Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold39.1
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: 3047360
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.32
Warning! 61970 characters in sequence are not A, C, G, or T
File 11 of 11
Found at i:2962298 original size:46 final size:46
Alignment explanation
Indices: 2962231--2962321 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
2962221 TGTCCCTTTG
*
2962231 TAATATCCTGAATTAGGGCTTAATCGAAATAGTGGTTTTGTGACCA
1 TAATATCCTGAATTAGGGCTTAATCGAAATAGTGGTTTCGTGACCA
*
2962277 TAATATCCTGAATTAGGGCTTAATCGGAATAGTGGTTTCGTGACC
1 TAATATCCTGAATTAGGGCTTAATCGAAATAGTGGTTTCGTGACC
2962322 GCAAATCCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (46 bp):
TAATATCCTGAATTAGGGCTTAATCGAAATAGTGGTTTCGTGACCA
Found at i:2963344 original size:77 final size:77
Alignment explanation
Indices: 2963217--2963370 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
2963207 TCAAGAGAAA
*
2963217 CGAGATTCAAGTCGCGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTT
1 CGAGATTCAAGTCGCGATCGAGAAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTT
2963282 TGGTACCAAGGT
66 TGGTACCAAGGT
*
2963294 CGAGATTCAAGTCGTGATCGAGAAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTT
1 CGAGATTCAAGTCGCGATCGAGAAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTT
2963359 TGGTACCAAGGT
66 TGGTACCAAGGT
2963371 AAGTTCATGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (77 bp):
CGAGATTCAAGTCGCGATCGAGAAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTT
TGGTACCAAGGT
Found at i:2963886 original size:286 final size:286
Alignment explanation
Indices: 2963374--2963946 Score: 1101
Period size: 286 Copynumber: 2.0 Consensus size: 286
2963364 CCAAGGTAAG
2963374 TTCATGTGTAAATAATGTAGCATAACTATTATTTTTATGTTATTGATGTTAATTATATGATATGC
1 TTCATGTGTAAATAATGTAGCATAACTATTATTTTTATGTTATTGATGTTAATTATATGATATGC
2963439 TGATTTTTATTATGAAATATATGCTTTGTGGTTATTTTCGAATAAAATGCAAATTATGTGTATTA
66 TGATTTTTATTATGAAATATATGCTTTGTGGTTATTTTCGAATAAAATGCAAATTATGTGTATTA
*
2963504 ATTGTTAAATATAAAGTGCTACCGAGTATTGGTTATGGTATTTTACGGAAGATGGCAAGGATATG
131 ATTGTTAAATATAAAGTGCTACCGAGTATTGGTTATGGTATTTTACGGAAGACGGCAAGGATATG
*
2963569 TGTTCGAGGAAAATCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGCCACTAGGA
196 TGTTCGAGGAAAATCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGCCACTAGGA
2963634 TGGTTGAGCATCCGAACTCGTTGAGT
261 TGGTTGAGCATCCGAACTCGTTGAGT
2963660 TTCATGTGTAAATAATGTAGCATAACTATTATTTTTATGTTATTGATGTTAATTATATGATATGC
1 TTCATGTGTAAATAATGTAGCATAACTATTATTTTTATGTTATTGATGTTAATTATATGATATGC
2963725 TGATTTTTATTATGAAATATATGCTTTGTGGTTATTTTCGAATAAAATGCAAATTATGTGTATTA
66 TGATTTTTATTATGAAATATATGCTTTGTGGTTATTTTCGAATAAAATGCAAATTATGTGTATTA
*
2963790 ATTGTTAAATATAAAGTGCTACCGAGTATTGGTTTTGGTATTTTACGGAAGACGGCAAGGATATG
131 ATTGTTAAATATAAAGTGCTACCGAGTATTGGTTATGGTATTTTACGGAAGACGGCAAGGATATG
* *
2963855 TGTTCGAGGAAAATCCCATTTGAACCTTAGGAATATATTAGGATACAAGTGACATGTCACTAGGA
196 TGTTCGAGGAAAATCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGCCACTAGGA
2963920 TGGTTGAGCATCCGAACTCGTTGAGT
261 TGGTTGAGCATCCGAACTCGTTGAGT
2963946 T
1 T
2963947 GAGTCCGAGT
Statistics
Matches: 282, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 282 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (286 bp):
TTCATGTGTAAATAATGTAGCATAACTATTATTTTTATGTTATTGATGTTAATTATATGATATGC
TGATTTTTATTATGAAATATATGCTTTGTGGTTATTTTCGAATAAAATGCAAATTATGTGTATTA
ATTGTTAAATATAAAGTGCTACCGAGTATTGGTTATGGTATTTTACGGAAGACGGCAAGGATATG
TGTTCGAGGAAAATCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGCCACTAGGA
TGGTTGAGCATCCGAACTCGTTGAGT
Found at i:2963980 original size:46 final size:46
Alignment explanation
Indices: 2963930--2964102 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
2963920 TGGTTGAGCA
2963930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
2963976 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
