Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001976.1 Hibiscus syriacus cultivar Beakdansim tig00004004_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: 915387
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:777521 original size:18 final size:18
Alignment explanation
Indices: 777500--777539 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
777490 TCAAAGGTAT
*
777500 TAATGATAATAAAGAGGA
1 TAATGATAAGAAAGAGGA
* *
777518 TAATTATAAGGAAGAGGA
1 TAATGATAAGAAAGAGGA
777536 TAAT
1 TAAT
777540 CATATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (18 bp):
TAATGATAAGAAAGAGGA
Found at i:782283 original size:20 final size:21
Alignment explanation
Indices: 782241--782309 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
782231 TCAATTACAA
* **
782241 TATCGATACCT-TACTATTGG
1 TATCGATACCTCTACAATCAG
782261 TATCGATACCTCTAC-ATCAG
1 TATCGATACCTCTACAATCAG
* *
782281 TATCGAT-GCTACTTCAATCAG
1 TATCGATACCT-CTACAATCAG
782302 TATCGATA
1 TATCGATA
782310 ATGTTCATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.05
20 24 0.59
21 15 0.37
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (21 bp):
TATCGATACCTCTACAATCAG
Found at i:784155 original size:60 final size:60
Alignment explanation
Indices: 784091--784206 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
784081 ATGACCCCCT
* * * *
784091 AACTATAGGATATTGTTTTGTTGAGTTC-TTTAACTATTAAAAGTTACAAAATGGTCTTTC
1 AACTATAGGAAATTGCTTTGTCGAG-TCACTTAACTATTAAAAGTTACAAAATGGTCTTTC
* *
784151 AACTATAGTAAATTGCTTTGTCGAGTCACTTGACTATTAAAAGTTACAAAATGGTC
1 AACTATAGGAAATTGCTTTGTCGAGTCACTTAACTATTAAAAGTTACAAAATGGTC
784207 ACTTGACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 2 0.04
60 47 0.96
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (60 bp):
AACTATAGGAAATTGCTTTGTCGAGTCACTTAACTATTAAAAGTTACAAAATGGTCTTTC
Found at i:798334 original size:18 final size:18
Alignment explanation
Indices: 798313--798347 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
798303 AAATTTTCTT
798313 TAAATTGTATTA-TAATAA
1 TAAATT-TATTATTAATAA
798331 TAAATTTATTATTAATA
1 TAAATTTATTATTAATA
798348 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAAATTTATTATTAATAA
Found at i:799257 original size:29 final size:28
Alignment explanation
Indices: 799224--799279 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
799214 AAATTTTCAA
799224 ATAAGGACTTAATTGATATATCATTTAAC
1 ATAAGGACTTAATTGAT-TATCATTTAAC
** *
799253 ATAAGGGTTTATTTGATTATCATTTAA
1 ATAAGGACTTAATTGATTATCATTTAA
799280 TTTATTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (28 bp):
ATAAGGACTTAATTGATTATCATTTAAC
Found at i:810255 original size:22 final size:22
Alignment explanation
Indices: 810149--810248 Score: 146
Period size: 22 Copynumber: 4.5 Consensus size: 22
810139 GAGTCGAGGG
* *
810149 TATAGTAGTCCTTCGGGACGTA
1 TATAGTAGTCCTACAGGACGTA
**
810171 TCCAGTAGTCCTACAGGACGTA
1 TATAGTAGTCCTACAGGACGTA
*
810193 TATAGTAGTCCTACAAGACGTA
1 TATAGTAGTCCTACAGGACGTA
810215 TATAGTAGTCCTACAGGACGTA
1 TATAGTAGTCCTACAGGACGTA
*
810237 TATAGTGGTCCT
1 TATAGTAGTCCT
810249 TCGGGACATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (22 bp):
TATAGTAGTCCTACAGGACGTA
Found at i:814126 original size:2 final size:2
Alignment explanation
Indices: 814119--814151 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
814109 TTTACATTCT
814119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
814152 TAATGACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:830390 original size:13 final size:13
