACTTTGTCTCTCCCTCGGGTCCCCTTTGAAA
193 GGTGGTTCCTCCATGTCCTTAGAAAGCTCGGGTCACTTTGTCCCTCCCTCGGGTCCCCTTTGAAA
1059407 GATGGAAAATTAGACTTAACAACATAAGAGTTTTGTTCGAGATGTACCTA
258 GATGGAAAATTAGACTTAACAACATAAGAGTTTTGTTCGAGATGTACCTA
*
1059457 TTTTCCATCAGTCGTATTAACCCAAAAATGCATCAGCTCTCCTTTCTCCACGGAGCTTAGTGCCC
1 TTTTCCATCAGTCGTATTAACCCAAAAATGCATCAACTCTCCTTTCTCCACGGAGCTTAGTGCCC
1059522 CACGCATCGAGTCTTCCTCCTTAAAGCTTGGTG-CCCTTGCATCG-ACTTCATCCTTGAAGTTTA
66 CACGCATCGAGTCTTCCTCCTTAAAGCTTGGTGCCCCTTGCATCGAACTTCATCCTTGAAGTTTA
*
1059585 GCGCCCTTTGTTGCATCGATTCTTCCTCTTTGAAGTCCGGTGCCTTTATCACCTCACCAATTGGT
131 GCGCCCTTTGTTGCATCGATTCTTCCTCTTTGAAGTCCGGTGCCTTTACCACCTCACCAATTGGT
1059650 GGTTCCTCCATGTCCTTAGAAAGCTCGGGTCACTTTGTCCCTCCCTCGGGTCCCCTTTGAAAGAT
196 GGTTCCTCCATGTCCTTAGAAAGCTCGGGTCACTTTGTCCCTCCCTCGGGTCCCCTTTGAAAGAT
* * *
1059715 GGCAAATTAGACTTAACAATATAAGAGTTTTGTTCGAGATGTACCTC
261 GGAAAATTAGACTTAACAACATAAGAGTTTTGTTCGAGATGTACCTA
* * *
1059762 TTTTCCATCGGTCGTATTAACCCAAAAATGCATCATCTCTCCTTTTTCCACGGAGCTTAGTGCCC
1 TTTTCCATCAGTCGTATTAACCCAAAAATGCATCAACTCTCCTTTCTCCACGGAGCTTAGTGCCC
*
1059827 CACGCATCGAGTCTTCCTCCTTAAAGCTTGGTGCCCCTTGCATCGACACTTCGTCCTTGAAGTTT
66 CACGCATCGAGTCTTCCTCCTTAAAGCTTGGTGCCCCTTGCATCGA-ACTTCATCCTTGAAGTTT
* *
1059892 AGCGCCCTTTGTTGCATCGGTTCTTCCTCTTTGAAGTCCGGTGCCTTTACCACCTCACCAATTAG
130 AGCGCCCTTTGTTGCATCGATTCTTCCTCTTTGAAGTCCGGTGCCTTTACCACCTCACCAATTGG
* * * *
1059957 TGGTTCCTCCATATCCCTCGAAAGCTCGGGTCCCTTTGTCCCTCCCTCGG
195 TGGTTCCTCCATGTCCTTAGAAAGCTCGGGTCACTTTGTCCCTCCCTCGG
1060007 TTGTACCCCA
Statistics
Matches: 514, Mismatches: 31, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
305 277 0.54
306 11 0.02
307 11 0.02
308 213 0.41
309 2 0.00
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.33
Consensus pattern (307 bp):
TTTTCCATCAGTCGTATTAACCCAAAAATGCATCAACTCTCCTTTCTCCACGGAGCTTAGTGCCC
CACGCATCGAGTCTTCCTCCTTAAAGCTTGGTGCCCCTTGCATCGAACTTCATCCTTGAAGTTTA
GCGCCCTTTGTTGCATCGATTCTTCCTCTTTGAAGTCCGGTGCCTTTACCACCTCACCAATTGGT
GGTTCCTCCATGTCCTTAGAAAGCTCGGGTCACTTTGTCCCTCCCTCGGGTCCCCTTTGAAAGAT
GGAAAATTAGACTTAACAACATAAGAGTTTTGTTCGAGATGTACCTA
Found at i:1059884 original size:36 final size:36
Alignment explanation
Indices: 1059815--1059898 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1059805 TTTTCCACGG
**
1059815 AGCTTAGTGCCCCACGCATCGAGTCTTCCTCCTTAA
1 AGCTTAGTGCCCCACGCATCGACACTTCCTCCTTAA
* ** * *
1059851 AGCTTGGTGCCCCTTGCATCGACACTTCGTCCTTGA
1 AGCTTAGTGCCCCACGCATCGACACTTCCTCCTTAA
* *
1059887 AGTTTAGCGCCC
1 AGCTTAGTGCCC
1059899 TTTGTTGCAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.17, C:0.35, G:0.20, T:0.29
Consensus pattern (36 bp):
AGCTTAGTGCCCCACGCATCGACACTTCCTCCTTAA
Found at i:1065911 original size:3 final size:3
Alignment explanation
Indices: 1065898--1065932 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
1065888 TGCAGAGGGT
*
1065898 TTC TT- TTC TTC TTC TTC TTC TTC TTC CTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1065933 AAGTTATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1066795 original size:252 final size:251
Alignment explanation
Indices: 1066333--1066825 Score: 952
Period size: 252 Copynumber: 2.0 Consensus size: 251
1066323 TTTTGAACTG
1066333 TTTCCCCCCTATAAAAAGACCTTTTGGATGTTTAAGTACACATCTACTAGTTTTATCTATCTTTG
1 TTTCCCCCCTATAAAAAGACCTTTTGGATGTTTAAGTACACATCTACTAGTTTTATCTATCTTTG
1066398 GTTGCTATTTGAATGGTCAATAATATGCTTTATTGGGTTAACTGCAAATGTTCAGCAAGGGAAAC
66 GTTGCTATTTGAATGGTCAATAATATGCTTTATTGGGTTAACTGCAAATGTTCAGCAAGGGAAAC
1066463 CCAGTTTTTTTTATTCATAACATTGGCAAATATCATCACATGACCTTTTGATAGTCATCTTTTAT
131 CCAGTTTTTTTTATTCATAACATTGGCAAATATCATCACATGACCTTTTGATAGTCATCTTTTAT
