Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003017.1 Hibiscus syriacus cultivar Beakdansim tig00006264_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: 251717
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:11607 original size:136 final size:136
Alignment explanation
Indices: 11363--11836 Score: 704
Period size: 135 Copynumber: 3.5 Consensus size: 136
11353 TGTTGATAGG
* * * *
11363 TCATTATAAACTTCTTCTCCCTTTATCGGATGAGTT-TTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
* * *
11427 GTCAATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
*
11492 TTATTT
131 TTATTC
11498 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
* * * *
11563 GTTAATCCCTCAAGCGAGGCGTTGCTTATTCGAAGTTTTGTGAATCGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
11628 -TACTTC
131 TTA-TTC
* * *
11634 TCATTATGAACTTCTTCTCCCTTTGTCGAATGAGTTCTTCTCATTA-GAACTCTTAATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
* * *
11698 GTTAATCCCTCAAGCGAGGTGTTTCTGATTCGAAGTGTTATGAATCGAACAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
*
11763 TTCTTC
131 TTATTC
* * *
11769 TCATTATGAACTT-TCTCTCCCTCTGTCGGATGAGCTCTTCTCATTATGAACTCTCTATTAGAAA
1 TCATTATGAACTTCT-TCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAA
11833 TGTT
65 TGTT
11837 GATCGGTTTA
Statistics
Matches: 306, Mismatches: 28, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
134 1 0.00
135 155 0.51
136 150 0.49
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (136 bp):
TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAAAT
GTTAATCCCTCAAGCGAGGCGTTACTGATTCGAAGTGTTATGAATCGAGCAATAGGTCGAACAAG
TTATTC
Found at i:11637 original size:232 final size:227
Alignment explanation
Indices: 11203--11645 Score: 489
Period size: 232 Copynumber: 1.9 Consensus size: 227
11193 GGGAATGTTG
* * * * * * *
11203 ATCCCTCAAGTGAGGTGTCGCTGATTCGAAGTGTTGTTAATTTAGCGATAGGTCGAAAAGTTCTT
1 ATCCCTCAAGTGAGGCGTCACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAAAAGTTATT
* *
11268 CTCATTATGAACTTCTCCCTCTTTCGGATGAGTTCTTCGCATTATGAACTCTCTATCAGAAATGT
66 CTCATTATGAACTTCTCCCTCTGTCGGATGAGTTCTTCGCATTATGAACTCTCAATCAGAAATGT
* *** ** ** * **
11333 CAATCCCTCAAGCGAGGCGTTGTTGATAGGTCATTATAAACTTCTTCTCCCTTTATCGGATGAGT
131 CAATCCCTCAAGCGAGGCGTTGTTGATAAGTCATTATAAAC-TCTGAGCAATAGATCGAACAAGT
*
11398 TTTCTCATTATGAACTCTCCATTGGAAATGTCA
195 CTTCTCATTATGAACTCTCCATTGGAAATGTCA
*
11431 ATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAGTTAT
1 ATCCCTCAAGTGAGGCGTCACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAA-AAGTTAT
* * **
11496 TTTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCAATTGGAA
65 TCTCATTATGAA---CTTCTCCCTCTGTCGGATGAGTTCTTCGCATTATGAACTCTCAATCAGAA
* * * * *
11561 ATGTTAATCCCTCAAGCGAGGCGTTGCTT-ATTCGAAGT-TTTGTGAA-TC-GAGCAATAGGTCG
127 ATGTCAATCCCTCAAGCGAGGCGTTG-TTGA-T--AAGTCATTATAAACTCTGAGCAATAGATCG
11622 AACAAGTACTTCTCATTATGAACT
188 AACAAGT-CTTCTCATTATGAACT
11646 TCTTCTCCCT
Statistics
Matches: 175, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
228 50 0.29
229 17 0.10
231 9 0.05
232 88 0.50
233 3 0.02
234 5 0.03
235 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (227 bp):
ATCCCTCAAGTGAGGCGTCACTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAAAAGTTATT
CTCATTATGAACTTCTCCCTCTGTCGGATGAGTTCTTCGCATTATGAACTCTCAATCAGAAATGT
CAATCCCTCAAGCGAGGCGTTGTTGATAAGTCATTATAAACTCTGAGCAATAGATCGAACAAGTC
TTCTCATTATGAACTCTCCATTGGAAATGTCA
Found at i:13010 original size:27 final size:27
Alignment explanation
Indices: 12986--13051 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
12976 TATTAAAAAC
12986 AAAACTTGAAAATAAAAGAAAAAAATG
1 AAAACTTGAAAATAAAAGAAAAAAATG
13013 AAAACTTGAAAATAAAAGAAAAAAATG
1 AAAACTTGAAAATAAAAGAAAAAAATG
13040 AAAACTTGAAAA
1 AAAACTTGAAAA
13052 AGTAAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.15
Consensus pattern (27 bp):
AAAACTTGAAAATAAAAGAAAAAAATG
Found at i:15861 original size:5 final size:5
Alignment explanation
Indices: 15851--15883 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15841 CTCAATCGAA
*
15851 AAAAT AAAAT AAAA- AAAAT AAAAA AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15884 ATGTAATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (5 bp):
AAAAT
Found at i:15868 original size:14 final size:13
Alignment explanation
Indices: 15849--15878 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
15839 TGCTCAATCG
15849 AAAAAATAAAATAA
1 AAAAAATAAAA-AA
15863 AAAAAATAAAAAA
1 AAAAAATAAAAAA
15876 AAA
1 AAA
15879 TAAAAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:20989 original size:21 final size:21
Alignment explanation
Indices: 20943--20995 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
20933 AACCTAATTA
*
20943 AAAAATAAAACAATAAATAAAC
1 AAAAA-AAAACAACAAATAAAC
*
20965 AAAAAAAAACAACATAA-AAAT
1 AAAAAAAAACAACA-AATAAAC
*
20986 AAAAATAAAC
1 AAAAAAAAAC
20996 CTAAATACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.11
Consensus pattern (21 bp):
AAAAAAAAACAACAAATAAAC
Found at i:23474 original size:20 final size:20
Alignment explanation
Indices: 23437--23476 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23427 ATTAATAAAC
* **
23437 ATAATTAAAATACTAAAATA
1 ATAATAAAAATAAAAAAATA
23457 ATAATAAAAATAAAAAAATA
1 ATAATAAAAATAAAAAAATA
23477 GCAAAAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
ATAATAAAAATAAAAAAATA
Found at i:24575 original size:20 final size:20
Alignment explanation
Indices: 24550--24589 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24540 AAAATGCAAA
*
24550 AAAAAAGAAGATAAATAAAT
1 AAAAAAGAAAATAAATAAAT
*
24570 AAAAAATAAAATAAATAAAT
1 AAAAAAGAAAATAAATAAAT
24590 TTGTTTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAAAAGAAAATAAATAAAT
Found at i:25437 original size:33 final size:33
Alignment explanation
Indices: 25392--25467 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
25382 TATAATAGTC
*
25392 ATAACCATAATAATAAATAAAATCATATGTTTA
1 ATAACCACAATAATAAATAAAATCATATGTTTA
25425 ATAACCACAATAATAAATAAAATCATATGTTTA
1 ATAACCACAATAATAAATAAAATCATATGTTTA
25458 ATAACCACAA
1 ATAACCACAA
25468 GCATTAAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (33 bp):
ATAACCACAATAATAAATAAAATCATATGTTTA
Found at i:31329 original size:15 final size:16
Alignment explanation
Indices: 31298--31331 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
31288 AACAGATTCT
*
31298 TTTTCTGCATTATCTA
1 TTTTCTGCATCATCTA
31314 TTTTCTG-ATCATCTA
1 TTTTCTGCATCATCTA
31329 TTT
1 TTT
31332 ATAAGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTCTGCATCATCTA
Found at i:31882 original size:173 final size:174
Alignment explanation
Indices: 31036--36636 Score: 6005
Period size: 174 Copynumber: 32.5 Consensus size: 174
31026 AAATCCGTCT
* * *
31036 CAAAAGATTTATCTATTTCTACATG-TACTTAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
** * *
31100 GGAATTGAATTTATAACATATTCTTTTCCTACATTGTCCATTTCTTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
31165 ATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTCGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
31209 CAAAAGATTTATCCATTTCTACATGTTACTCAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * * * *
31274 GGAATTGGGTTTATAACAGATTCTTTTTCTGCATTATCTATTTTCTGATCATCTATTTATAAGAT
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
31339 ATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
31385 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
31450 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
31515 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
31559 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
31624 GGAATTGGGTTTATGATATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
31689 ATAAAATAAAAGAGTTATAGACCGATCAAAATTTAAATTTATAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
31733 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTATCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
31797 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
31862 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
31906 CAAAAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
31971 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
32036 ATAAAATAAAATAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * * *
32080 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
32145 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
*
32209 GATAAAATAAAA-AATTATAGACCGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
32253 C--AATATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * *
32316 GGAATTGGGTTTATAACATATTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
32381 ATAAAATAAAATAATTATAGACCGATCAAAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* * * * **
32425 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
* * * * ** *
32487 AGGAATTGGGTTTATAACATACTGTTTTTTGCTTCTTTAGT-TGTTTCTGTCTGA--AACT-TTT
65 AGGAATTGGGTTTATAACATA-T-TCTTTTCCTGCATT-GTCCATTTC---CTGACCATCTATTT
* *** *** ** * **** * ** **** ** *
32548 CT-TTCG-TTTCATCATTATACCCCTCG-CCTGGCCCTTTTCTTGCTGCGATTGTGTTA
124 ATAAGAGATAAAAT-AAAAGAATTATAGACC--GATC-AAAATT--T-AAATT-TGTAA
* * * * ****
32604 GAAAACTGCATAATAATTAACCAATTTTCTTCGGATGGTA--GAAA---A--AA-GGAATT--G-
1 CAAAA--G----AT--TTATCC-A-TTTCTAC--ATGTTACTGAAACTTACCAACTTTCTTCGGA
** * * *** * * * ** *
32658 -GGTTTATAACA-G-ATTCTTTTTCT-GCAT-TATCTATTTTCTG-ATCATCTA-TT--T-A---
54 TGGTAGAAAAAAGGAATTGGGTTTATAACATAT-TCT-TTTCCTGCATTGTCCATTTCCTGACCA
*
32710 --------TAAGATATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
117 TCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
32762 C-AAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
32826 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
32891 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
32935 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTA-AAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
32999 GGAATTGGGTTTATGATATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
33064 ATAAAATAAAAGAGTTATAGACCGATCAAAATTTAAATTTATAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
33108 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
33172 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
33237 ATAAAAT-AAAGAATTATAGACCGATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
33280 CAAAAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
33345 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
33410 ATAAAATAAAATAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * * *
33454 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
33519 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* *
33583 GATAAAATAAAAAAATTATAGACCGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
33628 C--AATATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * *
33691 GGAATTGGGTTTATAACATATTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
33756 ATAAAATAAAATAATTATAGACCGATCAAAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* * * * **
33800 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
* ** ** * *
33862 AGGAATTGGGTTTATAACATACTGTTTTTTGCTTCTTTAGTTGTTTATGT-CTGA--AACT-TTT
65 AGGAATTGGGTTTATAACATA-T-TCTTTT-C--CTGCA-TTGTCCATTTCCTGACCATCTATTT
* *** *** ** * **** * ** **** ** *
33923 CT-TTCG-TTTCATCATTATACCCCTCG-CCTGGCCCTTTTCTTGCTGCGATTGTGTTA
124 ATAAGAGATAAAAT-AAAAGAATTATAGACC--GATC-AAAATT--T-AAATT-TGTAA
* * * * ****
33979 GAAAACTGCATAATAATTAACCAATTTTCTTCGGATGGTA--GAAA---A--AA-GGAATT--G-
1 CAAAA--G----AT--TTATCC-A-TTTCTAC--ATGTTACTGAAACTTACCAACTTTCTTCGGA
** * * *** * * * ** *
34033 -GGTTTATAACA-G-ATTCTTTTTCT-GCAT-TATCTATTTTCTG-ATCATCTA-TT--T-A---
54 TGGTAGAAAAAAGGAATTGGGTTTATAACATAT-TCT-TTTCCTGCATTGTCCATTTCCTGACCA
*
34085 --------TAAGATATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
117 TCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
34137 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
34202 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
34267 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
34311 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
34376 GGAATTGGGTTTATGATATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
34441 ATAAAAT-AAAGAGTTATAGACCGATCAAAATTTAAATTTATAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
34484 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
34548 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
34613 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
34657 CAAAAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
34722 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
34787 ATAAAATAAAATAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * * *
34831 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
34896 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* *
34960 GATAAAATAAAAAAATTATAGACCGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
35005 C--AATATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * *
35068 GGAATTGGGTTTATAACATATTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
35133 ATAAAATAAAATAATTATAGACCGATC-AAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* * * * **
