Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008373.1 Hibiscus syriacus cultivar Beakdansim tig00111129_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: 1027749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:947344 original size:24 final size:24
Alignment explanation
Indices: 947317--947388 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
947307 CTTTATCACT
* * * *
947317 GATCATAATCCATGTTAAGTATTA
1 GATCAGAATCCAAGTCAAGTATCA
*
947341 GATCAGGATCCAAGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
* *
947365 AATCAGAATCCAGGTCAAGTATCA
1 GATCAGAATCCAAGTCAAGTATCA
947389 TAACAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (24 bp):
GATCAGAATCCAAGTCAAGTATCA
Found at i:949255 original size:24 final size:24
Alignment explanation
Indices: 949201--949266 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
949191 ATCACTGATC
* * * * *
949201 AGAATCCATGTCAAATATTAGATC
1 AGAATCCAAGTCAAGTATCAAATA
*
949225 AGGATCCAAGTCAAGTATCAAATA
1 AGAATCCAAGTCAAGTATCAAATA
*
949249 AGAATCCAGGTCAAGTAT
1 AGAATCCAAGTCAAGTAT
949267 TATAACAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (24 bp):
AGAATCCAAGTCAAGTATCAAATA
Found at i:951117 original size:24 final size:24
Alignment explanation
Indices: 951078--951148 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
951068 TTTATCACTG
* * *
951078 ATCAGAATCCATGTCAAGTATTAG
1 ATCAGAATCCAAGTCAAGTATCAA
* * *
951102 ATTAGGATCCAAGTCACGTATCAA
1 ATCAGAATCCAAGTCAAGTATCAA
*
951126 ATCAGAATCCAGGTCAAGTATCA
1 ATCAGAATCCAAGTCAAGTATCA
951149 TAACAAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAGAATCCAAGTCAAGTATCAA
Found at i:954332 original size:46 final size:45
Alignment explanation
Indices: 954280--954373 Score: 179
Period size: 46 Copynumber: 2.1 Consensus size: 45
954270 TGAATGTCAT
954280 AATTTGTATGGTAGAAAATATAATAATCCTCTTTTTGATTTTGTTC
1 AATTTGTATGGTAGAAAATATAATAATCCTC-TTTTGATTTTGTTC
954326 AATTTGTATGGTAGAAAATATAATAATCCTCTTTTGATTTTGTTC
1 AATTTGTATGGTAGAAAATATAATAATCCTCTTTTGATTTTGTTC
954371 AAT
1 AAT
954374 AGTGAAGTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 17 0.35
46 31 0.65
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (45 bp):
AATTTGTATGGTAGAAAATATAATAATCCTCTTTTGATTTTGTTC
Found at i:959754 original size:63 final size:64
Alignment explanation
Indices: 959675--959796 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 64
959665 ACTAAGAGTG
* *
959675 CATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGCCTGAGTGTATCGATGCATGGCTGGT
1 CATCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGCTGGT
*
959738 CATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGG
1 CATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGG
959797 TATTTGCATC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 25 0.46
64 26 0.48
65 3 0.06
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (64 bp):
CATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGGCTGGT
Found at i:962486 original size:23 final size:23
Alignment explanation
Indices: 962456--962535 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 23
962446 GTATGTCCTT
*
962456 GTGCATCGATGCATATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* * *
962479 GTGCATCGGTGCACCTTC-ATG-
1 GTGCATCGATGCACATTCAAGGA
*
962500 GTGTATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
962523 -TGCATCGATGCAC
1 GTGCATCGATGCAC
962536 TGTTAAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.33
22 16 0.35
