Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001095.1 Hibiscus syriacus cultivar Beakdansim tig00002169_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: 842675
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 4 of 4
Found at i:731388 original size:42 final size:41
Alignment explanation
Indices: 731327--731532 Score: 261
Period size: 42 Copynumber: 4.8 Consensus size: 41
731317 GAAATATTAT
*
731327 CAGGTCCCTTTTGCTGTGTGCGAAGGTAAGCCTTATAGTTTCC
1 CAGGTCCC-TTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
**
731370 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAT
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
731412 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTCC
*
731454 CAGGTCCCTTTGCTGTGTGCAAGGATAAACCTTACAGTTTTCC
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAG-TTTCC
* * *
731497 TAGG-CTCCTCTGCTTTGTGCACAGGTTAAGCCTTAC
1 CAGGTC-CCTTTGCTGTGTGCA-AGG-TAAGCCTTAC
731533 TGATGTATAG
Statistics
Matches: 147, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
41 4 0.03
42 102 0.69
43 29 0.20
44 12 0.08
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTCC
Found at i:737610 original size:18 final size:17
Alignment explanation
Indices: 737587--737620 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
737577 GACCGGTTTT
737587 GACCCGACCTGTTGACCC
1 GACCCGACC-GTTGACCC
737605 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
737621 GTTGATCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.15
Consensus pattern (17 bp):
GACCCGACCGTTGACCC
Found at i:737676 original size:29 final size:29
Alignment explanation
Indices: 737638--737782 Score: 161
Period size: 29 Copynumber: 5.0 Consensus size: 29
737628 GAGTGACATA
**
737638 TTGGGAATTAATTCGAAATGGGTGCTATT
1 TTGGGAATTAATTCGAAAAAGGTGCTATT
* *
737667 TTGGGAATTAATTTGAAAAAGGTGATATT
1 TTGGGAATTAATTCGAAAAAGGTGCTATT
737696 TTGGGAATTTAATTCGAAAAA-GTGCTA-T
1 TTGGGAA-TTAATTCGAAAAAGGTGCTATT
* *
737724 TTAGGAATTTAATTC-AAAAAGGTTCTATT
1 TTGGGAA-TTAATTCGAAAAAGGTGCTATT
* * * *
737753 TTGGTAATTATTTTGAAAATGGTGCTATT
1 TTGGGAATTAATTCGAAAAAGGTGCTATT
737782 T
1 T
737783 CTGTAAAATG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
27 5 0.05
28 25 0.26
29 56 0.57
30 12 0.12
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (29 bp):
TTGGGAATTAATTCGAAAAAGGTGCTATT
Found at i:737778 original size:57 final size:58
Alignment explanation
Indices: 737638--737782 Score: 156
Period size: 57 Copynumber: 2.5 Consensus size: 58
737628 GAGTGACATA
* *
737638 TTGGGAA-TTAATTCG-AAATGGGTGCTATTTTGGGAATTAATTTGAAAAAGGTGATATT
1 TTGGGAATTTAATTCGAAAAT-GGTGCTA-TTTAGGAATTAATTTCAAAAAGGTGATATT
* **
737696 TTGGGAATTTAATTCGAAAA-AGTGCTATTTAGGAATTTAA-TTCAAAAAGGTTCTATT
1 TTGGGAATTTAATTCGAAAATGGTGCTATTTAGGAA-TTAATTTCAAAAAGGTGATATT
* * *
737753 TTGGTAA-TTATTTTGAAAATGGTGCTATTT
1 TTGGGAATTTAATTCGAAAATGGTGCTATTT
737783 CTGTAAAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 10 0.14
57 36 0.49
58 17 0.23
59 8 0.11
60 3 0.04
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (58 bp):
TTGGGAATTTAATTCGAAAATGGTGCTATTTAGGAATTAATTTCAAAAAGGTGATATT
Found at i:738768 original size:42 final size:42
Alignment explanation
Indices: 738708--738828 Score: 190
Period size: 42 Copynumber: 2.9 Consensus size: 42
738698 GTATTATTAT
* *
738708 GTCCCTTTTGCTGTGTGCGAAGGTAAGCTTTACAGTTTCCCAG
1 GTCCC-TTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAG
738751 GTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAG
1 GTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAG
*
738793 GTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTATAGTT
1 GTCCCTTTGCTGTGTGCGAA-GGTAAGCCTTACAGTT
738829 ATCCAGTCTT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
41 2 0.03
42 67 0.91
43 5 0.07
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.34
Consensus pattern (42 bp):
GTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTACCAG
Found at i:739490 original size:18 final size:18
Alignment explanation
Indices: 739467--739508 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
739457 TTATCAATTC
739467 CATAAAACATAATATGAG
1 CATAAAACATAATATGAG
* *
739485 CATAAACCCTAATATGAG
1 CATAAAACATAATATGAG
739503 CATAAA
1 CATAAA
739509 CCCTAGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (18 bp):
CATAAAACATAATATGAG
Found at i:739509 original size:18 final size:18
Alignment explanation
Indices: 739476--739513 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
739466 CCATAAAACA
739476 TAATATGAGCATAAACCC
1 TAATATGAGCATAAACCC
739494 TAATATGAGCATAAACCC
1 TAATATGAGCATAAACCC
739512 TA
1 TA
739514 GAATTTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.24
Consensus pattern (18 bp):
TAATATGAGCATAAACCC
Found at i:745064 original size:28 final size:28
Alignment explanation
Indices: 745012--745068 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
745002 TTATATCATA
*
745012 AATTAAAAATGGATGCTTAATTTTTTTT
1 AATTAAAAATGGATGCTTAACTTTTTTT
745040 AATTAAAAATAGG-TGAC-TAACTTTTTTT
1 AATTAAAAAT-GGATG-CTTAACTTTTTTT
745068 A
1 A
745069 TGTTATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (28 bp):
AATTAAAAATGGATGCTTAACTTTTTTT
Found at i:749977 original size:21 final size:21
Alignment explanation
Indices: 749948--749999 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
749938 AAGTAGGGAG
*
749948 GTACCGATACACTCTTCGGAT
1 GTACTGATACACTCTTCGGAT
749969 GTACTGATACACTCTTCGGAT
1 GTACTGATACACTCTTCGGAT
*
749990 GTATTGATAC
1 GTACTGATAC
750000 CCCTCAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (21 bp):
GTACTGATACACTCTTCGGAT
Found at i:754298 original size:89 final size:89
Alignment explanation
Indices: 754147--754324 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
754137 ATTTCATATG
754147 ATAATGCATGCATATCACAGTAAATTATGTATCCTAGAATTTATAAACCATACATAACTATGTCA
1 ATAATGCATGCATATCACAGTAAATTATGTATCCTAGAATTTATAAACCATACATAACTATGTCA
754212 ATTGTTCGAAACATGTACTGTTTT
66 ATTGTTCGAAACATGTACTGTTTT
754236 ATAATGCATGCATATCACAGTAAATTATGTATCCTAGAATTTATAAACCATACATAACTATGTCA
1 ATAATGCATGCATATCACAGTAAATTATGTATCCTAGAATTTATAAACCATACATAACTATGTCA
754301 ATTGTTCGAAACATGTACTGTTTT
66 ATTGTTCGAAACATGTACTGTTTT
754325 TAGGTTCAGA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (89 bp):
ATAATGCATGCATATCACAGTAAATTATGTATCCTAGAATTTATAAACCATACATAACTATGTCA
ATTGTTCGAAACATGTACTGTTTT
Found at i:757985 original size:13 final size:13
Alignment explanation
Indices: 757967--757997 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
757957 AAACCATGTC
757967 AAGTAGTTCGTGA
1 AAGTAGTTCGTGA
757980 AAGTAGTTCGTGA
1 AAGTAGTTCGTGA
757993 AAGTA
1 AAGTA
757998 ATCCATGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (13 bp):
AAGTAGTTCGTGA
Found at i:763694 original size:13 final size:13
Alignment explanation
Indices: 763678--763724 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
763668 TCAATGAACA
763678 TCATAAATGCGCG
1 TCATAAATGCGCG
* *
763691 TCATAAATGTGTG
1 TCATAAATGCGCG
763704 TCATAAATGCGCG
1 TCATAAATGCGCG
*
763717 TAATAAAT
1 TCATAAAT
763725 TTATGACGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (13 bp):
TCATAAATGCGCG
Found at i:763699 original size:26 final size:26
Alignment explanation
Indices: 763670--763724 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
763660 AATGACGCTC
*
763670 AATGAACATCATAAATGCGCGTCATA
1 AATGAACATCATAAATGCGCGTAATA
****
763696 AATGTGTGTCATAAATGCGCGTAATA
1 AATGAACATCATAAATGCGCGTAATA
763722 AAT
1 AAT
763725 TTATGACGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (26 bp):
AATGAACATCATAAATGCGCGTAATA
Found at i:764418 original size:21 final size:21
Alignment explanation
Indices: 764392--764479 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
764382 GAAGAAGTGG
*
764392 AAGTAGATGAATTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
* *
764413 AAGTAGAAGAAGCACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
* **
764434 AAATAGATGAAGTATATTGGT
1 AAGTAGATGAAGTACCTTGGT
*
764455 AAATAGATGAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
764476 AAGT
1 AAGT
764480 GTCTCTGAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGGT
Found at i:772797 original size:17 final size:18
Alignment explanation
Indices: 772777--772815 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
772767 GATTATTGAT
772777 TGAACTACAAGCTTT-AA
1 TGAACTACAAGCTTTAAA
* *
772794 TGAACTATATGCTTTAAA
1 TGAACTACAAGCTTTAAA
772812 TGAA
1 TGAA
772816 GTGCATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (18 bp):
TGAACTACAAGCTTTAAA
Found at i:775741 original size:28 final size:26
Alignment explanation
Indices: 775701--775772 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 26
775691 CCAAATCAGC
* *
775701 AAAAATAGAAAAGGAGAACCAGCAAAA
1 AAAAAAAG-AAAGGAGAACCAACAAAA
775728 ACAGAAAAAGAAAGGAGAACCAACAAAA
1 A-A-AAAAAGAAAGGAGAACCAACAAAA
*
775756 AAAAACAGAGAAGGAGA
1 AAAAAAAGA-AAGGAGA
775773 GAAAGGAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 6 0.15
27 9 0.23
28 19 0.49
29 5 0.13
ACGTcount: A:0.67, C:0.11, G:0.21, T:0.01
Consensus pattern (26 bp):
AAAAAAAGAAAGGAGAACCAACAAAA
Found at i:776623 original size:16 final size:15
Alignment explanation
Indices: 776604--776646 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
776594 ATTTAATTAC
776604 CATTTATTTGTATTTT
1 CATTTATTT-TATTTT
776620 CATTTTATTATTATTTT
1 CA-TTTATT-TTATTTT
*
776637 CCTTTATTTT
1 CATTTATTTT
776647 TCAATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 2 0.08
16 8 0.33
17 13 0.54
18 1 0.04
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (15 bp):
CATTTATTTTATTTT
Found at i:776672 original size:23 final size:23
Alignment explanation
Indices: 776645--776689 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
776635 TTCCTTTATT
776645 TTTCAATAT-ATTTAAATTATTAC
1 TTTCAATATCATTT-AATTATTAC
* *
776668 TTTCATTATCATTTTATTATTA
1 TTTCAATATCATTTAATTATTA
776690 TTATAAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTCAATATCATTTAATTATTAC
Found at i:782287 original size:18 final size:16
Alignment explanation
Indices: 782264--782306 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
782254 CTCATCCAGC
782264 AAAGAAAGAAGAAAAAAA
1 AAAGAAA-AA-AAAAAAA
782282 AAAGAAAAAAAAAGAAA
1 AAAGAAAAAAAAA-AAA
*
782299 AAGGAAAA
1 AAAGAAAA
782307 TTGAATCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAAAAA
Found at i:782288 original size:11 final size:11
Alignment explanation
Indices: 782272--782300 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
782262 GCAAAGAAAG
782272 AAGAAAAAAAA
1 AAGAAAAAAAA
782283 AAG-AAAAAAA
1 AAGAAAAAAAA
782293 AAGAAAAA
1 AAGAAAAA
782301 GGAAAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:784767 original size:93 final size:93
Alignment explanation
Indices: 784608--784784 Score: 327
Period size: 93 Copynumber: 1.9 Consensus size: 93
784598 CTGGTTTGGT
* *
784608 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACAAATCATTGAATTTGAAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
784673 TATCTGGTCTGGTTTGGTATGAACCCTA
66 TATCTGATCTGGTTTGGTATGAACCCTA
784701 AAAACAAATCATTGAATTTGAAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACAAATCATTGAATTTGAAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
784766 TATCTGATCTGGTTTGGTA
66 TATCTGATCTGGTTTGGTA
784785 AAACCAATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (93 bp):
AAAACAAATCATTGAATTTGAAAGATAAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGGTTTGGTATGAACCCTA
Found at i:784920 original size:105 final size:105
Alignment explanation
Indices: 784737--785108 Score: 582
Period size: 105 Copynumber: 3.5 Consensus size: 105
784727 AAATGTGCTC
784737 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGGATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGGATT
*
