Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007834.1 Hibiscus syriacus cultivar Beakdansim tig00110183_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: 925658
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:529033 original size:165 final size:167
Alignment explanation
Indices: 528759--529092 Score: 654
Period size: 165 Copynumber: 2.0 Consensus size: 167
528749 GCTTTTAGAT
528759 AAAGGATTTATTAGACCTAGTGTGTCACCTTGGGGTGCTCTAGTTTTATTCGTAAAAGAAGAAAG
1 AAAGGATTTATTAGACCTAGTGTGTCACCTTGGGGTGCTCTAGTTTTATTCGTAAAAGAAGAAAG
528824 ATGGTTTGATGCACCTTTGTATTAATTATCGATAACTTGAAAAGGTGACCATAAAGAATAAGTAT
66 ATGGTTTGATGCACCTTTGTATTAATTATCGATAACTTGAAAAGGTGACCATAAAGAATAAGTAT
528889 CCTCATCCAAGGATC-GCGATTTATTTGATTAACTCC
131 CCTCATCCAAGGATCGGCGATTTATTTGATTAACTCC
528925 AAAGGATTTATTAGACCTAGTGTGTCACCTTGGGGTGCTCTAGTTTTATTCGT-AAAGAAGAAAG
1 AAAGGATTTATTAGACCTAGTGTGTCACCTTGGGGTGCTCTAGTTTTATTCGTAAAAGAAGAAAG
528989 ATGGTTTGATGCACCTTTGTATTAATTATCGATAACTTGAAAAGGTGACCATAAAGAATAAGTAT
66 ATGGTTTGATGCACCTTTGTATTAATTATCGATAACTTGAAAAGGTGACCATAAAGAATAAGTAT
529054 CCTCATCCAAGGATCGGCGATTTATTTGATTAACTCC
131 CCTCATCCAAGGATCGGCGATTTATTTGATTAACTCC
529091 AA
1 AA
529093 GTAGCTGTAG
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
165 91 0.54
166 76 0.46
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (167 bp):
AAAGGATTTATTAGACCTAGTGTGTCACCTTGGGGTGCTCTAGTTTTATTCGTAAAAGAAGAAAG
ATGGTTTGATGCACCTTTGTATTAATTATCGATAACTTGAAAAGGTGACCATAAAGAATAAGTAT
CCTCATCCAAGGATCGGCGATTTATTTGATTAACTCC
Found at i:532953 original size:23 final size:23
Alignment explanation
Indices: 532890--532941 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
532880 ATAAGTGGCA
532890 CTTCGGTGCAA-ACCTATGTGGTC
1 CTTCGGTGCAATA-CTATGTGGTC
*
532913 TTTCGGTGCAATACTATGTGGTC
1 CTTCGGTGCAATACTATGTGGTC
532936 CTTCGG
1 CTTCGG
532942 GACAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (23 bp):
CTTCGGTGCAATACTATGTGGTC
Found at i:536502 original size:59 final size:58
Alignment explanation
Indices: 536419--536557 Score: 167
Period size: 58 Copynumber: 2.4 Consensus size: 58
536409 ATTAGAATAT
* * * *
536419 TCAAAAGTTTGAGGA-TAATATAGAAAGAAG-GTGATAGTTT-AGGGATGAAATTAGAAGC
1 TCAAAAGTTTAAAGACTAATTTAG-AAGAAGAGTCATAGTTTGA-GGATGAAATTAGAA-C
* *
536477 TCAAAAGTTTAAAGACTAATTTAGAATAAGAGTCATAGTTTGAGGATGAAATTAGAAT
1 TCAAAAGTTTAAAGACTAATTTAGAAGAAGAGTCATAGTTTGAGGATGAAATTAGAAC
*
536535 TCCAAAGTTTAAAGACTAATTTA
1 TCAAAAGTTTAAAGACTAATTTA
536558 AACTGAAAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 40 0.56
59 30 0.42
60 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (58 bp):
TCAAAAGTTTAAAGACTAATTTAGAAGAAGAGTCATAGTTTGAGGATGAAATTAGAAC
Found at i:538014 original size:28 final size:28
Alignment explanation
Indices: 537982--538036 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
537972 AACTAATGTT
* *
537982 TAGGGTTTAT-TATTAAGGTTTTAGGGTA
1 TAGGGTTTATATACTAAGG-ATTAGGGTA
538010 TAGGGTTTATATACTAAGGATTAGGGT
1 TAGGGTTTATATACTAAGGATTAGGGT
538037 TTATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (28 bp):
TAGGGTTTATATACTAAGGATTAGGGTA
Found at i:538120 original size:63 final size:65
Alignment explanation
Indices: 537994--538122 Score: 199
Period size: 63 Copynumber: 2.0 Consensus size: 65
537984 GGGTTTATTA
* * *
537994 TTAAGGTTTTAGGGTATAGGGTTTATATACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
1 TTAAAGTTTTAAGGTATAGGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
* *
538059 TTAAAGTTTTAAGGTATATGG-TT-TAGACTAAGGATTAGGGTTTATTTATTAGGTTTTAAAGGT
1 TTAAAGTTTTAAGGTATAGGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
538122 T
1 T
538123 ATGATTAAGG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 39 0.66
64 2 0.03
65 18 0.31
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (65 bp):
TTAAAGTTTTAAGGTATAGGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
Found at i:538149 original size:7 final size:7
Alignment explanation
Indices: 538127--538227 Score: 52
Period size: 7 Copynumber: 14.3 Consensus size: 7
538117 AAGGTTATGA
538127 TTAAGG-
1 TTAAGGT
*
538133 TTATGGT
1 TTAAGGT
538140 TTAAGGT
1 TTAAGGT
*
538147 TTACA-AT
1 TTA-AGGT
538154 TTAAGGT
1 TTAAGGT
*
538161 TTAAGGC
1 TTAAGGT
*
538168 TTATA-GA
1 TTA-AGGT
538175 TTAAGGT
1 TTAAGGT
538182 TTACTA-GT
1 TTA--AGGT
538190 TTAAGGT
1 TTAAGGT
538197 TTATA--T
1 TTA-AGGT
538203 ATTAAGGTT
1 -TTAAGG-T
538212 TTAAGGT
1 TTAAGGT
*
538219 TTATGGT
1 TTAAGGT
538226 TT
1 TT
538228 TAGGGTTGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
6 10 0.14
7 48 0.65
8 14 0.19
9 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.47
Consensus pattern (7 bp):
TTAAGGT
Found at i:538163 original size:21 final size:21
Alignment explanation
Indices: 538137--538184 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
538127 TTAAGGTTAT
* **
538137 GGTTTAAGGTTTACAATTTAA
1 GGTTTAAGGCTTACAGATTAA
*
538158 GGTTTAAGGCTTATAGATTAA
1 GGTTTAAGGCTTACAGATTAA
538179 GGTTTA
1 GGTTTA
538185 CTAGTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGCTTACAGATTAA
Found at i:538178 original size:14 final size:14
Alignment explanation
Indices: 538161--538212 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
538151 AATTTAAGGT
*
538161 TTAAGGCTTATAGA
1 TTAAGGTTTATAGA
*
538175 TTAAGGTTTACTAGT
1 TTAAGGTTTA-TAGA
*
538190 TTAAGGTTTATATA
1 TTAAGGTTTATAGA
538204 TTAAGGTTT
1 TTAAGGTTT
538213 TAAGGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (14 bp):
TTAAGGTTTATAGA
Found at i:538220 original size:29 final size:28
Alignment explanation
Indices: 538153--538227 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
538143 AGGTTTACAA
*
538153 TTTAAGGTTTAAGGCTTATAGATTAAGG
1 TTTAAGGTTTAAGGTTTATAGATTAAGG
*
538181 TTTACTA-GTTTAAGGTTTATATATTAAGG
1 TTTA--AGGTTTAAGGTTTATAGATTAAGG
*
538210 TTTTAAGGTTTATGGTTT
1 -TTTAAGGTTTAAGGTTT
538228 TAGGGTTGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 5 0.12
29 30 0.75
30 5 0.12
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (28 bp):
TTTAAGGTTTAAGGTTTATAGATTAAGG
Found at i:538581 original size:80 final size:78
Alignment explanation
Indices: 538458--538781 Score: 274
Period size: 80 Copynumber: 4.1 Consensus size: 78
538448 TAGTGTTGTT
*** * *
538458 TTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCAACGTTTTTATACAAATGGCGCAATATGG
1 TTTTCAACAAACGCCGC-A-AGAGTAGTACTTTAGCGGTGTTTTTATACAAATGCCGTAATA-GG
*
538523 TTCATCTATAGTGGCG
63 TTCATCTATAGTGGCA
** *
538539 TTGTTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAACACCATAATAGAGT
1 TT-TTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAATGCCGTAATAG-GT
*
538604 TCATCTACAGTGGCA
64 TCATCTATAGTGGCA
** * * *
538619 TTTTCAACAAACGCCTTAAAAGAGTAGTACTTTAGCGGTATTTTTATACAAATGTCGTAATGGGG
1 TTTTCAACAAACGCC--GCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAATGCCGTAAT-AGG
** **
538684 TTCATCTATAAAGGTTT
63 TTCATCTATAGTGG-CA
** * * ** * **
538701 TTTTCAACAAATACCGCAATAG-AGTACTTTAGTGG-CATTTTATATAAATGTTGTAATAGGGTT
1 TTTTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAATGCCGTAATA-GGTT
* *
538764 TATCAATAGTGGCA
65 CATCTATAGTGGCA
538778 TTTT
1 TTTT
538782 TTCAATAAAC
Statistics
Matches: 196, Mismatches: 40, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
77 4 0.02
78 30 0.15
79 26 0.13
80 55 0.28
81 52 0.27
82 29 0.15
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (78 bp):
TTTTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAATGCCGTAATAGGTTC
ATCTATAGTGGCA
Found at i:538662 original size:40 final size:41
Alignment explanation
Indices: 538557--538670 Score: 99
Period size: 40 Copynumber: 2.8 Consensus size: 41
538547 CAAACGCCGC
* *
538557 AAGAGTAGTACTTTAGCGGTGTTTTTATACAAACACCATAA
1 AAGAGTAGTACTTTAGCGGTATTTTCATACAAACACCATAA
* ** * * * *
538598 TAGAGT--TCATCTACAGTGGCATTTTCA-ACAAACGCCTTAA
1 AAGAGTAGT-A-CTTTAGCGGTATTTTCATACAAACACCATAA
*
538638 AAGAGTAGTACTTTAGCGGTATTTTTATACAAA
1 AAGAGTAGTACTTTAGCGGTATTTTCATACAAA
538671 TGTCGTAATG
Statistics
Matches: 53, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
39 1 0.02
40 29 0.55
41 22 0.42
42 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (41 bp):
AAGAGTAGTACTTTAGCGGTATTTTCATACAAACACCATAA
Found at i:538782 original size:78 final size:80
Alignment explanation
Indices: 538456--538830 Score: 213
Period size: 80 Copynumber: 4.6 Consensus size: 80
538446 TATAGTGTTG
* * ** * * * *
538456 TTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCAACGTTTTTATACAAATGGCGCAATAT
1 TTTTTTCAACAAACACCGC-A-ATAG-AGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAG
* **
538521 GGTTCATCTATAGTGGC-
63 GGTTCATCAATAAAGGCA
* * * * ** *** * *
538538 GTTGTTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAACACCATAATAGAG
1 TTTTTTCAACAAACACCGCAATAG-AGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAGGG
* * **
538603 TTCATCTACAGTGGCA
65 TTCATCAATAAAGGCA
* ** * * *
538619 --TTTTCAACAAACGCCTTAAAAGAGTAGTACTTTAGCGGTATTTTTATACAAATGTCGTAATGG
1 TTTTTTCAACAAACACC--GCAATAG-AGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAG
* *
538682 GGTTCATCTATAAAGG-T
63 GGTTCATCAATAAAGGCA
* * * *
538699 TTTTTTCAACAAATACCGCAATAGAGTACTTTAGTGGCA-TTTTATATAAATGTTGTAATAGGGT
1 TTTTTTCAACAAACACCGCAATAGAGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAGGGT
* **
538763 TTATCAATAGTGGCA
66 TCATCAATAAAGGCA
* * * *
538778 TTTTTTCAATAAACACCGCAACAAAGTTGTACTTTGGCGGCA-TTTTATACAAA
1 TTTTTTCAACAAACACCGC-A-ATAG-AGTACTTTAGCGGCATTTTTATACAAA
538831 CCCGCAATGA
Statistics
Matches: 235, Mismatches: 49, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
78 31 0.13
79 44 0.19
80 54 0.23
81 54 0.23
82 52 0.22
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (80 bp):
TTTTTTCAACAAACACCGCAATAGAGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAGGGT
TCATCAATAAAGGCA
Found at i:538786 original size:161 final size:163
Alignment explanation
Indices: 538456--538830 Score: 375
Period size: 161 Copynumber: 2.3 Consensus size: 163
