Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 37
Found at i:196287 original size:31 final size:31
Alignment explanation
Indices: 196238--196313 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
196228 AGAGGTCATA
*
196238 AAGAACCTCGG-AAAATGTCCATAAGTCCCG
1 AAGAACCTAGGTAAAATGTCCATAAGTCCCG
* *
196268 AAGAACCTAGGTAAAATGTCCATATGTCTCG
1 AAGAACCTAGGTAAAATGTCCATAAGTCCCG
*
196299 AA-AGACATAGGTAAA
1 AAGA-ACCTAGGTAAA
196314 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 11 0.28
31 29 0.73
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (31 bp):
AAGAACCTAGGTAAAATGTCCATAAGTCCCG
Found at i:197652 original size:64 final size:63
Alignment explanation
Indices: 197565--197723 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 63
197555 TCTTTAACAT
* *
197565 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGA
1 GTGCATCGATGCACT-CCTTATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
197628 GATGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTTGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTTATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
*
197692 GTGCATCGATGCACAT--TTGTGCATCGATACAC
1 GTGCATCGATGCAC-TCCTTATGCATCGATACAC
197724 CTTGCCCAGA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
62 14 0.17
63 21 0.26
64 47 0.57
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTTATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:200908 original size:30 final size:30
Alignment explanation
Indices: 200826--200908 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
200816 CCCGAAGGAC
* *
200826 CTATCCAGAGGTCCCAAAG-ACCCCGAAAA
1 CTATCCAAAGGTCCCAAAGAACCTCGAAAA
** *
200855 CTATCCAAAGGTCATAAAAAACCTCGAAAA
1 CTATCCAAAGGTCCCAAAGAACCTCGAAAA
*
200885 CTGTCCATAA-GTCCCAAAGAACCT
1 CTATCCA-AAGGTCCCAAAGAACCT
200909 AGGTAAATTG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
29 15 0.35
30 26 0.60
31 2 0.05
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.16
Consensus pattern (30 bp):
CTATCCAAAGGTCCCAAAGAACCTCGAAAA
Found at i:202298 original size:64 final size:63
Alignment explanation
Indices: 202214--202351 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 63
202204 TTAACATGTC
* * *
202214 CATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGGGATG
1 CATCGATGCACTACCCATGCATCAATACACAAATTACATTCGATG-TTTCATCTTTAAAGAG-TG
* * * * * *
202278 CATCGATGCACT-CCTTATGCATCAATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGAGTG
1 CATCGATGCACTACC-CATGCATCAATACACAAATTACATTCGATGTTTCATCTTTAAAGAGTG
202341 CATCGATGCAC
1 CATCGATGCAC
202352 ATTCAATGTG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
63 20 0.32
64 43 0.68
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (63 bp):
CATCGATGCACTACCCATGCATCAATACACAAATTACATTCGATGTTTCATCTTTAAAGAGTG
Found at i:206438 original size:11 final size:11
Alignment explanation
Indices: 206403--206432 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
206393 AAAATATTAT
*
206403 AATATTAAAAA
1 AATATAAAAAA
206414 AATATAAAAAA
1 AATATAAAAAA
206425 AATATAAA
1 AATATAAA
206433 TTAAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATATAAAAAA
Found at i:207054 original size:17 final size:18
Alignment explanation
Indices: 207032--207065 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
207022 ATTAAATTAA
*
207032 TTTTTATTTTTA-ATATT
1 TTTTTATATTTATATATT
207049 TTTTTATATTTATATAT
1 TTTTTATATTTATATAT
207066 AAAAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATATTTATATATT
Found at i:210623 original size:2 final size:2
Alignment explanation
Indices: 210616--210641 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
210606 ACAAAAACTT
210616 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
210642 CCACTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:211311 original size:20 final size:20
Alignment explanation
Indices: 211288--211334 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
211278 CTTGTGTTTG
*
211288 ATTGCTTATATAGTTGTTCT
1 ATTGCTTAGATAGTTGTTCT
*
211308 ATTGCTTGGATAGTTGTTCT
1 ATTGCTTAGATAGTTGTTCT
211328 ATTGCTT
1 ATTGCTT
211335 CTTCAAGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (20 bp):
ATTGCTTAGATAGTTGTTCT
Found at i:214788 original size:20 final size:19
Alignment explanation
Indices: 214747--214802 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
214737 CCGTTAGACA
*
214747 GGGGGAATCGGTACCCCTG
1 GGGGGAATCTGTACCCCTG
* *
214766 GGGGGAATCTGTTCCTCTG
1 GGGGGAATCTGTACCCCTG
*
214785 GGGGAGAATCTATACCCC
1 GGGG-GAATCTGTACCCC
214803 CTGGACAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.18, C:0.25, G:0.36, T:0.21
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCTG
Found at i:221697 original size:504 final size:504
Alignment explanation
Indices: 220753--223264 Score: 4679
Period size: 504 Copynumber: 5.0 Consensus size: 504
220743 TTAGAAAACA
*
220753 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCG
1 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
* *
220818 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGCACGTTTGGGAATAGCACTACTAG
66 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
*
220883 GAGGAGCTCAAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTA---TCCTCACTATCTGAT
131 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
220945 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
196 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
* *
221010 CTCTTCTTCTGAGTCTCCTCTGAATCTTCTTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
261 CTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
*
221075 ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCGGATCAG
326 ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCAG
*
221140 ACTCCACTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
391 ACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
*
221205 TCAATGAAGCTCTGGGGATCATCAGTAACTGTCTTCAGAATCTGCCGCC
456 TCAATGAAGCTCTGGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
221254 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
1 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
221319 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
66 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
221384 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
131 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
221449 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
196 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
221514 CTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
261 CTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
221579 ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCAG
326 ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCAG
221644 ACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
391 ACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
*
221709 TCAATGAAGCTCTGGGGATCATCAATAATTGTCTTCAGAATCTGCCGCC
456 TCAATGAAGCTCTGGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
221758 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
1 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
*
221823 AAGTAATTAAAAGGAATACTATCAAATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
66 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
221888 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
131 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
221953 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
196 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
*
222018 CTCTTCTTCTGTGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
261 CTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
*
222083 ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATAGCTCATAACCCTGATCAG
326 ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCAG
*
222148 ACTACTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
391 ACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
*
222213 TCAATGAAGCTCTGGGGATCATCAGTAACTGTCTTCAGAATCTGCCGCC
456 TCAATGAAGCTCTGGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
*
222262 ACATTCTTCTAAAGCACTAGCTGCCACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
1 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
*
222327 AAGTAATTAAAAGGAATACTATCAAATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
66 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
222392 GAGGAGCTCGAGATTTCCTC-AAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTG-
131 GAGGAGCTCGAGATTTCC-CAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGA
222455 ---ATT-CCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCC-A--CCTCCCATGTTTTCCCCT
195 TTCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCT
222513 TCTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCAC
260 TCTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCAC
*
222578 TATCAGGGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCA
325 TATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCA
222643 GACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATT
390 GACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATT
* *
222708 TTCAATAAAGCTCTGGGGATCATCAGTAATTGTCTTCAGAATCTGCAGCC
455 TTCAATGAAGCTCTGGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
*
222758 ACATTCTTCTAAAGAACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
1 ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
*
222823 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTAGAAGGTTTGGGAATAGCACTACTAG
66 AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
222888 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
131 GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
222953 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
196 TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
*
223018 CTCTTCTTCTGAGTCTTCCTCAGAATCTTCTTCCTCTTCATCCTCAGATTCAACCAGTGATGCAC
261 CTCTTCTTCTGAGTC-TCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCAC
*
223083 TATCAGAGTCATCATCCTCTGACTCAGATTCAAGCTCCATATCAGATGGCTCATAACCCTGATCA
325 TATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCA
**
223148 GACTAATCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATT
390 GACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATT
223213 TTCAATGAAGCTCTGGGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
455 TTCAATGAAGCTCT-GGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
223264 A
1 A
223265 GTTCAGATTC
Statistics
Matches: 1961, Mismatches: 35, Indels: 25
0.97 0.02 0.01
Matches are distributed among these distances:
495 1 0.00
496 443 0.23
498 1 0.00
499 36 0.02
500 6 0.00
501 209 0.11
502 1 0.00
504 1040 0.53
505 188 0.10
506 36 0.02
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.31
Consensus pattern (504 bp):
ACATTCTTCTAAAGCACTAGCTGCTACTAGAATCAAGTCTAAACATTTTGGAAAATGAACTGGCA
AAGTAATTAAAAGGAATACTATCACATCTATCGGAGCTTGGAAGGTTTGGGAATAGCACTACTAG
GAGGAGCTCGAGATTTCCCAAAGGCCTTCATTTTCTTTCTCCTCCTATCCTCCTCACTATCTGAT
TCATTCCCTTTCTCCCTGTCTGCATTGCTTGCTTCCCTCTCCAACCCCTCCCATGTTTTCCCCTT
CTCTTCTTCTGAGTCTCCTCAGAATCTTATTCCTCTTCATCCTCAGATTCAACCAGTGATGCACT
ATCAGAGTCATCATCCTCTGACTCAGATTCAGGCTCCATATCAGATGGCTCATAACCCTGATCAG
ACTCCTCTTCATCCTCAGAATCTGAATCACTAGCTTCCAAGTTCAAAAATTCCCAACCCCCATTT
TCAATGAAGCTCTGGGGATCATCAGTAATTGTCTTCAGAATCTGCCGCC
