Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008522.1 Hibiscus syriacus cultivar Beakdansim tig00111390_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: 1416293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:760296 original size:172 final size:172
Alignment explanation
Indices: 760010--760334 Score: 417
Period size: 172 Copynumber: 1.9 Consensus size: 172
760000 GTAATGGTCA
* * *
760010 CTAAACTTTTTTAAAGTTTTCATTTAGGTCCCTCAACTTTTAAAACTTGCAATACAGTCCCCCAA
1 CTAAACTTTTCTAAAGATTTCATTTAGGTCCCTCAACTTTTAAAACTTGCAATAAAGTCCCCCAA
* * * * * **
760075 TATTTAGTCAGTTTGTAATATGATCCCTGATATAACTGTTGGGGGACCATATTACAAA-TGAACT
66 CATTTAGTCAGTTTGCAATATGATCCCTAACATAACTGATCAGGGACCATATTACAAATTG-ACT
**
760139 AAATGTTGGGGGACTTTATTGCAAGTTTCAAAAGTTGGGGGAC
130 AAATGTTGGGGGACCATATTGCAAGTTTCAAAAGTTGGGGGAC
*
760182 CTAAACTTTTCTAAAGATTTCATTTAGGTCCCTCAACTTTTGAAACTTGCAATAAAGTCCCCCAA
1 CTAAACTTTTCTAAAGATTTCATTTAGGTCCCTCAACTTTTAAAACTTGCAATAAAGTCCCCCAA
* * *
760247 CATTTAGTTC-GTTTGCAATATGGTCTTCC-AACAGTTA-T-ATCAGGGACCATATTGCAAATTG
66 CATTTAG-TCAGTTTGCAATATGATC--CCTAACA-TAACTGATCAGGGACCATATTACAAATTG
*
760308 ACTAAATGTTGGGTGACCATATTGCAA
127 ACTAAATGTTGGGGGACCATATTGCAA
760335 ACGGACTAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
172 120 0.92
173 7 0.05
174 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (172 bp):
CTAAACTTTTCTAAAGATTTCATTTAGGTCCCTCAACTTTTAAAACTTGCAATAAAGTCCCCCAA
CATTTAGTCAGTTTGCAATATGATCCCTAACATAACTGATCAGGGACCATATTACAAATTGACTA
AATGTTGGGGGACCATATTGCAAGTTTCAAAAGTTGGGGGAC
Found at i:764151 original size:31 final size:31
Alignment explanation
Indices: 764116--764185 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
764106 TAAGGGTACA
* *
764116 TAGTCCCTAATATTATCAATCCATTCAATTT
1 TAGTCCCTAATACTACCAATCCATTCAATTT
* *
764147 TAGTCCCTAATGCTACCCATCCATTCAATTT
1 TAGTCCCTAATACTACCAATCCATTCAATTT
764178 TAGTCCCT
1 TAGTCCCT
764186 CAACCATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.39
Consensus pattern (31 bp):
TAGTCCCTAATACTACCAATCCATTCAATTT
Found at i:765376 original size:112 final size:112
Alignment explanation
Indices: 765179--765394 Score: 312
Period size: 112 Copynumber: 1.9 Consensus size: 112
765169 ATTCAATATC
* * *
765179 GATTCGAGTGAAAACAATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTTATACCTTA
1 GATTCGAGAGAAAACAATAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTA
*
765244 AAGCAGTCATTTATTGCTCCAA-TCGAAAT-AAAGATATATCACTAATT
66 AAGCAGTCATTTATTACTCCAACT-GAAATGAAA-ATATATCACTAATT
* * * *
765291 GATTCGAGAGAAAACGATAATATCGAATTATTTTCAATCGAGAATAAATGACCTCTCATGCCTTA
1 GATTCGAGAGAAAACAATAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTA
765356 AAGCA-TCCATTTATTACTCCAACTGAAATGAAAATATAT
66 AAGCAGT-CATTTATTACTCCAACTGAAATGAAAATATAT
765395 TATTATTATC
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
111 1 0.01
112 88 0.95
113 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (112 bp):
GATTCGAGAGAAAACAATAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTA
AAGCAGTCATTTATTACTCCAACTGAAATGAAAATATATCACTAATT
Found at i:766065 original size:2 final size:2
Alignment explanation
Indices: 766053--766101 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
766043 TAGAAATAAT
* * *
766053 TA TA T- TA TA TA TA TA TA TA TA TA -A TA CA -A AA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
766092 TA TA TA TA TA
1 TA TA TA TA TA
766102 GTAGTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:767562 original size:3 final size:3
Alignment explanation
Indices: 767554--767597 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
767544 AAAGCCTGCA
* * *
767554 AAT AAT AAT AAT AAT AAT TAT TAT AATT AAT AAT AAT ATT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A
767598 TTAAAAACGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:768189 original size:2 final size:2
Alignment explanation
Indices: 768178--768228 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
768168 AGTCATATTG
768178 AT AT -T 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
768219 AT AT AT AT AT
1 AT AT AT AT AT
768229 GTATGTATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:768233 original size:4 final size:4
Alignment explanation
Indices: 768226--768250 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
768216 TATATATATA
768226 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
768251 TAGGCGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:770155 original size:18 final size:17
Alignment explanation
Indices: 770129--770185 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
770119 TAAAACTAAT
770129 AAATAATAATAAATATAA
1 AAATAATAATAAATAT-A
* *
770147 AAATTATAA-AACTAGT-
1 AAATAATAATAAATA-TA
770163 AAATAATAATAAATATA
1 AAATAATAATAAATATA
770180 TAAATA
1 -AAATA
770186 GGAAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 9 0.29
17 8 0.26
18 14 0.45
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAATAATAATAAATATA
Found at i:770157 original size:34 final size:35
Alignment explanation
Indices: 770103--770185 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 35
770093 AAAATTATGG
*
770103 AAATAAAAAGAATATATAAAACTAATAAATAATAAT
1 AAATATAAA-AATATATAAAACTAATAAATAATAAT
*
770139 AAATATAAAAAT-TATAAAACTAGTAAATAATAAT
1 AAATATAAAAATATATAAAACTAATAAATAATAAT
*
770173 AAATATATAAATA
1 AAATATAAAAATA
770186 GGAAAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 32 0.74
35 3 0.07
36 8 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (35 bp):
AAATATAAAAATATATAAAACTAATAAATAATAAT
Found at i:770551 original size:18 final size:19
Alignment explanation
Indices: 770530--770565 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
770520 AAAAAAAAGA
*
770530 AAAGAAGATAAAA-AACTT
1 AAAGAAAATAAAAGAACTT
770548 AAAGAAAATAAAAGAACT
1 AAAGAAAATAAAAGAACT
770566 CTCACATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (19 bp):
AAAGAAAATAAAAGAACTT
Found at i:772382 original size:130 final size:131
Alignment explanation
Indices: 772139--772478 Score: 425
Period size: 130 Copynumber: 2.6 Consensus size: 131
772129 ATAATTTTAA
* * * * *
772139 GAGAGAAAATAATAATATCTAATTATTTCTAATCGAGAATAAACGACCTTTCATACCTTAAAACA
1 GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
* * ** ** * *
772204 ATCATTTATTACTCCAACCGAAATGAAAAGATATCATTATTCTGTCTTAAGATTCAATATCGA-T
66 GTCATTTATTACTCAAACCGAAATGAAAAGATATCACCATTCCATCTTAAAAATCAATATCGATT
772268 C
131 C
* * *
772269 TGAGTG-AAACAATAATATCTAATAATTTCCAATCGAGAATAAATGACCTCCCATACCTTAAAGC
1 -GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGC
* * * *
772333 AGTCATTTATTGCTCAAATCGAAATGAAGAGATATCACCATTCCATCTTAAAAATCAATATTGAT
65 AGTCATTTATTACTCAAACCGAAATGAAAAGATATCACCATTCCATCTTAAAAATCAATATCGAT
772398 TC
130 TC
* * * *
772400 GAGAGAAAACGATAATAT-TGAATTATTTTCAATCAAGAATAAATGACCTCTCATGCCTTAAAGC
1 GAGAGAAAACAATAATATCT-AATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGC
772464 AGTCATTTATTACTC
65 AGTCATTTATTACTC
772479 TAACTAGACC
Statistics
Matches: 178, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 108 0.61
131 70 0.39
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (131 bp):
GAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
GTCATTTATTACTCAAACCGAAATGAAAAGATATCACCATTCCATCTTAAAAATCAATATCGATT
C
Found at i:773567 original size:11 final size:11
Alignment explanation
Indices: 773551--773626 Score: 62
Period size: 11 Copynumber: 6.7 Consensus size: 11
773541 TTGGGGCAAT
773551 ATCGAGCTTGA
1 ATCGAGCTTGA
*
773562 ATCGAGCTCAGA
1 ATCGAGCT-TGA
*
773574 ATCGAGCTTCA
1 ATCGAGCTTGA
* *
773585 ATCAAGCTCGA
1 ATCGAGCTTGA
* *
773596 TTCGAGCTCAGA
1 ATCGAGCT-TGA
*
773608 ATCGAGCTTCA
1 ATCGAGCTTGA
*
773619 ATCAAGCT
1 ATCGAGCT
773627 CGATTCTCGA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
11 31 0.62
12 19 0.38
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (11 bp):
ATCGAGCTTGA
Found at i:773581 original size:23 final size:22
Alignment explanation
Indices: 773551--773615 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
773541 TTGGGGCAAT
773551 ATCGAGCTTGAATCGAGCTCAGA
1 ATCGAGCTTGAATCGAGCTC-GA
* *
773574 ATCGAGCTTCAATCAAGCTCGA
1 ATCGAGCTTGAATCGAGCTCGA
* *
773596 TTCGAGCTCAGAATCGAGCT
1 ATCGAGCT-TGAATCGAGCT
773616 TCAATCAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 9 0.26
23 26 0.74
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (22 bp):
ATCGAGCTTGAATCGAGCTCGA
Found at i:773606 original size:34 final size:34
Alignment explanation
Indices: 773563--773632 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
773553 CGAGCTTGAA
773563 TCGAGCTCAGAATCGAGCTTCAATCAAGCTCGAT
1 TCGAGCTCAGAATCGAGCTTCAATCAAGCTCGAT
773597 TCGAGCTCAGAATCGAGCTTCAATCAAGCTCGAT
1 TCGAGCTCAGAATCGAGCTTCAATCAAGCTCGAT
773631 TC
1 TC
773633 TCGAGTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (34 bp):
TCGAGCTCAGAATCGAGCTTCAATCAAGCTCGAT
Found at i:773879 original size:16 final size:16
Alignment explanation
Indices: 773858--773928 Score: 92
Period size: 16 Copynumber: 4.6 Consensus size: 16
773848 AACGTTTATA
773858 TTCATTTATGTTCGTG
1 TTCATTTATGTTCGTG
*
773874 TTCATTTATGTTCATG
1 TTCATTTATGTTCGTG
* *
773890 TCCATTTATGTTTGTG
1 TTCATTTATGTTCGTG
*
773906 TTCGTTTATGTTCGT-
1 TTCATTTATGTTCGTG
773921 TT-ATTTAT
1 TTCATTTAT
773929 TAAATGAACG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 40 0.85
ACGTcount: A:0.14, C:0.11, G:0.15, T:0.59
Consensus pattern (16 bp):
TTCATTTATGTTCGTG
Found at i:774953 original size:43 final size:44
Alignment explanation
Indices: 774860--774955 Score: 158
Period size: 43 Copynumber: 2.2 Consensus size: 44
774850 CATTGTCCAA
*
774860 CGCCGTGAATTTCGATTCAAAGTTTCAAAGGTTTTTAACACCAC
1 CGCCGTGAATTTCGATTCAAAGTTTCAAAGGTTTTTAACACAAC
* *
774904 CACCGTGAATTTCGATTCAAAG-TTCAAAGTTTTTTAACACAAC
1 CGCCGTGAATTTCGATTCAAAGTTTCAAAGGTTTTTAACACAAC
774947 CGCCGTGAA
1 CGCCGTGAA
774956 AATCTTCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 27 0.56
44 21 0.44
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (44 bp):
CGCCGTGAATTTCGATTCAAAGTTTCAAAGGTTTTTAACACAAC
Found at i:776099 original size:31 final size:31
Alignment explanation
Indices: 776059--776134 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
776049 CTAATGTGAC
*
776059 TCTTAGGTAGGCTCTACGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTGAGATCAT
* **
776090 TCTTGGGTAGGCCCTACGGCCCTGAGATTTT
1 TCTTAGGTAGGCCCTACGGCCCTGAGATCAT
776121 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
776135 CGTGGCCCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTGAGATCAT
Found at i:782855 original size:24 final size:24
Alignment explanation
Indices: 782823--782873 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
782813 TGGTGATAGC
*
782823 TTATGGATTATGACTGCTATATGA
1 TTATGGATTATCACTGCTATATGA
* * * *
782847 TTATTGATTTTCATTGGTATATGA
1 TTATGGATTATCACTGCTATATGA
782871 TTA
1 TTA
782874 CAATGATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (24 bp):
TTATGGATTATCACTGCTATATGA
Found at i:783350 original size:19 final size:19
Alignment explanation
Indices: 783326--783370 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
783316 AGCTGTAATA
783326 GCCCAAAAATTGGGTTAGC
1 GCCCAAAAATTGGGTTAGC
*
783345 GCCCAAACATTGGGTTAGC
1 GCCCAAAAATTGGGTTAGC
*
783364 GACCAAA
1 GCCCAAA
783371 TTGTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (19 bp):
GCCCAAAAATTGGGTTAGC
Found at i:784263 original size:19 final size:21
Alignment explanation
Indices: 784238--784290 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
784228 AATTTAATTT
784238 AGGTATCGATACCTAG-GAAG
1 AGGTATCGATACCTAGAGAAG
* *
784258 -GGTATCGGTACCCTAGAGGAG
1 AGGTATCGATA-CCTAGAGAAG
784279 AGGTATCGATAC
1 AGGTATCGATAC
784291 TGTGCTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 9 0.33
20 5 0.19
21 4 0.15
22 9 0.33
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (21 bp):
AGGTATCGATACCTAGAGAAG
Found at i:784883 original size:31 final size:31
Alignment explanation
Indices: 784845--785025 Score: 281
Period size: 31 Copynumber: 5.8 Consensus size: 31
784835 TAGTCGAGGG
* * *
784845 TTACCTATGTTCTTCAGGATATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAAA
*
784876 TTACCTATGTTCTTCAGGACATATGGACAAA
1 TTACCTATGTTCTTCGGGACATATGGACAAA
784907 TTACCTATGTTCTTCGGGACATATGGACAAA
1 TTACCTATGTTCTTCGGGACATATGGACAAA
* * *
784938 TTACCTATGTTATTCGGGATATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAAA
784969 TTACCTATGTTCTTCGGGACATATGGACAAA
1 TTACCTATGTTCTTCGGGACATATGGACAAA
* *
785000 TTACCTATATTCTTAGGGACATATGG
1 TTACCTATGTTCTTCGGGACATATGG
785026 GCATATTATT
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 139 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAAA
Found at i:785004 original size:93 final size:93
Alignment explanation
Indices: 784845--785025 Score: 317
Period size: 93 Copynumber: 1.9 Consensus size: 93
784835 TAGTCGAGGG
*
784845 TTACCTATGTTCTTCAGGATATATGGACAGATTACCTATGTTCTTCAGGACATATGGACAAATTA
1 TTACCTATGTTATTCAGGATATATGGACAGATTACCTATGTTCTTCAGGACATATGGACAAATTA
* *
784910 CCTATGTTCTTCGGGACATATGGACAAA
66 CCTATATTCTTAGGGACATATGGACAAA
* *
784938 TTACCTATGTTATTCGGGATATATGGACAGATTACCTATGTTCTTCGGGACATATGGACAAATTA
1 TTACCTATGTTATTCAGGATATATGGACAGATTACCTATGTTCTTCAGGACATATGGACAAATTA
785003 CCTATATTCTTAGGGACATATGG
66 CCTATATTCTTAGGGACATATGG
785026 GCATATTATT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (93 bp):
TTACCTATGTTATTCAGGATATATGGACAGATTACCTATGTTCTTCAGGACATATGGACAAATTA
CCTATATTCTTAGGGACATATGGACAAA
Found at i:797314 original size:21 final size:23
Alignment explanation
Indices: 797288--797339 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
797278 AGGGAATAGA
797288 TCCCCCCATG-A-GGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
**
797309 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCATGAAGGGGAACCGAT
797332 TCCCCCCA
1 TCCCCCCA
797340 CAGGGGAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.17
Consensus pattern (23 bp):
TCCCCCCATGAAGGGGAACCGAT
Found at i:801463 original size:31 final size:31
Alignment explanation
Indices: 801425--801644 Score: 323
Period size: 31 Copynumber: 7.1 Consensus size: 31
801415 GAGTCGAGGG
* * *
801425 TTACCTATTTTCTTTGAGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
801456 TTACCTATGTTCTTCGGGACATATGGACAAA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
801487 TTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
* * *
801518 TTACCTATGTTTTTCAGTACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
801549 TTACCTATGTTCTTCGGGACATATGGACAAA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
**
801580 TTTTCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
* * *
801611 TTACCTATGTTCTTAGGGAAATATGGACAAA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
801642 TTA
1 TTA
801645 TTATAAGAGC
Statistics
Matches: 169, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 169 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:807003 original size:3 final size:3
Alignment explanation
Indices: 806989--807059 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
806979 AAAAAAGTAT
* * * * * * *
806989 TAA TAT TAA TAA TAA TAT TAT TAG TAA AAA TAT TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
807037 TAT TAAA TAA TAA T-A TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TA
807060 GAGGGACGAA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:807006 original size:12 final size:12
Alignment explanation
Indices: 806989--807059 Score: 60
Period size: 12 Copynumber: 6.2 Consensus size: 12
806979 AAAAAAGTAT
806989 TAATATTAATAA
1 TAATATTAATAA
* *
807001 TAATATTATTAG
1 TAATATTAATAA
*
807013 TAA-A--AATAT
1 TAATATTAATAA
* *
807022 TAGTAATAATAA
1 TAATATTAATAA
807034 TAATATTAAATAA
1 TAATATT-AATAA
807047 TAATA-TAATAA
1 TAATATTAATAA
807058 TA
1 TA
807060 GAGGGACGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.11
10 1 0.02
11 8 0.17
12 23 0.49
13 10 0.21
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:807043 original size:27 final size:27
Alignment explanation
Indices: 806989--807059 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
806979 AAAAAAGTAT
* *
806989 TAATATTAATAATAATATTATTAGTAAA
1 TAATATT-ATAATAATAATAATAGTAAA
*
807017 -AATATTAGTAATAATAATAATATTAAA
1 TAATATTA-TAATAATAATAATAGTAAA
*
807044 TAATAATATAATAATA
1 TAATATTATAATAATA
807060 GAGGGACGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.03
27 30 0.81
28 6 0.16
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (27 bp):
TAATATTATAATAATAATAATAGTAAA
Found at i:807423 original size:134 final size:133
Alignment explanation
Indices: 807250--808084 Score: 935
Period size: 134 Copynumber: 6.2 Consensus size: 133
807240 TCAATGTTTT
* * * *
807250 TCAGGGAAGATTGATTCAAGGTAGACTTGTTCCACTGTTACTCAGGTAATATCAAATATTGAGAG
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGG-AATATCAAATCTTGAAAG
* * * * * * *
807315 AGAGGGATTTATACCTCTTTTTCTTGAGGAAAAATCAAATATGGGGATGTTGATTCATTCCACTA
65 AGAGGGATTTGTGCCTCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTG
807380 TCAC
130 TCAC
*
807384 TCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAG
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCA-GGAATATCAAATCTTGAAAG
** * ** * * * * * *
807449 AGAATGATCTGTTTCACTTATTCTTAAGGAAAAATCATATATGGGGACGTTGATTCATTCCACTG
65 AGAGGGATTTGTGCCTCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTG
807514 TCAC
130 TCAC
* * * * *
807518 TTAGGGAAGATTGAATCGATGCATACTTGTTCCACTGTTACTCAAGAATATCAAATCTTGAAAGA
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGAATATCAAATCTTGAAAGA
** * * * * * *
807583 GAATGATATGCTTCGT-TTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTTATTCATTTCACTA
66 GAGGGATTTG-TGCCTCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTG
807647 TCAC
130 TCAC
* * * * *
807651 TTAGGGAAGATTGAATCGACGTAGACTTATTCTACTGTTAATCTC-GGAATATCAAACCTTGAAA
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTT-A-CTCAGGAATATCAAATCTTGAAA
* * * * * *
807715 GAGAGTGATTTGTTCCTCTTCTTCTTGAGGGAAAATTAGATTTTGGGGACGTTGATTCATTCTAC
64 GAGAGGGATTTGTGCCTCTTTTTCTTGAGGGAAAATCAGA-TCTGGGGACGTTGATTCATTCCAC
807780 TGTCAC
128 TGTCAC
* * * * * *
807786 TCAAGGAAGATTGAATCGAGGTAGACTTTTTCTACTTTTACTCAGAGTATATTAAATCTTGAAAG
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAG-GAATATCAAATCTTGAAAG
* * * *
807851 AGAGGGATATGTTGCGT-TTCTTT-TTTAGGGAAAATCAGATCTGGTGG-CGTTGATTAATTCCA
65 AGAGGGATTTG-TGCCTCTT-TTTCTTGAGGGAAAATCAGATCTGG-GGACGTTGATTCATTCCA
807913 CTGTCAC
127 CTGTCAC
* * *
807920 TCAGGGAAGATTGAATCGAGGAAGACTTATTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCA-GGAATATCAAATCTTGAAAG
* *
807985 AGAGGGATTTGT-CCTGCTTTTTCTTGAGGGAAAATCTGATCTGGGGACGATGATTCATTCCACT
65 AGAGGGATTTGTGCCT-CTTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACT
808049 GTCAC
129 GTCAC
* * *
808054 TCAGGGGAGATTGAATCGAGGTCGATTTGTT
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTT
808085 TCTCTTGTAT
Statistics
Matches: 598, Mismatches: 87, Indels: 32
0.83 0.12 0.04
Matches are distributed among these distances:
132 2 0.00
133 120 0.20
134 363 0.61
135 108 0.18
136 5 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (133 bp):
TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGAATATCAAATCTTGAAAGA
GAGGGATTTGTGCCTCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGT
CAC
Found at i:807929 original size:402 final size:402
Alignment explanation
Indices: 807250--808072 Score: 1035
Period size: 402 Copynumber: 2.0 Consensus size: 402
807240 TCAATGTTTT
* * * * * *
807250 TCAGGGAAGATTGATTCAAGGTAGACTTGTTCCACTGTTACTCAGGTAATATCAAATATTGAGAG
1 TCAGGGAAGATTGAATCGACGTAGACTTATTCCACTGTTACTCAGGTAATATCAAACATTGAAAG
* *
807315 AGAGGGATTTATACCTCTTTTTCTTGAGGAAAAATCAAATATGGGGATGTTGATTCATTCCACTA
66 AGAGGGATTTATACCTCTTCTTCTTGAGGAAAAATCAAATATGGGGACGTTGATTCATTCCACTA
* *
807380 TCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTG
131 TCACTCAAGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGAGAATATCAAATCTTG
* * * * *
807445 AAAGAGAATGATCTGTTTCACTTATTCTTAAGGAAAAATCATATATGGGGACGTTGATTCATTCC
196 AAAGAGAAGGATATGTTGCACTTATTCTTAAGGAAAAATCAGATATGGGGACGTTGATTAATTCC
* * * * * *
807510 ACTGTCACTTAGGGAAGATTGAATCGATGCATACTTGTTCCACTGTTACTCA-AGAATATCAAAT
261 ACTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTATTCCACTATTACTCAGAGAATATCAAAT
* * * * *
807574 CTTGAAAGAGAATGATATG-CTTCGTTTTTTCTTGAGGGAAAATCAGATCTGGGGACGTTTATTC
326 CTTGAAAGAGAAGGATATGTCCT-GCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGATGATTC
*
807638 ATTTCACTATCAC
390 ATTCCACTATCAC
* * *
807651 TTAGGGAAGATTGAATCGACGTAGACTTATTCTACTGTTAATCTC-GG-AATATCAAACCTTGAA
1 TCAGGGAAGATTGAATCGACGTAGACTTATTCCACTGTT-A-CTCAGGTAATATCAAACATTGAA
* * * * * * * *
807714 AGAGAGTGATTTGTTCCTCTTCTTCTTGAGGGAAAATTAGATTTTGGGGACGTTGATTCATTCTA
64 AGAGAGGGATTTATACCTCTTCTTCTTGAGGAAAAATCA-AATATGGGGACGTTGATTCATTCCA
* * * * * * *
807779 CTGTCACTCAAGGAAGATTGAATCGAGGTAGACTTTTTCTACTTTTACTCAGAGTATATTAAATC
128 CTATCACTCAAGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGAGAATATCAAATC
* ** * * * * *
807844 TTGAAAGAGAGGGATATGTTGCGTTTCTTTTTTAGGGAAAATCAGATCTGGTGG-CGTTGATTAA
193 TTGAAAGAGAAGGATATGTTGCACTTATTCTTAAGGAAAAATCAGATATGG-GGACGTTGATTAA
*
807908 TTCCACTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTATTCCACTATTACTCAGGGAATATC
257 TTCCACTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTATTCCACTATTACTCAGAGAATATC
* * *
807973 AAATCTTGAAAGAGAGGGATTTGTCCTGCTTTTTCTTGAGGGAAAATCTGATCTGGGGACGATGA
322 AAATCTTGAAAGAGAAGGATATGTCCTGCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGATGA
*
808038 TTCATTCCACTGTCAC
387 TTCATTCCACTATCAC
*
808054 TCAGGGGAGATTGAATCGA
1 TCAGGGAAGATTGAATCGA
808073 GGTCGATTTG
Statistics
Matches: 356, Mismatches: 60, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
401 79 0.22
402 178 0.50
403 97 0.27
404 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (402 bp):
TCAGGGAAGATTGAATCGACGTAGACTTATTCCACTGTTACTCAGGTAATATCAAACATTGAAAG
AGAGGGATTTATACCTCTTCTTCTTGAGGAAAAATCAAATATGGGGACGTTGATTCATTCCACTA
TCACTCAAGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCAGAGAATATCAAATCTTG
AAAGAGAAGGATATGTTGCACTTATTCTTAAGGAAAAATCAGATATGGGGACGTTGATTAATTCC
ACTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTATTCCACTATTACTCAGAGAATATCAAAT
CTTGAAAGAGAAGGATATGTCCTGCTTTTTCTTGAGGGAAAATCAGATCTGGGGACGATGATTCA
TTCCACTATCAC
Found at i:809319 original size:12 final size:10
Alignment explanation
Indices: 809296--809440 Score: 98
Period size: 10 Copynumber: 13.8 Consensus size: 10
809286 CATTCTTTCA
809296 TTCTTTTTTT
1 TTCTTTTTTT
809306 TTCATTTTTATT
1 TTC-TTTTT-TT
809318 TTC--TTTTT
1 TTCTTTTTTT
** *
809326 CACTCTTTTT
1 TTCTTTTTTT
*
809336 TTCTTTTTCT
1 TTCTTTTTTT
809346 TTCTTTTTTCT
1 TTCTTTTTT-T
809357 TTCTTTTTTT
1 TTCTTTTTTT
*
809367 CTT-TCTTTTT
1 -TTCTTTTTTT
*
809377 TTCTTTCTTT
1 TTCTTTTTTT
809387 TTCTTTTTCATT
1 TTCTTTTT--TT
*
809399 TTCTTTCATTTC
1 TTCTTT--TTTT
809411 TTCTTTTTTT
1 TTCTTTTTTT
* *
809421 ACTCATTTTTTC
1 -TTC-TTTTTTT
809433 TTCTTTTT
1 TTCTTTTT
809441 CATTCTTCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 26
0.72 0.11 0.18
Matches are distributed among these distances:
8 3 0.03
9 5 0.05
10 49 0.46
11 21 0.20
12 26 0.25
14 2 0.02
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:809369 original size:69 final size:65
Alignment explanation
Indices: 809262--809444 Score: 167
Period size: 69 Copynumber: 2.7 Consensus size: 65
809252 TATCTTTTTC
* ** *
809262 TTTTTCATTCTTTCATTCTTTTTTCATTCTTTCATTCTTTTTTTTTCATTTTTATTTTCTTTTTC
1 TTTTTC-TT-TTTC-TTCTTTTTTCTTTCTTTTTTTCTTTTTTTTTCATTTCT-TTTTCTTTTTC
809327 ACTCTT
62 A-T-TT
809333 TTTTTCTTTTTCTTTCTTTTTTCTTTCTTTTTTTCTTTCTTTTTTTC-TTTCTTTTTCTTTTTCA
1 TTTTTCTTTTTC-TTCTTTTTTCTTTCTTTTTTTC-TT-TTTTTTTCATTTCTTTTTCTTTTTCA
809397 TTT
63 TTT
* * * * *
809400 TCTTTC-ATTTCTTCTTTTTT-TACTCATTTTTTC-TTCTTTTTCATT
1 TTTTTCTTTTTCTTCTTTTTTCT-TTCTTTTTTTCTTTTTTTTTCATT
809445 CTTCAGGCAA
Statistics
Matches: 98, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
62 7 0.07
63 3 0.03
64 1 0.01
65 18 0.18
66 4 0.04
67 7 0.07
68 1 0.01
69 35 0.36
70 8 0.08
71 14 0.14
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (65 bp):
TTTTTCTTTTTCTTCTTTTTTCTTTCTTTTTTTCTTTTTTTTTCATTTCTTTTTCTTTTTCATTT
Found at i:809388 original size:34 final size:34
Alignment explanation
Indices: 809331--809440 Score: 93