35176 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
* * * * ** *
35238 AGGAATTGGGTTTATAACATACTGTTTTTTGCTTCTTTAGT-TGTTTCTGTCTGA--AACT-TTT
65 AGGAATTGGGTTTATAACATA-T-TCTTTTCCTGCATT-GTCCATTTC---CTGACCATCTATTT
* *** *** ** * **** * ** **** ** *
35299 CT-TTCG-TTTCATCATTATACCCCTCG-CCTGGCCCTTTTCTTGCTGCGATTGTGTTA
124 ATAAGAGATAAAAT-AAAAGAATTATAGACC--GATC-AAAATT--T-AAATT-TGTAA
* * * * ****
35355 GAAAACTGCATAATAATTAACCAATTTTCTTCGGATGGTA--GAAA---A--AA-GGAATT--G-
1 CAAAA--G----AT--TTATCC-A-TTTCTAC--ATGTTACTGAAACTTACCAACTTTCTTCGGA
** * * *** * * * ** *
35409 -GGTTTATAACA-G-ATTCTTTTTCT-GCAT-TATCTATTTTCTG-ATCATCTA-TT--T-A---
54 TGGTAGAAAAAAGGAATTGGGTTTATAACATAT-TCT-TTTCCTGCATTGTCCATTTCCTGACCA
*
35461 --------TAAGATATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
117 TCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
35513 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
35578 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATATATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
35643 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
35687 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
35752 GGAATTGGGTTTATGATATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
35817 ATAAAATAAAAGAGTTATAGACCGATCAAAATTTAAATTTATAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
35861 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
35925 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
35990 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
36034 CAAAAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
36099 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
36164 ATAAAATAAAATAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * * *
36208 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
36273 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* *
36337 GATAAAATAAAAAAATTATAGACCGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
36382 C--AATATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * *
36445 GGAATTGGGTTTATAACATATTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
36510 ATAAAATAAAATAATTATAGACCGATCAAAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* * * * **
36554 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
36616 AGGAATTGGGTTTATAACATA
65 AGGAATTGGGTTTATAACATA
36637 CTGTTTTTTG
Statistics
Matches: 4584, Mismatches: 596, Indels: 497
0.81 0.10 0.09
Matches are distributed among these distances:
145 5 0.00
146 10 0.00
147 10 0.00
148 21 0.00
149 6 0.00
150 9 0.00
151 4 0.00
152 6 0.00
153 6 0.00
154 4 0.00
155 1 0.00
156 2 0.00
157 10 0.00
158 35 0.01
159 24 0.01
160 46 0.01
161 40 0.01
162 18 0.00
163 10 0.00
164 3 0.00
165 2 0.00
169 3 0.00
170 9 0.00
171 210 0.05
172 808 0.18
173 964 0.21
174 1825 0.40
175 39 0.01
176 205 0.04
177 81 0.02
178 15 0.00
179 48 0.01
180 6 0.00
181 24 0.01
183 3 0.00
185 12 0.00
186 6 0.00
187 15 0.00
188 6 0.00
189 12 0.00
191 18 0.00
192 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (174 bp):
CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
Found at i:31915 original size:347 final size:348
Alignment explanation
Indices: 31036--36636 Score: 6224
Period size: 346 Copynumber: 16.2 Consensus size: 348
31026 AAATCCGTCT
* * *
31036 CAAAAGATTTATCTATTTCTACATG-TACTTAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
** * *
31100 GGAATTGAATTTATAACATATTCTTTTCCTACATTGTCCATTTCTTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * * *
31165 ATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTCGTAACAAAAGATTTATCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
* * * *
31230 CATGTTACTCAAACTTACCAATTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACAGAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * * * * *
31295 TCTTTTTCTGCATTATCTATTTTCTGATCATCTATTTATAAGATATAAAAT-AAAGAATTATAGA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
31359 CCGATCAAAATTATTTAAATTTGTAA
326 CCGATC-AAA--ATTTAAATTTGTAA
* *
31385 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
31450 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
31515 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAACAAAAGATTTATCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
* *
31580 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATGATATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * *
31645 TCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAGTTATAGA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
*
31710 CCGATCAAAATTTAAATTTATAA
326 CCGATCAAAATTTAAATTTGTAA
* *
31733 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTATCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
31797 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
31862 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTTTCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
*
31927 CATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * * *
31992 TCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAAA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
32057 CCGATCAAAATTTAAATTTGTAA
326 CCGATCAAAATTTAAATTTGTAA
* * * *
32080 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
32145 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* * *
32209 GATAAAATAAAA-AATTATAGACCGATCAAAATTTAAATTTGTAGC--AATATTTATCCATTTCT
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCT
*
32271 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATA
195 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATA
* * *
32336 TTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAG
260 TTCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAG
*
32401 ACCGATCAAAATTT-AATTTCTTAA
325 ACCGATCAAAATTTAAATTT-GTAA
* * * * **
32425 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
* * * * ** *
32487 AGGAATTGGGTTTATAACATACTGTTTTTTGCTTCTTTAGT-TGTTTCTGTCTGA--AACT-TTT
65 AGGAATTGGGTTTATAACATA-T-TCTTTTCCTGCATT-GTCCATTTC---CTGACCATCTATTT
* *** *** ** * **** * * *** * * **
32548 CT-TTCG-TTTCATCATTATACCCCTCG-CCTG-GC-CCTTTTC---TTGCT-GCGATTG-TGTT
124 ATAAGAGATAAAAT-AAAAGAATTATAGACC-GATCAAAATTTCAATTTG-TAACAAAAGAT-TT
* *** * * * * * * * *
32603 A--GAAAACTGCA---TAAT--AA-TTAACCAATTTTCTTCGGAT-GG-TAG-A-AAAAAGGAAT
185 ATCCATTTCTACATGTTACTGAAACTT-ACCAA--CT-TTC--TTCGGATGGTAGAAAAAAGGAA
* * ** * * * * * * *
32656 TGGGTTTATAACAGAT-TCT-TTTTCTGCAT-TATCTAT---TTTCTGATCATC-T-ATTTA-TA
244 TTGGGTT-TATGACATAT-TCTTTTC--C-TGCAT-TATCCATTTC--CTGACCATCTTTTTATA
*
32712 AGATATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
301 AGAGATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
32762 C-AAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
32826 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
32891 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAACAAAAGATTTATCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
*
32956 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTA-AAAAAAGGAATTGGGTTTATGATATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * *
33020 TCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAGTTATAGA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
*
33085 CCGATCAAAATTTAAATTTATAA
326 CCGATCAAAATTTAAATTTGTAA
*
33108 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
33172 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
33237 ATAAAAT-AAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTTTCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
*
33301 CATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * * *
33366 TCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAAA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
33431 CCGATCAAAATTTAAATTTGTAA
326 CCGATCAAAATTTAAATTTGTAA
* * * *
33454 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
33519 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* * * *
33583 GATAAAATAAAAAAATTATAGACCGATCAAAATTTAAATTTGTAGC--AATATTTATCCATTTCT
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCT
*
33646 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATA
195 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATA
* * *
33711 TTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAG
260 TTCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAG
*
33776 ACCGATCAAAATTT-AATTTCTTAA
325 ACCGATCAAAATTTAAATTT-GTAA
* * * * **
33800 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
* ** ** * *
33862 AGGAATTGGGTTTATAACATACTGTTTTTTGCTTCTTTAGTTGTTTATGT-CTGA--AACT-TTT
65 AGGAATTGGGTTTATAACATA-T-TCTTTT-C--CTGCA-TTGTCCATTTCCTGACCATCTATTT
* *** *** ** * **** * * *** * * **
33923 CT-TTCG-TTTCATCATTATACCCCTCG-CCTG-GC-CCTTTTC---TTGCT-GCGATTG-TGTT
124 ATAAGAGATAAAAT-AAAAGAATTATAGACC-GATCAAAATTTCAATTTG-TAACAAAAGAT-TT
* *** * * * * * * * *
33978 A--GAAAACTGCA---TAAT--AA-TTAACCAATTTTCTTCGGAT-GG-TAG-A-AAAAAGGAAT
185 ATCCATTTCTACATGTTACTGAAACTT-ACCAA--CT-TTC--TTCGGATGGTAGAAAAAAGGAA
* * ** * * * * * * *
34031 TGGGTTTATAACAGAT-TCT-TTTTCTGCAT-TATCTAT---TTTCTGATCATC-T-ATTTA-TA
244 TTGGGTT-TATGACATAT-TCTTTTC--C-TGCAT-TATCCATTTC--CTGACCATCTTTTTATA
*
34087 AGATATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
301 AGAGATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
34137 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
34202 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATGTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
34267 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAACAAAAGATTTATCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
* *
34332 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATGATATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * *
34397 TCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAGATAAAAT-AAAGAGTTATAGA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
*
34461 CCGATCAAAATTTAAATTTATAA
326 CCGATCAAAATTTAAATTTGTAA
*
34484 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
34548 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
34613 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTTTCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
*
34678 CATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * * *
34743 TCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAAA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
34808 CCGATCAAAATTTAAATTTGTAA
326 CCGATCAAAATTTAAATTTGTAA
* * * *
34831 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
34896 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* * * *
34960 GATAAAATAAAAAAATTATAGACCGATCAAAATTTAAATTTGTAGC--AATATTTATCCATTTCT
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCT
*
35023 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATA
195 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATA
* * *
35088 TTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAG
260 TTCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAG
*
35153 ACCGATC-AAATTT-AATTTCTTAA
325 ACCGATCAAAATTTAAATTT-GTAA
* * * * **
35176 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
* * * * ** *
35238 AGGAATTGGGTTTATAACATACTGTTTTTTGCTTCTTTAGT-TGTTTCTGTCTGA--AACT-TTT
65 AGGAATTGGGTTTATAACATA-T-TCTTTTCCTGCATT-GTCCATTTC---CTGACCATCTATTT
* *** *** ** * **** * * *** * * **
35299 CT-TTCG-TTTCATCATTATACCCCTCG-CCTG-GC-CCTTTTC---TTGCT-GCGATTG-TGTT
124 ATAAGAGATAAAAT-AAAAGAATTATAGACC-GATCAAAATTTCAATTTG-TAACAAAAGAT-TT
* *** * * * * * * * *
35354 A--GAAAACTGCA---TAAT--AA-TTAACCAATTTTCTTCGGAT-GG-TAG-A-AAAAAGGAAT
185 ATCCATTTCTACATGTTACTGAAACTT-ACCAA--CT-TTC--TTCGGATGGTAGAAAAAAGGAA
* * ** * * * * * * *
35407 TGGGTTTATAACAGAT-TCT-TTTTCTGCAT-TATCTAT---TTTCTGATCATC-T-ATTTA-TA
244 TTGGGTT-TATGACATAT-TCTTTTC--C-TGCAT-TATCCATTTC--CTGACCATCTTTTTATA
*
35463 AGATATAAAAT-AAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
301 AGAGATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
35513 CAAAAGATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
35578 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATATATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
35643 ATAAAATAAAAGAATTATAGACCGATAAAAATTTCAGTTTGTAACAAAAGATTTATCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
* *
35708 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATGATATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * *
35773 TCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAGTTATAGA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
*
35838 CCGATCAAAATTTAAATTTATAA
326 CCGATCAAAATTTAAATTTGTAA
*
35861 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
35925 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
35990 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTTTCCATTTCTA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
*
36055 CATGTTACTGAAACTTACCAACTTTCTACGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
196 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
* * * *
36120 TCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAAA
261 TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
36185 CCGATCAAAATTTAAATTTGTAA
