Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_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: 3817888
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 19
Found at i:779388 original size:29 final size:30
Alignment explanation
Indices: 779354--779458 Score: 126
Period size: 30 Copynumber: 3.5 Consensus size: 30
779344 TTAATTTTTA
*
779354 ATTTTACTCCTAAAATTTAGATAGAATATA-
1 ATTTTAC-CCTAAATTTTAGATAGAATATAG
*
779384 ATTTAACCCTAAATTTTAGATAGAATA-AG
1 ATTTTACCCTAAATTTTAGATAGAATATAG
*
779413 ATTTTACCCTTAAATTTTAGAT-GAATATCG
1 ATTTTACCC-TAAATTTTAGATAGAATATAG
*
779443 ATTTAACCCATAAATT
1 ATTTTACCC-TAAATT
779459 CAATAAAAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 32 0.48
30 33 0.50
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (30 bp):
ATTTTACCCTAAATTTTAGATAGAATATAG
Found at i:779978 original size:20 final size:22
Alignment explanation
Indices: 779943--779984 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
779933 GTAAATAAAT
779943 CCCTCTAATATCGATA-CTATG
1 CCCTCTAATATCGATACCTATG
*
779964 CCCTC-AATATTGATACCTATG
1 CCCTCTAATATCGATACCTATG
779985 AACAATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (22 bp):
CCCTCTAATATCGATACCTATG
Found at i:786064 original size:20 final size:22
Alignment explanation
Indices: 786039--786087 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
786029 GAGGGAATCG
786039 TCCCCCCTG-A-GGGAACCGAT
1 TCCCCCCTGAAGGGGAACCGAT
*
786059 TCCCCCTTGAAGGGGAACCGAT
1 TCCCCCCTGAAGGGGAACCGAT
786081 TCCCCCC
1 TCCCCCC
786088 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 16 0.64
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.16
Consensus pattern (22 bp):
TCCCCCCTGAAGGGGAACCGAT
Found at i:786093 original size:21 final size:21
Alignment explanation
Indices: 786049--786108 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
786039 TCCCCCCTGA
*
786049 GGGAACCGATTCCCCCTTGAAG
1 GGGAACCGATTCCCCC-TCAAG
786071 GGGAACCGATTCCCCC-CACAG
1 GGGAACCGATTCCCCCTCA-AG
* *
786092 GGGAATCGATACCCCCT
1 GGGAACCGATTCCCCCT
786109 GGGGTTCTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 16 0.48
22 16 0.48
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTCAAG
Found at i:794675 original size:30 final size:31
Alignment explanation
Indices: 794594--794714 Score: 226
Period size: 31 Copynumber: 3.9 Consensus size: 31
794584 TACACAGTAT
*
794594 AGTTTTAAGGTACAATAGTCAATAGCTCTTG
1 AGTTTTAAGGTACAATAATCAATAGCTCTTG
794625 AGTTTTAAGGTACAATAATCAATAGCTCTTG
1 AGTTTTAAGGTACAATAATCAATAGCTCTTG
794656 AGTTTTAAGGTAC-ATAATCAATAGCTCTTG
1 AGTTTTAAGGTACAATAATCAATAGCTCTTG
794686 AGTTTTAAGGTACAATAATCAATAGCTCT
1 AGTTTTAAGGTACAATAATCAATAGCTCT
794715 GCCGAATTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
30 30 0.34
31 58 0.66
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (31 bp):
AGTTTTAAGGTACAATAATCAATAGCTCTTG
Found at i:794686 original size:61 final size:62
Alignment explanation
Indices: 794594--794714 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 62
794584 TACACAGTAT
*
794594 AGTTTTAAGGTACAATAGTCAATAGCTCTTGAGTTTTAAGGTACAATAATCAATAGCTCTTG
1 AGTTTTAAGGTACAATAATCAATAGCTCTTGAGTTTTAAGGTACAATAATCAATAGCTCTTG
794656 AGTTTTAAGGTAC-ATAATCAATAGCTCTTGAGTTTTAAGGTACAATAATCAATAGCTCT
1 AGTTTTAAGGTACAATAATCAATAGCTCTTGAGTTTTAAGGTACAATAATCAATAGCTCT
794715 GCCGAATTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 45 0.78
62 13 0.22
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (62 bp):
AGTTTTAAGGTACAATAATCAATAGCTCTTGAGTTTTAAGGTACAATAATCAATAGCTCTTG
Found at i:795128 original size:224 final size:225
Alignment explanation
Indices: 794738--795184 Score: 855
Period size: 224 Copynumber: 2.0 Consensus size: 225
794728 CTTCATTTAT
794738 ACAATCACCATTGAAACCCAAAGGGATGCTAACAACAAAATACCAAGTCTGCACCTTTTTTTCCT
1 ACAATCACCATTGAAACCCAAAGGGATGCTAACAACAAAATACCAAGTCTGCACCTTTTTTTCCT
794803 AATCCAATATTCCGATACCACTCCAAAGTTCGTCTGATGATGCAGCTAATTAATTTTAGTATAAC
66 AATCCAATATTCCGATACCACTCCAAAGTTCGTCTGATGATGCAGCTAATTAATTTTAGTATAAC
794868 TTTTATTGTGAAATCTAACTTCATATGTCCAGCAATCCC-AGATATACAAAGTCAACCAAATAAC
131 TTTTATTGTGAAATCTAACTTCATATGTCCAGCAATCCCAAGATATACAAAGTCAACCAAATAAC
794932 TGCATAA-CAGCATAGCATTTAACAAATCTG
196 TGCATAACCAGCATAGCATTT-ACAAATCTG
794962 ACAATCACCATTGAAACCCAAAGGGATGCTAACAACAAAATACCAAGTCTGCACC-TTTTTTCCT
1 ACAATCACCATTGAAACCCAAAGGGATGCTAACAACAAAATACCAAGTCTGCACCTTTTTTTCCT
795026 AATCCAATATTCCGATACCACTCCAAAGTTCGTCTGATGATGCAGCTAATTAATTTTAGTATAAC
66 AATCCAATATTCCGATACCACTCCAAAGTTCGTCTGATGATGCAGCTAATTAATTTTAGTATAAC
795091 TTTTTATTGTGAAATCTAACTTCATATGTCCAGCAATCCCAAGATATACAAAGTCAACCAAATAA
131 -TTTTATTGTGAAATCTAACTTCATATGTCCAGCAATCCCAAGATATACAAAGTCAACCAAATAA
795156 CTGCATAACCAGCATAGCATTTACAAATC
195 CTGCATAACCAGCATAGCATTTACAAATC
795185 CCGATAATTT
Statistics
Matches: 220, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
223 74 0.34
224 94 0.43
225 39 0.18
226 13 0.06
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.28
Consensus pattern (225 bp):
ACAATCACCATTGAAACCCAAAGGGATGCTAACAACAAAATACCAAGTCTGCACCTTTTTTTCCT
AATCCAATATTCCGATACCACTCCAAAGTTCGTCTGATGATGCAGCTAATTAATTTTAGTATAAC
TTTTATTGTGAAATCTAACTTCATATGTCCAGCAATCCCAAGATATACAAAGTCAACCAAATAAC
TGCATAACCAGCATAGCATTTACAAATCTG
Found at i:796149 original size:75 final size:75
Alignment explanation
Indices: 796017--796165 Score: 201
Period size: 75 Copynumber: 2.0 Consensus size: 75
796007 CACCACTACG
* * *
796017 AGTATAGGTACTACTACACTAAGTAGTATCGATATCGTATATAATATTGGTATCATTTTAGCATT
1 AGTATAGGTACTACTACACTAAGTAGTATCGATACCGTAAATAATATTGGTACCATTTTAGCATT
796082 TTGTTTTGAC
66 TTGTTTTGAC
* * * * * *
796092 AGTATCGGTACTACTATACTAAGTAGTATTGTTACCGTAAATAGTATAT-GTACCATTTTATCAT
1 AGTATAGGTACTACTACACTAAGTAGTATCGATACCGTAAATAATAT-TGGTACCATTTTAGCAT
796156 TTTGTTTTGA
65 TTTGTTTTGA
796166 TACCATAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
75 63 0.98
76 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (75 bp):
AGTATAGGTACTACTACACTAAGTAGTATCGATACCGTAAATAATATTGGTACCATTTTAGCATT
TTGTTTTGAC
Found at i:796434 original size:3 final size:3
Alignment explanation
Indices: 796426--796474 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
796416 CTATGCTTTA
796426 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
796472 ATT
1 ATT
796475 TCTTAAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:800249 original size:13 final size:13
Alignment explanation
Indices: 800231--800256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
800221 GGTCAACGGT
800231 AACGGGTCGGGTC
1 AACGGGTCGGGTC
800244 AACGGGTCGGGTC
1 AACGGGTCGGGTC
800257 GGGTCAACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:800256 original size:18 final size:18
Alignment explanation
Indices: 800233--800273 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
800223 TCAACGGTAA
800233 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
800251 CGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
800269 CGGGT
1 CGGGT
800274 AAACGGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:800269 original size:13 final size:13
Alignment explanation
Indices: 800251--800286 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
800241 GTCAACGGGT
*
800251 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
800264 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
800277 CGGGTCGGGT
1 CGGGTCGGGT
800287 TATGACCGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:801494 original size:22 final size:22
Alignment explanation
Indices: 801467--801509 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
801457 TAAAATATAT
* *
801467 TTTTAGTTATCATAACCAATTA
1 TTTTAGTTATAATAACAAATTA
801489 TTTTAGTTATAATAACAAATT
1 TTTTAGTTATAATAACAAATT
801510 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTTAGTTATAATAACAAATTA
Found at i:801580 original size:23 final size:23
Alignment explanation
Indices: 801554--801598 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
801544 ATGATAATTT
801554 ATTTAGACAAAATAAAAAATTAA
1 ATTTAGACAAAATAAAAAATTAA
**
801577 ATTTAGTTAAAATAAAAAATTA
1 ATTTAGACAAAATAAAAAATTA
801599 TGTCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTTAGACAAAATAAAAAATTAA
Found at i:801902 original size:198 final size:197
Alignment explanation
Indices: 801573--802169 Score: 713
Period size: 198 Copynumber: 3.0 Consensus size: 197
801563 AAATAAAAAA
* * *
801573 TTAAATTTAGTTAAAATAAAAAATTATGTCAAATTTATTTAGTCAAAATATTTTCTCAAAATAAT
1 TTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTAGTCACAATATTTTGTCAAAATAA-
** * * * * * *
801638 AAATTATGACAAATTTAAATAGTTATAATAACAAATTATAATAAATATTAATTCCTCA-ATATAA
65 AAATTATGACAAATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATA-ATAA
* * * * *
801702 AAAATTATGAAAAATAATATTCTTTTACAATAACAAATTGTAACAAATTTATTTAGTTACAACAA
129 AAAATTGTGAAAAATAATATTCTTTCACAATAACAAATTGTAACAAAATGATTTAGTCACAACAA
801767 CATAG
194 CA-AG
* * *
801772 -TAAATTTAGTCAAAATAAAAATTTATGCCAAATTTATTTTGTCACAATATTTTGTCAAAATAAA
1 TTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTAGTCACAATATTTTGTCAAAATAAA
* * * * *
801836 AGATTCT-AAAAATTTTATTTAATCAAAATAATAATTTATGACAAATTTTAATTTCTCATAATAA
66 A-ATTATGACAAA-TTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATAATAA
* * * * *
801900 AAAATTGTGACAAGTAATATTCTTTCACAATAATAAATTGCAACAAAATGATTTAGTCACAATAA
129 AAAATTGTGAAAAATAATATTCTTTCACAATAACAAATTGTAACAAAATGATTTAGTCACAACAA
*
801965 CACG
194 CAAG
* * *