Period size: 38 Copynumber: 3.1 Consensus size: 34
809321 TTTTTCACTC
809331 TTTT-TTTCTTTTTCTTTC-TTTTTTCTTTCTTT
1 TTTTCTTTCTTTTTCTTTCTTTTTTTCTTTCTTT
809363 TTTTCTTTCTTTTTTTCTTTCTTTTTCTT-TTTCATTT
1 TTTTCTTTC--TTTTTCTTTCTTTTT-TTCTTTC-TTT
*
809400 TCTTTCATTTCTTCTTTTTTTACTCATTTTTTC-TTCTTT
1 T-TTTC-TTTCTT-TTTCTTT-CT--TTTTTTCTTTCTTT
809439 TT
1 TT
809441 CATTCTTCAG
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
32 4 0.06
33 4 0.06
35 10 0.16
36 8 0.12
37 8 0.12
38 11 0.17
39 10 0.16
40 5 0.08
41 4 0.06
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (34 bp):
TTTTCTTTCTTTTTCTTTCTTTTTTTCTTTCTTT
Found at i:809400 original size:7 final size:6
Alignment explanation
Indices: 809254--809404 Score: 84
Period size: 6 Copynumber: 24.8 Consensus size: 6
809244 TTGTTTATTA
* *
809254 TCTTTT TCTTTT TCATTCTT TCATTC T-TTTT TCATTCTT TCATTCTT
1 TCTTTT TCTTTT TC-TT-TT TCTTTT TCTTTT TC-TT-TT TC-TT-TT
* * * *
809301 TTTTTT TCATTTT T-ATTT TCTTTT TCACTCT T-TTTT TCTTTT TC--TT
1 TCTTTT TC-TTTT TCTTTT TCTTTT TC-TTTT TCTTTT TCTTTT TCTTTT
*
809347 TCTTTT T-TCTT TCTTTT T-TTCTT TCTTTT T-TTCTT TCTTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTT-TT TCTTTT TCTTTT
*
809394 TCATTT TCTTT
1 TCTTTT TCTTT
809405 CATTTCTTCT
Statistics
Matches: 113, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
4 4 0.04
5 18 0.16
6 57 0.50
7 19 0.17
8 15 0.13
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:809418 original size:41 final size:41
Alignment explanation
Indices: 809258--809419 Score: 128
Period size: 41 Copynumber: 4.0 Consensus size: 41
809248 TTATTATCTT
*
809258 TTTCTTTTTCATTCTTTCA--TTCTTT-TTTCATTCTTTCATTC
1 TTTCTTTTTCATT-TTTCATTTTCTTTCTTTC-TTCTTT-TTTC
* *
809299 TTTTTTTTTCATTTTT-ATTTTC-TT-TTTCACTCTTTTTTTC
1 TTTCTTTTTCATTTTTCATTTTCTTTCTTTC-TTC-TTTTTTC
* *
809339 TTT-TTCTTTCTTTTTTC--TTTCTTTTTTTCTTTCTTTTTTTC
1 TTTCTT-TTTCATTTTTCATTTTCTTTCTTTC-TTC-TTTTTTC
809380 TTTCTTTTTC-TTTTTCATTTTCTTTCATTTCTTCTTTTTT
1 TTTCTTTTTCATTTTTCATTTTCTTTC-TTTCTTCTTTTTT
809420 TACTCATTTT
Statistics
Matches: 103, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
39 7 0.07
40 35 0.34
41 45 0.44
42 12 0.12
43 4 0.04
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.77
Consensus pattern (41 bp):
TTTCTTTTTCATTTTTCATTTTCTTTCTTTCTTCTTTTTTC
Found at i:812124 original size:16 final size:16
Alignment explanation
Indices: 812103--812138 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
812093 TTGATAGGTT
812103 GCCCCTACATTCTTTA
1 GCCCCTACATTCTTTA
812119 GCCCCTACATTCTTTA
1 GCCCCTACATTCTTTA
812135 GCCC
1 GCCC
812139 AAACGACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.42, G:0.08, T:0.33
Consensus pattern (16 bp):
GCCCCTACATTCTTTA
Found at i:814370 original size:20 final size:19
Alignment explanation
Indices: 814340--814407 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
814330 AATCAGATTG
814340 CCCAGGGGGTACAGATTCC
1 CCCAGGGGGTACAGATTCC
*
814359 CCTCAGGTGGTACTA-ATTCCC
1 CC-CAGGGGGTAC-AGATT-CC
*
814380 CCCAGGGGGAACAGATTTCC
1 CCCAGGGGGTACAGA-TTCC
814400 CCCAGGGG
1 CCCAGGGG
814408 ACACCGATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.07
20 31 0.76
21 7 0.17
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (19 bp):
CCCAGGGGGTACAGATTCC
Found at i:814416 original size:20 final size:19
Alignment explanation
Indices: 814340--814420 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 19
814330 AATCAGATTG
*
814340 CCCAGGGGGTACAGATTCC
1 CCCAGGGGGAACAGATTCC
* *
814359 CCTCAGGTGGTACTA-ATTCCC
1 CC-CAGGGGGAAC-AGATT-CC
814380 CCCAGGGGGAACAGATTTCC
1 CCCAGGGGGAACAGA-TTCC
*
814400 CCCA-GGGGACACCGATTCC
1 CCCAGGGGGA-ACAGATTCC
814419 CC
1 CC
814421 TTGTCTAACG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
19 14 0.27
20 31 0.60
21 7 0.13
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (19 bp):
CCCAGGGGGAACAGATTCC
Found at i:814418 original size:40 final size:40
Alignment explanation
Indices: 814340--814420 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
814330 AATCAGATTG
* * *
814340 CCCAGGGGGTACAGATTCCCCTCAGGTGGTACTAATTCCC
1 CCCAGGGGGAACAGATTCCCCTCAGGTGGCACCAATTCCC
*
814380 CCCAGGGGGAACAGATTTCCCC-CAGG-GGACACCGATTCCC
1 CCCAGGGGGAACAGA-TTCCCCTCAGGTGG-CACCAATTCCC
814420 C
1 C
814421 TTGTCTAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 2 0.06
40 27 0.77
41 6 0.17
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (40 bp):
CCCAGGGGGAACAGATTCCCCTCAGGTGGCACCAATTCCC
Found at i:814812 original size:34 final size:31
Alignment explanation
Indices: 814769--814837 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 31
814759 TTTTATAAAG
*
814769 GGGAAAGGTTCTAGCTTAGCTCATGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGC-C-TGGAAAA-CTA
*
814803 GGGAAAGGTTCTAGTTTAGCCTGGAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCTGGAAAACTA
814834 GGGA
1 GGGA
814838 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 7 0.21
32 6 0.18
33 1 0.03
34 19 0.58
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (31 bp):
GGGAAAGGTTCTAGCTTAGCCTGGAAAACTA
Found at i:816963 original size:20 final size:20
Alignment explanation
Indices: 816906--816968 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
816896 AATCAGATTG
816906 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
* *
816926 ACCAGGGGGAACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
816946 CCCAGGGGGTACTA-ATTCCC
1 CCCAGGGGGTAC-AGATTCCC
816966 CCC
1 CCC
816969 TGTCTAACGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 37 0.97
21 1 0.03
ACGTcount: A:0.22, C:0.37, G:0.27, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:817356 original size:34 final size:32
Alignment explanation
Indices: 817317--817387 Score: 106
Period size: 34 Copynumber: 2.2 Consensus size: 32
817307 TTTTGTAAAG
*
817317 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
817351 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
817383 GGGAA
1 GGGAA
817388 TTTGTAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 12 0.34
33 1 0.03
34 22 0.63
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:822351 original size:22 final size:20
Alignment explanation
Indices: 822326--822376 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
822316 TGTTGTTTTG
822326 TTTTAATTTAGTC-ACTGTTAAA
1 TTTTAATTTA-TCTACTGTT--A
*
822348 TTTTGATTTATCTACTGTTA
1 TTTTAATTTATCTACTGTTA
822368 TTTTAATTT
1 TTTTAATTT
822377 TTGCATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 2 0.08
22 15 0.58
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTTAATTTATCTACTGTTA
Found at i:827434 original size:76 final size:76
Alignment explanation
Indices: 827290--827520 Score: 238
Period size: 76 Copynumber: 3.1 Consensus size: 76
827280 TACAGATTGT
* * * *
827290 TTTTTATTCAAAC-AGACTTTATCTCACTTTAGACTA-TTTT-ACTCGAAAA-AAGACATTTCGT
1 TTTTTATTAAAACAAGA-TTTGTCTCACTTGAGAC-AGTTTTCACTC-AAAACAAGACATTTCAT
* *
827351 TTGACTCAATATTA
63 TTAACTCAAGATTA
* * * * * *
827365 TTTTTCTTAAAACAATATTTGTCTCACTTGAGATAGTTTTTACTCTAAACAAGAAGATTT-ATTT
1 TTTTTATTAAAACAAGATTTGTCTCACTTGAGACAGTTTTCACTCAAAACAAG-ACATTTCATTT
* *
827429 CACTCAAGATTG
65 AACTCAAGATTA
* * *
827441 TTTTTATTAAAACAAGATTTTTCTCGCTTGAGACAGTTTTCACTCAAAAGAAGACATTTCATTTA
1 TTTTTATTAAAACAAGATTTGTCTCACTTGAGACAGTTTTCACTCAAAACAAGACATTTCATTTA
827506 ACTCAAGATTA
66 ACTCAAGATTA
827517 TTTT
1 TTTT
827521 AAAGAAGATT
Statistics
Matches: 127, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
74 1 0.01
75 37 0.29
76 84 0.66
77 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.42
Consensus pattern (76 bp):
TTTTTATTAAAACAAGATTTGTCTCACTTGAGACAGTTTTCACTCAAAACAAGACATTTCATTTA
ACTCAAGATTA
Found at i:827551 original size:72 final size:74
Alignment explanation
Indices: 827371--827551 Score: 199
Period size: 76 Copynumber: 2.4 Consensus size: 74
827361 ATTATTTTTC
* * * * * * *
827371 TTAAAACAATATTTGTCTCACTTGAGATAGTTTTTACTCTAAACAAGAAGATTTATTTCACTCAA
1 TTAAAACAAGATTTTTCTCGCTTGAGATAGTTTTCACTCAAAACAAGAACATTTATTTAACTCAA
*
827436 GATTGTTTTTA
66 GA-T-TTATTA
* *
827447 TTAAAACAAGATTTTTCTCGCTTGAGACAGTTTTCACTCAAAAGAAG-ACATTTCATTTAACTCA
1 TTAAAACAAGATTTTTCTCGCTTGAGATAGTTTTCACTCAAAACAAGAACATTT-ATTTAACTCA
827511 AGA-TTATT-
65 AGATTTATTA
*
827519 TT-AAAGAAGATTTTATCTCGCTTGAGATAGTTT
1 TTAAAACAAGATTTT-TCTCGCTTGAGATAGTTT
827552 CCCTTGAAAC
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
71 11 0.12
72 19 0.21
73 4 0.04
75 5 0.05
76 52 0.57
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (74 bp):
TTAAAACAAGATTTTTCTCGCTTGAGATAGTTTTCACTCAAAACAAGAACATTTATTTAACTCAA
GATTTATTA
Found at i:827577 original size:39 final size:39
Alignment explanation
Indices: 827523--827883 Score: 470
Period size: 39 Copynumber: 9.3 Consensus size: 39
827513 ATTATTTTAA
* *
827523 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
827562 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCATCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
827601 AGAATATTTTGCCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
827640 AGAAGATTTTGTCTCGATTGAGATAGTTTCCCTCGAAAT
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
827679 AGAAGATTTTGTCTCACTTGACATAGTTTCCCTCAAAAT
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * ** *
827718 AGAAAATTTTATCTTACTTGAGATAGTTTCCCTCGAAGC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
827757 AAAAGATTTTGTCTCACTCGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
827796 AAAAGATTTTATCTCGCTTGCGATAGTCTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
827835 AGAAGATTTTATCTCGCTTGAGATAGTTTCTCTCTAAAT
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
827874 AAAAGATTTT
1 AGAAGATTTT
827884 ATAAGAAACT
Statistics
Matches: 283, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 283 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (39 bp):
AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:827976 original size:42 final size:42
Alignment explanation
Indices: 827917--828007 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
827907 AAGATTTTCT
* * * *
827917 TGATGAGTAAGTCCTTCAGGCCATC-AGTAAGTCTTTTGAGCA
1 TGATGATTAAATCCTTCAAGCCATCTA-TAAGTCTTTAGAGCA
* *
827959 TGATGATTAAATCCTTCAAGTCTTCTATAAGTCTTTAGAGCA
1 TGATGATTAAATCCTTCAAGCCATCTATAAGTCTTTAGAGCA
*
828001 AGATGAT
1 TGATGAT
828008 AAGTCATTCG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (42 bp):
TGATGATTAAATCCTTCAAGCCATCTATAAGTCTTTAGAGCA
Found at i:828423 original size:20 final size:19
Alignment explanation
Indices: 828395--828433 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
828385 CTTGAGACAG
828395 TTTCCCTTGAAACAAGTTTT
1 TTTCCCTTGAAA-AAGTTTT
* *
828415 TTTCGCTTGAGAAAGTTTT
1 TTTCCCTTGAAAAAGTTTT
828434 CCATCGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (19 bp):
TTTCCCTTGAAAAAGTTTT
Found at i:829060 original size:50 final size:50
Alignment explanation
Indices: 829005--829103 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
828995 TCCATAGTAG
* *
829005 AAGGAGTTGGATCAGCTTGAACTTTTAGCTCAATTCTATCACAGAAGGAT
1 AAGGAGTTGGATCAGCATAAACTTTTAGCTCAATTCTATCACAGAAGGAT
*
829055 AAGGAGTTGGATCAGCATAAACTTTTAGCTCGATTCTATCACAGAAGGA
1 AAGGAGTTGGATCAGCATAAACTTTTAGCTCAATTCTATCACAGAAGGA
829104 GGTAGATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGGAGTTGGATCAGCATAAACTTTTAGCTCAATTCTATCACAGAAGGAT
Found at i:829213 original size:133 final size:129
Alignment explanation
Indices: 829055--829334 Score: 371
Period size: 133 Copynumber: 2.1 Consensus size: 129
829045 ACAGAAGGAT
*
829055 AAGGAGTTGGATCAGCATAAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATTAACACCAA
1 AAGGAGTTGGATCAGCATAAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAA
* * *
829120 CATCTCATTCGATTCCATCACAGAAGGAGATGGATCGATATTTTTATTTTCGCTCAAATCCATCA
66 CATCTCATTCAATTCCATCACAGAAGGAGATGGATCGACA--TTT-TTTT-GCTCAAATACATCA
829185 CAG
127 CAG
* * * * * * * *
829188 TAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTTTGTGACAGAAGGAGGTAGATCAGCACCGA
1 AAGGAGTTGGATCAGCATAAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAA
** * * *
829253 CATCTCATTCAATTCTGTGACAGAAGGAGGTGGATCGACATTTTTTTGCTCAAATACATCGCAG