23 15 0.33
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:962512 original size:21 final size:22
Alignment explanation
Indices: 962457--962535 Score: 97
Period size: 21 Copynumber: 3.6 Consensus size: 22
962447 TATGTCCTTG
*
962457 TGCATCGATGCATATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
* * *
962479 GTGCATCGGTGCACCTTCATGG-
1 -TGCATCGATGCACATTCAAGGA
*
962501 TGTATCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
962523 TGCATCGATGCAC
1 TGCATCGATGCAC
962536 TGTTAAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.37
22 12 0.26
23 17 0.37
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:962627 original size:15 final size:15
Alignment explanation
Indices: 962607--962642 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
962597 TGCTAAATTA
962607 ATTGGCTCTAGTGGT
1 ATTGGCTCTAGTGGT
962622 ATTGGCTCTAGTGGT
1 ATTGGCTCTAGTGGT
962637 ATTGGC
1 ATTGGC
962643 AACTCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.33, T:0.39
Consensus pattern (15 bp):
ATTGGCTCTAGTGGT
Found at i:968499 original size:65 final size:65
Alignment explanation
Indices: 968365--968565 Score: 234
Period size: 65 Copynumber: 3.1 Consensus size: 65
968355 TGCACTAAGA
* *
968365 GTGCATCGATGCATAAAATGCATTCGCTG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGTTG
*
968429 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGT-
968493 T-
64 TG
* * * * * *
968494 TTGCATCAATGCATGAAATGCATTCGATG--TTCAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAA--AATACCCTGAGTGCATCGATGCATGG-
968556 TTG
63 TTG
968559 GTGCATC
1 GTGCATC
968566 TCTTTAAAAA
Statistics
Matches: 119, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 45 0.38
65 65 0.55
66 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGTTG
Found at i:969720 original size:41 final size:41
Alignment explanation
Indices: 969663--969741 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
969653 CGATAGGAGC
969663 TAGGAACAACTCTTGAAGAACTCGCTCCCTTATTATAAGCA
1 TAGGAACAACTCTTGAAGAACTCGCTCCCTTATTATAAGCA
969704 TAGGAACAACTCTTGAAGAACTCGCTCCCTTATTATAA
1 TAGGAACAACTCTTGAAGAACTCGCTCCCTTATTATAA
969742 CATTTTTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (41 bp):
TAGGAACAACTCTTGAAGAACTCGCTCCCTTATTATAAGCA
Found at i:970500 original size:824 final size:824
Alignment explanation
Indices: 968906--970515 Score: 2952
Period size: 824 Copynumber: 2.0 Consensus size: 824
968896 AAATTATTCC
968906 CCCTTACTATAACATTTTTCTCCCCCTTTTTGTTAAATCAAAAAGACCATAAAACGTTATTAAAC
1 CCCTTACTATAACATTTTTCTCCCCCTTTTTGTTAAATCAAAAAGACCATAAAACGTTATTAAAC
* *
968971 AAGGTTTGAAAAATATACGCCAATTGAGTTATTATTTTAATGTTTAAGCTGCTAAGTTCACAATC
66 AAGGTTTGAAAAATATACACCAATTGAGTTATTATTTTAATGTTTAAGCTGCTAAGATCACAATC
969036 AAAAGAGAGATTAGCCATTAGTTTTCATAAACAATATTCATAAAATGTAAAGGATAATTGGTCAT
131 AAAAGAGAGATTAGCCATTAGTTTTCATAAACAATATTCATAAAATGTAAAGGATAATTGGTCAT
*
969101 ATATGTCTAATGATGCAAAAATGAATAAACATTAAGCTCAAATTGAATGTTAAAACCAAACCAAA
196 ATATGTCTAATGATGCAAAAATGAATAAACATTAAGCTCAAATTGAACGTTAAAACCAAACCAAA
969166 TATAGATAATAAGCTTAAATATCCAAACATATAAATCATAAATCCAAACAAACACCAAACTAAAG
261 TATAGATAATAAGCTTAAATATCCAAACATATAAATCATAAATCCAAACAAACACCAAACTAAAG
*
969231 AAAACAGTCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAATAAAAC
326 AAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAATAAAAC
* *
969296 AAAGTCTACTCGTCCATAGAAGGATCGGGAGGAGGAGGAGGAAATCGTGCTTGCATCTCAAGAGT
391 AAACTCTACTCGTCCATAGAAGGATCGGGAGAAGGAGGAGGAAATCGTGCTTGCATCTCAAGAGT