1066528 GTTTTCAGTTACCAAATTTGAATTAGGGTTCCCATTTATAATTTCATATATCCCAA
196 GTTTTCAGTTACCAAATTTGAATTAGGGTTCCCATTTATAATTTCATATATCCCAA
*
1066584 TTTCCCCCCTATAAGAATGACCTTTTGGATGTTTAAGTACACATCTACTAGTTTTATCTATCTTT
1 TTTCCCCCCTATAA-AAAGACCTTTTGGATGTTTAAGTACACATCTACTAGTTTTATCTATCTTT
1066649 GGTTGCTATTTGAATGGTCAATAATATGCTTTATTGGGTTAACTGCAAAATGTTCAGCAAGGGAA
65 GGTTGCTATTTGAATGGTCAATAATATGCTTTATTGGGTTAACTGC-AAATGTTCAGCAAGGGAA
1066714 ACCCAGTTTTTTTTATTCATAACATTGGCAAATATCATCACATGACCTTTTGATAGTCATCTTTT
129 ACCCAGTTTTTTTTATTCATAACATTGGCAAATATCATCACATGACCTTTTGATAGTCATCTTTT
1066779 ATG-TTTCAGTTACCAAATTTGAATTAGGGTTCCCATTTATAATTTCA
194 ATGTTTTCAGTTACCAAATTTGAATTAGGGTTCCCATTTATAATTTCA
1066826 ACTTATTATC
Statistics
Matches: 239, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
251 14 0.06
252 139 0.58
253 86 0.36
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (251 bp):
TTTCCCCCCTATAAAAAGACCTTTTGGATGTTTAAGTACACATCTACTAGTTTTATCTATCTTTG
GTTGCTATTTGAATGGTCAATAATATGCTTTATTGGGTTAACTGCAAATGTTCAGCAAGGGAAAC
CCAGTTTTTTTTATTCATAACATTGGCAAATATCATCACATGACCTTTTGATAGTCATCTTTTAT
GTTTTCAGTTACCAAATTTGAATTAGGGTTCCCATTTATAATTTCATATATCCCAA
Found at i:1070609 original size:22 final size:22
Alignment explanation
Indices: 1070581--1070622 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1070571 TTGACATTCT
1070581 CGTTGACTTTGACTTTGACCAG
1 CGTTGACTTTGACTTTGACCAG
*
1070603 CGTTGACTTTGAGTTTGACC
1 CGTTGACTTTGACTTTGACC
1070623 GAAAAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (22 bp):
CGTTGACTTTGACTTTGACCAG
Found at i:1074580 original size:54 final size:54
Alignment explanation
Indices: 1074517--1075021 Score: 520
Period size: 54 Copynumber: 9.4 Consensus size: 54
1074507 ATAAGTTATA
* * * * * * ** *
1074517 TGGGGTGCACACATAGTGCCGATACGGTCGTTCATAAACACATTATGAATTCTG
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTG
* * * * *
1074571 TGGGTTGCACACTTAGTG-CTGATACGATCGTTCATCAACATATGATGAATTCTA
1 TGGGTTGCACACTTAGTGCCT-AAACGGTTGTTCATCAACTTATGATGAATTCTG
* * * * ** *
1074625 TAGGCTGCACACTTAGTGCCTATATGACTGTTCATCAACATATGATGAATTC-G
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTG
* * * *
1074678 TGGGTTTCACACTTAGTGCCTATACGGTTGTTCATCAACATATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCT-G
* *
1074732 TGGGTTGCACACATATTGCCTAAACGGTTGTTCATCAACTTATGATGAATT-TCG
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCT-G
* * * *
1074786 TGGGTTGCACACCTAGTGCCAAAACGGTTGTTTATCAACTTATGATGAATTCCG
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTG
* * **
1074840 TGGGTTGCACACTTAGTGCCTAAATGGTTGTTCATTAACTTATGATGAATTCCA
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTG
* * * * **
1074894 TGGGTTTCACACCTAGTG-CTAAAATGGTTGTTCATCAACTTATGTTGAATTCCA
1 TGGGTTGCACACTTAGTGCCT-AAACGGTTGTTCATCAACTTATGATGAATTCTG
*
1074948 TGGGTTGCACACGTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATT-TCG
1 TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCT-G
*
1075002 TGGGTTGTACA-TATAGTGCC
1 TGGGTTGCACACT-TAGTGCC
1075022 AAAAATACAC
Statistics
Matches: 392, Mismatches: 50, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
53 47 0.12
54 341 0.87
55 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTG
Found at i:1075576 original size:20 final size:20
Alignment explanation
Indices: 1075547--1075601 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
1075537 CCATTTAAAC
1075547 CTAT-AGTATCGATACTATT
1 CTATCAGTATCGATACTATT
1075566 CTATCAGTATCGATACTATT
1 CTATCAGTATCGATACTATT
*
1075586 CTATCAGTACCGATAC
1 CTATCAGTATCGATAC
1075602 CCTTACCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.12
20 30 0.88
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (20 bp):