538446 TATAGTGTTG
* ** * *
538456 TTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCAACGTTTTTATACAAATGGCGCAATAT
1 TTTTTTCAACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCATTTTTATACAAATGGCGCAATAG
** * **
538521 GGTTCATCTATAGTGGCGTTGTTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATA
66 GGTTCATCTATAAAGGCGTTGTTCAACAAACACCGCAAGAGTAGTACTTTAGCGGTCATTTTATA
*
538586 CAAACACCATAATAGAGTTCATCTACAGTGGCA
131 CAAACACCATAATAGAGTTCATCAACAGTGGCA
** * * * *
538619 --TTTTCAACAAACGCCTTAAAAGAGTAGTACTTTAGCGGTATTTTTATACAAATGTCGTAATGG
1 TTTTTTCAACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCATTTTTATACAAATGGCGCAATAG
** * * * *
538682 GGTTCATCTATAAAGGTTTTTTTCAACAAATACCGCAATAG-AGTACTTTAGTGG-CATTTTATA
66 GGTTCATCTATAAAGGCGTTGTTCAACAAACACCGCAAGAGTAGTACTTTAGCGGTCATTTTATA
* ***** * * *
538745 TAAATGTTGTAATAGGGTTTATCAATAGTGGCA
131 CAAACACCATAATAGAGTTCATCAACAGTGGCA
* * * *
538778 TTTTTTCAATAAACACCGCAACAA-AGTTGTACTTTGGCGGCA-TTTTATACAAA
1 TTTTTTCAACAAACGCCGCAA-AAGAGTAGTACTTTAGCGGCATTTTTATACAAA
538831 CCCGCAATGA
Statistics
Matches: 170, Mismatches: 39, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
159 30 0.18
160 23 0.14
161 115 0.68
162 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (163 bp):
TTTTTTCAACAAACGCCGCAAAAGAGTAGTACTTTAGCGGCATTTTTATACAAATGGCGCAATAG
GGTTCATCTATAAAGGCGTTGTTCAACAAACACCGCAAGAGTAGTACTTTAGCGGTCATTTTATA
CAAACACCATAATAGAGTTCATCAACAGTGGCA
Found at i:538796 original size:79 final size:79
Alignment explanation
Indices: 538456--538830 Score: 200
Period size: 82 Copynumber: 4.6 Consensus size: 79
538446 TATAGTGTTG
* * ** * * * *
538456 TTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCAACGTTTTTATACAAATGGCGCAATAT
1 TTTTTTCAACAAACACCGC-A-ATAG-AGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAG
* ** *
538521 GGTTCATCTATAGTGGC
63 GGTTCATCAATAAAGGA
* * * * ** *** * *
538538 GTTGTTCAACAAACGCCGCAAGAGTAGTACTTTAGCGGTGTTTTTATACAAACACCATAATAGAG
1 TTTTTTCAACAAACACCGCAATAG-AGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAGGG
* *
538603 TTCATC--TACAGTGG
65 TTCATCAATAAAG-GA
** * ** * * *
538617 CATTTTCAACAAACGCCTTAAAAGAGTAGTACTTTAGCGGTATTTTTATACAAATGTCGTAATGG
1 TTTTTTCAACAAACACC--GCAATAG-AGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAG
* *
538682 GGTTCATCTATAAAGGT
63 GGTTCATCAATAAAGGA
* * * *
538699 TTTTTTCAACAAATACCGCAATAGAGTACTTTAGTGGCA-TTTTATATAAATGTTGTAATAGGGT
1 TTTTTTCAACAAACACCGCAATAGAGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAGGGT
* **
538763 TTATCAATAGTGGCA
66 TCATCAATAAAGG-A
* * * *
538778 TTTTTTCAATAAACACCGCAACAAAGTTGTACTTTGGCGGCA-TTTTATACAAA
1 TTTTTTCAACAAACACCGC-A-ATAG-AGTACTTTAGCGGCATTTTTATACAAA
538831 CCCGCAATGA
Statistics
Matches: 231, Mismatches: 53, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
78 34 0.15
79 45 0.19
80 46 0.20
81 49 0.21
82 53 0.23
83 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (79 bp):
TTTTTTCAACAAACACCGCAATAGAGTACTTTAGCGGCATTTTTATACAAATGTCGTAATAGGGT
TCATCAATAAAGGA
Found at i:544407 original size:43 final size:42
Alignment explanation
Indices: 544326--544432 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
544316 ACTTGTACTG
* *
544326 TAGTGGTGTTTTTGTAATAAACACTGCAATAATAATGTACTT
1 TAGTGGCGTTTTTGTAATAAACACTGCAATAATAATGTACCT
* ** * * *
544368 TAGTGGCATTTTTTGTAATAAAGGCTGTAATAGTCATGTACCT
1 TAGTGGC-GTTTTTGTAATAAACACTGCAATAATAATGTACCT
*
544411 TAGTGGCGTTTTTATAATAAAC
1 TAGTGGCGTTTTTGTAATAAAC
544433 GTCGCGATTG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 18 0.34
43 35 0.66
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (42 bp):
TAGTGGCGTTTTTGTAATAAACACTGCAATAATAATGTACCT
Found at i:544826 original size:221 final size:219
Alignment explanation
Indices: 544445--544886 Score: 850
Period size: 221 Copynumber: 2.0 Consensus size: 219
544435 CGCGATTGTG
544445 CAATCCTTTAACCCATTGGGTTCCAAATCCCAAATTCTTCATTCACAAATTTTAATTTTCCTAAC
1 CAATCCTTTAACCCATTGGGTTCCAAATCCCAAATTCTTCATTCACAAATTTTAATTTTCCTAAC
544510 CAACGCCCAACCATCACAGTGAAGTCACCCCCGGGCAACCATCATCACAAGCGCAACATCATGCC
66 CAACGCCCAACCATCACAGTGAAGTCACCCCCGGGCAACCATCATCACAAGCGCAACATCATGCC
544575 GCCGTCGCTTGCTTCCGGTCAGCAACAAGTATGCCTC-TCTTCCTTCGCACTCTGCCATTTTCAT
131 GCCGTCGCTTGCTTCCGGTCAGCAACAAGTATGCCTCTTC-TCCTTCGCACTCTGCCATTTTCAT
544639 GATCCAAAACCATCCATTTGGATGC
195 GATCCAAAACCATCCATTTGGATGC
544664 CAATCCTTTAACCCATTGGGTTCCAAATCCCAAATTCTTTCATTCACAAATTTTTAATTTTCCTA
1 CAATCCTTTAACCCATTGGGTTCCAAATCCCAAATTC-TTCATTCACAAA-TTTTAATTTTCCTA
544729 ACCAACGCCCAACCATCACAGTGAAGTCACCCCCGGGCAACCATCATCACAAGCGCAACATCATG
64 ACCAACGCCCAACCATCACAGTGAAGTCACCCCCGGGCAACCATCATCACAAGCGCAACATCATG
544794 CCGCCGTCGCTTGCTTCCGGTCAGCAACAAGTATGCCTCTTCTCCTTCGCACTCTGCCATTTTCA
129 CCGCCGTCGCTTGCTTCCGGTCAGCAACAAGTATGCCTCTTCTCCTTCGCACTCTGCCATTTTCA
544859 TGATCCAAAACCATCCATTTGGATGC
194 TGATCCAAAACCATCCATTTGGATGC
544885 CA
1 CA
544887 TTTTCGCAGC
Statistics
Matches: 220, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
219 37 0.17
220 12 0.05
221 169 0.77
222 2 0.01
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (219 bp):
CAATCCTTTAACCCATTGGGTTCCAAATCCCAAATTCTTCATTCACAAATTTTAATTTTCCTAAC
CAACGCCCAACCATCACAGTGAAGTCACCCCCGGGCAACCATCATCACAAGCGCAACATCATGCC
GCCGTCGCTTGCTTCCGGTCAGCAACAAGTATGCCTCTTCTCCTTCGCACTCTGCCATTTTCATG
ATCCAAAACCATCCATTTGGATGC
Found at i:546010 original size:48 final size:48
Alignment explanation
Indices: 545955--546047 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
545945 AGTTAAACAC
545955 ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAAAAT
1 ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAAAAT
*
546003 ATAACAACTATATATTTCTATAAAGTTACATAGGAAAATGAACAA
1 ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAA
546048 CATAAAAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (48 bp):
ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAAAAT
Found at i:552229 original size:29 final size:29
Alignment explanation
Indices: 552194--552338 Score: 236
Period size: 29 Copynumber: 5.0 Consensus size: 29
552184 AATTAATTAT
* *
552194 GAAACTAACACCCATTTAAAAATACTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
552223 GAAACTAACACCCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
552252 GAAACTAACACCCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
*
552281 GAAAATAACACCCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
* * *
552310 AAAAATAACACGCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
552339 AAAAATAGCA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 111 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (29 bp):
GAAACTAACACCCTTTTAAAAATATTTAC
Found at i:552368 original size:87 final size:87
Alignment explanation
Indices: 552159--552408 Score: 261
Period size: 87 Copynumber: 2.9 Consensus size: 87
552149 ACAGTCAACT
* * * * * *
552159 TTTACAAAAATAACACCTTAACAGAAATTAATTATGAAACTAACACCCATTTAAAAATACTTACG
1 TTTACAAAAATAACACC-TAACAAAAATTAATTACGAAAATAACACCCTTTTAAAAATATTTACA
*
552224 AAACTAACACCCTTTTAAAAATA
65 AAAATAACACCCTTTTAAAAATA
* * *** *
552247 TTTACGAAACTAACACCCTTTTAAAAA-TATTTACGAAAATAACACCCTTTTAAAAATATTTACA
1 TTTACAAAAATAACA-CCTAACAAAAATTAATTACGAAAATAACACCCTTTTAAAAATATTTACA
*
552311 AAAATAACACGCTTTTAAAAATA
65 AAAATAACACCCTTTTAAAAATA
* * * * * * *
552334 TTTACAAAAATAGCATCGAACAAAAATTAATTACG-TATTAGGCACTCTTTTAAAAATATTTACA
1 TTTACAAAAATAACACCTAACAAAAATTAATTACGAAAATA-ACACCCTTTTAAAAATATTTACA
*
552398 AAAATAGCACC
65 AAAATAACACC
552409 GAACAGAAAT
Statistics
Matches: 130, Mismatches: 29, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
86 9 0.07
87 101 0.78
88 18 0.14
89 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (87 bp):
TTTACAAAAATAACACCTAACAAAAATTAATTACGAAAATAACACCCTTTTAAAAATATTTACAA
AAATAACACCCTTTTAAAAATA
Found at i:552461 original size:58 final size:58
Alignment explanation
Indices: 552322--552458 Score: 231
Period size: 58 Copynumber: 2.4 Consensus size: 58
552312 AAATAACACG
* *
552322 CTTTTAAAAATATTTACAAAAATAGCATCGAACAAAAATTAATTACGTATTAGGCACT
1 CTTTTAAAAATATTTACAAAAATAGCACCGAACAAAAATTAATTACGTATTAAGCACT
* *
552380 CTTTTAAAAATATTTACAAAAATAGCACCGAACAGAAATTAATTAC-TTTTAAGCACT
1 CTTTTAAAAATATTTACAAAAATAGCACCGAACAAAAATTAATTACGTATTAAGCACT
552437 CTTTTAAAAATATTTACAAAAA
1 CTTTTAAAAATATTTACAAAAA
552459 ATATTACCCG
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 31 0.41
58 44 0.59
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (58 bp):
CTTTTAAAAATATTTACAAAAATAGCACCGAACAAAAATTAATTACGTATTAAGCACT
Found at i:553565 original size:17 final size:17
Alignment explanation
Indices: 553543--553587 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
553533 GGTCAACGGA
*
553543 TCGGGTCAACGGTCGGG
1 TCGGGTCAACGGTCGAG
553560 TCGGGTCAACGGTCGAG
1 TCGGGTCAACGGTCGAG
553577 TCGGGTCAACG
1 TCGGGTCAACG
553588 TTTGGTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
TCGGGTCAACGGTCGAG
Found at i:553574 original size:12 final size:13
Alignment explanation
Indices: 553533--553561 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
553523 TTCTCTATCA
553533 GGTCAACGGATCG
1 GGTCAACGGATCG
553546 GGTCAACGG-TCG
1 GGTCAACGGATCG
553558 GGTC
1 GGTC
553562 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (13 bp):
GGTCAACGGATCG
Found at i:557409 original size:21 final size:21
Alignment explanation
Indices: 557383--557441 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
557373 TGATTTATTA
557383 TTATGGATTTCAAG-TTGATTG
1 TTATGGATTTCAAGTTTG-TTG
557404 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
557425 TTATGGATGTCATGTTT
1 TTATGGATTTCAAGTTT
557442 ATTGGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:558517 original size:24 final size:24
Alignment explanation
Indices: 558481--558529 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
558471 TTGATGGATG
558481 AATGAATGAAATGATGAGCCTCAA
1 AATGAATGAAATGATGAGCCTCAA
*
558505 AATGAATGGAATGATGAGCCTCAA
1 AATGAATGAAATGATGAGCCTCAA
558529 A
1 A
558530 CTAAGTGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.20