969361 AAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCAAAGTGTCTA
456 AAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCAAAGTGTCTA
*
969426 AGCGATGATTTACCGCTTCGTGAGTAGCAGTCAAGTGAGATTCGATGGAAGCATACCGTAGATCA
521 AGCGATGATTTACCGCTTCGTGAGTAACAGTCAAGTGAGATTCGATGGAAGCATACCGTAGATCA
* *
969491 AATGTCTCCAAAAACGAATAAAAATACGGAGGCATTTGATCCTCTTGTGGTGCTGGTTCCGGTGC
586 AATGTCTCCAAAAACGAATAAAAATACGGAGGCACTTGATCCTCTTGTGGTGCTAGTTCCGGTGC
*
969556 AGGCTCATTATCTGGTACGTGATCGTCGATATCTTGCATAAACTATTGAAGTTCGGGATCATCGT
651 AGGCTCATTATCTGGTACGTGATCATCGATATCTTGCATAAACTATTGAAGTTCGGGATCATCGT
* *
969621 CAACAGTCGGAGCCGGAGGAGGAGGAGGAGCACGATAGGAGCTAGGAACAACTCTTGAAGAACTC
716 CAAAAGCCGGAGCCGGAGGAGGAGGAGGAGCACGATAGGAGCTAGGAACAACTCTTGAAGAACTC
969686 GCTCCCTTATTATAAGCATAGGAACAACTCTTGAAGAACTCGCT
781 GCTCCCTTATTATAAGCATAGGAACAACTCTTGAAGAACTCGCT
*
969730 CCCTTATTATAACATTTTTCTCCCCCTTTTTGTTAAATCAAAAAGACTC-TAAAACGTTATTAAA
1 CCCTTACTATAACATTTTTCTCCCCCTTTTTGTTAAATCAAAAAGAC-CATAAAACGTTATTAAA
969794 CAAGGTTTGAAAAATATACACCAATTGAGTTATTATTTTAATGTTTAAGCTGCTAAGATCACAAT
65 CAAGGTTTGAAAAATATACACCAATTGAGTTATTATTTTAATGTTTAAGCTGCTAAGATCACAAT
*
969859 CAAAAGAGAGATTAGCCATTAGTTTTCATAAACAATATTCATAAACTGTAAAGGATAATTGGTCA
130 CAAAAGAGAGATTAGCCATTAGTTTTCATAAACAATATTCATAAAATGTAAAGGATAATTGGTCA
969924 TATATGTCTAATGATGCAAAAATGAATAAACATTAAGCTCAAATTGAACGTTAAAACCAAACCAA
195 TATATGTCTAATGATGCAAAAATGAATAAACATTAAGCTCAAATTGAACGTTAAAACCAAACCAA
**
969989 ATATAGATAATAAGCTTAAATATCCAAACATATAAATCATAAATCCAAACAAATGCCAAACTAAA
260 ATATAGATAATAAGCTTAAATATCCAAACATATAAATCATAAATCCAAACAAACACCAAACTAAA
*
970054 GAAAACAATCCCAAAGCATTTAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAATAAAA
325 GAAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAATAAAA
970119 CAAACTCTACTCGTCCATAGAAGGATCGGGAGAAGGAGGAGGAAATCGTGCTTGCATCTCAAGAG
390 CAAACTCTACTCGTCCATAGAAGGATCGGGAGAAGGAGGAGGAAATCGTGCTTGCATCTCAAGAG
* * *
970184 TATGAGCATCCATACGTGGAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCAATGTGTCT
455 TAAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCAAAGTGTCT
** *
970249 AAGCGATGATTTACCGCTTTTTGAGTAACAGTCAAGTGAGATTCGATGGAAGCATACTGTAGATC
520 AAGCGATGATTTACCGCTTCGTGAGTAACAGTCAAGTGAGATTCGATGGAAGCATACCGTAGATC
* *
970314 AAATGTCTCCAAAAATGAATAAAACTACGGAGGCACTTGATCCTCTTGTGGTGCTAGTTCCGGTG
585 AAATGTCTCCAAAAACGAATAAAAATACGGAGGCACTTGATCCTCTTGTGGTGCTAGTTCCGGTG
* * *
970379 CAGGGTCATTATCTGGTACGTGATCATCGATATCTTGCATAAACTGTTGAAGTTGGGGATCATCG
650 CAGGCTCATTATCTGGTACGTGATCATCGATATCTTGCATAAACTATTGAAGTTCGGGATCATCG
970444 TCAAAAGCCGGAGCCGGAGGAGGAGGAGGAGCACGATAGGAGCTAGGAACAACTCTTGAAGAACT
715 TCAAAAGCCGGAGCCGGAGGAGGAGGAGGAGCACGATAGGAGCTAGGAACAACTCTTGAAGAACT
970509 CGCTCCC
780 CGCTCCC
970516 GGAGTTTGCT
Statistics
Matches: 757, Mismatches: 28, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
824 756 1.00
825 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (824 bp):
CCCTTACTATAACATTTTTCTCCCCCTTTTTGTTAAATCAAAAAGACCATAAAACGTTATTAAAC
AAGGTTTGAAAAATATACACCAATTGAGTTATTATTTTAATGTTTAAGCTGCTAAGATCACAATC
AAAAGAGAGATTAGCCATTAGTTTTCATAAACAATATTCATAAAATGTAAAGGATAATTGGTCAT
ATATGTCTAATGATGCAAAAATGAATAAACATTAAGCTCAAATTGAACGTTAAAACCAAACCAAA
TATAGATAATAAGCTTAAATATCCAAACATATAAATCATAAATCCAAACAAACACCAAACTAAAG
AAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAATAAAAC
AAACTCTACTCGTCCATAGAAGGATCGGGAGAAGGAGGAGGAAATCGTGCTTGCATCTCAAGAGT
AAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCAAAGTGTCTA
AGCGATGATTTACCGCTTCGTGAGTAACAGTCAAGTGAGATTCGATGGAAGCATACCGTAGATCA
AATGTCTCCAAAAACGAATAAAAATACGGAGGCACTTGATCCTCTTGTGGTGCTAGTTCCGGTGC
AGGCTCATTATCTGGTACGTGATCATCGATATCTTGCATAAACTATTGAAGTTCGGGATCATCGT
CAAAAGCCGGAGCCGGAGGAGGAGGAGGAGCACGATAGGAGCTAGGAACAACTCTTGAAGAACTC
GCTCCCTTATTATAAGCATAGGAACAACTCTTGAAGAACTCGCT
Found at i:976683 original size:64 final size:62
Alignment explanation
Indices: 976606--976792 Score: 182
Period size: 65 Copynumber: 2.9 Consensus size: 62
976596 TTGACCGTTG
* * *
976606 AACCCTTAATGCATCGGTGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCA-AA
1 AACCCTGAGTGCATCGATGCACT--GAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAA
* *
976669 ATAGCCTGAGTGCATCGATGCATGGCTG-GTGCATCGATGCATCAAATGCATTCGATGTTTTCAT
1 A-ACCCTGAGTGCATCGATGCA---CTGAGTGCATCGATGCATAAAATGCATTCGATG-TTTCAT
976733 AA
61 AA
* * * *
976735 AACCCTTAGTGCATCGATGCA-TGGTATGTGCATCGATACATGAAATACATTCGATGTT
1 AACCCTGAGTGCATCGATGCACT-G-A-GTGCATCGATGCATAAAATGCATTCGATGTT
976793 CAATTTATTT
Statistics
Matches: 104, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
63 1 0.01
64 46 0.44
65 50 0.48
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (62 bp):
AACCCTGAGTGCATCGATGCACTGAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAA
Found at i:976766 original size:65 final size:65
Alignment explanation
Indices: 976633--976792 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
976623 TGCACTAAGA
*
976633 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
* *
976697 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTTAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGCT
*
976760 AT
65 -G
* * *
976762 GTGCATCGATACATGAAATACATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
976793 CAATTTATTT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 29 0.34
65 54 0.63
66 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
Found at i:977302 original size:157 final size:158
Alignment explanation
Indices: 977090--978329 Score: 1256
Period size: 157 Copynumber: 8.0 Consensus size: 158
977080 ATTTTCAAAA
*
977090 AATTCCTCTTTTTGATAACAATTTTTCTATTGTTTCAATTTAGTCCCTC-ATTTTTTTATAATTT
1 AATTCCTCTTTTTGATAACAAATTTTCTATT-TTTCAATTTAGTCCCTCTA-TTTTTTATAATTT
* * * *
977154 CCTTATTTCTTCAATTTATCTTTTATTTTAAGTTTGTTTTTTACCAACTTTGAACCACTTGCTCC
64 CCTTATTTCTTCAATTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCTCC
** * *
977219 TGCACCATCATAGAATACATATGTTCTTTC
129 TAAACCATCGTAGAATACATATGTACTTTC
* * * * * *
977249 AATTTCTCTTTTTAATAATAAATTTTCTA-TTTTCAATTCAGTCCCTCTATTTTTTTATATTTTA
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTA-TTTTTTATAATTTC
* * * * *
977313 TTTATTTCTTAAATTTATTATTTATTTTAAGTCT-TTTTTTACCAAATTTGAACCACATGCTCCT
65 CTTATTTCTTCAATTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCTCCT
*
977377 AAACCATTGT-GTAATACATATGTACTTTC
130 AAACCATCGTAG-AATACATATGTACTTTC
* * * * *
977406 AATTCCTCTTTTTAATAACAATTTTTCTATTTTTTAATTTAGTCCCTCAATTTTTTATAATTTCT
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTATTTTTTATAATTTCC
* * * * * *
977471 TTATTTCATCGATTCATC-TTTATTTTAAGTTCG-TTTTGACAAAATTTAAACCACATGCTCCT-
66 TTATTTCTTCAATTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCTCCTA
*
977533 AACCATCGTAGAATACATATATACTTTC
131 AACCATCGTAGAATACATATGTACTTTC
* *
977561 AATTCCTCTTTTTGATAACATATTTTTTATTTTTCAATTTAGTCCCTC-ATTTTTTTATAATTTC
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTA-TTTTTTATAATTTC
* * *