784802 TAAAAGATAAATTTGCTCATAGTAGAAATAAGAAGACCCA
66 TAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
784842 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGGATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGGATT
784907 TAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
66 TAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
*
784947 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCCAAAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-------AAAACCAAT
** * * * *
785012 CATTATATTTGAAAGATGAATTTGCTCATAGCAGAAATAAGGAGACCTA
57 CATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
*
785061 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
785109 GGAACCCCAG
Statistics
Matches: 248, Mismatches: 10, Indels: 18
0.90 0.04 0.07
Matches are distributed among these distances:
105 150 0.60
107 1 0.00
112 1 0.00
114 96 0.39
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (105 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATTGGATT
TAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
Found at i:785089 original size:114 final size:114
Alignment explanation
Indices: 784784--785145 Score: 553
Period size: 114 Copynumber: 3.3 Consensus size: 114
784774 CTGGTTTGGT
*
784784 AAAACCAATCATTGGATTTAAAAGATAAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCAT
1 AAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCAT
784849 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-------
66 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC
784889 AAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCAT
1 AAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCAT
*
784954 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACCCC
66 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC
** * * * *
785003 AAAACCAATCATTATATTTGAAAGATGAATTTGCTCATAGCAGAAATAAGGAGACCTAATAGCAT
1 AAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCAT
* *
785068 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCC
66 CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC
* *
785117 AGAACCAATCATTGGAATTAAAAGATGAA
1 AAAACCAATCATTGGATTTAAAAGATGAA
785146 CTGCATGATC
Statistics
Matches: 232, Mismatches: 16, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
105 102 0.44
107 1 0.00
114 129 0.56
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (114 bp):
AAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCAT
CTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC
Found at i:786095 original size:35 final size:35
Alignment explanation
Indices: 786050--786116 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
786040 TTCAATCAGA
786050 AATATAATATTGGGGCATT-TT-GAAGGCTCACAAC
1 AATATAATATTGGGGCATTCTTAG-AGGCTCACAAC
*
786084 AATATGAATATTTGGGCATTCTTAGAGGCTCAC
1 AATAT-AATATTGGGGCATTCTTAGAGGCTCAC
786117 TCAACAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
35 13 0.45
36 10 0.34
37 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (35 bp):
AATATAATATTGGGGCATTCTTAGAGGCTCACAAC
Found at i:787279 original size:54 final size:54
Alignment explanation
Indices: 787197--787362 Score: 269
Period size: 54 Copynumber: 3.1 Consensus size: 54
787187 CAATGATTGA
787197 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
*
787251 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * ** **
787305 GAACATCTGAGCAGAAGCCACAGGAAATGATGAATACGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
787359 GAAC
1 GAAC
787363 CTGCTATTAT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:787739 original size:22 final size:22
Alignment explanation
Indices: 787711--787789 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
787701 ACATCTACAT
*
787711 TCTTCAAAGATGATAGATTCTA
1 TCTTCAAAGATGATAGATTCTC
*
787733 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * * *
787755 TTTTTAAAGATAACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
787777 TTTTCAAAGATGA
1 TCTTCAAAGATGA