66 CATCTCATTCAATTCCATCACAGAAGGAGATGGATCGACATTTTTTTGCTCAAATACATCACAG
829317 AAGGAGTTGGATCAGCAT
1 AAGGAGTTGGATCAGCAT
829335 CTTCAACATG
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
129 31 0.24
130 4 0.03
131 3 0.02
133 90 0.70
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (129 bp):
AAGGAGTTGGATCAGCATAAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAA
CATCTCATTCAATTCCATCACAGAAGGAGATGGATCGACATTTTTTTGCTCAAATACATCACAG
Found at i:832299 original size:17 final size:17
Alignment explanation
Indices: 832277--832310 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
832267 CACAGATCCA
832277 ACGTCTGATGGTGAGCG
1 ACGTCTGATGGTGAGCG
832294 ACGTCTGATGGTGAGCG
1 ACGTCTGATGGTGAGCG
832311 GCGCATGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.24
Consensus pattern (17 bp):
ACGTCTGATGGTGAGCG
Found at i:834673 original size:3 final size:3
Alignment explanation
Indices: 834654--834699 Score: 74
Period size: 3 Copynumber: 14.7 Consensus size: 3
834644 ATATTATAAA
834654 TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
834700 ATGTTACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:836876 original size:2 final size:2
Alignment explanation
Indices: 836862--836906 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
836852 ATTGATGTAT
836862 TA TA TA T- TA -A 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
836902 TA TA T
1 TA TA T
836907 GGTATAACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:844407 original size:125 final size:125
Alignment explanation
Indices: 844192--844499 Score: 375
Period size: 125 Copynumber: 2.5 Consensus size: 125
844182 TGTGGCACGT
* * ** * *
844192 CTGAACCCACATTATATTGAGATGACAACTTTTAGACCAAGGAGACATTAAGAATGAGCCTTACA
1 CTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGACATGAAGAATGAGCCTTACA
*
844257 ATTTGAGGTGATGAGGCATTTTGAAGGCCCATAATAGTATAAGATAACATGGGGGCACAA
66 ATTTGAGGTGATGAGGCATTTTGAAGGCCCATAACAGTATAAGATAACATGGGGGCACAA
* * *
844317 CTGAACCCATATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATTAGCCTTACA
1 CTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGACATGAAGAATGAGCCTTACA
* *** * ** * *
844382 ATTTGAGGTGATGGGGCATTTTGAAGGCTTGTACCAGTATAAGATAAGGTTGGGGCACGA
66 ATTTGAGGTGATGAGGCATTTTGAAGGCCCATAACAGTATAAGATAACATGGGGGCACAA
* * ** * *
844442 CTGAACCCACGTCATGATGAGAAAACAAGATTCAGACCAAGAAGTCATTG-AGAATGAG
1 CTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGACA-TGAAGAATGAG
844500 TCTCGCAACT
Statistics
Matches: 155, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
125 153 0.99
126 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (125 bp):
CTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAGACATGAAGAATGAGCCTTACA
ATTTGAGGTGATGAGGCATTTTGAAGGCCCATAACAGTATAAGATAACATGGGGGCACAA
Found at i:845278 original size:36 final size:35
Alignment explanation
Indices: 845225--845436 Score: 205
Period size: 36 Copynumber: 6.0 Consensus size: 35
845215 TGGGGCAAGT
* * * * *
845225 CAATCCTAAGCTTTCACTGGAGAGTACTGAAGCAA
1 CAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
* * *
845260 TTAATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAA
1 -CAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
* * *
845296 TCCAT-TTGAAGCCTTCACCAAAGAGTAGTGAAGTAA
1 -CAATCTT-AAGCCTTCACCGAAGAGTAGTGAAGCAA
* * *
845332 TC-ATCTTAAGCCTTCACCGAAGAATGGTGAAGTAAA
1 -CAATCTTAAGCCTTCACCGAAGAGTAGTGAAG-CAA
*
845368 CAATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-A
1 CAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
**
845402 CCGTCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
1 CAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
845437 ATCCATCTGT
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
34 31 0.21
35 28 0.19
36 91 0.61
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (35 bp):
CAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
Found at i:845362 original size:71 final size:70
Alignment explanation
Indices: 845245--845453 Score: 224
Period size: 71 Copynumber: 2.9 Consensus size: 70
845235 CTTTCACTGG
* * * *
845245 AGAGTACTGAAGCAATTAATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCCATTTGAAGCCT
1 AGAGTAGTGAAG-AA-TCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCCATTTGAAGCCT
845310 TCACCA-A
64 TCA-CAGA
* * * * *
845317 AGAGTAGTGAAGTAATCATCTTAAGCCTTCACCGAAGAATGGTGAAGTAAACAATCTT-AAGCCT
1 AGAGTAGTGAAG-AATCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCCAT-TTGAAGCCT
845381 TCACAGA
64 TCACAGA
* * * *
845388 AGAGTAGTGAAGCACCGTCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTGTAAGCCT
1 AGAGTAGTGAAGAATCATCTTAAGCCTTCACCGAAGAGTAGTGAAGC-AATCCATTTG-AAGCCT
845453 T
64 T
845454 TATAGCAAGA
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
70 32 0.28
71 59 0.52
72 22 0.19
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (70 bp):
AGAGTAGTGAAGAATCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCCATTTGAAGCCTTC
ACAGA
Found at i:845713 original size:83 final size:83
Alignment explanation
Indices: 845602--845792 Score: 292
Period size: 83 Copynumber: 2.3 Consensus size: 83
845592 TTCACAATTT
* * * *
845602 ATAAGTCCTTCGGGCCAGCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCAGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCAGGTCATCTGTA
845667 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
* * * **
845685 ATAAGTCCTTTGGGCCATCAATAAGTCTTTTGAGCATAATGCTTAAATCTTTTGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCAGGTCATCTGTA
845750 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
*
845768 ATAAGTCCTTCGGGCCATCCATAAG
1 ATAAGTCCTTCGGGCCATCAATAAG
845793 ACCTTTGGGT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 97 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCAGGTCATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:845720 original size:41 final size:42
Alignment explanation
Indices: 845602--845786 Score: 160
Period size: 42 Copynumber: 4.5 Consensus size: 42
845592 TTCACAATTT
* * * * *
845602 ATAAGTCCTTCGGGCCAGCAGTAAGTCTTTCGAGCATGATGT
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * * *
845644 TTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
845685 ATAAGTCCTTTGGGCCATCAATAAGTCTTTTGAGCATA-ATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCA-AGATGC
* * * * * *
845727 TTAAATCTTTTGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
845768 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
845787 CATAAGACCT
Statistics
Matches: 109, Mismatches: 31, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
41 45 0.41
42 64 0.59
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
Found at i:845953 original size:42 final size:41
Alignment explanation
Indices: 845906--846055 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 41
845896 AATTTATAAG
845906 TCCTTCGGGCAATCAGTAAGTCTTTCAAGCATGATGCTTAAA
1 TCCTTCGGGC-ATCAGTAAGTCTTTCAAGCATGATGCTTAAA
* * * * *
845948 TCCTTCGGGTCATCTGTAAGCCTTT-AGAGTAAT-ATG-ATAAG
1 TCCTTCGGG-CATCAGTAAGTCTTTCA-AG-CATGATGCTTAAA
* *
845989 TCCTTCGGACCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGG-GCATCAGTAAGTCTTTCAAGCATGATGCTTAAA
* *
846031 TCCTTCGGGTCATCTGTAAGCCTTT
1 TCCTTCGGG-CATCAGTAAGTCTTT
846056 AGAGAAGGAT
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
40 2 0.02
41 30 0.35
42 50 0.59
43 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (41 bp):
TCCTTCGGGCATCAGTAAGTCTTTCAAGCATGATGCTTAAA
Found at i:845987 original size:299 final size:300
Alignment explanation
Indices: 845440--846272 Score: 1211
Period size: 299 Copynumber: 2.8 Consensus size: 300
845430 GAAGCAAATC
*
845440 CATCTGTAAGCCTTTATAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGA
* *
845505 TGTCTTCAAATGAATTTGAAAATGAAAAAAAATGATGTTTTAAGAAGATGAATTTTTTAAAAAAA
66 TGTCTTCAAATGAATTTGAAAATGAAAAAAAATGATGTTTTAAGAAGATGAAATTTTT--GAAAA
* *
845570 CTAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCAGCAGTAAGTCTTTCGA
129 CTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
* * * *
845635 GCATGATGTTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTTGGGC
194 GCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGAC
* * *
845700 CATCAATAAGTCTTTTGAGCATAATGCTTAAATCTTTTGGGT
259 CATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCGGGT
845742 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGA
845807 TGTCTTCAAATGAATTTGAAAATG-AAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
66 TGTCTTCAAATGAATTTGAAAATGAAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
* * *
845871 AAGAATGCGATTTTGAAAATTTCACAATTTATAAGTCCTTCGGGCAATCAGTAAGTCTTTCAAGC
131 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* * *
845936 ATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGTAATATGATAAGTCCTTCGGACCA
196 ATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGACCA
* *
846001 TCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
261 TCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCGGGT
* ** *
846041 CATCTGTAAGCCTTTAGAG-AAGGATGATAAGTCATTCATGCCATCCATAAGACCTTCGGGTAGG
1 CATCTGTAAGCCTTTAGAGCAA-GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGG
* * * * * *
846105 GTGTTTTCACATGAATTTGAAAATGAAAAAAAAATGATGTTTTAAGAATATGAAAATTTTGAGAA
65 ATGTCTTCAAATGAATTTGAAAATG-AAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAA
* * * * * * * * * * * *
846170 GTAAGAAGGTGATTTCCAATACTTCGCACTATAAAAGTGCTTTGGGCCATCAGTAAGTCTTTCGA
129 CTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
* * *
846235 GCATGATGATTAAATCCTTCGGGTAATTTATAAGCCTT
194 GCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTT
846273 CCGAAGAGTT
Statistics
Matches: 480, Mismatches: 48, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
298 2 0.00
299 239 0.50
301 151 0.31
302 88 0.18
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (300 bp):
CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGA
TGTCTTCAAATGAATTTGAAAATGAAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
ATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGACCA
TCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCGGGT
Found at i:846008 original size:41 final size:40
Alignment explanation
Indices: 845948--846073 Score: 135
Period size: 41 Copynumber: 3.0 Consensus size: 40
845938 GATGCTTAAA
845948 TCCTTCGGGTCATCTGTAAGCCTTTAGAGTAATATGATAAG
1 TCCTTCGGGTCATCTGTAAGCCTTTAGAG-AATATGATAAG
** * * * * * *
845989 TCCTTCGGACCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTCATCTGTAAGCCTTTAGAGAAT-ATG-ATAAG
*
846031 TCCTTCGGGTCATCTGTAAGCCTTTAGAGAAGGATGATAAG
1 TCCTTCGGGTCATCTGTAAGCCTTTAGAGAA-TATGATAAG
846072 TC
1 TC
846074 ATTCATGCCA
Statistics
Matches: 65, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
40 2 0.03
41 32 0.49
42 31 0.48
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (40 bp):
TCCTTCGGGTCATCTGTAAGCCTTTAGAGAATATGATAAG
Found at i:846040 original size:83 final size:83
Alignment explanation
Indices: 845901--846073 Score: 294
Period size: 83 Copynumber: 2.1 Consensus size: 83
845891 TTCACAATTT
*
845901 ATAAGTCCTTCGGGCAATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGACAATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
*
845966 AGCCTTTAGAGTAA-TATG
66 AGCCTTTAGAG-AAGGATG
* *
845984 ATAAGTCCTTCGGACCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGACAATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
846049 AGCCTTTAGAGAAGGATG
66 AGCCTTTAGAGAAGGATG
846067 ATAAGTC
1 ATAAGTC
846074 ATTCATGCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
82 2 0.02
83 83 0.98
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (83 bp):
ATAAGTCCTTCGGACAATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTAGAGAAGGATG
Found at i:846392 original size:79 final size:78
Alignment explanation
Indices: 846218--846386 Score: 175
Period size: 78 Copynumber: 2.2 Consensus size: 78
846208 GCTTTGGGCC
* * * * * * *
846218 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTATAAGCCTTCCGAAGAGTT
1 ATCAATAAGCCTTCCGAACATGATGATTAAATCCTTCGGGTAATCTATAAGCCTTCCAAAGAGTA
*
846283 GTGAAGCAAATCC
66 GTGAAGCAAATCA
* *
846296 ATCAATAAGCCTTCCGAACATGATGATTAAGTCCTTTGGGCT-ATCT-TAAGCCTTCACCAAAGA