Found at i:224638 original size:95 final size:95
Alignment explanation
Indices: 224527--224705 Score: 358
Period size: 95 Copynumber: 1.9 Consensus size: 95
224517 TTGGTGCTGC
224527 CTCCTTTACTCCTCCTTAGAGATGTCATGATTATCTGACCTGAGCACTGTCTTAGCCATGAAGGG
1 CTCCTTTACTCCTCCTTAGAGATGTCATGATTATCTGACCTGAGCACTGTCTTAGCCATGAAGGG
224592 GTCATAACTATTAGTTTCAGCCTTGACATT
66 GTCATAACTATTAGTTTCAGCCTTGACATT
224622 CTCCTTTACTCCTCCTTAGAGATGTCATGATTATCTGACCTGAGCACTGTCTTAGCCATGAAGGG
1 CTCCTTTACTCCTCCTTAGAGATGTCATGATTATCTGACCTGAGCACTGTCTTAGCCATGAAGGG
224687 GTCATAACTATTAGTTTCA
66 GTCATAACTATTAGTTTCA
224706 TCCTCATTCA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (95 bp):
CTCCTTTACTCCTCCTTAGAGATGTCATGATTATCTGACCTGAGCACTGTCTTAGCCATGAAGGG
GTCATAACTATTAGTTTCAGCCTTGACATT
Found at i:240786 original size:49 final size:49
Alignment explanation
Indices: 240714--240812 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
240704 CACCAACCAG
240714 AATAAATCTTGTTTACTTCTATCAGTATTATTAGTGGTAAATCTTGCTT
1 AATAAATCTTGTTTACTTCTATCAGTATTATTAGTGGTAAATCTTGCTT
240763 AATAAATCTTGTTTACTTCTATCAGTATTATTAGTGGTAAATCTTGCTT
1 AATAAATCTTGTTTACTTCTATCAGTATTATTAGTGGTAAATCTTGCTT
240812 A
1 A
240813 CTTCTATCAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (49 bp):
AATAAATCTTGTTTACTTCTATCAGTATTATTAGTGGTAAATCTTGCTT
Found at i:240814 original size:35 final size:35
Alignment explanation
Indices: 240765--240856 Score: 175
Period size: 35 Copynumber: 2.6 Consensus size: 35
240755 TCTTGCTTAA
240765 TAAATCTTGTTTACTTCTATCAGTATTATTAGTGG
1 TAAATCTTGTTTACTTCTATCAGTATTATTAGTGG
*
240800 TAAATCTTGCTTACTTCTATCAGTATTATTAGTGG
1 TAAATCTTGTTTACTTCTATCAGTATTATTAGTGG
240835 TAAATCTTGTTTACTTCTATCA
1 TAAATCTTGTTTACTTCTATCA
240857 ACATTTAGGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (35 bp):
TAAATCTTGTTTACTTCTATCAGTATTATTAGTGG
Found at i:243597 original size:4 final size:4
Alignment explanation
Indices: 243588--244166 Score: 1075
Period size: 4 Copynumber: 146.0 Consensus size: 4
243578 TTAGACCATT
243588 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC G-TGC GTGC GTGC
243637 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243685 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243733 GTGC GTGC GTGC GTGC GTTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC G-TGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243782 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GT-- GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243828 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243876 GTGC GTGC GTGC GTG- GTTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC G-TGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243924 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GT-- GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
243970 GTGC GTGC GTGC GTGC -TGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
244017 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GT-- GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
244063 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
244111 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
244159 GTGC GTGC
1 GTGC GTGC
244167 AGAAACCATG
Statistics
Matches: 564, Mismatches: 0, Indels: 22
0.96 0.00 0.04
Matches are distributed among these distances:
2 6 0.01
3 4 0.01
4 545 0.97
5 9 0.02
ACGTcount: A:0.00, C:0.25, G:0.50, T:0.26
Consensus pattern (4 bp):
GTGC
Found at i:244452 original size:4 final size:4
Alignment explanation
Indices: 244443--248385 Score: 6926
Period size: 4 Copynumber: 1003.2 Consensus size: 4
244433 ATCCATTTCC
244443 GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
244489 GTAT GTAT GTAT GTAT GTAT GTAT GTGT ATAT GTAT GTAT GT-G GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244536 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244582 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244630 GTAT GTAT GTAT GTAT GTAT GTAT GGTAT GTAT -TAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT -GTAT GTAT GTAT GTAT GTAT GTAT
*
244678 GTAT GTAT GTAT GTAG GTAT GTAT GTAT GTAT GTTAT -TAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-TAT GTAT GTAT GTAT
244726 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT -TAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244773 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244820 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244868 GTAT GTAT GTAT GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
244915 GTAT GTAT GTAT GTAAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GT-AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
244964 GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTA- GGAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245009 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-AT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245056 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245104 GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245151 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245198 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245246 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245294 GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
245341 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GATGT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-TAT GTAT GTAT
245390 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245437 GTAT GTAT GTA- GTAT GTAT GTA- GTAAT GTAT GTAT GTAT AGTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GT-AT GTAT GTAT GTAT -GTAT GTAT
245485 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT-T GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245532 GTAT GTAT GTAT GTAT GGTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT -GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245580 GTAT GTAT GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245627 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
245675 GTAT GTAT GTAT GT-T GTAT GTAG GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
245721 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAG GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245769 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245817 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
245865 GTAT GTAT GTAT GTAT GTAT GTAT GTATCT GTAT GTAT GTAT GTAT GTAG
1 GTAT GTAT GTAT GTAT GTAT GTAT GTA--T GTAT GTAT GTAT GTAT GTAT
245915 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
245962 GTAT GTAT GTAT GTAT GTA- GTAT G-AT GTAT GTAT GTA- GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246007 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT -TAT GTAT GT-T
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246053 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
246101 GTAG GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
246148 GT-T GTAT GTAT GTAT TTAT GTAT GTAT GTAT G-AT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246194 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246240 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTATT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT GTAT
246289 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246336 GTAT GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246383 GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246429 GTAT GTAT GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246474 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246522 GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246569 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246617 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246665 GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
246709 GTAT GTAT GTAT GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
246757 GTAT GTAT GTAT GT-T GT-G GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
246802 GTAT GTAT GTAT GTAT GTAT GGAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246850 GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
246897 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
246945 GTAT TTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTATT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT
246994 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247041 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247089 GTAT GTAT GTAT GTAT GTTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247137 GTAT GTAT GTAT GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
247184 GTAT GTAT GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247232 GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT-T
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
247277 GTAT GTAT GTAG GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT -TAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247324 GTAT GTAT GTA- GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247370 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GT-T GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
247416 GTAT GTAT -TAT GTAT GTCT GTAT GTAT GGTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT -GTAT GTAT GTAT GTAT GTAT
247463 GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247508 GTAT GTAT G-AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247555 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247603 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
247651 GTAT GTAT G--T GTAT GTAGT GTAT GTAT GGAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTA-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247698 GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247745 GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247792 GTAT GTAT GTAT G-AT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247838 GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
247885 GTAT GTAT GTAT GTAT GTAT GTAT GTAG GTA- GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247932 GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
247978 -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
248024 GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
248071 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTCT GTAT GTAT GT-T
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
248118 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-AT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
248165 G-AT GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-TAT GTAT GTAT
*
248212 GTAT GTAT GTAG GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
248259 GTAT GTAT AGGTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT --GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
248309 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
248357 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
248386 CATACAGAAA
Statistics
Matches: 3794, Mismatches: 43, Indels: 204
0.94 0.01 0.05
Matches are distributed among these distances:
2 22 0.01
3 187 0.05
4 3530 0.93
5 47 0.01
6 8 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:254187 original size:19 final size:19
