Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008925.1 Hibiscus syriacus cultivar Beakdansim tig00112230_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: 2702387
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:787606 original size:6 final size:6
Alignment explanation
Indices: 787582--787679 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
787572 ATCAGTCGCA
* * * * * *
787582 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
787630 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
787678 GA
1 GA
787680 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:787617 original size:3 final size:3
Alignment explanation
Indices: 787597--787683 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
787587 TGAAGCTGAC
* * * * * ** *
787597 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
787645 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
787684 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:787632 original size:42 final size:42
Alignment explanation
Indices: 787585--787675 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
787575 AGTCGCAGAA
*
787585 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
787627 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
787669 GATGAAG
1 GATGAAG
787676 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:787683 original size:18 final size:18
Alignment explanation
Indices: 787582--787679 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
787572 ATCAGTCGCA
* *
787582 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
787600 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
787618 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
787636 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
787654 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
787672 GAAGATGA
1 GAAGATGA
787680 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:789647 original size:184 final size:184
Alignment explanation
Indices: 789152--790005 Score: 1586
Period size: 184 Copynumber: 4.7 Consensus size: 184
789142 CTTTCAACAT
**
789152 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
789217 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
789282 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * * *
789336 A-T-TAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
789399 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
789464 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
789518 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTATTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
789583 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
789648 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
789702 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
789767 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
789832 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * *
789886 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
789951 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
790006 CCATTTAAAA
Statistics
Matches: 651, Mismatches: 17, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
182 174 0.27
183 2 0.00
184 475 0.73
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:792327 original size:45 final size:44
Alignment explanation
Indices: 792270--792420 Score: 137
Period size: 45 Copynumber: 3.4 Consensus size: 44
792260 GCACCAATAC
*
792270 ATGCATCAATGCAC-CA-TTGAATAAATTGAACATCGAATGCATTTT
1 ATGCATCGATGCACTCAGTTGAATAAA---AACATCGAATGCATTTT
** *
792315 ATGCATCGATGCACTCAGGTTTTATGAAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCA-GTTGAATAAAAACATCGAATGCATTTT
* ** * *
792360 ATGCATCGATGCACTCGGTCTTG-ATTGAAACATCGAATGCACTTC
1 ATGCATCGATGCACTCAG--TTGAATAAAAACATCGAATGCATTTT
*
792405 ATGCATCGACGCACTC
1 ATGCATCGATGCACTC
792421 TTAGTGCACC
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 79 0.88
46 4 0.04
48 6 0.07
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
ATGCATCGATGCACTCAGTTGAATAAAAACATCGAATGCATTTT
Found at i:794498 original size:2 final size:2
Alignment explanation
Indices: 794447--794485 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
794437 TTTAAAAAAC
794447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
794486 TCAAAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:794604 original size:2 final size:2
Alignment explanation
Indices: 794599--794639 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
794589 TTGAAATTAT
794599 TA TA TA TA TA TA TA TA TA TA TA T- TA TCA TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA -TA TA TA
794640 ATGTAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 31 0.86
3 4 0.11
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:799531 original size:17 final size:17
Alignment explanation
Indices: 799511--799543 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
799501 TTGGTTTGCA
799511 TACTGGTTTGATTTGTT
1 TACTGGTTTGATTTGTT
799528 TACTGGTTTGATTTGT
1 TACTGGTTTGATTTGT
799544 AGTTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.58
Consensus pattern (17 bp):
TACTGGTTTGATTTGTT
Found at i:817977 original size:18 final size:18
Alignment explanation
Indices: 817954--818001 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
817944 GTAATCAATT
*
817954 AGTATCGATACTGATGAG
1 AGTATCGATACTGACGAG
817972 AGTATCGATACTGACGAG
1 AGTATCGATACTGACGAG
817990 AGTATCGATACT
1 AGTATCGATACT
818002 AAGAAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (18 bp):
AGTATCGATACTGACGAG
Found at i:818111 original size:95 final size:95
Alignment explanation
Indices: 817998--818185 Score: 227
Period size: 95 Copynumber: 2.0 Consensus size: 95
817988 AGAGTATCGA
* * *
817998 TACTAAGAAAAAGGTATCGATACCTTGGAATT-CAGAATG-TAGAAATGATATCGATACTAAAAG
1 TACTAAGAAAAAGGTATCGATACCAT-GAATTACAGAATGCCA-AAAAGATATCGATACTAAAAG
* * *
818061 GGAGTGTCGGTACCATATTATAGAAATATCAG
64 GGAGTATCGATACCATAGTATAGAAATATCAG
* * * * * *
818093 TACTAGGAGAAAGGTATCGATACCATGTATTACAGAATGCCAAAAAGGTATTGATACTGAAAGGG
1 TACTAAGAAAAAGGTATCGATACCATGAATTACAGAATGCCAAAAAGATATCGATACTAAAAGGG
*
818158 AGTATCGATACCATAGTATAGAAGTATC
66 AGTATCGATACCATAGTATAGAAATATC
818186 GATACCATGG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 4 0.05
95 73 0.94
96 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (95 bp):
TACTAAGAAAAAGGTATCGATACCATGAATTACAGAATGCCAAAAAGATATCGATACTAAAAGGG
AGTATCGATACCATAGTATAGAAATATCAG
Found at i:818730 original size:81 final size:81
Alignment explanation
Indices: 818590--819004 Score: 596
Period size: 81 Copynumber: 5.1 Consensus size: 81
818580 GTTCTTAAAA
**
818590 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGTTAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
**
818655 GCTAAATGTTTTTGAG
66 GCTAAATGCCTTTGAG
* * * * *
818671 GAAATGATTAATTGCCTAGTTGTGCACTTGGCAGAAAGGTGTCAATATTGTAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
818736 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
*** * * *
818752 TAAAAGATTAATTATTTAGTTGTGTATTTGGAAGAAATGTGCCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
818817 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * * * * *
818833 TAAATGATTAAATGCCTAGCTGTGCATTTGGCATAAAGGTGACACTATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
*
818898 GCTAAATACCTTTGAG
66 GCTAAATGCCTTTGAG
* *
818914 TAAAAGATTAATTGTCTAGATGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
*
818979 GCTAAATGCCTTTGAA
66 GCTAAATGCCTTTGAG
*
818995 TAAAACATTA
1 TAAAAGATTA
819005 GATGCTTAAC
Statistics
Matches: 293, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 293 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:825175 original size:12 final size:12
Alignment explanation
Indices: 825158--825184 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
825148 TGCTTCTTCC
825158 TCCAATACTAAT
1 TCCAATACTAAT
825170 TCCAATACTAAT
1 TCCAATACTAAT
825182 TCC
1 TCC
825185 TTGGAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (12 bp):
TCCAATACTAAT
Found at i:837148 original size:95 final size:95
Alignment explanation
Indices: 837037--837219 Score: 251
Period size: 95 Copynumber: 1.9 Consensus size: 95
837027 ACAATATCAA
** * ** *
837037 TACTAAGAGAAAGGTATCGATACTTTGGAATT-TAGAATGTAGAAATGATATCGATAGTGAAAGG
1 TACTAAGAGAAAGGTATCGATACCATGG-ATTACAGAATACAGAAATGATATCGATACTGAAAGG
*
837101 GAGTATCGGTACCATAGTATAGAAGTATCGG
65 GAGTATCGATACCATAGTATAGAAGTATCGG
* * * *
837132 TACTAGGAGAAAGGTATCGATACCATGGATTACAGGATACCGAAATGGTATCGATACTGAAAGGG
1 TACTAAGAGAAAGGTATCGATACCATGGATTACAGAATACAGAAATGATATCGATACTGAAAGGG
837197 AGTATCGATACCATAGTATAGAA
66 AGTATCGATACCATAGTATAGAA
837220 TTATTGATAC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
94 3 0.04
95 73 0.96
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (95 bp):
TACTAAGAGAAAGGTATCGATACCATGGATTACAGAATACAGAAATGATATCGATACTGAAAGGG
AGTATCGATACCATAGTATAGAAGTATCGG
Found at i:837187 original size:17 final size:19
Alignment explanation
Indices: 837167--837208 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
837157 TGGATTACAG
*
837167 GATACCGAAA-TG-GTATC
1 GATACCGAAAGGGAGTATC
*
837184 GATACTGAAAGGGAGTATC
1 GATACCGAAAGGGAGTATC
837203 GATACC
1 GATACC
837209 ATAGTATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 10 0.50
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (19 bp):
GATACCGAAAGGGAGTATC
Found at i:837783 original size:81 final size:81
Alignment explanation
Indices: 837648--837903 Score: 422
Period size: 81 Copynumber: 3.2 Consensus size: 81
837638 GTTCTTAAAA
* * *
837648 TAAAAGATTAATTACCTAGTTGTGCATTTGGAAAAAAGGTGACAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGACAATATTGCAAGTTAGATGAAAG
837713 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* *
837729 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATTAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGACAATATTGCAAGTTAGATGAAAG