1 ATCAATAAGCCTTCCGAACATGATGATTAAATCCTTCGGG-TAATCTATAAGCCTT--CCAAAGA
*
846359 GTAGTGAAGC-GATCA
63 GTAGTGAAGCAAATCA
*
846374 ATC-TTAAGCCTTC
1 ATCAATAAGCCTTC
846387 ACCGAAGAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
77 17 0.22
78 43 0.57
79 16 0.21
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (78 bp):
ATCAATAAGCCTTCCGAACATGATGATTAAATCCTTCGGGTAATCTATAAGCCTTCCAAAGAGTA
GTGAAGCAAATCA
Found at i:846427 original size:37 final size:37
Alignment explanation
Indices: 846338--846451 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
846328 CCTTTGGGCT
* *
846338 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGC-GATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
*
846374 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
*
846411 ATTTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
846448 ATCT
1 ATCT
846452 CGAGTCTGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 30 0.42
37 41 0.58
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
Found at i:846651 original size:3 final size:3
Alignment explanation
Indices: 846632--846689 Score: 98
Period size: 3 Copynumber: 18.7 Consensus size: 3
846622 ATATTATAAA
846632 TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
846679 TAT TAT TAT TA
1 TAT TAT TAT TA
846690 ATGTTACATA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:850517 original size:45 final size:47
Alignment explanation
Indices: 850436--850537 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 47
850426 CCTCGAATTT
* *
850436 ATTTA-TTTTTGCAAAAAGTATGCGAACTAGAGATCATGTGGTTAGG
1 ATTTATTTTTTGCAAAAAGCATGCGAACTAGAGATCATGCGGTTAGG
* * * *
850482 -TTTATTTTTTG-AACAAGCATGTGAATTAGATATCATGCGGTTAGG
1 ATTTATTTTTTGCAAAAAGCATGCGAACTAGAGATCATGCGGTTAGG
*
850527 ATTTTTTTTTT
1 ATTTATTTTTT
850538 TTTTTTTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 32 0.68
46 15 0.32
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (47 bp):
ATTTATTTTTTGCAAAAAGCATGCGAACTAGAGATCATGCGGTTAGG
Found at i:856560 original size:125 final size:125
Alignment explanation
Indices: 856327--856654 Score: 451
Period size: 125 Copynumber: 2.6 Consensus size: 125
856317 ACATTCATGT
* * **
856327 TAAGAT-ATGTTGGGGCACGACTGAACCCACATTATGTTGAGATGATAACTTTCAGACCAAGGAG
1 TAAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAG
* * *
856391 ACATGAAGAATGAGCCTTACAATTTGAGGTGATGGGTCATTTTGAAGACTCGTGCTAGTA
66 ACATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGACTCGTACCAGTA
*
856451 TAAGATAATGTGGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAG
1 TAAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAG
* * * * *
856516 GCTTGAAGAATGTGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCTTGTACCAGTA
66 ACATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGACTCGTACCAGTA
* * ** ** *
856576 TAAGATAAGGTTGGGGCACGACTGAACCCACGTCATGAAGAGAAAACAAGATTCAGACCAAGAAG
1 TAAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAG
* *
856641 TCATTAAGAATGAG
66 ACATGAAGAATGAG
856655 TCTCCCAACT
Statistics
Matches: 178, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
124 6 0.03
125 172 0.97
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (125 bp):
TAAGATAATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGGAG
ACATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGACTCGTACCAGTA
Found at i:857421 original size:36 final size:35
Alignment explanation
Indices: 857381--857591 Score: 180
Period size: 36 Copynumber: 6.0 Consensus size: 35
857371 GGGGCAAGTC
* * *
857381 AATCTTAAGCCTTCATTTGAGAGTACTGAAGCAAAT
1 AATCTTAAGCCTTCACTAGAGAGTAGTGAAGC-AAT
* * *
857417 AATCTTAACCCTTCACTGGAGAGTAGTGAAGCGAT
1 AATCTTAAGCCTTCACTAGAGAGTAGTGAAGCAAT
* *
857452 CCAT-TTGAAGCCTTCACTAAAGAGTAGTGAAGCAAT
1 -AATCTT-AAGCCTTCACTAGAGAGTAGTGAAGCAAT
* * * *
857488 CATCTTAAGCCTTCAC-CGAAGAATGGTGAAGCAAAT
1 AATCTTAAGCCTTCACTAG-AGAGTAGTGAAGC-AAT
*
857524 AATCTTAAGCCTTCAC-AGAAGAGTAGTGAAGC-AC
1 AATCTTAAGCCTTCACTAG-AGAGTAGTGAAGCAAT
* * *
857558 CATATTAAGCCTTCA-TCGAAGAGTAGTGAAGCAA
1 AATCTTAAGCCTTCACTAG-AGAGTAGTGAAGCAA
857592 ATCTATCTGT
Statistics
Matches: 146, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
34 29 0.20
35 29 0.20
36 88 0.60
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (35 bp):
AATCTTAAGCCTTCACTAGAGAGTAGTGAAGCAAT
Found at i:857525 original size:107 final size:108
Alignment explanation
Indices: 857407--857608 Score: 297
Period size: 107 Copynumber: 1.9 Consensus size: 108
857397 TTGAGAGTAC
* *
857407 TGAAGCAAATAATCTTAACCCTTCACTGGAGAGTAGTGAAGCGATCCAT-TTGAAGCCTTCA-CT
1 TGAAGCAAATAATCTTAACCCTTCACAGAAGAGTAGTGAAGC-A-CCATATT-AAGCCTTCATC-
857470 AAAGAGTAGTGAAGC-AATC-ATCT-TAAGCCTTCACCGAAGAATGG
62 AAAGAGTAGTGAAGCAAATCTATCTGTAAGCCTTCACCGAAGAATGG
* *
857514 TGAAGCAAATAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACCATATTAAGCCTTCATCGAAG
1 TGAAGCAAATAATCTTAACCCTTCACAGAAGAGTAGTGAAGCACCATATTAAGCCTTCATCAAAG
857579 AGTAGTGAAGCAAATCTATCTGTAAGCCTT
66 AGTAGTGAAGCAAATCTATCTGTAAGCCTT
857609 TAGAGTAAGA
Statistics
Matches: 86, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
105 27 0.31
106 8 0.09
107 43 0.50
108 8 0.09
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (108 bp):
TGAAGCAAATAATCTTAACCCTTCACAGAAGAGTAGTGAAGCACCATATTAAGCCTTCATCAAAG
AGTAGTGAAGCAAATCTATCTGTAAGCCTTCACCGAAGAATGG
Found at i:857534 original size:71 final size:72
Alignment explanation
Indices: 857374--857608 Score: 246
Period size: 71 Copynumber: 3.3 Consensus size: 72
857364 TGAGATTGGG
* * ** * * * * *
857374 GCAAGTCAATCTTAAGCCTTCATTTGAGAGTACTGAAGCAAATAATCTTAACCCTTCACTGGAGA
1 GCAAATCAATCTTAAGCCTTCACTAAAGAGTAGTGAAGC-AATCATCTTAAGCCTTCACCGAAGA
857439 GTAGTGAA
65 GTAGTGAA
* *
857447 GC-GATCCAT-TTGAAGCCTTCACTAAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCGAAGA
1 GCAAATCAATCTT-AAGCCTTCACTAAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCGAAGA
* *
857510 ATGGTGAA
65 GTAGTGAA
* * *
857518 GCAAAT-AATCTTAAGCCTTCAC-AGAAGAGTAGTGAAGC-ACCATATTAAGCCTTCATCGAAGA
1 GCAAATCAATCTTAAGCCTTCACTA-AAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCGAAGA
857580 GTAGTGAA
65 GTAGTGAA
*
857588 GCAAATCTATCTGTAAGCCTT
1 GCAAATCAATCT-TAAGCCTT
857609 TAGAGTAAGA
Statistics
Matches: 135, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
70 34 0.25
71 61 0.45
72 38 0.28
73 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (72 bp):
GCAAATCAATCTTAAGCCTTCACTAAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCGAAGAG
TAGTGAA
Found at i:857860 original size:41 final size:42
Alignment explanation
Indices: 857753--857937 Score: 212
Period size: 42 Copynumber: 4.5 Consensus size: 42
857743 TTCACAATTT
* * * *
857753 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * * *
857795 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGGAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * *
857836 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
857878 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
857919 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
857938 CATAAGAACT
Statistics
Matches: 115, Mismatches: 27, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
41 49 0.43
42 66 0.57
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
Found at i:857892 original size:83 final size:83
Alignment explanation
Indices: 857753--857937 Score: 352
Period size: 83 Copynumber: 2.2 Consensus size: 83
857743 TTCACAATTT
*
857753 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
*
857818 AGCCTTTAGAGGAAGATG
66 AGCCTTTAGAGCAAGATG
857836 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
857901 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
857919 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
857938 CATAAGAACT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 100 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:858134 original size:298 final size:298
Alignment explanation
Indices: 857596--858152 Score: 938
Period size: 298 Copynumber: 1.9 Consensus size: 298
857586 AAGCAAATCT
* *
857596 ATCTGTAAGCCTTTAGAGTAAGATCATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGAT
1 ATCTGTAAGCCTTTAGAGCAAGATCATAAGTCCTTCAGGCCATCCATAAGAACTTCGGGTAGGAT
* * *
857661 GTTTTCACATGAATTTAAAAATGAAAAAATGATGTTTTAAGAGGATGAAATTTTTGAAAACTAAG
66 GTTTTCAAATGAATTTAAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAA
*
857726 AATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGATCATG
131 AATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
* * *
857791 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGGAAGATGATAAGTCCTTCGGGCCATCA
196 ATCCTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCA
857856 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
261 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
* * *
857894 ATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGAACTTTGGGTAGGAT
1 ATCTGTAAGCCTTTAGAGCAAGATCATAAGTCCTTCAGGCCATCCATAAGAACTTCGGGTAGGAT
*
857959 GTCTTT-AAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 GT-TTTCAAATGAATTTAAAAATG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
**
858023 AAAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
129 AAAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
858088 TGATCCTTAAATCATTC-GGTTATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCAT
194 TGATCCTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCAT
858152 C
259 C
858153 CATAAGACCT
Statistics
Matches: 241, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
298 123 0.51
299 118 0.49
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (298 bp):
ATCTGTAAGCCTTTAGAGCAAGATCATAAGTCCTTCAGGCCATCCATAAGAACTTCGGGTAGGAT
GTTTTCAAATGAATTTAAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAA
AATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATCCTTAAATCATTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCA
GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
Found at i:858208 original size:215 final size:215
Alignment explanation
Indices: 857836--858321 Score: 722
Period size: 215 Copynumber: 2.3 Consensus size: 215
857826 GAGGAAGATG
857836 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC-GGTCATCTGTA
*
857901 AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGAACTTTGGGTAGGATGTCTTTA
65 AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGAACTTTGGGTAGGATATCTTTA
* * *
857966 AATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAAAATGTG
130 AATGAATTTAAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAAAAGGCG
* * *
858031 ATTTTCAAAATTTCACAATTT
195 ATTTCCAAAACTTCACAATAT
* * *
858052 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATCCTTAAATCATTCGGTTATCTGTAA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGTCATCTGTAA
* *
858117 GCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGGTAT-TTTCA
66 GCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGAACTTTGGGTAGGATATCTTT-A
* ** * * *
858181 CATGAATTTAAAAATGTCAAAAATGATGTTTTAAGAAGATGAAATTTTTGAGAAGTAAGAAGGCG
130 AATGAATTTAAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAAAAGGCG
* * * *
858246 GTTTCCAATACTTCGCACTAT
195 ATTTCCAAAACTTCACAATAT
* * *
858267 ATAAGTCCTTCGGGACATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
858322 GTAATTTGTA
Statistics
Matches: 242, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
214 3 0.01
215 188 0.78
216 51 0.21
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (215 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGTCATCTGTAA
GCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGAACTTTGGGTAGGATATCTTTAA
ATGAATTTAAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAAAAGGCGA
TTTCCAAAACTTCACAATAT
Found at i:858497 original size:37 final size:37
Alignment explanation
Indices: 858403--858516 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
858393 CCTCCGAGTT
*
858403 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGC-GATCA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
* *
858439 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
* *
858476 ATTTTAAGCCTTCACCAAAGAGTAGTGAATCAAATCA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
858513 ATCT