326 CCGATCAAAATTTAAATTTGTAA
* * * *
36208 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
36273 GGAATTGGGTTTATAACATATTATTTTCATGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* * * *
36337 GATAAAATAAAAAAATTATAGACCGATCAAAATTTAAATTTGTAGC--AATATTTATCCATTTCT
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCT
*
36400 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATA
195 ACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATA
* * *
36465 TTCTTTTCATGTATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAATAATTATAG
260 TTCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAG
*
36530 ACCGATCAAAATTT-AATTTCTTAA
325 ACCGATCAAAATTTAAATTT-GTAA
* * * * **
36554 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
36616 AGGAATTGGGTTTATAACATA
65 AGGAATTGGGTTTATAACATA
36637 CTGTTTTTTG
Statistics
Matches: 4437, Mismatches: 585, Indels: 465
0.81 0.11 0.08
Matches are distributed among these distances:
333 31 0.01
334 70 0.02
335 76 0.02
336 112 0.03
337 143 0.03
338 112 0.03
339 129 0.03
340 32 0.01
341 8 0.00
342 20 0.00
343 130 0.03
344 140 0.03
345 380 0.09
346 1032 0.23
347 1027 0.23
348 516 0.12
349 111 0.03
350 328 0.07
351 40 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (348 bp):
CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
ATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTATCCATTTCTA
CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACATAT
TCTTTTCCTGCATTATCCATTTCCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAGA
CCGATCAAAATTTAAATTTGTAA
Found at i:32706 original size:15 final size:16
Alignment explanation
Indices: 32675--32708 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32665 AACAGATTCT
*
32675 TTTTCTGCATTATCTA
1 TTTTCTGCATCATCTA
32691 TTTTCTG-ATCATCTA
1 TTTTCTGCATCATCTA
32706 TTT
1 TTT
32709 ATAAGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTCTGCATCATCTA
Found at i:34081 original size:15 final size:16
Alignment explanation
Indices: 34050--34083 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
34040 AACAGATTCT
*
34050 TTTTCTGCATTATCTA
1 TTTTCTGCATCATCTA
34066 TTTTCTG-ATCATCTA
1 TTTTCTGCATCATCTA
34081 TTT
1 TTT
34084 ATAAGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTCTGCATCATCTA
Found at i:35457 original size:15 final size:16
Alignment explanation
Indices: 35426--35459 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
35416 AACAGATTCT
*
35426 TTTTCTGCATTATCTA
1 TTTTCTGCATCATCTA
35442 TTTTCTG-ATCATCTA
1 TTTTCTGCATCATCTA
35457 TTT
1 TTT
35460 ATAAGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTCTGCATCATCTA
Found at i:37920 original size:22 final size:22
Alignment explanation
Indices: 37882--37927 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
37872 TTAAATTAAT
*
37882 ATTTATATTCATTAATTTTTTA
1 ATTTATATTCATTAATTTGTTA
*
37904 ATTTATATT-TTTAAATTTGTTA
1 ATTTATATTCATT-AATTTGTTA
37926 AT
1 AT
37928 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTATATTCATTAATTTGTTA
Found at i:39100 original size:42 final size:42
Alignment explanation
Indices: 39053--39156 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
39043 CTTCGAATCA
* *
39053 GCTTAAGTCATTCGGGCCATC-AGTAAGTCTTTCGAGCATGAT
1 GCTTAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAAGAT
* *
39095 GCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGAT
1 GCTTAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGAT
*
39137 G-ATAAGTCCTTCGGGCCATC
1 GCTTAAGTCCTTCGGGCCATC
39157 CAAAAGACCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 16 0.30
42 37 0.69
43 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (42 bp):
GCTTAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGAT
Found at i:39237 original size:228 final size:227
Alignment explanation
Indices: 38828--39281 Score: 782
Period size: 228 Copynumber: 2.0 Consensus size: 227
38818 TCTTAATGAG
*
38828 TAAGTCTTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
1 TAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
*
38893 GTCTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCATAAGACCTTCAGGCAGGATATTTTCAA
66 GTCTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCAAAAGACCTTCAGGCAGGATATTTTCAA
38958 CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCCACCAGAGGGGTTAACATTTC
131 CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCCACCAGAGGGGTTAACATTTC
39023 CTATTACTCGATTCACAACACTTCGAATCAGCT
196 CT-TTACTCGATTCACAACACTTCGAATCAGCT
*
39056 TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
1 TAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * * * *
39121 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCAAAAGACCTTCGGGTAGGGTGTTTTCAA
66 GTCTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCAAAAGACCTTCAGGCAGGATATTTTCAA
* * *
39186 CATTTCCTTTGCTCGATTCACAACACTTCGAATCAGTAACGCCCCACCAGAGGGGTTCACATTTC
131 CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCCACCAGAGGGGTTAACATTTC
* *
39251 CTTTTCTTGATTCACAACACTTCGAATCAGC
196 CTTTACTCGATTCACAACACTTCGAATCAGC
39282 AACACATCAC
Statistics
Matches: 213, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
227 27 0.13
228 186 0.87
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (227 bp):
TAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
GTCTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCAAAAGACCTTCAGGCAGGATATTTTCAA
CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCCACCAGAGGGGTTAACATTTC
CTTTACTCGATTCACAACACTTCGAATCAGCT
Found at i:39307 original size:59 final size:60
Alignment explanation
Indices: 39182--39309 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 60
39172 TAGGGTGTTT
* * * *
39182 TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGTAACGCCCCACCAGAGGGGT
1 TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACACACCACCAGAGGGGA
* * * *
39242 TC-ACATTTCCTTTTCTTGATTCACAACACTTCGAATCAGCAACACATCACTCA-A-TGGA
1 TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACACACCAC-CAGAGGGGA
39300 TCAACATTTC
1 TCAACATTTC
39310 TAGTGGAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.07
59 50 0.86
60 4 0.07
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (60 bp):
TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACACACCACCAGAGGGGA
Found at i:39668 original size:16 final size:16
Alignment explanation
Indices: 39647--39677 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
39637 AAACCAGTGC
39647 CCAAACCCAACCAGAT
1 CCAAACCCAACCAGAT
39663 CCAAACCCAACCAGA
1 CCAAACCCAACCAGA
39678 ACCCAGATTT
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:0.45, C:0.45, G:0.06, T:0.03
Consensus pattern (16 bp):
CCAAACCCAACCAGAT
Found at i:41005 original size:11 final size:11
Alignment explanation
Indices: 40989--41023 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
40979 AATTAGGTCC
40989 TTATTTTATGT
1 TTATTTTATGT
*
41000 TTATTTTATTT
1 TTATTTTATGT
*
41011 TTATTCTATGT
1 TTATTTTATGT
41022 TT
1 TT
41024 TACTACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (11 bp):
TTATTTTATGT
Found at i:41217 original size:28 final size:28
Alignment explanation
Indices: 41186--41241 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
41176 TCTCATAAAA
41186 TGTAATAATACCTAAGAAAATAAGAGGT
1 TGTAATAATACCTAAGAAAATAAGAGGT
* *
41214 TGTAATATTATCTAAGAAAATAAGAGGT
1 TGTAATAATACCTAAGAAAATAAGAGGT
41242 AATGAGATTA
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:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (28 bp):
TGTAATAATACCTAAGAAAATAAGAGGT
Found at i:41251 original size:28 final size:28
Alignment explanation
Indices: 41197--41251 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
41187 GTAATAATAC
** *
41197 CTAAGAAAATAAGAGGTTGTAATATTAT
1 CTAAGAAAATAAGAGGTAATAAGATTAT
*
41225 CTAAGAAAATAAGAGGTAATGAGATTA
1 CTAAGAAAATAAGAGGTAATAAGATTA
41252 CTATTGTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (28 bp):
CTAAGAAAATAAGAGGTAATAAGATTAT
Found at i:42457 original size:30 final size:31
Alignment explanation
Indices: 42399--42502 Score: 183
Period size: 31 Copynumber: 3.4 Consensus size: 31
42389 GTTTAACAAG
42399 TTTTGGTCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
*
42430 TTTTGGTCACTTACGTTATCA-TTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
*
42460 TTTTGATCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
42491 TTTTGGTCACTT
1 TTTTGGTCACTT
42503 GAATGTTGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.41
31 40 0.59
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTGGTCACTTACATTATCATTTTATTAAA
Found at i:46591 original size:3 final size:3
Alignment explanation
Indices: 46583--46636 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
46573 TTTTTATGTA
* * *
46583 AAT AAT AAT AAT AAT ATTT TAT AAT AAT AAT AAT -AT GAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46628 AAT AAT AAT
1 AAT AAT AAT
46637 TAATGGTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.05
3 41 0.93
4 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:47283 original size:3 final size:3
Alignment explanation
Indices: 47275--47312 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
47265 TTTATATGTA
47275 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47313 TAATGGTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:51523 original size:24 final size:24
Alignment explanation
Indices: 51401--51519 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
51391 TTCGATTTGA
51401 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
51425 ATTCTGATCTGATA-TCTGGCATGG
1 ATTCTGATCTGATACT-TGACATGG
*
51449 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
51473 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
* *
51496 ATTTCTGATATGATACTTGGCATG
1 A-TTCTGATCTGATACTTGACATG
51520 ATTTATGTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:51695 original size:43 final size:43
Alignment explanation
Indices: 51634--51728 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
51624 GGGCCTTACT
*
51634 TGGTGTGTTGGTGGGTGTATGGTTCTGGG-GAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTC-GGGAAAACCTACACATTA
51677 TGGTGTGTTGGTGGGTGTATGGTTCGGGAAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCGGGAAAACCTACACATTA
51720 TGGTGTGTT
1 TGGTGTGTT
51729 CGGTTGGAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 3 0.06
43 47 0.94
ACGTcount: A:0.17, C:0.11, G:0.37, T:0.36
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTCGGGAAAACCTACACATTA
Found at i:55235 original size:31 final size:31
Alignment explanation
Indices: 55200--55334 Score: 200
Period size: 31 Copynumber: 4.4 Consensus size: 31
55190 GTTTAACAAG
*
55200 TTTTGGTCACTTACATTATCATTTTATTAAG
1 TTTTGGTCACTTACATTATCATTTTATTAAA
*
55231 TTTTGATCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
**
55262 TTTTGGTCACTTATGTTATCA-TTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
* * *
55292 TTTTGATCACTTACATTGTCATTTTCTTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
55323 TTTTGGTCACTT
1 TTTTGGTCACTT
55335 GAACGTTGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 26 0.28
31 66 0.72
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTTGGTCACTTACATTATCATTTTATTAAA
Found at i:55305 original size:61 final size:62
Alignment explanation
Indices: 55200--55334 Score: 218
Period size: 61 Copynumber: 2.2 Consensus size: 62
55190 GTTTAACAAG
*
55200 TTTTGGTCACTTACATTATCATTTTATTAAGTTTTGATCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAATTTTGATCACTTACATTATCATTTTATTAAA
** * *
55262 TTTTGGTCACTTATGTTATCA-TTTATTAAATTTTGATCACTTACATTGTCATTTTCTTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAATTTTGATCACTTACATTATCATTTTATTAAA
55323 TTTTGGTCACTT
1 TTTTGGTCACTT
55335 GAACGTTGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 49 0.72
62 19 0.28
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (62 bp):
TTTTGGTCACTTACATTATCATTTTATTAAATTTTGATCACTTACATTATCATTTTATTAAA
Found at i:59719 original size:14 final size:13
Alignment explanation
Indices: 59700--59740 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
59690 TTTAGATTTT
59700 TTAAAATTACATTA
1 TTAAAA-TACATTA
59714 TTAAAA-ACA-TA
1 TTAAAATACATTA
59725 TTAAAAATACATTA
1 TT-AAAATACATTA
59739 TT
1 TT
59741 GATAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.17
12 7 0.29
13 3 0.12
14 10 0.42
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAATACATTA
Found at i:64962 original size:3 final size:3
Alignment explanation
Indices: 64956--65003 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
64946 TTTTTTTGTA
* * *
64956 AAT AAT AAT ATTT TAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65001 AAT
1 AAT
65004 TAATGGTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.92
4 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:64988 original size:14 final size:14
Alignment explanation
Indices: 64969--65003 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
64959 AATAATATTT
64969 TATAATAATAATAA
1 TATAATAATAATAA
64983 TATAATAATAATAA
1 TATAATAATAATAA
64997 TAGTAAT
1 TA-TAAT
65004 TAATGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:65287 original size:14 final size:14