Alignment explanation
Indices: 254152--254200 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
254142 TTTTAATAAT
*
254152 ATATAAAATAATTTATATG
1 ATATAAAATAATATATATG
254171 ATATAAAAT--TATATAT-
1 ATATAAAATAATATATATG
*
254187 ATATAATATAATAT
1 ATATAAAATAATAT
254201 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 3 0.12
19 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATAAAATAATATATATG
Found at i:254189 original size:21 final size:20
Alignment explanation
Indices: 254152--254203 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
254142 TTTTAATAAT
* *
254152 ATATAAAA-TAATTTATATG
1 ATATAAAATTAATATATATA
254171 ATATAAAATTATATATATATA
1 ATATAAAATTA-ATATATATA
*
254192 ATATAATATTAA
1 ATATAAAATTAA
254204 AAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
ATATAAAATTAATATATATA
Found at i:254217 original size:14 final size:14
Alignment explanation
Indices: 254195--254281 Score: 57
Period size: 14 Copynumber: 6.7 Consensus size: 14
254185 ATATATAATA
254195 TAATA-TTAAAAAT
1 TAATATTTAAAAAT
254208 TAATATTT---AAT
1 TAATATTTAAAAAT
*
254219 T--TATTTAAAGATT
1 TAATATTTAAA-AAT
254232 TAATA-TTAAAAA-
1 TAATATTTAAAAAT
* *
254244 TAATATCT-ATAAT
1 TAATATTTAAAAAT
*
254257 ATAATATTAAAAAAT
1 -TAATATTTAAAAAT
254272 TAATATTTAA
1 TAATATTTAA
254282 TTTATTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 21
0.65 0.10 0.25
Matches are distributed among these distances:
9 5 0.09
11 4 0.07
12 8 0.15
13 10 0.18
14 22 0.40
15 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (14 bp):
TAATATTTAAAAAT
Found at i:254255 original size:63 final size:64
Alignment explanation
Indices: 254174--254322 Score: 223
Period size: 64 Copynumber: 2.4 Consensus size: 64
254164 TTATATGATA
* * *
254174 TAAAATTATATATATATAATATAATATT-AAAAATTAATATTTAATTTATTTAAAGATTTAATAT
1 TAAAATTA-ATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
*
254238 TAAAAATAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
*
254302 TAAAATTAAAATC-A-AATATAA
1 TAAAATTAATATCTATAATATAA
254323 AACCTCTTTG
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
62 7 0.09
63 19 0.24
64 52 0.67
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:254278 original size:40 final size:37
Alignment explanation
Indices: 254195--254278 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 37
254185 ATATATAATA
* * *
254195 TAATATTAAAAATTAATATTTAATTTATTTAAAGATT
1 TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
254232 TAATATTAAAAA-TAATATCTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
254272 TAATATT
1 TAATATT
254279 TAATTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 6 0.15
37 13 0.32
38 4 0.10
39 3 0.08
40 14 0.35
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:254282 original size:26 final size:26
Alignment explanation
Indices: 254231--254310 Score: 96
Period size: 24 Copynumber: 3.2 Consensus size: 26
254221 ATTTAAAGAT
254231 TTAATATT-AAAAA-TAATATCTATAA
1 TTAATATTAAAAAATTAATAT-TATAA
254256 TATAATATTAAAAAATTAATATT-TAA
1 T-TAATATTAAAAAATTAATATTATAA
* *
254282 TTTAT-TTAAAAAATTAATATTAAAA
1 TTAATATTAAAAAATTAATATTATAA
254307 TTAA
1 TTAA
254311 AATCAAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 16 0.33
25 9 0.19
26 11 0.23
27 6 0.12
28 6 0.12
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATATTAAAAAATTAATATTATAA
Found at i:254614 original size:20 final size:20
Alignment explanation
Indices: 254589--254639 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
254579 CACGAAATGT
254589 AAGATTACCAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
*
254609 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGAGAATAA
254629 AAGATTACCAG
1 AAGATTACCAG
254640 GGAATAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:254644 original size:18 final size:18
Alignment explanation
Indices: 254589--254646 Score: 80
Period size: 20 Copynumber: 3.0 Consensus size: 18
254579 CACGAAATGT
254589 AAGATTACCAGTGAGAATAA
1 AAGATTACCAG-G-GAATAA
254609 AAGATTACCAGTGGGAATAA
1 AAGATTACCA--GGGAATAA
254629 AAGATTACCAGGGAATAA
1 AAGATTACCAGGGAATAA
254647 GATTACTGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.22
20 26 0.72
21 1 0.03
22 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.19
Consensus pattern (18 bp):
AAGATTACCAGGGAATAA
Found at i:254659 original size:15 final size:16
Alignment explanation
Indices: 254588--254652 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 16
254578 TCACGAAATG
254588 TAAGATTACCAGTGAGAA
1 TAAGATTACCAG-G-GAA
254606 TAAAAGATTACCAGTGGGAA
1 T--AAGATTACCA--GGGAA
254626 TAAAAGATTACCAGGGAA
1 T--AAGATTACCAGGGAA
254644 TAAGATTAC
1 TAAGATTAC
254653 TGGGAATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.19
18 7 0.16
20 26 0.60
21 1 0.02
22 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:255436 original size:2 final size:2
Alignment explanation
Indices: 255431--255470 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
255421 ATATACTTAG
* *
255431 AT AT AT TT AA 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
255471 TTAGTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:256359 original size:28 final size:28
Alignment explanation
Indices: 256321--256378 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
256311 AAAAAAAAAG
256321 TTGGTCATCTAATTACACCTCTAACTTT
1 TTGGTCATCTAATTACACCTCTAACTTT
* * *
256349 TTGGTTATCTAGTTACACCTTTAACTTT
1 TTGGTCATCTAATTACACCTCTAACTTT
256377 TT
1 TT
256379 TTTAGTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (28 bp):
TTGGTCATCTAATTACACCTCTAACTTT
Found at i:256808 original size:30 final size:30
Alignment explanation
Indices: 256711--256808 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
256701 TACCTAATAA
* * *
256711 CACCAAAATAGAAAAGTTGGATGCCAAATTG
1 CACCAAAA-ATAAAAGTTAGATGCCTAATTG
* * * *
256742 CACCACAAAATAAGAGTTAGCTACCTAATTA
1 CACCA-AAAATAAAAGTTAGATGCCTAATTG
256773 CACCAATAAA-AAAAGTTAGATGCCTAATTG
1 CACCAA-AAATAAAAGTTAGATGCCTAATTG
*
256803 TACCAA
1 CACCAA
256809 CGAAAATTGG
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
30 22 0.42
31 28 0.53
32 3 0.06
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (30 bp):
CACCAAAAATAAAAGTTAGATGCCTAATTG
Found at i:256979 original size:13 final size:13
Alignment explanation
Indices: 256961--257008 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
256951 AAGTATGTTT
256961 CATTATTTTAAAA
1 CATTATTTTAAAA
256974 CATTATGTTT----
1 CATTAT-TTTAAAA
256984 CATTATTTTAAAA
1 CATTATTTTAAAA
*
256997 CATTAATTTAAA
1 CATTATTTTAAA
257009 TTTTTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
9 3 0.10
10 6 0.21
13 17 0.59
14 3 0.10
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (13 bp):
CATTATTTTAAAA
Found at i:256980 original size:23 final size:23
Alignment explanation
Indices: 256954--257001 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
256944 AATTTGAAAG
256954 TATGTTTCATTATTTTAAAACAT
1 TATGTTTCATTATTTTAAAACAT
256977 TATGTTTCATTATTTTAAAACAT
1 TATGTTTCATTATTTTAAAACAT
257000 TA
1 TA
257002 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (23 bp):
TATGTTTCATTATTTTAAAACAT
Found at i:260823 original size:2 final size:2
Alignment explanation
Indices: 260816--260851 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
260806 TTTTAAAATG
260816 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
260852 AATCAAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:260841 original size:17 final size:17
Alignment explanation
Indices: 260819--260851 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
260809 TAAAATGATA
260819 TATATATATATATATAT
1 TATATATATATATATAT
260836 TATATATATATATATA
1 TATATATATATATATA
260852 AATCAAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:263225 original size:24 final size:23
Alignment explanation
Indices: 263197--263242 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
263187 TAGGGGTAAA
*
263197 CTTATAATATTTTGAAAAGATAAT
1 CTTATAAAATTTT-AAAAGATAAT
*
263221 CTTATAAAATTTTAAATGATAA
1 CTTATAAAATTTTAAAAGATAA
263243 AAATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (23 bp):
CTTATAAAATTTTAAAAGATAAT
Found at i:264024 original size:4 final size:4
Alignment explanation
Indices: 264015--264041 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
264005 TTTCTTCTCA
264015 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
264042 AGGAAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:264859 original size:21 final size:21
Alignment explanation
Indices: 264813--264859 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
264803 AAAAATAAAA
264813 ATAAAAATAAAGAAAATTTTG
1 ATAAAAATAAAGAAAATTTTG
*
264834 A-AAAAGA-AAAGAAAATTTTT
1 ATAAAA-ATAAAGAAAATTTTG
264854 ATAAAA
1 ATAAAA
264860 CCCAAAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
ATAAAAATAAAGAAAATTTTG
Found at i:266506 original size:6 final size:6
Alignment explanation
Indices: 266159--266537 Score: 698
Period size: 6 Copynumber: 64.2 Consensus size: 6
266149 GTACGTGTCC
266159 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266207 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266255 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266303 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTA- -TGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266349 GTGTAT GTGTAT GTGTAT G-G--T GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266394 GTGTAT GTGTAT GTGTA- GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266441 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
* *
266489 GTGTAT GTGTAT GTGTAT GTGCAT GTGTAT GTGTAT GTATAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
266537 G
1 G
266538 GTCAGATTCA
Statistics
Matches: 363, Mismatches: 4, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
3 2 0.01
4 5 0.01
5 6 0.02
6 350 0.96
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (6 bp):
GTGTAT
Found at i:270903 original size:22 final size:22
Alignment explanation
Indices: 270875--270920 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
270865 ATAAAATTAA
270875 AATTAAAGAATAGTAGAAGTCG
1 AATTAAAGAATAGTAGAAGTCG
*
270897 AATTAAAGTATAGTAGAAGTCG
1 AATTAAAGAATAGTAGAAGTCG
270919 AA
1 AA
270921 GGGAGAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (22 bp):
AATTAAAGAATAGTAGAAGTCG
Found at i:272577 original size:479 final size:476
Alignment explanation
Indices: 271683--272637 Score: 1874
Period size: 479 Copynumber: 2.0 Consensus size: 476
271673 AAAAATTTAC
271683 CAAAATTCTATTGAAGAATATACACAACAATATATCAGTCGAACATGTATGCATGGATGGCACAA
1 CAAAATTCTATTGAAGAATATACACAACAATATATCAGTCGAACATGTATGCATGGATGGCACAA
271748 TGGGTGTTCTGGTACGAATGAACTGGCCCATTTCGTCAATTCACATATTTGACTTCTTGAGCACA
66 TGGGTGTTCTGGTACGAATGAACTGGCCCATTTCGTCAATTCACATATTTGACTTCTTGAGCACA
271813 TTAATAGCCCATGTGCCGTTGTTTTTTTTTTAATAAAATAACAATAGACCCAGGGTAAAGTATAC
131 TTAATAGCCCATGTGCCGTTGTTTTTTTTTTAATAAAATAACAATAGACCCAGGGTAAAGTATAC
271878 AAATGTACATATGCTATTTTGTTAAGACTATCGACTATTAAATTATAAATGATCATTTGATTATA
196 AAATGTACATATGCTATTTTGTTAAGACTATCGACTATTAAATTATAAATGATCATTTGATTATA
271943 GAGTGTTATTTAGTGAGTCCCCCAATTTTTAAAAGTTTTAAAAATTATTACTCGACCATTTATAT
261 GAGTGTTATTTAGTGAGTCCCCCAATTTTTAAAAGTTTTAAAAATTATTACTCGACCATTTATAT
272008 ATTCCAAATTATTCTTTCTTCGTTAAAAATTGACAATAGTTTGAGGTTAATTCTTTATTGGTTTC