787790 AAGCTTTATC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:788406 original size:112 final size:112
Alignment explanation
Indices: 788227--788869 Score: 782
Period size: 113 Copynumber: 5.6 Consensus size: 112
788217 TTGCAGGTAG
788227 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
788288 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAATTTTCCAGAGAA
63 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAATTTTCCAGAGAA
*
788338 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG-ATCTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT-TTGTT
* ** * * * * * *
788402 CAACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCATTTCCATAAAA
65 CAACCTTTTGCTCAAATCCATCAC----T-TGATGGATCA--AT-----TTTCCAGAGAA
* *
788461 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
788526 AACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCA-ATTTTCCAGAGAA
*
788574 AGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * * ** *
788639 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGACAG-GTAG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAA-TTTTCCAGAG-AA
** *
788687 AGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
788750 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAATTTTCCAGAGAA
65 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAATTTTCCAGAGAA
**
788798 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
788863 AACCTTT
66 AACCTTT
788870 GTTTGATTCT
Statistics
Matches: 454, Mismatches: 53, Indels: 49
0.82 0.10 0.09
Matches are distributed among these distances:
108 12 0.03
109 5 0.01
110 2 0.00
111 67 0.15
112 125 0.28
113 133 0.29
114 1 0.00
115 1 0.00
116 8 0.02
118 3 0.01
119 8 0.02
120 1 0.00
123 74 0.16
124 14 0.03
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGGATCAATTTTCCAGAGAA
Found at i:788474 original size:123 final size:120
Alignment explanation
Indices: 788327--788957 Score: 620
Period size: 123 Copynumber: 5.4 Consensus size: 120
788317 ATGGATCAAT
788327 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
788392 AG-ATCTTGTTCAACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCA
66 AGAAT-TTGTTCAACCTTTGTTTGATTCTATCAC---ATGAGATAGATCAGTATCAGCA
* * *
788450 TTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * * * *
788515 AGAATTTGTTCAACC--T-TTTG-CTCAAATC-CATCA-TTTGAT--GGATCAGCT
66 AGAATTTGTTCAACCTTTGTTTGATTC-TATCACATGAGATAGATCAGTATCAGCA
* *
788563 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* ** *
788628 AGAATTTGTTCAACCTTTTGTTTAAATTC-AT--CATTTGATGGAT---TA--A-CA
66 AGAATTTGTTCAACC-TTTGTTT-GATTCTATCACATGAGATAGATCAGTATCAGCA
** * * ** *
788676 TTGACAG-GTAGAGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAGAAGAAATTCATAATGA
1 TTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGA
* ** * * * *
788738 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCAC-T-TGATGGATCA--AT-----
64 GAAGAATTTGTTCAACC-TTTGTTTGATTCTATCACATGAGATAGATCAGTATCAGCA
*
788787 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
**
788852 AGAGCTTGTTCAACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCA
66 AGAATTTGTTCAACCTTTGTTTGATTCTATCAC---ATGAGATAGATCAGTATCAGCA
* *
788910 TTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
788958 GAATTTGTTC
Statistics
Matches: 425, Mismatches: 51, Indels: 64
0.79 0.09 0.12
Matches are distributed among these distances:
110 1 0.00
111 50 0.12
112 88 0.21
113 117 0.28
114 3 0.01
115 5 0.01
116 16 0.04
117 9 0.02
118 2 0.00
119 5 0.01
120 7 0.02
121 1 0.00
123 119 0.28
124 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (120 bp):
TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTGTTTGATTCTATCACATGAGATAGATCAGTATCAGCA
Found at i:788918 original size:112 final size:110
Alignment explanation
Indices: 788227--788907 Score: 364
Period size: 112 Copynumber: 6.0 Consensus size: 110
788217 TTGCAGGTAG
788227 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* ** * * * *