977625 CTTATTTCTTCAATTCATAATTTATTTTAA----G---TCTACCAACTTTGAACCACATGCTCCT
65 CTTATTTCTTCAATTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCTCCT
* * * *
977683 ACACCATTGTAGAATACACATGTGCTTTC
130 AAACCATCGTAGAATACATATGTACTTTC
* * * * * * *
977712 AATTCCTCTTTTTTATAATAATTTTTTTATTTTTCAATTCAGTCCCCCTATTTTTCATAATTTCC
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTATTTTTTATAATTTCC
* * *
977777 TTATTTCTCCAATTCATCATTTATTTTAAGTCTATTTTTTTTACCAAATTTGAACCACATTCTCC
66 TTATTTCTTCAATTCATCATTTATTTTAAGT-T-TGTTTTTTACCAAATTTGAACCACATGCTCC
* *
977842 TACAACCATCATATAATACATATGTACTTTC
129 TA-AACCATCGTAGAATACATATGTACTTTC
* * *
977873 AATTCCT-ATTTTGATAACAAATTTTATATTTTTCAATTTAGTCCCT-TAATGTTTTATAATTTC
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCT-ATTTTTTATAATTTC
* * * * *
977936 TTTATTTCTTCGATTCATCCTTTATTTTAAGTTCTTTTTTTTACCAAATTTTAACCACATGCTCC
65 CTTATTTCTTCAATTCATCATTTATTTTAAGTT-TGTTTTTTACCAAATTTGAACCACATGCTCC
*
978001 TAAACCATTGTAGAATACATATGTACTTTC
129 TAAACCATCGTAGAATACATATGTACTTTC
* * *
978031 AATTCATCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCTCT-TTTTTT-TCAATTCA
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTATTTTTTAT-AATT-T
*** *
978094 CCTT-TATT-TT-AAGTTCAT--TTT-TACCAACTTTG-----------A-----ACCACATGCT
64 CCTTAT-TTCTTCAA-TTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCT
* * *
978137 CCTACACCATCGTAGAACACATATGTGCTTTC
127 CCTAAACCATCGTAGAATACATATGTACTTTC
* * * *
978169 AATTCCTCTTTTTGATAACAAATTTTATATTTTTCAATTCAGTCCATCTATTTTTCATAATTTCC
1 AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTATTTTTTATAATTTCC
* * * * *
978234 TTATTTCTTTAATTCATC-CTTATTTTAAATTTG-TTTTTACCAAATTTGAATCACATGCTCATA
66 TTATTTCTTCAATTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCTCCTA
* * *
978297 TACCA-CAATAGAATACCTATGTAAC-TTC
131 AACCATC-GTAGAATACATATGT-ACTTTC
978325 AATTC
1 AATTC
978330 GTACTTTCTT
Statistics
Matches: 901, Mismatches: 130, Indels: 103
0.79 0.11 0.09
Matches are distributed among these distances:
138 89 0.10
139 17 0.02
140 5 0.01
141 7 0.01
143 1 0.00
150 22 0.02
151 107 0.12
152 2 0.00
154 2 0.00
155 102 0.11
156 89 0.10
157 121 0.13
158 109 0.12
159 100 0.11
160 99 0.11
161 29 0.03
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (158 bp):
AATTCCTCTTTTTGATAACAAATTTTCTATTTTTCAATTTAGTCCCTCTATTTTTTATAATTTCC
TTATTTCTTCAATTCATCATTTATTTTAAGTTTGTTTTTTACCAAATTTGAACCACATGCTCCTA
AACCATCGTAGAATACATATGTACTTTC
Found at i:977935 original size:160 final size:157
Alignment explanation
Indices: 977658--978077 Score: 567
Period size: 160 Copynumber: 2.6 Consensus size: 157
977648 ATTTTAAGTC
* * *
977658 TACCAACTTTGAACCACATGCTCCTAC-ACCATTGTAGAATACACATGTGCTTTCAATTCCTCTT
1 TACCAAATTTGAACCACATGCTCCTACAACCATTGTAGAATACATATGTACTTTCAATT-C-CTT
* * * * *
977722 TTTTATAATAATTTTTTTATTTTTCAATTCAGTCCCCCTATTTTTCATAATTTCCTTATTTCTCC
64 TTTGATAACAAATTTTTTATTTTTCAATTTAGT-CCCTTATTTTTCATAATTTCCTTATTTCTCC
977787 AATTCATCATTTATTTTAAGTCTATTTTTTT
128 AATTCATCATTTATTTTAAGT-TATTTTTTT
* ** *
977818 TACCAAATTTGAACCACATTCTCCTACAACCATCATATAATACATATGTACTTTCAATTCCTATT
1 TACCAAATTTGAACCACATGCTCCTACAACCATTGTAGAATACATATGTACTTTCAATTCCT-TT
* * *
977883 TTGATAACAAATTTTATATTTTTCAATTTAGTCCCTTAATGTTTT-ATAATTTCTTTATTTCTTC
65 TTGATAACAAATTTTTTATTTTTCAATTTAGTCCCTT-AT-TTTTCATAATTTCCTTATTTCTCC
* * *
977947 GATTCATCCTTTATTTTAAGTTCTTTTTTT
128 AATTCATCATTTATTTTAAGTTATTTTTTT
*
977977 TACCAAATTTTAACCACATGCTCCTA-AACCATTGTAGAATACATATGTACTTTCAATTCATCTT