CTATCAGTATCGATACTATT
Found at i:1077758 original size:54 final size:54
Alignment explanation
Indices: 1077646--1077778 Score: 153
Period size: 54 Copynumber: 2.5 Consensus size: 54
1077636 ACAAGTTATT
* * *
1077646 TGGGGTGCACA-TGTAGTGTCAATACGGTCGTTCATAAACACATTATGAATTCTA
1 TGGGTTGCACACT-TAGTGTCAATACGGTCGTTCATAAACACATAATAAATTCTA
* * * *
1077700 TGGGTTGTACACTTAGTGTCGATACGGTCGTTCATAAACATATAATAAATT-TCG
1 TGGGTTGCACACTTAGTGTCAATACGGTCGTTCATAAACACATAATAAATTCT-A
* *
1077754 TGGGTTGCACATTTAGTGTCTATAC
1 TGGGTTGCACACTTAGTGTCAATAC
1077779 AGTTGTTAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 65 0.97
55 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCAATACGGTCGTTCATAAACACATAATAAATTCTA
Found at i:1078138 original size:54 final size:54
Alignment explanation
Indices: 1077690--1078134 Score: 441
Period size: 54 Copynumber: 8.3 Consensus size: 54
1077680 TAAACACATT
** * * * * * * * *
1077690 ATGAATTCTATGGGTTGTACACTTAGTGTCGATACGGTCGTTCATAAACATATA
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
* * * * * * *
1077744 ATAAATTTCGTGGGTTGCACATTTAGTGTCTATACAGTTGTT-AACAA---ATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
** * * * *
1077794 ATGAATTTTGTGGGTTGCACACTTAGTGCCTATACGTTTGTTCACCAACATATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
* * *
1077848 ATGAATTCCGTGGGTTACACACATATTGCCTAAACGGTTGTTCATCAACTTATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
* * * *
1077902 ATGAATTACGTAGGTTGCACACCTAGTGCCAAAACGGTTGTTCATCAACTTATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
* * *
1077956 AAGAATTTCGTGGGTTACACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
** * * * * *
1078010 ATGAATTCTATGGGTTGTACACCTAATGCC-AAATTGGTTGTTCATCAACTAATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAA-CGGTTGTTCATCAACTTATG
* * *
1078064 ATGAATTCCGTGGGTTGTACACTTAGTTCCTAAATGGTTGTTCATCAACTTATG
1 ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
**
1078118 ATGAATTTTGTGGGTTG
1 ATGAATTCCGTGGGTTG
1078135 TACAAATAGT
Statistics
Matches: 327, Mismatches: 58, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
50 38 0.12
51 4 0.01
53 6 0.02
54 276 0.84
55 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
ATGAATTCCGTGGGTTGCACACTTAGTGCCTAAACGGTTGTTCATCAACTTATG
Found at i:1084971 original size:30 final size:30
Alignment explanation
Indices: 1084937--1084995 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1084927 TTTGAGCCAT
1084937 TGACC-TTGACCCGAACCATTAACTTTGACC
1 TGACCGTTGACCCG-ACCATTAACTTTGACC
* *
1084967 TGACCGTTGACCTGACCATTGACTTTGAC
1 TGACCGTTGACCCGACCATTAACTTTGAC
1084996 TTTGACCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (30 bp):
TGACCGTTGACCCGACCATTAACTTTGACC
Found at i:1086174 original size:21 final size:21
Alignment explanation
Indices: 1086148--1086191 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1086138 AGTTAGTACT
*
1086148 ATTTGACTAGAAA-TCATGATA
1 ATTTGA-TAGAAATTCATAATA
*
1086169 ATTTGATATAAATTCATAATA
1 ATTTGATAGAAATTCATAATA
1086190 AT
1 AT
1086192 GCAAATTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATTTGATAGAAATTCATAATA
Found at i:1086438 original size:19 final size:19
Alignment explanation
Indices: 1086414--1086453 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
1086404 CTGCTAATAA
*
1086414 ACGAACCCTTTTTATAGGG
1 ACGAACCCCTTTTATAGGG
1086433 ACGAACCCCTTTTATAGGG
1 ACGAACCCCTTTTATAGGG
1086452 AC
1 AC
1086454 CTCAATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (19 bp):
ACGAACCCCTTTTATAGGG
Found at i:1090286 original size:29 final size:29
Alignment explanation