788288 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA-AT---TTTCCAGAGAA
63 TTCAACC-TTTGTTTGATTCTATCAC-AGATGGAT-AGATCAGTAT-C--AGAA
*
788338 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG-ATCTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT-TTGTT
*
788402 CAACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAG-C
65 CAACCTTTGTTTGATTCTATCACAG-ATG-GATAGATCAGTATCAGAA
* * * * *** * * * *
788449 ATTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
1 AGTT-CAT---AA--TGAGAAGAA-CTCATCTGA--AGAA---GGAAGAAGAAGTTCATAATGAG
* ** * * ** * *
788514 AAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAG--C-TTTTCCAGAGAA
54 AAGAATTTGTTCAACC-TTTGTTTGATTCTATCA-CAGATGGAT-AGATCAGTAT-C--AGAA
*
788574 AGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* ** * *
788639 AACCTTTTGTTTAAATTC-ATCATTTGATGGATTA-A-CATTGA-CAGGTAG
66 AACC-TTTGTTT-GATTCTATCA-CAGATGGA-TAGATCAGT-ATCA-G-AA
** *
788687 AGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* ** * * * *
788750 CAACCTTTTGCTCAAATCCATCACTTGATGGATCA-AT---TTTCCAGAGAA
65 CAACC-TTTGTTTGATTCTATCAC-AGATGGAT-AGATCAGTAT-C--AGAA
**
788798 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
788863 AACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAG
66 AACCTTTGTTTGATTCTATCACAG-ATG-GATAGATCAGTATCAG
788908 CATTTCCATA
Statistics
Matches: 446, Mismatches: 69, Indels: 109
0.71 0.11 0.17
Matches are distributed among these distances:
108 12 0.03
109 5 0.01
110 5 0.01
111 93 0.21
112 132 0.30
113 87 0.20
114 10 0.02
115 6 0.01
116 3 0.01
117 6 0.01
118 7 0.02
119 6 0.01
120 3 0.01
121 4 0.01
122 2 0.00
123 37 0.08
124 24 0.05
125 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (110 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTGTTTGATTCTATCACAGATGGATAGATCAGTATCAGAA
Found at i:788957 original size:103 final size:102
Alignment explanation
Indices: 788850--789161 Score: 302
Period size: 102 Copynumber: 3.0 Consensus size: 102
788840 TTCATAATGA
* *
788850 GAAGAGCTTGTTCAACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCATTTCC
1 GAAGAGCTTGTTCAACCTTTGCTTGATTCTATCACAGAA-GAGATAGATCAGTATCAACATTTCC
788915 ATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
65 ATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
* * * * * * **
788953 GAAGAGAATTTGTTCAACTTTTTGCTAGATTAC-ATTACAGAAGAAGATAAAT-TGTCATCCCCA
1 GAAGAG--CTTGTTCAAC-CTTTGCTTGATT-CTATCACAGAAG-AGATAGATCAGT-ATCAACA
* *
789016 ---GC-GAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
60 TTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
* * **
789055 GAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACATAAG-G-TAGATCAACATCAAC-TTT
1 GA--AGAGCTTGTTCAACC-TTTGCTTGATTCTATCACAGAAGAGATAGATCAGTATCAACATTT
*
789117 GCCATAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-
63 -CCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
789157 GAAGA
1 GAAGA
789162 AGTTCGTAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 35
0.73 0.11 0.15
Matches are distributed among these distances:
99 8 0.05
100 4 0.02
101 1 0.01
102 68 0.41
103 41 0.25
104 3 0.02
105 12 0.07
106 29 0.17
107 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (102 bp):
GAAGAGCTTGTTCAACCTTTGCTTGATTCTATCACAGAAGAGATAGATCAGTATCAACATTTCCA
TAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
Found at i:789712 original size:28 final size:26
Alignment explanation
Indices: 789672--789743 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 26
789662 CCAAATCAGC
* *
789672 AAAAACAGAAAAGGAGAACCAGCAAAA
1 AAAAAAAG-AAAGGAGAACCAACAAAA
789699 ATAGAAAAAGAAAGGAGAACCAACAAAA
1 A-A-AAAAAGAAAGGAGAACCAACAAAA
*
789727 AAAAACAGAGAAGGAGA
1 AAAAAAAGA-AAGGAGA
789744 GAAAGGAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 6 0.15
27 9 0.23
28 19 0.49
29 5 0.13
ACGTcount: A:0.67, C:0.11, G:0.21, T:0.01
Consensus pattern (26 bp):
AAAAAAAGAAAGGAGAACCAACAAAA