Alignment explanation
Indices: 65265--65298 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
65255 GACAAGTTAA
65265 TTAAATTTGGAAAT
1 TTAAATTTGGAAAT
*
65279 TTAAGTTTGGAAAT
1 TTAAATTTGGAAAT
65293 TTAAAT
1 TTAAAT
65299 ATGGGCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
TTAAATTTGGAAAT
Found at i:66386 original size:24 final size:24
Alignment explanation
Indices: 66359--66429 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
66349 AAATCAAAAC
*
66359 AGAATTCAGATAAGATATCAGAAT
1 AGAATCCAGATAAGATATCAGAAT
* * *
66383 AGAATCCATATCAGAAATCAGAAT
1 AGAATCCAGATAAGATATCAGAAT
66407 AGAATCCAGATCAAG-TATCAGAA
1 AGAATCCAGAT-AAGATATCAGAA
66430 CATAATTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.21
Consensus pattern (24 bp):
AGAATCCAGATAAGATATCAGAAT
Found at i:67570 original size:18 final size:18
Alignment explanation
Indices: 67543--67577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67533 TTTGTCTGAT
*
67543 CTTATTATTTAATTCAAA
1 CTTATCATTTAATTCAAA
*
67561 CTTATCATTTATTTCAA
1 CTTATCATTTAATTCAA
67578 TCCTTTCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
CTTATCATTTAATTCAAA
Found at i:68626 original size:14 final size:14
Alignment explanation
Indices: 68607--68649 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
68597 TTGACCCAAT
68607 GAGTTAACTCAGTC
1 GAGTTAACTCAGTC
* *
68621 GAGTTATCTCAGCAC
1 GAGTTAACTCAG-TC
*
68636 GAGTTGACTCAGTC
1 GAGTTAACTCAGTC
68650 AAGTCAAACG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (14 bp):
GAGTTAACTCAGTC
Found at i:70516 original size:26 final size:26
Alignment explanation
Indices: 70480--70532 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
70470 TAGTTGCTAC
* *
70480 CTATGTTCATTCCATTGACTTCGAGA
1 CTATCTTCATTCCATGGACTTCGAGA
70506 CTATCTTCATTCCATGGACTTCGAGA
1 CTATCTTCATTCCATGGACTTCGAGA
70532 C
1 C
70533 ATCATCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (26 bp):
CTATCTTCATTCCATGGACTTCGAGA
Found at i:74883 original size:35 final size:35
Alignment explanation
Indices: 74837--74912 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
74827 TACTATCTAT
* *
74837 ACCATCTTCCATCTCCATATCACACCTATATCATC
1 ACCATCTTCCATCTCAATATCACACCTATATAATC
* * *
74872 ACCATCTTCCATCTCAATTTCACGCGTATATAATC
1 ACCATCTTCCATCTCAATATCACACCTATATAATC
74907 ACCATC
1 ACCATC
74913 CCATTATCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.29, C:0.37, G:0.03, T:0.32
Consensus pattern (35 bp):
ACCATCTTCCATCTCAATATCACACCTATATAATC
Found at i:75058 original size:15 final size:15
Alignment explanation
Indices: 75038--75083 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
75028 TTTGATATCA
75038 TTTCTTTCCATTTCC
1 TTTCTTTCCATTTCC
75053 TTTCTTAT-CATTTCC
1 TTTCTT-TCCATTTCC
75068 TTTCTTCTTCCATTTC
1 TTTC-T-TTCCATTTC
75084 TTATTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 17 0.63
16 3 0.11
17 7 0.26
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCTTTCCATTTCC
Found at i:77346 original size:6 final size:6
Alignment explanation
Indices: 77329--77389 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
77319 TTAAAATACT
* * *
77329 AAAATA ACAATA AAAATA AAAAT- AAAATA AAAATA GAAA-A AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
77375 GAAAA-A AAAACA AAA
1 -AAAATA AAAATA AAA
77390 GTACAAGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 12 0.27
6 30 0.67
7 3 0.07
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:77355 original size:11 final size:11
Alignment explanation
Indices: 77328--77363 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
77318 ATTAAAATAC
*
77328 TAAAATAACAA
1 TAAAATAAAAA
77339 TAAAAATAAAAA
1 T-AAAATAAAAA
77351 TAAAATAAAAA
1 TAAAATAAAAA
77362 TA
1 TA
77364 GAAAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:84672 original size:22 final size:23
Alignment explanation
Indices: 84631--84683 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
84621 ATTTTAAATC
*
84631 TTCTTC-TTAATCTTCTTTTACTT
1 TTCTTCTTTAATATTCTTTTA-TT
84654 TTC-TCTTTAATATTC-TTTATT
1 TTCTTCTTTAATATTCTTTTATT
84675 TTCTTCTTT
1 TTCTTCTTT
84684 TTATTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 11 0.41
23 11 0.41
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (23 bp):
TTCTTCTTTAATATTCTTTTATT
Found at i:85254 original size:24 final size:24
Alignment explanation
Indices: 85226--85277 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
85216 TTATAAAAAA
85226 CCCCAAAATAGATTGTAACATGGC
1 CCCCAAAATAGATTGTAACATGGC
85250 CCCCAAAATAGATTGTAACATGGC
1 CCCCAAAATAGATTGTAACATGGC
85274 CCCC
1 CCCC
85278 GTTTTTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.19
Consensus pattern (24 bp):
CCCCAAAATAGATTGTAACATGGC
Found at i:89647 original size:63 final size:63
Alignment explanation
Indices: 89579--89702 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
89569 CTAATGTGAC
* * * *
89579 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTTTCGGGTAGGCCCT-ACGGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTATCTT-GGGTAGGCCCTCA-GGCCCTAAGATGTG
89641 T
63 T
*
89642 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCCCTCAGGCCCTAAGATGT
89703 TCCCTTAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
63 45 0.85
64 8 0.15
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:90650 original size:14 final size:14
Alignment explanation
Indices: 90633--90662 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90623 GTCCTTTATT
90633 TTTCAGTAATTTAA
1 TTTCAGTAATTTAA
*
90647 TTTCAGTACTTTAA
1 TTTCAGTAATTTAA
90661 TT
1 TT
90663 ATTGCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTCAGTAATTTAA
Found at i:92498 original size:19 final size:19
Alignment explanation
Indices: 92462--92498 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
92452 GATTTTAACC
* *
92462 GGTTTGACCGGTCTGAACT
1 GGTTTGACCGGCCCGAACT
92481 GGTTTGACCGGCCCGAAC
1 GGTTTGACCGGCCCGAAC
92499 CGGGTCGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.24
Consensus pattern (19 bp):
GGTTTGACCGGCCCGAACT
Found at i:99634 original size:19 final size:19
Alignment explanation
Indices: 99610--99675 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
99600 GTTTTTAACC
*
99610 GGTTTGACCGGTCTGAACT
1 GGTTTGACCGGTCCGAACT
* *
99629 GGTTTGACCGTTCCAAACT
1 GGTTTGACCGGTCCGAACT
*
99648 AGG-TTGACCGGTCCGAACC
1 -GGTTTGACCGGTCCGAACT
*
99667 GGTTCGACC
1 GGTTTGACC
99676 TGACCCGACC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 2 0.05
19 34 0.89
20 2 0.05
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.26
Consensus pattern (19 bp):
GGTTTGACCGGTCCGAACT
Found at i:104683 original size:20 final size:20
Alignment explanation
Indices: 104658--104700 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
104648 ATAAAATGCA
104658 AAAAAAGAAGA-AAAATAAAT
1 AAAAAAGAA-ATAAAATAAAT
*
104678 AAAAAATAAATAAAATAAAT
1 AAAAAAGAAATAAAATAAAT
104698 AAA
1 AAA
104701 TTTGTTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (20 bp):
AAAAAAGAAATAAAATAAAT
Found at i:108827 original size:27 final size:27
Alignment explanation
Indices: 108788--108845 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
108778 ATGGTTTTCG
* *
108788 TAAATCCGCCATCAAGTATTAATAAAT
1 TAAATCCGCCATCAAGCATTAAAAAAT
108815 TAAATCC-CACATCAAGCATTAAAAAAT
1 TAAATCCGC-CATCAAGCATTAAAAAAT
108842 TAAA
1 TAAA
108846 AAAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (27 bp):
TAAATCCGCCATCAAGCATTAAAAAAT
Found at i:111597 original size:174 final size:174
Alignment explanation
Indices: 110636--111933 Score: 1970
Period size: 174 Copynumber: 7.5 Consensus size: 174
110626 AAATCCGTCT
* * *
110636 CAAAAGATTTATCTATTTCTACATG-TACTTAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
110700 GGAATTGGATTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGGCCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* ** * *
110765 ATCAAATAAAAGAACCATAAACCGATCAAAATTTAAATTCGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
110809 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAATTTTCTTCGGATGGTAG-AAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * *
110873 GGAATTGGGTTTATAACAAATTCTTTTTCTGCATTATCTATTTCCTGATCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
110938 ATAAAATAAAAGAATTATAGACCGATCAAAATTATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATC-AAA--ATTTAAATTTGTAA
* *
110985 CAAAAGATTTATCCATTTCTACATGTTACTGAAAATTACCAACTTTCTTCGGATGGTAAAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
111050 GGAATTGGGTTTATGACAT-TT-TTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
111113 ATAAAATAAAAGAGTTATAGACCGATCAAAATTTAAATTTATAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
111157 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
111222 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGCCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
111287 ATAAAATAAAAGAATTATAGACCAATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
111331 C--AAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * *
111394 GGAATTGGGTTTTTGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
111459 ATAAAATAAAAGAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
111503 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
111568 GGAATTGAGTTTATAACATATTCTTTTCCTGCATTGAT-CATTTCCTGACCATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
* * * *
111632 GATAAAATAAAATAATTGTAGACTGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
111677 CAAAATATTTATCCATTTCTATATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * * * *
111742 TGAATTGGGTTTATAACATATTTTTTTCTTGTATTATCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
111807 ATAAAATAAAATAATTATAAACCGATCAAAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* * * * **
111851 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
111913 AGGAATTGGGTTTATAACATA
65 AGGAATTGGGTTTATAACATA
111934 CTGTTGTTTT
Statistics
Matches: 1032, Mismatches: 80, Indels: 27
0.91 0.07 0.02
Matches are distributed among these distances:
172 301 0.29
173 119 0.12
174 454 0.44
175 65 0.06
176 71 0.07
177 22 0.02
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (174 bp):
CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
Found at i:111689 original size:520 final size:520
Alignment explanation
Indices: 110636--111931 Score: 1953
Period size: 520 Copynumber: 2.5 Consensus size: 520
110626 AAATCCGTCT
* * *
110636 CAAAAGATTTATCTATTTCTACATG-TACTTAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
110700 GGAATTGGATTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGGCCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* ** *
110765 ATCAAATAAAAGAACCATAAACCGATCAAAATTTAAATTCGTAACAAAAGATTTATCCATTTCTA
131 ATAAAATAAAAGAATTATAAACCGATCAAAATTT-AATTTGTAAC-AAAGATTTATCCATTTCTA
* *
110830 CATGTTACTGAAACTTACCAATTTTCTTCGGATGGT-AGAAAAAGGAATTGGGTTTATAACAAAT
194 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATAACAAAT
* * * *
110894 TCTTTTTCTGCATTATCTATTTCCTGATCATCTATTTATAAGAGATAAAATAAAAGAATTATAGA
259 TCTTTTCCTGCATTATCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAAA
110959 CCGATCAAAATTATTTAAATTTGTAACAAAAGATTTATCCATTTCTACATGTTACTGAAAATTAC
324 CCGATCAAAA-TATTTAAATTTGTAACAAAAGATTTATCCATTTCTACATGTTACTGAAAATTAC
* *
111024 CAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATGACATTTTTTTCCTGCATTGTCCAT
388 CAACTTTCTTCGGATGGTAAAAAAAAGGAATTGAGTTTATAACATTTTTTTCCTGCATTGTCCAT
*
111089 TTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAGTTATAGACCGATCAAAATTTAAATTTA
453 TTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTA
111154 TAA
518 TAA
*
111157 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
111222 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGCCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
111287 ATAAAATAAAAGAATTATAGACCAATCAAAATTTCAATTTGTAAC-AAGATTTTTCCATTTCTAC
131 ATAAAATAAAAGAATTATAAACCGATCAAAATTT-AATTTGTAACAAAGATTTATCCATTTCTAC
* * *
111351 ATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTTTGACATATT
195 ATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATAACAAATT
* * *
111416 CTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATAAAC
260 CTTTTCCTGCATTATCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAAAC
*
111481 CGATC-AAA-ATTTAAATTTGTAACAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCA
325 CGATCAAAATATTTAAATTTGTAACAAAAGATTTATCCATTTCTACATGTTACTGAAAATTACCA
*
111544 ACTTTCTTCGGATGGTAGAAAAAAGGAATTGAGTTTATAACATATTCTTTTCCTGCATTGAT-CA
390 ACTTTCTTCGGATGGTAAAAAAAAGGAATTGAGTTTATAACAT-TT-TTTTCCTGCATTG-TCCA
* * *
111608 TTTCCTGACCATCTATTTATAAGAGATAAAATAAAATAATTGTAGACTGATCAAAATTTAAATTT
452 TTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT
* *
111673 GTAG
517 ATAA
* *
111677 CAAAATATTTATCCATTTCTATATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * * * *
111742 TGAATTGGGTTTATAACATATTTTTTTCTTGTATTATCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* * *
111807 ATAAAATAAAATAATTATAAACCGATCAAAATTTAATTTCTTAACAAAAGATTTATCCATTTTTA
131 ATAAAATAAAAGAATTATAAACCGATCAAAATTTAATTT-GTAAC-AAAGATTTATCCATTTCTA
* * * * **
111872 -ATTGTTACT--AACTTACCAACTTTCTTTGGATAGTAGATAGCAGGAATTGGGTTTATAACA