Consensus pattern (24 bp):
AATGAATGAAATGATGAGCCTCAA
Found at i:560029 original size:40 final size:40
Alignment explanation
Indices: 559974--560049 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
559964 GAAAAGTAGT
*
559974 TTTGCTTTGAGTAGGATCTAATGGATCTATATTTTTCTAC
1 TTTGCTTTGAGTAGGATCTAATAGATCTATATTTTTCTAC
* * *
560014 TTTGCTTTGAGTAGGATTTACTAGATCTGTATTTTT
1 TTTGCTTTGAGTAGGATCTAATAGATCTATATTTTT
560050 TTATTGTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (40 bp):
TTTGCTTTGAGTAGGATCTAATAGATCTATATTTTTCTAC
Found at i:562124 original size:31 final size:31
Alignment explanation
Indices: 562086--562156 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
562076 CCGAAGAAAC
*
562086 TAGGTAAACTATCCATATATCCC-ATAGAACA
1 TAGGTAAACTATCCATATATCCCGAAAG-ACA
* * *
562117 TATGTAAACTGTCCATATGTCCCGAAAGACA
1 TAGGTAAACTATCCATATATCCCGAAAGACA
562148 TAGGTAAAC
1 TAGGTAAAC
562157 CCTCGACTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (31 bp):
TAGGTAAACTATCCATATATCCCGAAAGACA
Found at i:567463 original size:31 final size:31
Alignment explanation
Indices: 567428--567497 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
567418 TGTCCATAGG
567428 TCTCGAAGAAAC-TACGTAAACTATCCATATA
1 TCTCGAA-AAACATACGTAAACTATCCATATA
* * *
567459 TCTCGTAAAACATAGGTAAACTGTCCATATA
1 TCTCGAAAAACATACGTAAACTATCCATATA
*
567490 TCCCGAAA
1 TCTCGAAA
567498 GACAAAGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (31 bp):
TCTCGAAAAACATACGTAAACTATCCATATA
Found at i:567507 original size:31 final size:31
Alignment explanation
Indices: 567443--567510 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
567433 AAGAAACTAC
* *
567443 GTAAACTATCCATATATCTCGTAAAACATAG
1 GTAAACTATCCATATATCCCGTAAAACAAAG
*
567474 GTAAACTGTCCATATATCCCG-AAAGACAAAG
1 GTAAACTATCCATATATCCCGTAAA-ACAAAG
567505 GTAAAC
1 GTAAAC
567511 CCTCGACTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (31 bp):
GTAAACTATCCATATATCCCGTAAAACAAAG
Found at i:571308 original size:13 final size:13
Alignment explanation
Indices: 571290--571316 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
571280 TTATAGACGC
571290 GCATATGAAGACT
1 GCATATGAAGACT
571303 GCATATGAAGACT
1 GCATATGAAGACT
571316 G
1 G
571317 TTCAACTATG
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:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:573094 original size:30 final size:30
Alignment explanation
Indices: 573059--573130 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
573049 CCTTTTGAGG
* *
573059 TTTCCCGATATTACCCTTAGGCTCTTCCTT
1 TTTCCCGACATCACCCTTAGGCTCTTCCTT
* *
573089 TTTCCCCGACATCACCTTTAGGCTTTTCCTT
1 TTT-CCCGACATCACCCTTAGGCTCTTCCTT
573120 TTTCCCCGACA
1 TTT-CCCGACA
573131 CAACGGCCGC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.14, C:0.36, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTCCCGACATCACCCTTAGGCTCTTCCTT
Found at i:578077 original size:26 final size:27
Alignment explanation
Indices: 578038--578105 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
578028 GATAAACCTT
*
578038 TCTTCGAGAATCTCAAT-CCTAAGGTAA
1 TCTTCAAG-ATCTCAATACCTAAGGTAA
**
578065 TCTTCAAGATCTCAATATTTAAGGTAA
1 TCTTCAAGATCTCAATACCTAAGGTAA
578092 TCTTCAAGAT-TCAA
1 TCTTCAAGATCTCAA
578106 CCTTCTAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (27 bp):
TCTTCAAGATCTCAATACCTAAGGTAA
Found at i:596810 original size:15 final size:15
Alignment explanation
Indices: 596790--596828 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
596780 ACTCGGATGA
596790 ATTGACTCAGTCTAC
1 ATTGACTCAGTCTAC
*
596805 ATTGACTCAGTCTAT
1 ATTGACTCAGTCTAC
596820 ATTGACTCA
1 ATTGACTCA
596829 ACCGAGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (15 bp):
ATTGACTCAGTCTAC
Found at i:600802 original size:27 final size:28
Alignment explanation
Indices: 600767--600819 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
600757 ATGGCTCAGA
600767 GGTACTTTG-GATCATTTTACACTTCAAG
1 GGTACTTTGAG-TCATTTTACACTTCAAG
*
600795 GGTA-TTTGAGTTATTTTACACTTCA
1 GGTACTTTGAGTCATTTTACACTTCA
600820 GGGGCAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (28 bp):
GGTACTTTGAGTCATTTTACACTTCAAG
Found at i:606106 original size:29 final size:29
Alignment explanation
Indices: 606060--606117 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
606050 CAAAGTCAAT
* *
606060 GGGTTGACTCGGACGAGTTGAGTTAGTTC
1 GGGTTGACTCAGACGAGTTGACTTAGTTC
606089 GGGTTGACTCAG-CTGAGTTGACTTAGTTC
1 GGGTTGACTCAGAC-GAGTTGACTTAGTTC
606118 AGACCGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.17, C:0.16, G:0.34, T:0.33
Consensus pattern (29 bp):
GGGTTGACTCAGACGAGTTGACTTAGTTC
Found at i:606894 original size:2 final size:2
Alignment explanation
Indices: 606847--606874 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
606837 ACATGCACGA
606847 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
606875 GTGTGTGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:610016 original size:55 final size:55
Alignment explanation
Indices: 609935--610223 Score: 377
Period size: 55 Copynumber: 5.3 Consensus size: 55
609925 ATACTTGAAA
* * * *
609935 AATCTTCAA-ATAACGGGTCTGCTCCCTTTTCTTTCAAGGAGTATAAGACTCGAAC
1 AATCTTCAACA-AACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAC
* *** * *
609990 AATTTTTGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAC
* *
610045 AATCTTCAACAAACGTGTATGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAT
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAC
*
610100 AATCTTCAACAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAT
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAC
* * * *
610155 AATCTTCAACAAACGGGT-TCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGTGTCT-GCTCCCTATTCGTTCAGGGAGTATAAG-ACTCGAAC
610210 AATCTTCAACAAAC
1 AATCTTCAACAAAC
610224 TTAACAAACT
Statistics
Matches: 208, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
54 3 0.01
55 204 0.98
56 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (55 bp):
AATCTTCAACAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAC
Found at i:610306 original size:51 final size:51
Alignment explanation
Indices: 610230--610381 Score: 295
Period size: 51 Copynumber: 3.0 Consensus size: 51
610220 AAACTTAACA
*
610230 AACTTGTCCACTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACG
1 AACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACG
610281 AACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACG
1 AACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACG
610332 AACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
1 AACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
610382 AAACAAATTT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 100 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (51 bp):
AACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACG
Found at i:611697 original size:9 final size:9
Alignment explanation
Indices: 611683--611785 Score: 67
Period size: 9 Copynumber: 11.7 Consensus size: 9
611673 TATTTCTATT
611683 TTTTTTTCA
1 TTTTTTTCA
611692 TTTTTTTCA
1 TTTTTTTCA
*
611701 TTTTTCTC-
1 TTTTTTTCA
611709 -TTTTTTCA
1 TTTTTTTCA
611717 --TTTTTCA
1 TTTTTTTCA
611724 -TTTTTTC-
1 TTTTTTTCA
*
611731 TTCCCTTTTCCA
1 TT---TTTTTCA
*
611743 TTTTTTTCG
1 TTTTTTTCA
*
611752 TTTTTTCCA
1 TTTTTTTCA
*
611761 TCATTTTTC-
1 T-TTTTTTCA
611770 TTTTTTCTCA
1 TTTTTT-TCA
611780 TTTTTT
1 TTTTTT
611786 CTCTTTTATT
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
7 13 0.18
8 11 0.15
9 32 0.43
10 11 0.15
11 5 0.07
12 2 0.03
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:611704 original size:16 final size:16
Alignment explanation
Indices: 611685--611729 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
611675 TTTCTATTTT
611685 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
611701 TTTTTC-TCTTTTTTCA
1 TTTTTCAT-TTTTTTCA
611717 TTTTTCATTTTTT
1 TTTTTCATTTTTT
611730 CTTCCCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:611757 original size:18 final size:17
Alignment explanation
Indices: 611683--611792 Score: 84
Period size: 18 Copynumber: 6.2 Consensus size: 17
611673 TATTTCTATT
*
611683 TTTTTTTCATTTTTTTC
1 TTTTTTCCATTTTTTTC
*
611700 ATTTTT-C-TCTTTTTTC
1 TTTTTTCCAT-TTTTTTC
*
611716 ATTTTT-CA-TTTTTTC
1 TTTTTTCCATTTTTTTC
611731 TTCCCTTTTCCATTTTTTTC
1 TT---TTTTCCATTTTTTTC
*
611751 GTTTTTTCCATCATTTTTC
1 -TTTTTTCCAT-TTTTTTC
611770 TTTTTTCTCATTTTTTCTC
1 TTTTTTC-CATTTTTT-TC
611789 TTTT
1 TTTT
611793 ATTTCTTCTT
Statistics
Matches: 78, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
15 9 0.12
16 15 0.19
17 5 0.06
18 23 0.29
19 17 0.22
20 7 0.09
21 2 0.03
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (17 bp):
TTTTTTCCATTTTTTTC
Found at i:621122 original size:47 final size:49
Alignment explanation
Indices: 621058--621163 Score: 153
Period size: 47 Copynumber: 2.2 Consensus size: 49
621048 TGTTATCCAC
621058 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTATTCAAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCGTTATTCAAA
* * *
621106 AAAAATAAA-CCTAACCGCATGATATCTAATTTGCATGCGTTTATTCGAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCG-TTATTCAAA
*
621155 AAAATGAAA
1 AAAAAGAAA
621164 ATAAATGACT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
47 28 0.55
48 8 0.16
49 15 0.29
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (49 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCGTTATTCAAA
Found at i:633349 original size:21 final size:21
Alignment explanation
Indices: 633323--633363 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
633313 TAAATAATAT
* *
633323 TCTTTACTTTCTTTCTTTTTG
1 TCTTTACGTTCTTTATTTTTG
633344 TCTTTACGTTCTTTATTTTT
1 TCTTTACGTTCTTTATTTTT
633364 CAAGTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.71
Consensus pattern (21 bp):
TCTTTACGTTCTTTATTTTTG
Found at i:637364 original size:20 final size:20
Alignment explanation
Indices: 637323--637364 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