837794 GCTAAATGCCTTTGAG
66 GCTAAATGCCTTTGAG
* * *
837810 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATATTACAAGTTAGATGAAAT
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGACAATATTGCAAGTTAGATGAAAG
* *
837875 GATAAATGTCTTTGAG
66 GCTAAATGCCTTTGAG
837891 TAAAAGATTAATT
1 TAAAAGATTAATT
837904 ATCTAGCTAT
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 164 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGACAATATTGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:837951 original size:63 final size:63
Alignment explanation
Indices: 837852--837972 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
837842 AGAAAGGTGT
* *
837852 CAATATTACAAGTTAGATGAAATGATAAATGTCTTTGAGTAAAAGATTAATTATCTAGCTATG
1 CAATATTACAAGTTAGATGAAAGGATAAATGCCTTTGAGTAAAAGATTAATTATCTAGCTATG
* * *
837915 CAATATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGTCTAG
1 CAATATTACAAGTTAGATGAAAGGATAAATGCCTTTGAGTAAAAGATTAATTATCTAG
837973 TTGTACATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (63 bp):
CAATATTACAAGTTAGATGAAAGGATAAATGCCTTTGAGTAAAAGATTAATTATCTAGCTATG
Found at i:838074 original size:74 final size:74
Alignment explanation
Indices: 837915--838172 Score: 263
Period size: 81 Copynumber: 3.3 Consensus size: 74
837905 TCTAGCTATG
*
837915 CAATATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGTCTAG-TTGTAC
1 CAATATTGCAAGTTAGATGAAAGGC---AT-AC-TTGAGTAAAAGATTAATTG-CTAGCTTG-A-
*
837979 ATTTGGAA-AAAATGTGT
58 ATTTGGAAGAAAA-GTGC
837996 CAATATTGCAAGTTAGATGAAAGGC-TA-TTGAGTAAAAGATTAATTAGCTAGCTATGAATTTGG
1 CAATATTGCAAGTTAGATGAAAGGCATACTTGAGTAAAAGATTAATT-GCTAGCT-TGAATTTGG
838059 AAGAAAAGTGC
64 AAGAAAAGTGC
* * *
838070 CAATATTTCAAGTTAGATGAAAGGCTAAATACCTCTGAGTAAAAGATTAATTCCCTAGCTGTGCA
1 CAATATTGCAAGTTAGATGAAAGGC---ATA-CT-TGAGTAAAAGATTAATT-GCTAGCT-TGAA
* *
838135 TTTGGCAGAAAGGTGC
59 TTTGGAAGAAAAGTGC
838151 CAATATTGCAAGTTAGATGAAA
1 CAATATTGCAAGTTAGATGAAA
838173 AGTTAAATGC
Statistics
Matches: 156, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
74 57 0.37
75 7 0.04
76 2 0.01
77 1 0.01
78 2 0.01
80 1 0.01
81 86 0.55
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (74 bp):
CAATATTGCAAGTTAGATGAAAGGCATACTTGAGTAAAAGATTAATTGCTAGCTTGAATTTGGAA
GAAAAGTGC
Found at i:838163 original size:81 final size:81
Alignment explanation
Indices: 838024--838200 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 81
838014 GAAAGGCTAT
* *
838024 TGAGTAAAAGATTAATTAGCTAGCTATGAATTTGGAAGAAAAGTGCCAATATTTCAAGTTAGATG
1 TGAGTAAAAGATTAATTACCTAGCTATGAATTTGGAAGAAAAGTGCCAATATTGCAAGTTAGATG
*
838089 AAAGGCTAAATACCTC
66 AAAAGCTAAATACCTC
* * * * *
838105 TGAGTAAAAGATTAATTCCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATATTGCAAGTTAGATG
1 TGAGTAAAAGATTAATTACCTAGCTATGAATTTGGAAGAAAAGTGCCAATATTGCAAGTTAGATG
* * *
838170 AAAAGTTAAATGCCTT
66 AAAAGCTAAATACCTC
*
838186 TGAGTAAAATATTAA
1 TGAGTAAAAGATTAA
838201 ATGCTTAACA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (81 bp):
TGAGTAAAAGATTAATTACCTAGCTATGAATTTGGAAGAAAAGTGCCAATATTGCAAGTTAGATG
AAAAGCTAAATACCTC
Found at i:838193 original size:299 final size:301
Alignment explanation
Indices: 837648--838200 Score: 833
Period size: 299 Copynumber: 1.8 Consensus size: 301
837638 GTTCTTAAAA
*
837648 TAAAAGATTAATTACCTAGTTGTGCATTTGGAAAAAAGGTGACAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTACCTAGTTGTACATTTGGAAAAAAGGTGACAATATTGCAAGTTAGATGAAAG
* * * * *
837713 GCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATATT
66 GCT-AA---C-TTGAGTAAAAGATTAATTGCCTAGCTATGAATTTGGAAGAAAAGTGCCAATATT
* * * * *
837778 GCAAGTTAGATTAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGTTGTGCATTTGGCA
126 GCAAGTTAGATGAAAGGCTAAATACCTCTGAGTAAAAGATTAATTCCCTAGCTGTGCATTTGGCA
* * *
837843 GAAAGGTGTCAATATTACAAGTTAGATGAAATGATAAATGTCTTTGAGTAAAAGATTAATTATCT
191 GAAAGGTGCCAATATTACAAGTTAGATGAAAAGATAAATGCCTTTGAGTAAAAGATTAATTATCT
837908 AGCTATGCAATATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGAG
256 AGCTATGCAATATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGAG
** * *
837954 TAAAAGATTAATTGTCTAGTTGTACATTTGGAAAAAATGTGTCAATATTGCAAGTTAGATGAAAG
1 TAAAAGATTAATTACCTAGTTGTACATTTGGAAAAAAGGTGACAATATTGCAAGTTAGATGAAAG
*
838019 GCT-A-TTGAGTAAAAGATTAATTAG-CTAGCTATGAATTTGGAAGAAAAGTGCCAATATTTCAA
66 GCTAACTTGAGTAAAAGATTAATT-GCCTAGCTATGAATTTGGAAGAAAAGTGCCAATATTGCAA
838081 GTTAGATGAAAGGCTAAATACCTCTGAGTAAAAGATTAATTCCCTAGCTGTGCATTTGGCAGAAA
130 GTTAGATGAAAGGCTAAATACCTCTGAGTAAAAGATTAATTCCCTAGCTGTGCATTTGGCAGAAA
* * *
838146 GGTGCCAATATTGCAAGTTAGATGAAAAGTTAAATGCCTTTGAGTAAAATATTAA
195 GGTGCCAATATTACAAGTTAGATGAAAAGATAAATGCCTTTGAGTAAAAGATTAA
838201 ATGCTTAACA
Statistics
Matches: 224, Mismatches: 22, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
299 159 0.71
300 1 0.00
304 1 0.00
306 63 0.28
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (301 bp):
TAAAAGATTAATTACCTAGTTGTACATTTGGAAAAAAGGTGACAATATTGCAAGTTAGATGAAAG
GCTAACTTGAGTAAAAGATTAATTGCCTAGCTATGAATTTGGAAGAAAAGTGCCAATATTGCAAG
TTAGATGAAAGGCTAAATACCTCTGAGTAAAAGATTAATTCCCTAGCTGTGCATTTGGCAGAAAG
GTGCCAATATTACAAGTTAGATGAAAAGATAAATGCCTTTGAGTAAAAGATTAATTATCTAGCTA
TGCAATATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGAG
Found at i:839907 original size:14 final size:14
Alignment explanation
Indices: 839888--839915 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
839878 AAAATAAAAT
839888 TTAAATTAAATTAA
1 TTAAATTAAATTAA
839902 TTAAATTAAATTAA
1 TTAAATTAAATTAA
839916 CAAAAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAATTAAATTAA
Found at i:841219 original size:2 final size:2
Alignment explanation
Indices: 841214--841239 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
841204 TATAAAAAAC
841214 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
841240 CTTTCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:841364 original size:14 final size:14
Alignment explanation
Indices: 841345--841371 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
841335 CTATATATTA
841345 TATGTTTTCAAAAT
1 TATGTTTTCAAAAT
841359 TATGTTTTCAAAA
1 TATGTTTTCAAAA
841372 ACTATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TATGTTTTCAAAAT
Found at i:841372 original size:38 final size:38
Alignment explanation
Indices: 841226--841474 Score: 173
Period size: 38 Copynumber: 6.7 Consensus size: 38
841216 TATATATATA
**
841226 TATATATATATATACTTTC-AAA-TATGTTTTCAAAAAC
1 TATATAT-TATATGTTTTCAAAATTATGTTTTCAAAAAC
** *
841263 --TATATTATATG-TTTCAAAAACACCGTTTT-AAAAAC
1 TATATATTATATGTTTTCAAAATTA-TGTTTTCAAAAAC
* * * *
841298 --TATATTATATGTTTTTAAAAATCATTTTTTTAAAAAAC
1 TATATATTATATG-TTTTCAAAATTA-TGTTTTCAAAAAC
841336 TATATATTATATGTTTTCAAAATTATGTTTTCAAAAAC
1 TATATATTATATGTTTTCAAAATTATGTTTTCAAAAAC
** ** *
841374 TATAT-TATATATGTTTTCAAAAAACCAT-TTTAAAAAAAT
1 TATATAT-TATATGTTTTC--AAAATTATGTTTTCAAAAAC
* * *
841413 TATATATTATATATTTTCAAAAATATTTTTTCAAAAAC
1 TATATATTATATGTTTTCAAAATTATGTTTTCAAAAAC
*
841451 TATACTA-TATAT-TTTT-GAAATTAT
1 TATA-TATTATATGTTTTCAAAATTAT
841475 TATATATATT
Statistics
Matches: 173, Mismatches: 25, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
33 4 0.02
34 8 0.05
35 23 0.13
36 11 0.06
37 24 0.14
38 50 0.29
39 35 0.20
40 18 0.10
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAATTATGTTTTCAAAAAC
Found at i:841433 original size:77 final size:76
Alignment explanation
Indices: 841263--841466 Score: 238
Period size: 77 Copynumber: 2.7 Consensus size: 76
841253 TTTCAAAAAC
* * * * *
841263 TATATTATAT-GTTTCAAAAACACCGTTTT-AAAAACTATAT-TATATGTTTTTAAAAATCATTT
1 TATATTATATATTTTCAAAAATA-TGTTTTCAAAAACTATATATATATGTTTTAAAAAACCA-TT
*
841325 TTTTAAAAAACTA
64 TTTAAAAAAACTA
* *
841338 TATATTATATGTTTTCAAAATTATGTTTTCAAAAACTATATTATATATGTTTTCAAAAAACCA-T
1 TATATTATATATTTTCAAAAATATGTTTTCAAAAACTATA-TATATATGTTTT-AAAAAACCATT
*
841402 TTTAAAAAAATTA
64 TTTAAAAAAACTA
*
841415 TATATTATATATTTTCAAAAATATTTTTTCAAAAACTATACTATATAT-TTTT
1 TATATTATATATTTTCAAAAATATGTTTTCAAAAACTATA-TATATATGTTTT
841467 GAAATTATTA
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
75 15 0.13
76 23 0.21
77 57 0.51
78 10 0.09
79 7 0.06
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (76 bp):
TATATTATATATTTTCAAAAATATGTTTTCAAAAACTATATATATATGTTTTAAAAAACCATTTT
TAAAAAAACTA
Found at i:841443 original size:14 final size:14
Alignment explanation
Indices: 841421--841454 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
841411 ATTATATATT
841421 ATATATTTTCAAAA
1 ATATATTTTCAAAA
*
841435 ATATTTTTTCAAAA
1 ATATATTTTCAAAA
841449 ACTATA
1 A-TATA
841455 CTATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:842086 original size:50 final size:50
Alignment explanation
Indices: 842032--842158 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
842022 GATAAAATTT
** * *
842032 AATAAAATTTATATTTTATTAGAACTCGTCATCTCGATGTGACGAGTTTG
1 AATAAAAAATATATTTTATTAGAACTCGTCATCTCAACGTGACGAGTTTG
* * * *
842082 AATAAAAAATATTTTTTTTTGGAACTCGTTATCTCAACGTGACGAGTTTG
1 AATAAAAAATATATTTTATTAGAACTCGTCATCTCAACGTGACGAGTTTG
* * *
842132 GATAAAAAA-ACATTTTTATTAAAACTC
1 AATAAAAAATATA-TTTTATTAGAACTC
842159 TTCACCTCGA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.02
50 61 0.98
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (50 bp):
AATAAAAAATATATTTTATTAGAACTCGTCATCTCAACGTGACGAGTTTG
Found at i:849699 original size:21 final size:21
Alignment explanation
Indices: 849675--849722 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
849665 CCTTCAGGAT
849675 ATATATGTAATCCTTTGGAAC
1 ATATATGTAATCCTTTGGAAC
** *
849696 ATATATGTGGTTCTTTGGAAC
1 ATATATGTAATCCTTTGGAAC
*
849717 ACATAT
1 ATATAT
849723 TTGGTCATTT
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:0.12, G:0.17, T:0.40
Consensus pattern (21 bp):
ATATATGTAATCCTTTGGAAC
Found at i:849733 original size:21 final size:21
Alignment explanation
Indices: 849687--849727 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
849677 ATATGTAATC
*