194 CA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATAACA
111932 TACTGTTGTT
Statistics
Matches: 704, Mismatches: 62, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
518 94 0.13
519 7 0.01
520 330 0.47
521 114 0.16
522 159 0.23
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (520 bp):
CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
ATAAAATAAAAGAATTATAAACCGATCAAAATTTAATTTGTAACAAAGATTTATCCATTTCTACA
TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAAAGGAATTGGGTTTATAACAAATTC
TTTTCCTGCATTATCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAAACC
GATCAAAATATTTAAATTTGTAACAAAAGATTTATCCATTTCTACATGTTACTGAAAATTACCAA
CTTTCTTCGGATGGTAAAAAAAAGGAATTGAGTTTATAACATTTTTTTCCTGCATTGTCCATTTC
CTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTATAA
Found at i:113284 original size:22 final size:22
Alignment explanation
Indices: 113246--113291 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
113236 TTAAATTAAT
*
113246 ATTTATATTCATTAATTTTTTA
1 ATTTATATTCATTAATTTGTTA
*
113268 ATTTATATT-TTTAAATTTGTTA
1 ATTTATATTCATT-AATTTGTTA
113290 AT
1 AT
113292 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTATATTCATTAATTTGTTA
Found at i:113965 original size:57 final size:56
Alignment explanation
Indices: 113903--114188 Score: 224
Period size: 58 Copynumber: 5.1 Consensus size: 56
113893 CCCAAACGAC
113903 ATGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
1 ATGAT-TTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * * *
113960 ATGATGATTTCCAATGAATTTTTATAATAAGCTAAGCCTAATTTTTAGGGGTTTCTTG
1 ATGAT-TTTTCAAAAGAATTTTTA-AAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * ** *
114018 AT-A-TTTTCAAATGACTTTTT--AGAAACTAAGTCTGATTTTCAAAGGTTTCATG
1 ATGATTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * * * *
114070 ATGATTATTTCCAAATAATTTTTAAAGAAGCTAAACCTAATTTTTAGGGGATTCTTT
1 ATGATT-TTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * * *
114127 ATGATAATTGT-AAACGAAATATTTT-AAGAAACTAAGCTTGATTTTCAAGGGTTTCTTA
1 ATGAT--TTTTCAAAAG-AAT-TTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
114185 ATGA
1 ATGA
114189 GTAAGTCCTT
Statistics
Matches: 176, Mismatches: 43, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
52 26 0.15
53 1 0.01
54 1 0.01
55 26 0.15
57 51 0.29
58 66 0.38
59 5 0.03
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (56 bp):
ATGATTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
Found at i:114256 original size:42 final size:41
Alignment explanation
Indices: 114185--114290 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 41
114175 GGGTTTCTTA
* *
114185 ATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
1 ATGA-TAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAG
* *
114227 ATGCTTAAATCCTTCGGGTCATCTA-TAAGTCTTTCGAGCAAG
1 ATG-ATAAATCCTTCGGGCCATC-AGTAAGTCTTTCGAGCAAG
* *
114269 ATGATAAGTCCTTCGGACCATC
1 ATGATAAATCCTTCGGGCCATC
114291 CATAAGACCT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 15 0.28
42 38 0.70
43 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (41 bp):
ATGATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAG
Found at i:114472 original size:42 final size:41
Alignment explanation
Indices: 114425--114518 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
114415 GCTTAAGTCA
*
114425 TTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGATTAAATCC
1 TTCGGGCCATCTA-TAAGTCTTTCGAGCAAGATGA-TAAATCC
* *
114467 TTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCC
1 TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGATAAATCC
* *
114508 ATCAGGCCATC
1 TTCGGGCCATC
114519 CAAAAGACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 14 0.31
42 30 0.67
43 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGATAAATCC
Found at i:114599 original size:228 final size:227
Alignment explanation
Indices: 114190--114643 Score: 730
Period size: 228 Copynumber: 2.0 Consensus size: 227
114180 TCTTAATGAG
* *
114190 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
1 TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
* * *
114255 GTCTTTCGAGCAAGATGATAAGTCCTTCGGACCATCCATAAGACCTTCAGGCAGGATATTTTCAA
66 GTCTTTCGAGCAAGATGATAAGTCCATCGGACCATCCAAAAGACCTTCAGGCAGGATATTTCCAA
* *
114320 CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCCACCAGAGGGGTTAACATTTC
131 CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCAACCAGAGGAGTTAACATTTC
114385 CTATTACTCGATTCACAACACTTCGAATCAGCT
196 CT-TTACTCGATTCACAACACTTCGAATCAGCT
114418 TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
1 TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
* * * *
114483 GTCTTTCGAGCAAGATGATAAGTCCATCAGG-CCATCCAAAAGACCTTCGGGTAGGGTGTTTCCA
66 GTCTTTCGAGCAAGATGATAAGTCCATC-GGACCATCCAAAAGACCTTCAGGCAGGATATTTCCA
* * * *
114547 ACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGTAACGCCCAACCAGAGGAGTTCAGATTT
130 ACATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCAACCAGAGGAGTTAACATTT
* *
114612 CCTTTTCTTGATTCACAACACTTCGAATCAGC
195 CCTTTACTCGATTCACAACACTTCGAATCAGC
114644 AACGCATCAC
Statistics
Matches: 208, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
227 27 0.13
228 179 0.86
229 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (227 bp):
TAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAA
GTCTTTCGAGCAAGATGATAAGTCCATCGGACCATCCAAAAGACCTTCAGGCAGGATATTTCCAA
CATTTCCTTTGCTCAATTCACAACACTTCGAATCAGCAACGCCCAACCAGAGGAGTTAACATTTC
CTTTACTCGATTCACAACACTTCGAATCAGCT
Found at i:115694 original size:21 final size:21
Alignment explanation
Indices: 115648--115694 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
115638 AAACCCGAAG
115648 GGTTTCGGGGGGTTTTCAGGT
1 GGTTTCGGGGGGTTTTCAGGT
* ** *
115669 AGTTTCGGGTTGTTTTTAGGT
1 GGTTTCGGGGGGTTTTCAGGT
115690 GGTTT
1 GGTTT
115695 TAACCCCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.06, C:0.06, G:0.40, T:0.47
Consensus pattern (21 bp):
GGTTTCGGGGGGTTTTCAGGT
Found at i:116605 original size:28 final size:28
Alignment explanation
Indices: 116551--116605 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
116541 GTGATAATAC
* ** *
116551 CTAAGAAAATAAGTGGTTGTAATATTAT
1 CTAAGAAAATAAGAGGTAATAAGATTAT
*
116579 CTAAGAAAATAAGAGGTAATGAGATTA
1 CTAAGAAAATAAGAGGTAATAAGATTA
116606 CTATTGTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (28 bp):
CTAAGAAAATAAGAGGTAATAAGATTAT
Found at i:117803 original size:30 final size:31
Alignment explanation
Indices: 117745--117848 Score: 183
Period size: 31 Copynumber: 3.4 Consensus size: 31
117735 GTTTAACAAG
117745 TTTTGGTCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
*
117776 TTTTGGTCACTTACGTTATCA-TTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
*
117806 TTTTGATCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
117837 TTTTGGTCACTT
1 TTTTGGTCACTT
117849 GAATGTTGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.41
31 40 0.59
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTGGTCACTTACATTATCATTTTATTAAA
Found at i:121929 original size:3 final size:3
Alignment explanation
Indices: 121921--121974 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
121911 TTTTTATTTA
* * *
121921 AAT AAT AAT AAT AAT ATTT TAT AAT AAT AAT AAT -AT GAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
121966 AAT AAT AAT
1 AAT AAT AAT
121975 TAATGGTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.05
3 41 0.93
4 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:122624 original size:3 final size:3
Alignment explanation
Indices: 122616--122681 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
122606 ATATGTAAAA
** *
122616 AAT AAT AAT AAT AAT AATT TTT TAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
122661 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
122682 TAATGGTTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 54 0.95
4 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:125359 original size:3 final size:3
Alignment explanation
Indices: 125351--125453 Score: 129
Period size: 3 Copynumber: 34.3 Consensus size: 3
125341 TTTGCATGTA
* *
125351 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATTT TAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
125397 -AT AAT AAT AAT AAT AAT AAT ATTT TAT AAT AAT AAT -AT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
125441 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
125454 TTTAATGGTC
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
2 4 0.05
3 81 0.93
4 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:125408 original size:36 final size:36
Alignment explanation
Indices: 125351--125456 Score: 194
Period size: 36 Copynumber: 2.9 Consensus size: 36
125341 TTTGCATGTA
125351 AATAATAATAATAATAATAATAATAATAATATTTTAT
1 AATAATAAT-ATAATAATAATAATAATAATATTTTAT
125388 AATAATAATATAATAATAATAATAATAATATTTTAT
1 AATAATAATATAATAATAATAATAATAATATTTTAT
*
125424 AATAATAATATTATAATAATAATAATAATATTT
1 AATAATAATATAATAATAATAATAATAATATTT
125457 AATGGTCGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
36 59 0.87
37 9 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (36 bp):
AATAATAATATAATAATAATAATAATAATATTTTAT
Found at i:126103 original size:3 final size:3
Alignment explanation
Indices: 126095--126143 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
126085 TTTATATGTA
* * *
126095 AAT AAT AAT ATTT TAT AAT AAT AGT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
126140 AAT A
1 AAT A
126144 TTTAATGGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.92
4 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:126130 original size:17 final size:17
Alignment explanation
Indices: 126095--126144 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
126085 TTTATATGTA
**
126095 AATAATAAT-ATTTTAT
1 AATAATAATAATAATAT
*
126111 AATAATAGTAATAATAT
1 AATAATAATAATAATAT
126128 AATAATAATAATAATAT
1 AATAATAATAATAATAT
126145 TTAATGGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATAATAATAATAATAT
Found at i:133063 original size:16 final size:16
Alignment explanation
Indices: 133039--133100 Score: 106
Period size: 16 Copynumber: 3.9 Consensus size: 16
133029 GCTCCTGAAA
*
133039 TTTTTGAGTTCGAGCC
1 TTTTCGAGTTCGAGCC
133055 TTTTCGAGTTCGAGCC
1 TTTTCGAGTTCGAGCC
133071 TTTTCGAGTTCGAGCC
1 TTTTCGAGTTCGAGCC
*
133087 TTTTCAAGTTCGAG
1 TTTTCGAGTTCGAG
133101 TCGAGTTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (16 bp):
TTTTCGAGTTCGAGCC
Found at i:134072 original size:27 final size:27
Alignment explanation
Indices: 134042--134098 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
134032 ATGCATAGCA
134042 AAAACACGATAATGTTTTATGGATTCG
1 AAAACACGATAATGTTTTATGGATTCG
134069 AAAACACGATAATGTTTTATGGATTCG
1 AAAACACGATAATGTTTTATGGATTCG
134096 AAA
1 AAA
134099 TGCAAATAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (27 bp):
AAAACACGATAATGTTTTATGGATTCG
Found at i:140796 original size:22 final size:23
Alignment explanation
Indices: 140755--140807 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
140745 ATTTTAAATC
*
140755 TTCTTC-TTAATCTTCTTTTACTT
1 TTCTTCTTTAATATTCTTTTA-TT
140778 TTC-TCTTTAATATTC-TTTATT
1 TTCTTCTTTAATATTCTTTTATT
140799 TTCTTCTTT
1 TTCTTCTTT
140808 TTATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 11 0.41
23 11 0.41
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (23 bp):
TTCTTCTTTAATATTCTTTTATT
Found at i:142662 original size:14 final size:14
Alignment explanation
Indices: 142643--142672 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
142633 GTCCTTTATT
142643 TTTCAGTAATTTAA
1 TTTCAGTAATTTAA
*
142657 TTTCAGTACTTTAA
1 TTTCAGTAATTTAA
142671 TT
1 TT
142673 ATTGCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTCAGTAATTTAA
Found at i:142721 original size:2 final size:2
Alignment explanation
Indices: 142714--142757 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
142704 AGTCCCATGA
142714 AT AT AT AT 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 AT AT AT AT
142756 AT
1 AT
142758 GCATGTTTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:144630 original size:16 final size:17
Alignment explanation
Indices: 144611--144646 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
144601 TAAAAAACAA
144611 TTTTAAG-AAAAATTGT
1 TTTTAAGAAAAAATTGT
144627 TTTTAAGACAAAAATTGT
1 TTTTAAGA-AAAAATTGT
144645 TT
1 TT
144647 GCGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (17 bp):
TTTTAAGAAAAAATTGT
Found at i:145529 original size:2 final size:2
Alignment explanation
Indices: 145522--145565 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
145512 TATAATACCA
145522 AT AT AT AT 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 AT AT AT AT
145564 AT
1 AT
145566 TAGACACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145943 original size:174 final size:174
Alignment explanation
Indices: 145653--148139 Score: 3607
Period size: 174 Copynumber: 14.3 Consensus size: 174
145643 ACACGGCAAT
* **
145653 TTGAAACTTACCAACTTTATTCGGATAGTAGAAAATTTGAATTTGGTTTATAACAGATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * * *
145718 CTGCATTCTCTTTTTCCTAACCATCTTTTTTAAAGAGAGAAAATAAAAGAATTATAGACCGATCT