637313 GAACCAGCCC
*
637323 GAGTCAACCTGAACTGACCT
1 GAGTCAACCTGAACCGACCT
* *
637343 GAGTCAACCTGATCCGATCT
1 GAGTCAACCTGAACCGACCT
637363 GA
1 GA
637365 ACTGTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (20 bp):
GAGTCAACCTGAACCGACCT
Found at i:641382 original size:33 final size:32
Alignment explanation
Indices: 641340--641438 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 32
641330 TAGTATCCTG
641340 GTGGCCAACATCAATGTTCAAATCAGTTTCTTT
1 GTGGCCAACATCAATGTTCAAA-CAGTTTCTTT
* *
641373 GTGGCCAACATCAATGTTCAAACCGATTTCTTG
1 GTGGCCAACATCAATGTTCAAACAG-TTTCTTT
**
641406 GTGGAAAACATCAATGTTCAAACCAGTTTCTTT
1 GTGGCCAACATCAATGTTCAAA-CAGTTTCTTT
641439 ACCTTATGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.03
33 54 0.93
34 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (32 bp):
GTGGCCAACATCAATGTTCAAACAGTTTCTTT
Found at i:641566 original size:78 final size:78
Alignment explanation
Indices: 641412--641764 Score: 431
Period size: 78 Copynumber: 4.5 Consensus size: 78
641402 CTTGGTGGAA
* *
641412 AACATCAATGTTCAAACCAGTTTCTTTA-CCTTATGATCTTCTATGTTGGGTGTAGGGTTATTAG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
641476 TATCCTGGTGGCC
66 TATCCTGGTGGCC
* *** * * * * *
641489 TACATTGGTGTTCGAACCAGTTTCTTTACCCTTTTGATCTTCTATATTTGGTGTAGGCCTATTTG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
* **
641554 CAT-CTCCATGGCC
66 TATCCT-GGTGGCC
* * * * * * *
641567 AACAACAAAGTCCAAATCAGCTCCTTTACCCTTTTGATCTTCTATGCTGGGTGTAGGCTTATTAG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
641632 TATCCTGGTGGCC
66 TATCCTGGTGGCC
* * * * * *
641645 AACATCAGTGTTCAAATCACTTTCTTTACACTTTTGATATTCTATCTTGGGTGTAGGCTTATTAG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
641710 TATCCTGGTGGCC
66 TATCCTGGTGGCC
*
641723 AACATCAATGTTCAAACCAGTTTTTTTACCCTTTTGATCTTC
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTC
641765 AGAATCAATA
Statistics
Matches: 223, Mismatches: 50, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
77 25 0.11
78 196 0.88
79 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (78 bp):
AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
TATCCTGGTGGCC
Found at i:644003 original size:20 final size:20
Alignment explanation
Indices: 643978--644034 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
643968 AGCTCATATT
643978 GAATCATATAGATGCATTTA
1 GAATCATATAGATGCATTTA
643998 GAATCATATAGATGCATTTA
1 GAATCATATAGATGCATTTA
* * *
644018 GGACCATATAGTTGCAT
1 GAATCATATAGATGCAT
644035 GAGGTGGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
GAATCATATAGATGCATTTA
Found at i:664392 original size:21 final size:19
Alignment explanation
Indices: 664354--664399 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
664344 AATTAATCTT
664354 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
664374 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
664395 A-TAAT
1 ACTAAT
664400 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:665915 original size:35 final size:35
Alignment explanation
Indices: 665870--665938 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
665860 GCAAAAGAAT
665870 ATATCGCGGTAACTCGGACGATATTTCTGAAGCAA
1 ATATCGCGGTAACTCGGACGATATTTCTGAAGCAA
*
665905 ATATCGCGGTAACTCGGACGGTATTTCTGAAGCA
1 ATATCGCGGTAACTCGGACGATATTTCTGAAGCA
665939 GAAAAGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (35 bp):
ATATCGCGGTAACTCGGACGATATTTCTGAAGCAA
Found at i:666524 original size:89 final size:91
Alignment explanation
Indices: 666371--666550 Score: 321
Period size: 89 Copynumber: 2.0 Consensus size: 91
666361 TTTCCTCCAT
666371 CCTTTGCTATTTTTTTTATCATTTATCATATTTGAGTTGTATGAATTGATGAATTTCATGTTTTG
1 CCTTTGCTATTTTTTTTATCATTTATCATATTTGAGTTGTATGAATTGATGAATTTCATGTTTTG
666436 TTTCATGGAATATTAGAACCCCACCA
66 TTTCATGGAATATTAGAACCCCACCA
666462 CCTTTGCTA-TTTTTTTATCA-TT-TCATATTTGAGTTGTATGAAATTGATGAATTTCATGTTTT
1 CCTTTGCTATTTTTTTTATCATTTATCATATTTGAGTTGTATG-AATTGATGAATTTCATGTTTT
*
666524 GTTTCATGGAATATTCGAACCCCACCA
65 GTTTCATGGAATATTAGAACCCCACCA
666551 TAAACTAACT
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
88 18 0.21
89 49 0.56
90 11 0.13
91 9 0.10
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (91 bp):
CCTTTGCTATTTTTTTTATCATTTATCATATTTGAGTTGTATGAATTGATGAATTTCATGTTTTG
TTTCATGGAATATTAGAACCCCACCA
Found at i:668134 original size:17 final size:17
Alignment explanation
Indices: 668112--668171 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
668102 ATATAAGTAC
668112 AAGATAATATATGTTTA
1 AAGATAATATATGTTTA
* **
668129 AAGATAAT-TCTTGACTA
1 AAGATAATAT-ATGTTTA
668146 CAAGATAATATATGTTTA
1 -AAGATAATATATGTTTA
668164 AAGATAAT
1 AAGATAAT
668172 TCTTGACCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.03
17 20 0.59
18 12 0.35
19 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (17 bp):
AAGATAATATATGTTTA
Found at i:668148 original size:35 final size:35
Alignment explanation
Indices: 668109--668178 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
668099 TTGATATAAG
668109 TACAAGATAATATATGTTTAAAGATAATTCTTGAC
1 TACAAGATAATATATGTTTAAAGATAATTCTTGAC
668144 TACAAGATAATATATGTTTAAAGATAATTCTTGAC
1 TACAAGATAATATATGTTTAAAGATAATTCTTGAC
668179 CATTTGACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (35 bp):
TACAAGATAATATATGTTTAAAGATAATTCTTGAC
Found at i:674573 original size:37 final size:37
Alignment explanation
Indices: 674532--674609 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
674522 TGTTTAATTT
*
674532 TGTCACCTACCGTTAAAAAATTAATGGTATGTTGACA
1 TGTCACCTACCGTTAAAAAATTAACGGTATGTTGACA
674569 TGTCACCTACCGTTAAAAAATTAACGGTATGTTGACA
1 TGTCACCTACCGTTAAAAAATTAACGGTATGTTGACA
674606 TGTC
1 TGTC
674610 GCCATAGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (37 bp):
TGTCACCTACCGTTAAAAAATTAACGGTATGTTGACA
Found at i:675301 original size:96 final size:97
Alignment explanation
Indices: 675137--675330 Score: 372
Period size: 96 Copynumber: 2.0 Consensus size: 97
675127 GGTTTAATAC
*
675137 AAAAATTTTCAAATTATACAAAAAAAAAATCAAATTATTCAAGCAGGGAGTGGCAAGGGCACTGG
1 AAAAAATTTCAAATTATACAAAAAAAAAATCAAATTATTCAAGCAGGGAGTGGCAAGGGCACTGG
675202 GATGCGTGCCTGGGTAACGACAC-AAAAACTG
66 GATGCGTGCCTGGGTAACGACACAAAAAACTG
675233 AAAAAATTTCAAATTATACAAAAAAAAAATCAAATTATTCAAGCAGGGAGTGGCAAGGGCACTGG
1 AAAAAATTTCAAATTATACAAAAAAAAAATCAAATTATTCAAGCAGGGAGTGGCAAGGGCACTGG
675298 GATGCGTGCCTGGGTAACGACACAAAAAACTG
66 GATGCGTGCCTGGGTAACGACACAAAAAACTG
675330 A
1 A
675331 GTGCGGCGTT
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
96 87 0.91
97 9 0.09
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (97 bp):
AAAAAATTTCAAATTATACAAAAAAAAAATCAAATTATTCAAGCAGGGAGTGGCAAGGGCACTGG
GATGCGTGCCTGGGTAACGACACAAAAAACTG
Found at i:677321 original size:5 final size:5
Alignment explanation
Indices: 677311--677336 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
677301 TTTTATTATT
677311 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
677337 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:687484 original size:381 final size:379
Alignment explanation
Indices: 686695--687460 Score: 1374
Period size: 381 Copynumber: 2.0 Consensus size: 379
686685 TTGTGGTGAA
**
686695 AAACTTCTTCAACAATGATGATTTTGGAGATTGTCTTAGAAGGAATATGCGTTGAAGGCTGGAAA
1 AAACTTCGGCAACAATGATGA-TTTGGAGATTGTCTTAGAAGGAATATGCGTTGAAGGCTGGAAA
686760 TGGGAAGCTGTGGAGTTTTGGAATGATGTATGGTTGGGTGATGATCCTTGAAAATGTTGTTTCCT
65 TGGGAAGCTGTGGAGTTTTGGAATGATGTATGGTTGGGTGATGATCCTTGAAAATGTTGTTTCCT
686825 AGACTTTATGTTTTATCAAATAATAGAGCGGGCAAAGTGACGGAGTTTATGGTGAAGATTGCCTC
130 AGACTTTATGTTTTATCAAATAATAGAGCGGGCAAAGTGACGGAGTTTATGGTGAAGATTGCCTC
686890 GGGTTGGGTGTGGGGACATCCAAATGAAAGGAACTTGGTGATTGGGAAATTGAACAGTGGTTGCA
195 GGGTTGGGTGTGGGGACATCCAAATGAAAGGAACTTGGTGATTGGGAAATTGAACAGTGGTTGCA
686955 GTTGATCACTATATTGAATAATACCTTTATTTTTCCTGAAGATGATTGTTGGATTTGGTTAGGGA
260 GTTGATCACTATATTGAATAATACCTTTATTTTTCCTGAAGATGATTGTTGGATTTGGTTAGGGA
*
687020 TAGGGAATGAACTTTCACAGCAAGTCTTGTATAAACTCTTTCTTTGACCATGGTG
325 TAGGGAATGAACTTTCACAGCAAGTCTTGTATAAACTCTTTCTTTGACCAAGGTG
**
687075 AAAAACTTCTTCAACAATGATGATTTGGAGATTGTCTTAGAAGGAATATGCGTTGAAGG-TGGAA
1 --AAACTTCGGCAACAATGATGATTTGGAGATTGTCTTAGAAGGAATATGCGTTGAAGGCTGGAA
687139 ATGGGAAGCTGTGGAGTTTTGGAATGATGTATGGTTGGGTGATGATCCCTTGAAAATGTTGTTTC
64 ATGGGAAGCTGTGGAGTTTTGGAATGATGTATGGTTGGGTGATGAT-CCTTGAAAATGTTGTTTC
687204 CTAGACTTTATGTTTTATCAAATAATAGAGCGGGCAAAGTGACGGAGTTTATGGTGAAGATTGCC
128 CTAGACTTTATGTTTTATCAAATAATAGAGCGGGCAAAGTGACGGAGTTTATGGTGAAGATTGCC
687269 TCGGGTTGGGTGT-GGGACATCCAAATGAGAAGGAACTTGGTTGATTGGGAAATTGAACAGTGGT
193 TCGGGTTGGGTGTGGGGACATCCAAATGA-AAGGAACTTGG-TGATTGGGAAATTGAACAGTGGT
687333 TGCAGTTGATCACTATATTGAATAATACCTTTATTTTTCCTGCTGAAGATGATTGTTGGATTTCG
256 TGCAGTTGATCACTATATTGAATAATACCTTTATTTTT-C--CTGAAGATGATTGTTGGATTT-G
687398 GTTAGGGAATAGGGAATGAACTTTCACAGCAAGTCTTGTATAAACTCTTTCTTTGACCAAGGT
317 GTTAGGG-ATAGGGAATGAACTTTCACAGCAAGTCTTGTATAAACTCTTTCTTTGACCAAGGT
687461 CGAATTGGGA
Statistics
Matches: 375, Mismatches: 1, Indels: 11
0.97 0.00 0.03
Matches are distributed among these distances:
380 66 0.18
381 143 0.38
382 82 0.22
383 1 0.00
385 21 0.06
386 8 0.02
387 54 0.14
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.33
Consensus pattern (379 bp):
AAACTTCGGCAACAATGATGATTTGGAGATTGTCTTAGAAGGAATATGCGTTGAAGGCTGGAAAT
GGGAAGCTGTGGAGTTTTGGAATGATGTATGGTTGGGTGATGATCCTTGAAAATGTTGTTTCCTA
GACTTTATGTTTTATCAAATAATAGAGCGGGCAAAGTGACGGAGTTTATGGTGAAGATTGCCTCG
GGTTGGGTGTGGGGACATCCAAATGAAAGGAACTTGGTGATTGGGAAATTGAACAGTGGTTGCAG
TTGATCACTATATTGAATAATACCTTTATTTTTCCTGAAGATGATTGTTGGATTTGGTTAGGGAT
AGGGAATGAACTTTCACAGCAAGTCTTGTATAAACTCTTTCTTTGACCAAGGTG
Found at i:713001 original size:24 final size:24
Alignment explanation
Indices: 712982--713058 Score: 154
Period size: 24 Copynumber: 3.2 Consensus size: 24
712972 TTTTCAGTTT
712982 GGTTTTCTAGTTACTGTTCAGTGG
1 GGTTTTCTAGTTACTGTTCAGTGG
713006 GGTTTTCTAGTTACTGTTCAGTGG
1 GGTTTTCTAGTTACTGTTCAGTGG
713030 GGTTTTCTAGTTACTGTTCAGTGG