Alignment explanation
Indices: 830372--830396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
830362 AAAGCACACG
830372 TTTTTAAGTATTA
1 TTTTTAAGTATTA
830385 TTTTTAAGTATT
1 TTTTTAAGTATT
830397 TTAAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTTTAAGTATTA
Found at i:830800 original size:17 final size:18
Alignment explanation
Indices: 830769--830803 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
830759 TATATATTAA
830769 TTATTTAAGTATTTTACT
1 TTATTTAAGTATTTTACT
830787 TTATTTAA-TATTTTACT
1 TTATTTAAGTATTTTACT
830804 AATATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATTTAAGTATTTTACT
Found at i:831110 original size:187 final size:189
Alignment explanation
Indices: 830796--831173 Score: 635
Period size: 187 Copynumber: 2.0 Consensus size: 189
830786 TTTATTTAAT
830796 ATTTTACTAATATAATTTTTTGCAGATATATATGGAAGGCGGTGTACTTCGCTTAGATGAAACAT
1 ATTTTACTAATATAATTTTTTGCAGA-ATATATGGAAGGCGGTGTACTTCGCTTAGATGAAACAT
830861 ATATCTCGACACTTTGCTGATACGGGTAACATTTTAACGTTTTAATTTAATTTAAATATTAGTAA
65 ATA-CTCGACACTTTGCTGATACGGGTAACATTTTAACGTTTTAATTTAATTTAAATATTAGTAA
*
830926 TAATTTGTTGA-TTATTTAATGCATGATTATTAATAAGAATTAATTTTTGTAATTATTTTTAGGA
129 TAATTTGTTGATTTATTTAATGCAT-ATTA--AATAAGAATTAATTTTT-AAATTATTTTTAGGA
830990 ATTTTACTAATATAATTTTTTGCAG-ATA-ATGGAAGGCGGTGTACTTCGCTTAGATGAAA-ATA
1 ATTTTACTAATATAATTTTTTGCAGAATATATGGAAGGCGGTGTACTTCGCTTAGATGAAACATA
831052 TA-TCGACACTTTGCTGATAC-GGTAACATTTTAACGTTTTAATTTAA-TTAAATTATTAGTAAT
66 TACTCGACACTTTGCTGATACGGGTAACATTTTAACGTTTTAATTTAATTTAAA-TATTAGTAAT
831114 AATTTGTTGATTTATTTAATGCATATTAAATAAGAATTAATTTTTAAATTATTTTTAGGA
130 AATTTGTTGATTTATTTAATGCATATTAAATAAGAATTAATTTTTAAATTATTTTTAGGA
831174 GAGAATGTGA
Statistics
Matches: 181, Mismatches: 1, Indels: 14
0.92 0.01 0.07
Matches are distributed among these distances:
184 14 0.08
185 17 0.09
186 5 0.03
187 50 0.28
188 31 0.17
190 5 0.03
191 31 0.17
192 3 0.02
194 25 0.14
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (189 bp):
ATTTTACTAATATAATTTTTTGCAGAATATATGGAAGGCGGTGTACTTCGCTTAGATGAAACATA
TACTCGACACTTTGCTGATACGGGTAACATTTTAACGTTTTAATTTAATTTAAATATTAGTAATA
ATTTGTTGATTTATTTAATGCATATTAAATAAGAATTAATTTTTAAATTATTTTTAGGA
Found at i:837355 original size:13 final size:13
Alignment explanation
Indices: 837337--837363 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
837327 AAAAAGCACG
837337 AAAGATATAGTAC
1 AAAGATATAGTAC
837350 AAAGATATAGTAC
1 AAAGATATAGTAC
837363 A
1 A
837364 CAAAAGGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (13 bp):
AAAGATATAGTAC
Found at i:840389 original size:32 final size:32
Alignment explanation
Indices: 840348--840410 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
840338 GGAGAGTGGG
840348 TCTCAAACGAAAGTGAAGGACC-AAGCTATGGT
1 TCTCAAACGAAAGTGAAGGACCGAA-CTATGGT
840380 TCTCAAACGAAAGTGAAGGACCGAACTATGG
1 TCTCAAACGAAAGTGAAGGACCGAACTATGG
840411 GTCTGTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 28 0.93
33 2 0.07
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (32 bp):
TCTCAAACGAAAGTGAAGGACCGAACTATGGT
Found at i:842500 original size:2 final size:2
Alignment explanation
Indices: 842493--842522 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
842483 TTCTTGAATG
842493 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
842523 GAACTCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:848355 original size:3 final size:3
Alignment explanation