1 ATCT
858517 CGAGTCTGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
36 30 0.43
37 39 0.57
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
Found at i:858721 original size:3 final size:3
Alignment explanation
Indices: 858702--858735 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
858692 ATATTATAAA
858702 TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TA
858736 ATGTTACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:862150 original size:21 final size:20
Alignment explanation
Indices: 862113--862160 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
862103 AGTTGAGTTG
862113 TAAAATAAAACTAGAATAAC
1 TAAAATAAAACTAGAATAAC
* *
862133 TAAAATAGTAACTTGAATAAC
1 TAAAATA-AAACTAGAATAAC
862154 TCAAAAT
1 T-AAAAT
862161 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.25
Consensus pattern (20 bp):
TAAAATAAAACTAGAATAAC
Found at i:863114 original size:26 final size:26
Alignment explanation
Indices: 863054--863116 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
863044 ATTTCATGAT
*
863054 ATGATAAAATTATATTTTATCCATAA
1 ATGATAAAGTTATATTTTATCCATAA
863080 ATGATAAAGTTATATTTTATCCATAA
1 ATGATAAAGTTATATTTTATCCATAA
863106 ATGATAAAGTT
1 ATGATAAAGTT
863117 TCAATTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (26 bp):
ATGATAAAGTTATATTTTATCCATAA
Found at i:865185 original size:2 final size:2
Alignment explanation
Indices: 865178--865211 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
865168 CTGTCTATGT
865178 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
865212 TTAGAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:869500 original size:22 final size:23
Alignment explanation
Indices: 869475--869521 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
869465 TTTAATAAGA
869475 ATATAATTAATTT-ATATTTTTT
1 ATATAATTAATTTAATATTTTTT
*
869497 ATATAATTATTTTAATATTTTTT
1 ATATAATTAATTTAATATTTTTT
869520 AT
1 AT
869522 TTGTTTAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATAATTAATTTAATATTTTTT
Found at i:870243 original size:138 final size:139
Alignment explanation
Indices: 870040--870313 Score: 505
Period size: 138 Copynumber: 2.0 Consensus size: 139
870030 TAAGATATGG
*
870040 TTATTCTGTATGTTTTTATAGGATGGTTCAAGCTATGCATTTTCTATATCATAAGTTGTAGCTTT
1 TTATTCTGTATGTTTTTATAGGACGGTTCAAGCTATGCATTTTCTATATCATAAGTTGTAGCTTT
*
870105 GCTTA-TTTTTTGGAGTGCTCTTCGTGTTGGTTGTTTTAGTCTTCTCCTCAGTGGTGTATTGGTG
66 GCTTATTTTTTTGGAGTGCTCTTAGTGTTGGTTGTTTTAGTCTTCTCCTCAGTGGTGTATTGGTG
870169 TCGAAACGA
131 TCGAAACGA
*
870178 TTATTCTGTATGTTTTTATAGGACGGTTCAAGCTATGCATTTTCTATATCGTAAGTTGTAGCTTT
1 TTATTCTGTATGTTTTTATAGGACGGTTCAAGCTATGCATTTTCTATATCATAAGTTGTAGCTTT
*
870243 GCTTATTTTTTTGGAGTGCTTTTAGTGTTGGTTGTTTTAGTCTTCTCCTCAGTGGTGTATTGGTG
66 GCTTATTTTTTTGGAGTGCTCTTAGTGTTGGTTGTTTTAGTCTTCTCCTCAGTGGTGTATTGGTG
870308 TCGAAA
131 TCGAAA
870314 TAATATTTTT
Statistics
Matches: 131, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
138 68 0.52
139 63 0.48
ACGTcount: A:0.17, C:0.12, G:0.23, T:0.48
Consensus pattern (139 bp):
TTATTCTGTATGTTTTTATAGGACGGTTCAAGCTATGCATTTTCTATATCATAAGTTGTAGCTTT
GCTTATTTTTTTGGAGTGCTCTTAGTGTTGGTTGTTTTAGTCTTCTCCTCAGTGGTGTATTGGTG
TCGAAACGA
Found at i:871164 original size:131 final size:130
Alignment explanation
Indices: 870898--871292 Score: 571
Period size: 131 Copynumber: 3.0 Consensus size: 130
870888 AAATTTTAAA
* * *
870898 AGAGAAAGCGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATCCCTTAAAGCAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCAG
* ** *
870962 TCATTTATTACTCCAATCGAAATG-AGATATATTACTATTTTGTCCTAAAATTCAATATTGATTA
66 TCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTTCATCCT-AAATTCAATATTGATTC
871026 G
130 G
* * * *
871027 AGAGAAAACGATAATATCTAATTATTTTCAATCGAAAATAAAAGACCTCTTATGCCTTAAAGTAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCAG
* *
871092 TCACTTATTACTGCAATCGAAATGAAGAGATATTACTATTTCATCCTAAAGTTCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTTCATCCTAAA-TTCAATATTGATTC
871157 G
130 G
* *
871158 ATAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTGTCATGCCTTAAAGCA-
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCAG
* * *
871222 TACATTTATTACTCCAATCGAAATGAAGAGATATTATTATTTCATCCTAGAATTCAAAATTAATT
66 T-CATTTATTACTCCAATCGAAATGAAGAGATATTACTATTTCATCCTA-AATTCAATATTGATT
871287 CG
129 CG
871289 AGAG
1 AGAG
871293 TTGTTATTTT
Statistics
Matches: 236, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
129 41 0.17
130 42 0.18
131 151 0.64
132 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (130 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAAGACCTCTCATGCCTTAAAGCAG
TCATTTATTACTCCAATCGAAATGAAGAGATATTACTATTTCATCCTAAATTCAATATTGATTCG
Found at i:873485 original size:3 final size:3
Alignment explanation
Indices: 873477--873524 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
873467 AATAAAATTA
873477 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
873525 GGTACCGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:873967 original size:133 final size:133
Alignment explanation
Indices: 873744--874059 Score: 393
Period size: 133 Copynumber: 2.4 Consensus size: 133
873734 CATGGTAGAT
* * * * * * *
873744 CATATATGGAAACGATGATTCATTCCACTGTTGTTTAGGGAAGATTGAATCAAGGCAGACTTGTT
1 CATATCTGAAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAGGCAGACTTATT
* * * * * * *
873809 CCACTTCTATTCAGGGTAGATCAAATCTGGAAAGAGGGGATCTGT-TTCGCTGCTTCTTCAGGGA
66 ACACTACTATTCAGGGAAGATCAAATCTAGAAAAAGGGGATCT-TCTCCACTGCTTCTTCAGGGA
*
873873 AAAT
130 AAAA
* * **
873877 CATATCT-AAAGACGTTGATTCCTTCCACTTTTCTTCAGGGAAGATTGAATCAAGTTAGACTTAT
1 CATATCTGAAA-ACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAGGCAGACTTAT
873941 TACACTACTATTCAGGGAAGATCAAATCTAGAAAAAGGGGATCTTCTCCACTGCTTCTTCAGGGA
65 TACACTACTATTCAGGGAAGATCAAATCTAGAAAAAGGGGATCTTCTCCACTGCTTCTTCAGGGA
874006 AAAA
130 AAAA
* * * *
874010 CATATCTGGAAACGTTGATTCATTCCACTATTCTCCAGGAAATATTGAAT
1 CATATCTGAAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAAT
874060 TGAGTTCAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
132 3 0.02
133 151 0.97
134 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (133 bp):
CATATCTGAAAACGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCAAGGCAGACTTATT
ACACTACTATTCAGGGAAGATCAAATCTAGAAAAAGGGGATCTTCTCCACTGCTTCTTCAGGGAA
AAA
Found at i:876825 original size:3 final size:3
Alignment explanation
Indices: 876817--876867 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
876807 AATTATTTAT
* ** *
876817 TAA TAA TAA T-A TTA TAA TAA TAA TAA TTC TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
876864 TAA T
1 TAA T
876868 TTTTATAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:876862 original size:24 final size:24
Alignment explanation
Indices: 876830--876876 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
876820 TAATAATATT
876830 ATAATAATAATAATTCTTATAATA
1 ATAATAATAATAATTCTTATAATA
*
876854 ATAATAATAATAATTTTTATAAT
1 ATAATAATAATAATTCTTATAAT
876877 GGAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATAATAATAATTCTTATAATA
Found at i:876876 original size:15 final size:15
Alignment explanation
Indices: 876806--876858 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
876796 TTGGGCATTG
876806 TAATTATTTATTAATAA
1 TAATT-TTTA-TAATAA
*
876823 TAATATTATAATAATAA
1 TAAT-TT-TTATAATAA
*
876840 TAATTCTTATAATAA
1 TAATTTTTATAATAA
876855 TAAT
1 TAAT
876859 AATAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
17 15 0.48
18 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTTTTATAATAA
Found at i:876876 original size:18 final size:18
Alignment explanation
Indices: 876806--876861 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
876796 TTGGGCATTG
*
876806 TAATTATT-TATTAATAA
1 TAATTATTATAATAATAA
876823 TAA-TATTATAATAATAA
1 TAATTATTATAATAATAA
*
876840 TAATTCTTATAATAATAA
1 TAATTATTATAATAATAA
876858 TAAT
1 TAAT
876862 AATAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 4 0.11
17 14 0.40
18 17 0.49
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTATTATAATAATAA
Found at i:877109 original size:45 final size:45
Alignment explanation
Indices: 877043--877174 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
877033 GAGGTCTTAT
* *
877043 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAAAA
1 CATCATGCACTGAAGGTCTTACAGATGACCCGGAGGTTTTAAAAA
* * *
877088 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGTCTTACAGATGACCCGGAGGTTTTAAAAA
* * * *
877133 TATCATGTAGTGAAGGTCTTACAGATGACTCGGAGGTTTTAA
1 CATCATGCACTGAAGGTCTTACAGATGACCCGGAGGTTTTAA
877175 GTATCAAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
CATCATGCACTGAAGGTCTTACAGATGACCCGGAGGTTTTAAAAA
Found at i:877248 original size:74 final size:74
Alignment explanation
Indices: 877146--877301 Score: 242
Period size: 74 Copynumber: 2.1 Consensus size: 74
877136 CATGTAGTGA
* * * *
877146 AGGTCTTACAGATGACTCGGAGGTTTTAAGTATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATC
1 AGGTCTTACAGAAGACTCAGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATC
877211 CTGCACTGT
66 CTGCACTGT
* *
877220 AGGTCTTACAGAAGAC-CTAGAGGCTTTAAATATCAAAAAGCTTCCGAAGGCTTTTTGAAAACAT
1 AGGTCTTACAGAAGACTC-AGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACAT
877284 CCTGCACTGT
65 CCTGCACTGT
877294 AGGTCTTA
1 AGGTCTTA
877302 TGGATGACCC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
73 1 0.01
74 74 0.99
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (74 bp):
AGGTCTTACAGAAGACTCAGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATC
CTGCACTGT
Found at i:877329 original size:45 final size:45
Alignment explanation
Indices: 877263--878294 Score: 1550
Period size: 45 Copynumber: 23.0 Consensus size: 45
877253 CAAAAAGCTT
* * * **
877263 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGAC
1 CCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
877310 CCGAAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
877355 CGGAAGGTTTTAAAAACATCATGCACTGTAGGGCTT-CAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* *
877399 CCGAAGGTTTTGAAATCATCATTCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877444 CCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * * *
877489 CTGAAGGCTTTGAAAACATCATGCACTGTATGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* *
877534 CCGAAGGTTTTGAAAACATCATGCACTTAAAGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877579 CCGAAGGTTTTGAAAACATTATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877624 CCGAAGGTTTTGAAAACATCATGCACAGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
877669 CCGAAGGCTTTGAAAACATCATGCACTGTAGGGATTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877714 CCGAAGGTTTTGAAAACATCATGCACTGAA-TGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
877758 CCGAAGGTTTTGAAAACATCATGCAC-AAAAGGCTTATAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877802 TCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877847 CCGAAGGTTTTGAAAACATCATGCACTGAAAGGCTTACAGATGACC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-C
*
877893 CCGAAGGTTTTGAAAACATAATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
*
877938 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * * * *
877983 CTGAAGGCTTTGAAAACATCATGCACTGTAGGGATTATAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
878028 CCGAAGGTTTTGAAAACATCATGCA-GGAAAGGCTTATAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
878072 CTGAAGATTTTGAAAACATAATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* *
878117 CCGAAGGCTTTGAAAACATCATGCACTGAAAGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
878162 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* *
878207 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGGTGAC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
* **
878252 CCGAAGGCTTTGAAAACATCATGTGCTGAAGGGCTTACAGATG
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
878295 TGGGAAATAG
Statistics
Matches: 896, Mismatches: 84, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
43 2 0.00
44 151 0.17
45 693 0.77
46 43 0.05
47 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