1 GGTTTTCTAGTTACTGTTCAGTGG
713054 GGTTT
1 GGTTT
713059 GTTGATTGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.12, C:0.12, G:0.30, T:0.47
Consensus pattern (24 bp):
GGTTTTCTAGTTACTGTTCAGTGG
Found at i:719631 original size:34 final size:34
Alignment explanation
Indices: 719586--719683 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
719576 TTAAATGATA
* * * *
719586 AACGAACATAAATGGACGTAAACGAACACAAACG
1 AACGAAAATAAACGAACATAAACGAACACAAACG
719620 AACGAAAATAAACGAACATAAACGAACACAATA--
1 AACGAAAATAAACGAACATAAACGAACACAA-ACG
* *
719653 AACGAACAA-AAACGAACA-ACACAAACACAAA
1 AACGAA-AATAAACGAACATAAACGAACACAAA
719684 AAAACAAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
31 1 0.02
32 10 0.18
33 15 0.27
34 29 0.52
35 1 0.02
ACGTcount: A:0.61, C:0.21, G:0.11, T:0.06
Consensus pattern (34 bp):
AACGAAAATAAACGAACATAAACGAACACAAACG
Found at i:719656 original size:23 final size:23
Alignment explanation
Indices: 719604--719671 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
719594 TAAATGGACG
*
719604 TAAACGAACACAAACGAACGAAAA
1 TAAACGAACAAAAACGAAC-AAAA
* *
719628 TAAACGAACATAAACGAACACAA
1 TAAACGAACAAAAACGAACAAAA
719651 TAAACGAACAAAAACGAACAA
1 TAAACGAACAAAAACGAACAA
719672 CACAAACACA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.63, C:0.21, G:0.10, T:0.06
Consensus pattern (23 bp):
TAAACGAACAAAAACGAACAAAA
Found at i:719678 original size:23 final size:23
Alignment explanation
Indices: 719604--719685 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
719594 TAAATGGACG
* *
719604 TAAACGAACACAAACGAACGAAAA
1 TAAACGAACAAAAACGAAC-AACA
*
719628 TAAACGAACATAAACGAAC-ACAA
1 TAAACGAACAAAAACGAACAAC-A
719651 TAAACGAACAAAAACGAACAACA
1 TAAACGAACAAAAACGAACAACA
*
719674 CAAAC--ACAAAAA
1 TAAACGAACAAAAA
719686 AACAAACTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
21 7 0.13
22 1 0.02
23 24 0.46
24 20 0.38
ACGTcount: A:0.65, C:0.22, G:0.09, T:0.05
Consensus pattern (23 bp):
TAAACGAACAAAAACGAACAACA
Found at i:721020 original size:17 final size:16
Alignment explanation
Indices: 720995--721055 Score: 71
Period size: 15 Copynumber: 4.1 Consensus size: 16
720985 CTTTAACCCT
720995 TTTATTATTATTTTTA
1 TTTATTATTATTTTTA
721011 TTTGATTATTA--TTT-
1 TTT-ATTATTATTTTTA
721025 TTTATT-TT-TTTTTA
1 TTTATTATTATTTTTA
721039 TTT-TTATTATTTTTA
1 TTTATTATTATTTTTA
721054 TT
1 TT
721056 GCTTACACGT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.05
13 8 0.21
14 8 0.21
15 11 0.28
16 3 0.08
17 7 0.18
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTATTATTATTTTTA
Found at i:721032 original size:23 final size:24
Alignment explanation
Indices: 720996--721051 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
720986 TTTAACCCTT
*
720996 TTATTATTAT-TTTTATTTGATTA
1 TTATTATTTTATTTTATTTGATTA
* * *
721019 TTATT-TTTTATTTTTTTTTATTT
1 TTATTATTTTATTTTATTTGATTA
721042 TTATTATTTT
1 TTATTATTTT
721052 TATTGCTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.11
23 20 0.74
24 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.79
Consensus pattern (24 bp):
TTATTATTTTATTTTATTTGATTA
Found at i:721168 original size:16 final size:16
Alignment explanation
Indices: 721147--721178 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
721137 ATGTATTTTA
721147 TTATTTATTATTTATT
1 TTATTTATTATTTATT
*
721163 TTATTTATTTTTTATT
1 TTATTTATTATTTATT
721179 AAATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTTATTATTTATT
Found at i:721219 original size:25 final size:24
Alignment explanation
Indices: 721184--721240 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
721174 TTATTAAATA
*
721184 ATATATCTTACTATTA-TATATATGT
1 ATATATTTTACT-TTATTATATAT-T
*
721209 ATATATTTTACTTTATTATTTATT
1 ATATATTTTACTTTATTATATATT
721233 AT-TATTTT
1 ATATATTTT
721241 GTTTTTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 6 0.21
24 6 0.21
25 17 0.59
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATATTTTACTTTATTATATATT
Found at i:721526 original size:9 final size:9
Alignment explanation
Indices: 721512--721539 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
721502 TATATGTATA
721512 TATTATTTT
1 TATTATTTT
721521 TATTATTTT
1 TATTATTTT
721530 TATTATTTT
1 TATTATTTT
721539 T
1 T
721540 CTTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TATTATTTT
Found at i:724401 original size:16 final size:16
Alignment explanation
Indices: 724376--724426 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
724366 AGATCCAATC
* * *
724376 AAGAACAAAAAGAGAA
1 AAGAAAAAAAAAAAAA
724392 AAGAAAAAAAAAAAAA
1 AAGAAAAAAAAAAAAA
724408 AAGAAAAAAGAAACAAAA
1 AAGAAAAAA-AAA-AAAA
724426 A
1 A
724427 TAAAGGAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 22 0.73
17 3 0.10
18 5 0.17
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAAAAAA
Found at i:724409 original size:23 final size:23
Alignment explanation
Indices: 724382--724426 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
724372 AATCAAGAAC
*
724382 AAAAAGAGAAAAGAAAAAAAAAA
1 AAAAAGAAAAAAGAAAAAAAAAA
*
724405 AAAAAGAAAAAAGAAACAAAAA
1 AAAAAGAAAAAAGAAAAAAAAA
724427 TAAAGGAACA
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:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAGAAAAAAAAAA
Found at i:726268 original size:84 final size:84
Alignment explanation
Indices: 726108--726931 Score: 962
Period size: 84 Copynumber: 9.9 Consensus size: 84
726098 CATTTTTTCT
* * * *
726108 ATTTGCAGCATAGCTCAAGACGAGAAGGGCTATCTGTCAA-GAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
* *
726172 CTTAGCTCAAAGACACATC
66 CTCAGCTCAAAGGCACATC
* * * *
726191 ATTTGTAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
* *
726256 CTCAGTTCAAAGACACATC
66 CTCAGCTCAAAGGCACATC
** * * * * * *
726275 ATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTTAACCAAA-ACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
*
726339 CTCAGCTCAAAGGCATATC
66 CTCAGCTCAAAGGCACATC
* **
726358 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATATACCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
726423 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * *
726442 ATTTGCAGCATAACTCAAGGAAAGAAGGGCTATCTGTCATC-AAAGACCTTCGATTTCGAATACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
* *
726506 CTCGGCTCAAAAGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * * * *
726525 ATTTCCAGCATATCTCAATGTAAAAAGGGCTATATATCATC-AAAGACATTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
* * * *
726589 TTCAGTTCAAAAGCATATC
66 CTCAGCTCAAAGGCACATC
* * * * * * *
726608 AAATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTGAAC-AAAGACCTTCGAGTTAGATTA
1 --ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTA
726672 CACTCAGCTCAAAGGCACATC
64 CACTCAGCTCAAAGGCACATC
* * * * **
726693 ATTTGCACCATAGATCAAGCCAAGAAGGGATATCTACCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
726758 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * *
726777 ATTTACAGCATAGCTCAAGACAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
726842 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * *
726861 ATTTACAGCATAGCTCAAGACAAGAAGGGATATCTGTCAATAGAAA-A-CTGTCGAGTTCGATTC
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACA-AAAGACCT-TCGAGTTCGATTA
726924 CA-TCAGCT
64 CACTCAGCT
726932 TGATGACATA
Statistics
Matches: 638, Mismatches: 96, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
83 249 0.39
84 321 0.50
85 68 0.11
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATC
Found at i:726336 original size:167 final size:167
Alignment explanation
Indices: 726108--726895 Score: 1008
Period size: 167 Copynumber: 4.7 Consensus size: 167
726098 CATTTTTTCT
* * * * * *
726108 ATTTGCAGCATAGCTCAAGACGAGAAGGGCTATCTGTCAAGAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGACAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* * * * * *
726173 TTAGCTCAAAGACACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCACCAAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAACAAAAGA
*
726238 CCTTCGAGTTCGATTACACTCAGTTCAAAGACACATC
131 CCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
* * * * *
726275 ATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTTAACCAAA-ACCTTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGACAAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACA
* * *
726339 CTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATATACCAACAAAAG
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAACAAAAG
*
726404 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
* * * * *
726442 ATTTGCAGCATAACTCAAGGA-AAGAAGGGCTATCTGTCATCAAAGACCTTCGATTTCGAATACA
1 ATTTACAGCATAACTCAA-GACAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* * * * * * * * * * *
726506 CTCGGCTCAAAAGCACATCATTTCCAGCATATCTCAATGTAAAAAGGGCTATATATCATC-AAAG
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAACAAAAG
* * * *
726570 ACATTCGAGTTCGATTACATTCAGTTCAAA-AGCATATC
130 ACCTTCGAGTTCGATTACACTCAGCTCAAAGA-CACATC
* * * *
726608 AAATTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGTGAACAAAGACCTTCGAGTTAGATTAC
1 --ATTTACAGCATAACTCAAGACAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTAC
* * *
726673 ACTCAGCTCAAAGGCACATCATTTGCACCATAGATCAAGCCAAGAAGGGATATCTACCAACAAAA
64 ACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAACAAAA
*
726738 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
129 GACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
* *
726777 ATTTACAGCATAGCTCAAGACAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGACAAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACA
* *
726842 CTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGACAAGAAGGGATATCT
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCT
726896 GTCAATAGAA
Statistics
Matches: 528, Mismatches: 83, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
166 40 0.08
167 277 0.52
168 175 0.33
169 36 0.07
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (167 bp):
ATTTACAGCATAACTCAAGACAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAACAAAAGA
CCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
Found at i:728509 original size:3 final size:3
Alignment explanation
Indices: 728501--728555 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
728491 TTTAACCCTT
* *
728501 TTA TTA TTA TTA TTA TT- TGA TTA TTA TT- TT- TTA TT- TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
728545 TTA TTT TTA TT
1 TTA TTA TTA TT
728556 GTTTACACGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 7 0.16
3 36 0.84
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (3 bp):
TTA
Found at i:728525 original size:14 final size:12
Alignment explanation
Indices: 728504--728549 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 12
728494 AACCCTTTTA
728504 TTATTATTATTAT
1 TTATTATTATT-T
728517 TTGATTATTATTTT
1 TT-ATTATTA-TTT
728531 TTATT-TTATTT
1 TTATTATTATTT
728542 TTATTATT
1 TTATTATT
728550 TTTATTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.27
12 5 0.17
13 5 0.17
14 10 0.33
15 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:728550 original size:14 final size:14
Alignment explanation
Indices: 728499--728551 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
728489 AATTTAACCC
728499 TTTTATTATTATTAT
1 TTTTATTATT-TTAT
728514 TATTTGATTA--TTA-
1 T-TTT-ATTATTTTAT
728527 TTTT-TTATTTTAT
1 TTTTATTATTTTAT
728540 TTTTATTATTTT
1 TTTTATTATTTT
728552 TATTGTTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
10 3 0.09
12 6 0.19
13 5 0.16
14 10 0.31
15 1 0.03
16 3 0.09
17 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTATTATTTTAT
Found at i:728652 original size:12 final size:13
Alignment explanation
Indices: 728633--728670 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
728623 TATATATATA
728633 TATTATTTTTATT
1 TATTATTTTTATT
728646 T-TTATTTATTATT
1 TATTATTT-TTATT
728659 TATT-TTTTTATT
1 TATTATTTTTATT
728671 AAATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.48
13 10 0.43
14 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTATTTTTATT
Found at i:728655 original size:19 final size:19
Alignment explanation
Indices: 728633--728670 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
728623 TATATATATA
728633 TATTATTT-TTATTTTTATT
1 TATTATTTATT-TTTTTATT
728652 TATTATTTATTTTTTTATT
1 TATTATTTATTTTTTTATT
728671 AAATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TATTATTTATTTTTTTATT
Found at i:728797 original size:38 final size:38
Alignment explanation
Indices: 728708--728806 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 38
728698 TGTATATATT
*
728708 TTACTTTATTAT-TTATTATTATTATTATTTCTTTTTTAC
1 TTACTTTATTATATTA-TA-TATTATTATTTATTTTTTAC
* * *
728747 CTAATATT-TTATATGTATATATTTTTA-TTATTTTTTAC
1 TTACT-TTATTATAT-TATATATTATTATTTATTTTTTAC
728785 TTACTTTATTATATATATATAT
1 TTACTTTATTATAT-TATATAT
728807 ATATATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
37 2 0.04
38 26 0.53
39 14 0.29
40 5 0.10
41 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (38 bp):
TTACTTTATTATATTATATATTATTATTTATTTTTTAC
Found at i:729021 original size:6 final size:6
Alignment explanation
Indices: 729012--729058 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
729002 TATATATATT
*
729012 TTTTTA TTTTTT TATTTTA TTTTGT- TGTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA T-TTTTA TTTT-TA T-TTTTA TTTTTA TTTTTA TTT
729059 CTGTTTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:729031 original size:13 final size:13
Alignment explanation
Indices: 729013--729163 Score: 65
Period size: 13 Copynumber: 11.2 Consensus size: 13
729003 ATATATATTT
729013 TTTTATTTTTTTA
1 TTTTATTTTTTTA
* *
729026 TTTTATTTTGTTG
1 TTTTATTTTTTTA
*
729039 TTTTATTTTTAT-
1 TTTTATTTTTTTA
*
729051 TTTTATTTCTGTTTC
1 TTTTATTT-T-TTTA
729066 TTTTCCATTTTTTCT-
1 TTTT--ATTTTTT-TA
729081 TTTTATTCTTATTTA
1 TTTTATT-TT-TTTA
*
729096 TTTTTATTCATTTT-
1 -TTTTATT-TTTTTA
** *
729110 TTTGCTTTATTTA
1 TTTTATTTTTTTA
***
729123 TTTTAACATTTTA
1 TTTTATTTTTTTA
** *
729136 TTTGCTTTTCTTA
1 TTTTATTTTTTTA
*
729149 TTTTATTTTATTA
1 TTTTATTTTTTTA
729162 TT
1 TT
729164 CTTTTTATAT
Statistics
Matches: 102, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
12 11 0.11
13 56 0.55
14 5 0.05
15 15 0.15
16 11 0.11
17 4 0.04
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:729042 original size:26 final size:26
Alignment explanation
Indices: 729013--729063 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
729003 ATATATATTT
*
729013 TTTTATTTTTTTATTTTATTT-TGTTG
1 TTTTATTTTTAT-TTTTATTTCTGTTG
729039 TTTTATTTTTATTTTTATTTCTGTT
1 TTTTATTTTTATTTTTATTTCTGTT
729064 TCTTTTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (26 bp):
TTTTATTTTTATTTTTATTTCTGTTG
Found at i:729126 original size:26 final size:27
Alignment explanation
Indices: 729089--729155 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 27
729079 CTTTTTATTC
729089 TTATTTATTTTTATTCATTTT-TTTGCT
1 TTATTTA-TTTTATTCATTTTATTTGCT
*
729116 TTATTTATTTTA-ACATTTTATTTGCT
1 TTATTTATTTTATTCATTTTATTTGCT
729142 TT-TCTTATTTTATT
1 TTAT-TTATTTTATT
729156 TTATTATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.20
26 21 0.60
27 7 0.20
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.72
Consensus pattern (27 bp):
TTATTTATTTTATTCATTTTATTTGCT
Found at i:729182 original size:26 final size:25
Alignment explanation
Indices: 729104--729185 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
729094 TATTTTTATT
729104 CATTTT-TTTGCTTTATT-TATTTTAA
1 CATTTTATTTGCTTT-TTATA-TTTAA
729129 CATTTTATTTGCTTTTCT-TATTT--
1 CATTTTATTTGCTTTT-TATATTTAA
* *
729152 TATTTTATTATTCTTTTTATATTTAA
1 CATTTTATT-TGCTTTTTATATTTAA
729178 CATTTTAT
1 CATTTTAT
729186 ATCTTAATCC
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 9 0.19
24 11 0.23
25 10 0.21
26 18 0.38
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (25 bp):
CATTTTATTTGCTTTTTATATTTAA
Found at i:732350 original size:37 final size:37
Alignment explanation
Indices: 732282--732385 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
732272 ATTTTCGTCA
* * * *
732282 TACTAGAATTTAAACTCCTAAAATTAAGATAGAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
* * *
732319 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
* *
732356 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
732386 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
Found at i:733117 original size:18 final size:19
Alignment explanation
Indices: 733091--733126 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
733081 TTTTTGGTTT
*
733091 TTTTTATATTA-TATTATA
1 TTTTCATATTACTATTATA
733109 TTTTCATATTACTATTAT
1 TTTTCATATTACTATTAT
733127 TATTGTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCATATTACTATTATA
Found at i:733219 original size:16 final size:16
Alignment explanation
Indices: 733200--733240 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
733190 CATTTATTTA
*
733200 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
733216 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
733231 TATT-TTTATT
1 T-TTATTTATT
733241 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:737709 original size:17 final size:17
Alignment explanation
Indices: 737680--737748 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
737670 TCCAATCAAG
*
737680 AACAAAA-AAGAAAAGA
1 AACAAAAGAAAAAAAGA
*
737696 AGCAAAAGAAGAAAAA-A
1 AACAAAAGAA-AAAAAGA
737713 AAC-AAAGAAAAAACAGA
1 AACAAAAGAAAAAA-AGA
*
737730 AACAAACGAAAAAAAGA
1 AACAAAAGAAAAAAAGA
737747 AA
1 AA
737749 GAACAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
15 4 0.09
16 13 0.30
17 14 0.32
18 13 0.30
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (17 bp):
AACAAAAGAAAAAAAGA
Found at i:737747 original size:26 final size:28
Alignment explanation
Indices: 737711--737762 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
737701 AAGAAGAAAA
*
737711 AAAACAAAGAAAAAACAGAAA-CAAACG
1 AAAACAAAGAAAAAACAAAAATCAAACG
*
737738 AAAA-AAAGAAAGAACAAAAATCAAA
1 AAAACAAAGAAAAAACAAAAATCAAA
737763 AAGAAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.77, C:0.12, G:0.10, T:0.02
Consensus pattern (28 bp):
AAAACAAAGAAAAAACAAAAATCAAACG
Found at i:739451 original size:106 final size:106
Alignment explanation
Indices: 739321--740376 Score: 1513
Period size: 106 Copynumber: 10.0 Consensus size: 106
739311 ATATCGTGCC
* * * * *
739321 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGTACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
739386 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
739427 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
739492 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
739533 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
739598 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
739639 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
739704 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
739745 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
739809 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
739850 ACTCAAGAAAACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTGTCAAC-AACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* **
739914 AATTTCAGAGCCAGTTTCAACTTCGTAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
739955 ACTCCAGACAACGCAAGTTCAATTTCACGACGAAGGGATCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
740020 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
740061 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCCATAGACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
740126 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTAGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT-GG
* * ** * * *
740168 AC-CAAGACAACACAAGCCCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AATTT--C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
740228 -A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