801969 TTAAATTTAGTCAAAGTAAAAAGTTATGTCAAATTTATTTCGTC-CTAATATTTTGTCAAAATAA
1 TTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTAGTCAC-AATATTTTGTCAAAAT-A
* *
802033 AAAATTGTGACAAATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATTATAA
64 AAAATTATGACAAATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATAATAA
*
802098 AAAATTGTGGCAAAAAT--TATTCTTTCACAATAACAAATTGTAACAAAACT-TTTTAGTCACAA
129 AAAATTGT-G-AAAAATAATATTCTTTCACAATAACAAATTGTAACAAAA-TGATTTAGTCACAA
* *
802160 TAAAAAG
191 CAACAAG
802167 TTA
1 TTA
802170 TAAAAAATAT
Statistics
Matches: 341, Mismatches: 47, Indels: 21
0.83 0.11 0.05
Matches are distributed among these distances:
197 8 0.02
198 318 0.93
199 11 0.03
200 4 0.01
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (197 bp):
TTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTAGTCACAATATTTTGTCAAAATAAA
AATTATGACAAATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATAATAAAA
AATTGTGAAAAATAATATTCTTTCACAATAACAAATTGTAACAAAATGATTTAGTCACAACAACA
AG
Found at i:801994 original size:23 final size:23
Alignment explanation
Indices: 801950--801994 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
801940 CAACAAAATG
* *
801950 ATTTAGTCACAATAACACGTTAA
1 ATTTAGTCACAATAAAAAGTTAA
801973 ATTTAGTCA-AAGTAAAAAGTTA
1 ATTTAGTCACAA-TAAAAAGTTA
801995 TGTCAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (23 bp):
ATTTAGTCACAATAAAAAGTTAA
Found at i:802839 original size:72 final size:71
Alignment explanation
Indices: 802720--802856 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 71
802710 ATCCATCGGC
* * *
802720 ATGCTCCATAATAAACGAAACAAATAGTAAATCAGATAGAAGCCAAGTGCAATTGAAGTTAGACA
1 ATGCTCCATAATAAAAGAAACAAATAATAAATCAGATAGAAGCCAAGTCCAATTGAAGTTAGACA
802785 TATTTA
66 TATTTA
* * * * * *
802791 ATGCTCCATGATAAAAAGAAACAAATAATAAATCAGCTAGCAGTCAAGTCCAGTTGAAGTTGGAC
1 ATGCTCCATAAT-AAAAGAAACAAATAATAAATCAGATAGAAGCCAAGTCCAATTGAAGTTAGAC
802856 A
65 A
802857 CAGTTATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
71 11 0.20
72 45 0.80
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (71 bp):
ATGCTCCATAATAAAAGAAACAAATAATAAATCAGATAGAAGCCAAGTCCAATTGAAGTTAGACA
TATTTA
Found at i:804626 original size:24 final size:24
Alignment explanation
Indices: 804594--804651 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
804584 TTTTATGTTA
* *
804594 GTTCGTTTATGTCCATTCGTTTGT
1 GTTCGTTTATGTACATTCGCTTGT
* *
804618 GTTCATTTACGTACATTCGCTTGT
1 GTTCGTTTATGTACATTCGCTTGT
804642 GTTCGTTTAT
1 GTTCGTTTAT
804652 CATTTTAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.52
Consensus pattern (24 bp):
GTTCGTTTATGTACATTCGCTTGT
Found at i:806806 original size:3 final size:3
Alignment explanation
Indices: 806798--806823 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
806788 TTAGGTTAGT
806798 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
806824 TACTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:807320 original size:20 final size:20
Alignment explanation
Indices: 807253--807320 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
807243 AGGTGATAAC
*
807253 ACGGTTCCTACGTGATGAGG
1 ACGGCTCCTACGTGATGAGG
** * *
807273 ACGGCTTGTTATCTGGGATGA-C
1 ACGGC-TCCTA-C-GTGATGAGG
807295 ACGGCTCCTACGTGATGAGG
1 ACGGCTCCTACGTGATGAGG
807315 ACGGCT
1 ACGGCT
807321 GGTCGGGGGA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 6 0.17
22 6 0.17
23 6 0.17
ACGTcount: A:0.19, C:0.22, G:0.34, T:0.25
Consensus pattern (20 bp):
ACGGCTCCTACGTGATGAGG
Found at i:807323 original size:128 final size:130
Alignment explanation
Indices: 807162--807491 Score: 366
Period size: 128 Copynumber: 2.5 Consensus size: 130
807152 TATTAAAGGG
* **
807162 GTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACGGTTTCTACACGATGAGG
1 GTGACACGGCTCCTACGTGATGAGGAG-GCTGGTCGGG-GATGACACGGTTTCTACGTGATGAGG
* * *
807227 ATG-GCAGGAAATCTATA-G-GTGATAACACGGTTCCTACGTGATGAGGACGGCTTGTTATCTGG
64 ATGTGCAGGAAATCTATAGGAGTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTATCTAG
807289 GA
129 GA
* *
807291 -TGACACGGCTCCTACGTGATGAGGACGGCTGGTCGGGGGATGACACGG-CTCATACGTGATGAA
1 GTGACACGGCTCCTACGTGATGAGGA-GGCTGGTC-GGGGATGACACGGTTTC-TACGTGATGAG
* * ** * *
807354 GA-GTTCTGGCCATCTTTAGGGAATGTGATAACACGGTTTCTACGCGATGAGGACGGCTGGTTAT
63 GATGTGCAGGAAATCTATA-GG-A-GTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTAT
*
807418 CTAGTA
125 CTAGGA
* * *
807424 GTGACACGGCTCCTACGTGATGAGGAGGTCTGATCAAGGGATGACACAGTTTCTACGTGATGAGG
1 GTGACACGGCTCCTACGTGATGAGGAGG-CTGGTC-GGGGATGACACGGTTTCTACGTGATGAGG
807489 ATG
64 ATG
807492 ACTGACCATC
Statistics
Matches: 167, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
127 3 0.02
128 60 0.36
129 4 0.02
130 1 0.01
133 43 0.26
134 53 0.32
135 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (130 bp):
GTGACACGGCTCCTACGTGATGAGGAGGCTGGTCGGGGATGACACGGTTTCTACGTGATGAGGAT
GTGCAGGAAATCTATAGGAGTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGA
Found at i:807347 original size:40 final size:41
Alignment explanation
Indices: 807251--807352 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 41
807241 ATAGGTGATA
* *
807251 ACACGGTTCCTACGTGATGAGGACGGCTTGTTATCTGGGATG
1 ACACGGCTCCTACGTGATGAGGACGGCTTG-TATCGGGGATG
*
807293 ACACGGCTCCTACGTGATGAGGACGGC-TG-GTCGGGGGATG
1 ACACGGCTCCTACGTGATGAGGACGGCTTGTATC-GGGGATG
*
807333 ACACGGCTCATACGTGATGA
1 ACACGGCTCCTACGTGATGA
807353 AGAGTTCTGG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 2 0.04
40 25 0.45
41 2 0.04
42 26 0.47
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.23
Consensus pattern (41 bp):
ACACGGCTCCTACGTGATGAGGACGGCTTGTATCGGGGATG
Found at i:807501 original size:134 final size:129
Alignment explanation
Indices: 807027--807507 Score: 386
Period size: 134 Copynumber: 3.6 Consensus size: 129
807017 GTTTGAGGGT
* * ** * *
807027 TGACACGACTCCTATGTGATGAGGATATCTGGTCAGGGGATGACAC-TGCTCATACGTGATGAAG
1 TGACACGGCTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACGT-TTC-TACGTGATGAGG
* * * * * *** *
807091 A-GTTCTTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTATGTGATGAGGACAATTGGCTAT
63 ATG-AC-TGACCATCTTTA-G--GGGTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTAT
*
807155 -TAAAGGGG
123 CT--AGGAG
* **
807163 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGTGATGACACGGTTTCTACACGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGG-GATGACAC-GTTTCTACGTGATGAGGA
* * * * * * *
807228 TGGCAGGA-AATCTATA--GGTGATAACACGGTTCCTACGTGATGAGGACGGCTTGTTATCTGGG
64 TGAC-TGACCATCTTTAGGGGTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGG
807290 A-
128 AG
** *
807291 TGACACGGCTCCTACGTGATGAGGACGG-CTGGTCGGGGGATGACACGGCTCATACGTGATGAAG
1 TGACACGGCTCCTACGTGATGAGGA-GGTCTGGTC-GGGGATGACACGTTTC-TACGTGATGAGG
* * *
807355 A-GTTCTGGCCATCTTTAGGGAATGTGATAACACGGTTTCTACGCGATGAGGACGGCTGGTTATC
63 ATG-ACTGACCATCTTTAGGG---GTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTATC
*
807419 TAGTAG
124 TAGGAG
* *
807425 TGACACGGCTCCTACGTGATGAGGAGGTCTGATCAAGGGATGACACAGTTTCTACGTGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACAC-GTTTCTACGTGATGAGGA
807490 TGACTGACCATCTTTAGG
64 TGACTGACCATCTTTAGG
807508 ATAATGGTTT
Statistics
Matches: 280, Mismatches: 46, Indels: 40
0.77 0.13 0.11
Matches are distributed among these distances:
127 5 0.02
128 56 0.20
129 6 0.02
130 35 0.12
131 1 0.00
133 43 0.15
134 66 0.24
135 13 0.05
136 51 0.18
137 3 0.01
138 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGTTTCTACGTGATGAGGATG
ACTGACCATCTTTAGGGGTGATAACACGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGAG
Found at i:807663 original size:33 final size:33
Alignment explanation
Indices: 807609--807735 Score: 150
Period size: 33 Copynumber: 3.8 Consensus size: 33
807599 AGATGGTTTT
*
807609 GTTTCAAGAGAAA-TATACTCAAAGATTTAATTC
1 GTTTCAAGAGAAACGAT-CTCAAAGATTTAATTC
* ** *
807642 GTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTT
1 GTTTCAAGAGAAACGATCTCAAAGA--TTTAATTC
807677 GTTTCAAGAGAAACAGA-CTCAAAGATTTAATTC
1 GTTTCAAGAGAAAC-GATCTCAAAGATTTAATTC
*
807710 GTTTCAAGGGAAACGATCTCAAAGAT
1 GTTTCAAGAGAAACGATCTCAAAGAT
807736 GTTTGTTTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.03
33 47 0.59
34 2 0.03
35 26 0.33
36 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (33 bp):
GTTTCAAGAGAAACGATCTCAAAGATTTAATTC
Found at i:807697 original size:68 final size:68
Alignment explanation
Indices: 807574--807743 Score: 269
Period size: 68 Copynumber: 2.6 Consensus size: 68
807564 AAAGAGACAA
* * * *
807574 AATTTGTTTCAAGGG-AATGA-CTCAAAGATG---GTTTTGTTTCAAGAGAAATATACTCAAAGA
1 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTGTTTCAAGAGAAACAGACTCAAAGA
807634 TTT
66 TTT
807637 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTGTTTCAAGAGAAACAGACTCAAAGA
1 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTGTTTCAAGAGAAACAGACTCAAAGA
807702 TTT
66 TTT
807705 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTT
1 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTT
807744 CATGAGAAAC
Statistics
Matches: 98, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
63 14 0.14
64 4 0.04
65 10 0.10
68 70 0.71
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (68 bp):
AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTGTTTCAAGAGAAACAGACTCAAAGA
TTT
Found at i:807818 original size:66 final size:65
Alignment explanation
Indices: 807710--807865 Score: 213
Period size: 66 Copynumber: 2.4 Consensus size: 65
807700 GATTTAATTC