849687 CTTTGGAACATATATGTGGTT
1 CTTTGGAACACATATGTGGTT
*
849708 CTTTGGAACACATATTTGGT
1 CTTTGGAACACATATGTGGT
849728 CATTTGTGAT
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:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (21 bp):
CTTTGGAACACATATGTGGTT
Found at i:849810 original size:21 final size:20
Alignment explanation
Indices: 849757--849810 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
849747 AACTTAAGGA
* *
849757 GTGGTTCTTCGGGATATCTAT
1 GTGG-TCTTCGGGACATATAT
*
849778 GTGGTATTCGGGACATATAT
1 GTGGTCTTCGGGACATATAT
849798 GTGGTCCTTCGGG
1 GTGGT-CTTCGGG
849811 TCATTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (20 bp):
GTGGTCTTCGGGACATATAT
Found at i:850742 original size:18 final size:18
Alignment explanation
Indices: 850664--850749 Score: 72
Period size: 18 Copynumber: 4.9 Consensus size: 18
850654 ATTAATTTGT
*
850664 TTCTGATAACTGTAAAAC
1 TTCTGATAACTGTAAATC
* *
850682 ATCTAATAACTGT-AATC
1 TTCTGATAACTGTAAATC
* *
850699 ATT-TGATATA-TGTATATA
1 -TTCTGATA-ACTGTAAATC
*
850717 GT-TGATAACTGTAAATC
1 TTCTGATAACTGTAAATC
850734 TTCTGATAACTGTAAA
1 TTCTGATAACTGTAAA
850750 CATTTAGAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
16 1 0.02
17 23 0.44
18 28 0.54
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
TTCTGATAACTGTAAATC
Found at i:856182 original size:12 final size:12
Alignment explanation
Indices: 856149--856187 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
856139 TTTTAATATT
856149 TATCGGGCCGGG
1 TATCGGGCCGGG
**
856161 TATCAAGCCGGG
1 TATCGGGCCGGG
*
856173 TATCGGGCCGAG
1 TATCGGGCCGGG
856185 TAT
1 TAT
856188 TCTGGTAATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.38, T:0.21
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:856312 original size:29 final size:24
Alignment explanation
Indices: 856257--856317 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
856247 TTTCCTCGTC
856257 CCCGTCCCGTTTATCATCCCCGAA
1 CCCGTCCCGTTTATCATCCCCGAA
*
856281 CCCGTCCCGTTTATCATCTCCGAA
1 CCCGTCCCGTTTATCATCCCCGAA
*
856305 CCCGACCCGTTTA
1 CCCGTCCCGTTTA
856318 ATTCGGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.16, C:0.44, G:0.13, T:0.26
Consensus pattern (24 bp):
CCCGTCCCGTTTATCATCCCCGAA
Found at i:857697 original size:18 final size:18
Alignment explanation
Indices: 857674--857723 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
857664 AGAATGTTTA
*
857674 TGAAGGAATTGGAATCTG
1 TGAAGGAATTAGAATCTG
*
857692 TGAAGGAATTAGAATATG
1 TGAAGGAATTAGAATCTG
857710 T--AGGAATTAGAATC
1 TGAAGGAATTAGAATC
857724 CAATTCCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 12 0.41
18 17 0.59
ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28
Consensus pattern (18 bp):
TGAAGGAATTAGAATCTG
Found at i:857716 original size:16 final size:16
Alignment explanation
Indices: 857672--857722 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
857662 TTAGAATGTT
* *
857672 TATGAAGGAATTGGAA
1 TATGTAGGAATTAGAA
*
857688 TCTGTGAAGGAATTAGAA
1 TATGT--AGGAATTAGAA
857706 TATGTAGGAATTAGAA
1 TATGTAGGAATTAGAA
857722 T
1 T
857723 CCAATTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 15 0.52
18 14 0.48
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.29
Consensus pattern (16 bp):
TATGTAGGAATTAGAA
Found at i:858602 original size:27 final size:27
Alignment explanation
Indices: 858572--858637 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
858562 ACCCGACCCG
858572 ACTCGACCCGAATATCACACTTAAAAA
1 ACTCGACCCGAATATCACACTTAAAAA
858599 ACTCGACCCGAATATCACACTTAAAAA
1 ACTCGACCCGAATATCACACTTAAAAA
*
858626 ACCCGACCCGAA
1 ACTCGACCCGAA
858638 CAAAATAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.15
Consensus pattern (27 bp):
ACTCGACCCGAATATCACACTTAAAAA
Found at i:858800 original size:248 final size:248
Alignment explanation
Indices: 858251--859103 Score: 1257
Period size: 248 Copynumber: 3.4 Consensus size: 248
858241 TATAAGGTAA
* * *
858251 AATTATATATTTTTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACACGACCCGACCTG
1 AATTATATA-TATTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACC-G
*
858316 ACCCGAATATCACACTTAAAAAAACCCGACCAGACTGTCGAATATCACACTTAAAAAACCTGACC
64 ACCCGAATATCACACTTAAAAAAACTCGA-C---C---CGAATATCACACTT-AAAAA----ACC
* *
858381 CGACCCGAACAAAATAAAGTTTCATCCGACCCAACCCGAATATATGAATTAGAAATCCAACCCGA
117 CGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAACCCGA
*
858446 CCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTAACTTAATCCGACCCGACC
182 CCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACC
858511 CG
247 CG
858513 AATTATATATATTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACTCGA
1 AATTATATATATTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAC-CGA
858578 CCCGAATATCACACTT-AAAAAACTCGACCCGAATATCACACTTAAAAAACCCGACCCGAACAAA
65 CCCGAATATCACACTTAAAAAAACTCGACCCGAATATCACACTTAAAAAACCCGACCCGAACAAA
* ** *
858642 ATAAAGTTTCATCCTACCCGACCCGAATATATGAATTAGAAATCTGACTCGACCCGACCCGAAAT
130 ATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAAT
*
858707 AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCAACCCGACCCG
195 AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
* *
858761 AATTATATATATTTTTAGGTCGGTCCGGTTTTCTTCACCCTAAACCCGAACCCGA--C--CCGAC
1 AATTATATATATTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCGAC
858822 CCGAATATCACACTTAAAAAAACCCGACCTGACTTGACCCGAATATCACACTTAAAAAACCCGAC
66 CCGAATATCACACTT-AAAAAA----A-CT--C--GACCCGAATATCACACTTAAAAAACCCGAC
* *
858887 CCGAACAAAATAAAGTTTCATCCAACCTGACCCGAATATATAAATTAGAAATCCAACCCGACCCG
121 CCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCG
*
858952 ACCCGAAATAATAAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTG
186 ACCCGAAATAAT-AAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
* *
859016 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACTCGACCCGA
1 AATTATATATATTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGA-CCGA
859081 CCCGAATATCACACTTAAAAAAA
65 CCCGAATATCACACTTAAAAAAA
859104 ACCCGATCTG
Statistics
Matches: 549, Mismatches: 24, Indels: 43
0.89 0.04 0.07
Matches are distributed among these distances:
243 19 0.03
244 1 0.00
245 5 0.01
246 1 0.00
248 181 0.33
249 1 0.00
250 2 0.00
252 6 0.01
253 14 0.03
254 101 0.18
255 102 0.19
256 1 0.00
257 1 0.00
259 7 0.01
260 30 0.05
261 67 0.12
262 10 0.02
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.24
Consensus pattern (248 bp):
AATTATATATATTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCGAC
CCGAATATCACACTTAAAAAAACTCGACCCGAATATCACACTTAAAAAACCCGACCCGAACAAAA
TAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATA
ATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
Found at i:862913 original size:40 final size:39
Alignment explanation
Indices: 862852--862959 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 39
862842 TACGACGAAG
* *
862852 ATGTTGTGAAGAAAGTGATATTTTCAATTG-TCAATTAA-AA
1 ATGTTATGAAGAAAGTAATATTTT---TTGTTCAATTAATAA
*
862892 ATGTTATGAAGAATGTAATATTTTTTGTTCAATTAATAA
1 ATGTTATGAAGAAAGTAATATTTTTTGTTCAATTAATAA
* * * *
862931 ATGTTAAGAAAAAATTAACATTTTTTGTT
1 ATGTTATGAAGAAAGTAATATTTTTTGTT
862960 GCACTCAACC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
37 3 0.05
38 8 0.14
39 26 0.45
40 21 0.36
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.43
Consensus pattern (39 bp):
ATGTTATGAAGAAAGTAATATTTTTTGTTCAATTAATAA
Found at i:863124 original size:160 final size:159
Alignment explanation
Indices: 862860--863156 Score: 432
Period size: 160 Copynumber: 1.9 Consensus size: 159
862850 AGATGTTGTG
* * ** * * * ** *
862860 AAGAAAGTGATATTTTCAATTGTCAATTAAAAATGTTATGAAGAATGTAATATTTTTTGTTCAAT
1 AAGAAAGTAACATTTTCAATTGTCAACCAAAAATGTTATGAAAAATGTAAGATATTCAGTTCAAG
* **
862925 TAATAAATGTTAAGAAAAAATTAACATTTTTTGTTGCACTCAACCGAAAATATTATATTTTTTAT
66 CAATAAATGTTAAGAAAAAATTAACATTTTCGGTTGCACTCAACCGAAAATATTATA-TTTTTAT
862990 AACATTTTCAGTTGAATTTAAAATGTTATA
130 AACATTTTCAGTTGAATTTAAAATGTTATA
* *
863020 AAGAAAGTAACATTTTCGATTGTCAACCGAAAATGTTATGAAAAATGTAAGATATTCAGTTCAAG
1 AAGAAAGTAACATTTTCAATTGTCAACCAAAAATGTTATGAAAAATGTAAGATATTCAGTTCAAG
* *
863085 CAATAAATGTTAAGGAAAAATTAATATTTTCGGTTGCACTCAACCGAAAATATTATATTTTTATA
66 CAATAAATGTTAAGAAAAAATTAACATTTTCGGTTGCACTCAACCGAAAATATTATATTTTTATA
863150 ACATTTT
131 ACATTTT
863157 TGGTTGCGTC
Statistics
Matches: 120, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
159 15 0.12
160 105 0.88
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (159 bp):
AAGAAAGTAACATTTTCAATTGTCAACCAAAAATGTTATGAAAAATGTAAGATATTCAGTTCAAG
CAATAAATGTTAAGAAAAAATTAACATTTTCGGTTGCACTCAACCGAAAATATTATATTTTTATA
ACATTTTCAGTTGAATTTAAAATGTTATA
Found at i:863439 original size:94 final size:95
Alignment explanation
Indices: 863277--863475 Score: 364
Period size: 94 Copynumber: 2.1 Consensus size: 95
863267 TTCCCTGTAA
* *
863277 TTTATTTTCCAGAGAATGTTTTTCTCATTTTTCAGTGTTTAGTTGGTGAAAAACAAATTGTCAAT
1 TTTATTTTTCAGAGAATGTTTTCCTCATTTTTCAGTGTTTAGTTGGTGAAAAACAAATTGTCAAT
863342 ATAATTCATTTTTTGAAAAGTAACTTACGG
66 ATAATTCATTTTTTGAAAAGTAACTTACGG
863372 TTTATTTTTCAGAGAATGTTTTCCTCA-TTTTCAGTGTTTAGTTGGTGAAAAACAAATTGTCAAT
1 TTTATTTTTCAGAGAATGTTTTCCTCATTTTTCAGTGTTTAGTTGGTGAAAAACAAATTGTCAAT
863436 ATAATTCATTTTTTGAAAAGTAACTTACGG
66 ATAATTCATTTTTTGAAAAGTAACTTACGG
863466 TTTGATTTTT
1 TTT-ATTTTT
863476 TGTAAATCAT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 70 0.69
95 31 0.31
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.46
Consensus pattern (95 bp):
TTTATTTTTCAGAGAATGTTTTCCTCATTTTTCAGTGTTTAGTTGGTGAAAAACAAATTGTCAAT
ATAATTCATTTTTTGAAAAGTAACTTACGG
Found at i:863648 original size:24 final size:24
Alignment explanation
Indices: 863612--863657 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
863602 TTATTGAAAA
*
863612 TTTTAATAATATAATATTTTATTT
1 TTTTAATAATATAATAATTTATTT
**
863636 TTTTAATGTTATAATAATTTAT
1 TTTTAATAATATAATAATTTAT
863658 ATAATATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTAATAATATAATAATTTATTT
Found at i:863686 original size:36 final size:33
Alignment explanation
Indices: 863649--863733 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 33
863639 TAATGTTATA
863649 ATAATTTATATAATATTATAATTTTAATATTTAATAAT
1 ATAA-TTA-ATAATATT-TAATTTT-AT-TTTAATAAT
*
863687 ATAATTAATAATATTTTATTTTATTTTAATAA-
1 ATAATTAATAATATTTAATTTTATTTTAATAAT
863719 ATTAA-TAAT-ATATTT
1 A-TAATTAATAATATTT
863734 TATAATAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
31 6 0.13
32 5 0.11
33 11 0.24
34 2 0.04
35 6 0.13
36 8 0.18
37 3 0.07
38 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
ATAATTAATAATATTTAATTTTATTTTAATAAT
Found at i:863689 original size:21 final size:21
Alignment explanation
Indices: 863659--863735 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
863649 ATAATTTATA
*
863659 TAATATTATAATTTTAATATT
1 TAATAATATAATTTTAATATT
*
863680 TAATAATATAATTAATAATATT
1 TAATAATATAATT-TTAATATT
* * *
863702 T--T-ATTTTATTTTAATAAAT
1 TAATAATATAATTTTAAT-ATT
863721 TAATAATAT-ATTTTA
1 TAATAATATAATTTTA
863736 TAATAATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
18 4 0.09
19 9 0.20
20 1 0.02
21 19 0.43
22 11 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATAATATAATTTTAATATT
Found at i:863690 original size:41 final size:41
Alignment explanation
Indices: 863656--863766 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 41
863646 ATAATAATTT
*
863656 ATATAATATTATAATTTTAAT-ATTTAATAATATAATTAATA
1 ATATAATATT-TAATTTTAATAAATTAATAATATAATTAATA
** * * *
863697 ATATTTTATTTTATTTTAATAAATTAATAATATATTTTAT-
1 ATATAATATTTAATTTTAATAAATTAATAATATAATTAATA
*
863737 A-ATAAT-TTT-ATTTTAATAAAATATATAATA
1 ATATAATATTTAATTTTAATAAATTA-ATAATA
863767 ATCATAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
37 13 0.22
38 9 0.15
39 3 0.05
40 10 0.17
41 24 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (41 bp):
ATATAATATTTAATTTTAATAAATTAATAATATAATTAATA
Found at i:863707 original size:77 final size:74
Alignment explanation
Indices: 863622--863787 Score: 177
Period size: 77 Copynumber: 2.3 Consensus size: 74
863612 TTTTAATAAT
*
863622 ATAATATTTTA-TTT-TTTTAAT--GTT-ATAATA-ATTTATATAAT-ATTATAATTTTAATATT
1 ATAATATTTTATTTTATTTTAATAAATTAATAATATATTT-TATAATAATT-TAATTTTAATA--
*
863680 TAATAATATAATTA
62 AAAT-ATATAATTA
*
863694 ATAATATTTTATTTTATTTTAATAAATTAATAATATATTTTATAATAATTTTATTTTAATAAAAT
1 ATAATATTTTATTTTATTTTAATAAATTAATAATATATTTTATAATAATTTAATTTTAATAAAAT
*
863759 ATATAATAATC
66 ATATAAT--TA
863770 ATAATATTTT-TTTTATTT
1 ATAATATTTTATTTTATTT
863788 ATAAAATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
72 11 0.14
73 3 0.04
74 14 0.17
75 11 0.14
76 13 0.16
77 22 0.27
78 7 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (74 bp):
ATAATATTTTATTTTATTTTAATAAATTAATAATATATTTTATAATAATTTAATTTTAATAAAAT
ATATAATTA
Found at i:863725 original size:38 final size:38
Alignment explanation
Indices: 863681--863794 Score: 100
Period size: 41 Copynumber: 3.1 Consensus size: 38
863671 TTTAATATTT
863681 AATAATATAATTAATAATATTTTATTTTATTTTAATAAA
1 AATAATATAATTAATAATATTTTATTTTATTTTAAT-AA
* *
863720 TTAATAATATATTTTATAATA----ATTTTATTTTAATAA
1 --AATAATATAATTAATAATATTTTATTTTATTTTAATAA
*
863756 AAT-ATATAATAATCATAATATTTT-TTTTA-TTT-ATAA
1 AATAATATAAT--TAATAATATTTTATTTTATTTTAATAA
863792 AAT
1 AAT
863795 TGGTTTGGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
33 6 0.10
34 3 0.05
35 7 0.11
36 9 0.14
37 16 0.25
38 5 0.08
41 17 0.27
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (38 bp):
AATAATATAATTAATAATATTTTATTTTATTTTAATAA
Found at i:863741 original size:15 final size:16
Alignment explanation
Indices: 863721--863780 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
863711 TTTAATAAAT
863721 TAATAATATATTTT-A
1 TAATAATATATTTTAA
*
863736 TAATAATTTTATTTTAA
1 TAATAA-TATATTTTAA
**
863753 TAA-AATATATAATAA
1 TAATAATATATTTTAA
*
863768 TCATAATAT-TTTT
1 TAATAATATATTTT
863781 TTTATTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 17 0.49
16 14 0.40
17 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATAATATATTTTAA
Found at i:863767 original size:41 final size:40
Alignment explanation
Indices: 863674--863774 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 40
863664 TTATAATTTT
* * **
863674 AATATTTAATAATATAATTAATAATATTTTATTTTATTTT
1 AATATATAATAATATAATTAATAATATTTTATTTTAATAA
* * *
863714 AATAAATTAATAATATATTTTATAATAATTTTATTTTAATAA
1 AATATA-TAATAATATAATTAATAAT-ATTTTATTTTAATAA
863756 AATATATAATAATCATAAT
1 AATATATAATAAT-ATAAT
863775 ATTTTTTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
40 4 0.08
41 24 0.49
42 21 0.43
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (40 bp):
AATATATAATAATATAATTAATAATATTTTATTTTAATAA
Found at i:867799 original size:22 final size:21
Alignment explanation
Indices: 867760--867816 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
867750 TTTTTAGCTC
867760 AAATGATCGATCCCTTTGAGT
1 AAATGATCGATCCCTTTGAGT
867781 AAATGATCGATCCCCTTTGA--
1 AAATGATCGAT-CCCTTTGAGT
* *
867801 AAAGGATTGATCCCTT
1 AAATGATCGATCCCTT
867817 CGATACCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.15
20 9 0.27
21 11 0.33
22 8 0.24
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (21 bp):
AAATGATCGATCCCTTTGAGT
Found at i:869067 original size:73 final size:76
Alignment explanation
Indices: 868982--869145 Score: 210
Period size: 73 Copynumber: 2.2 Consensus size: 76
868972 TTAAATGACT
* *
868982 AGGGGTATCGGTACCCATAGGGCATTCTATTTTTCTCGGAT-CCAACATTAACACAAGGGTATCG
1 AGGGGTATCGGTACCCATAGGACATTCTATTTTTCTCGG-TGCCAAAATTAACACAAGGGTATCG
*
869046 GTAC-CTCTA-G
65 GTACACCCTATG
* * ** *
869056 -GGGGTATCGGTACCCATTGGACATTCTGTTTTTCTCGGTGCCAAAATTGGCATAAGGGTATCGG
1 AGGGGTATCGGTACCCATAGGACATTCTATTTTTCTCGGTGCCAAAATTAACACAAGGGTATCGG
869120 TACACCCTATG
66 TACACCCTATG
*
869131 AGGGGTATCGATACC
1 AGGGGTATCGGTACC
869146 TCCCTATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
72 1 0.01
73 58 0.75
74 4 0.05
75 1 0.01
76 13 0.17
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (76 bp):
AGGGGTATCGGTACCCATAGGACATTCTATTTTTCTCGGTGCCAAAATTAACACAAGGGTATCGG
TACACCCTATG
Found at i:869466 original size:13 final size:14
Alignment explanation
Indices: 869448--869481 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
869438 GATTTTCTTA
869448 TTGAAAATC-ATTT
1 TTGAAAATCAATTT
869461 TTGAAAA-CAATTT
1 TTGAAAATCAATTT
869474 TTGAAAAT
1 TTGAAAAT
869482 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 18 0.95
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (14 bp):
TTGAAAATCAATTT
Found at i:871783 original size:23 final size:21
Alignment explanation
Indices: 871733--871809 Score: 84
Period size: 23 Copynumber: 3.6 Consensus size: 21
871723 AACCCGACTG
* * *
871733 GGGGTATCGGTAC-CCTTATA
1 GGGGTATCGATACACATTAAA
871753 GGGGTATCGATACACATTCAAA
1 GGGGTATCGATACACATT-AAA
* *
871775 GAGGGTATCGATACACGTTGAA
1 G-GGGTATCGATACACATTAAA
871797 GGGGTATCGATAC
1 GGGGTATCGATAC
871810 CTAGCAAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.24
21 15 0.31
22 6 0.12
23 16 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (21 bp):
GGGGTATCGATACACATTAAA
Found at i:871803 original size:21 final size:20
Alignment explanation
Indices: 871777--871853 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 20
871767 CATTCAAAGA
*
871777 GGGTATCGATACACGTTG-AAG
1 GGGTATCGATAC-C-TAGCAAG
871798 GGGTATCGATACCTAGCAAG
1 GGGTATCGATACCTAGCAAG
871818 GAGGTATCGATACCTAGCAAGG
1 G-GGTATCGATACCTAGCAA-G
871840 GGGTATCGATACCT
1 GGGTATCGATACCT
871854 GGTGCACAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
19 2 0.04
20 5 0.10
21 43 0.83
22 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (20 bp):
GGGTATCGATACCTAGCAAG
Found at i:875625 original size:22 final size:21
Alignment explanation
Indices: 875583--875622 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
875573 GAGATTATTT
* *
875583 TCATTTTTTTATTTTGAAATA
1 TCATTTTTGTATTTTAAAATA
875604 TCATTTTTGTATTTTAAAA
1 TCATTTTTGTATTTTAAAA
875623 ATAATTTCTC
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:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TCATTTTTGTATTTTAAAATA
Found at i:875629 original size:20 final size:21
Alignment explanation
Indices: 875585--875629 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
875575 GATTATTTTC
* * *
875585 ATTTTTTTATTTTGAAATATC
1 ATTTTTGTATTTTGAAAAATA
875606 ATTTTTGTATTTT-AAAAATA
1 ATTTTTGTATTTTGAAAAATA
875626 ATTT
1 ATTT
875630 CTCATAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTTGTATTTTGAAAAATA
Found at i:878722 original size:2 final size:2
Alignment explanation
Indices: 878715--878747 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
878705 TTAATAAATA
878715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
878748 AACAAAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:881715 original size:21 final size:21
Alignment explanation
Indices: 881689--881731 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
881679 TTGTACATTT
* *
881689 TGGTAGGAGTAAAATGGTTCA
1 TGGTAGGAATAAAATAGTTCA
881710 TGGTAGGAATAAAATAGTTCA
1 TGGTAGGAATAAAATAGTTCA
881731 T
1 T
881732 CTATTACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (21 bp):
TGGTAGGAATAAAATAGTTCA
Found at i:887199 original size:14 final size:15
Alignment explanation
Indices: 887180--887215 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
887170 ATAATTCAGA
887180 ACTTTCAT-TTTTTT
1 ACTTTCATATTTTTT
887194 ACTTTCATATTTTTT
1 ACTTTCATATTTTTT
*
887209 CCTTTCA
1 ACTTTCA
887216 GGTACGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (15 bp):
ACTTTCATATTTTTT
Found at i:888799 original size:29 final size:28
Alignment explanation
Indices: 888714--888800 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
888704 CCAAAATATA
*
888714 TAAACTTTAAAAATTACATTTTTGGTC-C
1 TAAACTTTAAAAATTATA-TTTTGGTCAC
* *
888742 TTAAA-TTTAAAATTTATACTTT-GTCCAC