326 ATTCCAAATTATTCTTTCTTCGTTAAAAATTGACAATAGTTTGAGGTTAATTCTTTATTGGTTTC
*
272073 ATGTATCTTAGATGACTATCCAGCTCAGTTGGTAGAGCACAAGGTTCTTAACATTTAGGTCGTGG
391 ATGTATCTTAGATGACTATCCAGCTCAGTTGGTAGAGCACAAGGTTCTTAACATTGAGGTCGTGG
272138 GATCGAGTCTCACGGAGGGCA
456 GATCGAGTCTCACGGAGGGCA
272159 CAAAATTCTATTGAAGAATATACACAACAATATATCAGTCGAACATGTATGCATGGATGGCACAA
1 CAAAATTCTATTGAAGAATATACACAACAATATATCAGTCGAACATGTATGCATGGATGGCACAA
272224 TGGGTGTTCTGGTACGAATGAACTGGCCCATTTCGTCAATTCACATATTTGACTTCTTGAGCACA
66 TGGGTGTTCTGGTACGAATGAACTGGCCCATTTCGTCAATTCACATATTTGACTTCTTGAGCACA
272289 TTAATAGCCCATGTGCCGTTGTTTTTTTTTTTAATAAAATAACAATAGACCCAGGGTAAAGTATA
131 TTAATAGCCCATGTGCCGTTG-TTTTTTTTTTAATAAAATAACAATAGACCCAGGGTAAAGTATA
272354 CAAATGTACATATGCTATTTTGTTAAGACTATCGACTATTAAAATTATAAAATGATCATTTGATT
195 CAAATGTACATATGCTATTTTGTTAAGACTATCGACTATT-AAATTAT-AAATGATCATTTGATT
272419 ATAGAGTGTTATTTAGTGAGTCCCCCAATTTTTAAAAGTTTTAAAAATTATTACTCGACCATTTA
258 ATAGAGTGTTATTTAGTGAGTCCCCCAATTTTTAAAAGTTTTAAAAATTATTACTCGACCATTTA
272484 TATATTCCAAATTATTCTTTCTTCGTTAAAAATTGACAATAGTTTGAGGTTAATTCTTTATTGGT
323 TATATTCCAAATTATTCTTTCTTCGTTAAAAATTGACAATAGTTTGAGGTTAATTCTTTATTGGT
272549 TTCATGTATCTTAGATGACTATCCAGCTCAGTTGGTAGAGCACAAGGTTCTTAACATTGAGGTCG
388 TTCATGTATCTTAGATGACTATCCAGCTCAGTTGGTAGAGCACAAGGTTCTTAACATTGAGGTCG
272614 TGGGATCGAGTCTCACGGAGGGCA
453 TGGGATCGAGTCTCACGGAGGGCA
272638 TTTCATAATT
Statistics
Matches: 475, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
476 151 0.32
477 83 0.17
478 7 0.01
479 234 0.49
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (476 bp):
CAAAATTCTATTGAAGAATATACACAACAATATATCAGTCGAACATGTATGCATGGATGGCACAA
TGGGTGTTCTGGTACGAATGAACTGGCCCATTTCGTCAATTCACATATTTGACTTCTTGAGCACA
TTAATAGCCCATGTGCCGTTGTTTTTTTTTTAATAAAATAACAATAGACCCAGGGTAAAGTATAC
AAATGTACATATGCTATTTTGTTAAGACTATCGACTATTAAATTATAAATGATCATTTGATTATA
GAGTGTTATTTAGTGAGTCCCCCAATTTTTAAAAGTTTTAAAAATTATTACTCGACCATTTATAT
ATTCCAAATTATTCTTTCTTCGTTAAAAATTGACAATAGTTTGAGGTTAATTCTTTATTGGTTTC
ATGTATCTTAGATGACTATCCAGCTCAGTTGGTAGAGCACAAGGTTCTTAACATTGAGGTCGTGG
GATCGAGTCTCACGGAGGGCA
Found at i:276441 original size:20 final size:20
Alignment explanation
Indices: 276416--276464 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
276406 TTAAGTTATT
276416 GGTTTAATTCCAATTTTGTA
1 GGTTTAATTCCAATTTTGTA
276436 GGTTTAATTCCAATTTTGTA
1 GGTTTAATTCCAATTTTGTA
*
276456 AGTTTAATT
1 GGTTTAATT
276465 TTACATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (20 bp):
GGTTTAATTCCAATTTTGTA
Found at i:276854 original size:14 final size:14
Alignment explanation
Indices: 276837--276877 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
276827 GTAATTTAGG
276837 GTTTAGGATTTATA
1 GTTTAGGATTTATA
* *
276851 GTTTAAGATTTGTA
1 GTTTAGGATTTATA
*
276865 GTTTAGGGTTTAT
1 GTTTAGGATTTAT
276878 TACAAGGACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (14 bp):
GTTTAGGATTTATA
Found at i:278481 original size:17 final size:18
Alignment explanation
Indices: 278458--278500 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
278448 ATCAAATTTT
*
278458 TAATTAAAAAAATTTAAA
1 TAATTAAAAAAATATAAA
*
278476 -AATTAAAAACATATAAA
1 TAATTAAAAAAATATAAA
278493 TAATTAAA
1 TAATTAAA
278501 TAATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATTAAAAAAATATAAA
Found at i:280758 original size:21 final size:21
Alignment explanation
Indices: 280732--280777 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
280722 TCCACGTCTG
280732 GTTCTTTTGCGGTAGACACAA
1 GTTCTTTTGCGGTAGACACAA
280753 GTTCTTTTGCGGTAGACACAA
1 GTTCTTTTGCGGTAGACACAA
280774 GTTC
1 GTTC
280778 AAATGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
GTTCTTTTGCGGTAGACACAA
Found at i:282509 original size:20 final size:21
Alignment explanation
Indices: 282464--282509 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
282454 TACAAGAAAA
282464 AAATCGGCATAAGAACAAGTAAGG
1 AAATCGGCATAAGAAC-A--AAGG
282488 AAATCGGCATAAGAAC-AAGG
1 AAATCGGCATAAGAACAAAGG
282508 AA
1 AA
282510 GACAGACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
24 16 0.73
ACGTcount: A:0.52, C:0.13, G:0.24, T:0.11
Consensus pattern (21 bp):
AAATCGGCATAAGAACAAAGG
Found at i:282671 original size:15 final size:15
Alignment explanation
Indices: 282651--282687 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
282641 CAACTGTTGA
282651 AAGAAGGGTCACTTG
1 AAGAAGGGTCACTTG
282666 AAGAAGGGTCACTTG
1 AAGAAGGGTCACTTG
282681 AAGAAGG
1 AAGAAGG
282688 ATTGTTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.35, T:0.16
Consensus pattern (15 bp):
AAGAAGGGTCACTTG
Found at i:287309 original size:7 final size:7
Alignment explanation
Indices: 287297--287365 Score: 129
Period size: 7 Copynumber: 9.9 Consensus size: 7
287287 AGAGAGAAGT
287297 GATGCAA
1 GATGCAA
287304 GATGCAA
1 GATGCAA
287311 GATGCAA
1 GATGCAA
287318 GATGCAA
1 GATGCAA
287325 GATGCAA
1 GATGCAA
287332 GATGCAA
1 GATGCAA
287339 GATGCAA
1 GATGCAA
287346 GATGCAA
1 GATGCAA
287353 GATGCAA
1 GATGCAA
*
287360 AATGCA
1 GATGCA
287366 GGGGACACCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.43, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
GATGCAA
Found at i:298312 original size:2 final size:2
Alignment explanation
Indices: 298307--298357 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
298297 CTATAGCATG
298307 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
298349 AT AT AT AT A
1 AT AT AT AT A
298358 AACTCACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:299054 original size:57 final size:57
Alignment explanation
Indices: 298982--299093 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
298972 TCGTTTGATA
*
298982 AAACGATTGTGTGCCAGTCGCATTCCAGTGACTGTTCTTCCACTTTCCATGGTTAGC
1 AAACGATTGTATGCCAGTCGCATTCCAGTGACTGTTCTTCCACTTTCCATGGTTAGC
299039 AAACGATTGTATGCCAGTCGCATTCCAGTGACTGTTCTTCCACTTTCCATGGTTA
1 AAACGATTGTATGCCAGTCGCATTCCAGTGACTGTTCTTCCACTTTCCATGGTTA
299094 TTCTCCTCCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (57 bp):
AAACGATTGTATGCCAGTCGCATTCCAGTGACTGTTCTTCCACTTTCCATGGTTAGC
Found at i:309717 original size:16 final size:16
Alignment explanation
Indices: 309696--309730 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
309686 ATTCCACATT
*
309696 CCCCGAACCAAACAGC
1 CCCCGAACCAAACAAC
309712 CCCCGAACCAAACAAC
1 CCCCGAACCAAACAAC
309728 CCC
1 CCC
309731 TCAAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.54, G:0.09, T:0.00
Consensus pattern (16 bp):
CCCCGAACCAAACAAC
Found at i:315758 original size:15 final size:16
Alignment explanation
Indices: 315726--315767 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
315716 AGAGCCTCTT
315726 AATCATTCAGACTGTTA
1 AATCATTCAGA-TGTTA
315743 AATCATTCAG-TGTTA
1 AATCATTCAGATGTTA
*
315758 AACCATTCAG
1 AATCATTCAG
315768 CTTTAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
17 10 0.42
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (16 bp):
AATCATTCAGATGTTA
Found at i:315773 original size:15 final size:16
Alignment explanation
Indices: 315729--315773 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
315719 GCCTCTTAAT
*
315729 CATTCAGACTGTTAAAT
1 CATTCAG-CTGTTAAAC
315746 CATTCAG-TGTTAAAC
1 CATTCAGCTGTTAAAC
315761 CATTCAGCT-TTAA
1 CATTCAGCTGTTAA
315774 CAAACAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 18 0.69
16 1 0.04
17 7 0.27
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (16 bp):
CATTCAGCTGTTAAAC
Found at i:319498 original size:663 final size:664
Alignment explanation
Indices: 318000--319990 Score: 3538
Period size: 663 Copynumber: 3.0 Consensus size: 664
317990 TAGGTATTCT
* * *
318000 AGATTAGAAGCGCATCATTTCCACAACTCGTATGAGGTATAGTTTAATTTCTTATGAGGAACTCT
1 AGATTATAAGCGTATCATTTCCACAACTCGTATGAGGTATAGTCTAATTTCTTATGAGGAACTCT
318065 ATTCAAGATATGATTTGTCAATAGAATGGTTTCCCTCACATGTTATCAGATAACTCATAACTTAT
66 ATTCAAGATATGATTTGTCAATAGAATGGTTTCCCTCACATGTTATCAGATAACTCATAACTTAT
*
318130 CAATAATGAAAGTCATCATCTCTTTTAAAGTTTTATTTTTCCTTTCAACTATATCGTTTTGTTAA
131 CAATAATGAAAGTCATCATCTCTTTTAAAGTTTTATTTTTCCTTTCAGCTATATCGTTTTGTTAA
*
318195 GGAAAATAAGAGACTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
196 GGAAAATAAGGGACTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
* * *
318260 AGATCCATATTCACCACCTCTATCATATCTAACCCGTTTAATTTTCCTATCTAACTTATTCTTAA
261 AGATCCATATTCACCACCTCTATCAGATCTAACCCGTTTAATTTTCCTATCTAACTGATTCTCAA
* *
318325 CTTCTACCTTATAAGAAAGAAGCTTTTAGCCTCATCATTAGTTATAAATAGATAAACTTTTGTGT
326 CTTCTACCTTATAAGAAAGAAGCTTTTAGCCTCATCTTTAGTTATAAAGAGATAAACTTTTGTGT
318390 ATCTTGAATAATCATATACAAAAGTTATATAACAATGTTTT-TTCCTTTACTTTCAGTGTTTCTA
391 ATCTTGAATAATCATATACAAAAGTTATATAACAATGTTTTCTTCCTTTACTTTCAGTGTTTCTA
*
318454 AAGTCTGCTAGATCAGAATGGATGAGTTCTAACAATTCAGTCTTTCTATTAGAAATAATCTTAAA
456 AAGTCTGCTAGATCAGTATGGATGAGTTCTAACAATTCAGTCTTTCTATTAGAAATAATCTTAAA
*
318519 GTGAGGTTTAGCATGCTTGGCTTCTACAAAAATTTCACATTTGTTAAAGCTAGTTATTCCTAGTT
521 GTGAGGTTTAGCATGCTTGGCTTCTACACAAATTTCACATTTGTTAAAGCTAGTTATTCCTAGTT
* *
318584 TAAGCAGAACATTCATATTCATCAAATTCTTTAAAGTATGAATATTTGCATGCCCTAATCTAGCA
586 TAGGCAGAACATTCATATTCATCAAATTCTTTAAAGTATGAATATTTACATGCCCTAATCTAGCA
318649 TGCCACATATCAAC
651 TGCCACATATCAAC
318663 AGATTATAAGCGTATCATTTCCACAACTCGTATGAGGTATAGTCTAATTTCTTATGAGGAACTCT
1 AGATTATAAGCGTATCATTTCCACAACTCGTATGAGGTATAGTCTAATTTCTTATGAGGAACTCT
*
318728 ATTCAAGATATAATTTGTCAATAGAATGGTTTCCCTCACATGTTATCAGATAACTCATAACTTAT
66 ATTCAAGATATGATTTGTCAATAGAATGGTTTCCCTCACATGTTATCAGATAACTCATAACTTAT
318793 CAATAATGAAAGTCATCATCTCTTTTAAAGTTTTATTTTTCCTTTCAGCTATATCGTTTTGTTAA
131 CAATAATGAAAGTCATCATCTCTTTTAAAGTTTTATTTTTCCTTTCAGCTATATCGTTTTGTTAA
318858 GGAAAATAAGGGACTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
196 GGAAAATAAGGGACTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
* *
318923 AGATCAATATTCACCACCTCTATTAGATCTAACCCGTTTAATTTTCCTATCTAACTGATTCTCAA
261 AGATCCATATTCACCACCTCTATCAGATCTAACCCGTTTAATTTTCCTATCTAACTGATTCTCAA
*
318988 CTTCTACCTTATAAGAAAGAAGCTTTTAGTCTCATCTTTAGTTATAAAGAGATAAACTTTTGTGT
326 CTTCTACCTTATAAGAAAGAAGCTTTTAGCCTCATCTTTAGTTATAAAGAGATAAACTTTTGTGT
*
319053 ATCTTGAATGATCATATACAAAAGTTATATAACAATGTTTTCTTCCTTTACTTTCAGTGTTTCTA
391 ATCTTGAATAATCATATACAAAAGTTATATAACAATGTTTTCTTCCTTTACTTTCAGTGTTTCTA
319118 AAGTCTGCTAGATCAGTATGGATGAGTTCTAACAATTCAGTCTTTCTATTAGAAATAATCTTAAA
456 AAGTCTGCTAGATCAGTATGGATGAGTTCTAACAATTCAGTCTTTCTATTAGAAATAATCTTAAA
319183 GTGAGGTTTAGCATGCTTGGCTTCTACACAAATTTCACATTTGTTAAAGCTAGTTATTCCTAGTT
521 GTGAGGTTTAGCATGCTTGGCTTCTACACAAATTTCACATTTGTTAAAGCTAGTTATTCCTAGTT
*
319248 TAGGCAGAACATTCATATTCATCAAATTCTTTAAAGTATGAATATTTACATGCTCTAATCTAGCA
586 TAGGCAGAACATTCATATTCATCAAATTCTTTAAAGTATGAATATTTACATGCCCTAATCTAGCA
319313 TGCCACATATCAAC
651 TGCCACATATCAAC
*
319327 AGATTATAAGCGTATCATTTCCATAACTCGTATGAGGTATAGTCTAATTTCTTATGAGGAACTCT
1 AGATTATAAGCGTATCATTTCCACAACTCGTATGAGGTATAGTCTAATTTCTTATGAGGAACTCT
* * * * * *
319392 GTTCAATATATGATTTGCCAATAGAATGGTTTTCCTCACATATTATCAGATAACTTATAACTTAT
66 ATTCAAGATATGATTTGTCAATAGAATGGTTTCCCTCACATGTTATCAGATAACTCATAACTTAT
* * *
319457 TAATAATGAAAGTCATCATCTATTTTAAAGTTTTA-TTTTCCTTTCAGCTATACCGTTTTGTTAA
131 CAATAATGAAAGTCATCATCTCTTTTAAAGTTTTATTTTTCCTTTCAGCTATATCGTTTTGTTAA
**
319521 GGAAAATAAGGGGTTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
196 GGAAAATAAGGGACTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