Indices: 848347--848388 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
848337 CTGTTCTCGT
848347 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
848389 GGGTACACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:850224 original size:43 final size:43
Alignment explanation
Indices: 850002--850352 Score: 236
Period size: 43 Copynumber: 8.2 Consensus size: 43
849992 TTTCAAGAAA
*
850002 AAACGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTGATAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGAT-CAC
* * * * **
850045 AAATGCCACAATAGATGTTGATATTTAGCGGCGTTTGGAAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGATCAC
* * * **
850088 AAACGCCGCAATAGATGTTGATATTTAGCGGCATTTGGAAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGATCAC
* * * ** *
850131 AAACGCCACAGTAGGT-TTCGAT-TTATAGCAGCGTTTTTCTCAG
1 AAACGCCGCAATAGGTGTT-GATATT-TAGCGGCGTTTTGATCAC
* * * *
850174 AAACGCCGCAGTAGGTGTTGATTTTTAGTGGCGTTTTTATCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGATCAC
* * ** * * **
850217 AAACGCCGCAATAAGTGTTAAGGTTTAGCGGCGTTTTTAGCTT
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGATCAC
* * *
850260 AAACGCCGCAATATGTGTT--TGATTTGGCGGCGTCTTTAAT-AC
1 AAACGCCGCAATAGGTGTTGAT-ATTTAGCGGCGT-TTTGATCAC
* * *
850302 AAACGCCGCTAA-A-GAG-AGATATATAGCGGCGTTTTAGAAT-AC
1 AAACGCCGC-AATAGGTGTTGATATTTAGCGGCGTTTT-G-ATCAC
850344 AAACGCCGC
1 AAACGCCGC
850353 TAAATTACAC
Statistics
Matches: 250, Mismatches: 46, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
40 3 0.01
41 12 0.05
42 38 0.15
43 189 0.76
44 8 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGATCAC
Found at i:850306 original size:42 final size:44
Alignment explanation
Indices: 850215--850352 Score: 112
Period size: 42 Copynumber: 3.2 Consensus size: 44
850205 CGTTTTTATC
* * *
850215 ACAAACGCCGCAATAAGTGTTAAGGTTTAGCGGCGTTTTTAGCT
1 ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
* * * *
850259 -TAAACGCCGCAATATGTGTT-TGATTTGGCGGCGTCTTTA-AT
1 ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
* *
850300 ACAAACGCCGCTA-AAGAG---AGATATATAGCGGCGT-TTTAGAAT
1 ACAAACGCCGCAATAAGTGTTAAGAT-T-TAGCGGCGTCTTTAG-AT
850342 ACAAACGCCGC
1 ACAAACGCCGC
850353 TAAATTACAC
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 12 0.16
42 38 0.50
43 18 0.24
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
ACAAACGCCGCAATAAGTGTTAAGATTTAGCGGCGTCTTTAGAT
Found at i:850742 original size:21 final size:21
Alignment explanation
Indices: 850675--850731 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
850665 ATATGTTGCT
*
850675 TCTCTTTGTGCTGTCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
850696 TCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCGCTGCC
850717 TCTCTTTGTGCTGCC
1 TCTCTTTGTGCTGCC
850732 ACTGTTTCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.00, C:0.35, G:0.23, T:0.42
Consensus pattern (21 bp):
TCTCTTTGTGCTGCCGCTGCC
Found at i:850742 original size:42 final size:42
Alignment explanation
Indices: 850675--850757 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
850665 ATATGTTGCT
* * * *
850675 TCTCTTTGTGCTGTCGCTGCCTCTCTTTGTGCTGCCGCTGCC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
** *
850717 TCTCTTTGTGCTGCCACTGTTTCTCTCTCTGCTTCCGCTGC
1 TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGC
850758 TGCTCTGGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.01, C:0.36, G:0.20, T:0.42
Consensus pattern (42 bp):
TCTCTTTGTGCTGCCACTGCCTCTCTCTCTGCTGCCGCTGCC