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
145783 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* **
145827 TTGAAACGTACCAACTTTCTTCGGATAGTAGAAAATATTAATTTGGTTTATAACAGATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * *
145892 CTGCATTCTCTGTTTCCTGACCATCTTTTTTTAAGAGAGAAAATAAAAGAATTATAAACCGATCA
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
*
145957 AAATTCAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* **
146001 TTGAAACTTACCAACTTTATTCGGATAGTAGAAAATTTGAATTTGGTTTATAACAGATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * * *
146066 ATGCATTCTCTGTTTCCTAACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAAACCGATCA
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
* * *
146131 AAATTCAAATTTGTAACAAAAGATTTATCTATTAGTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* * * * *
146175 TTGAAACTTACCAATTTTCTTTGGATAGTAGAGAATAGGAATTTGGTTTATAACATATTATTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * * *
146240 CTGCATTCTCTTTTTCTTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTTTAGACCGATAC
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
*
146305 AAATTTAAAGTTGTAACAAAAGATTTATCCATTACTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* * * * *
146349 CTCAAACTTACCAACTTTCTTTGGATAGTA-AAGAATATGAATTTGGTTTATAACATATTCTTTT
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAA-AATAGGAATTTGGTTTATAACAGATTCTTTT
* * * * *
146413 CTTGCATACTCCGTTTCCTGACCAT-TTTTTT-AGGAGA-AAAAAATAAAGAATTATAGACCGAT
65 CCTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATA-AAAGAATTATAGACCGAT
*
146475 CCAAATTTAAATGTGTAAC-AAAGATTTATCCATTACTACATGTTA
129 CCAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
*
146520 TTGAAACTTACCAACTTTCTTCGGATAGTAG-AAATAGGAATTTGGTTTATAACATATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * * *
146584 ATACATTCTCCGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCT
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
146649 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* ** *
146693 TTGAAACGTACCAACTTTCTTCGGATAGTAGAAAATATTAATTTGGTTTATAACAGATTTTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * *
146758 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAAACCGTTCA
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
*
146823 AAATTCAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* ** *
146867 TTGAAACGTACCAACTTTCTTCGGATAGTA-ACAAATATTAATTTGGTTTATAACAGATTATTTT
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGA-AAATAGGAATTTGGTTTATAACAGATTCTTTT
*
146931 CCTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAAACCGATC
65 CCTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATC
* * * *
146996 AAAATTCAAATTTGTAAGAAAAGATTTATCCATTAGTACATGTTA
130 CAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* * *
147041 TTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAATTTTGTTTATAACAGATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * * * * * * *
147106 ATGCATTCTCCGTTTACTTACCATCTTTTTTCAAAAGAGAAAATAAAAGAATTTTAGGCCGGTCC
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
*
147171 AAATTTAAAATTGTAACAAAAGATTTATCCATTACTACATGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* * * *
147215 CTCAAACTTACCAACTTTCTTTGGATAGTA-AAGAATAGGAATTTGGTTTATAACATATTCTTTT
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAA-AATAGGAATTTGGTTTATAACAGATTCTTTT
* * * * *
147279 CATGCATACTCCGTTTCCTGACCATCTTTTTTCAAGAGAAAAAATAAAAGAATTATAGACCGAAC
65 CCTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATC
147344 CAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
130 CAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* *
147389 TTGAAACTTACCAACTCTCTTCGGATAGTAGAAAATGGGAATTTGGTTTATAACAGATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * * * * *
147454 TTGGATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAATAATTGTAAACCGATCA
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
* *
147519 AAATTTAAATTTGTAACAAAAGATTTATCCATTAGTACTTGTTA
131 AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
* *
147563 TTGAAACTTACCAACTTTCTTTGGATAGTAGAGAATAGGAATTTGGTTTATAACAGATTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * *
147628 CTGCATTCCCCGTTTCTTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
* * *
147693 AAATTTAAATTTGTATA-AAAAGTTTTATCCATTACTATATGTTT
131 AAATTTAAATTTGTA-ACAAAAGATTTATCCATTACTACATGTTA
* * * * * * *
147737 TTAAAACTTACCAACTTTCTTTGGATAATAGAGAATAGGAATTTGATTTATAACATACTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* * *
147802 CTGCATACTCCGTTTCCTGGCCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
66 CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
* *
147867 AAATTTAAATTTGTATA-AAAAGTTTTATCCATTACTATATGTT-
131 AAATTTAAATTTGTA-ACAAAAGATTTATCCATTACTACATGTTA
* * * * * *
147910 TTAAAACTTACCAACTTTCTTTGGATAATAG-AGATAGGAATTTGATTTATAACAGACTCTTTTC
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
* *
147974 CTGCATACT-TCGTTTCCTGGCCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATC
66 CTGCATTCTCT-GTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATC
* * *
148038 CAAATTTAAATTTGTATA-AAAAGTTTTATCCATTACTATATGTTT
130 CAAATTTAAATTTGTA-ACAAAAGATTTATCCATTACTACATGTTA
* * * *
148083 TTAAAACTTACCAACTTTCTTCGGATAATAGAGAATAGGAATTTGATTTATAACAGA
1 TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGA
148140 CTGTTGTTTT
Statistics
Matches: 2126, Mismatches: 171, Indels: 32
0.91 0.07 0.01
Matches are distributed among these distances:
170 52 0.02
171 65 0.03
172 214 0.10
173 131 0.06
174 1660 0.78
175 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (174 bp):
TTGAAACTTACCAACTTTCTTCGGATAGTAGAAAATAGGAATTTGGTTTATAACAGATTCTTTTC
CTGCATTCTCTGTTTCCTGACCATCTTTTTTCAAGAGAGAAAATAAAAGAATTATAGACCGATCC
AAATTTAAATTTGTAACAAAAGATTTATCCATTACTACATGTTA
Found at i:149406 original size:22 final size:22
Alignment explanation
Indices: 149380--149422 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
149370 TAAATTAATA
149380 TTTATATTCATTAATTTGTTAC
1 TTTATATTCATTAATTTGTTAC
**
149402 TTTATATTTTTTAATTTGTTA
1 TTTATATTCATTAATTTGTTA
149423 ATATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTATATTCATTAATTTGTTAC
Found at i:153658 original size:19 final size:19
Alignment explanation
Indices: 153634--153670 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
153624 GAATGCATTT
153634 CATGCACCGATGCACTCTC
1 CATGCACCGATGCACTCTC
*
153653 CATGCATCGATGCACTCT
1 CATGCACCGATGCACTCT
153671 GAATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (19 bp):
CATGCACCGATGCACTCTC
Found at i:153686 original size:64 final size:64
Alignment explanation
Indices: 153618--153775 Score: 210
Period size: 64 Copynumber: 2.5 Consensus size: 64
153608 GATTTAATTC
* *** *
153618 AACATCGAATGCATTTCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGAATATTTTTCA
* * **
153682 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATTGATGCACCAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCA
*
153746 AACATCGAATGCATTTTATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
153776 TCCTTAGTGC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 4 0.05
64 79 0.95
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCA
Found at i:153793 original size:64 final size:63
Alignment explanation
Indices: 153618--153796 Score: 177
Period size: 64 Copynumber: 2.8 Consensus size: 63
153608 GATTTAATTC
* * *
153618 AACATCGAATGCATTTCATGCACCGATGCACTCTCCA-TGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCAC-CT-AAGTGCATCGATGCACTCAGAATATTTTCA
* * **
153682 AACATCGAATGCATTTGATGCATCGATGCA-C-AAGCCATGCATTGATGCAC-CAGGCTATTTTT
1 AACATCGAATGCATTTCATGCATCGATGCACCTAAG---TGCATCGATGCACTCAGAATA-TTTT
153744 CA
62 CA
* * *
153746 AACATCGAATGCATTTTATGCATCGATGCATCCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCA-CCTAAGTGCATCGATGCACT
153797 AAGTGTCCCA
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
60 1 0.01
62 1 0.01
63 4 0.04
64 86 0.91
66 1 0.01
67 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACCTAAGTGCATCGATGCACTCAGAATATTTTCA
Found at i:162262 original size:19 final size:19
Alignment explanation
Indices: 162238--162274 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
162228 GAATGCATTT
162238 CATGCACCGATGCACTCTC
1 CATGCACCGATGCACTCTC
*
162257 CATGCATCGATGCACTCT
1 CATGCACCGATGCACTCT
162275 GAATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (19 bp):
CATGCACCGATGCACTCTC
Found at i:162327 original size:19 final size:19
Alignment explanation
Indices: 162303--162354 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
162293 AATGCATTTG
162303 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
162322 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
162341 ATGCATCGATGCAC
1 ATGCATCGATGCAC
162355 CAGGCTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACAAGCC
Found at i:162334 original size:83 final size:83
Alignment explanation
Indices: 162238--162398 Score: 234
Period size: 83 Copynumber: 1.9 Consensus size: 83
162228 GAATGCATTT
*** *
162238 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACAAGCCATGCATCGATGCAC-CAGAATATTTTTCAAACATCGAATGCATTT
162302 GATGCATCGATGCACAAGC
65 GATGCATCGATGCACAAGC
* ** *
162321 CATGCATCGATGCACAAGCCATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTTT
1 CATGCACCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCAAACATCGAATGCATTTG
162386 ATGCATCGATGCA
66 ATGCATCGATGCA
162399 TCCTTAGTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
82 4 0.06
83 65 0.94
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (83 bp):
CATGCACCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCAAACATCGAATGCATTTG
ATGCATCGATGCACAAGC
Found at i:165579 original size:131 final size:131
Alignment explanation
Indices: 165338--165686 Score: 394
Period size: 131 Copynumber: 2.7 Consensus size: 131
165328 GAGAAAATAG
* ** * * *
165338 TAATATCTAATTATTTCCAATCGAGAATAAACAACCTCTCATATCTTAAAACAATCATTTATTAC
1 TAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTACTAC
* **** * * *
165403 TCCAATCGAAATGAAAAAATATCATTATTTTGTCTTAAAATTCAATATCGATCCGAGTGAAAATG
66 TCCAATCGAAATGAAAAAATATCAGTATACCATCTTAAAATTCAATATCAATCCGAGAGAAAACG
165468 A
131 A
* * * * **
165469 TATTATCTAATAATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGTAGTCATTTACTGT
1 TAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTACTAC
* * * *
165534 TCCAATCGAAATGAAGAGATATCAGTATACCATCTTGAAAA-TCAATATTAATTCGAGAGAAAAC
66 TCCAATCGAAATGAAAAAATATCAGTATACCATCTT-AAAATTCAATATCAATCCGAGAGAAAAC
165598 GA
130 GA
* * * * *
165600 TAATATCAAATTATTTTCAATCGAGAATAAATGACATCTCATGCCTTAAAGCATTCATTTATTAC
1 TAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTACTAC
* * *
165665 TCCAACCAAAATGAAAAGATAT
66 TCCAATCGAAATGAAAAAATAT
165687 TATTATTCTC
Statistics
Matches: 180, Mismatches: 37, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
131 176 0.98
132 4 0.02
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (131 bp):
TAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTACTAC
TCCAATCGAAATGAAAAAATATCAGTATACCATCTTAAAATTCAATATCAATCCGAGAGAAAACG
A
Found at i:168171 original size:23 final size:23
Alignment explanation
Indices: 168117--168171 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
168107 TATCTTCATC
*
168117 TAATGTTAGTGAACATATTTGTT
1 TAATGTTCGTGAACATATTTGTT
* *
168140 TATTATTCGTGAACAT-TTTCGTT
1 TAATGTTCGTGAACATATTT-GTT
168163 TAATGTTCG
1 TAATGTTCG
168172 GCAACCAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.49
Consensus pattern (23 bp):
TAATGTTCGTGAACATATTTGTT
Found at i:168689 original size:21 final size:20
Alignment explanation
Indices: 168660--168698 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
168650 ACAATATCAA
*
168660 TTCTTCACATCGACGAACAAG
1 TTCTCCACATCGA-GAACAAG
*
168681 TTCTCCACATTGAGAACA
1 TTCTCCACATCGAGAACA
168699 TATTTTACGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCTCCACATCGAGAACAAG
Found at i:173519 original size:14 final size:14
Alignment explanation
Indices: 173500--173527 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
173490 TATATCATGG
173500 TTCAAAAATTATTT
1 TTCAAAAATTATTT
173514 TTCAAAAATTATTT
1 TTCAAAAATTATTT
173528 CTTAGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TTCAAAAATTATTT
Found at i:175925 original size:16 final size:15
Alignment explanation
Indices: 175883--175934 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
175873 CCTAATTAAA
175883 AAAATAAAACAATAAAT
1 AAAATAAAA-AA-AAAT
175900 -AAATAGAAAAAAACAT
1 AAAATA-AAAAAAA-AT
175916 AAAATAAAAATAAAAT
1 AAAATAAAAA-AAAAT
175932 AAA
1 AAA
175935 CCTAAATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 2 0.06
16 18 0.58
17 11 0.35
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAATAAAAAAAAAT
Found at i:175941 original size:21 final size:19
Alignment explanation
Indices: 175879--175942 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 19
175869 TAAACCTAAT
*
175879 TAAAAAAATAAAACAATAAA
1 TAAAAAAAAAAAAC-ATAAA
*
175899 TAAATAGAAAAAAACATAAAA
1 TAAA-AAAAAAAAACAT-AAA
*
175920 TAAAAATAAAATAAACCTAAA
1 TAAAAA-AAAA-AAACATAAA
175941 TA
1 TA
175943 CAAGGACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 7 0.19