Found at i:877898 original size:314 final size:313
Alignment explanation
Indices: 877263--878294 Score: 1602
Period size: 314 Copynumber: 3.3 Consensus size: 313
877253 CAAAAAGCTT
* * * **
877263 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACA
1 CCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
* * * * * * *
877328 TCATACACTGTAGGTCTTACAGATGACCGGAAGGTTTTAAAAACATCATGCACTGTAGGGCTT-C
64 TCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGTAGGGATTAC
* * *
877392 AGATGACCCGAAGGTTTTGAAATCATCATTCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGA
129 AGATGACCCGAAGGTTTTGAAAACATCATGCACTGAA-GGCTTACAGATGACCCGAAGGTTTTGA
* *
877457 AAACATCATGCACTGAAGGGCTTACAGATGACCTGAAGGCTTTGAAAACATCATGCACTGTATGG
193 AAACATCATGCACTGAAGGGCTTACAGATGACC-GAAGGCTTTGAAAACATCATGCACTGAAAGG
*
877522 CTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTTAAAGGCTTACAGATGAC
257 CTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAAGGCTTACAGATGAC
*
877579 CCGAAGGTTTTGAAAACATTATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
*
877644 ATGCACAGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGTAGGGATTACAG
66 ATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGTAGGGATTACAG
*
877709 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAATGCTTACAGATGACCCGAAGGTTTTGAAAA
131 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * * *
877774 CATCATGCAC-AAAAGGCTTATAGATGACTCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
196 CATCATGCACTGAAGGGCTTACAGATGAC-CGAAGGCTTTGAAAACATCATGCACTGAAAGGCTT
877838 ACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAAGGCTTACAGATGACC
260 ACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAAGGCTTACAGATGA-C
*
877893 CCGAAGGTTTTGAAAACATAATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
* * *
877958 ATGCACTGAAGGGCTTACAAATGACCTGAAGGCTTTGAAAACATCATGCACTGTAGGGATTATAG
66 ATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGTAGGGATTACAG
* * * *
878023 ATGACCCGAAGGTTTTGAAAACATCATGCA-GGAAAGGCTTATAGATGACCTGAAGATTTTGAAA
131 ATGACCCGAAGGTTTTGAAAACATCATGCACTG-AAGGCTTACAGATGACCCGAAGGTTTTGAAA
*
878087 ACATAATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGAAAGGCT
195 ACATCATGCACTGAAGGGCTTACAGATGA-CCGAAGGCTTTGAAAACATCATGCACTGAAAGGCT
*
878152 TACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
259 TACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAAGGCTTACAGATGAC
* * *
878207 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGGTGACCCGAAGGCTTTGAAAACATC
1 CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
**
878272 ATGTGCTGAAGGGCTTACAGATG
66 ATGCACTGAAGGGCTTACAGATG
878295 TGGGAAATAG
Statistics
Matches: 661, Mismatches: 49, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
313 99 0.15
314 419 0.63
315 135 0.20
316 8 0.01
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (313 bp):
CCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC
ATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGTAGGGATTACAG
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGCTTACAGATGACCCGAAGGTTTTGAAAA
CATCATGCACTGAAGGGCTTACAGATGACCGAAGGCTTTGAAAACATCATGCACTGAAAGGCTTA
CAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAAGGCTTACAGATGAC
Found at i:879461 original size:54 final size:55
Alignment explanation
Indices: 879369--879528 Score: 209
Period size: 55 Copynumber: 2.9 Consensus size: 55
879359 ATCACTGGTT
*
879369 CGTAGAACATTTGACAACACATTCA-TCATTTCCTGTGGCTTCTGCCCAGATGTT-
1 CGTAAAACATTTGACAACACATTCATTC-TTTCCTGTGGCTTCTGCCCAGATGTTC
* * * ***
879423 TGTAAATCATTTGACAACACATTTATTCTTT-CTCGTGGCTTCTGTATAGATGTTC
1 CGTAAAACATTTGACAACACATTCATTCTTTCCT-GTGGCTTCTGCCCAGATGTTC
*
879478 CGTAAAACATTTGACAACACATTCCTTCTTTCCTGTGGCTTCTGCCCAGAT
1 CGTAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCCCAGAT
879529 TTCTCAATCA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.02
54 41 0.47
55 43 0.49
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CGTAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCCCAGATGTTC
Found at i:879499 original size:55 final size:54
Alignment explanation
Indices: 879366--879528 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 54
879356 ATAATCACTG
* *
879366 GTTCGTAGAACATTTGACAACACATTCA-TCATTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATTC-TTTCCTGTGGCTTCTGCACAGAT
* * * * *
879420 GTTTGTAAATCATTTGACAACACATTTATTCTTT-CTCGTGGCTTCTGTATAGAT
1 GTTCGTAAAACATTTGACAACACATTCATTCTTTCCT-GTGGCTTCTGCACAGAT
* *
879474 GTTCCGTAAAACATTTGACAACACATTCCTTCTTTCCTGTGGCTTCTGCCCAGAT
1 GTT-CGTAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGAT
879529 TTCTCAATCA
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 44 0.48
55 43 0.47
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATTCTTTCCTGTGGCTTCTGCACAGAT
Found at i:882925 original size:72 final size:72
Alignment explanation
Indices: 882747--882928 Score: 258
Period size: 72 Copynumber: 2.5 Consensus size: 72
882737 CCATAATGCA
* *
882747 GGGGTGATTAACCAATTGCTTTAGGGGGATAACTCAAGCATAACAGACTAGCTGAATATTATCCA
1 GGGGTTATTAACCAATTGCTTTAGGGGGATAACTCAAGAATAACAGACTAGCTGAATATTATCCA
882812 TAAAGTC
66 TAAAGTC
* * ** *** *
882819 GGGGCTATTAACCATTTGCTCCATATGGACAACTCAAGAATAACAGACTAGCTGAATATTATCCA
1 GGGGTTATTAACCAATTGCTTTAGGGGGATAACTCAAGAATAACAGACTAGCTGAATATTATCCA
882884 TAAA-TCC
66 TAAAGT-C
882891 GGGGTTATTAACCAATTGCTTTAGGGGGATAACTCAAG
1 GGGGTTATTAACCAATTGCTTTAGGGGGATAACTCAAG
882929 CTTTATTGCA
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
71 1 0.01
72 90 0.99
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (72 bp):
GGGGTTATTAACCAATTGCTTTAGGGGGATAACTCAAGAATAACAGACTAGCTGAATATTATCCA
TAAAGTC
Found at i:885065 original size:13 final size:15
Alignment explanation
Indices: 885047--885085 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
885037 CATAAAAGTA
885047 AAAATGCAAA-ATG-
1 AAAATGCAAAGATGC
885060 AAAATGCAAAGATGC
1 AAAATGCAAAGATGC
885075 AAAGATGCAAA
1 AAA-ATGCAAA
885086 TGCATGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 3 0.13
16 7 0.30
ACGTcount: A:0.59, C:0.10, G:0.18, T:0.13
Consensus pattern (15 bp):
AAAATGCAAAGATGC
Found at i:885074 original size:8 final size:7
Alignment explanation
Indices: 885047--885089 Score: 54
Period size: 8 Copynumber: 6.1 Consensus size: 7
885037 CATAAAAGTA
885047 AAAATGC
1 AAAATGC
885054 AAAATG-
1 AAAATGC
885060 AAAATGC
1 AAAATGC
885067 AAAGATGC
1 AAA-ATGC
885075 AAAGATGC
1 AAA-ATGC
885083 -AAATGC
1 AAAATGC
885089 A
1 A
885090 TGTATGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.30
7 11 0.33
8 12 0.36
ACGTcount: A:0.56, C:0.12, G:0.19, T:0.14
Consensus pattern (7 bp):
AAAATGC
Found at i:887957 original size:2 final size:2
Alignment explanation
Indices: 887950--888029 Score: 139
Period size: 2 Copynumber: 41.5 Consensus size: 2
887940 AGAGTATTAA
887950 AT AT AT AT AT AT AT AT AT AT AT A- 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
887991 AT AT A- AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
888030 GAGAGAGAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 3 0.04
2 72 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:888034 original size:2 final size:2
Alignment explanation
Indices: 888029--888056 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
888019 ATATATATAT
888029 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
888057 TTTTGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:888950 original size:24 final size:26
Alignment explanation
Indices: 888908--888967 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
888898 TCATTTGTCC
*
888908 TTCTCTCTCTAAAAGAGAGATGAACA
1 TTCTCTCCCTAAAAGAGAGATGAACA
888934 TTCTCTCCCTAAAAGAGAGATGAACA
1 TTCTCTCCCTAAAAGAGAGATGAACA
888960 TTCTCTCC
1 TTCTCTCC
888968 TCCTTCTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (26 bp):
TTCTCTCCCTAAAAGAGAGATGAACA
Found at i:889737 original size:3 final size:3
Alignment explanation
Indices: 889724--889771 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
889714 AATTATTTAT
* ** *
889724 TAA TAA T-A TAA TAA TAA TAA CAA TTC TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
889771 T
1 T
889772 TTTTATAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:889763 original size:24 final size:24
Alignment explanation
Indices: 889731--889780 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
889721 TATTAATAAT
889731 ATAATAATAATAACAATTCTTATA
1 ATAATAATAATAACAATTCTTATA
* *
889755 ATAATAATAATAATAATTTTTATA
1 ATAATAATAATAACAATTCTTATA
889779 AT
1 AT
889781 GGAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATAATAATAACAATTCTTATA
Found at i:890219 original size:23 final size:23
Alignment explanation
Indices: 890184--890234 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
890174 CTTTTATTTA
* * *
890184 TTTTATTTTATTTTCTTTTTCTT
1 TTTTCTTTAATTTTCTTTTTCAT
890207 TTTTCTTTAATTTTCTTTTTCAT
1 TTTTCTTTAATTTTCTTTTTCAT
890230 TTTTC
1 TTTTC
890235 CTTTTTCAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTAATTTTCTTTTTCAT
Found at i:893413 original size:41 final size:40
Alignment explanation
Indices: 893355--893462 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 40
893345 CTACCTGAAG
* * *
893355 GTCTTATGGATGGCCCGAAGGACTTATCATCTTGCCCGAAA
1 GTCTTATAGAT-GCCCGAAGGACTTAACATCATGCCCGAAA
* *
893396 GTCTTATAGATGACCCGAAGGATTTAAACATCATGCTCGAAA
1 GTCTTATAGATG-CCCGAAGGACTT-AACATCATGCCCGAAA
* **
893438 GACTTATTCATGCCCGAAGGACTTA
1 GTCTTATAGATGCCCGAAGGACTTA
893463 CTAAATAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.04
41 32 0.57
42 22 0.39
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
GTCTTATAGATGCCCGAAGGACTTAACATCATGCCCGAAA
Found at i:893450 original size:19 final size:19
Alignment explanation
Indices: 893426--893462 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
893416 GATTTAAACA
*
893426 TCATGCTCGAAAGACTTAT
1 TCATGCCCGAAAGACTTAT
*
893445 TCATGCCCGAAGGACTTA
1 TCATGCCCGAAAGACTTA
893463 CTAAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (19 bp):
TCATGCCCGAAAGACTTAT
Found at i:893908 original size:42 final size:41
Alignment explanation
Indices: 893833--893918 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
893823 CCCGAAGGTT
* * *
893833 TTATGGATGGCCCGAAGGACTTATAATCATGCTCAAAAGAC
1 TTATAGATGACCCGAAGGACTTAAAATCATGCTCAAAAGAC
* *
893874 TTATAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAC
1 TTATAGATGACCCGAAGGACTTAAA-ATCATGCTCAAAAGAC
893916 TTA
1 TTA
893919 CTAATGGTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 21 0.54
42 18 0.46
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (41 bp):
TTATAGATGACCCGAAGGACTTAAAATCATGCTCAAAAGAC
Found at i:894387 original size:240 final size:240
Alignment explanation
Indices: 893305--895534 Score: 2830
Period size: 240 Copynumber: 9.3 Consensus size: 240
893295 TATCAATATG
* * * *
893305 GAAATCACTTTATCATTTTCGAAAATCATGTGAAAATATCCTACCTGAAGGTCTTATGGATGGCC
1 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGCC
* *
893370 CGAAGGACTTATCATCTTGCCCGAAAGTCTTATAGATGACCCGAAGGATTTAAACATCATGCTCG
66 CGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCG
* * * * *
893435 AAAGACTTATTCAT-GCCCGAAGGACTTACTAAATAAGAAAATTTGGAAATCATTTTCTTACTTT
131 AAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTT
* *
893499 TCAAGAAAAATGAATTTTCAGAAAAGATTTAAATGATAAACTTTT
196 TCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
* ** * * * * *
893544 GAAATAACTTTCTCATTTTTAAAAATCACGTGAAAACAT-CTTGCTCGAAGGTCTTATAGAAGGA
1 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTT-CCCGAAGGTCTTATGGATGGC
* * ** *
893608 CCGAATGACTTATCATCTTGCTCGAAATACTTATAGATGACTTGAAGGATTTAAACATCATGCTT
65 CCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTC
* * *
893673 GAAAGACTTATTGATGGCCCGAATGACTTAC----TAAGAAACTTTGGAAATTGTTTTCTTACTT
130 GAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTT
* *
893734 TTCAAGAAATATCAATTTTCAGAAAAGATTTAAATTAGAAAC-TTT
195 TTCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
** * * * *
893779 GAAAATTGCTTTCTCCTTTTTGAAAATCACGTGAAAACATCCTTCCCGAAGGTTTTATGGATGGC
1 G-AAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGC
* * *