1 TACCAAATTTGAACCACATGCTCCTACAACCATTGTAGAATACATATGTACTTTCAATTC--CTT
978041 TTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCT
64 TTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCT
978078 CTTTTTTTTC
Statistics
Matches: 230, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
158 30 0.13
159 75 0.33
160 95 0.41
161 30 0.13
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.47
Consensus pattern (157 bp):
TACCAAATTTGAACCACATGCTCCTACAACCATTGTAGAATACATATGTACTTTCAATTCCTTTT
TGATAACAAATTTTTTATTTTTCAATTTAGTCCCTTATTTTTCATAATTTCCTTATTTCTCCAAT
TCATCATTTATTTTAAGTTATTTTTTT
Found at i:978031 original size:470 final size:462
Alignment explanation
Indices: 977090--978329 Score: 1572
Period size: 470 Copynumber: 2.7 Consensus size: 462
977080 ATTTTCAAAA
977090 AATTCCTCTTTTTGATAACAATTTTTCTATTGTTTCAATTTAGTCCCTCATTTTTTTATAATTTC
1 AATTCCTCTTTTTGATAACAATTTTT-TATT-TTTCAATTTAGTCCCTCATTTTTTTATAATTTC
** *
977155 CTTATTTCTTCAATTTATCTTTTATTTTAAGTTTGTTTTTTACCAACTTTGAACCACTTGCTCCT
64 CTTATTTCTTCAA-TTATAATTTATTTTAA----G----TTACCAACTTTGAACCACATGCTCCT
* * * * *
977220 GCACCATCATAGAATACATATGTTCTTTCAATTTCTCTTTTTAATAATAAATTTTCTA-TTTTCA
120 ACACCATCGTAGAATACATATGTGCTTTCAATTCCTCTTTTTAATAATAAATTTTATATTTTTCA
* * ** * *
977284 ATTCAGTCCCTCTATTTTTTTATATTTTATTTATTTCTTAAATTTATTATTTATTTTAAGTC--T
185 ATTCAGTCCCTCTA-TTTTTCATAATTTCCTTATTTCTTAAATTCATCATTTATTTTAAGTCATT
** *
977347 TTTTTTACCAAATTTGAACCACATGCTCCTAAACCATTGTGTAATACATATGTACTTTCAATTCC
249 TTTTTTACCAAATTTGAACCACATGCTCCTAAACCATCATATAATACATATGTACTTTCAATTCC
* * * * *
977412 TCTTTTTAATAACAATTTTTCTATTTTTTAATTTAGTCCCTCAATTTTTTATAATTTCTTTATTT
314 TCATTTTAATAACAAATTTTATATTTTTCAATTTAGTCCCTCAATGTTTTATAATTTCTTTATTT
977477 CATCGATTCATCTTTATTTTAAGTTCGTTTTGACAAAATTTAAACCACATGCTCCTAACCATCGT
379 CATCGATTCATCTTTATTTTAAGTTCGTTTTGACAAAATTTAAACCACATGCTCCTAACCATCGT
977542 AGAATACATATATACTTTC
444 AGAATACATATATACTTTC
977561 AATTCCTCTTTTTGATAACATATTTTTTATTTTTCAATTTAGTCCCTCATTTTTTTATAATTTCC
1 AATTCCTCTTTTTGATAACA-ATTTTTTATTTTTCAATTTAGTCCCTCATTTTTTTATAATTTCC
*
977626 TTATTTCTTCAATTCATAATTTATTTTAAGTCTACCAACTTTGAACCACATGCTCCTACACCATT
65 TTATTTCTTCAATT-ATAATTTATTTTAAGT-TACCAACTTTGAACCACATGCTCCTACACCATC
* * * *
977691 GTAGAATACACATGTGCTTTCAATTCCTCTTTTTTATAATAATTTTTTTATTTTTCAATTCAGTC
128 GTAGAATACATATGTGCTTTCAATTCCTCTTTTTAATAATAAATTTTATATTTTTCAATTCAGTC
* **
977756 CCCCTATTTTTCATAATTTCCTTATTTCTCCAATTCATCATTTATTTTAAGTCTATTTTTTTTAC
193 CCTCTATTTTTCATAATTTCCTTATTTCTTAAATTCATCATTTATTTTAAGTC-ATTTTTTTTAC
*
977821 CAAATTTGAACCACATTCTCCTACAACCATCATATAATACATATGTACTTTCAATTCCT-ATTTT
257 CAAATTTGAACCACATGCTCCTA-AACCATCATATAATACATATGTACTTTCAATTCCTCATTTT
* * *
977885 GATAACAAATTTTATATTTTTCAATTTAGTCCCTTAATGTTTTATAATTTCTTTATTTCTTCGAT
321 AATAACAAATTTTATATTTTTCAATTTAGTCCCTCAATGTTTTATAATTTCTTTATTTCATCGAT
* * * * *
977950 TCATCCTTTATTTTAAGTTCTTTTTTTTACCAAATTTTAACCACATGCTCCTAAACCATTGTAGA
386 TCAT-CTTTATTTTAAGTTC--GTTTTGACAAAATTTAAACCACATGCTCCT-AACCATCGTAGA
*
978015 ATACATATGTACTTTC
447 ATACATATATACTTTC
*
978031 AATTCATCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCCTC-TTTTTTT-TCAA-TTC
1 AATTCCTCTTTTTGATAAC-AATTTTTTATTTTTCAATTTAGTCCCTCATTTTTTTAT-AATTTC
* * * *
978093 AC--CTTTATT---TTA-AGTTCA-TTT---TTACCAACTTTGAACCACATGCTCCTACACCATC
64 -CTTATTTCTTCAATTATAATTTATTTTAAGTTACCAACTTTGAACCACATGCTCCTACACCATC
* * *
978148 GTAGAACACATATGTGCTTTCAATTCCTCTTTTTGATAACAAATTTTATATTTTTCAATTCAGTC
128 GTAGAATACATATGTGCTTTCAATTCCTCTTTTTAATAATAAATTTTATATTTTTCAATTCAGTC