* * * * *
807710 GTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTCATGAGAAACATTCTCAAGGAAAATAAGATG
1 GTTTCAAGAGAAA-TATCTCAAAGATGTTTCTTTCATAAGAAACAGTCTCAAGGAAAATAAGATG
807775 T
65 T
* * *
807776 GTTTCAAGAGAAATAATCTCAAAGATGTTTCTTTTATAAGAAACAGTCTCAAGGAAAATAATATT
1 GTTTCAAGAGAAAT-ATCTCAAAGATGTTTCTTTCATAAGAAACAGTCTCAAGGAAAATAAGATG
807841 T
65 T
807842 GTTTCAAGAGAAACTATCTCAAAG
1 GTTTCAAGAGAAA-TATCTCAAAG
807866 TAGACTGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
66 79 0.99
67 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (65 bp):
GTTTCAAGAGAAATATCTCAAAGATGTTTCTTTCATAAGAAACAGTCTCAAGGAAAATAAGATGT
Found at i:807855 original size:36 final size:35
Alignment explanation
Indices: 807737--807863 Score: 90
Period size: 36 Copynumber: 3.7 Consensus size: 35
807727 CTCAAAGATG
* *
807737 TTTGTTTCATGAGAAACATTCTCAAGGAAAATAAGA
1 TTTGTTTCAAGAGAAACA-TCTCAAGGAAAATAATA
* * * *
807773 TGTGTTTCAAGAGAAATAATCTC-A--AAGAT-GT-
1 TTTGTTTCAAGAGAAA-CATCTCAAGGAAAATAATA
807804 TTCT-TTT-ATA-AGAAACAGTCTCAAGGAAAATAATA
1 TT-TGTTTCA-AGAGAAACA-TCTCAAGGAAAATAATA
807839 TTTGTTTCAAGAGAAACTATCTCAA
1 TTTGTTTCAAGAGAAAC-ATCTCAA
807864 AGTAGACTGA
Statistics
Matches: 68, Mismatches: 10, Indels: 26
0.65 0.10 0.25
Matches are distributed among these distances:
29 1 0.01
30 10 0.15
31 6 0.09
32 1 0.01
33 8 0.12
34 2 0.03
35 7 0.10
36 31 0.46
37 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (35 bp):
TTTGTTTCAAGAGAAACATCTCAAGGAAAATAATA
Found at i:809235 original size:2 final size:2
Alignment explanation
Indices: 809228--809282 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
809218 AGCTTTATTG
809228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
809270 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
809283 TTGTATGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:811102 original size:16 final size:17
Alignment explanation
Indices: 811083--811118 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
811073 CGAAATTTCA
811083 GATATCC-AAATTTTTG
1 GATATCCTAAATTTTTG
*
811099 GATATCCTAATTTTTTG
1 GATATCCTAAATTTTTG
811116 GAT
1 GAT
811119 CGGATACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (17 bp):
GATATCCTAAATTTTTG
Found at i:812077 original size:19 final size:19
Alignment explanation
Indices: 812053--812100 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
812043 TCTATTATCA
*
812053 GTAATCTTTAACTCTAATT
1 GTAATCTTCAACTCTAATT
812072 GTAATCTTCAACTCTAATT
1 GTAATCTTCAACTCTAATT
812091 GTAATCTTCA
1 GTAATCTTCA
812101 CAAGCTTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (19 bp):
GTAATCTTCAACTCTAATT
Found at i:815217 original size:20 final size:20
Alignment explanation
Indices: 815192--815231 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
815182 ATAATGGTGA
* *
815192 ATTTGGTTGCTTTTTGAGTG
1 ATTTGGTGGATTTTTGAGTG
815212 ATTTGGTGGATTTTTGAGTG
1 ATTTGGTGGATTTTTGAGTG
815232 GACTTGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.53
Consensus pattern (20 bp):
ATTTGGTGGATTTTTGAGTG
Found at i:815318 original size:34 final size:34
Alignment explanation
Indices: 815275--815339 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
815265 TGGTGACTCA
*
815275 GTGGCTCGACGATGACTGGAACGTAGGCTCGTCG
1 GTGGCTCGACGACGACTGGAACGTAGGCTCGTCG
*
815309 GTGGCTCGACGACGACTGGAACGTTGGCTCG
1 GTGGCTCGACGACGACTGGAACGTAGGCTCG
815340 ATGGAACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (34 bp):
GTGGCTCGACGACGACTGGAACGTAGGCTCGTCG
Found at i:815851 original size:23 final size:23
Alignment explanation
Indices: 815825--815873 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
815815 AATGACTGAC
*
815825 TTTATGACACGTTTTCTTCTGT-T
1 TTTATGACACATTTTC-TCTGTGT
*
815848 TTTATGGCACATTTTCTCTGTGT
1 TTTATGACACATTTTCTCTGTGT
815871 TTT
1 TTT
815874 GGCAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTATGACACATTTTCTCTGTGT
Found at i:815882 original size:21 final size:23
Alignment explanation
Indices: 815836--815883 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
815826 TTATGACACG
* *
815836 TTTTCTTCTGTTTTTATGGCACA
1 TTTTCTTCTGTGTTTATGGCAAA
815859 TTTTC-TCTGTGTTT-TGGCAAA
1 TTTTCTTCTGTGTTTATGGCAAA
815880 TTTT
1 TTTT
815884 AGGTTGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 8 0.35
23 5 0.22
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (23 bp):
TTTTCTTCTGTGTTTATGGCAAA
Found at i:816363 original size:35 final size:36
Alignment explanation
Indices: 816321--816411 Score: 148
Period size: 35 Copynumber: 2.6 Consensus size: 36
816311 TTAATAAAGC
816321 TAACGACTTCTATCTTGTAATTTTTTAAAT-AAAAT
1 TAACGACTTCTATCTTGTAATTTTTTAAATAAAAAT
* * *
816356 TAGCGACTTCGATCTTGTAATTTTTTTAATAAAAAT
1 TAACGACTTCTATCTTGTAATTTTTTAAATAAAAAT
816392 TAACGACTTCTATCTTGTAA
1 TAACGACTTCTATCTTGTAA
816412 AAAAATTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 27 0.54
36 23 0.46
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (36 bp):
TAACGACTTCTATCTTGTAATTTTTTAAATAAAAAT
Found at i:816391 original size:36 final size:35
Alignment explanation
Indices: 816308--816411 Score: 147
Period size: 35 Copynumber: 3.0 Consensus size: 35
816298 TATTTTTCTA
**
816308 TTTTT-AATAAAGCTAACGACTTCTATCTTGTAAT
1 TTTTTAAATAAAATTAACGACTTCTATCTTGTAAT
* *
816342 TTTTTAAATAAAATTAGCGACTTCGATCTTGTAAT
1 TTTTTAAATAAAATTAACGACTTCTATCTTGTAAT
*
816377 TTTTTTAATAAAAATTAACGACTTCTATCTTGTAA
1 TTTTTAAAT-AAAATTAACGACTTCTATCTTGTAA
816412 AAAAATTGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 5 0.08
35 33 0.54
36 23 0.38
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTTTAAATAAAATTAACGACTTCTATCTTGTAAT
Found at i:817869 original size:27 final size:27
Alignment explanation
Indices: 817839--817892 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
817829 CTTGAGACCA
817839 AGAACAGGTCTTACACTGAGCAATTGT
1 AGAACAGGTCTTACACTGAGCAATTGT
817866 AGAACAGGTCTTACACTGAGCAATTGT
1 AGAACAGGTCTTACACTGAGCAATTGT
817893 GTTTAAACTA
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:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AGAACAGGTCTTACACTGAGCAATTGT
Found at i:820446 original size:19 final size:20
Alignment explanation
Indices: 820418--820456 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
820408 TGGTAAATAA
*
820418 TTATTTAAAATATT-ATTTT
1 TTATTAAAAATATTAATTTT
820437 TTATTAAAAATATTAATTTT
1 TTATTAAAAATATTAATTTT
820457 GATATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTAAAAATATTAATTTT
Found at i:821453 original size:23 final size:22
Alignment explanation
Indices: 821402--821454 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
821392 TTTTATATAT
* *
821402 TATTTTTTTTCAATTAAATCAC
1 TATTTTTTTTCAATAAAATCAA
*
821424 TATTTTTATTCAATAAAAAT-AA
1 TATTTTTTTTCAAT-AAAATCAA
821446 TATTTTTTT
1 TATTTTTTT
821455 ATTATTTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTTTTTCAATAAAATCAA
Found at i:823756 original size:20 final size:20
Alignment explanation
Indices: 823731--823824 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
823721 TTTTCCCAAT
823731 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
823751 TCGCAATGCG-AT-ACTGACTA
1 TCGCAATGCGAATAAGT-A-AA
* *
823771 TCGCAATGCGAATTTAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
*
823792 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
*
823812 TCGCAATTCGAAT
1 TCGCAATGCGAAT
823825 CTTACTATCG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 38 0.63
21 14 0.23
22 2 0.03
23 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:823811 original size:61 final size:60
Alignment explanation
Indices: 823731--823846 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 60
823721 TTTTCCCAAT
823731 TCGCAATGCGAATAAGTAAATCGCAATGCG-ATACTGACTATCGCAATGCGAATTTAGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAAT-CTGACTATCGCAATGCG-ATTTAGAAAA
* * *
823792 TCGCAATGCGAATACGTAAATCGCAATTCGAATCTTACTATCGCAATGCGATTTA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATCTGACTATCGCAATGCGATTTA
823847 CATAGCTCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
60 5 0.10
61 44 0.86
62 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (60 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATCTGACTATCGCAATGCGATTTAGAAAA
Found at i:823815 original size:41 final size:41
Alignment explanation
Indices: 823731--823824 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
823721 TTTTCCCAAT
* *
823731 TCGCAATGCGAA-TAAGTAAATCGCAATGCGATACTGACTA
1 TCGCAATGCGAATTAAGAAAATCGCAATGCGATACTGACAA
*
823771 TCGCAATGCGAATTTAGAAAATCGCAATGCGAATAC-GTA-AA
1 TCGCAATGCGAATTAAGAAAATCGCAATGCG-ATACTG-ACAA
*
823812 TCGCAATTCGAAT
1 TCGCAATGCGAAT
823825 CTTACTATCG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 12 0.26
41 30 0.64
42 5 0.11
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (41 bp):
TCGCAATGCGAATTAAGAAAATCGCAATGCGATACTGACAA
Found at i:824422 original size:19 final size:19
Alignment explanation
Indices: 824400--824526 Score: 94
Period size: 20 Copynumber: 7.1 Consensus size: 19
824390 GAAACCAAAA
*
824400 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
824419 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
824433 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
824452 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
824466 TCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCA-TT
* *
824486 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