Indices: 1090249--1090306 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1090239 TTATCTTACT
* *
1090249 TATATTTTATTCTTATTTTAACTTATAAA
1 TATAATTTATTCTTATATTAACTTATAAA
*
1090278 TATAATTTATTCTTATATTAACTTTTAAA
1 TATAATTTATTCTTATATTAACTTATAAA
1090307 AATATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (29 bp):
TATAATTTATTCTTATATTAACTTATAAA
Found at i:1090409 original size:30 final size:30
Alignment explanation
Indices: 1090347--1090410 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
1090337 ATATATTTAA
* *
1090347 ATATTTTATTATTATTTTAATACAATATAT
1 ATATTTTATTATTATTTTAATACAAAAAAT
* *
1090377 ATATTTTATTCTTATTTTAATATAAAAAAT
1 ATATTTTATTATTATTTTAATACAAAAAAT
1090407 ATAT
1 ATAT
1090411 ATTGTGTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
ATATTTTATTATTATTTTAATACAAAAAAT
Found at i:1090448 original size:25 final size:25
Alignment explanation
Indices: 1090406--1090457 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
1090396 ATATAAAAAA
* *
1090406 TATATATTGTGTTCTTATCTTCACT
1 TATATATTGTATTCTTATCTTAACT
* * *
1090431 TATATATTTTATTTTTATTTTAACT
1 TATATATTGTATTCTTATCTTAACT
1090456 TA
1 TA
1090458 AAATGTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.10, G:0.04, T:0.62
Consensus pattern (25 bp):
TATATATTGTATTCTTATCTTAACT
Found at i:1090460 original size:57 final size:54
Alignment explanation
Indices: 1090374--1090480 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 54
1090364 TAATACAATA
*
1090374 TATATATTTTATTCTTATTTTAATATAAAAAATATATATTGTGTTCTTATCTTCACT
1 TATATATTTTATTCTTATTTTAATAT--AAAATATATATTG-ATTCTTATCTTCACT
* *
1090431 TATATATTTTATTTTTATTTTAACT-TAAAATGTATATTGATTCTTATCTT
1 TATATATTTTATTCTTATTTTAA-TATAAAATATATATTGATTCTTATCTT
1090481 AATTTTTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 10 0.22
55 12 0.26
57 23 0.50
58 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (54 bp):
TATATATTTTATTCTTATTTTAATATAAAATATATATTGATTCTTATCTTCACT
Found at i:1090590 original size:2 final size:2
Alignment explanation
Indices: 1090546--1090579 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1090536 AAATAAGGTA
1090546 AT AT 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
1090580 TTAGAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1090625 original size:27 final size:28
Alignment explanation
Indices: 1090595--1090648 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
1090585 ATATATTTTT
*
1090595 AAGTTAAGATATT-TTAAAAAAATTAAA
1 AAGTTAAGATATTAATAAAAAAATTAAA
1090622 AAGTTAAGATATTAATAAAAAAATTAA
1 AAGTTAAGATATTAATAAAAAAATTAA
1090649 TTTAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
AAGTTAAGATATTAATAAAAAAATTAAA
Found at i:1090687 original size:29 final size:29
Alignment explanation
Indices: 1090654--1090761 Score: 114
Period size: 29 Copynumber: 3.7 Consensus size: 29
1090644 ATTAATTTAA
1090654 AATAAAAATAAAATATATTTTTAAGTGAT
1 AATAAAAATAAAATATATTTTTAAGTGAT
* *
1090683 AATAAAAATAATATATATTTTTATATTGA-
1 AATAAAAATAAAATATATTTTTA-AGTGAT
* *
1090712 AATAAGAATAAAATATACTTATTAAGT--T
1 AATAAAAATAAAATATA-TTTTTAAGTGAT
* *
1090740 AACAAAAAATAAAATACATTTT
1 AA-TAAAAATAAAATATATTTT
1090762 AATAGTTAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
28 5 0.08
29 51 0.78
30 9 0.14
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (29 bp):
AATAAAAATAAAATATATTTTTAAGTGAT
Found at i:1095964 original size:166 final size:166
Alignment explanation
Indices: 1095690--1096018 Score: 622
Period size: 166 Copynumber: 2.0 Consensus size: 166
1095680 AGGAACCACA
* *
1095690 CAATTGAGATATTTTGGAAGTTTACTTTAGGGCGTTTTTACACAAAAATACATGATAGGTTTTAA
1 CAATTGAGATATTTTGGAAGTTTACTTTAGGGCATTTTTACACAAAAATACATGATAGGTTATAA
*