* * * *
319586 AGATCCATATTCACCGCCTCTATCAGATCTAACCTGTTTAATTCTCTTATCTAACTGATTCTCAA
261 AGATCCATATTCACCACCTCTATCAGATCTAACCCGTTTAATTTTCCTATCTAACTGATTCTCAA
*
319651 CTTCTGCCTTATAAGAAAGAAG-TTTTCAGCCTCATCTTTAGTTATAAAGAGATAAACTTTTGTG
326 CTTCTACCTTATAAGAAAGAAGCTTTT-AGCCTCATCTTTAGTTATAAAGAGATAAACTTTTGTG
* * *
319715 TATCTTGAATAATCACATACAAAAGTTATATAACAGTGTTTTCCTCCTTTACTTTCAGTGTTTCT
390 TATCTTGAATAATCATATACAAAAGTTATATAACAATGTTTTCTTCCTTTACTTTCAGTGTTTCT
* *
319780 AAAGTCTGCTAGATCAGTATGGATGAGCTCTAACAATTCAGTCTTTTTATTAGAAATAATCTTAA
455 AAAGTCTGCTAGATCAGTATGGATGAGTTCTAACAATTCAGTCTTTCTATTAGAAATAATCTTAA
* *
319845 AGTGAGGTTTAGCATGCTTGGTTTCTACACAAATTTCACATTTGTTAAAGCTAGTTATGCCTAGT
520 AGTGAGGTTTAGCATGCTTGGCTTCTACACAAATTTCACATTTGTTAAAGCTAGTTATTCCTAGT
* *
319910 TTAGGCAGAACATTCATATTCATCAATTTCTTTAAAGTATAAATATTTACATGCCCTAATCTAGC
585 TTAGGCAGAACATTCATATTCATCAAATTCTTTAAAGTATGAATATTTACATGCCCTAATCTAGC
319975 ATGCCACATATCAAC
650 ATGCCACATATCAAC
319990 A
1 A
319991 TATTCAACAA
Statistics
Matches: 1274, Mismatches: 52, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
662 4 0.00
663 888 0.70
664 382 0.30
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (664 bp):
AGATTATAAGCGTATCATTTCCACAACTCGTATGAGGTATAGTCTAATTTCTTATGAGGAACTCT
ATTCAAGATATGATTTGTCAATAGAATGGTTTCCCTCACATGTTATCAGATAACTCATAACTTAT
CAATAATGAAAGTCATCATCTCTTTTAAAGTTTTATTTTTCCTTTCAGCTATATCGTTTTGTTAA
GGAAAATAAGGGACTGAAGTTTCATGAATTATGTCATTCTTCTCACAAACCTCTTTTAAGAAATT
AGATCCATATTCACCACCTCTATCAGATCTAACCCGTTTAATTTTCCTATCTAACTGATTCTCAA
CTTCTACCTTATAAGAAAGAAGCTTTTAGCCTCATCTTTAGTTATAAAGAGATAAACTTTTGTGT
ATCTTGAATAATCATATACAAAAGTTATATAACAATGTTTTCTTCCTTTACTTTCAGTGTTTCTA
AAGTCTGCTAGATCAGTATGGATGAGTTCTAACAATTCAGTCTTTCTATTAGAAATAATCTTAAA
GTGAGGTTTAGCATGCTTGGCTTCTACACAAATTTCACATTTGTTAAAGCTAGTTATTCCTAGTT
TAGGCAGAACATTCATATTCATCAAATTCTTTAAAGTATGAATATTTACATGCCCTAATCTAGCA
TGCCACATATCAAC
Found at i:324613 original size:4 final size:4
Alignment explanation
Indices: 324604--324641 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
324594 TTATTGGTAA
*
324604 TTAT TTAT TTAT TTAT TTAT TTAT GTT-T TTCT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TT
324642 CCTCATCTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 2 0.06
4 27 0.87
5 2 0.06
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:325148 original size:12 final size:12
Alignment explanation
Indices: 325116--325152 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
325106 TGTGTTTAGT
*
325116 TTATGATTTTAA
1 TTATAATTTTAA
325128 TTATAAATTTTAA
1 TTAT-AATTTTAA
325141 TTATAATTTTAA
1 TTATAATTTTAA
325153 ATATTTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TTATAATTTTAA
Found at i:332208 original size:2 final size:2
Alignment explanation
Indices: 332201--332279 Score: 85
Period size: 2 Copynumber: 40.5 Consensus size: 2
332191 CTTATTTTTA
* * *
332201 AT AT AT AT AT AT AT AT AT AT AT ACT -T TT CA- AT A- AA AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT
332242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
332280 AAATTTAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
1 4 0.06
2 62 0.93
3 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:337024 original size:35 final size:35
Alignment explanation
Indices: 336985--337054 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
336975 TGGAAAGTTA
* * * *
336985 TTATTGCTTCATTTCATGGAGTTTCTTTGAATTTT
1 TTATTGCCTCATTTCATGAAATTGCTTTGAATTTT
337020 TTATTGCCTCATTTCATGAAATTGCTTTGAATTTT
1 TTATTGCCTCATTTCATGAAATTGCTTTGAATTTT
337055 GTCTTTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.54
Consensus pattern (35 bp):
TTATTGCCTCATTTCATGAAATTGCTTTGAATTTT
Found at i:341378 original size:19 final size:20
Alignment explanation
Indices: 341356--341401 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
341346 ATAAAAAAAG
341356 TCAAAGAAGAAAAAAG-AAA
1 TCAAAGAAGAAAAAAGTAAA
*
341375 TCAAA-AGGGAAAAAAGTAAA
1 TCAAAGA-AGAAAAAAGTAAA
341395 T-AAAGAA
1 TCAAAGAA
341402 AAAGTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.70, C:0.04, G:0.17, T:0.09
Consensus pattern (20 bp):
TCAAAGAAGAAAAAAGTAAA
Found at i:341511 original size:20 final size:20
Alignment explanation
Indices: 341458--341521 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
341448 AGAAACAAAA
* *
341458 AAATACAATTTAATAAAAAAG
1 AAATA-AATTAAATAATAAAG
*
341479 -AAT-AATAATAATAATAAAG
1 AAATAAATTA-AATAATAAAG
* *
341498 AAATAAATTAAATATTAAAA
1 AAATAAATTAAATAATAAAG
341518 AAAT
1 AAAT
341522 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 18 0.53
21 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (20 bp):
AAATAAATTAAATAATAAAG
Found at i:342784 original size:25 final size:27
Alignment explanation
Indices: 342737--342787 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
342727 AATATATATA
342737 TATATATATAAATATTTTCCAAAAGTC
1 TATATATATAAATATTTTCCAAAAGTC
*
342764 TATATA-ATATATATTTT-CAAAAGT
1 TATATATATAAATATTTTCCAAAAGT
342788 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 10 0.43
27 6 0.26
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (27 bp):
TATATATATAAATATTTTCCAAAAGTC
Found at i:342804 original size:36 final size:35
Alignment explanation
Indices: 342746--343090 Score: 159
Period size: 36 Copynumber: 9.7 Consensus size: 35
342736 ATATATATAT
* *
342746 AAATATTTTCCAAAAGTCTATATAATATATATTTTCA
1 AAATATTTT--AAAATTATATATAATATATATTTTCA
*
342783 AAAGTATTTTAAAATTATATAT--TATATATTTTTA
1 AAA-TATTTTAAAATTATATATAATATATATTTTCA
* ** *
342817 AAAAATGTTTTCAA--A-AT-T-ATATA-GTTTTCAA
1 AAATAT-TTTAAAATTATATATAATATATATTTTC-A
*
342848 AAATATTTTTAAAACTATATACT-ATATA-ATTTTTCA
1 AAATA-TTTTAAAATTATATA-TAATATATA-TTTTCA
* *
342884 AAATGATTTCAAAATTATATAATATATATATGTTTTCA
1 AAAT-ATTTTAAAATTATAT-ATA-ATATATATTTTCA
* * *
342922 AAATATTTT---TTTA-AAACT-ATATATATTTACA
1 AAATATTTTAAAATTATATA-TAATATATATTTTCA
* * * *
342953 AAATGTTTAAAAAAAACTATATAATATATATATTTTTTCAA
1 AAATATTT---TAAAATTATAT-ATA-ATATATATTTTC-A
* * * * *
342994 AAATGTTTTAAAAAATATATATTATATTTATTTTTA
1 AAATATTTT-AAAATTATATATAATATATATTTTCA
343030 AAATATTTTAAAAATTATATATAA-ATAT-TTTT-A
1 AAATATTTT-AAAATTATATATAATATATATTTTCA
*
343063 AACATATTTTCAAAATTATATATTATAT
1 AA-ATATTTT-AAAATTATATATAATAT
343091 GTGTGTTTTT
Statistics
Matches: 238, Mismatches: 39, Indels: 64
0.70 0.11 0.19
Matches are distributed among these distances:
30 5 0.02
31 34 0.14
32 3 0.01
33 8 0.03
34 48 0.20
35 5 0.02
36 56 0.24
37 25 0.11
38 25 0.11
39 10 0.04
40 10 0.04
41 9 0.04
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (35 bp):
AAATATTTTAAAATTATATATAATATATATTTTCA
Found at i:342836 original size:29 final size:29
Alignment explanation
Indices: 342803--342868 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
342793 AAAATTATAT
* *
342803 ATTATATATTTTTAAAAAATGTTTTCAAA
1 ATTATATAGTTTTAAAAAATATTTTCAAA
* *
342832 ATTATATAGTTTTCAAAAATATTTTTAAA
1 ATTATATAGTTTTAAAAAATATTTTCAAA
*
342861 ACTATATA
1 ATTATATA
342869 CTATATAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTATATAGTTTTAAAAAATATTTTCAAA
Found at i:342867 original size:65 final size:63
Alignment explanation
Indices: 342771--342904 Score: 189
Period size: 65 Copynumber: 2.1 Consensus size: 63
342761 GTCTATATAA
* * * *
342771 TATATATTTTCAAAAGTATTTTAAAATTATATATTATAT-ATTTTTAAAAAATGTTTTCAAAAT
1 TATATATTTTCAAAAATATTTTAAAACTATATACTATATAATTTTT-AAAAATGATTTCAAAAT
*
342834 TATATAGTTTTCAAAAATATTTTTAAAACTATATACTATATAATTTTTCAAAATGATTTCAAAAT
1 TATATA-TTTTCAAAAATA-TTTTAAAACTATATACTATATAATTTTTAAAAATGATTTCAAAAT
342899 TATATA
1 TATATA
342905 ATATATATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
63 6 0.10
64 11 0.17
65 40 0.63
66 6 0.10
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (63 bp):
TATATATTTTCAAAAATATTTTAAAACTATATACTATATAATTTTTAAAAATGATTTCAAAAT
Found at i:343015 original size:41 final size:38
Alignment explanation
Indices: 342939--343135 Score: 131
Period size: 41 Copynumber: 5.2 Consensus size: 38
342929 TTTTTAAAAC
* * *
342939 TATATA-TATTTACAAAATGTTTAAAAAAAACTATATAATA
1 TATATATTTTTTA-AAAATGTTTTAAAAATA-TATAT-ATA
342979 TATATATTTTTTCAAAAATGTTTTAAAAA-ATATATAT-
1 TATATATTTTTT-AAAAATGTTTTAAAAATATATATATA
* *
343016 TATAT-TTATTTTTAAAATATTTTAAAAAT-TATATATA
1 TATATATT-TTTTAAAAATGTTTTAAAAATATATATATA
* * *
343053 -A-ATA-TTTTTAAACATATTTTCAAAATTATATATTATA
1 TATATATTTTTTAAAAATGTTTT-AAAAATATATA-TATA
* * * * * *
343090 TGTGTGTTTTTTTAAAAATGTTTTCAAACTATATACAATA
1 TATAT-ATTTTTTAAAAATGTTTTAAAAATATATA-TATA
343130 TATATA
1 TATATA
343136 AAAAATAAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 27
0.73 0.11 0.16
Matches are distributed among these distances:
34 13 0.10
35 8 0.06
36 28 0.22
37 13 0.10
38 2 0.02
39 6 0.05
40 22 0.18
41 32 0.26
42 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (38 bp):
TATATATTTTTTAAAAATGTTTTAAAAATATATATATA
Found at i:343038 original size:11 final size:11
Alignment explanation
Indices: 343022--343078 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 11
343012 ATATTATATT
343022 TATTTTTAAAA
1 TATTTTTAAAA
343033 TA-TTTTAAAA
1 TATTTTTAAAA
*
343043 -ATTATATATAAA
1 TATT-TTTA-AAA
343055 TATTTTTAAACA
1 TATTTTTAAA-A
*
343067 TATTTTCAAAA
1 TATTTTTAAAA
343078 T
1 T
343079 TATATATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 1 0.03
10 9 0.24
11 9 0.24
12 16 0.42
13 3 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:343147 original size:5 final size:5
Alignment explanation
Indices: 343137--343169 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
343127 ATATATATAA
343137 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AA
343170 TTTCGGGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:343655 original size:2 final size:2
Alignment explanation
Indices: 343648--343680 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
343638 CGCTGGTACA
343648 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
343681 TGAAAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:344254 original size:20 final size:20
Alignment explanation
Indices: 344216--344259 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
344206 ATCCTCATCT
*
344216 TTAAAAATTTAACTGAAAAC
1 TTAAAAATTTAACAGAAAAC
344236 TTAAAAATTTAA-AGAAAAAC
1 TTAAAAATTTAACAG-AAAAC
344256 TTAA
1 TTAA
344260 CGGCACTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (20 bp):
TTAAAAATTTAACAGAAAAC
Found at i:356952 original size:14 final size:14
Alignment explanation
Indices: 356935--356964 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
356925 AAATTTAAAA
356935 AAGGGAAAAACAAG
1 AAGGGAAAAACAAG
356949 AAGGGAAAAACAAG
1 AAGGGAAAAACAAG
356963 AA
1 AA
356965 AATTATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.27, T:0.00
Consensus pattern (14 bp):
AAGGGAAAAACAAG
Found at i:357118 original size:36 final size:38
Alignment explanation
Indices: 357078--357149 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
357068 TAAACCTCAA
*
357078 TAAATAAATAA-AAT-AAGATAAAAAAATA-ATAAGAGG
1 TAAAT-AATAATAATAAAAATAAAAAAATACATAAGAGG
*
357114 TAAATAATAATAATAAAAATAAAAATATACATAAGA
1 TAAATAATAATAATAAAAATAAAAAAATACATAAGA
357150 AATGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 5 0.16
36 8 0.26
37 12 0.39
38 6 0.19
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.22
Consensus pattern (38 bp):