824505 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
824525 TC
1 TC
824527 AACCAAAAGA
Statistics
Matches: 88, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
14 20 0.23
16 5 0.06
17 6 0.07
19 24 0.27
20 33 0.38
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:824441 original size:14 final size:14
Alignment explanation
Indices: 824422--824477 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
824412 TTTCATTTCG
824422 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
824436 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
824455 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
824469 CGTTGCGAT
1 CGTTGCGAT
824478 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:824447 original size:33 final size:33
Alignment explanation
Indices: 824405--824501 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
824395 CAAAATCGCA
824405 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
824438 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
824471 TTGCGATAGTCATTTTCTCGTTGCGATTCTC
1 TTGCGATTTTCA-TTTCGCGTTGCGATTCTC
824502 ATTATCTCGT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 43 0.72
34 17 0.28
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:826399 original size:94 final size:94
Alignment explanation
Indices: 826274--826480 Score: 398
Period size: 94 Copynumber: 2.2 Consensus size: 94
826264 GAAGTTAGTA
826274 TTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTGAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
*
826338 AACACTGTGAAGTTAGTATTTGTCTTTGT
66 AACACTGTGAAATTAGTATTTGTCTTTGT
826367 TTTGTCTTTTGGTTGAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTGAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
826432 AACACTGTGAAATTAGTATTTGTCTTTGT
66 AACACTGTGAAATTAGTATTTGTCTTTGT
826461 TTTGTCTTTTGGTTGAAAGT
1 TTTGTCTTTTGGTTGAAAGT
826481 TTGAAATATA
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 15 0.13
94 97 0.87
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
TTTGTCTTTTGGTTGAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
AACACTGTGAAATTAGTATTTGTCTTTGT
Found at i:828187 original size:14 final size:14
Alignment explanation
Indices: 828168--828203 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
828158 ATTGTTTAAT
828168 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
828182 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
828196 TGATTTGT
1 TGATTTGT
828204 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:828334 original size:19 final size:19
Alignment explanation
Indices: 828310--828370 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
828300 AAAAAGTACT
*
828310 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
828329 ATCGCAACGCG--A-G--A
1 ATCGCAACGCGAAATGAAA
*
828343 ATCGCAACCCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
828362 ATCGCAACG
1 ATCGCAACG
828371 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 11 0.32
16 2 0.06
17 2 0.06
19 19 0.56
ACGTcount: A:0.43, C:0.25, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:828347 original size:14 final size:14
Alignment explanation
Indices: 828328--828387 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
828318 GCGAAATGAA
828328 AATCGCAACGCGAG
1 AATCGCAACGCGAG
*
828342 AATCGCAACCCGAAATG
1 AATCGCAACGCG--A-G
*
828359 AAAATCGCAACGAGAG
1 --AATCGCAACGCGAG
828375 AATCGCAACGCGA
1 AATCGCAACGCGA
828388 AATTAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 23 0.62
16 2 0.05
17 2 0.05
19 10 0.27
ACGTcount: A:0.42, C:0.27, G:0.23, T:0.08
Consensus pattern (14 bp):
AATCGCAACGCGAG
Found at i:828356 original size:33 final size:33
Alignment explanation
Indices: 828310--828399 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
828300 AAAAAGTACT
* *
828310 ATCGCAATGCGAAATGAAAATCGCAACGCGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
828343 ATCGCAACCCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
828376 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
828400 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:828417 original size:19 final size:19
Alignment explanation
Indices: 828395--828525 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
828385 CGAAATTAAA
*
828395 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
828414 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
828430 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
828447 TTCGCATTGCGAAATTCA-
1 TTCGCATTGCGATTTTCAT
828465 --CG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
828480 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
828496 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
828513 TTCGCATTGCGAT
1 TTCGCATTGCGAT
828526 AGTAATTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 22 0.26
16 15 0.17
17 15 0.17
19 34 0.40
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:828441 original size:33 final size:32
Alignment explanation
Indices: 828399--828525 Score: 202
Period size: 33 Copynumber: 3.9 Consensus size: 32
828389 ATTAAATTCG
828399 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
828432 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CA
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
828465 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
828498 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
828526 AGTAATTTTC
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
31 3 0.03
33 82 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:828476 original size:66 final size:66
Alignment explanation
Indices: 828392--828524 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
828382 ACGCGAAATT
*
828392 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
828457 G
66 G
*
828458 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
828523 G
66 G
828524 A
1 A
828525 TAGTAATTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:830835 original size:12 final size:12
Alignment explanation
Indices: 830818--830854 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
830808 TCTTCGGGGA
830818 CTTTTTCTTCTT
1 CTTTTTCTTCTT
830830 CTTTTTCTTCTT
1 CTTTTTCTTCTT
830842 CTTTTTCTTCTT
1 CTTTTTCTTCTT
830854 C
1 C
830855 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:831063 original size:24 final size:24
Alignment explanation
Indices: 831029--831082 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
831019 CTGAAACATC
*
831029 ATCAAAATCTGAGTATTGACCAAT
1 ATCAAAATCTGAGTATTGACCAAG
* *
831053 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
831077 ATCAAA
1 ATCAAA
831083 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:831897 original size:41 final size:41
Alignment explanation
Indices: 831852--831959 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 41
831842 AGTATCGCGT
* * *
831852 TGCGATTTTCCTAATTCGCAATGCGAA-TAAGTAAATCGCAA
1 TGCGATTTGCC-AAATCGCAATGCGAATTAAGCAAATCGCAA
* **
831893 TGCGAATTTGGCAAATCGCAATGCGAATTTGGCAAATCGCAA
1 TGCG-ATTTGCCAAATCGCAATGCGAATTAAGCAAATCGCAA
*
831935 TGCGAATTTGGCAAATCGCAATGCG
1 TGCG-ATTTGCCAAATCGCAATGCG
831960 CAACGAGATA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 18 0.31
42 41 0.69
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (41 bp):
TGCGATTTGCCAAATCGCAATGCGAATTAAGCAAATCGCAA
Found at i:831910 original size:21 final size:21
Alignment explanation
Indices: 831867--831959 Score: 152
Period size: 21 Copynumber: 4.5 Consensus size: 21
831857 TTTTCCTAAT
** *
831867 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGCAAA
831887 TCGCAATGCGAATTTGGCAAA
1 TCGCAATGCGAATTTGGCAAA
831908 TCGCAATGCGAATTTGGCAAA
1 TCGCAATGCGAATTTGGCAAA
831929 TCGCAATGCGAATTTGGCAAA
1 TCGCAATGCGAATTTGGCAAA
831950 TCGCAATGCG
1 TCGCAATGCG
831960 CAACGAGATA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
20 12 0.17
21 57 0.83
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGCAAA
Found at i:832021 original size:20 final size:20
Alignment explanation
Indices: 831974--832023 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
831964 GAGATAATAC
831974 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
831994 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
832014 AAAATCGCAA
1 AAAATCGCAA
832024 TCATCTCTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:832214 original size:20 final size:20
Alignment explanation
Indices: 832139--832206 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
832129 CAACGGGGAA
832139 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
832159 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
832179 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
832199 ATCGCAAC
1 ATCGCAAC
832207 TAGAAAATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:832274 original size:19 final size:19
Alignment explanation
Indices: 832233--832319 Score: 112
Period size: 19 Copynumber: 4.8 Consensus size: 19
832223 GAAATGAAAA
832233 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
832249 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
832266 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
832285 TCGCATTGCGATTGTCATT
1 TCGCATTGCGATTTTCATT
*
832304 TCACATTGCGATTTTC
1 TCGCATTGCGATTTTC
832320 TCGTTGCGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
14 10 0.16
16 3 0.05
17 3 0.05
19 45 0.74
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:832305 original size:38 final size:33
Alignment explanation