1095755 TTACCTATCAGGCACCATTTTAAAAAAATTTACCGATCTAGCACACTTTGCAGAAAGGCGTGGAT
66 TTACCTATCAGGCACCATTTTAAAAAAATTTACCGATCTAGCACACTTTGCAGAAAGACGTGGAT
1095820 GTTCTGAAATTATGACAAGCGCCAGAAAGTCTTCAC
131 GTTCTGAAATTATGACAAGCGCCAGAAAGTCTTCAC
*
1095856 CAATTGAGATATTTTGGAAGTTTACTTTAGGGCATTTTTACACAAAAATACATGATATGTTATAA
1 CAATTGAGATATTTTGGAAGTTTACTTTAGGGCATTTTTACACAAAAATACATGATAGGTTATAA
1095921 TTACCTATCAGGCACCATTTTAAAAAAATTTACCGATCTAGCACACTTTGCAGAAAGACGTGGAT
66 TTACCTATCAGGCACCATTTTAAAAAAATTTACCGATCTAGCACACTTTGCAGAAAGACGTGGAT
1095986 GTTCTGAAATTATGACAAGCGCCAGAAAGTCTT
131 GTTCTGAAATTATGACAAGCGCCAGAAAGTCTT
1096019 AATTTCAACC
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 159 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (166 bp):
CAATTGAGATATTTTGGAAGTTTACTTTAGGGCATTTTTACACAAAAATACATGATAGGTTATAA
TTACCTATCAGGCACCATTTTAAAAAAATTTACCGATCTAGCACACTTTGCAGAAAGACGTGGAT
GTTCTGAAATTATGACAAGCGCCAGAAAGTCTTCAC
Found at i:1096253 original size:8 final size:8
Alignment explanation
Indices: 1096240--1096287 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
1096230 AATAAATTGA
1096240 TATTTTAT
1 TATTTTAT
1096248 TATTTTAT
1 TATTTTAT
1096256 TAAATTTTAT
1 T--ATTTTAT
*
1096266 TATATTAAT
1 TAT-TTTAT
1096275 TA-TTTAT
1 TATTTTAT
1096282 TATTTT
1 TATTTT
1096288 TTGCAGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 6 0.18
8 14 0.41
9 6 0.18
10 8 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:1096271 original size:15 final size:16
Alignment explanation
Indices: 1096247--1096284 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1096237 TGATATTTTA
*
1096247 TTATTTTATTAAAT-T
1 TTATTATATTAAATAT
*
1096262 TTATTATATTAATTAT
1 TTATTATATTAAATAT
1096278 TTATTAT
1 TTATTAT
1096285 TTTTTGCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATATTAAATAT
Found at i:1097419 original size:2 final size:2
Alignment explanation
Indices: 1097412--1097443 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1097402 TGATAAGAAT
1097412 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1097444 GTTTGAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1100789 original size:21 final size:21
Alignment explanation
Indices: 1100764--1100803 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1100754 CCATAACAGG
* *
1100764 GGGTATCGATACCCCTTCATA
1 GGGTATCAATACACCTTCATA
1100785 GGGTATCAATACACCTTCA
1 GGGTATCAATACACCTTCA
1100804 CTAAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (21 bp):
GGGTATCAATACACCTTCATA
Found at i:1101013 original size:22 final size:20
Alignment explanation
Indices: 1100947--1101018 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 20
1100937 AGTAGTCATA
1100947 GGTGTATGGATACACCTACAG
1 GGTGTATGGATACACCT-CAG
1100968 GGTGTATCGG-TACA-C-CA-
1 GGTGTAT-GGATACACCTCAG
1100985 -GTGTATGGATACACTCTGCAG
1 GGTGTATGGATACAC-CT-CAG
1101006 GGTGTATGGATAC
1 GGTGTATGGATAC
1101019 CCTTTGATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
15 2 0.05
16 10 0.23
18 3 0.07
20 3 0.07
21 11 0.26
22 14 0.33
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (20 bp):
GGTGTATGGATACACCTCAG
Found at i:1101285 original size:18 final size:18
Alignment explanation
Indices: 1101243--1101299 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
1101233 ATATTTAATG
*
1101243 AAAAAAATACCAATTGTT
1 AAAAAGATACCAATTGTT
*
1101261 AACAAAAGGATATCAATTGTT
1 -A-AAAA-GATACCAATTGTT
1101282 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
1101300 GGAAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 5 0.15
21 11 0.33
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Found at i:1103972 original size:34 final size:33