* * *
978213 CATCTATTTTTCATAATTTCCTTATTTCTTTAATTCATC-CTTATTTTAA---ATTTGTTTTTAC
193 CCTCTATTTTTCATAATTTCCTTATTTCTTAAATTCATCATTTATTTTAAGTCATTT-TTTTTAC
* * * * *
978274 CAAATTTGAATCACATGCTCATATACCA-CAATAGAATACCTATGTAAC-TTCAATTC
257 CAAATTTGAACCACATGCTCCTAAACCATC-ATATAATACATATGT-ACTTTCAATTC
978330 GTACTTTCTT
Statistics
Matches: 689, Mismatches: 62, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
451 1 0.00
452 29 0.04
453 29 0.04
456 9 0.01
457 126 0.18
458 1 0.00
461 3 0.00
462 5 0.01
463 113 0.16
464 21 0.03
466 98 0.14
467 52 0.08
468 4 0.01
469 38 0.06
470 129 0.19
471 25 0.04
472 6 0.01
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (462 bp):
AATTCCTCTTTTTGATAACAATTTTTTATTTTTCAATTTAGTCCCTCATTTTTTTATAATTTCCT
TATTTCTTCAATTATAATTTATTTTAAGTTACCAACTTTGAACCACATGCTCCTACACCATCGTA
GAATACATATGTGCTTTCAATTCCTCTTTTTAATAATAAATTTTATATTTTTCAATTCAGTCCCT
CTATTTTTCATAATTTCCTTATTTCTTAAATTCATCATTTATTTTAAGTCATTTTTTTTACCAAA
TTTGAACCACATGCTCCTAAACCATCATATAATACATATGTACTTTCAATTCCTCATTTTAATAA
CAAATTTTATATTTTTCAATTTAGTCCCTCAATGTTTTATAATTTCTTTATTTCATCGATTCATC
TTTATTTTAAGTTCGTTTTGACAAAATTTAAACCACATGCTCCTAACCATCGTAGAATACATATA
TACTTTC
Found at i:978131 original size:138 final size:140
Alignment explanation
Indices: 977934--978223 Score: 422
Period size: 138 Copynumber: 2.1 Consensus size: 140
977924 TTTTATAATT
* * *
977934 TCTTTATTTCTTCGATTCATCCTTTATTTTAAGTTCTTTTTTTTACCAAATTTTAACCACATGCT
1 TCTTT-TTT-TTCAATTCATCCTTTATTTTAAGTTC-TATTTTTACCAAATTTGAACCACATGCT
* * *
977999 CCTAAACCATTGTAGAATACATATGTACTTTCAATTCATCTTTTTGATAACAAATTTTTTATTTT
63 CCTAAACCATCGTAGAACACATATGTACTTTCAATTCATCTTTTTGATAACAAATTTTATATTTT
* *
978064 TCAATTTAGTCCC
128 TCAATTCAGTCCA
*
978077 TCTTTTTTTTCAATTCA-CCTTTATTTTAAGTTC-ATTTTTACCAACTTTGAACCACATGCTCCT
1 TCTTTTTTTTCAATTCATCCTTTATTTTAAGTTCTATTTTTACCAAATTTGAACCACATGCTCCT
* * *
978140 ACACCATCGTAGAACACATATGTGCTTTCAATTCCTCTTTTTGATAACAAATTTTATATTTTTCA
66 AAACCATCGTAGAACACATATGTACTTTCAATTCATCTTTTTGATAACAAATTTTATATTTTTCA
978205 ATTCAGTCCA
131 ATTCAGTCCA
*
978215 TCTATTTTT
1 TCTTTTTTT
978224 CATAATTTCC
Statistics
Matches: 134, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
138 102 0.76
140 16 0.12
141 8 0.06
142 3 0.02
143 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (140 bp):
TCTTTTTTTTCAATTCATCCTTTATTTTAAGTTCTATTTTTACCAAATTTGAACCACATGCTCCT
AAACCATCGTAGAACACATATGTACTTTCAATTCATCTTTTTGATAACAAATTTTATATTTTTCA
ATTCAGTCCA
Found at i:980691 original size:55 final size:55
Alignment explanation
Indices: 980630--980739 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
980620 TCCTTTTACT
980630 CATCAATCAATTTAATGTCATTAACTATTATCAACAGGTCATCTACATATACCAA
1 CATCAATCAATTTAATGTCATTAACTATTATCAACAGGTCATCTACATATACCAA
* *
980685 CATCAATCAATTTGATGTCATTACCTATTATCAACAGGTCATCTACATATACCAA
1 CATCAATCAATTTAATGTCATTAACTATTATCAACAGGTCATCTACATATACCAA
980740 TAAGATCACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (55 bp):
CATCAATCAATTTAATGTCATTAACTATTATCAACAGGTCATCTACATATACCAA
Found at i:986047 original size:19 final size:19
Alignment explanation
Indices: 986023--986071 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
986013 ATATAGTGAG
*
986023 GAACAAGGCTAGACTTGTT
1 GAACAAGGCTAGAATTGTT
986042 GAACAAGGCTAGAATTGTT
1 GAACAAGGCTAGAATTGTT
**
986061 GCTCAAGGCTA
1 GAACAAGGCTA
986072 TACTCAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (19 bp):
GAACAAGGCTAGAATTGTT
Found at i:989781 original size:13 final size:13