Indices: 832233--832349 Score: 126
Period size: 33 Copynumber: 3.4 Consensus size: 33
832223 GAAATGAAAA
* *
832233 TCGCATTGCGATTTTCTCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCTCGTTGCGATTGTCATT
832266 TCGCATTGCGATTTTCATTTCGCATTGCGATTGTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTGTCATT
* *
832304 TCACATTGCGATTTTCTCGTTGCGATAGTCAGTT
1 TCGCATTGCGATTTTCTCGTTGCGATTGTCA-TT
**
832338 TCGTGTTGCGAT
1 TCGCATTGCGAT
832350 AGTCTGTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
33 27 0.38
34 11 0.15
35 3 0.04
36 3 0.04
38 27 0.38
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTGTCATT
Found at i:833952 original size:44 final size:42
Alignment explanation
Indices: 833904--833998 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 42
833894 CCTCTTCAAC
* * *
833904 GATGACAGTGGCCTCTTGAACGGTGGGGGGGGAGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGGG-GACTCTTGAGG
* *
833948 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
*
833990 AATGACAGG
1 GATGACAGG
833999 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 18 0.41
43 5 0.11
44 21 0.48
ACGTcount: A:0.22, C:0.15, G:0.42, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGGGGACTCTTGAGG
Found at i:834379 original size:19 final size:19
Alignment explanation
Indices: 834344--834429 Score: 109
Period size: 19 Copynumber: 4.4 Consensus size: 19
834334 AAACTTACTT
834344 TCGCAACGCGTAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
834364 TCGCAACGTGAAATGACTA
1 TCGCAACGCGAAATGACTA
*
834383 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
834403 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
834422 TCGCAACG
1 TCGCAACG
834430 ACAAAATCGT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 31 0.54
20 26 0.46
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:834398 original size:39 final size:39
Alignment explanation
Indices: 834324--834429 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
834314 TAGTTTACTT
* * * *
834324 TCGCAACATGAAACTTACTTTCGCAACGCGTAAATGACTA
1 TCGCAACGTGAAA-TGACTATCGCAACGCGGAAATGACTA
*
834364 TCGCAACGTGAAATGACTATCGCAACGCGGAAATGGCTA
1 TCGCAACGTGAAATGACTATCGCAACGCGGAAATGACTA
* * **
834403 TCGCAATGCGAAATGAAAATCGCAACG
1 TCGCAACGTGAAATGACTATCGCAACG
834430 ACAAAATCGT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 45 0.79
40 12 0.21
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (39 bp):
TCGCAACGTGAAATGACTATCGCAACGCGGAAATGACTA
Found at i:834477 original size:19 final size:19
Alignment explanation
Indices: 834455--834589 Score: 155
Period size: 19 Copynumber: 7.6 Consensus size: 19
834445 GAAACACAAA
834455 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
834474 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
834493 TCGCATTGCGATTTT-A--
1 TCGCATTGCGATTTTCATT
834509 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
834526 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
*
834545 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
834561 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
834578 TCGCATTGCGAT
1 TCGCATTGCGAT
834590 AGCCATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
14 16 0.16
15 4 0.04
16 7 0.07
17 7 0.07
18 4 0.04
19 62 0.62
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:834519 original size:33 final size:33
Alignment explanation
Indices: 834477--834540 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
834467 TTTCATTTCG
834477 CGTTGCGATTTTCATTTCGCATTGCGATTTTAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTAT
*
834510 CGTTGCGATTTTCATTTCGCGTTGCGATTTT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTT
834541 TATTTCGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.48
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTAT
Found at i:834597 original size:19 final size:20
Alignment explanation
Indices: 834575--834617 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
834565 TGCGATTTTT
834575 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
834594 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
834614 ATTT
1 ATTT
834618 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:834598 original size:52 final size:52
Alignment explanation
Indices: 834460--834589 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
834450 ACAAATCGCA
834460 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTATCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTATCG
* *
834512 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTATCG
* *
834564 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
834590 AGCCATTTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.13, C:0.18, G:0.20, T:0.49
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTATCG
Found at i:834608 original size:20 final size:20
Alignment explanation
Indices: 834583--834628 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
834573 TTATTTCGCA
834583 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
834603 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
834623 TTGCGA
1 TTGCGA
834629 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:835198 original size:18 final size:18
Alignment explanation
Indices: 835175--835222 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
835165 CGGGTCGATC
835175 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
835193 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
835211 AGGTGATGGCTC
1 AGGTGATGGCTC
835223 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:836584 original size:20 final size:20
Alignment explanation
Indices: 836542--836615 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
836532 AATAGTTTTT
* *
836542 GAAAATGAAAATCGTAACAC
1 GAAAATGAAAATCGCAACGC
836562 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACGC
** ** *
836582 GAATTTGACTATCGCAACGA
1 GAAAATGAAAATCGCAACGC
*
836602 GAGAAT-AAAATCGC
1 GAAAATGAAAATCGC
836616 GTTGCGATTT
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 6 0.14
20 36 0.86
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:837153 original size:20 final size:20
Alignment explanation
Indices: 837098--837164 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
837088 GTATTATCTC
*
837098 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* * *
837118 GTTGCAAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
837138 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
837158 GTTGCGA
1 GTTGCGA
837165 TTTTGTATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:837191 original size:41 final size:40
Alignment explanation
Indices: 837132--837249 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 40
837122 CAAAATTAAG
* **
837132 TATCGAGTTGCGAA-AGTCAGTATCGCGTTGCGATTTTGTA
1 TATCGCGTTGC-AATAGTCAGTATCGCGTTGCGATTTTCCA
*
837172 TTATCGCGTTGCAATAGTCAGTACCGCGTTGCGATTTTCCA
1 -TATCGCGTTGCAATAGTCAGTATCGCGTTGCGATTTTCCA
* * * *
837213 AATTCGCATTGCGATAGTCAGTATCGCATTGCGATTT
1 TA-TCGCGTTGCAATAGTCAGTATCGCGTTGCGATTT
837250 ACTTATTCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (40 bp):
TATCGCGTTGCAATAGTCAGTATCGCGTTGCGATTTTCCA
Found at i:837241 original size:20 final size:20
Alignment explanation
Indices: 837130--837247 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 20
837120 TGCAAAATTA
*
837130 AGTATCG-AGTTGCGAAAGTC
1 AGTATCGCA-TTGCGATAGTC
* *
837150 AGTATCGCGTTGCGATTTTGT-
1 AGTATCGCATTGCGA--TAGTC
* * *
837171 ATTATCGCGTTGCAATAGTC
1 AGTATCGCATTGCGATAGTC
* * **
837191 AGTACCGCGTTGCGATTTTCC
1 AGTATCGCATTGCGATAGT-C
*
837212 A-AATTCGCATTGCGATAGTC
1 AGTA-TCGCATTGCGATAGTC
837232 AGTATCGCATTGCGAT
1 AGTATCGCATTGCGAT
837248 TTACTTATTC
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
19 3 0.04
20 42 0.57
21 27 0.36
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
AGTATCGCATTGCGATAGTC
Found at i:837308 original size:21 final size:22
Alignment explanation
Indices: 837256--837308 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
837246 ATTTACTTAT
837256 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
* **
837277 TAGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
837298 TCGCATTGCGA
1 TCGCATTGCGA
837309 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:837844 original size:12 final size:12
Alignment explanation
Indices: 837815--837858 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
837805 TCTTATCCTT
* *
837815 TTCTCTTCTCTT
1 TTCTCCTCTCTC
837827 TCTCTCCTCTCTC
1 T-TCTCCTCTCTC
837840 TTCTCCTCTCTC
1 TTCTCCTCTCTC
837852 TTCTCCT
1 TTCTCCT
837859 TGCCGAGCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (12 bp):
TTCTCCTCTCTC
Found at i:838805 original size:13 final size:14
Alignment explanation
Indices: 838780--838808 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
838770 TAGAATTATT
838780 TATTTATAATTTTA
1 TATTTATAATTTTA
838794 TATTTA-AATTTTA
1 TATTTATAATTTTA
838807 TA
1 TA
838809 AATATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTATAATTTTA
Found at i:845353 original size:10 final size:10
Alignment explanation
Indices: 845338--845363 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
845328 AAATTGAGAT
845338 TTTTGAATTA
1 TTTTGAATTA
845348 TTTTGAATTA
1 TTTTGAATTA
845358 TTTTGA
1 TTTTGA
845364 TTCAGAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (10 bp):
TTTTGAATTA
Found at i:845457 original size:14 final size:13
Alignment explanation
Indices: 845407--845458 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