Alignment explanation
Indices: 1103925--1103992 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
1103915 TTAAAACTCT
*
1103925 CTAGTTTTCCACGGGATAAACTAGAACATTTCC
1 CTAGTTTTACACGGGATAAACTAGAACATTTCC
* * * *
1103958 CTAGCTTTTACACGGGCTTAGCTAGAACCTTTCC
1 CTAG-TTTTACACGGGATAAACTAGAACATTTCC
1103992 C
1 C
1103993 CCTTAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (33 bp):
CTAGTTTTACACGGGATAAACTAGAACATTTCC
Found at i:1107521 original size:28 final size:28
Alignment explanation
Indices: 1107479--1107534 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
1107469 ATAAACTATA
1107479 AGTCTTCGTACTCATAGCTATGAAAATT
1 AGTCTTCGTACTCATAGCTATGAAAATT
* *
1107507 AGTCTTCTTATTCATAGCTATGAAAATT
1 AGTCTTCGTACTCATAGCTATGAAAATT
1107535 TCAGGATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (28 bp):
AGTCTTCGTACTCATAGCTATGAAAATT
Found at i:1112693 original size:268 final size:264
Alignment explanation
Indices: 1112262--1112796 Score: 986
Period size: 268 Copynumber: 2.0 Consensus size: 264
1112252 GTCGATTTTG
1112262 AAAAACAAAATGAAATTTTGAAAAATTATTTAGAGCTTTCAAAAATCAAAATAAATTTAGAAAAA
1 AAAAACAAAATGAAATTTTGAAAAATTATTTAGAGCTTTCAAAAATCAAAATAAATTTAGAAAAA
1112327 AAAATTTTGATTTAAAAGTTAAGCTTGAAAGCTTAACAAAGAAAAAGAATAATTTCTAAAAATGA
66 AAAATTTTGATTTAAAAGTTAAGCTTGAAAGCTTAACAAAGAAAAAGAATAATTTCTAAAAATGA
1112392 CCTATTATGTTTAAAAATGGCAAAATGCTCACATTGTCATTATCATGGTCATAAGGAAACATACA
131 CCTATTATGTTTAAAAATGGCAAAATGCTCACATTGTCATTATCATGGTCATAAGG-AACATACA
1112457 TGTCCTTTGAAGAAATGAAAACTTTTTAAAATTAGACAAGTAT-GG-TCCGAAAGGAACAAGGGG
195 TGTCCTTTGAAGAAATGAAAACTTTTTAAAATTAGACAAGTATGGGTTCCGAAAGGAACAAGGGG
1112520 CATTA
260 CATTA
1112525 AAAAACAAAATGAAATTTTGAAAAATTA-TTAGAGCTTTCAAAAATCAAAATAAATTATTTAGAA
1 AAAAACAAAATGAAATTTTGAAAAATTATTTAGAGCTTTCAAAAATCAAAAT-AA--ATTTAGAA
1112589 AAAGAAAATTTTGATTTAAAAGTTAAGCTTGAAAGCTTAACAAAAGAAAAAGAATTAATTTCTAA
63 AAA-AAAATTTTGATTTAAAAGTTAAGCTTGAAAGCTTAAC-AAAGAAAAAGAA-TAATTTCTAA
1112654 AAATGACCTATTATGTTTAAAAATGGCAAAATGCTCACATTGTCATTATCATGGTCATAAGGAAC
125 AAATGACCTATTATGTTTAAAAATGGCAAAATGCTCACATTGTCATTATCATGGTCATAAGGAAC
1112719 ATACATGTCCTTTGAAGAAATGAAAACTTTTTAAAATTAGACAAGTATGGGTTCCGAAAGGAACA
190 ATACATGTCCTTTGAAGAAATGAAAACTTTTTAAAATTAGACAAGTATGGGTTCCGAAAGGAACA
1112784 AGGGGCATTA
255 AGGGGCATTA
1112794 AAA
1 AAA
1112797 CTAACATTCA
Statistics
Matches: 264, Mismatches: 0, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
262 23 0.09
263 30 0.11
265 11 0.04
266 37 0.14
267 63 0.24
268 74 0.28
269 26 0.10
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (264 bp):
AAAAACAAAATGAAATTTTGAAAAATTATTTAGAGCTTTCAAAAATCAAAATAAATTTAGAAAAA
AAAATTTTGATTTAAAAGTTAAGCTTGAAAGCTTAACAAAGAAAAAGAATAATTTCTAAAAATGA
CCTATTATGTTTAAAAATGGCAAAATGCTCACATTGTCATTATCATGGTCATAAGGAACATACAT
GTCCTTTGAAGAAATGAAAACTTTTTAAAATTAGACAAGTATGGGTTCCGAAAGGAACAAGGGGC
ATTA
Found at i:1113684 original size:21 final size:21
Alignment explanation
Indices: 1113658--1113698 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1113648 CAATGGTATT
1113658 TTAACAATTGATATCATTTTG
1 TTAACAATTGATATCATTTTG
* *
1113679 TTAACAATTGGTATCTTTTT
1 TTAACAATTGATATCATTTT
1113699 TCATAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (21 bp):
TTAACAATTGATATCATTTTG
Found at i:1114383 original size:33 final size:33
Alignment explanation
Indices: 1114345--1114414 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
1114335 CTTTGTAAAG
*
1114345 GGGAAAGGTT-TAG-CTAAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGTCTAA-CCCGTG-AAAAACTA
*
1114378 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGTCTAACCCGTGAAAAACTA
1114411 GGGA
1 GGGA