Found at i:790643 original size:23 final size:23
Alignment explanation
Indices: 790616--790660 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
790606 TTCCTTTATT
790616 TTTCAATAT-ATTTAAATTATTAC
1 TTTCAATATCATTT-AATTATTAC
* *
790639 TTTCATTATCATTTTATTATTA
1 TTTCAATATCATTTAATTATTA
790661 TTATAAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTCAATATCATTTAATTATTAC
Found at i:792321 original size:17 final size:17
Alignment explanation
Indices: 792301--792351 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
792291 ATTAAAGATC
*
792301 TAGTTTAATTAATGAAT
1 TAGTTTAATTAATGAAA
*
792318 TAGTTTAATGAATGAAA
1 TAGTTTAATTAATGAAA
*
792335 TAATTTAATTAATGAAA
1 TAGTTTAATTAATGAAA
792352 AAACTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
TAGTTTAATTAATGAAA
Found at i:796748 original size:12 final size:13
Alignment explanation
Indices: 796725--796749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
796715 TGTTTTTAAA
796725 TTTTAAATTTTTT
1 TTTTAAATTTTTT
796738 TTTTAAATTTTT
1 TTTTAAATTTTT
796750 AGTAATCAAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTAAATTTTTT
Found at i:797021 original size:16 final size:17
Alignment explanation
Indices: 796997--797040 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
796987 TGACTTTCAG
*
796997 TGTCTAAAG-AATTTTT
1 TGTCAAAAGTAATTTTT
*
797013 TGTCAAAAGTATTTTTT
1 TGTCAAAAGTAATTTTT
797030 TGTCAAAAGTA
1 TGTCAAAAGTA
797041 GATACTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (17 bp):
TGTCAAAAGTAATTTTT
Found at i:797030 original size:17 final size:17
Alignment explanation
Indices: 797008--797040 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
796998 GTCTAAAGAA
797008 TTTTTTGTCAAAAGTAT
1 TTTTTTGTCAAAAGTAT
797025 TTTTTTGTCAAAAGTA
1 TTTTTTGTCAAAAGTA
797041 GATACTTAAT
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:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTTTTGTCAAAAGTAT
Found at i:797748 original size:3 final size:3
Alignment explanation
Indices: 797740--797781 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
797730 TCAAATTTAA
*
797740 TAT TAT TAT TAT CATT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
797782 CACATTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:798734 original size:15 final size:15
Alignment explanation
Indices: 798714--798754 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
798704 TCTCCTTTTA
798714 GAGAAGAATGAAAAT
1 GAGAAGAATGAAAAT
798729 GAGAAGAATGAAAAT
1 GAGAAGAATGAAAAT
798744 GAGAA-AATGAA
1 GAGAAGAATGAA
798755 GAGGGCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (15 bp):
GAGAAGAATGAAAAT
Found at i:807464 original size:11 final size:11
Alignment explanation
Indices: 807441--807477 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
807431 TTCCCGTGCA
807441 TATTT-TTTCAT
1 TATTTATTT-AT
807452 TATTTATTTAT
1 TATTTATTTAT
807463 TATTTA-TTAT
1 TATTTATTTAT
807473 TATTT
1 TATTT
807478 CATTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 13 0.52
12 3 0.12
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTATTTAT
Found at i:811049 original size:15 final size:14
Alignment explanation
Indices: 811022--811073 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
811012 AAGGAAACTG
*
811022 AAAAATGAAA-AAA
1 AAAAAAGAAAGAAA
*
811035 GAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
*
811049 AAAAGAAAAAAGAAA
1 AAAA-AAGAAAGAAA
811064 AAAAAGAGAA
1 AAAAA-AGAA
811074 TAAACAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 8 0.26
14 7 0.23
15 16 0.52
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:811052 original size:18 final size:17
Alignment explanation
Indices: 811029--811073 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
811019 CTGAAAAATG
811029 AAAAAAGAAAAAGAAAGA
1 AAAAAAGAAAAAGAAA-A
811047 AAAAAAGAAAAAAGAAAA
1 AAAAAAG-AAAAAGAAAA
*
811065 AAAAGAGAA
1 AAAAAAGAA
811074 TAAACAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