TAAATAATAATAATAAAAATAAAAAAATACATAAGAGG
Found at i:357124 original size:17 final size:15
Alignment explanation
Indices: 357076--357140 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
357066 AATAAACCTC
357076 AATAA-ATAAATAA-
1 AATAAGATAAATAAT
*
357089 AATAAGATAAAAAAAT
1 AATAAGAT-AAATAAT
357105 AATAAGAGGTAAATAAT
1 AATAAGA--TAAATAAT
* * *
357122 AATAATAAAAATAAA
1 AATAAGATAAATAAT
357137 AATA
1 AATA
357141 TACATAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.12
14 2 0.05
15 15 0.36
16 7 0.17
17 12 0.29
18 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (15 bp):
AATAAGATAAATAAT
Found at i:357179 original size:23 final size:21
Alignment explanation
Indices: 357132--357187 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
357122 AATAATAAAA
357132 ATAAAAATATACATAAGAAATG
1 ATAAAAA-ATACATAAGAAATG
* *
357154 ATAAAAAATATATACGAAATTGG
1 ATAAAAAATACATAAGAAA-T-G
357177 ATATAAAAATA
1 ATA-AAAAATA
357188 AATGAAAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 10 0.34
22 8 0.28
23 4 0.14
24 7 0.24
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (21 bp):
ATAAAAAATACATAAGAAATG
Found at i:358126 original size:19 final size:19
Alignment explanation
Indices: 358098--358134 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
358088 ACTGATGCGT
*
358098 GTAACTAGATCCGATCCGG
1 GTAACCAGATCCGATCCGG
358117 GTAACCAGATCCGATCCG
1 GTAACCAGATCCGATCCG
358135 AGGTGTCACA
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:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (19 bp):
GTAACCAGATCCGATCCGG
Found at i:358870 original size:12 final size:12
Alignment explanation
Indices: 358845--358914 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
358835 ACGGAGATAT
* *
358845 CAGAAATCAAAA
1 CAGAATTCAGAA
358857 CAGAATTCAGAA
1 CAGAATTCAGAA
358869 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
358881 CAGAATCCAGAC
1 CAGAATTCAGAA
* *
358893 CAGAAATCAGAT
1 CAGAATTCAGAA
358905 CAGAATTCAG
1 CAGAATTCAG
358915 GTCATGTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:358872 original size:24 final size:24
Alignment explanation
Indices: 358845--358914 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
358835 ACGGAGATAT
*
358845 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * *
358869 CAGATATCAGAACAGAATCCAGAC
1 CAGAAATCAGAACAGAATTCAGAA
*
358893 CAGAAATCAGATCAGAATTCAG
1 CAGAAATCAGAACAGAATTCAG
358915 GTCATGTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:362864 original size:3 final size:3
Alignment explanation
Indices: 362856--362902 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
362846 AATAAAAAGG
*
362856 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
362902 A
1 A
362903 TATATATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:362965 original size:25 final size:26
Alignment explanation
Indices: 362931--362989 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
362921 CAAAAACCAT
*
362931 ATATAAATGTTTTCAAAAC-TATATA
1 ATATATATGTTTTCAAAACTTATATA
362956 ATATATATGTTTTCAAAACTTATATA
1 ATATATATGTTTTCAAAACTTATATA
*
362982 TTATATAT
1 ATATATAT
362990 ATTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (26 bp):
ATATATATGTTTTCAAAACTTATATA
Found at i:362997 original size:24 final size:25
Alignment explanation
Indices: 362931--362998 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
362921 CAAAAACCAT
* *
362931 ATATAAATGTTTTCAAAACTATATA
1 ATATATATGATTTCAAAACTATATA
*
362956 ATATATATGTTTTCAAAACTTATATA
1 ATATATATGATTTCAAAAC-TATATA
* *
362982 TTATATAT-ATTTAAAAA
1 ATATATATGATTTCAAAA
362999 AAATTCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 25 0.66
26 13 0.34
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (25 bp):
ATATATATGATTTCAAAACTATATA
Found at i:362999 original size:26 final size:25
Alignment explanation
Indices: 362945--362999 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
362935 AAATGTTTTC
* **
362945 AAAACTATATAATATATATGTTTTC
1 AAAACTATATAATATATATATTTAA
*
362970 AAAACTTATATATTATATATATTTAA
1 AAAAC-TATATAATATATATATTTAA
362996 AAAA
1 AAAA
363000 AATTCAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAACTATATAATATATATATTTAA
Found at i:363126 original size:37 final size:38
Alignment explanation
Indices: 363053--363160 Score: 148
Period size: 37 Copynumber: 2.8 Consensus size: 38
363043 TATATAATAT
* *
363053 ATGTTTTCAAAAAACTATATATAATATAAATGTTTTC-AAA
1 ATGTTTT--AAAAACTATATAT-ATATATATATTTTCTAAA
363093 ATGATTTTAAAAACTATATAT-TATATATATTTTCTAAA
1 ATG-TTTTAAAAACTATATATATATATATATTTTCTAAA
363131 ATGTTTTAAAAACTATATATATATATATAT
1 ATGTTTTAAAAACTATATATATATATATAT
363161 ATAATATGGA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.44
38 15 0.24
39 13 0.21
40 3 0.05
41 4 0.06
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (38 bp):
ATGTTTTAAAAACTATATATATATATATATTTTCTAAA
Found at i:365081 original size:84 final size:84
Alignment explanation
Indices: 364965--365120 Score: 222
Period size: 84 Copynumber: 1.9 Consensus size: 84
364955 AATCAATCAA
* * * *
364965 TTTTAAAGTGATCGTCTATTTATCTAATTTTTGTTTATATAAATCAAACCGACCAAATAATATTA
1 TTTTAAAGTGATCATCTACTTATCTAATTTTTGTTTATATAAATCAAACCAACCAAATAACATTA
*
365030 TTATTCTATTAGATTCTAG
66 CTATTCTATTAGATTCTAG
* * * * *
365049 TTTTAAAGTGGTCATCTACTTATTTTATTTTTGTTTTTATAAATCAAACCAATCAAATAACATTA
1 TTTTAAAGTGATCATCTACTTATCTAATTTTTGTTTATATAAATCAAACCAACCAAATAACATTA
365114 CTATTCT
66 CTATTCT
365121 TTTCAAAGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (84 bp):
TTTTAAAGTGATCATCTACTTATCTAATTTTTGTTTATATAAATCAAACCAACCAAATAACATTA
CTATTCTATTAGATTCTAG
Found at i:383147 original size:18 final size:18
Alignment explanation
Indices: 383112--383149 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
383102 GGTCATCAGT
*
383112 CTCTTCAGCGTCAGCAGG
1 CTCTTCAGCGTCAACAGG
383130 CTCTTCAG-GCTCAACAGG
1 CTCTTCAGCG-TCAACAGG
383148 CT
1 CT
383150 GGGGACTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.24
Consensus pattern (18 bp):
CTCTTCAGCGTCAACAGG
Found at i:391673 original size:78 final size:78
Alignment explanation
Indices: 391544--391697 Score: 299
Period size: 78 Copynumber: 2.0 Consensus size: 78
391534 AGGCTCAAAT
*
391544 CAGTGTGGAACTAAAAGTTCTTAACATTGTGGCTTTATCCTCTATTTATAGGGGAAAATTAACCC
1 CAGTGTGGAACTAAAAGTTCTTAACATTGTGGCTTCATCCTCTATTTATAGGGGAAAATTAACCC
391609 TTGAACTAAGAAC
66 TTGAACTAAGAAC
391622 CAGTGTGGAACTAAAAGTTCTTAACATTGTGGCTTCATCCTCTATTTATAGGGGAAAATTAACCC
1 CAGTGTGGAACTAAAAGTTCTTAACATTGTGGCTTCATCCTCTATTTATAGGGGAAAATTAACCC
391687 TTGAACTAAGA
66 TTGAACTAAGA
391698 GTTGACTTTC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (78 bp):
CAGTGTGGAACTAAAAGTTCTTAACATTGTGGCTTCATCCTCTATTTATAGGGGAAAATTAACCC
TTGAACTAAGAAC
Found at i:393671 original size:17 final size:19
Alignment explanation
Indices: 393645--393681 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
393635 AATTTGGTAA
*
393645 TAAAACTACT-GTAA-AAT
1 TAAAAATACTAGTAATAAT
393662 TAAAAATACTAGTAATAAT
1 TAAAAATACTAGTAATAAT
393681 T
1 T
393682 GATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAAATACTAGTAATAAT
Found at i:410398 original size:18 final size:18
Alignment explanation
Indices: 410375--410437 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
410365 ACCGGTCATA
410375 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCTGTTG
*
410393 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCTGTTG
** *
410411 ACTTGACCCGATCTGTTG
1 ACCCGACCCGACCTGTTG
*
410429 ACTCGACCC
1 ACCCGACCC
410438 ATTGACCGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.17, C:0.43, G:0.21, T:0.19
Consensus pattern (18 bp):
ACCCGACCCGACCTGTTG
Found at i:414013 original size:149 final size:149
Alignment explanation
Indices: 413743--414044 Score: 550
Period size: 149 Copynumber: 2.0 Consensus size: 149
413733 CGAAGTGCCC
* * *
413743 CGTAGAATTGCACCGTTGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
413808 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
*
413873 CATATGTCCTAAAGAACCG
131 CATATGTCCCAAAGAACCG
413892 CGTAGAATTGCACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
413957 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
414022 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
414041 CGTA
1 CGTA
414045 AACCCTCTAC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:414634 original size:67 final size:67
Alignment explanation
Indices: 414525--414676 Score: 250
Period size: 67 Copynumber: 2.3 Consensus size: 67
414515 TTTTTCTCAT
* *
414525 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAAATTCATATTCGT
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGT
414590 TGA
65 TGA
* * *
414593 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGTATTTTGGAATTTCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTT
414658 GA
66 GA
414660 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
414677 TTGAATGGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 67 0.85
68 12 0.15
ACGTcount: A:0.14, C:0.25, G:0.29, T:0.32
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTT
GA
Found at i:417080 original size:23 final size:23
Alignment explanation
Indices: 417054--417098 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
417044 CACCACAACT
* *
417054 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATACACCGAAGTGCCC
* *
417077 CGTAGAATTACACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
417099 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCC
Found at i:417347 original size:149 final size:149
Alignment explanation
Indices: 417077--417380 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
417067 CGAAGTGCCC
* *
417077 CGTAGAATTACACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTACACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
417142 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
*
417207 CATATGTCCTAAAGAACCG
131 CATATGTCCCAAAGAACCG
*
417226 CGTAGAATTGCACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTACACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
417291 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
417356 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
417375 CGTAGA
1 CGTAGA
417381 CCCTCTACCC
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTACACCATAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:418182 original size:149 final size:149
Alignment explanation
Indices: 417990--418293 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
417980 GGGTAGAGGG
*
417990 TCTACGCGGTTCTTTAGGACATATGTATATTCTTTGGAACATGTGTGAAGTATTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTATTGAAAGACACAT
* *
418055 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCCTTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
418120 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
418139 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTATTGAAAGACACAT
418204 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
418269 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
418288 TCTACG
1 TCTACG
418294 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTATTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:418316 original size:23 final size:23
Alignment explanation
Indices: 418272--418316 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