21 24 0.67
22 5 0.14
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (19 bp):
TAAAAAAAAAAAACATAAA
Found at i:177723 original size:97 final size:97
Alignment explanation
Indices: 177557--177747 Score: 337
Period size: 97 Copynumber: 2.0 Consensus size: 97
177547 CAAGTTCTTC
* * *
177557 TCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCTATTAGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTAGAAAT
*
177622 GTCAATCCCTCAAGCGAGGCGTTGCTGATAGG
66 GTCAATCCCTCAAGCGAGGCGTTACTGATAGG
*
177654 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTAGAAAT
177719 GTCAATCCCTCAAGCGAGGCGTTACTGAT
66 GTCAATCCCTCAAGCGAGGCGTTACTGAT
177748 TCAAAGTGTT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (97 bp):
TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTAGAAAT
GTCAATCCCTCAAGCGAGGCGTTACTGATAGG
Found at i:177808 original size:136 final size:136
Alignment explanation
Indices: 177654--178129 Score: 722
Period size: 136 Copynumber: 3.5 Consensus size: 136
177644 TGCTGATAGG
177654 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * *
177719 GTCAATCCCTCAAGCGAGGCGTTACTGATTCAAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTGCTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
177784 TTCTTT
131 TTCTTT
* *
177790 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * * * * * *
177855 ATTAATCCCTCAAGTGAGGCATTGCTTATTCGAAGTTTTGTGAATCGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTGCTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
* *
177920 TACTTC
131 TTCTTT
* * * **
177926 TCATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCTTCTCATTATGAACTCTTAATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAAT
*
177991 GTTAATCCCTCAAGCGAGGCGTTGCTGATTCGAAGTGTTTTGAATTGAGCAATAGGTCGAACAAG
66 GTTAATCCCTCAAGCGAGGCGTTGCTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
178056 TTCTTCT
131 TTCTT-T
* *
178063 T-ATTATGAACTT-TCTCTCCCTCTATCGGATGACCTCTTCTCATTATGAACTCTCCATTAGAAA
1 TCATTATGAACTTCT-TCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAA
178126 TGTT
65 TGTT
178130 GATCAGTTCA
Statistics
Matches: 303, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
135 1 0.00
136 301 0.99
137 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (136 bp):
TCATTATGAACTTCTTCTCCCTCTATCGGATGACTTCTTCTCATTATGAACTCTCCATTGGAAAT
GTTAATCCCTCAAGCGAGGCGTTGCTGATTCGAAGTGTTATGAATTGAGCAATAGGTCGAACAAG
TTCTTT
Found at i:180903 original size:18 final size:18
Alignment explanation
Indices: 180881--180937 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
180871 AACCTAATTA
180881 AAAAAATAAAACAACAA-AT
1 AAAAAATAAAA-AA-AACAT
*
180900 -AAAAAGAAAAAAAACAT
1 AAAAAATAAAAAAAACAT
* *
180917 AAAAAATAAAATAAACCT
1 AAAAAATAAAAAAAACAT
180935 AAA
1 AAA
180938 TACAAGGACC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 2 0.06
17 4 0.12
18 26 0.81
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAAAATAAAAAAAACAT
Found at i:180903 original size:19 final size:17
Alignment explanation
Indices: 180881--180927 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
180871 AACCTAATTA
180881 AAAAAATAAAACAACAAAT
1 AAAAAATAAAA-AA-AAAT
*
180900 AAAAAGA-AAAAAAACAT
1 AAAAA-ATAAAAAAAAAT
180917 AAAAAATAAAA
1 AAAAAATAAAA
180928 TAAACCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 12 0.48
18 2 0.08
19 9 0.36
20 1 0.04
ACGTcount: A:0.83, C:0.06, G:0.02, T:0.09
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:180909 original size:24 final size:24
Alignment explanation
Indices: 180881--180927 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
180871 AACCTAATTA
* *
180881 AAAAAATAAAACAACAAATAAAAAG
1 AAAAAA-AACACAAAAAATAAAAAG
*
180906 AAAAAAAACATAAAAAATAAAA
1 AAAAAAAACACAAAAAATAAAA
180928 TAAACCTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.83, C:0.06, G:0.02, T:0.09
Consensus pattern (24 bp):
AAAAAAAACACAAAAAATAAAAAG
Found at i:180921 original size:12 final size:12
Alignment explanation
Indices: 180881--180931 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
180871 AACCTAATTA
*
180881 AAAAAATAAAAC
1 AAAAAATAAAAT
*
180893 AACAAATAAAA-
1 AAAAAATAAAAT
180904 AGAAAAA-AAACAT
1 A-AAAAATAAA-AT
180917 AAAAAATAAAAT
1 AAAAAATAAAAT
180929 AAA
1 AAA
180932 CCTAAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 4 0.12
12 25 0.76
13 4 0.12
ACGTcount: A:0.82, C:0.06, G:0.02, T:0.10
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:183391 original size:18 final size:18
Alignment explanation
Indices: 183378--183432 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
183368 TTAAAATACT
*
183378 AAAATAATAAAAAAATAA
1 AAAAAAATAAAAAAATAA
*
183396 AAAAAAATAAAAAATAGCAA
1 AAAAAAATAAAAAA-A-TAA
183416 AAACAAAATAGAAAAAA
1 AAA-AAAATA-AAAAAA
183433 AAAGTACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 13 0.42
19 1 0.03
20 5 0.16
21 7 0.23
22 5 0.16
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.11
Consensus pattern (18 bp):
AAAAAAATAAAAAAATAA
Found at i:183433 original size:10 final size:10
Alignment explanation
Indices: 183378--183434 Score: 60
Period size: 10 Copynumber: 5.4 Consensus size: 10
183368 TTAAAATACT
183378 AAAATAATAAA
1 AAAATAA-AAA
183389 AAAATAAAAA
1 AAAATAAAAA
183399 AAAATAAAAA
1 AAAATAAAAA
* **
183409 ATAGCAAAAA
1 AAAATAAAAA
183419 CAAAATAGAAAA
1 -AAAATA-AAAA
183431 AAAA
1 AAAA
183435 AGTACAAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 20 0.53
11 14 0.37
12 4 0.11
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.11
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:188956 original size:27 final size:27
Alignment explanation
Indices: 188917--188971 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
188907 ATGGTTTTCG
* * *
188917 TAAATCCGCCATCAAGTATTAATAAAT
1 TAAATCCGACATCAAGCATTAAAAAAT
*
188944 TAAATCCTACATCAAGCATTAAAAAAT
1 TAAATCCGACATCAAGCATTAAAAAAT
188971 T
1 T
188972 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (27 bp):
TAAATCCGACATCAAGCATTAAAAAAT
Found at i:190687 original size:13 final size:13
Alignment explanation
Indices: 190669--190693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190659 TAATTTAATA
190669 AAAAATCAAAATT
1 AAAAATCAAAATT
190682 AAAAATCAAAAT
1 AAAAATCAAAAT
190694 ATTATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATCAAAATT
Found at i:191332 original size:174 final size:174
Alignment explanation
Indices: 191068--192542 Score: 2368
Period size: 174 Copynumber: 8.5 Consensus size: 174
191058 AAATCCGTCT
* * * *
191068 CAAAAGATTTATCTACTTCTACATGTTACTTAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
191133 GGAATTGGATTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
191198 ATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * *
191242 CAAAAGATTTATCCATTTCTACATGTTATTGAAACTTACCAATTTTCTTTGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * * * * *
191307 GGAATTGGGTTTATAACAGATTCTTTTTCTGCAATATCTATTTCCTGATCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
191372 ATAAAATAAAATAATTATAGACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
191416 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* *
191481 GGAATTGGGTTTATAACATTTTCTTTTCATGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
* *
191546 ATAAAATAAAAGAATTATAGAGCGATCAAAATTTCAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
191590 CAAAAGATTTAACCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTA-AAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
191654 GGGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGA
66 -GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGA
* * *
191719 GATAAAATAAAAGAGTTATAGACCGGTCAAAATTTAAATTTATAA
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
191764 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
191829 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATATAAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTA-TT-TATAAG
*
191894 AGATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAA
129 AGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
*
191940 CAAAAGATTTTTCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
192005 GGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
192070 ATAAAATAAAAGAATTATAAACCGATCAAAATTTAAATTTGTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* * * *
192114 CAAAATATTTATCCATTACTACAAGTTATTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
192179 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGAT-CATTTCCTGACTATCTATTTATAAGA
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTG-TCCATTTCCTGACCATCTATTTATAAGA
*
192243 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAG
130 GATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
* *
192288 CAAAATATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
* * *
192353 GGAATTGGGTTTATAACATATTCTTTTCCTGTATTATCCATTTCCTGACCATCTTTTTATAAGAG
66 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
*
192418 ATAAAATAAAAGAATTATAGACCGATCAAAATTT-AATTTCTTAA
131 ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTT-GTAA
* * * * * **
192462 CAAAAGATTTATCCATTTTTA-ATTGTTACT--AACTTACCAACTTTATTTGGATAGTAGATAGC
1 CAAAAGATTTATCCATTTCTACA-TGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAA
192524 AGGAATTGGGTTTATAACA
65 AGGAATTGGGTTTATAACA
192543 GACTGTTGTT
Statistics
Matches: 1207, Mismatches: 86, Indels: 18
0.92 0.07 0.01
Matches are distributed among these distances:
172 45 0.04
173 13 0.01
174 976 0.81
175 11 0.01
176 162 0.13
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (174 bp):
CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
ATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTAA
Found at i:192402 original size:698 final size:695
Alignment explanation
Indices: 191068--192542 Score: 2375
Period size: 698 Copynumber: 2.1 Consensus size: 695
191058 AAATCCGTCT
* * *
191068 CAAAAGATTTATCTACTTCTACATGTTACTTAAACTTACCAATTTTCTTCGGATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTAC-TAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
191133 GGAATTGGATTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
65 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAG
191198 ATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTTCTA
130 ATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTTCTA
* * *
191263 CATGTTATTGAAACTTACCAATTTTCTTTGGATGGTAGAAAAAAGGAATTGGGTTTATAACAGAT
195 CATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACAGAT
* * * * *
191328 TCTTTTTCTGCAATATCTATTTCCTGATCATCTATTTATAAGAGATAAAATAAAATAATTATAGA
260 TCTTTTCCTGCAATATCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAAA
* *
191393 CCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAA
325 CCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACAAGTTACTGAAACTTACCAA
* *
191458 CTTTCTTCGTATGGTAGAAAAAAGGAATTGGGTTTATAACATTTTCTTTTCATGCATTGTCCATT
390 CTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATATTCTTTTCATGCATTGTCCATT
* *
191523 TCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGAGCGATCAAAATTTCAATTTGT
455 TCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGT
191588 AACAAAAGATTTAACCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAA
520 AACAAAAGATTTAACCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAA
* *
191653 AGGGAATTGGGTTTATGACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAG
585 AGGGAATTGGGTTTATAACATATTCTTTTCCTGCATTATCCATTTCCTGACCATCTATTTATAAG
* *
191718 AGATAAAATAAAAGAGTTATAGACCGGTCAAAATTTAAATTT-ATAA
650 AGATAAAATAAAAGAATTATAGACCGATCAAAATTT-AATTTCATAA
*
191764 CAAAAGATTTATCCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGTATGGTAGAAAAAA
1 CAAAAGATTTATCCATTTCTACATGTTACT-AAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
*
191829 GGAATTGGGTTTATAACATTTTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATATAAG
65 GGAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTA-TT-TATAAG
* * * *
191894 AGATAAAATAAAAGAATTATAGACCGATCAAAATTTCAATTTGTAACAAAAGATTTTTCCATTTC
128 AGATAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTTC
* *
191959 TACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATGACAT
193 TACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACAG
* * * *
192024 ATTCTTTTCCTGCATTGTCCATTTTCTGACCATCTTTTTATAAGAGATAAAATAAAAGAATTATA
258 ATTCTTTTCCTGCAATATCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATA
* *
192089 AACCGATCAAAATTTAAATTTGTAACAAAATATTTATCCATTACTACAAGTTATTGAAACTTACC
323 AACCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACAAGTTACTGAAACTTACC
*
192154 AACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATATTCTTTTCCTGCATTGAT-C
388 AACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATATTCTTTTCATGCATTG-TCC
*
192218 ATTTCCTGACTATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATT
452 ATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATT
* * * *
192283 TGTAGCAAAATATTTATCTATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGA
517 TGTAACAAAAGATTTAACCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTA-A
* *
192348 AAAAA-GGAATTGGGTTTATAACATATTCTTTTCCTGTATTATCCATTTCCTGACCATCTTTTTA