1114415 GTTGTAAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 21 0.64
34 9 0.27
35 3 0.09
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTCTAACCCGTGAAAAACTA
Found at i:1116791 original size:21 final size:20
Alignment explanation
Indices: 1116767--1116843 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
1116757 ATCCTCGCTA
1116767 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
*
1116788 TGTACCGATACATTCCTTGAATG
1 TGTATCGATACA---CTTGAATG
* *
1116811 TGTATCGATACACTTCAAGG
1 TGTATCGATACACTTGAATG
1116831 TGTA-CAGATACAC
1 TGTATC-GATACAC
1116844 CCATCGGGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
19 1 0.02
20 17 0.35
21 11 0.23
23 17 0.35
24 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:1117854 original size:15 final size:15
Alignment explanation
Indices: 1117834--1117862 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1117824 TAACACCTTT
1117834 GGTTTAGATAACGAG
1 GGTTTAGATAACGAG
1117849 GGTTTAGATAACGA
1 GGTTTAGATAACGA
1117863 AAAAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (15 bp):
GGTTTAGATAACGAG
Found at i:1120629 original size:18 final size:18
Alignment explanation
Indices: 1120598--1120636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1120588 ATTTTTTTTC
*
1120598 AAATAATATCATATA-TA
1 AAATAATATAATATATTA
1120615 AAATATATATAATATATTA
1 AAATA-ATATAATATATTA
1120634 AAA
1 AAA
1120637 AAGTTACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAATATAATATATTA
Found at i:1120698 original size:24 final size:24
Alignment explanation
Indices: 1120664--1120719 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
1120654 AAGATCGAAC
*
1120664 GAACTGATAAAGCAAATATAGGAG
1 GAACTGATAAAGCAAATATAAGAG
*
1120688 GAACTGGTAAAGCAAATATAAGAG
1 GAACTGATAAAGCAAATATAAGAG
*
1120712 GAATTGAT
1 GAACTGAT
1120720 GTTGTGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.07, G:0.25, T:0.20
Consensus pattern (24 bp):
GAACTGATAAAGCAAATATAAGAG
Found at i:1124555 original size:32 final size:30
Alignment explanation
Indices: 1124517--1124585 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
1124507 TATGTATAGT
*
1124517 TTACCTATATCATTCGGGACATATAGACAGGA
1 TTACCTATATCATTCGAGACATATAGACA--A
* * *
1124549 TTACCTATGTCCTTCGAGACATATGGACAA
1 TTACCTATATCATTCGAGACATATAGACAA
1124579 TTACCTA
1 TTACCTA
1124586 GGTTCTCTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 8 0.24
32 25 0.76
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (30 bp):
TTACCTATATCATTCGAGACATATAGACAA
Found at i:1124915 original size:16 final size:16
Alignment explanation
Indices: 1124891--1124929 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1124881 ATTATATGTG
*
1124891 TATGCCTCACTAAGTC
1 TATGACTCACTAAGTC
1124907 TATGACTCACTAAGTC
1 TATGACTCACTAAGTC
1124923 TATGACT
1 TATGACT
1124930 TAGCGTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (16 bp):
TATGACTCACTAAGTC
Found at i:1129758 original size:31 final size:31
Alignment explanation
Indices: 1129723--1129783 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1129713 GAGTCGATGG
*
1129723 TTACCTATGTCTTTCAAG-ACATATGGATAGT
1 TTACCTATGT-TCTCAAGAACATATGGATAGT
*
1129754 TTACCTATGTTCTCTAGAACATATGGATAG
1 TTACCTATGTTCTCAAGAACATATGGATAG
1129784 GTCTTTCGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTCAAGAACATATGGATAGT
Found at i:1130312 original size:17 final size:17
Alignment explanation
Indices: 1130286--1130319 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1130276 TGAAATTTAG
*
1130286 TATGTAAATATAAGTTT
1 TATGTAAATAAAAGTTT
*
1130303 TATGTTAATAAAAGTTT
1 TATGTAAATAAAAGTTT
1130320 AAATTTCCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