418262 ATCATTATAT
*
418272 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
418295 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
418317 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:424108 original size:23 final size:23
Alignment explanation
Indices: 424082--424126 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
424072 CACCACGGCT
*
424082 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* * *
424105 CGTAGAATTGTACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
424127 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:424375 original size:149 final size:149
Alignment explanation
Indices: 424105--424408 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
424095 CGAAGTGCCC
* *
424105 CGTAGAATTGTACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
* *
424170 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
* *
424235 CATATGTCCTAAAGAACCG
131 CATATGTCCCAAAGAACCA
424254 CGTAGAATTGCACCGTAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
424319 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
424384 CATATGTCCCAAAGAACCA
131 CATATGTCCCAAAGAACCA
424403 CGTAGA
1 CGTAGA
424409 CCCTCTACCC
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAAGGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCA
Found at i:425000 original size:67 final size:67
Alignment explanation
Indices: 424886--425036 Score: 257
Period size: 67 Copynumber: 2.2 Consensus size: 67
424876 TTTTTCTCAT
* *
424886 GGGGAATCGGTTCCCCCCCTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAAATTCATATTCGTT
1 GGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTT
424951 GAG
65 GAG
* *
424954 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGTATTCTGGAATTTCATATTCGTTG
1 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTTG
425019 AG
66 AG
425021 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
425037 TTGAATGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
67 68 0.86
68 11 0.14
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTTG
AG
Found at i:425563 original size:19 final size:20
Alignment explanation
Indices: 425517--425553 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
425507 CCACGTTTGG
*
425517 AGAAGGAAGAGAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
425537 AGAAAGAAG-GAAGAAGA
1 AGAAAGAAGAGAAGAAGA
425554 AATGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (20 bp):
AGAAAGAAGAGAAGAAGATA
Found at i:427126 original size:31 final size:32
Alignment explanation
Indices: 427088--427155 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
427078 TTAATAATCA
* * *
427088 AATTTGAT-AAATTTAATGATCATTTTGTAAT
1 AATTTGATAAAACTTAATGATCATTTTATAAC
*
427119 AATTTGATAAAACTTAATTATCATTTTATAAC
1 AATTTGATAAAACTTAATGATCATTTTATAAC
427151 AATTT
1 AATTT
427156 AATGATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (32 bp):
AATTTGATAAAACTTAATGATCATTTTATAAC
Found at i:427149 original size:21 final size:22
Alignment explanation
Indices: 427120--427172 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
427110 TTTTGTAATA
* *
427120 ATTTGATAA-AACTTAATTATC
1 ATTTTATAACAACTTAATGATC
* *
427141 ATTTTATAACAATTTAATGATT
1 ATTTTATAACAACTTAATGATC
427163 ATTTTA-AACA
1 ATTTTATAACA
427173 TTTTGATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTTTATAACAACTTAATGATC
Found at i:429344 original size:78 final size:78
Alignment explanation
Indices: 429254--429403 Score: 264
Period size: 78 Copynumber: 1.9 Consensus size: 78
429244 ATTAATGACT
* * *
429254 CGTTTAAATTTTTATATTTTAAATATTGATAAATATAGGAATTAGATTAAACAAATGGTAAAGTT
1 CGTTTAAATTTTTATATTTTAAATATTGATAAAAATAGGAATTAAATTAAACAAATGGTAAAATT
429319 TAGAGTTCATTAA
66 TAGAGTTCATTAA
*
429332 CGTTTAAATTTTTATATTTTAAATATTGATAAAAATAGGAATTAAATTAAACACATGGTAAAATT
1 CGTTTAAATTTTTATATTTTAAATATTGATAAAAATAGGAATTAAATTAAACAAATGGTAAAATT
429397 TAGAGTT
66 TAGAGTT
429404 TAAATTATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (78 bp):
CGTTTAAATTTTTATATTTTAAATATTGATAAAAATAGGAATTAAATTAAACAAATGGTAAAATT
TAGAGTTCATTAA
Found at i:429541 original size:23 final size:23
Alignment explanation
Indices: 429515--429574 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
429505 GATATAAATA
429515 AACGCTAAATGAACATATTCGTG
1 AACGCTAAATGAACATATTCGTG
* * * *
429538 AACGTTAAA-GAAAATGTTCTTG
1 AACGCTAAATGAACATATTCGTG
429560 AACGCTAAATGAACA
1 AACGCTAAATGAACA
429575 AACATGAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (23 bp):
AACGCTAAATGAACATATTCGTG
Found at i:430276 original size:2 final size:2
Alignment explanation
Indices: 430269--430343 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
430259 TAAGAAAAAT
430269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
430311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
430344 GGAAAACCCA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:430392 original size:47 final size:47
Alignment explanation
Indices: 430323--430417 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
430313 TATATATATA
430323 TATATATATATATATATATATGGAAAACCCAACTTCTTTTATTACTT
1 TATATATATATATATATATATGGAAAACCCAACTTCTTTTATTACTT
*
430370 TATATATATATATATATGTATGGAAAACCCAACTTCTTTTATTACTT
1 TATATATATATATATATATATGGAAAACCCAACTTCTTTTATTACTT
430417 T
1 T
430418 CAAATTTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (47 bp):
TATATATATATATATATATATGGAAAACCCAACTTCTTTTATTACTT
Found at i:432047 original size:18 final size:18
Alignment explanation
Indices: 432024--432067 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
432014 TAGAGGCAGA
*
432024 GGTGGTGGCCGTGGAGGT
1 GGTGGTGGCCGTGAAGGT
432042 GGTGGTGGCCGTGAAGGT
1 GGTGGTGGCCGTGAAGGT
432060 GGTGGTGG
1 GGTGGTGG
432068 AGGTGGCCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.07, C:0.09, G:0.61, T:0.23
Consensus pattern (18 bp):
GGTGGTGGCCGTGAAGGT
Found at i:437274 original size:30 final size:30
Alignment explanation
Indices: 437225--437313 Score: 126
Period size: 29 Copynumber: 3.0 Consensus size: 30
437215 TAGTCCACCG
437225 TTTAAAAATTAATTACAAAAATAACACCATT
1 TTTAAAAA-TAATTACAAAAATAACACCATT
* *
437256 TTTAAAAATAAATACAAAAATAACA-CACT
1 TTTAAAAATAATTACAAAAATAACACCATT
* *
437285 TTTAAAAATAATTACGAAAACAACACCAT
1 TTTAAAAATAATTACAAAAATAACACCAT
437314 AACTGAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
29 25 0.49
30 18 0.35
31 8 0.16
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (30 bp):
TTTAAAAATAATTACAAAAATAACACCATT
Found at i:437892 original size:21 final size:21
Alignment explanation
Indices: 437826--437903 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
437816 CCACTTCATT
*
437826 TTATTTTATTCT-TAGTGC-TA
1 TTATTTTATT-TATAGTACTTA
** *
437846 TTATAATATTTATAATACTTA
1 TTATTTTATTTATAGTACTTA
*
437867 TTATTTTATTTATAGTTCTTA
1 TTATTTTATTTATAGTACTTA
*
437888 TTATTTTATCTATAGT
1 TTATTTTATTTATAGT
437904 GCTATTTGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 12 0.26
21 34 0.72
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATTTTATTTATAGTACTTA
Found at i:438221 original size:47 final size:48
Alignment explanation
Indices: 438164--438263 Score: 150
Period size: 47 Copynumber: 2.1 Consensus size: 48
438154 CAATTTATAC
438164 TTTAAATTAATTTT-ATGCGTTTAAAATATTTTTTAATCAAATTAAAT-
1 TTTAAATTAATTTTGA-GCGTTTAAAATATTTTTTAATCAAATTAAATA
* * *
438211 TTTAAGTTAATTTTGAGCGTTTAAAATATTTTTTACTCAAATTAGATA
1 TTTAAATTAATTTTGAGCGTTTAAAATATTTTTTAATCAAATTAAATA
438259 TTTAA
1 TTTAA
438264 TATTTTTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (48 bp):
TTTAAATTAATTTTGAGCGTTTAAAATATTTTTTAATCAAATTAAATA
Found at i:438891 original size:18 final size:18
Alignment explanation
Indices: 438868--438911 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
438858 TTACAATTTT
*
438868 ATTTAATTACA-TATTTAG
1 ATTTAATTA-AGTATTTAA
438886 ATTTAATTAAGTATTTAA
1 ATTTAATTAAGTATTTAA
438904 ATTTAATT
1 ATTTAATT
438912 TGTTAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
ATTTAATTAAGTATTTAA
Found at i:439194 original size:31 final size:31
Alignment explanation
Indices: 439158--439216 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
439148 AACTTAAAAG
* *
439158 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
439189 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
439217 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:439267 original size:22 final size:22
Alignment explanation
Indices: 439241--439283 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
439231 TAATAAATTA
439241 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
439263 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
439284 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:439292 original size:22 final size:22
Alignment explanation
Indices: 439243--439291 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
439233 ATAAATTATT
**
439243 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
439265 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
439288 TAAA
1 TAAA
439292 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:439295 original size:54 final size:54
Alignment explanation
Indices: 439231--439958 Score: 658
Period size: 54 Copynumber: 13.4 Consensus size: 54
439221 ACAACTACAA
439231 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
439285 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCGTA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** *
439342 TTTTAAAATAAAT-CAATCCATACAAATAAATGA-TTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCAT-ATTTTAAAATAAATCAATCCATAC
* ** * *
439397 TAACAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATAC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * **
439457 --ATACAACTA--AAATAATAAATCAATCTTTATTTTAAAATAAATCAATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
439509 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
439563 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATGAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
439620 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
439675 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
439728 TAACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
439777 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
439831 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
439885 TAATAAATTATTTAAAAT--A--AAT---TATTTTAAAATAAATCAATCCATATTTTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA----C
439936 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTA-TTTAAAATAAAT
439959 TATTTTGTAA
Statistics
Matches: 545, Mismatches: 82, Indels: 93
0.76 0.11 0.13
Matches are distributed among these distances:
47 23 0.04
48 41 0.08
49 3 0.01
50 5 0.01
51 10 0.02
52 23 0.04
53 9 0.02
54 272 0.50
55 31 0.06
56 21 0.04
57 34 0.06
58 56 0.10
59 5 0.01
60 12 0.02
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:439301 original size:32 final size:31
Alignment explanation
Indices: 439263--439906 Score: 346
Period size: 32 Copynumber: 23.4 Consensus size: 31
439253 CAATCCATAT
439263 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
439295 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
439325 --T--AATAAATCAATCCGTA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
439350 -------TAAATCAATCCATACAAATAAATGA