581 AAAAAGGGAATTGGGTTTATAACATATTCTTTTCCTGCATTATCCATTTCCTGACCATCTATTTA
*
192412 TAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAATTTCTTAA
646 TAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAATTTCATAA
* * * * * **
192462 CAAAAGATTTATCCATTTTTA-ATTGTTACT-AACTTACCAACTTTATTTGGATAGTAGATAGCA
1 CAAAAGATTTATCCATTTCTACA-TGTTACTAAACTTACCAACTTTCTTCGGATGGTAGAAAAAA
192525 GGAATTGGGTTTATAACA
65 GGAATTGGGTTTATAACA
192543 GACTGTTGTT
Statistics
Matches: 719, Mismatches: 53, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
695 1 0.00
696 156 0.22
697 8 0.01
698 547 0.76
699 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (695 bp):
CAAAAGATTTATCCATTTCTACATGTTACTAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAG
GAATTGGGTTTATAACATATTCTTTTCCTGCATTGTCCATTTCCTGACCATCTATTTATAAGAGA
TAAAATAAAAGAACTATAAACCGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTTCTAC
ATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACAGATT
CTTTTCCTGCAATATCCATTTCCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAAAC
CGATCAAAATTTAAATTTGTAACAAAAGATTTATCCATTACTACAAGTTACTGAAACTTACCAAC
TTTCTTCGGATGGTAGAAAAAAGGAATTGGGTTTATAACATATTCTTTTCATGCATTGTCCATTT
CCTGACCATCTATTTATAAGAGATAAAATAAAAGAATTATAGACCGATCAAAATTTAAATTTGTA
ACAAAAGATTTAACCATTTCTACATGTTACTGAAACTTACCAACTTTCTTCGGATGGTAAAAAAA
GGGAATTGGGTTTATAACATATTCTTTTCCTGCATTATCCATTTCCTGACCATCTATTTATAAGA
GATAAAATAAAAGAATTATAGACCGATCAAAATTTAATTTCATAA
Found at i:194013 original size:22 final size:22
Alignment explanation
Indices: 193985--194030 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
193975 TTAAATTAAT
193985 ATTTATATTCATTAATTTGTTA
1 ATTTATATTCATTAATTTGTTA
**
194007 ATTTATATTTTTTAATTTGTTA
1 ATTTATATTCATTAATTTGTTA
194029 AT
1 AT
194031 ATGAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
ATTTATATTCATTAATTTGTTA
Found at i:194872 original size:57 final size:57
Alignment explanation
Indices: 194651--194929 Score: 225
Period size: 58 Copynumber: 4.9 Consensus size: 57
194641 GACATGATGT
* * * *
194651 TTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGA
1 TTTCCAAAGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTTATGATTA
* * *
194708 TTTCCAATGAATTTTTACAATAAGCTAAGCCTAATTTTTAGGGGTTTC--T-TGA-TA
1 TTTCCAAAGAATTTTTA-AAGAAACTAAGCCTAATTTTTAGGGGTTTCTTTATGATTA
* * * * * ** *
194762 TTTTCAAATG-ATTTTT-TAGAAACTAAGTCTGATTTTCAAAGGTTTCTTAATGATTA
1 TTTCCAAA-GAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTTATGATTA
* * * *
194818 TTTCCAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGATTGTTTATGATAA
1 TTTCCAAAGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTTATGATTA
* * * * *
194875 TTGT--AAACGAAATATTTT-AAGAAACTAAGCTTGATTTTCAAGGGTTTCTTAATGA
1 TT-TCCAAA-G-AAT-TTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTTATGA
194930 GTAAGTCCTT
Statistics
Matches: 172, Mismatches: 38, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
52 22 0.13
54 13 0.08
55 8 0.05
56 18 0.10
57 47 0.27
58 60 0.35
59 4 0.02
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (57 bp):
TTTCCAAAGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTTATGATTA
Found at i:194954 original size:20 final size:20
Alignment explanation
Indices: 194929--195010 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
194919 TTTCTTAATG
194929 AGTAAGTCCTTCGGGCCATC
1 AGTAAGTCCTTCGGGCCATC
* * *
194949 AGTAAGTCTTTCGAG-CATG
1 AGTAAGTCCTTCGGGCCATC
* *
194968 ATGCTTAAATCCTTCGGGTCATC
1 A-G--TAAGTCCTTCGGGCCATC
*
194991 TA-TAAGTCCTTCGGACCATC
1 -AGTAAGTCCTTCGGGCCATC
195011 CATAAGACCT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
19 4 0.09
20 29 0.62
22 10 0.21
23 3 0.06
24 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (20 bp):
AGTAAGTCCTTCGGGCCATC
Found at i:195015 original size:20 final size:20
Alignment explanation
Indices: 194977--195022 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
194967 GATGCTTAAA
** *
194977 TCCTTCGGGTCATCTATAAG
1 TCCTTCGGACCATCCATAAG
194997 TCCTTCGGACCATCCATAAG
1 TCCTTCGGACCATCCATAAG
*
195017 ACCTTC
1 TCCTTC
195023 AGGCAGGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (20 bp):
TCCTTCGGACCATCCATAAG
Found at i:195191 original size:42 final size:42
Alignment explanation
Indices: 195136--195238 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
195126 TTCGAATCAA
* * *
195136 CTTAAGTCATTCGGGCCATC-AGTAAGTCTTTCGAGCATGATG
1 CTTAAGTCCTTCGGGCCATCTA-TAAGTCTTTCAAGCAAGATG
* *
195178 CTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATG
1 CTTAAGTCCTTCGGGCCATCTATAAGTCTTTCAAGCAAGATG
*
195220 -ATAAGTCCTTCGGGCCATC
1 CTTAAGTCCTTCGGGCCATC
195239 CAAAAGACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
41 16 0.31
42 35 0.67
43 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
CTTAAGTCCTTCGGGCCATCTATAAGTCTTTCAAGCAAGATG
Found at i:195752 original size:16 final size:17
Alignment explanation
Indices: 195726--195757 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
195716 AAACCAGTGC
195726 CCAAGACCCAACCAGAT
1 CCAAGACCCAACCAGAT
195743 CCAA-ACCCAACCAGA
1 CCAAGACCCAACCAGA
195758 ACCCAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.44, G:0.09, T:0.03
Consensus pattern (17 bp):
CCAAGACCCAACCAGAT
Found at i:198324 original size:31 final size:31
Alignment explanation
Indices: 198235--198338 Score: 167
Period size: 30 Copynumber: 3.4 Consensus size: 31
198225 GTTTAACAAG
198235 TTTTGGTCACTTACATTATCATTTTATT-AA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
* *
198265 GTTTGGTCACTTACGTTATCA-TTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
*
198295 TTTTGATCACTTACATTATCATTTTATTAAA
1 TTTTGGTCACTTACATTATCATTTTATTAAA
198326 TTTTGGTCACTTA
1 TTTTGGTCACTTA
198339 AATGTTGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
29 6 0.09
30 39 0.59
31 21 0.32
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (31 bp):
TTTTGGTCACTTACATTATCATTTTATTAAA
Found at i:209376 original size:18 final size:18
Alignment explanation
Indices: 209353--209419 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
209343 ACCGGTCACA
209353 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
* *
209371 ACCCGAACCGACCCATTT
1 ACCCGACCCGACCCGTTT
*
209389 ACCCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTT
209410 ACCCGACCCG
1 ACCCGACCCG
209420 TTGACCGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 25 0.61
21 16 0.39
ACGTcount: A:0.19, C:0.48, G:0.18, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:209404 original size:8 final size:8
Alignment explanation
Indices: 209393--209447 Score: 75
Period size: 8 Copynumber: 7.5 Consensus size: 8
209383 CCATTTACCC
209393 GACCCGTT
1 GACCCGTT
209401 GACCCGTT
1 GACCCGTT
209409 GACCC---
1 GACCCGTT
209414 GACCCGTT
1 GACCCGTT
209422 GA-CCGTT
1 GACCCGTT
209429 GACCCGTT
1 GACCCGTT
209437 GA-CCGTT
1 GACCCGTT
209444 GACC
1 GACC
209448 GGAGTTGACC
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.12
7 14 0.33
8 23 0.55
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:209413 original size:21 final size:21
Alignment explanation
Indices: 209380--209434 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
209370 TACCCGAACC
* *
209380 GACCCATTTACCCGACCCGTT
1 GACCCGTTGACCCGACCCGTT
209401 GACCCGTTGACCCGACCCGTT
1 GACCCGTTGACCCGACCCGTT
209422 GA-CCGTTGACCCG
1 GACCCGTTGACCCG
209435 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.16, C:0.42, G:0.22, T:0.20
Consensus pattern (21 bp):
GACCCGTTGACCCGACCCGTT
Found at i:209429 original size:7 final size:7
Alignment explanation
Indices: 209396--209448 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
209386 TTTACCCGAC
209396 CCGTTGA
1 CCGTTGA
209403 CCCGTTGA
1 -CCGTTGA
*
209411 CC--CGA
1 CCGTTGA
209416 CCCGTTGA
1 -CCGTTGA
209424 CCGTTGA
1 CCGTTGA
209431 CCCGTTGA
1 -CCGTTGA
209439 CCGTTGA
1 CCGTTGA
209446 CCG
1 CCG
209449 GAGTTGACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
7 19 0.49
8 16 0.41
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (7 bp):
CCGTTGA
Found at i:209434 original size:15 final size:15
Alignment explanation
Indices: 209396--209447 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
209386 TTTACCCGAC
209396 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
209411 CC--CGACCCGTTGA
1 CCGTTGACCCGTTGA
209424 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
209439 CCGTTGACC
1 CCGTTGACC
209448 GGAGTTGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.36
15 21 0.64
ACGTcount: A:0.13, C:0.38, G:0.25, T:0.23
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:210786 original size:18 final size:18
Alignment explanation
Indices: 210760--210795 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
210750 TCAAAAGGAC
*
210760 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
210778 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
210796 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:212029 original size:24 final size:24
Alignment explanation
Indices: 211923--212029 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
211913 ATATTTTATC
*
211923 TGATTTCTGATTTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
** * * *
211947 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTATGTTT
* * * * * *
211971 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTATGTTT
*
211995 TGATATCTGATCTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
*
212019 TGATTTTTGAT
1 TGATTTCTGAT
212030 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTATGTTT
Found at i:214180 original size:18 final size:18
Alignment explanation
Indices: 214157--214223 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
214147 ACCGGTCACA
214157 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
* *
214175 ACCCGAACCGACCCATTT
1 ACCCGACCCGACCCGTTT
*
214193 ACCCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTT
214214 ACCCGACCCG
1 ACCCGACCCG
214224 TTGACCGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 25 0.61
21 16 0.39
ACGTcount: A:0.19, C:0.48, G:0.18, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:214208 original size:8 final size:8
Alignment explanation
Indices: 214197--214251 Score: 75
Period size: 8 Copynumber: 7.5 Consensus size: 8
214187 CCATTTACCC
214197 GACCCGTT
1 GACCCGTT
214205 GACCCGTT
1 GACCCGTT
214213 GACCC---
1 GACCCGTT
214218 GACCCGTT
1 GACCCGTT
214226 GA-CCGTT
1 GACCCGTT
214233 GACCCGTT
1 GACCCGTT
214241 GA-CCGTT
1 GACCCGTT
214248 GACC
1 GACC
214252 GGAGTTGACC
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.12
7 14 0.33
8 23 0.55
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:214217 original size:21 final size:21
Alignment explanation
Indices: 214184--214238 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
214174 TACCCGAACC
* *
214184 GACCCATTTACCCGACCCGTT
1 GACCCGTTGACCCGACCCGTT
214205 GACCCGTTGACCCGACCCGTT
1 GACCCGTTGACCCGACCCGTT
214226 GA-CCGTTGACCCG
1 GACCCGTTGACCCG
214239 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.16, C:0.42, G:0.22, T:0.20
Consensus pattern (21 bp):
GACCCGTTGACCCGACCCGTT
Found at i:214233 original size:7 final size:7
Alignment explanation
Indices: 214200--214252 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
214190 TTTACCCGAC
214200 CCGTTGA
1 CCGTTGA
214207 CCCGTTGA
1 -CCGTTGA
*
214215 CC--CGA
1 CCGTTGA
214220 CCCGTTGA
1 -CCGTTGA
214228 CCGTTGA
1 CCGTTGA
214235 CCCGTTGA
1 -CCGTTGA
214243 CCGTTGA
1 CCGTTGA
214250 CCG
1 CCG
214253 GAGTTGACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 2 0.05
6 2 0.05
7 19 0.49
8 16 0.41
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (7 bp):
CCGTTGA
Found at i:214238 original size:15 final size:15
Alignment explanation
Indices: 214200--214251 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
214190 TTTACCCGAC
214200 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
214215 CC--CGACCCGTTGA
1 CCGTTGACCCGTTGA
214228 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
214243 CCGTTGACC
1 CCGTTGACC
214252 GGAGTTGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.36
15 21 0.64
ACGTcount: A:0.13, C:0.38, G:0.25, T:0.23
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:215590 original size:18 final size:18
Alignment explanation
Indices: 215564--215599 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
215554 TCAAAAGGAC
*
215564 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
215582 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
215600 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:216821 original size:24 final size:24
Alignment explanation
Indices: 216727--216833 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
216717 ATATTTTATC
* *
216727 TGATTTCTGATTTGAATTATGTTT
1 TGATATCTGATCTGAATTATGTTT
* * * *
216751 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTATGTTT
* * * * *
216775 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTATGTTT
216799 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTATGTTT
*
216823 TGATTTCTGAT
1 TGATATCTGAT
216834 ATCTCCGTTT
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 61 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTATGTTT
Done.