Found at i:850800 original size:21 final size:21
Alignment explanation
Indices: 850739--850794 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
850729 GCCACTGTTT
850739 CTCTCTCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
**
850760 CTCTGGCTGCTTCCGCTGCTG
1 CTCTCTCTGCTTCCGCTGCTG
850781 CTCTCTCTGCTTCC
1 CTCTCTCTGCTTCC
850795 CTTGCTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.00, C:0.43, G:0.20, T:0.38
Consensus pattern (21 bp):
CTCTCTCTGCTTCCGCTGCTG
Found at i:853632 original size:60 final size:59
Alignment explanation
Indices: 853567--853701 Score: 189
Period size: 60 Copynumber: 2.3 Consensus size: 59
853557 TTTAAACTTG
* * * *
853567 TCACATACGATTTTATCTTGGCGTACCAAGTAACATAGTTGAGCCTTAGCTCTTTATCAT
1 TCACATA-GTTTTTATCTTGGCGTACCAAGTAACATAGTTGAGCATTAACTCCTTATCAT
* * *
853627 TCACATGGTTTCTTATCTTGGCTTACCTAGTAACATAGTTGAGCATTAACTCCTTATCAT
1 TCACATAGTTT-TTATCTTGGCGTACCAAGTAACATAGTTGAGCATTAACTCCTTATCAT
853687 TCACATAGTTTTTAT
1 TCACATAGTTTTTAT
853702 TCATGGATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 7 0.11
60 59 0.89
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (59 bp):
TCACATAGTTTTTATCTTGGCGTACCAAGTAACATAGTTGAGCATTAACTCCTTATCAT
Found at i:854895 original size:42 final size:42
Alignment explanation
Indices: 854832--854952 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 42
854822 GGGTAACCAA
** *
854832 TTGCGGCGTTTTTAATTAAAAACGCAACTAAAGTACGCAT-CAT
1 TTGCGGCGTTTTT-ACGAAAAACGCAACTAAAGTACGAATAC-T
* ** * *
854875 TTGCGGCGTTTGTTA-GAAAAATGCTGCTAAATTACTAATACT
1 TTGCGGCGTTT-TTACGAAAAACGCAACTAAAGTACGAATACT
* *
854917 TTGCGGCGTTTCTACG-AAAACGCCACTAAAGTACGA
1 TTGCGGCGTTTTTACGAAAAACGCAACTAAAGTACGA
854953 GGCTATAGCG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
41 17 0.27
42 30 0.48
43 13 0.21
44 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (42 bp):
TTGCGGCGTTTTTACGAAAAACGCAACTAAAGTACGAATACT
Found at i:855513 original size:57 final size:57
Alignment explanation
Indices: 855294--855481 Score: 367
Period size: 57 Copynumber: 3.3 Consensus size: 57
855284 ATTAAAACAG
855294 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
855351 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
*
855408 AAGTACTTATGCATAAAACTACTTAAAAACAAAATACATTATAATTTAGAAACATTA
1 AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
855465 AAGTACTTATGCATAAA
1 AAGTACTTATGCATAAA
855482 CAGTCTTCAC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 130 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (57 bp):
AAGTACTTATGCATAAAACTACTTAACAACAAAATACATTATAATTTAGAAACATTA
Found at i:856563 original size:41 final size:39
Alignment explanation
Indices: 856479--856625 Score: 138
Period size: 41 Copynumber: 3.6 Consensus size: 39
856469 ATTTAACATT
* * *
856479 TTGCGGCGTTTTTACAAAACGCCACTATATCACA-TATTT
1 TTGCGGCGTTTTTACAAAACGCCGCTATATTACACTA-TA
* *
856518 TTGCGGCGTTTATACAATAAGCGTCGCTATATTACACTATA
1 TTGCGGCGTTTTTACAA-AA-CGCCGCTATATTACACTATA
*
856559 TTGCGGCGTTTTTAGCTAAAACGCCGCTAAATGT-CTACTATA
1 TTGCGGCGTTTTTA-C-AAAACGCCGCTATAT-TAC-ACTATA
856601 TTGCGGCG-TTTTACTATAAACGCCG
1 TTGCGGCGTTTTTAC-A-AAACGCCG
856626 TTATTGTTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
39 16 0.17
40 5 0.05
41 49 0.53
42 20 0.22
43 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (39 bp):
TTGCGGCGTTTTTACAAAACGCCGCTATATTACACTATA
Found at i:858232 original size:34 final size:34
Alignment explanation
Indices: 858187--858321 Score: 229