1 -TAAACTTTAAAAATTATATTTTGGT-CAC
*
888770 TAAACTTTTAAAACTTATATTTTGGTCAC
1 TAAAC-TTTAAAAATTATATTTTGGTCAC
888799 TA
1 TA
888801 CCTAAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 2 0.04
27 8 0.17
28 12 0.25
29 24 0.50
30 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.45
Consensus pattern (28 bp):
TAAACTTTAAAAATTATATTTTGGTCAC
Found at i:889970 original size:24 final size:25
Alignment explanation
Indices: 889917--889984 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
889907 AATGCACTTC
* * *
889917 ATATCAGTACTAAAACACTTTATTG
1 ATATCAGTGCTAAGACACTTTAGTG
*
889942 A-ATCAGTGCTAAGGCACTTTAGT-
1 ATATCAGTGCTAAGACACTTTAGTG
*
889965 ATATCAGTGCTAAGTCACTT
1 ATATCAGTGCTAAGACACTT
889985 CCGTACAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.03
24 35 0.95
25 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (25 bp):
ATATCAGTGCTAAGACACTTTAGTG
Found at i:889999 original size:21 final size:21
Alignment explanation
Indices: 889945--890029 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
889935 TTTATTGAAT
* *
889945 CAGTGCTAAGGCACTTTAGTATA
1 CAGTGTTAAGGCACTTCAG--TA
* * *
889968 TCAGTGCTAAGTCACTTCCGTA
1 -CAGTGTTAAGGCACTTCAGTA
889990 CAGTGTTAAGGCACTTCAGTA
1 CAGTGTTAAGGCACTTCAGTA
*
890011 CAGTGTTAAGGAACTTCAG
1 CAGTGTTAAGGCACTTCAG
890030 ATACTTGTCG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 36 0.67
22 2 0.04
24 16 0.30
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (21 bp):
CAGTGTTAAGGCACTTCAGTA
Found at i:893546 original size:17 final size:17
Alignment explanation
Indices: 893524--893556 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
893514 AACCTTTATG
*
893524 TAATGATGATGCAAATT
1 TAATGATAATGCAAATT
893541 TAATGATAATGCAAAT
1 TAATGATAATGCAAAT
893557 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (17 bp):
TAATGATAATGCAAATT
Found at i:900752 original size:24 final size:24
Alignment explanation
Indices: 900648--900776 Score: 93
Period size: 24 Copynumber: 5.3 Consensus size: 24
900638 TTGTATGAAT
* **
900648 GTGCACTCTTGAATTAGTGGATTC
1 GTGCACTCTTGTATTAGTACATTC
*
900672 GTGTACTCTTG-ATTCTAGTACATTC
1 GTGCACTCTTGTA-T-TAGTACATTC
* *
900697 GTGTACTCCTGTATTAGTAACATTGC
1 GTGCACTCTTGTATTAGT-ACATT-C
*
900723 AT--ACTCTTGTATTAGTACATTC
1 GTGCACTCTTGTATTAGTACATTC
* * * * *
900745 TTGCACTCCTGTAATAGTGCATTT
1 GTGCACTCTTGTATTAGTACATTC
900769 GTGCACTC
1 GTGCACTC
900777 ATAAATTACT
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.02
23 6 0.07
24 51 0.59
25 24 0.28
26 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (24 bp):
GTGCACTCTTGTATTAGTACATTC
Found at i:901504 original size:21 final size:22
Alignment explanation
Indices: 901478--901520 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
901468 CCAAGAAAGG
*
901478 GAGTATCGATAC-TCCTTTAAT
1 GAGTATCAATACTTCCTTTAAT
901499 GAGTATCAATACTTCCTTTAAT
1 GAGTATCAATACTTCCTTTAAT
901521 ATTTCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (22 bp):
GAGTATCAATACTTCCTTTAAT
Found at i:903309 original size:21 final size:18
Alignment explanation
Indices: 903282--903327 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
903272 GACAAAAATG
903282 CCTTCTTCTTACTTGATC
1 CCTTCTTCTTACTTGATC
903300 CCTTCTTCTTACTTGATC
1 CCTTCTTCTTACTTGATC
903318 CCTTCTTCTT
1 CCTTCTTCTT
903328 TAGGAGGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.35, G:0.04, T:0.52
Consensus pattern (18 bp):
CCTTCTTCTTACTTGATC
Found at i:908319 original size:20 final size:20
Alignment explanation
Indices: 908289--908380 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
908279 GCAAGATGAT
*
908289 AGTATCAATACTACCTTGAG
1 AGTATCGATACTACCTTGAG
*
908309 AATATCGATACTACCTTGAG
1 AGTATCGATACTACCTTGAG
*
908329 AGTATCGATACTAACTTGAG
1 AGTATCGATACTACCTTGAG
*
908349 AGTATCAATACTACCTTGAG
1 AGTATCGATACTACCTTGAG
*
908369 AGTATGGATACT
1 AGTATCGATACT
908381 TCTCTTACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
AGTATCGATACTACCTTGAG
Found at i:922282 original size:65 final size:64
Alignment explanation
Indices: 922178--922337 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 64
922168 AATTAAATTG
*
922178 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGCA-CTGAG-GATTTAAT
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCATCTG-GCGATTT--T
922240 GAA
63 -AA
** * *
922243 AACATCGAATGCATTTGATGCATCGATGCACCA-GGCATGCATCGATGCATTCTGGCTATTTTAA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCA-TCTGGCGATTTTAA
* * *
922307 ATCATCGAATGCACTTGATGCATTGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
922338 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
64 30 0.36
65 43 0.52
66 3 0.04
67 7 0.08
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCATCTGGCGATTTTAA
Found at i:929699 original size:21 final size:22
Alignment explanation
Indices: 929673--929715 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
929663 TAGGACTGGG
929673 AGTATCAGTAC-TCATTTAATA
1 AGTATCAGTACTTCATTTAATA
* *
929694 AGTATCGGTACTTCTTTTAATA
1 AGTATCAGTACTTCATTTAATA
929716 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (22 bp):
AGTATCAGTACTTCATTTAATA
Found at i:933562 original size:24 final size:24
Alignment explanation
Indices: 933532--933594 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
933522 TATCGATCGA
*
933532 TCATGTATTAGTGCAATTATGCAC
1 TCATGTATTAGTGCAAATATGCAC
* * *
933556 TCTTGTATTAATACAAATATGCAC
1 TCATGTATTAGTGCAAATATGCAC
*
933580 TCATATATTAGTGCA
1 TCATGTATTAGTGCA
933595 TTCATGTATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (24 bp):
TCATGTATTAGTGCAAATATGCAC
Found at i:937702 original size:30 final size:30
Alignment explanation
Indices: 937668--937729 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
937658 AAATTGTGAA
937668 AATTTCCCATGGCTTATAAATGATGTTTGG
1 AATTTCCCATGGCTTATAAATGATGTTTGG
* *
937698 AATTTTCCATGGCTTATATATGATGTTTGG
1 AATTTCCCATGGCTTATAAATGATGTTTGG
937728 AA
1 AA
937730 GGTTCTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (30 bp):
AATTTCCCATGGCTTATAAATGATGTTTGG
Found at i:939217 original size:26 final size:26
Alignment explanation
Indices: 939188--939270 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
939178 AGTCTTTGGT
*
939188 ATAAATTTCACTTTAGAGTGCAATTG
1 ATAAATGTCACTTTAGAGTGCAATTG
* * * *
939214 ATAAATGGCCCTTTTGAGTGCACTTG
1 ATAAATGTCACTTTAGAGTGCAATTG
* *
939240 ATAAATGGT-ACTTTCGAGTGCAAGTG
1 ATAAAT-GTCACTTTAGAGTGCAATTG
939266 ATAAA
1 ATAAA
939271 GGGCACTATG
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 45 0.98
27 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (26 bp):
ATAAATGTCACTTTAGAGTGCAATTG
Found at i:939325 original size:45 final size:45
Alignment explanation
Indices: 939275--939361 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
939265 GATAAAGGGC
* *
939275 ACTATGTATGCAAATATGGTAGTAGTGCATATGTTGTACTATGGT
1 ACTATGTATGCAAAGATGGTAGTAGTACATATGTTGTACTATGGT
* *
939320 ACTATGTGTGCAAAGATGGTAGTAGTACATTTGTTGTACTAT
1 ACTATGTATGCAAAGATGGTAGTAGTACATATGTTGTACTAT
939362 CGACACTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (45 bp):
ACTATGTATGCAAAGATGGTAGTAGTACATATGTTGTACTATGGT
Found at i:940511 original size:20 final size:19
Alignment explanation
Indices: 940486--940525 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
940476 ACCATTTTCA
940486 TGGGTACTGATACTCCACCT
1 TGGGTACTGATACTCC-CCT
*
940506 TGGGTATTGATACTCCCCT
1 TGGGTACTGATACTCCCCT
940525 T
1 T
940526 ATAGTGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (19 bp):
TGGGTACTGATACTCCCCT
Found at i:942192 original size:11 final size:11
Alignment explanation
Indices: 942176--942207 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
942166 GCAACCTTGT
942176 GTTTAGTTTAG
1 GTTTAGTTTAG
942187 GTTTAGTTTAG
1 GTTTAGTTTAG
*
942198 GTTTATTTTA
1 GTTTAGTTTA
942208 AAATTAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (11 bp):
GTTTAGTTTAG
Found at i:949078 original size:14 final size:15
Alignment explanation
Indices: 949047--949081 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
949037 GCTTCAACTT
*
949047 TTCTTTTTTTTTTCC
1 TTCTTTTTGTTTTCC
949062 TTCTTTTTGTTTT-C
1 TTCTTTTTGTTTTCC
949076 TTCTTT
1 TTCTTT
949082 CAAGTGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (15 bp):
TTCTTTTTGTTTTCC
Found at i:955287 original size:54 final size:54
Alignment explanation
Indices: 955229--955512 Score: 356
Period size: 54 Copynumber: 5.3 Consensus size: 54
955219 TTCATTATGA
* * ** * * *
955229 TGCACACGTAGTGCCTATACGGTCATTCATAAACATATTATGAATTCCGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
* *
955283 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGTTGAATTCTGTGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
* * * *
955337 TGCACGCATAGTGTCGAAA-GGTTGTTCATCAACATATGATGAATTACGTGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
* * * **
955390 TGCAAACATAGTG-TTGAAATGGTTGTTCATCAACATATGATGAATTCCACGAGT
1 TGCACACATAGTGCCT-AAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
*
955444 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
**
955498 TTTACACATAGTGCC
1 TGCACACATAGTGCC
955513 CCTATGGAAA
Statistics
Matches: 197, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
53 45 0.23
54 152 0.77
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (54 bp):
TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
Found at i:955424 original size:27 final size:27
Alignment explanation
Indices: 955343--955426 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
955333 GAGTTGCACG
*
955343 CATAGTGTCGAAA-GGTTGTTCATCAA
1 CATAGTGTTGAAATGGTTGTTCATCAA
* * * *
955369 CATA-TGATGAATTACGTGAGTTGCA--AA
1 CATAGTGTTGAAAT-GGT-TGTT-CATCAA
955396 CATAGTGTTGAAATGGTTGTTCATCAA
1 CATAGTGTTGAAATGGTTGTTCATCAA
955423 CATA
1 CATA
955427 TGATGAATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 13
0.66 0.14 0.20
Matches are distributed among these distances:
25 7 0.17
26 7 0.17
27 16 0.38
28 10 0.24