740267 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCC
** * *
740331 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
740373 ACTC
1 ACTC
740377 GGAACAATGC
Statistics
Matches: 855, Mismatches: 83, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
99 4 0.00
100 74 0.09
101 3 0.00
102 5 0.01
104 5 0.01
105 190 0.22
106 571 0.67
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:741133 original size:37 final size:37
Alignment explanation
Indices: 741075--741179 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
741065 CCTTTTCGTC
*
741075 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
741112 TTTCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
741149 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
741180 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:741965 original size:18 final size:19
Alignment explanation
Indices: 741939--741974 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
741929 GTTTTGGTTT
*
741939 TTTTTATATTA-TATTATA
1 TTTTCATATTACTATTATA
741957 TTTTCATATTACTATTAT
1 TTTTCATATTACTATTAT
741975 TATTGTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCATATTACTATTATA
Found at i:742065 original size:12 final size:13
Alignment explanation
Indices: 742044--742122 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 13
742034 ATATTTTTAA
742044 TATTTCATTTATT
1 TATTTCATTTATT
742057 TATTT-ATTTATT
1 TATTTCATTTATT
* *
742069 T-TTCCTTTTATT
1 TATTTCATTTATT
* *
742081 T-TTTTACTTATT
1 TATTTCATTTATT
* *
742093 TTTATTC-TTCATT
1 TAT-TTCATTTATT
742106 T-TTTCATTTATT
1 TATTTCATTTATT
*
742118 CATTT
1 TATTT
742123 TTTCCCTCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
11 5 0.10
12 29 0.58
13 14 0.28
14 2 0.04
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:742854 original size:60 final size:60
Alignment explanation
Indices: 742747--742860 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
742737 CCAGAAGATC
* * * * * * *
742747 ATTTTATAACTTTTAATGGTCGAGGAATTCAACAAAGTAAGACCATATAGTCATACAACT
1 ATTTTATAACTTTTAATAGTCGAGAAACTAAACAAAATAACACCATATAATCATACAACT
* * *
742807 ATTTTATAACTTTTAATAGTCGAGAAACTAAATAAAATATCATCATATAATCAT
1 ATTTTATAACTTTTAATAGTCGAGAAACTAAACAAAATAACACCATATAATCAT
742861 GGACCATTTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGAGAAACTAAACAAAATAACACCATATAATCATACAACT
Found at i:743091 original size:19 final size:19
Alignment explanation
Indices: 743054--743145 Score: 139
Period size: 19 Copynumber: 4.7 Consensus size: 19
743044 AACAAAAAAG
743054 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
743075 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
743094 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
743113 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
*
743133 TCGAATTCGCAAC
1 TCAAATTCGCAAC
743146 ACGAATTTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
19 41 0.60
20 17 0.25
21 10 0.15
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:744147 original size:24 final size:24
Alignment explanation
Indices: 744082--744149 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
744072 GTGAGTACTA
*
744082 GTCAGTACTCGAAATTTGATCTTG
1 GTCAATACTCGAAATTTGATCTTG
* * *
744106 GTCAATACCCGGACTTTGATCTTG
1 GTCAATACTCGAAATTTGATCTTG
*
744130 GTCAATACTCGAATTTTGAT
1 GTCAATACTCGAAATTTGAT
744150 GATGTTTCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (24 bp):
GTCAATACTCGAAATTTGATCTTG
Found at i:746186 original size:18 final size:18
Alignment explanation
Indices: 746163--746198 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
746153 AAGCAAAAGG
*
746163 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
746181 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
746199 CAACCGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:746465 original size:13 final size:15
Alignment explanation
Indices: 746444--746479 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
746434 GTCAAATTCG
746444 AAACGCG-AAATCGC
1 AAACGCGAAAATCGC
746458 AAAC-CGAAAATCGC
1 AAACGCGAAAATCGC
746472 -AACGCGAA
1 AAACGCGAA
746480 TTTGACTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.47, C:0.28, G:0.19, T:0.06
Consensus pattern (15 bp):
AAACGCGAAAATCGC
Found at i:746519 original size:20 final size:20
Alignment explanation
Indices: 746467--746511 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
746457 CAAACCGAAA
*
746467 ATCGCAACGCGAATTTGACT
1 ATCGCAAAGCGAATTTGACT
746487 ATCGCAAAGCGAATTTGACT
1 ATCGCAAAGCGAATTTGACT
*
746507 TTCGC
1 ATCGC
746512 GTTGCGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAAAGCGAATTTGACT
Found at i:748810 original size:18 final size:19
Alignment explanation
Indices: 748737--748809 Score: 85
Period size: 18 Copynumber: 3.7 Consensus size: 19
748727 ATATGCCTTA
**
748737 GGGTATCGGCACCATATGAG
1 GGGTATCGATACCATATG-G
748757 GGGTATCGATACCATTGCATGG
1 GGGTATCGATACCA-T--ATGG
748779 GGGTATCGATACC-TATGG
1 GGGTATCGATACCATATGG
748797 GGGTATCGATACC
1 GGGTATCGATACC
748810 TTTCGAGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
18 17 0.35
20 13 0.27
21 1 0.02
22 14 0.29
23 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (19 bp):
GGGTATCGATACCATATGG
Found at i:751010 original size:21 final size:20
Alignment explanation
Indices: 750944--751084 Score: 144
Period size: 21 Copynumber: 6.7 Consensus size: 20
750934 AACTCGAAGA
*
750944 GGGTATCGGTACC-A-TCAGG
1 GGGTATCGATACCTATTCA-G
*
750963 GGGTATCGATACCCATTCAAGG
1 GGGTATCGATACCTATTC-A-G
750985 GGGTATCGATACCTATTGCAG
1 GGGTATCGATACCTATT-CAG
751006 GGGTATCGATACCTATTGCAG
1 GGGTATCGATACCTATT-CAG
751027 GGGTATCGATACCTATTCAAAG
1 GGGTATCGATACCTATTC--AG
*
751049 GGGATATCGATACCATTATT-AA
1 GGG-TATCGATACC--TATTCAG
751071 GGGTATCGATACCT
1 GGGTATCGATACCT
751085 TATGCACAAA
Statistics
Matches: 110, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
19 13 0.12
20 2 0.02
21 51 0.46
22 29 0.26
23 11 0.10
25 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
GGGTATCGATACCTATTCAG
Found at i:751012 original size:43 final size:42
Alignment explanation
Indices: 750944--751084 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 42
750934 AACTCGAAGA
* *
750944 GGGTATCGGTACC-A-TCAGGGGGTATCGATACCCATT-CAAGG
1 GGGTATCGATACCTATTCAAGGGGTATCGATACCCATTGC-A-G
*
750985 GGGTATCGATACCTATTGC-AGGGGTATCGATACCTATTGCAG
1 GGGTATCGATACCTATT-CAAGGGGTATCGATACCCATTGCAG
** *
751027 GGGTATCGATACCTATTCAAAGGGGATATCGATA-CCATTATTAA
1 GGGTATCGATACCTATTC-AAGGGG-TATCGATACCCATT-GCAG
751071 GGGTATCGATACCT
1 GGGTATCGATACCT
751085 TATGCACAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
41 13 0.15
42 19 0.22
43 28 0.33
44 25 0.29
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (42 bp):
GGGTATCGATACCTATTCAAGGGGTATCGATACCCATTGCAG
Found at i:751060 original size:65 final size:63
Alignment explanation
Indices: 750962--751084 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 63
750952 GTACCATCAG
* *
750962 GGGGTATCGATACCCATTCAAGGGGGTATCGATACC-TATTGCAGGGGTATCGATACCTATTGCA
1 GGGGTATCGATACCCATTCAAGGGGATATCGATACCATATT--AAGGGTATCGATACCTATTGCA
*
751026 GGGGTATCGATACCTATTCAAAGGGGATATCGATACCATTATTAAGGGTATCGATACCT
1 GGGGTATCGATACCCATTC-AAGGGGATATCGATACCA-TATTAAGGGTATCGATACCT
751085 TATGCACAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
64 18 0.34
65 31 0.58
67 4 0.08
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (63 bp):
GGGGTATCGATACCCATTCAAGGGGATATCGATACCATATTAAGGGTATCGATACCTATTGCA
Found at i:751075 original size:44 final size:41
Alignment explanation
Indices: 750962--751084 Score: 142
Period size: 44 Copynumber: 2.9 Consensus size: 41
750952 GTACCATCAG
*
750962 GGGGTATCGATACCCATTCAAGGGGGTATCGATACCTATTGCA
1 GGGGTATCGATACCTATTCAA--GGGTATCGATACCTATTGCA
*
751005 GGGGTATCGATACCTATTGCAGGGGTATCGATACCTATT-CAAA
1 GGGGTATCGATACCTATT-CAAGGGTATCGATACCTATTGC--A
751048 GGGGATATCGATACCATTATT-AAGGGTATCGATACCT
1 GGGG-TATCGATACC--TATTCAAGGGTATCGATACCT
751085 TATGCACAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
41 1 0.01
42 17 0.24
43 22 0.31
44 27 0.38
46 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (41 bp):
GGGGTATCGATACCTATTCAAGGGTATCGATACCTATTGCA
Found at i:757073 original size:42 final size:42
Alignment explanation
Indices: 757006--757111 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
756996 TGTTTTCAAC
* * *
757006 AGGGACCTCTTGAACGATGACAGGGGCCTCTTGAATGGTGGG
1 AGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAATGATAGG
* *
757048 AGGGGCCTCTTGAACGATGAGAGGGGCTTCTTGAATGATAGG
1 AGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAATGATAGG
* *
757090 AGGTGCCTCTTGAATGATGACA
1 AGGGGCCTCTTGAACGATGACA
757112 TGTGCATCGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.24
Consensus pattern (42 bp):
AGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAATGATAGG
Found at i:757116 original size:21 final size:21
Alignment explanation
Indices: 757006--757109 Score: 120
Period size: 21 Copynumber: 5.0 Consensus size: 21
756996 TGTTTTCAAC
* * *
757006 AGGGACCTCTTGAACGATGAC
1 AGGGGCCTCTTGAATGATGAG
* *
757027 AGGGGCCTCTTGAATGGTGGG
1 AGGGGCCTCTTGAATGATGAG
*
757048 AGGGGCCTCTTGAACGATGAG
1 AGGGGCCTCTTGAATGATGAG
*
757069 AGGGGCTTCTTGAATGAT-AGG
1 AGGGGCCTCTTGAATGATGA-G
*
757090 AGGTGCCTCTTGAATGATGA
1 AGGGGCCTCTTGAATGATGA
757110 CATGTGCATC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.01
21 67 0.97
22 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.24
Consensus pattern (21 bp):
AGGGGCCTCTTGAATGATGAG
Found at i:757285 original size:4 final size:4
Alignment explanation
Indices: 757253--757298 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
757243 AGGCTACTGA
* * * *
757253 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
757299 TGTCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:757477 original size:63 final size:62
Alignment explanation
Indices: 757410--757529 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 62
757400 TAGAGCGGCT
* * *