Period size: 34 Copynumber: 4.0 Consensus size: 34
858177 ACTTTATTCC
*
858187 TAAAGTAAACCAGTCTCTTTAAAGAGACATAACA
1 TAAAGTAAACCAATCTCTTTAAAGAGACATAACA
*
858221 TGAAGTAAACCAATCTCTTTAAAGAG--ATAACA
1 TAAAGTAAACCAATCTCTTTAAAGAGACATAACA
858253 TAAAGTAAACCAATCTCTTTAAAGAGACATAACA
1 TAAAGTAAACCAATCTCTTTAAAGAGACATAACA
*
858287 TAAAGTAAACCAATCTCTTTAAAAAGACATAACA
1 TAAAGTAAACCAATCTCTTTAAAGAGACATAACA
858321 T
1 T
858322 CAAAATACTT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
32 31 0.33
34 64 0.67
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (34 bp):
TAAAGTAAACCAATCTCTTTAAAGAGACATAACA
Found at i:861694 original size:3 final size:3
Alignment explanation
Indices: 861686--861713 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
861676 CCAGACGTAT
861686 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
861714 CATTTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:865749 original size:55 final size:54
Alignment explanation
Indices: 865690--866178 Score: 228
Period size: 55 Copynumber: 9.1 Consensus size: 54
865680 GGGATAAGTG
* * *
865690 AGACTTGAA-AATTCTTCAAATGACGAGTATGTTCCCTATTCCTTCAG-GAAGTATA
1 AGACTTGAACAA-TCTTCAAA-AACGAGTATGCTCCCTATTCATTCAGAG-AGTATA
* * * * *
865745 AGACTCGAACAATCTTCATAAAATGTGTCTGCTCTCTATTCATTCAGAGAGTATA
1 AGACTTGAACAATCTTCA-AAAACGAGTATGCTCCCTATTCATTCAGAGAGTATA
** * * *
865800 AGACTTGAACAATCTTCAATAAAAC-AGGTCCGCTCTCTACTCCTTCAGAGAGTAT-
1 AGACTTGAACAATCTTC-A-AAAACGA-GTATGCTCCCTATTCATTCAGAGAGTATA
* * * * *
865855 AGAACTCGAAAAATCTTCAATAAA-TAG-ACCTGCTCTCTATTCTTTCAGAGAGTATA
1 AG-ACTTGAACAATCTTCAA-AAACGAGTA--TGCTCCCTATTCATTCAGAGAGTATA
* * * *
865911 GGAC-T---CAATCTTTAACAAACGTGT-TCGCTCCCTATTCCTTCAGAGAGTAT-
1 AGACTTGAACAATCTTCAA-AAACGAGTAT-GCTCCCTATTCATTCAGAGAGTATA
* * * ** * *
865961 AGAACTCGAGCAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-
1 AG-ACTTGAACAATCTTCA-AAAACGAGTATGCTCCCTATTCATTCAGAGAGTATA
* * ** **
866016 AGAACTCGAACAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATA
1 AG-ACTTGAACAATCTTCAA-AAACGAGTATGCTCCCTATTCATTCAGAGAGTATA
* ** ** *
866072 GGAC-T---CAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATA
1 AGACTTGAACAATCTTCAA-AAACGAGTATGCTCCCTATTCATTCAGAGAGTATA
* ** ** *
866123 TGAC-T---CAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATA
1 AGACTTGAACAATCTTCAA-AAACGAGTATGCTCCCTATTCATTCAGAGAGTATA
*
866174 GGACT
1 AGACT
866179 CAATCTTCAA
Statistics
Matches: 363, Mismatches: 47, Indels: 51
0.79 0.10 0.11
Matches are distributed among these distances:
50 2 0.01
51 132 0.36
52 1 0.00
54 3 0.01
55 173 0.48
56 52 0.14
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (54 bp):
AGACTTGAACAATCTTCAAAAACGAGTATGCTCCCTATTCATTCAGAGAGTATA
Found at i:865953 original size:51 final size:51
Alignment explanation
Indices: 865754--866194 Score: 406
Period size: 51 Copynumber: 8.3 Consensus size: 51
865744 AAGACTCGAA
* * * * *
865754 CAATCTTCATA-AAATGTGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTT
1 CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGAC-T
* * * * *
865806 GAACAATCTTCAATAAAACAG-GTCCGCTCTCTACTCCTTCAGAGAGTATAGAACT
1 ---CAATCTTCAA-CAAAC-GTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
* * *
865861 CGAAAAATCTTCAATAAA--TAGACCTGCTCTCTATTCTTTCAGAGAGTATAGGACT
1 C----AATCTTCAACAAACGT-GTCC-GCTCCCTATTCTTTCAGAGAGTATAGGACT
* * * *
865916 CAATCTTTAACAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAGAACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