845397 GCTAATACCT
*
845407 AAAAAATATCTTTA
1 AAAAAATAT-TTAA
845421 AAAAAAT-TTTAA
1 AAAAAATATTTAA
845433 GAAAAATATATTTAA
1 -AAAAA-ATATTTAA
845448 AAGAAAATATT
1 AA-AAAATATT
845459 GATATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.09
13 6 0.18
14 16 0.48
15 8 0.24
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (13 bp):
AAAAAATATTTAA
Found at i:845837 original size:2 final size:2
Alignment explanation
Indices: 845832--845874 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
845822 AAAAAACACA
*
845832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
845874 A
1 A
845875 AGGGTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:847530 original size:147 final size:148
Alignment explanation
Indices: 847325--847683 Score: 476
Period size: 151 Copynumber: 2.4 Consensus size: 148
847315 CACCTTATGA
* * * *
847325 TTGTGGATCTAGTGAATGAGTAATAACTATTTTG-TGGCA--TCA-AGTTTATGGGGTTTTTTCC
1 TTGTGGATCTAGTGAATGAGCAATAAC-CTTTTGCTTGCATGTCAGA-TTTAT-GGGTTTTTTCA
* *
847386 TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACTTTTTTCTTGTGGCGTC
63 TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGT-
*
847451 AACCTCATCCTTT-ATAGATAC
127 AACCTCATCATTTCATAGATAC
* *
847472 TTGTGGATCTAGTGAATGAGCAACAACCTTTTGCTTGCATGTCAGATTTATGGGTTTTTTTTTTA
1 TTGTGGATCTAGTGAATGAGCAATAACCTTTTGCTTGCATGTCAGATTTATGGG---TTTTTTCA
* *
847537 TTTTTCAGGCCGATAGTTCTTCAAGAAGTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGTA
63 TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGTA
847602 ACCTCATCATTTCATAGATAC
128 ACCTCATCATTTCATAGATAC
* * * *
847623 TTGTGGATCTAGGGAATGAGCAATAAACTTTTTCTTGCATGTTAGATTTATGGGATTTTTT
1 TTGTGGATCTAGTGAATGAGCAATAACCTTTTGCTTGCATGTCAGATTTATGGG-TTTTTT
847684 TCCTTTTGGG
Statistics
Matches: 187, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
146 5 0.03
147 29 0.16
148 3 0.02
149 14 0.07
150 13 0.07
151 123 0.66
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (148 bp):
TTGTGGATCTAGTGAATGAGCAATAACCTTTTGCTTGCATGTCAGATTTATGGGTTTTTTCATTT
TTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGTAACC
TCATCATTTCATAGATAC
Found at i:847595 original size:151 final size:151
Alignment explanation
Indices: 847386--847684 Score: 483
Period size: 151 Copynumber: 2.0 Consensus size: 151
847376 GGTTTTTTCC
* *
847386 TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACTTTTTTCTTGTGGCGTC
1 TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGT-
* * *
847451 AACCTCATCCTTT-ATAGATACTTGTGGATCTAGTGAATGAGCAACAACCTTTTGCTTGCATGTC
65 AACCTCATCATTTCATAGATACTTGTGGATCTAGGGAATGAGCAACAAACTTTTGCTTGCATGTC
*
847515 AGATTTATGGGTTTTTTTTTTA
130 AGATTTATGGGATTTTTTTTTA
* *
847537 TTTTTCAGGCCGATAGTTCTTCAAGAAGTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGTA
1 TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGTA
* * *
847602 ACCTCATCATTTCATAGATACTTGTGGATCTAGGGAATGAGCAATAAACTTTTTCTTGCATGTTA
66 ACCTCATCATTTCATAGATACTTGTGGATCTAGGGAATGAGCAACAAACTTTTGCTTGCATGTCA
847667 GATTTATGGGATTTTTTT
131 GATTTATGGGATTTTTTT
847685 CCTTTTGGGG
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
150 12 0.09
151 124 0.91
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (151 bp):
TTTTTCAGACCGATAGTTCTTCAAGAACTTTATCGACTTATCAAGCACGTGTTTCTTGTGGCGTA
ACCTCATCATTTCATAGATACTTGTGGATCTAGGGAATGAGCAACAAACTTTTGCTTGCATGTCA
GATTTATGGGATTTTTTTTTA
Found at i:848817 original size:20 final size:20
Alignment explanation
Indices: 848792--848843 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
848782 GACAACTGGT
848792 AGTATCGATACTACCTAGAG
1 AGTATCGATACTACCTAGAG
848812 AGTATCGATACTACCTAGAG
1 AGTATCGATACTACCTAGAG
848832 AGTATCGATACT
1 AGTATCGATACT
848844 TCTCTTACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTACCTAGAG
Found at i:850404 original size:22 final size:22
Alignment explanation
Indices: 850356--850432 Score: 122
Period size: 22 Copynumber: 3.5 Consensus size: 22
850346 ATGTGAAATC
*
850356 TATGTCCCGAAGGACGTCAT--A
1 TATGTCCCGAAGGACCT-ATCCA
850377 TATGTCCCGAAGGACCTATCCA
1 TATGTCCCGAAGGACCTATCCA
850399 TATGTCCCGAAGGACCTATCCA
1 TATGTCCCGAAGGACCTATCCA
850421 TATGTCCCGAAG
1 TATGTCCCGAAG
850433 AACATAGGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
20 2 0.04
21 16 0.30
22 35 0.66
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (22 bp):
TATGTCCCGAAGGACCTATCCA
Found at i:850455 original size:31 final size:31
Alignment explanation
Indices: 850412--850476 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
850402 GTCCCGAAGG
850412 ACCTATCCATATGTCCCGAAGAACATAGGTA
1 ACCTATCCATATGTCCCGAAGAACATAGGTA
* *
850443 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTATCCATATGTCCCGAAGAACATAGGTA
850474 ACC
1 ACC
850477 CTCGACTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (31 bp):
ACCTATCCATATGTCCCGAAGAACATAGGTA
Found at i:851483 original size:23 final size:23
Alignment explanation
Indices: 851453--851509 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
851443 CCCCCCATAA
851453 GGTATCAATACTTCCTTAGCTAT
1 GGTATCAATACTTCCTTAGCTAT
851476 GGTATCAATACTTCCTTAGCTAT
1 GGTATCAATACTTCCTTAGCTAT
*
851499 GGTATCGATAC
1 GGTATCAATAC
851510 CCAAATTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (23 bp):
GGTATCAATACTTCCTTAGCTAT
Found at i:853862 original size:19 final size:19
Alignment explanation
Indices: 853838--853881 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
853828 ATCGTTTTCT
853838 TCATATTCCATTACTCTTC
1 TCATATTCCATTACTCTTC
*
853857 TCATATTCCATTATTCTTC
1 TCATATTCCATTACTCTTC
853876 TCATAT
1 TCATAT
853882 CAATATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (19 bp):
TCATATTCCATTACTCTTC
Found at i:857304 original size:29 final size:31
Alignment explanation
Indices: 857244--857310 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
857234 TGTTTCACTT
*
857244 AAATTTTCCAAAAATTTTAAATTGGTCCCCC
1 AAATTTTCCAAAAATTATAAATTGGTCCCCC
*
857275 AACTTTT-CAAAAATTATAGAA-TGGT-CCCC
1 AAATTTTCCAAAAATTATA-AATTGGTCCCCC
857304 AAATTTT
1 AAATTTT
857311 TCTATGGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.31
30 14 0.44
31 8 0.25
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.36
Consensus pattern (31 bp):
AAATTTTCCAAAAATTATAAATTGGTCCCCC
Found at i:862405 original size:21 final size:21
Alignment explanation
Indices: 862381--862457 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 21
862371 TGTTTGAGCC
*
862381 TTCAAAGGGGTATTGATACCA
1 TTCATAGGGGTATTGATACCA
**
862402 TTCATAGGGGTATCAATACCA
1 TTCATAGGGGTATTGATACCA
*
862423 TTCACAGGGGTATTGATACCCA
1 TTCATAGGGGTATTGATA-CCA
862445 TTCATAGGGGTAT
1 TTCATAGGGGTAT
862458 CAGTACCTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 33 0.69
22 15 0.31
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
TTCATAGGGGTATTGATACCA
Found at i:862433 original size:42 final size:43
Alignment explanation
Indices: 862381--862464 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
862371 TGTTTGAGCC
862381 TTCAAAGGGGTATTGATA-CCATTCATAGGGGTATCAATACCA
1 TTCAAAGGGGTATTGATACCCATTCATAGGGGTATCAATACCA
* *
862423 TTCACAGGGGTATTGATACCCATTCATAGGGGTATCAGTACC
1 TTCAAAGGGGTATTGATACCCATTCATAGGGGTATCAATACC
862465 TCTTAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 17 0.44
43 22 0.56
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
TTCAAAGGGGTATTGATACCCATTCATAGGGGTATCAATACCA
Found at i:862464 original size:22 final size:22
Alignment explanation
Indices: 862399--862464 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
862389 GGTATTGATA
*
862399 CCATTCATAGGGGTATCAATA-
1 CCATTCATAGGGGTATCAGTAC
* *
862420 CCATTCACAGGGGTAT-TGATAC
1 CCATTCATAGGGGTATCAG-TAC
862442 CCATTCATAGGGGTATCAGTAC
1 CCATTCATAGGGGTATCAGTAC
862464 C
1 C
862465 TCTTAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.46
22 19 0.51
23 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (22 bp):
CCATTCATAGGGGTATCAGTAC
Found at i:862722 original size:20 final size:21
Alignment explanation
Indices: 862677--862716 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
862667 AATGTTTAAT
862677 GAAAAAGATACCAATTGTTTA
1 GAAAAAGATACCAATTGTTTA
* *
862698 CAAAAGGATACCAATTGTT
1 GAAAAAGATACCAATTGTT
862717 GGAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (21 bp):
GAAAAAGATACCAATTGTTTA
Found at i:863843 original size:19 final size:20
Alignment explanation
Indices: 863789--863844 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
863779 TCTAAATCAT
863789 TTTTCAAAATTTGATTTTGA
1 TTTTCAAAATTTGATTTTGA
863809 TTTTCAAAATTTGATTTTGA
1 TTTTCAAAATTTGATTTTGA
863829 TTTTCAAAA-TTGATTT
1 TTTTCAAAATTTGATTT
863845 ATCTTTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTCAAAATTTGATTTTGA
Found at i:865389 original size:33 final size:33
Alignment explanation
Indices: 865344--865413 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
865334 CTTTACAAAC
* *
865344 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTT
1 TCCCTAGATTTTCACGGGATAAACTAGAACCTT
* *
865377 TCCCTAGATTTTCACGGGATCAGCTAGAACCTT
1 TCCCTAGATTTTCACGGGATAAACTAGAACCTT
865410 TCCC
1 TCCC
865414 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (33 bp):
TCCCTAGATTTTCACGGGATAAACTAGAACCTT
Found at i:865898 original size:22 final size:22
Alignment explanation
Indices: 865873--865958 Score: 129
Period size: 22 Copynumber: 3.9 Consensus size: 22
865863 TGTTTGAGCC
* *
865873 TTCATAGGGTTATTGATACCCA
1 TTCATAGGGGTATCGATACCCA