757410 ACCTCATCACGTAAAGTA-GATACCTCACCACGTAGCGTACCATTGTCATCGCGTAAAACATCC
1 ACCTCACCACGTAAA-TACG-TACCTCACCACGTAGCGCACCATTGTCATCACGTAAAACATCC
* *
757473 ACCTCACCACGTAAATACCGTACCTCATCACGTAGCGCACCATTGTCTTCACGTAAA
1 ACCTCACCACGTAAATA-CGTACCTCACCACGTAGCGCACCATTGTCATCACGTAAA
757530 GTACCGACCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 2 0.04
63 47 0.94
64 1 0.02
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (62 bp):
ACCTCACCACGTAAATACGTACCTCACCACGTAGCGCACCATTGTCATCACGTAAAACATCC
Found at i:759253 original size:20 final size:20
Alignment explanation
Indices: 759230--759282 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
759220 AAACTTAAAT
*
759230 TCGCAATGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
759250 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
759270 TCGCAACGCGAAA
1 TCGCAACGCGAAA
759283 CTAAATTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:759690 original size:22 final size:22
Alignment explanation
Indices: 759662--759712 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
759652 GATGGAGATA
*
759662 GACGGATT-TCGTTGGAGATGGG
1 GACGGATTAT-GTCGGAGATGGG
*
759684 GACGGATTATGTCGGTGATGGG
1 GACGGATTATGTCGGAGATGGG
759706 GACGGAT
1 GACGGAT
759713 GTTGCCGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.20, C:0.10, G:0.45, T:0.25
Consensus pattern (22 bp):
GACGGATTATGTCGGAGATGGG
Found at i:759826 original size:14 final size:14
Alignment explanation
Indices: 759807--759838 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
759797 TTTGTGTTGA
759807 GAAATTAATATTGC
1 GAAATTAATATTGC
759821 GAAATTAATATTGC
1 GAAATTAATATTGC
759835 GAAA
1 GAAA
759839 ATAAACGCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (14 bp):
GAAATTAATATTGC
Found at i:759926 original size:20 final size:20
Alignment explanation
Indices: 759894--759952 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
759884 ACGATTTACA
*
759894 AATTCGCGTTGCGAATTTGG
1 AATTCGAGTTGCGAATTTGG
*
759914 AAATT-GAGTTGCGAAATTGG
1 -AATTCGAGTTGCGAATTTGG
* *
759934 AGTTCGCGTTGCGAATTTG
1 AATTCGAGTTGCGAATTTG
759953 TTGGTCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.09
20 25 0.78
21 4 0.12
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.34
Consensus pattern (20 bp):
AATTCGAGTTGCGAATTTGG
Found at i:786967 original size:42 final size:41
Alignment explanation
Indices: 786910--786989 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 41
786900 TTTCCAACTA
*
786910 AAAATATTACCTTTTTACCTATTTTGTTATGATATATGGTT
1 AAAATATTACCTTTTTACATATTTTGTTATGATATATGGTT
786951 AAAATATTATCCTTTTTACATATTTTGTTATGATATATG
1 AAAATATTA-CCTTTTTACATATTTTGTTATGATATATG
786990 TAACGTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 9 0.24
42 28 0.76
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (41 bp):
AAAATATTACCTTTTTACATATTTTGTTATGATATATGGTT
Found at i:787464 original size:17 final size:18
Alignment explanation
Indices: 787431--787464 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
787421 CCGCTACTGG
787431 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
787449 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
787465 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:789261 original size:30 final size:31
Alignment explanation
Indices: 789213--789397 Score: 295
Period size: 31 Copynumber: 6.0 Consensus size: 31
789203 CCCGAAGGAC
* * *
789213 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
789244 CAGTCCATATGT-CCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
789274 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
789305 TAGTCCATA-GTCCCGAAGAAGATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
789335 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
789366 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
789397 C
1 C
789398 CCTCGACCCT
Statistics
Matches: 145, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
30 56 0.39
31 88 0.61
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:789310 original size:61 final size:62
Alignment explanation
Indices: 789213--789397 Score: 288
Period size: 61 Copynumber: 3.0 Consensus size: 62
789203 CCCGAAGGAC
* *
789213 CAGTCCATA-GATTCCGAAGAACCTAGGT-AATCAGTCCATATGT-CCGAAGAACATAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAAT-AGTCCATATGTCCCGAAGAACATAGGTAAA
*
789274 CAGTCCATATGTCCCGAAGAACATAGGTAAATAGTCCATA-GTCCCGAAGAAGATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAATAGTCCATATGTCCCGAAGAACATAGGTAAA
*
789335 CAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAATAGTCCATATGTCCCGAAGAACATAGGTAAA
789397 C
1 C
789398 CCTCGACCCT
Statistics
Matches: 115, Mismatches: 5, Indels: 7
0.91 0.04 0.06
Matches are distributed among these distances:
60 2 0.02
61 88 0.77
62 25 0.22
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (62 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAATAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:789371 original size:92 final size:92
Alignment explanation
Indices: 789214--789396 Score: 314
Period size: 92 Copynumber: 2.0 Consensus size: 92
789204 CCGAAGGACC
* * *
789214 AGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCATATGTCCGAAGAACATAGGTAAACAGTC
1 AGTCCATAGATCCCGAAGAACATAGGTAAACAGTCCATATGTCCGAAGAACATAGGTAAACAGTC
789279 CATATGTCCCGAAGAACATAGGTAAAT
66 CATATGTCCCGAAGAACATAGGTAAAT
*
789306 AGTCCATAG-TCCCGAAGAAGATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGT
1 AGTCCATAGATCCCGAAGAACATAGGTAAACAGTCCATATGT-CCGAAGAACATAGGTAAACAGT
789370 CCATATGTCCCGAAGAACATAGGTAAA
65 CCATATGTCCCGAAGAACATAGGTAAA
789397 CCCTCGACCC
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
91 28 0.33
92 58 0.67
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (92 bp):
AGTCCATAGATCCCGAAGAACATAGGTAAACAGTCCATATGTCCGAAGAACATAGGTAAACAGTC
CATATGTCCCGAAGAACATAGGTAAAT
Found at i:790404 original size:18 final size:18
Alignment explanation
Indices: 790348--790415 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
790338 ATTATTTAGG
790348 GGGGAATC-GATACCCCCA
1 GGGGAATCTG-TACCCCCA
* *
790366 GGGAAATCTGT--TCCC-
1 GGGGAATCTGTACCCCCA
790381 GGGGAATC-GATACCCCCA
1 GGGGAATCTG-TACCCCCA
790399 GGGGAATCTGTACCCCC
1 GGGGAATCTGTACCCCC
790416 TGGACATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
14 1 0.03
15 8 0.20
16 3 0.08
17 3 0.08
18 23 0.57
19 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (18 bp):
GGGGAATCTGTACCCCCA
Found at i:793386 original size:16 final size:16
Alignment explanation
Indices: 793365--793395 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
793355 TCTAATTTTT
793365 TTTTTGAGTTCAAGTA
1 TTTTTGAGTTCAAGTA
793381 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
793396 TTCAATACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTA
Found at i:793592 original size:11 final size:11
Alignment explanation
Indices: 793578--793619 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
793568 AAAACAAAAA
793578 TCCCGGTTTTT
1 TCCCGGTTTTT
*
793589 TCCCCAG-TTTT
1 T-CCCGGTTTTT
793600 TCCCGGTTTTT
1 TCCCGGTTTTT
793611 T-CCGGTTTT
1 TCCCGGTTTT
793620 CAGCCGGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 12 0.44
11 11 0.41
12 4 0.15
ACGTcount: A:0.02, C:0.29, G:0.17, T:0.52
Consensus pattern (11 bp):
TCCCGGTTTTT
Found at i:793811 original size:19 final size:19
Alignment explanation
Indices: 793787--793827 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
793777 CCTTGCACAT
793787 GGCGCCTTAGGTACACTTA
1 GGCGCCTTAGGTACACTTA
*
793806 GGCGCCTTAGGTACGCTTA
1 GGCGCCTTAGGTACACTTA
793825 GGC
1 GGC
793828 ACGTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (19 bp):
GGCGCCTTAGGTACACTTA
Found at i:798328 original size:94 final size:93
Alignment explanation
Indices: 798157--798345 Score: 236
Period size: 94 Copynumber: 2.0 Consensus size: 93
798147 GGTTTTAATG
* * **
798157 TAGTCTTACAATGTAGTTATTACAACCACGTATAAAAAATTAAAGTAAAACCAACATGTACATCA
1 TAGTCTTACAATATAGTTATAACAACCAAATATAAAAAATTAAAGTAAAACCAACATGTACATCA
* *
798222 TGCACGTGAAATGATAATATTAAAATATT
66 TACACGTCAAATGATAATATT-AAATATT
* * * **
798251 TAGTCTTGCAATATAGTTATAACAACCAAATATAAAATAATTGAAGT-AAATCAACATGTGGATC
1 TAGTCTTACAATATAGTTATAACAACCAAATATAAAA-AATTAAAGTAAAACCAACATGTACATC
* *
798315 GTACATGTCAAATGATAATATTAAATATT
65 ATACACGTCAAATGATAATATTAAATATT
798344 TA
1 TA
798346 CAGTAAAATT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
93 9 0.11
94 64 0.79
95 8 0.10
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (93 bp):
TAGTCTTACAATATAGTTATAACAACCAAATATAAAAAATTAAAGTAAAACCAACATGTACATCA
TACACGTCAAATGATAATATTAAATATT
Found at i:803952 original size:13 final size:13
Alignment explanation
Indices: 803934--803958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
803924 TAAATGTTTT
803934 TAAGAATTATCTA
1 TAAGAATTATCTA
803947 TAAGAATTATCT
1 TAAGAATTATCT
803959 CTTATTTTTA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TAAGAATTATCTA
Found at i:804322 original size:70 final size:70
Alignment explanation
Indices: 804209--804341 Score: 248
Period size: 70 Copynumber: 1.9 Consensus size: 70
804199 AAGAGAATAG
*
804209 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACTTAGAAGAGCATCCCAAAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
804274 GTCTA
66 GTCTA
*
804279 AAGAGTAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
804342 CCGACTTCTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (70 bp):
AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
GTCTA
Found at i:805577 original size:22 final size:21
Alignment explanation
Indices: 805546--805599 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
805536 TATCAATCAC
805546 TTTCAATTTATTTAATTAATTAT
1 TTTC-ATTTATTTAATT-ATTAT
*
805569 TTTCATTTATTTAATTCTTAT
1 TTTCATTTATTTAATTATTAT
805590 TTT--TTTATTT
1 TTTCATTTATTT
805600 TAAAAATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 7 0.23
21 7 0.23
22 12 0.40
23 4 0.13
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTCATTTATTTAATTATTAT
Done.