* * * *
865967 CGAGCAATCTTCATA-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ----CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
* * *
866022 CGAACAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 ----CAATCTTCAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
* *
866077 CAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATATGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
*
866128 CAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
866179 CAATCTTCAACAAACG
1 CAATCTTCAACAAACG
866195 AATTTGCTTC
Statistics
Matches: 334, Mismatches: 34, Indels: 40
0.82 0.08 0.10
Matches are distributed among these distances:
51 151 0.45
52 3 0.01
53 1 0.00
54 5 0.01
55 132 0.40
56 41 0.12
57 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (51 bp):
CAATCTTCAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
Found at i:866020 original size:161 final size:159
Alignment explanation
Indices: 865754--866179 Score: 515
Period size: 161 Copynumber: 2.7 Consensus size: 159
865744 AAGACTCGAA
* * *
865754 CAATCTTCATA-AAATGTGTCTGCTCTCTATTCATTCAGAGAGTATA-AGACTTGAACAATCTTC
1 CAATCTTCA-ACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGA-AC-TG-ACAATCTTC
* *
865817 AATAAAACAGGTCCGCTCTCTACTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAA-TAAATA
62 -ATAAAACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACGAAATA
* *
865881 GACCTGCTCTCTATTCTTTCAGAGAGTATAGGACT
126 GACC-GCTCCCTATTCATTCAGAGAGTATAGGACT
* * *
865916 CAATCTTTAACAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAGCAATCTTCAT
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGAACT-GA-CAATCTTCAT
* * * * *
865981 AAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACGAACTTGTC
64 AAAACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACGAAATAGAC
866046 CGCTCCCTATTCATTCAGAGAGTATAGGACT
129 CGCTCCCTATTCATTCAGAGAGTATAGGACT
* *
866077 CAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATATG-ACT--CAATCTTCA-A
1 CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATA-GAACTGACAATCTTCATA
** * * *
866138 CAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTC
65 -AAACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
866180 AATCTTCAAC
Statistics
Matches: 233, Mismatches: 24, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
156 1 0.00
157 45 0.19
161 130 0.56
162 56 0.24
163 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (159 bp):
CAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGAACTGACAATCTTCATAA
AACAGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACGAAATAGACCG
CTCCCTATTCATTCAGAGAGTATAGGACT
Found at i:867537 original size:19 final size:19
Alignment explanation
Indices: 867513--867645 Score: 76
Period size: 19 Copynumber: 7.5 Consensus size: 19
867503 CCTCCTTTTA
*
867513 TTTCTCTTTTTTTTTCATT
1 TTTCTCTTTTTTCTTCATT
867532 TTTCTC--TTTT-TTCATT
1 TTTCTCTTTTTTCTTCATT
* *
867548 TTTC-ATTTTTTCTTCACT
1 TTTCTCTTTTTTCTTCATT
867566 TTTC-CATTTTTTCTTC-TT
1 TTTCTC-TTTTTTCTTCATT
* *
867584 TTT-T-TCTTTTCGT--TT
1 TTTCTCTTTTTTCTTCATT
**
867599 TTTC-CATCATTT-TTCATT
1 TTTCTC-TTTTTTCTTCATT
*
867617 TTTCTCATTTTTC-TCATTT
1 TTTCTCTTTTTTCTTCA-TT
867636 TTTCTCTTTT
1 TTTCTCTTTT
867646 ATTTCTTCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 26
0.70 0.09 0.20
Matches are distributed among these distances:
15 5 0.06
16 18 0.20
17 13 0.15
18 25 0.28
19 28 0.31
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTCTCTTTTTTCTTCATT
Found at i:867560 original size:43 final size:43
Alignment explanation
Indices: 867513--867637 Score: 105
Period size: 43 Copynumber: 2.9 Consensus size: 43
867503 CCTCCTTTTA
**
867513 TTTCTCTTTTTTTTTCATTTTTCTCTTTTTTCATTTTTCATTT
1 TTTCTCTTAATTTTTCATTTTTCTCTTTTTTCATTTTTCATTT
* * * *
867556 TTTCT-TCACTTTTCCATTTTTTCTTCTTTTTT--TCTTTTCGTTT
1 TTTCTCTTAATTTTTCA-TTTTTC-TCTTTTTTCAT-TTTTCATTT
* *
867599 TTTC-CATCATTTTTCATTTTTCTCATTTTTCTCATTTTT
1 TTTCTCTTAATTTTTCATTTTTCTC-TTTTT-TCATTTTT
867638 TCTCTTTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
41 2 0.03
42 19 0.30
43 30 0.47
44 12 0.19
45 1 0.02
ACGTcount: A:0.08, C:0.19, G:0.01, T:0.72
Consensus pattern (43 bp):
TTTCTCTTAATTTTTCATTTTTCTCTTTTTTCATTTTTCATTT
Found at i:877326 original size:44 final size:47
Alignment explanation
Indices: 877262--877358 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 47
877252 TGTTATCCAT
877262 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTATTC-
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* *
877307 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
877354 AAAAA
1 AAAAA
877359 ACGAAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
44 28 0.60
45 8 0.17
46 6 0.13
47 5 0.11
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:881476 original size:36 final size:36
Alignment explanation
Indices: 881395--881611 Score: 323
Period size: 36 Copynumber: 6.1 Consensus size: 36
881385 AGATGAACAA
* *
881395 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTC-AC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
*
881430 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
881466 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATT-
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC-TTC
* *
881502 TTGAATCGAAAGTGCTGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
* *
881538 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC-AC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
*
881573 TTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCTTC
1 -TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
881610 TT
1 TT
881612 CCTCACCTTC
Statistics
Matches: 164, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
35 34 0.21
36 127 0.77
37 3 0.02
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
Found at i:881535 original size:72 final size:71
Alignment explanation
Indices: 881395--881611 Score: 380
Period size: 72 Copynumber: 3.0 Consensus size: 71
881385 AGATGAACAA
* *
881395 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATTTGAATCGAAAGTGCCGATGCTTCCTTTCG
881460 TTCTTC
66 TTCTTC
*
881466 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATTTTGAATCGAAAGTGCTGATGCTTCCTTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA-TTTGAATCGAAAGTGCCGATGCTTCCTTTC
881531 GTTCTTC
65 GTTCTTC
*
881538 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA-TTTGAATCGAAAGTGCCGATGCTTCCTTTC
881603 GTTCTTC
65 GTTCTTC
881610 TT
1 TT
881612 CCTCACCTTC
Statistics
Matches: 139, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 33 0.24
72 106 0.76
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATTTGAATCGAAAGTGCCGATGCTTCCTTTCG
TTCTTC
Found at i:885444 original size:19 final size:19
Alignment explanation
Indices: 885420--885498 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 19
885410 GCGATTTTGA
885420 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