19 9 0.36
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAAA
Found at i:811066 original size:7 final size:7
Alignment explanation
Indices: 811021--811066 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
811011 GAAGGAAACT
*
811021 GAAAAAT
1 GAAAAAA
811028 GAAAAAA
1 GAAAAAA
811035 G-AAAAA
1 GAAAAAA
*
811041 G-AAAGA
1 GAAAAAA
811047 -AAAAAA
1 GAAAAAA
811053 GAAAAAA
1 GAAAAAA
811060 GAAAAAA
1 GAAAAAA
811067 AAGAGAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 14 0.41
7 20 0.59
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:811082 original size:18 final size:16
Alignment explanation
Indices: 811029--811082 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
811019 CTGAAAAATG
*
811029 AAAAAAGAAAAAGAAAGA
1 AAAAAAGAAAAA-ACA-A
*
811047 AAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAACAA
811063 AAAAAAGAGAATAAACAA
1 AAAAAAGA-AA-AAACAA
811081 AA
1 AA
811083 GGGGGTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 9 0.28
17 4 0.12
18 19 0.59
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAAACAA
Found at i:811082 original size:24 final size:25
Alignment explanation
Indices: 811022--811070 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
811012 AAGGAAACTG
*
811022 AAAAATGAAAAAAGAAAAAGAAAGA
1 AAAAAAGAAAAAAGAAAAAGAAAGA
811047 AAAAAAGAAAAAAGAAAAA-AAAGA
1 AAAAAAGAAAAAAGAAAAAGAAAGA
811071 GAATAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAAAGAAAAAAGAAAAAGAAAGA
Found at i:811082 original size:25 final size:25
Alignment explanation
Indices: 811029--811082 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
811019 CTGAAAAATG
*
811029 AAAAAAGAAAAAGAAAGAAAAAAAG
1 AAAAAAGAAAAAGAAAGAAAAAAAC
*
811054 AAAAAAGAAAAA-AAAGAGAATAAAC
1 AAAAAAGAAAAAGAAAGA-AAAAAAC
811079 AAAA
1 AAAA
811083 GGGGGTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (25 bp):
AAAAAAGAAAAAGAAAGAAAAAAAC
Found at i:813628 original size:19 final size:19
Alignment explanation
Indices: 813601--813637 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
813591 TTCCAACACG
*
813601 TGCAACTATATGCTCCTAA
1 TGCAACTATATGATCCTAA
*
813620 TGCATCTATATGATCCTA
1 TGCAACTATATGATCCTA
813638 TATGGGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (19 bp):
TGCAACTATATGATCCTAA
Found at i:826134 original size:23 final size:21
Alignment explanation
Indices: 826095--826142 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
826085 CAATTTGGCC
826095 TAAATTTTATTAAATTAATTCTT
1 TAAATTTTATTAAATT-ATT-TT
*
826118 TAAATTTTTATT-TATTATTTT
1 TAAA-TTTTATTAAATTATTTT
826139 TAAA
1 TAAA
826143 AATATAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
23 7 0.30
24 7 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TAAATTTTATTAAATTATTTT
Found at i:835077 original size:20 final size:20
Alignment explanation
Indices: 835036--835078 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
835026 TCTCTATGTT
* *
835036 AATGATAACACTTCATCGTC
1 AATGACAACACTTCATCATC
835056 AATGACAACACTTTC-TCATC
1 AATGACAACAC-TTCATCATC
835076 AAT
1 AAT
835079 CAAATACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (20 bp):
AATGACAACACTTCATCATC
Found at i:839118 original size:14 final size:15
Alignment explanation
Indices: 839092--839121 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
839082 CATTTTAATA
839092 AAAATACTATTTATT
1 AAAATACTATTTATT
839107 AAAATA-TATTTATT
1 AAAATACTATTTATT
839121 A
1 A
839122 TTAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATACTATTTATT
Found at i:839188 original size:23 final size:23
Alignment explanation
Indices: 839156--839203 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
839146 ATTTTTAATG
* *
839156 TTATATTAATATATTAAATTATA
1 TTATAATAATATATGAAATTATA
*
839179 TTATAATAATATATGATATTATA
1 TTATAATAATATATGAAATTATA
839202 TT
1 TT
839204 TTTATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATAATAATATATGAAATTATA
Done.