29 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.32
Consensus pattern (27 bp):
CATAGTGTTGAAATGGTTGTTCATCAA
Found at i:955444 original size:107 final size:108
Alignment explanation
Indices: 955229--955512 Score: 356
Period size: 107 Copynumber: 2.6 Consensus size: 108
955219 TTCATTATGA
* * * ** * * * *
955229 TGCACACGTAGTGCCTATACGGTCATTCATAAACATATTATGAATTCCGTGGGTTGCACACATAG
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCAAACATAG
* ***
955294 TGCCTAAACGGTTGTTCATCAACATATGTTGAATTCTGTGAGT
66 TGCCTAAACGGTTGTTCATCAACATATGATGAATTCCACGAGT
* * *
955337 TGCACGCATAGTGTCGAAA-GGTTGTTCATCAACATATGATGAATTACGTGAGTTGCAAACATAG
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCAAACATAG
* *
955401 TG-TTGAAATGGTTGTTCATCAACATATGATGAATTCCACGAGT
66 TGCCT-AAACGGTTGTTCATCAACATATGATGAATTCCACGAGT
** *
955444 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTTTACACATAG
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCAAACATAG
955509 TGCC
66 TGCC
955513 CCTATGGAAA
Statistics
Matches: 148, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
106 1 0.01
107 90 0.61
108 57 0.39
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (108 bp):
TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCAAACATAG
TGCCTAAACGGTTGTTCATCAACATATGATGAATTCCACGAGT
Found at i:958633 original size:90 final size:89
Alignment explanation
Indices: 958516--958688 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
958506 TAATCCCAAA
* *
958516 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATACGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAA-CCCTAATACGAT
958581 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACTTGGATATAAGAGGAT
*
958606 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAACCCTAATATGATT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAACCCTAATACGATT
*
958671 AGGGTAACTTGGCTATAA
66 AGGGTAACTTGGATATAA
958689 AAGGGTGTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (89 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAATAAAACCCTAATACGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:965044 original size:20 final size:21
Alignment explanation
Indices: 965020--965089 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
965010 ATATCTAGAG
965020 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
965041 -TAATCTCGAATATTTAATTTTAA
1 TTAAT-T-AAATATAT-GTTTTAA
*
965064 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
965084 TTAATT
1 TTAATT
965090 TGAAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 15 0.39
21 1 0.03
22 11 0.29
23 7 0.18
24 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:970195 original size:54 final size:53
Alignment explanation
Indices: 970137--970417 Score: 294
Period size: 54 Copynumber: 5.2 Consensus size: 53
970127 TTCGTTGCGA
* * * ** * *
970137 TGCACACGTAGTGCCTATACAGTCATTCATAAACATATTATGAATTACGTGGGT
1 TGCACACATAGTGCCTAAACGGTTGTTCAT-AACATATGATGAATTACGTGAGT
*
970191 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTATGTGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCAT-AACATATGATGAATTACGTGAGT
* * *
970245 TGCACACATAGTGTCAAAACGGTTGTTCATAACATATGATGAATTCCGTGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCATAACATATGATGAATTACGTGAGT
* * * *
970298 TGCACACATAGTGCCGAAACGATTGTTCATCAACATATGATGAATTCCATGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCAT-AACATATGATGAATTACGTGAGT
* * * * * * * * *
970352 TACAAACTTAGTGTCAAAACGGTTGTTCGTCAATATATGGTGAATTTCGTGAGT
1 TGCACACATAGTGCCTAAACGGTTGTTCAT-AACATATGATGAATTACGTGAGT
970406 TAG-ACACATAGT
1 T-GCACACATAGT
970418 ACCCCTACAA
Statistics
Matches: 194, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
53 48 0.25
54 146 0.75
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (53 bp):
TGCACACATAGTGCCTAAACGGTTGTTCATAACATATGATGAATTACGTGAGT
Found at i:970324 original size:107 final size:108
Alignment explanation
Indices: 970162--970417 Score: 345
Period size: 107 Copynumber: 2.4 Consensus size: 108
970152 TATACAGTCA
* * * *
970162 TTCATAAACATATTATGAATTACGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
1 TTCATAAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGATTGTTCATCAACAT
** * *
970227 ATGATGAATTATGTGAGTTGCACACATAGTGTCAAAACGGTTG
66 ATGATGAATTACATGAGTTACAAACATAGTGTCAAAACGGTTG
*
970270 TTCAT-AACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGATTGTTCATCAACAT
1 TTCATAAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGATTGTTCATCAACAT
* *
970334 ATGATGAATTCCATGAGTTACAAACTTAGTGTCAAAACGGTTG
66 ATGATGAATTACATGAGTTACAAACATAGTGTCAAAACGGTTG
* * * * *
970377 TTCGTCAATATATGGTGAATTTCGTGAGTTAG-ACACATAGT
1 TTCATAAACATATGATGAATTACGTGAGTT-GCACACATAGT
970418 ACCCCTACAA
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
107 95 0.73
108 35 0.27
109 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (108 bp):
TTCATAAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGATTGTTCATCAACAT
ATGATGAATTACATGAGTTACAAACATAGTGTCAAAACGGTTG
Found at i:971183 original size:43 final size:43
Alignment explanation
Indices: 971120--971237 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
971110 TTGTGATTTG
* * *
971120 TAGTGGCA-TTTTATCTATAAATGCCGCTAATTATCATGTCTT
1 TAGTGGCATTTTTATCCATAAATACCGCTAATTATCATGTATT
* * *
971162 TAGTGGCATTTTTGTCCATAAATACCGCTAATTCTCTTGTATT
1 TAGTGGCATTTTTATCCATAAATACCGCTAATTATCATGTATT
* *
971205 TAGTGGCATTTTT-TGCCACAAACACCGCTAATT
1 TAGTGGCATTTTTAT-CCATAAATACCGCTAATT
971238 CTATTATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 9 0.14
43 57 0.86
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (43 bp):
TAGTGGCATTTTTATCCATAAATACCGCTAATTATCATGTATT
Found at i:971238 original size:43 final size:43
Alignment explanation
Indices: 971143--971278 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
971133 TCTATAAATG
* * * * *
971143 CCGCTAATTATCATGTCTTTAGTGGCA-TTTTTGTCCATAAATA
1 CCGCTAATTCTCTTGTATTTAGTGGCATTTTTTG-CCACAAACA
971186 CCGCTAATTCTCTTGTATTTAGTGGCATTTTTTGCCACAAACA
1 CCGCTAATTCTCTTGTATTTAGTGGCATTTTTTGCCACAAACA
* * * * *
971229 CCGCTAATTCTATTATTTTTAGTGTCGTTTTTT-CCACAAACA
1 CCGCTAATTCTCTTGTATTTAGTGGCATTTTTTGCCACAAACA
971271 CCGCTAAT
1 CCGCTAAT
971279 GGCAGCTGTT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 17 0.21
43 59 0.72
44 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (43 bp):
CCGCTAATTCTCTTGTATTTAGTGGCATTTTTTGCCACAAACA
Found at i:975725 original size:22 final size:22
Alignment explanation
Indices: 975696--975747 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
975686 TGTTTTTCTA
*
975696 CTTTCGAATA-GAAAAGTAATAG
1 CTTTCGAATAGGAAAA-TAATAC
*
975718 TTTTCGAATAGGAAAATAATAC
1 CTTTCGAATAGGAAAATAATAC
975740 CTTTCGAA
1 CTTTCGAA
975748 AACTTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (22 bp):
CTTTCGAATAGGAAAATAATAC
Found at i:976877 original size:82 final size:83
Alignment explanation
Indices: 976739--976901 Score: 211
Period size: 82 Copynumber: 2.0 Consensus size: 83
976729 CCTGACCTTT
* ** * *
976739 CCGTAATAGTGTTAATATATAGTGGTGTTTGATCATACAAACGCCACAACAAAAAGTAATTTTGT
1 CCGTAATAGGGTTAATATATAGTGGCATTTGATCAAACAAACGCCACAACAAAAAGTAATTTTGC
976804 GGAGTTTTTT-ACAAATG
66 GGAGTTTTTTAACAAATG
* ** * * *
976821 CCGTAATAGGGTTACTATATAGTGGCATTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGC
1 CCGTAATAGGGTTAATATATAGTGGCATTTGATCAAACAAACGCCACAACAAAAAGTAATTTTGC
*
976886 GGCGTTTTTTAACAAA
66 GGAGTTTTTTAACAAA
976902 CGATGCATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
82 63 0.93
83 5 0.07
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (83 bp):
CCGTAATAGGGTTAATATATAGTGGCATTTGATCAAACAAACGCCACAACAAAAAGTAATTTTGC
GGAGTTTTTTAACAAATG
Found at i:976894 original size:42 final size:42
Alignment explanation
Indices: 976848--976973 Score: 98
Period size: 42 Copynumber: 3.0 Consensus size: 42
976838 TATAGTGGCA
976848 TTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGCGGCG
1 TTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGCGGCG
** ** * * *
976890 TTTTTT--AACAAACGATGCATTAGAGTTA-TTATTTTGTGGTG
1 TTTTTTCAAACAAACGCCGCA--AGAGAAAGTAATTTTGCGGCG
* * * *
976931 TTTTATCAAACAAGCACCGC-AGAAGAAAGTAATTTAGCGGCG
1 TTTTTTCAAACAAACGCCGCAAG-AGAAAGTAATTTTGCGGCG
976973 T
1 T
976974 GTTTATACAA
Statistics
Matches: 60, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
40 13 0.22
41 18 0.30
42 21 0.35
43 8 0.13
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGCGGCG
Found at i:976951 original size:83 final size:83
Alignment explanation
Indices: 976749--977068 Score: 263
Period size: 83 Copynumber: 3.9 Consensus size: 83
976739 CCGTAATAGT
* * * * * * * * * * *
976749 GTTAATATATAGTGGTGTTTGATCATACAAACGCCACAACAAAAAGTAATTTTGTGGAGTTTTTT
1 GTTATTATATAGTGGCGTTTTATCAAACAAACACCGCAAGAGAAAGTAATTTAGCGGCGTTTTTT
* * * *
976814 -ACAAATGCCGTAATAGG
66 AACAAACGTCGCAATATG
* * * * *
976831 GTTACTATATAGTGGCATTTTTTCAAACAAACGCCGCAAGAGAAAGTAATTTTGCGGCGTTTTTT
1 GTTATTATATAGTGGCGTTTTATCAAACAAACACCGCAAGAGAAAGTAATTTAGCGGCGTTTTTT
*
976896 AACAAACGAT-GCATTA-G
66 AACAAACG-TCGCAATATG
* * * * *
976913 AGTTATTATTTTGTGGTGTTTTATCAAACAAGCACCGC-AGAAGAAAGTAATTTAGCGGCG-TGT
1 -GTTATTATATAGTGGCGTTTTATCAAACAAACACCGCAAG-AGAAAGTAATTTAGCGGCGTTTT
*
976976 TTATACAAACGTCGTAATATG
64 TTA-ACAAACGTCGCAATATG
* ** * * * *
976997 TTTATTATATAGTGGCGTTTTATCTTACAAACACCGTAAAAGAAAGTAATTTAACGGCGTTTTTA
1 GTTATTATATAGTGGCGTTTTATCAAACAAACACCGCAAGAGAAAGTAATTTAGCGGCGTTTTTT
977062 AACAAAC
66 AACAAAC
977069 ACCATGATAA
Statistics
Matches: 190, Mismatches: 39, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
82 63 0.33
83 121 0.64
84 6 0.03
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (83 bp):
GTTATTATATAGTGGCGTTTTATCAAACAAACACCGCAAGAGAAAGTAATTTAGCGGCGTTTTTT
AACAAACGTCGCAATATG
Found at i:977097 original size:166 final size:165
Alignment explanation
Indices: 976791--977100 Score: 354
Period size: 166 Copynumber: 1.9 Consensus size: 165
976781 GCCACAACAA