865895 TTCATAGGGGTATC-AGTACCCA
1 TTCATAGGGGTATCGA-TACCCA
*
865917 TTCATAGGGGTATCGGTACCCA
1 TTCATAGGGGTATCGATACCCA
865939 TTCATAGGGGTATCGATACC
1 TTCATAGGGGTATCGATACC
865959 TCTTAATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.02
22 57 0.98
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (22 bp):
TTCATAGGGGTATCGATACCCA
Found at i:867756 original size:23 final size:23
Alignment explanation
Indices: 867730--867785 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
867720 GATGAATGAT
867730 TAAGGGTAGGTTGATGTAGGTGA
1 TAAGGGTAGGTTGATGTAGGTGA
867753 TAAGGGTAGGTTGATGTAGGTGA
1 TAAGGGTAGGTTGATGTAGGTGA
867776 TAAGGGTAGG
1 TAAGGGTAGG
867786 GTTTTCTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.45, T:0.29
Consensus pattern (23 bp):
TAAGGGTAGGTTGATGTAGGTGA
Found at i:887645 original size:14 final size:15
Alignment explanation
Indices: 887626--887659 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
887616 TTTTAAAAAT
887626 AAAAATA-TTTTTCA
1 AAAAATAGTTTTTCA
*
887640 AAAAATAGTTTTTTA
1 AAAAATAGTTTTTCA
887655 AAAAA
1 AAAAA
887660 ATCACCTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
AAAAATAGTTTTTCA
Found at i:887658 original size:16 final size:16
Alignment explanation
Indices: 887614--887661 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
887604 AAATTTTTAT
*
887614 TTTTTTAAAAATAAAAA
1 TTTTTTAAAAA-AATAA
* *
887631 TATTTTTCAAAAAATAG
1 T-TTTTTAAAAAAATAA
887648 TTTTTTAAAAAAAT
1 TTTTTTAAAAAAAT
887662 CACCTTCGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 12 0.46
17 5 0.19
18 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTTTTAAAAAAATAA
Found at i:890159 original size:20 final size:20
Alignment explanation
Indices: 890136--890185 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
890126 GAACTTTAAT
890136 TTCGCTACTCAGTTTTGAAA
1 TTCGCTACTCAGTTTTGAAA
890156 TTCG-TAACTCAGTTTTGAAA
1 TTCGCT-ACTCAGTTTTGAAA
*
890176 TTCGCAACTC
1 TTCGCTACTC
890186 TAATTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (20 bp):
TTCGCTACTCAGTTTTGAAA
Found at i:890243 original size:20 final size:20
Alignment explanation
Indices: 890218--890266 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
890208 TTTTCCAAAT
*
890218 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* *
890238 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATATGTAAA
*
890258 TTGCAACGC
1 TCGCAACGC
890267 AGAAGTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:890798 original size:20 final size:20
Alignment explanation
Indices: 890775--890833 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
890765 TTTGAAACTT
890775 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
* *
890795 AAATTCACAACACAAAAATG
1 AAATTCGCAACACGAAAATG
*
890815 AAATTTGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
890834 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.54, C:0.19, G:0.10, T:0.17
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:890900 original size:20 final size:20
Alignment explanation
Indices: 890840--890902 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
890830 AAATCGCAAC
*
890840 GCGATTTT-AGTTTCACATT
1 GCGATTTTCATTTTCACATT
* * *
890859 GCAATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCACATT
*
890879 GCGATTTTCATTTTCATATT
1 GCGATTTTCATTTTCACATT
890899 GCGA
1 GCGA
890903 ATTTAAGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 7 0.20
20 28 0.80
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (20 bp):
GCGATTTTCATTTTCACATT
Found at i:892465 original size:42 final size:42
Alignment explanation
Indices: 892398--892496 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
892388 CCCCTCACTT
* * *
892398 CGAGAGCCATCACCTGATCGAGCCGACTCTACAGC-TCGACAC
1 CGAGAGCCATCACCTGATAGAGCCGACTATACACCTTC-ACAC
* *
892440 CGAGAGCCATCACCTGATAGGGCCGATTATACACCTTCACAC
1 CGAGAGCCATCACCTGATAGAGCCGACTATACACCTTCACAC
* *
892482 AGAGAGTCATCACCT
1 CGAGAGCCATCACCT
892497 ATTCCATCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 47 0.96
43 2 0.04
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.17
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATAGAGCCGACTATACACCTTCACAC
Found at i:892783 original size:21 final size:21
Alignment explanation
Indices: 892733--892786 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
892723 ATGACAATGG
*
892733 TGCTCTACGTGGTGAGGTATC
1 TGCTCTACGTGATGAGGTATC
* *
892754 TACTTTACGTGATGAGGTAGTC
1 TGCTCTACGTGATGAGGTA-TC
892776 -GCTCTACGTGA
1 TGCTCTACGTGA
892787 GATTGTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (21 bp):
TGCTCTACGTGATGAGGTATC
Found at i:893110 original size:21 final size:21
Alignment explanation
Indices: 893070--893110 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
893060 TTCACCTGTC
*
893070 ATCATTCAAGAGACCTCTCCT
1 ATCATTCAAGAGACCCCTCCT
* *
893091 ATCATTCAGGAGGCCCCTCC
1 ATCATTCAAGAGACCCCTCC
893111 CGCCGTTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (21 bp):
ATCATTCAAGAGACCCCTCCT
Found at i:897280 original size:12 final size:12
Alignment explanation
Indices: 897259--897292 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
897249 GGTTGTGGGT
*
897259 TTTGAGATTGTG
1 TTTGATATTGTG
897271 TTTGATATTGTG
1 TTTGATATTGTG
*
897283 TTTGGTATTG
1 TTTGATATTG
897293 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:898156 original size:40 final size:40
Alignment explanation
Indices: 898080--898247 Score: 110
Period size: 40 Copynumber: 4.2 Consensus size: 40
898070 AATAAAAGCT
** * **
898080 GTTGCGAAATTAAAATTCGTGTTGTGAATTCGAAAATCGA
1 GTTGCGAAAACAAAATTCGTGTTGCGAATTAAAAAATCGA
* * **
898120 GTTGCGAAAACAAATTTCGTGTTGCGATTTAAAAAATCTT
1 GTTGCGAAAACAAAATTCGTGTTGCGAATTAAAAAATCGA
* * *
898160 GTTGCGAAAAGGAAACTT-GTGTTGCGAA--AAAGAAATTCGC
1 GTTGCGAAAA-CAAAATTCGTGTTGCGAATTAAA-AAA-TCGA
** * ** *
898200 GTTGCGAATTCAGAAA-TCGAGTTGCGAATTTGAAAATCGC
1 GTTGCGAAAACA-AAATTCGTGTTGCGAATTAAAAAATCGA
898240 GTTGCGAA
1 GTTGCGAA
898248 TTTGGAAAAT
Statistics
Matches: 100, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 83 0.83
41 8 0.08
42 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCGTGTTGCGAATTAAAAAATCGA
Found at i:898182 original size:20 final size:20
Alignment explanation
Indices: 898159--898207 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
898149 TAAAAAATCT
*
898159 TGTTGCGAAAAGGAAACTT-G
1 TGTTGCGAAAAAGAAA-TTCG
898179 TGTTGCGAAAAAGAAATTCG
1 TGTTGCGAAAAAGAAATTCG
*
898199 CGTTGCGAA
1 TGTTGCGAA
898208 TTCAGAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (20 bp):
TGTTGCGAAAAAGAAATTCG
Found at i:898216 original size:21 final size:21
Alignment explanation
Indices: 898190--898337 Score: 121
Period size: 20 Copynumber: 7.3 Consensus size: 21
898180 GTTGCGAAAA
* *
898190 AGAAATTCGCGTTGCGAATTC
1 AGAAAATCGCGTTGCGAATTT
*
898211 AG-AAATCGAGTTGCGAATTT
1 AGAAAATCGCGTTGCGAATTT
898231 -GAAAATCGCGTTGCGAATTT
1 AGAAAATCGCGTTGCGAATTT
* *
898251 GGAAAATCACGTTGCGAATTT
1 AGAAAATCGCGTTGCGAATTT
* * *
898272 GGAAAATCACGTTGCGAGA--A
1 AGAAAATCGCGTTGCGA-ATTT
* *
898292 AGAAATTCGTGTTGCG-ATTGT
1 AGAAAATCGCGTTGCGAATT-T
* *
898313 AGAAACT-GAGTTGCGAATTT
1 AGAAAATCGCGTTGCGAATTT
898333 -GAAAA
1 AGAAAA
898338 CTGTGTTGCG
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.01
19 5 0.05
20 52 0.49
21 47 0.44
22 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (21 bp):
AGAAAATCGCGTTGCGAATTT
Found at i:898244 original size:60 final size:60
Alignment explanation
Indices: 898080--898247 Score: 142
Period size: 60 Copynumber: 2.8 Consensus size: 60
898070 AATAAAAGCT
* * * * *
898080 GTTGCGAAATT-AAAATTCGTGTTGTGAATTCGAAAATCGAGTTGCGAAAACAAATTTCGT
1 GTTGCG-AATTAAAAAATCGAGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAATTCGC
* ** *** * * *
898140 GTTGCGATTTAAAAAATCTTGTTGCGAAAAGGAAACTTGTGTTGCGAAAA-AGAAATTCGC
1 GTTGCGAATTAAAAAATCGAGTTGCGAATTCGAAAATCGAGTTGCGAAAACA-AAATTCGC
* * * *
898200 GTTGCGAATTCAGAAATCGAGTTGCGAATTTGAAAATCGCGTTGCGAA
1 GTTGCGAATTAAAAAATCGAGTTGCGAATTCGAAAATCGAGTTGCGAA
898248 TTTGGAAAAT
Statistics
Matches: 83, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
59 4 0.05
60 79 0.95
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (60 bp):
GTTGCGAATTAAAAAATCGAGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAATTCGC
Found at i:898750 original size:12 final size:12
Alignment explanation
Indices: 898730--898773 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
898720 TTCATGAACA
898730 AGCTCGTTTATG
1 AGCTCGTTTATG
* *
898742 AGCTTGTTTGTG
1 AGCTCGTTTATG
898754 AGCTCGTTTATCG
1 AGCTCGTTTAT-G
898767 A-CTCGTT
1 AGCTCGTT
898774 CATTTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 25 0.93
13 2 0.07
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.43
Consensus pattern (12 bp):
AGCTCGTTTATG
Found at i:902148 original size:41 final size:41
Alignment explanation
Indices: 902083--902165 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
902073 GTGGATCCAA
*
902083 TGGAAACGTTAGTTGGCGGTGATGATAAACTCTTCGTGAAC
1 TGGAAACGTTAGTTGGCGGGGATGATAAACTCTTCGTGAAC
* * *
902124 TGGAAACGTTAGTTGGTGGGGATGATTAACTCTTTGTGAAC
1 TGGAAACGTTAGTTGGCGGGGATGATAAACTCTTCGTGAAC
902165 T
1 T
902166 TCTGATGTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (41 bp):
TGGAAACGTTAGTTGGCGGGGATGATAAACTCTTCGTGAAC
Found at i:902926 original size:60 final size:60
Alignment explanation
Indices: 902788--902950 Score: 197
Period size: 60 Copynumber: 2.8 Consensus size: 60