1 TTTAAAATAAATCAATCCATACTAATAAAT-A
* *
439375 TTTAAAATAAATCAATCTATACTAACAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439407 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
439439 TTTAAAATAAATCAATACATAC-AACTAAA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
439469 --T--AATAAATCAAT-C-T--T--T--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
439487 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439519 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
439541 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
439573 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
439603 --T--AATAAATGAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
439628 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439653 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439685 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
439707 TTTAAAATAAATCAATCCATA-TAACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
439737 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
439755 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439787 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
439809 TTTAAAATAAATAAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439841 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
439863 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
439895 TTTAAAATAAAT
1 TTTAAAATAAAT
439907 TATTTTAAAA
Statistics
Matches: 491, Mismatches: 25, Indels: 192
0.69 0.04 0.27
Matches are distributed among these distances:
18 1 0.00
20 3 0.01
22 114 0.23
23 19 0.04
24 9 0.02
25 12 0.02
26 68 0.14
27 1 0.00
28 16 0.03
30 8 0.02
31 14 0.03
32 225 0.46
33 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:439336 original size:80 final size:80
Alignment explanation
Indices: 439246--439396 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 80
439236 AATTATTTAA
* *
439246 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATGATTTAAAATAAATCAAT
439311 CCATACAACTACAAT
66 CCATACAACTACAAT
*
439326 AATAAATCAATCCGTATTTTAAAATAAATCAATCCATACAAATAAATGATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATGATTTAAAATAAATCAAT
*
439391 CTATAC
66 CCATAC
439397 TAACAAATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.31
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATGATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:439387 original size:112 final size:109
Alignment explanation
Indices: 439246--439861 Score: 362
Period size: 112 Copynumber: 5.6 Consensus size: 109
439236 AATTATTTAA
* *
439246 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTAAATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * * ***
439311 CCATAC-AACTACA-A-T-AATAAATCAATCCGTA-TTTTAAAAT
66 CCATACTAA-TAAATATTAAATAAATCAATACATACAACTAAAAT
* * * *
439351 AAATCAATCCATACAAATAAATGATTTAAAATAAATCAATCTATACTAACAAATTATTTAAAATA
1 -AATAAATCAAT-C---TAAAT--TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
439416 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACAACTAAAAT
59 AATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATACATACAACTAAAAT
**
439470 AATAAATCAATCTTTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTAAATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
** * * * *
439535 CCATA-TTTTAAA-A-TAAATCAATCCATACTAATA-AATTATTTAA-
66 CCATACTAATAAATATTAAATAAATCAATAC--ATACAACTA--AAAT
* ** *
439578 AATAAATCAATCCATACAACTACAATAATAAATGAAT-C---C--AT--A-T-TTTAAAATAAAT
1 AATAAATCAAT-C-TA-AATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
*
439633 CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTT
62 CAATCCATACTAATAAA-TA-TT-AAATAAATCAATACATAC-AACTAAA--A--T
* * *
439688 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA-TAACTACA--A--T--AATAAATC
1 --AATAAATCAATCTAAATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATC
** * * * *
439746 AATCCATA-TTTTAAA-A-TAAATCAATCCATACTAATA-AATTATTTAA-
63 AATCCATACTAATAAATATTAAATAAATCAATAC--ATACAACTA--AAAT
* * *
439792 AATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTAAATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
439857 CCATA
66 CCATA
439862 TTTTAAAATA
Statistics
Matches: 401, Mismatches: 50, Indels: 116
0.71 0.09 0.20
Matches are distributed among these distances:
102 61 0.15
103 9 0.02
104 2 0.00
105 2 0.00
106 40 0.10
107 14 0.03
108 57 0.14
109 11 0.03
110 5 0.01
111 16 0.04
112 143 0.36
113 3 0.01
114 6 0.01
116 2 0.00
117 1 0.00
118 23 0.06
119 6 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (109 bp):
AATAAATCAATCTAAATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACTAATAAATATTAAATAAATCAATACATACAACTAAAAT
Found at i:439499 original size:80 final size:80
Alignment explanation
Indices: 439407--439874 Score: 347
Period size: 80 Copynumber: 5.8 Consensus size: 80
439397 TAACAAATTA
* *
439407 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACAACTAAAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-AATTAAAATAA
*
439471 ATAAATCAATCTTTAT
65 ATAAATCAATCCTTAT
**
439487 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAATTAAAATAAA
* * *
439552 TCAATCCATACTAATAAATT
66 TAAATCAATCCT--T--A-T
* * **
439572 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATGAATCCATATTTTAAAATA
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAAATTAAAATA
* * *
439630 AATCAATCCATACTAATAAATT
64 AATAAATCAATCCT--T--A-T
**
439652 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAATTAAAATAA
* * * * *
439717 ATCAATCCAT-ATAAC
65 ATAAATCAATCCTTAT
** ** * * * **
439732 TACAATAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATAAATT-ATTT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-CATAAATTAAAAT
*
439790 AAAATAAATCAATCCATAT
63 -AAATAAATCAATCCTTAT
* **
439809 TTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAATTAAAATAAA
439874 T
66 T
439875 CAATTCATAC
Statistics
Matches: 317, Mismatches: 44, Indels: 54
0.76 0.11 0.13
Matches are distributed among these distances:
74 10 0.03
75 4 0.01
76 30 0.09
77 10 0.03
79 15 0.05
80 160 0.50
81 7 0.02
82 13 0.04
84 3 0.01
85 4 0.01
86 61 0.19
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAATTAAAATAAA
TAAATCAATCCTTAT
Found at i:439545 original size:22 final size:22
Alignment explanation
Indices: 439519--439561 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
439509 TAATAAATTA
439519 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
439541 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
439562 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:439570 original size:22 final size:22
Alignment explanation
Indices: 439521--439569 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
439511 ATAAATTATT
**
439521 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
439543 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
439566 TAAA
1 TAAA
439570 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:439647 original size:18 final size:18
Alignment explanation
Indices: 439626--439682 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
439616 CATATTTTAA
439626 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
* * *
439644 AATAAAT-TAT--TTA-A
1 AATAAATCAATCCATACT
439658 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
439676 AATAAAT
1 AATAAAT
439683 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
17 4 0.14
18 14 0.48
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCAATCCATACT
Found at i:439650 original size:22 final size:23
Alignment explanation
Indices: 439575--439649 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
439565 ATAAATTATT
439575 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
439597 CTACAATAATAAATGAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
439623 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
439646 TAAA
1 TAAA
439650 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:439711 original size:22 final size:22
Alignment explanation
Indices: 439685--439775 Score: 128
Period size: 22 Copynumber: 4.0 Consensus size: 22
439675 TAATAAATTA
439685 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
439707 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
**
439729 AACTACAATAATAAATCAATCCATAT
1 ---TTTAA-AATAAATCAATCCATAT
439755 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
439776 CTAATAAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
22 38 0.62
23 3 0.05
25 3 0.05
26 17 0.28
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:439781 original size:18 final size:19
Alignment explanation
Indices: 439737--439784 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
439727 ATAACTACAA
*
439737 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA-TC
439757 TAAAATAAATCAATCCATA-C
1 T--AATAAATCAATCCATATC
439777 TAATAAAT
1 TAATAAAT
439785 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
20 2 0.08
22 16 0.64
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAATCAATCCATATC
Found at i:439813 original size:22 final size:22
Alignment explanation
Indices: 439787--439829 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
439777 TAATAAATTA
*
439787 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
439809 TTTAAAATAAATAAATCCATA
1 TTTAAAATAAATAAATCCATA
439830 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:439838 original size:22 final size:22
Alignment explanation
Indices: 439789--439837 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
439779 ATAAATTATT
* **
439789 TAAAATAAATCAATCCATATTT
1 TAAAATAAATAAATCCATATAA
439811 TAAAATAAATAAATCCATACTAA
1 TAAAATAAATAAATCCATA-TAA
439834 TAAA
1 TAAA
439838 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATAAATCCATATAA
Found at i:439862 original size:134 final size:134
Alignment explanation
Indices: 439231--439861 Score: 935
Period size: 134 Copynumber: 4.6 Consensus size: 134
439221 ACAACTACAA
439231 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
439296 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCGTATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
439361 ATAC
131 ATAC
* * *
439365 AAATAAATGATTTAAAATAAATCAATCTATACTAACAAATTATTTAAAATAAATCAATCCATACT
1 TAATAAATTATTTAAAATAAATC-A---AT-C---CATA-T-TTTAAAATAAATCAATCCATACT
* * **
439430 AATAAATTATTTAAAATAAATCAATACATACAACTAAAATAATAAATCAATCTTTATTTTAAAAT
56 AATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAT
439495 AAATCAATCCATAC
121 AAATCAATCCATAC
439509 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
439574 TTAAAATAAATCAATCCATACAACTACAATAATAAATGAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
439639 ATAC
131 ATAC
** * ** * ** **
439643 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATT
*
439705 ATTTTAAAATAAATCAATCCATATAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
64 A-TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
439770 TCCATAC
128 TCCATAC
*
439777 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
439842 TTAAAATAAATCAATCCATA
66 TTAAAATAAATCAATCCATA
439862 TTTTAAAATA
Statistics
Matches: 445, Mismatches: 36, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
132 6 0.01
133 11 0.02
134 277 0.62
135 13 0.03
136 8 0.02
138 2 0.00
139 2 0.00
140 2 0.00
142 3 0.01
143 2 0.00
144 119 0.27
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Done.