Alignment explanation
Indices: 989759--989792 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
989749 AGAGGAAGTA
*
989759 ATTTTCAAAATTG
1 ATTTTCAAAAATG
989772 A-TTTCAAAAATG
1 ATTTTCAAAAATG
989784 ATTTTCAAA
1 ATTTTCAAA
989793 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:993656 original size:31 final size:31
Alignment explanation
Indices: 993618--993773 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
993608 CCCGAAGAAC
* * *
993618 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
993649 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
993680 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
993711 CAGTCAATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
993742 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
993773 C
1 C
993774 CCTCGACCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 116 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:994745 original size:19 final size:19
Alignment explanation
Indices: 994721--994790 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
994711 TTTTATTTAG
994721 GGGGAATC-GATACCCCCCA
1 GGGGAATCTG-TACCCCCCA
*
994740 GGGGAATCTGT---TCCC-
1 GGGGAATCTGTACCCCCCA
994755 GGGGAATC-GATACCCCCCA
1 GGGGAATCTG-TACCCCCCA
994774 GGGGAATCTGTACCCCC
1 GGGGAATCTGTACCCCC
994791 TGGACATTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
14 1 0.02
15 9 0.21
16 3 0.07
18 3 0.07
19 24 0.57
20 2 0.05
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (19 bp):
GGGGAATCTGTACCCCCCA
Found at i:997847 original size:31 final size:31
Alignment explanation
Indices: 997812--997967 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
997802 CCCGAAGGAC
* * *
997812 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
997843 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
997874 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
997905 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
997936 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
997967 C
1 C
997968 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:998941 original size:19 final size:19
Alignment explanation
Indices: 998917--999024 Score: 67
Period size: 19 Copynumber: 6.1 Consensus size: 19
998907 TTTTATTTAG
998917 AGGGGAATC-GATACCCCCT
1 AGGGGAATCTG-TACCCCCT
*
998936 AGGGGAATCTGT--TCCC-
1 AGGGGAATCTGTACCCCCT
*
998952 -GGGGAATC-GATACCCCCC
1 AGGGGAATCTG-TACCCCCT
*
998970 AGGGGAATCTGT----TCT
1 AGGGGAATCTGTACCCCCT
* *
998985 CGGGGAATC-GATACCCCCC
1 AGGGGAATCTG-TACCCCCT
999004 AGGGGAATCTGTACCCCCT
1 AGGGGAATCTGTACCCCCT
999023 AG
1 AG
999025 ACATTCTGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 26
0.66 0.09 0.25
Matches are distributed among these distances:
14 2 0.03
15 19 0.28
17 6 0.09
19 37 0.55
20 3 0.04
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.19
Consensus pattern (19 bp):
AGGGGAATCTGTACCCCCT
Found at i:998961 original size:34 final size:34
Alignment explanation
Indices: 998918--999015 Score: 178
Period size: 34 Copynumber: 2.9 Consensus size: 34
998908 TTTATTTAGA
*
998918 GGGGAATCGATACCCCCTAGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGAATCTGTTCCC
*
998952 GGGGAATCGATACCCCCCAGGGGAATCTGTTCTC
1 GGGGAATCGATACCCCCCAGGGGAATCTGTTCCC
998986 GGGGAATCGATACCCCCCAGGGGAATCTGT
1 GGGGAATCGATACCCCCCAGGGGAATCTGT
999016 ACCCCCTAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (34 bp):
GGGGAATCGATACCCCCCAGGGGAATCTGTTCCC
Done.