* * * * *
976791 AAAGTAATTTTGTGGAGTTTTTTACAAATGCCGTAATAGGGTTACTATATAGTGGCATTTTTTCA
1 AAAGTAATTTAGCGGAGTTTTATACAAACGCCGTAATAGGGTTACTATATAGTGGCATTTTATCA
* * ** * * * * *
976856 AACAAACGCCGCAAGAGAAAGTAATTTTGCGGCGTTTTTTAACAAACGATGCATTAGAGTTATTA
66 AACAAACACCGCAAAAGAAAGTAATTTAACGGCGTTTTTAAACAAACGATCCATGAGAATCATTA
*
976921 TTTTGTGGTGTTTTATCAAACAAGCACCGCAGAAG
131 TTTAGTGGTGTTTTATCAAACAAGCACCGCAGAAG
* * * * * *
976956 AAAGTAATTTAGCGGCGTGTTTATACAAACGTCGTAATATGTTTATTATATAGTGGCGTTTTATC
1 AAAGTAATTTAGCGGAGT-TTTATACAAACGCCGTAATAGGGTTACTATATAGTGGCATTTTATC
** * *
977021 TTACAAACACCGTAAAAGAAAGTAATTTAACGGCGTTTTTAAACAAAC-A-CCATGATAATCATG
65 AAACAAACACCGCAAAAGAAAGTAATTTAACGGCGTTTTTAAACAAACGATCCATGAGAATCAT-
977084 TAATTTAGTGGTGTTTT
129 T-ATTTAGTGGTGTTTT
977101 CATAATACGC
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
164 8 0.07
165 17 0.15
166 92 0.79
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (165 bp):
AAAGTAATTTAGCGGAGTTTTATACAAACGCCGTAATAGGGTTACTATATAGTGGCATTTTATCA
AACAAACACCGCAAAAGAAAGTAATTTAACGGCGTTTTTAAACAAACGATCCATGAGAATCATTA
TTTAGTGGTGTTTTATCAAACAAGCACCGCAGAAG
Found at i:984186 original size:44 final size:43
Alignment explanation
Indices: 984112--984253 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 43
984102 AACACTTTTA
* * *
984112 GCGGCGTTTGTATCATAAAAACGTCACTATATACCAGACCTATT
1 GCGGCGTTTGTATCCT-AAAACGACGCTATATACCAGACCTATT
* * * *
984156 GCGGCGTTTGTATCCTAAACACGCCGCTATAAACCAGTCCTATA
1 GCGGCGTTTGTATCCTAAA-ACGACGCTATATACCAGACCTATT
* * *
984200 GCGGCATTTGTA-CCTTGAAAACGACGCTAAATACCATACCTATT
1 GCGGCGTTTGTATCC-T-AAAACGACGCTATATACCAGACCTATT
* *
984244 ACGACGTTTG
1 GCGGCGTTTG
984254 CATAAAAAAT
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
43 5 0.06
44 71 0.90
45 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGTATCCTAAAACGACGCTATATACCAGACCTATT
Found at i:984303 original size:42 final size:42
Alignment explanation
Indices: 984257--984339 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
984247 ACGTTTGCAT
* * *
984257 AAAAAATGTCGTGAAATATCAACACTTATTGCGGCATTTGTG
1 AAAAAACGCCGTGAAATATCAACACCTATTGCGGCATTTGTG
* * *
984299 AAAAAACGCCGTTAAATATTAACACCTATTGCGGCGTTTGT
1 AAAAAACGCCGTGAAATATCAACACCTATTGCGGCATTTGT
984340 CAAACGCCGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (42 bp):
AAAAAACGCCGTGAAATATCAACACCTATTGCGGCATTTGTG
Found at i:986435 original size:23 final size:23
Alignment explanation
Indices: 986383--986436 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
986373 TCCTAAAAAC
986383 TATCTAATTTAAAAATATTTCTT
1 TATCTAATTTAAAAATATTTCTT
986406 TATTCTAA-TTAAAAATATAATT-TT
1 TA-TCTAATTTAAAAATAT--TTCTT
986430 TATCTAA
1 TATCTAA
986437 AACATTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 17 0.61
24 9 0.32
25 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
TATCTAATTTAAAAATATTTCTT
Found at i:986916 original size:18 final size:19
Alignment explanation
Indices: 986880--986916 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
986870 TTGTCAAAAC
986880 CATGATAAACATCATCATA
1 CATGATAAACATCATCATA
*
986899 CATGATAATCAT-ATCATA
1 CATGATAAACATCATCATA
986917 TTCTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (19 bp):
CATGATAAACATCATCATA
Found at i:987000 original size:25 final size:25
Alignment explanation
Indices: 986944--987001 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
986934 ACATTTCAGA
* * * *
986944 ACTTTCATATTTCATTTTCACCTTTC
1 ACTTTCACA-TTCATTCTCACATCTC
986970 ACTTTCACATTCATTCTCACATCTC
1 ACTTTCACATTCATTCTCACATCTC
*
986995 ATTTTCA
1 ACTTTCA
987002 TAATCAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.48
Consensus pattern (25 bp):
ACTTTCACATTCATTCTCACATCTC
Found at i:987093 original size:20 final size:19
Alignment explanation
Indices: 987040--987105 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
987030 TTCATTCTCG
* *
987040 ATTCAGAACTTATTTCCAA
1 ATTCATAACTTATTTTCAA
987059 ATTCATAACTTATTTTCAA
1 ATTCATAACTTATTTTCAA
* *
987078 ATTCATAGCTTAATTTCAA
1 ATTCATAACTTATTTTCAA
987097 ATTCATAAC
1 ATTCATAAC
987106 CCAATGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTCATAACTTATTTTCAA
Found at i:989905 original size:22 final size:21
Alignment explanation
Indices: 989867--989911 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
989857 ACGCTTAAAA
989867 TTTGTTTTACTTAAAAA-CAT
1 TTTGTTTTACTTAAAAACCAT
*
989887 TTTGTTATCTACTTTAAAACCAT
1 TTTGTT-T-TACTTAAAAACCAT
989910 TT
1 TT
989912 CATTAATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 9 0.43
23 5 0.24
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTGTTTTACTTAAAAACCAT
Found at i:995285 original size:43 final size:43
Alignment explanation
Indices: 995149--995410 Score: 248
Period size: 43 Copynumber: 6.1 Consensus size: 43
995139 ATATAAAAAT
* *
995149 GCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGATACAAAC
1 GCCGCAAAAGGTC-AGATATATAGCGGCGTTTTTGGATACAAAC
* * * * * *
995193 GCCGCAAAATGTCAAGTTCTCTAGCGGCATTTTTGCCA-A-AAAC
1 GCCGCAAAAGGTC-AGATATATAGCGGCGTTTTTG-GATACAAAC
** *
995236 ATCGCAAAAGGAT-AGATATATAGCGGCGTTGTTGGATACAAAC
1 GCCGCAAAAGG-TCAGATATATAGCGGCGTTTTTGGATACAAAC
* * *
995279 GCCGCAAAAGGTCAAGATCTATAGCGG-GTTTTTGGA-AAAAAT
1 GCCGCAAAAGGTC-AGATATATAGCGGCGTTTTTGGATACAAAC
* * *
995321 GCCGCAAAAGGTTAGATATATAGCGGCTTTTTTAGATACAAAC
1 GCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAAC
* * * *
995364 GACGCAAAAGGTCAGATCTATAGCGGC-TTTTTGGATATAAAT
1 GCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAAC
995406 GCCGC
1 GCCGC
995411 TAATTACCAT
Statistics
Matches: 177, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
41 13 0.07
42 57 0.32
43 61 0.34
44 45 0.25
45 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
GCCGCAAAAGGTCAGATATATAGCGGCGTTTTTGGATACAAAC
Found at i:995359 original size:85 final size:85
Alignment explanation
Indices: 995143--995410 Score: 335
Period size: 85 Copynumber: 3.1 Consensus size: 85
995133 TTTGTGATAT
* * *
995143 AAAAATGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGATACAAACGCCGCAAAATGTCAA
1 AAAAATGCCGCAAAAGGT-TAGATATATAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAA
* * *
995208 GTTCTCTAGCGGCATTTTTGCCA
65 GATCTATAGCGG-ATTTTTG-GA
* * *
995231 AAAACAT--CGCAAAAGGATAGATATATAGCGGCGTTGTTGGATACAAACGCCGCAAAAGGTCAA
1 AAAA-ATGCCGCAAAAGGTTAGATATATAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAA
*
995294 GATCTATAGCGGGTTTTTGGA
65 GATCTATAGCGGATTTTTGGA
* * *
995315 AAAAATGCCGCAAAAGGTTAGATATATAGCGGCTTTTTTAGATACAAACGACGCAAAAGGTC-AG
1 AAAAATGCCGCAAAAGGTTAGATATATAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAAG
*
995379 ATCTATAGCGGCTTTTTGGA
66 ATCTATAGCGGATTTTTGGA
*
995399 TATAAATGCCGC
1 -AAAAATGCCGC
995411 TAATTACCAT
Statistics
Matches: 159, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
83 2 0.01
84 26 0.16
85 65 0.41
86 51 0.32
87 9 0.06
88 4 0.03
89 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (85 bp):
AAAAATGCCGCAAAAGGTTAGATATATAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAAG
ATCTATAGCGGATTTTTGGA
Found at i:996067 original size:2 final size:2
Alignment explanation
Indices: 996060--996096 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
996050 GAATCAAGCG
996060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
996097 AGGATAGTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:999718 original size:41 final size:41
Alignment explanation
Indices: 999549--999862 Score: 180
Period size: 41 Copynumber: 7.6 Consensus size: 41
999539 TATGGATGAA
*** * * *
999549 CCTATTGCGGCGTTTGTACCGAAACGCCGCTAAAATGCTAC
1 CCTATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATAC
** * ** * *
999590 TTTATAGCGGTATTTTTATAAAAATGCCACTAAAGT-ACTAC
1 CCTATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGA-TAC
* *
999631 TCAC-ATTGCGGCGTTTGT-TGGAAAAATGCCACTATAGATGA-A-
1 -C-CTATTGCGGCGTTTGTAT--AAAAATGCCGCTAAAG-TGATAC
*
999673 CCTATTGCGGCGTTTGTATAAAAATGTCGCTAAAGTGATAC
1 CCTATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATAC
* * * * **
999714 CCTATCGCGACATTTTTATAAAAACACCGCTAAAGT-ACTAC
1 CCTATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGA-TAC
* * *
999755 TCATATTGCGGCGTTTAT-TGGAAAAATGCCACAATAAA-TGA-A-
1 -CCTATTGCGGCGTTTGTAT--AAAAATGCCGC--TAAAGTGATAC
* *
999797 CCTATTACGACGTTTGTATAAAAATGCCGCTAAAGTGATAC
1 CCTATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATAC
* *
999838 CCTATTGCAGCGTTTTTTATAAAAA
1 CCTATTGCGGCG-TTTGTATAAAAA
999863 CATAGCTAAA
Statistics
Matches: 203, Mismatches: 47, Indels: 45
0.69 0.16 0.15
Matches are distributed among these distances:
38 4 0.02
39 6 0.03
40 27 0.13
41 98 0.48
42 35 0.17
43 25 0.12
44 2 0.01
45 6 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (41 bp):
CCTATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATAC
Found at i:999854 original size:124 final size:124
Alignment explanation
Indices: 999489--999864 Score: 470
Period size: 124 Copynumber: 3.0 Consensus size: 124
999479 TTTTAGTTAC
* * * *
999489 AAACGCCACTAAAGTACTACT-ATGTTGCGACGTTTGTT-GAAAAATGCCACTATGGATGAACCT
1 AAACACCACTAAAGTACTACTCATATTGCGGCGTTTGTTGGAAAAATGCCACTATAGATGAACCT
*** * * * ** * * *
999552 ATTGCGGCGTTTGTACCGAAACGCCGCTAAAATGCTACTTTATAGCGGTATTTTTATAA
66 ATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATACCCTATTGCAGCATTTTTATAA
** *
999611 AAATGCCACTAAAGTACTACTCACATTGCGGCGTTTGTTGGAAAAATGCCACTATAGATGAACCT
1 AAACACCACTAAAGTACTACTCATATTGCGGCGTTTGTTGGAAAAATGCCACTATAGATGAACCT
* *
999676 ATTGCGGCGTTTGTATAAAAATGTCGCTAAAGTGATACCCTATCGC-GACATTTTTATAA
66 ATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATACCCTATTGCAG-CATTTTTATAA
* * * *
999735 AAACACCGCTAAAGTACTACTCATATTGCGGCGTTTATTGGAAAAATGCCACAATAAATGAACCT
1 AAACACCACTAAAGTACTACTCATATTGCGGCGTTTGTTGGAAAAATGCCACTATAGATGAACCT
* * *
999800 ATTACGACGTTTGTATAAAAATGCCGCTAAAGTGATACCCTATTGCAGCGTTTTTTATAA
66 ATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATACCCTATTGCAGC-ATTTTTATAA