885439 AAAATGTGTTGCGAGAGTTT
1 AAAATGTGTTGCGATAG-TT
*
885459 GAAAAACGTGTTGTTGCGATAGTG
1 --AAAA--TG-TGTTGCGATAGTT
*
885483 AAAAAGTGTTGCGATA
1 AAAATGTGTTGCGATA
885499 ATGAAAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
19 26 0.52
20 3 0.06
22 8 0.16
24 3 0.06
25 10 0.20
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:885492 original size:44 final size:41
Alignment explanation
Indices: 885415--885496 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
885405 GCAACGCGAT
* *
885415 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
885456 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGA
885497 TAATGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 2 0.06
44 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:885503 original size:19 final size:19
Alignment explanation
Indices: 885470--885506 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
885460 AAAAACGTGT
*
885470 TGTTGCGATAGTGAAAAAG
1 TGTTGCGATAATGAAAAAG
885489 TGTTGCGATAATGAAAAA
1 TGTTGCGATAATGAAAAA
885507 TCCAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (19 bp):
TGTTGCGATAATGAAAAAG
Found at i:893153 original size:2 final size:2
Alignment explanation
Indices: 893146--893177 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
893136 TTATAATTTG
893146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
893178 ATTTGAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:896127 original size:18 final size:17
Alignment explanation
Indices: 896098--896144 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
896088 TTTTCAAAAG
896098 TAATAATTAAACCGATT
1 TAATAATTAAACCGATT
*
896115 TAATAACTTAAACTGATT
1 TAATAA-TTAAACCGATT
*
896133 AAATTAATTAAA
1 TAA-TAATTAAA
896145 TAAACCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 17 0.65
19 3 0.12
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (17 bp):
TAATAATTAAACCGATT
Found at i:896368 original size:21 final size:21
Alignment explanation
Indices: 896344--896383 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
896334 TGACTGAGGT
896344 TCACTTGATAATTGAGTTATG
1 TCACTTGATAATTGAGTTATG
896365 TCACTTGATAATTGAGTTA
1 TCACTTGATAATTGAGTTA
896384 CAGGTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (21 bp):
TCACTTGATAATTGAGTTATG
Found at i:897094 original size:21 final size:21
Alignment explanation
Indices: 897049--897094 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
897039 AAAGTTTTGT
*
897049 AGATTTTCAGGGAAGGACATG
1 AGATTTTCAGGGAAGGACATA
* *
897070 AGATTTTCAGTGAAGGACTTA
1 AGATTTTCAGGGAAGGACATA
897091 AGAT
1 AGAT
897095 GTTGGAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (21 bp):
AGATTTTCAGGGAAGGACATA
Found at i:898315 original size:16 final size:16
Alignment explanation
Indices: 898294--898338 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
898284 TCCAACTATC
898294 TAGTATTTTCGAGGTG
1 TAGTATTTTCGAGGTG
898310 TAGTATTTTCGAGGTG
1 TAGTATTTTCGAGGTG
*
898326 CAGTATTTT-GAGG
1 TAGTATTTTCGAGG
898339 AAAATCCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.20, C:0.07, G:0.31, T:0.42
Consensus pattern (16 bp):
TAGTATTTTCGAGGTG
Found at i:909474 original size:14 final size:14
Alignment explanation
Indices: 909455--909484 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
909445 ACTCTTCTGG
*
909455 TTATGAATTTTACT
1 TTATGAATATTACT
909469 TTATGAATATTACT
1 TTATGAATATTACT
909483 TT
1 TT
909485 TCTACTCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATGAATATTACT
Done.