893844 CCGAAGGACTTATAATCATGCTCAAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTC
65 CCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTC
* * * * * * * *
893909 GAAAGACTTACTAATGGTCTGGATGACTTATTAAGTAAGAAACTTTGGAAATCGTTTTATTATTT
130 GAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTA-CT
* * *
893974 TTTCAAGAAAAATCTATTTTC-GAAAAGATTTAAATGAGAAGCTTTG
194 TTTCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
** * * * *
894020 GAAATCACTTTCT-AAATTCGAAAATCATGTGAAAACATCCTTCTCTAAGGTCTTATTGAT-GAC
1 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGCC
* * ** * *
894083 CGAATGACTTATCATCTTGCTTGAAAGACTTATAGATGACCCGAAATATTTAAACATTATGCTCA
66 CGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCG
* * *
894148 AAAGACTTATTGATTGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCCTTTTCTTACTTT
131 AAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTT
* * *
894213 TCAAGAAATATCAATTTTCAGAAAATATTTAAATGAAAAACTTTT
196 TCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
*
894258 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGCT
1 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGCC
* * * *
894323 CGAATGACTTATCATCTTTCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACACCATGCTCA
66 CGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCG
* * * *
894388 AAAAACTTACTGATGGCCCAAATGACTTACTAAGTAAGAAACTTTGGAAATTGTTTTCTTACTTT
131 AAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTT
* *
894453 TCAAGAAAAATCAATTTTTAGAAAAGATTTAAATGAGAAACTTTG
196 TCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
* * * **
894498 GAAAT-ATCTTTCTCATTTTCGAGAATCATATGAAAACTTCCTGT-TGGAAGGTCTTATGGATGG
1 GAAATCA-CTTTCTCATTTTCGAAAATCATGTGAAAACATCCT-TCCCGAAGGTCTTATGGATGG
* * * * *
894561 CCCAAAAGACTTATCATCTTGGTCGAAAGACTTATAGATTACCCGAATGATTTAAACATCATGCT
64 CCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCT
* * * *
894626 CGAAAGACTTACTGATGGTCCGAAAGACTAACTAAGTAAGAAACATTGGAAATCGTTTTCTTACT
129 CGAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACT
* *
894691 TTTCAAGAAAAATTAATTTTTAGAAAA-ATATTAAATGAGAAAC-TTT
194 TTTCAAGAAAAATCAATTTTCAGAAAAGAT-TTAAATGAGAAACTTTT
* * * * * *
894737 GCAAATCGCTTTCTCATTTTCAAAAATCATGTGAAAACATCATTCCCGAAGGTATTATTGATTGC
1 G-AAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGC
* *
894802 CCGAAGGACTTATCATCTAGCTCGAAAGACTTTATAGATGACCCAAAGGATTTAAACATCATGCT
65 CCGAAGGACTTATCATCTTGCTCGAAAGAC-TTATAGATGACCCGAAGGATTTAAACATCATGCT
* * * *
894867 C-AAAGGACTTACTGATGGTCCGGAGGACTTACTAAGTAAGAACCTTTGGAAATCATTTTCTTAC
129 CGAAA-GACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTAC
* * *
894931 TTTTCAA-AAAAATCAATTTTTAGAAAAGATTTAAATGAGAAAATTTG
193 TTTTCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
* * * * *
894978 GAATTCGCTTTCTCATTTTCAAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCT
1 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGCC
* * * *
895043 CAAAAGACTTATCATCTTGCCCGAAAGACTTATAGATGACCCAAAGGATTTAAACATCATGCTCG
66 CGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCG
*
895108 AAAGACTTACTGATGGCCCGAAGAACTTA-T---TAAGAAACTTTGGAAATCGTTTTCTTACTTT
131 AAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTT
* *
895169 TCAAGAAAAATCAGTTTTCAGAAAAGATTTAAATGAGAAACTTTG
196 TCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
* * * * *
895214 GAAATCGCTTTCTCATTTTCAAAAATCATGTGAAAATATCCTTCCCG-AGGTTCTTACGGATGGA
1 GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGG-TCTTATGGATGGC
* * * * * *
895278 CCGAAAGACTTATCATTTTACTCAAAAGACTTCTAGATGACTCGAAGGATTTAAACATCATGCTC
65 CCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTC
* * * * *
895343 GAAAGACTTACTGATGACCTGAATGACTTACTAAGTAATAAACTTTGGAAATCATTTTCTTACTT
130 GAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTT
* * * *
895408 ATCAAGAAAAATCAATTTTCATAAAAGATTTAAATAAG-AAGTTTT
195 TTCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
** ** * * * * *
895453 GGAAATTGCTTTCTCATTTTTTAAAATCATATGAAAGCATCATGCCTGAAGGTCTTATGGATGGC
1 -GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGC
*
895518 CCGAAGGACATATCATC
65 CCGAAGGACTTATCATC
895535 AAGAAACCCT
Statistics
Matches: 1728, Mismatches: 231, Indels: 63
0.85 0.11 0.03
Matches are distributed among these distances:
235 40 0.02
236 371 0.21
237 24 0.01
238 146 0.08
239 271 0.16
240 752 0.44
241 124 0.07
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (240 bp):
GAAATCACTTTCTCATTTTCGAAAATCATGTGAAAACATCCTTCCCGAAGGTCTTATGGATGGCC
CGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCG
AAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTT
TCAAGAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTT
Found at i:898826 original size:3 final size:3
Alignment explanation
Indices: 898818--898848 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
898808 GGTTCTCTAC
898818 TCT TCT TCT TCT TCT TCT TCT TCT TC- TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
898849 CTCGTAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:901835 original size:131 final size:132
Alignment explanation
Indices: 901599--901861 Score: 503
Period size: 131 Copynumber: 2.0 Consensus size: 132
901589 ATCTTGGTAT
901599 TACTGTCATGTAACCTCCAATAAATTATTTTGATGATTTTTATAAGAAATGCATAAAAATTAAAA
1 TACTGTCATGTAACCTCCAATAAATTATTTTGATGATTTTTATAAGAAATGCATAAAAATTAAAA
901664 TAATGCAACGCATGAAAAAAGTGTCAACGTTATAGTACCATC-TTAATGATTTTCATTGATCATA
66 TAATGCAACGCATGAAAAAAGTGTCAACGTTATAGTACCATCTTTAATGATTTTCATTGATCATA
901728 AA
131 AA
901730 TACTGTCATGTAACCTCCAATAAATTATTTTGATGATTTTTATAAGAAATGCATAAAAATTAAAA
1 TACTGTCATGTAACCTCCAATAAATTATTTTGATGATTTTTATAAGAAATGCATAAAAATTAAAA
901795 TAATGCAACGCATGAAAAAAGTGTCAACG-TATAGTAACCATCTTTAATGATTTTCATTGATCAT
66 TAATGCAACGCATGAAAAAAGTGTCAACGTTATAGT-ACCATCTTTAATGATTTTCATTGATCAT
901859 AAA
130 AAA
901862 AGGTTTCAGT
Statistics
Matches: 130, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
130 6 0.05
131 100 0.77
132 24 0.18
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (132 bp):
TACTGTCATGTAACCTCCAATAAATTATTTTGATGATTTTTATAAGAAATGCATAAAAATTAAAA
TAATGCAACGCATGAAAAAAGTGTCAACGTTATAGTACCATCTTTAATGATTTTCATTGATCATA
AA
Found at i:907097 original size:24 final size:24
Alignment explanation
Indices: 907070--907141 Score: 101
Period size: 25 Copynumber: 3.0 Consensus size: 24
907060 TCGGGTCTTG
907070 GTTTGGGC-TCTGGGTCTGGGTTTA
1 GTTTGGGCTTC-GGGTCTGGGTTTA
*
907094 GTTTGGGCTTCGGGTTTGGGGTTTA
1 GTTTGGGCTTCGGGTCT-GGGTTTA
*
907119 GTTTGGGCTTCGGATCTGGGTTT
1 GTTTGGGCTTCGGGTCTGGGTTT
907142 TATTTTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 19 0.44
25 24 0.56
ACGTcount: A:0.04, C:0.11, G:0.42, T:0.43
Consensus pattern (24 bp):
GTTTGGGCTTCGGGTCTGGGTTTA
Found at i:907210 original size:3 final size:3
Alignment explanation
Indices: 907202--907261 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
907192 TTGGTTTGTA
* *
907202 AAT AAT AAT ATT TAT AAT -AT AA- ATAT AAT AAT AAT -AT CAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT
907246 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
907262 TAAGGGTAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:917041 original size:27 final size:27
Alignment explanation
Indices: 917010--917066 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
917000 TTTTTTGCCT
917010 TCTTCTTCTTAAAACCCTCTCAACCCA
1 TCTTCTTCTTAAAACCCTCTCAACCCA
* * *
917037 TCTTCTTCTTAAAATCCTCTTAACTCA
1 TCTTCTTCTTAAAACCCTCTCAACCCA
917064 TCT
1 TCT
917067 GGTCTATCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (27 bp):
TCTTCTTCTTAAAACCCTCTCAACCCA
Found at i:918847 original size:24 final size:24
Alignment explanation
Indices: 918820--918868 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
918810 TTTCTTGACT
*
918820 TGAGCCAGCTGTGTTACCATGAAA
1 TGAGCCAGCTGTGTTACCAGGAAA
* *
918844 TGAGCCATCTGTGTTATCAGGAAA
1 TGAGCCAGCTGTGTTACCAGGAAA
918868 T
1 T
918869 TGTCTCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (24 bp):
TGAGCCAGCTGTGTTACCAGGAAA
Found at i:925401 original size:14 final size:14
Alignment explanation
Indices: 925382--925473 Score: 55
Period size: 14 Copynumber: 6.6 Consensus size: 14
925372 TGACCCAACC
925382 GAGTCAACTCGTCT
1 GAGTCAACTCGTCT
*
925396 GAGTCAACTTGATC-
1 GAGTCAACTCG-TCT
* *
925410 AAGTCAACTAGTCT
1 GAGTCAACTCGTCT
* *
925424 TAGTCAACTTGATC-
1 GAGTCAACTCG-TCT
*
925438 GAGTCAACCCGT-T
1 GAGTCAACTCGTCT
* * *
925451 CGATTCAACTCATCC
1 -GAGTCAACTCGTCT
925466 GAGTCAAC
1 GAGTCAAC
925474 CCGTTGACTT
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
13 3 0.05
14 52 0.88
15 4 0.07
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (14 bp):
GAGTCAACTCGTCT
Found at i:925415 original size:28 final size:28
Alignment explanation
Indices: 925383--925445 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
925373 GACCCAACCG
*
925383 AGTCAACTCGTCTGAGTCAACTTGATCA
1 AGTCAACTAGTCTGAGTCAACTTGATCA
* *
925411 AGTCAACTAGTCTTAGTCAACTTGATCG
1 AGTCAACTAGTCTGAGTCAACTTGATCA
925439 AGTCAAC
1 AGTCAAC
925446 CCGTTCGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (28 bp):
AGTCAACTAGTCTGAGTCAACTTGATCA
Found at i:925492 original size:14 final size:14
Alignment explanation
Indices: 925475--925516 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
925465 CGAGTCAACC
*
925475 CGTTGACTTTGACT
1 CGTTAACTTTGACT
925489 CGTTAACTTTGAC-
1 CGTTAACTTTGACT
*
925502 CGTTTACTATTGACT
1 CGTTAACT-TTGACT
925517 TTGACCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (14 bp):
CGTTAACTTTGACT
Found at i:929130 original size:62 final size:62
Alignment explanation
Indices: 929033--929158 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
929023 CATGTTGTTA
929033 TGGTAGACAACATTCGAGTTAACCCACAAAAGATTCAAGCAGTGGTTGAGTGAGGACCATCG
1 TGGTAGACAACATTCGAGTTAACCCACAAAAGATTCAAGCAGTGGTTGAGTGAGGACCATCG
929095 TGGTAGACAACATTCGAGTTAACCCACAAAAGATTCAAGCAGTGGTTGAGTGAGGACCATCG
1 TGGTAGACAACATTCGAGTTAACCCACAAAAGATTCAAGCAGTGGTTGAGTGAGGACCATCG
929157 TG
1 TG
929159 TAATGTGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (62 bp):
TGGTAGACAACATTCGAGTTAACCCACAAAAGATTCAAGCAGTGGTTGAGTGAGGACCATCG
Found at i:932827 original size:27 final size:27
Alignment explanation
Indices: 932797--932850 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
932787 AATGTAAGAA
932797 GAGCGAATCCTGATATAGAAGGCAAGT
1 GAGCGAATCCTGATATAGAAGGCAAGT
932824 GAGCGAATCCTGATATAGAAGGCAAGT
1 GAGCGAATCCTGATATAGAAGGCAAGT
932851 CCACTTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.19
Consensus pattern (27 bp):
GAGCGAATCCTGATATAGAAGGCAAGT
Found at i:933266 original size:10 final size:11
Alignment explanation
Indices: 933241--933266 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
933231 TAACATTTAC
933241 TTTTTGTTTCA
1 TTTTTGTTTCA
933252 TTTTTGTTTCA
1 TTTTTGTTTCA
933263 TTTT
1 TTTT
933267 AATACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTGTTTCA
Found at i:935372 original size:49 final size:49
Alignment explanation
Indices: 935311--935418 Score: 198
Period size: 49 Copynumber: 2.2 Consensus size: 49
935301 CGGATCCTGT
935311 CAGGTCGGGTAAAATCGGGTACAGGTCAATTTGATACTTCGACTCGGAC
1 CAGGTCGGGTAAAATCGGGTACAGGTCAATTTGATACTTCGACTCGGAC
* *
935360 CAGGTCGGGTAAAATCGGGTACATGTCAATTTGATACTTCGACTCGGAT
1 CAGGTCGGGTAAAATCGGGTACAGGTCAATTTGATACTTCGACTCGGAC
935409 CAGGTCGGGT
1 CAGGTCGGGT
935419 CACTTTCATG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (49 bp):
CAGGTCGGGTAAAATCGGGTACAGGTCAATTTGATACTTCGACTCGGAC
Found at i:936138 original size:2 final size:2
Alignment explanation
Indices: 936127--936254 Score: 54
Period size: 2 Copynumber: 63.0 Consensus size: 2
936117 TAAAAACAAT
*
936127 TA TA -A TA TA TA TA TA TA TA TA TA TA T- TA -A TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* ** * *
936167 GT- TCA T- TA GTA TA CA TA -A GC TA TA TA GTA TA TA TA AA CTA TT
1 -TA T-A TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
* *
936209 TA TA TA GTA TA TA CTA CA TA TA TA AA CTA TA TA TA TA TA T- TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
936251 TA TA
1 TA TA
936255 GTTTACATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
1 7 0.07
2 75 0.79
3 13 0.14
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Done.