999860 AAACA
1 AAACA
999865 TAGCTAAAAT
Statistics
Matches: 221, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
122 20 0.09
123 15 0.07
124 171 0.77
125 15 0.07
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (124 bp):
AAACACCACTAAAGTACTACTCATATTGCGGCGTTTGTTGGAAAAATGCCACTATAGATGAACCT
ATTGCGGCGTTTGTATAAAAATGCCGCTAAAGTGATACCCTATTGCAGCATTTTTATAA
Found at i:1001688 original size:29 final size:30
Alignment explanation
Indices: 1001649--1001719 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
1001639 GTTTTGACAT
*
1001649 AAAATACTTTT-GATATTTATTTTGATAAA
1 AAAATAATTTTAGATATTTATTTTGATAAA
*
1001678 AAAATAATTTTATATATTTATTTTGATAAA
1 AAAATAATTTTAGATATTTATTTTGATAAA
1001708 AAAATAATTTTA
1 AAAATAATTTTA
1001720 AGTACTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 10 0.26
30 29 0.74
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (30 bp):
AAAATAATTTTAGATATTTATTTTGATAAA
Found at i:1001697 original size:30 final size:30
Alignment explanation
Indices: 1001661--1001719 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
1001651 AATACTTTTG
1001661 ATATTTATTTTGATAAAAAAATAATTTTAT
1 ATATTTATTTTGATAAAAAAATAATTTTAT
1001691 ATATTTATTTTGATAAAAAAATAATTTTA
1 ATATTTATTTTGATAAAAAAATAATTTTA
1001720 AGTACTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
ATATTTATTTTGATAAAAAAATAATTTTAT
Found at i:1004109 original size:24 final size:24
Alignment explanation
Indices: 1004075--1004120 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1004065 TTTAAAACTC
*
1004075 CAAGGACTAATTCAAAATGAAATT
1 CAAGGAATAATTCAAAATGAAATT
1004099 CAAGGAATAATTCAAAATGAAA
1 CAAGGAATAATTCAAAATGAAA
1004121 GTCATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (24 bp):
CAAGGAATAATTCAAAATGAAATT
Found at i:1004626 original size:16 final size:15
Alignment explanation
Indices: 1004607--1004652 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
1004597 TTTATTTTTT
1004607 GTTCTTGTTACTTTCG
1 GTTC-TGTTACTTTCG
*
1004623 GTTCGGATTACTTTCG
1 GTTCTG-TTACTTTCG
1004639 GTTCATGTTACTTT
1 GTTC-TGTTACTTT
1004653 TAGTTTGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.52
Consensus pattern (15 bp):
GTTCTGTTACTTTCG
Found at i:1005235 original size:39 final size:39
Alignment explanation
Indices: 1005181--1005259 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
1005171 ATAACTAAAC
1005181 AAATGATACCCAACTCTTCATTCAA-TCAGTATAAGAAAA
1 AAATGATACCCAACTCTTCATTCAATTCA-TATAAGAAAA
*
1005220 AAATGATATCCAACTCTTCATTCAATTCATATAAGAAAA
1 AAATGATACCCAACTCTTCATTCAATTCATATAAGAAAA
1005259 A
1 A
1005260 CTTTAGAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (39 bp):
AAATGATACCCAACTCTTCATTCAATTCATATAAGAAAA
Found at i:1005507 original size:21 final size:22
Alignment explanation
Indices: 1005482--1005540 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
1005472 TTATTTTTTG
1005482 TACAATAAC-CTA-TTAGCATTT
1 TACAA-AACGCTAGTTAGCATTT
1005503 TACAAAACGCTAGTTTAGCATTT
1 TACAAAACGCTAG-TTAGCATTT
* *
1005526 TACGAAACGCGAGTT
1 TACAAAACGCTAGTT
1005541 TCATACATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 8 0.24
22 2 0.06
23 20 0.61
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (22 bp):
TACAAAACGCTAGTTAGCATTT
Found at i:1005520 original size:23 final size:23
Alignment explanation
Indices: 1005494--1005541 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1005484 CAATAACCTA
*
1005494 TTAGCATTTTACAAAACGCTAGT
1 TTAGCATTTTACAAAACGCGAGT
*
1005517 TTAGCATTTTACGAAACGCGAGT
1 TTAGCATTTTACAAAACGCGAGT
1005540 TT
1 TT
1005542 CATACATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (23 bp):
TTAGCATTTTACAAAACGCGAGT
Found at i:1007317 original size:19 final size:19
Alignment explanation
Indices: 1007293--1007329 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1007283 ATGACCAACA
* *
1007293 AAATCGTAATGTGATCTCT
1 AAATCGCAATGCGATCTCT
1007312 AAATCGCAATGCGATCTC
1 AAATCGCAATGCGATCTC
1007330 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:1008012 original size:19 final size:19
Alignment explanation
Indices: 1007988--1008054 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
1007978 TGAAACCGAG
1007988 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1008007 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1008026 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1008045 AATTGCAACG
1 AATCGCAACG
1008055 ACAAAATTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1008151 original size:20 final size:20
Alignment explanation
Indices: 1008084--1008153 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
1008074 TTAGTTTCTC
*
1008084 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
* *
1008103 GTTGCGATAGTT-GTTTTCGT
1 GTTGCGAT-TTTCATTTTCGT
1008123 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
1008143 GTTGCGATTTT
1 GTTGCGATTTT
1008154 AAGTTTCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 10 0.23
20 33 0.77
ACGTcount: A:0.10, C:0.14, G:0.24, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:1008160 original size:20 final size:19
Alignment explanation
Indices: 1008069--1008160 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 19
1008059 AATTGCAAAT
1008069 CGATTTTAGTTTC-TCGTTG
1 CGATTTTAGTTTCGT-GTTG
*
1008088 CGATTTTCA-TTTCGCGTTG
1 CGATTTT-AGTTTCGTGTTG
*
1008107 CGATAGTT-GTTTTCGTGTTG
1 CGAT-TTTAG-TTTCGTGTTG
*
1008127 CGATTTTCATTTTCGTGTTG
1 CGATTTT-AGTTTCGTGTTG
1008147 CGATTTTAAGTTTC
1 CGATTTT-AGTTTC
1008161 AGAAACTATT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
19 21 0.36
20 38 0.64
ACGTcount: A:0.12, C:0.15, G:0.22, T:0.51
Consensus pattern (19 bp):
CGATTTTAGTTTCGTGTTG
Found at i:1009764 original size:21 final size:21
Alignment explanation
Indices: 1009740--1009795 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1009730 TGGTGCATGG
* *
1009740 CGTGATGAGGTATCTACTTTA
1 CGTGATGAGGTAGCTACTCTA
* *
1009761 CGTGGTGAGGTAGCTGCTCTA
1 CGTGATGAGGTAGCTACTCTA
1009782 CGTGA-GATGGTAGC
1 CGTGATGA-GGTAGC
1009796 ATCGTTACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGCTACTCTA
Found at i:1010088 original size:20 final size:20
Alignment explanation
Indices: 1010065--1010133 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
1010055 GTAACTTAAA
*
1010065 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1010085 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1010105 ACCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1010125 ATCGCAACG
1 ATCGCAACG
1010134 GGATAATCGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1010202 original size:19 final size:19
Alignment explanation
Indices: 1010174--1010210 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1010164 CGCGAATTTA
1010174 GTTTCACGTTGCAATTTTG
1 GTTTCACGTTGCAATTTTG
*
1010193 GTTTCGCGTTGCAATTTT
1 GTTTCACGTTGCAATTTT
1010211 CTCATTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.49
Consensus pattern (19 bp):
GTTTCACGTTGCAATTTTG
Found at i:1010272 original size:20 final size:20
Alignment explanation
Indices: 1010247--1010334 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
1010237 CGATTATCTT
1010247 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
1010267 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
*
1010287 GTTGCGATAGTC-ATTTCCGC
1 GTTGCGATAGTCAAATT-CGC
* **
1010307 ATTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAAATTCGC
*
1010327 GTTACGAT
1 GTTGCGAT
1010335 TTTAAGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
19 3 0.05
20 55 0.90
21 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCGC
Found at i:1010344 original size:20 final size:20
Alignment explanation
Indices: 1010321--1010364 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1010311 CGATAGTCAT
*
1010321 TTTCGCGTTACGATTTTAAG
1 TTTCGCGTTACAATTTTAAG
* *
1010341 TTTCGTGTTGCAATTTTAAG
1 TTTCGCGTTACAATTTTAAG
1010361 TTTC
1 TTTC
1010365 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTACAATTTTAAG
Found at i:1010526 original size:30 final size:30
Alignment explanation
Indices: 1010492--1010560 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
1010482 TACTCTTTAC
1010492 GTTGTCCTTGAACATGCACTAAACCTATAT
1 GTTGTCCTTGAACATGCACTAAACCTATAT
1010522 GTTGTCCTTGAACATGCACTAAACCTATAT
1 GTTGTCCTTGAACATGCACTAAACCTATAT
1010552 GTTGTCCTT
1 GTTGTCCTT
1010561 TTAAATGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (30 bp):
GTTGTCCTTGAACATGCACTAAACCTATAT
Found at i:1010947 original size:21 final size:21
Alignment explanation
Indices: 1010878--1010992 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 21
1010868 CACCTGTCAT
* * *
1010878 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
1010899 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
* *
1010921 C-CTCAAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
1010941 CGTTCAAGAGGCCCATGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* * *
1010962 CGTTGAAGAGGTCCATCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
*
1010983 CATTCAAGAG
1 CGTTCAAGAG
1010993 CCCGATCCAC
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 2 0.03
21 67 0.96
22 1 0.01
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:1010962 original size:42 final size:42
Alignment explanation
Indices: 1010872--1010992 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 42
1010862 CCGACTCACC
** * * * *
1010872 TGTCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCC
1 TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCA
* *
1010914 TATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCA
1 TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCA
** * * * *
1010956 TGTCATCGTTGAAGAGGTCCATCCCACCATTCAAGAG
1 TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAG
1010993 CCCGATCCAC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.23
Consensus pattern (42 bp):
TGTCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCA
Done.