TATGTAAATAAAAGTTT
Found at i:1133727 original size:15 final size:15
Alignment explanation
Indices: 1133688--1133721 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1133678 TTGATATATT
1133688 AAATAAAAAAGTAAA
1 AAATAAAAAAGTAAA
*
1133703 GAATAAAAAAGTAAA
1 AAATAAAAAAGTAAA
1133718 AAAT
1 AAAT
1133722 TCAAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (15 bp):
AAATAAAAAAGTAAA
Found at i:1135363 original size:57 final size:57
Alignment explanation
Indices: 1135222--1135410 Score: 283
Period size: 56 Copynumber: 3.4 Consensus size: 57
1135212 TGATTACCAA
* * * *
1135222 ATGGACACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTT-CGT
1 ATGGACACTGTGTGTACAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCCGT
*
1135278 ATGGGCACTGTGTGTACAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCCGT
1 ATGGACACTGTGTGTACAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCCGT
* * *
1135335 ATGGGCACTGTGTGTGCAAAAACTAAGAAATTTATAATAAATTTATGAA-TTTCCGT
1 ATGGACACTGTGTGTACAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCCGT
*
1135391 ATGGACACTATGTGTACAAA
1 ATGGACACTGTGTGTACAAA
1135411 CTATATAGTT
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
56 72 0.59
57 50 0.41
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (57 bp):
ATGGACACTGTGTGTACAAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCCGT
Found at i:1135540 original size:45 final size:45
Alignment explanation
Indices: 1135491--1135645 Score: 283
Period size: 45 Copynumber: 3.4 Consensus size: 45
1135481 AAAATAAAAG
* *
1135491 ATTAAAGGCATGAAATGATGCCATAAATGAAATGCATAACGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGC
1135536 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGC
*
1135581 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAATGATGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGC
1135626 ATTAAAGGCATGAAAGGATG
1 ATTAAAGGCATGAAAGGATG
1135646 TTGTAGACAA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (45 bp):
ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGC
Found at i:1137669 original size:8 final size:9
Alignment explanation
Indices: 1137651--1137686 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
1137641 TTTCTTGCCA
1137651 TTTATTTTT
1 TTTATTTTT
1137660 TTTATTTTT
1 TTTATTTTT
1137669 TTT-TATTTT
1 TTTAT-TTTT
1137678 TTTATTTTT
1 TTTATTTTT
1137687 ATTTTACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.04
9 23 0.92
10 1 0.04
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:1137677 original size:18 final size:20
Alignment explanation
Indices: 1137651--1137692 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
1137641 TTTCTTGCCA
1137651 TTTATTTTTTTTATTTTT-T
1 TTTATTTTTTTTATTTTTAT
1137670 TTTA-TTTTTTTATTTTTAT
1 TTTATTTTTTTTATTTTTAT
1137689 TTTA
1 TTTA
1137693 CTAACTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTATTTTTTTTATTTTTAT
Found at i:1140963 original size:45 final size:45
Alignment explanation
Indices: 1140873--1141024 Score: 223
Period size: 45 Copynumber: 3.4 Consensus size: 45
1140863 GGTTGCGACA
* * * *
1140873 GATGCTATAAATGAAATGAATAACGGTGCATTCAAGGCATAAAAG
1 GATGCCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAG
* * *
1140918 GATGCCATAAATGAAATGCATAATGGTACATTAAAAGCATGAAAG
1 GATGCCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAG
*
1140963 GATGCCATAAATCAAATGCATAACGGTGCATTAAAGGCATGAAAG
1 GATGCCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAG
*
1141008 GATGCCCTAAATGAAAT
1 GATGCCATAAATGAAAT
1141025 TAATGACTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (45 bp):
GATGCCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAG
Done.