902778 TATATGATAC
* * * * * * *
902788 TATTTTGATGAGTCATTCGATTATTAAAAGTTACAAAATGGT--CCTTATTATAGGGAGT
1 TATTTTGTTGAGTCCTTCAACTATTAAAAGTTACAAAATGGTCACCCTAATATAAGGAGT
** * *
902846 TGCTTTGTTGAGTCCCTCAACTACTAAAAGTTACAAAATGGTCACCCTAATATAAGGAGT
1 TATTTTGTTGAGTCCTTCAACTATTAAAAGTTACAAAATGGTCACCCTAATATAAGGAGT
*
902906 TATTTTGTTGAGTCCTTCAACAATTAAAAGTTA-AAAATGGTCACC
1 TATTTTGTTGAGTCCTTCAACTATTAAAAGTTACAAAATGGTCACC
902951 GACTATTCAT
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
58 34 0.39
59 12 0.14
60 41 0.47
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (60 bp):
TATTTTGTTGAGTCCTTCAACTATTAAAAGTTACAAAATGGTCACCCTAATATAAGGAGT
Found at i:905487 original size:38 final size:39
Alignment explanation
Indices: 905363--905487 Score: 157
Period size: 38 Copynumber: 3.3 Consensus size: 39
905353 CAAACTCCTG
* * *
905363 AAACCT-GAGACCCCCTCTTTCAATTTACCCCACGCGTAA
1 AAACCTGGA-ACCCCCTCTCTCAATTTACCCCACACGCAA
* *
905402 AAACCTAGAA-CCCCTCTCTCAATTTACCCCACATGCAA
1 AAACCTGGAACCCCCTCTCTCAATTTACCCCACACGCAA
* *
905440 AAACTTGGAACCCCCCCTCTCAATTTACCCCAC-CGCAA
1 AAACCTGGAACCCCCTCTCTCAATTTACCCCACACGCAA
905478 AAACCTGGAA
1 AAACCTGGAA
905488 ACTTAATTCC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
38 45 0.60
39 28 0.37
40 2 0.03
ACGTcount: A:0.32, C:0.39, G:0.09, T:0.20
Consensus pattern (39 bp):
AAACCTGGAACCCCCTCTCTCAATTTACCCCACACGCAA
Found at i:910016 original size:255 final size:255
Alignment explanation
Indices: 909459--910199 Score: 1011
Period size: 258 Copynumber: 2.9 Consensus size: 255
909449 ACTGATAACT
* *
909459 CGAATGATTTAATCATCATTCTCGAAAGACTTACTGATGGCCC-AAAGGACTTACTAATTTTGGA
1 CGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAA-GACTTACTAATTTTGGA
* * *
909523 AATAATTT-GTTGAGTAAGAAACTTTGGAAATCACTTTCTTATTTTTCAAAAATTTCATTTTCTG
65 AATAATTTACTAG-GTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAA--TCATTTTCTG
* *
909587 AAAACATTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCGAAAATCATGTGGAAA-TATC
127 AAAACATTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTC-AAATTCATGTGAAAACT-TC
* * * * * **
909651 TTGCCCGAAAGTCTTATGGATGGCCCGATGAACTTATCATTTTGCTCAAAAGACTGACAGATGAC
190 CTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTCACTCAAAAGACTGACAGATGAC
909716 C
255 C
*
909717 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACTAATTTTGGAA
1 CGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACTAATTTTGGAA
* * * **
909782 ATAGTTTACTAGGTAAGAAACTTTGAAAATTGCTTTCTTATTTTTCAAAAATCATTTTCAAAAAA
66 ATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAATCATTTTCTGAAAA
** ** *
909847 CATTAAATGAGAAACTTTGGAAATCGTTTTCTCATTTTTCAAATTCATACGAAAACTTCCTACCC
131 CATTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAATTCATGTGAAAACTTCCTGCCC
* * * * *
909912 GGAGGTCTTACGGATGGCCCAAAGGACTTATCATCTCACTCCAAAGACTTACAGATGACC
196 GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTCACTCAAAAGACTGACAGATGACC
** * *
909972 CGAAAGATTTAAGAATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTGGGAA
1 CGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACTAATTTTGGAA
**
910037 ATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTAAAAAAAAATCATTTTCTGA
66 ATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTA-TTTT--TCAAAAATCATTTTCTGA
* *
910102 AAACACTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAATTCATGTGAAAACATCCTG
128 AAACATTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAATTCATGTGAAAACTTCCTG
* **
910167 CCCAAAGGTCTTATAAATGGCCCGAAGGACTTA
193 CCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
910200 CCAATTTGGG
Statistics
Matches: 423, Mismatches: 54, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
255 163 0.39
256 55 0.13
258 200 0.47
259 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (255 bp):
CGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACTAATTTTGGAA
ATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAAATCATTTTCTGAAAA
CATTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAATTCATGTGAAAACTTCCTGCCC
GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTCACTCAAAAGACTGACAGATGACC
Found at i:910330 original size:175 final size:175
Alignment explanation
Indices: 910008--910374 Score: 531
Period size: 175 Copynumber: 2.1 Consensus size: 175
909998 AGACTTACTG
910008 ATGGCCCGAAAGACTTACCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTT
1 ATGGCCCGAAAGACTTACCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTT
* *
910073 CTTACTTTTAAAAAAAAATCATTTTCTGAAAACACTAAATGAGAAACTTTGGAAATCACTTTCTC
66 CTTACTTTTAAAAAAAAATCATTTTCAGAAAACACTAAATGAGAAAATTTGGAAATCACTTTCTC
*
910138 ATTTTTCAAATTCATGTGAAAACATCCTGCCCAAAGGTCTTATAA
131 ATTTTTCAAAATCATGTGAAAACATCCTGCCCAAAGGTCTTATAA
* * * *
910183 ATGGCCCGAAGGACTTACCAATTTGGGAAATATTTTATTGGGTAAGAAACTTTGGAAATCG-TTT
1 ATGGCCCGAAAGACTTACCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTT
* ** * * *
910247 CTTACTTTT-CAAAAATTTCATTTTCAGAAAAGATTTAAATGAGAAAATTTGGAAATCGCTTTCT
66 CTTACTTTTAAAAAAAAATCATTTTCAGAAAACA-CTAAATGAGAAAATTTGGAAATCACTTTCT
* * * *
910311 CATTTTTCGAAAATCATGTGGAAATATCCTGCCCGAAGGTCTTATAG
130 CATTTTTC-AAAATCATGTGAAAACATCCTGCCCAAAGGTCTTATAA
* *
910358 ATGGCCTGAATGACTTA
1 ATGGCCCGAAAGACTTA
910375 TCATCTTGCT
Statistics
Matches: 171, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
173 19 0.11
174 47 0.27
175 105 0.61
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (175 bp):
ATGGCCCGAAAGACTTACCAATTTGGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCGCTTT
CTTACTTTTAAAAAAAAATCATTTTCAGAAAACACTAAATGAGAAAATTTGGAAATCACTTTCTC
ATTTTTCAAAATCATGTGAAAACATCCTGCCCAAAGGTCTTATAA
Found at i:910650 original size:247 final size:249
Alignment explanation
Indices: 910183--910762 Score: 745
Period size: 247 Copynumber: 2.3 Consensus size: 249
910173 GGTCTTATAA
* * * *
910183 ATGGCCCGAAGGACTTACCAATTTGGGAAATATTTTATTGGGTAAGAAACTTTGGAAATCGTTTC
1 ATGGCCCGAAGGACTTACTAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCCTTTC
*
910248 TTACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATGAGAAAATTTGGAAATCGCTTTCTCA
66 TTAC---T------TTTCATTTTCAGAAAAGAATTAAATGAGAAAATTTGGAAATCGCTTTCTCA
* ** * * * * ** *
910313 TTTTTCGAAAATCATGTGGAAATATCCTGCCCGAAGGTCTTATAGATGGCCTGAATGACTTATCA
122 TTTATCGAAAATCATACGAAAACATCCTACCCGAAGGTCTTACAGATGGCCCAAAGGACTTATCA
* * * *
910378 TCTTGCTCGAAAGACTTACAGATGA-CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
187 TCTCGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAGCATAATGCTCGAAAGACTTACTG
* * * *
910440 ATGGCCTGAATGACTTACTAATTTGGTAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTT
1 ATGGCCCGAAGGACTTACTAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATC-CTTT
* * * *
910505 CTTACTTTTCATTTTCTG-AAAGAATTAAATGGGAAACTTTGGAAATCGTTTTCTCATTTATC-A
65 CTTACTTTTCATTTTCAGAAAAGAATTAAATGAGAAAATTTGGAAATCGCTTTCTCATTTATCGA
* * *
910568 AATTCATACGAAAACATCCTACCCGAATGTCTTACGGATGGCCCAAAGGACTTATCATCTCGCTC
130 AAATCATACGAAAACATCCTACCCGAAGGTCTTACAGATGGCCCAAAGGACTTATCATCTCGCTC
*
910633 GAAAGACTTATAGATGACCCAAAGGATTTAAGCATAATGCTCGAAAGACTTACTG
195 GAAAGACTTACAGATGACCCAAAGGATTTAAGCATAATGCTCGAAAGACTTACTG
*
910688 AT-GCCCGAAGGCCTTACTAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTT
1 ATGGCCCGAAGGACTTACTAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATC-CTTT
910752 CTTACTTTTCA
65 CTTACTTTTCA
910763 AAATTTTCAT
Statistics
Matches: 285, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
247 136 0.48
248 75 0.26
249 11 0.04
255 1 0.00
257 54 0.19
258 8 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (249 bp):
ATGGCCCGAAGGACTTACTAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCCTTTC
TTACTTTTCATTTTCAGAAAAGAATTAAATGAGAAAATTTGGAAATCGCTTTCTCATTTATCGAA
AATCATACGAAAACATCCTACCCGAAGGTCTTACAGATGGCCCAAAGGACTTATCATCTCGCTCG
AAAGACTTACAGATGACCCAAAGGATTTAAGCATAATGCTCGAAAGACTTACTG
Found at i:912318 original size:21 final size:21
Alignment explanation
Indices: 912294--912343 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
912284 AGGTCTAAAA
*
912294 ATGAAATTCCTAAGTGTTCGT
1 ATGAAATTCCTAAGTGTTCAT
*
912315 ATGAAATTCCTGAGTGTTCAT
1 ATGAAATTCCTAAGTGTTCAT
*
912336 GTGAAATT
1 ATGAAATT
912344 GATTATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (21 bp):
ATGAAATTCCTAAGTGTTCAT
Found at i:915287 original size:16 final size:16
Alignment explanation
Indices: 915266--915301 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
915256 CAAATACAAG
915266 AAAATAAA-ATCAAAAT
1 AAAATAAACA-CAAAAT
915282 AAAATAAACACAAAAT
1 AAAATAAACACAAAAT
915298 AAAA
1 AAAA
915302 ATGGGTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAATAAACACAAAAT
Found at i:918549 original size:46 final size:44
Alignment explanation
Indices: 918425--918570 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 44
918415 AATGTTATTA
* * * *
918425 TTGACTTTCTCGCGAAGGGGAATCAATCTTCTAGTGTTGTCATTC
1 TTGACTTTCTCACGAA-GAGATTCAATCTTTTAGTGTTGTCATTC
* * * *
918470 TTGACTTTCTCATGAAGAGAAGTT-GATCATTTAGTGATTGTCCTTC
1 TTGACTTTCTCACGAAGAG-A-TTCAATCTTTTAGTG-TTGTCATTC
* * *
918516 TTGACTTTCTCACGAAGAAGATTCAACCTTTTAGTGGTGTTATTC
1 TTGACTTTCTCACGAAG-AGATTCAATCTTTTAGTGTTGTCATTC
918561 TTGACTTTCT
1 TTGACTTTCT
918571 TGAAGAAAGG
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
44 2 0.02
45 42 0.52
46 35 0.43
47 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (44 bp):
TTGACTTTCTCACGAAGAGATTCAATCTTTTAGTGTTGTCATTC
Done.