2964021 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGGTGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
2964069 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
2964103 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 56 0.56
47 27 0.27
48 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:2964086 original size:93 final size:93
Alignment explanation
Indices: 2963927--2964097 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
2963917 GGATGGTTGA
* *
2963927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
2963992 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
2964020 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGGTGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
2964084 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
2964098 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:2978253 original size:28 final size:28
Alignment explanation
Indices: 2978189--2978253 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
2978179 TACTCAATGC
* * *
2978189 CTCGCACACTAAGTGTCATACTCAATAT
1 CTCGCACACTAAGTGCCACAATCAATAT
* * *
2978217 CTTGTACACTAAGTGCCACAATCGATAT
1 CTCGCACACTAAGTGCCACAATCAATAT
2978245 CTCGCACAC
1 CTCGCACAC
2978254 AAAGAGTCGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACAATCAATAT
Found at i:2978316 original size:40 final size:40
Alignment explanation
Indices: 2978272--2978382 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
2978262 GTACATGGCT
* *
2978272 GAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCC
1 GAAGCTATGTCGAATCGCACACTAAGTGCCATATATAGCC
* *
2978312 GAAGCTATGTCGAATCGCACACTAAGTACCATATATAGCT
1 GAAGCTATGTCGAATCGCACACTAAGTGCCATATATAGCC
* * *
2978352 GAAGCTATGTCGTATCACACACAAAGTGCCA
1 GAAGCTATGTCGAATCGCACACTAAGTGCCA
2978383 AAAATAACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (40 bp):
GAAGCTATGTCGAATCGCACACTAAGTGCCATATATAGCC
Found at i:2980802 original size:12 final size:13
Alignment explanation
Indices: 2980774--2980806 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2980764 TTATTTCTTT
2980774 TTCTCCATCTACC
1 TTCTCCATCTACC
*
2980787 TTCTCC-TCTTCC
1 TTCTCCATCTACC
2980799 TTCTCCAT
1 TTCTCCAT
2980807 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:2981905 original size:28 final size:28
Alignment explanation
Indices: 2981873--2981937 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
2981863 ATTTACTAGA
*
2981873 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
2981901 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
2981929 ATACCCCTA
1 ATACCCCTA
2981938 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:2982101 original size:27 final size:27
Alignment explanation
Indices: 2982043--2982132 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
2982033 AGGAAGCGTC
2982043 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
2982071 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
2982098 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
2982127 CTGGTG
1 CTGGTG
2982133 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:2982151 original size:55 final size:56
Alignment explanation
Indices: 2982043--2982157 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
2982033 AGGAAGCGTC
* *
2982043 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
2982098 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
2982154 CTGG
1 CTGG
2982158 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:2982620 original size:19 final size:19
Alignment explanation
Indices: 2982596--2982634 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2982586 TTTTAATTAT
* *
2982596 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
2982615 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
2982634 T
1 T
2982635 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:2984988 original size:47 final size:47
Alignment explanation
Indices: 2984886--2985006 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 47
2984876 AATCGATAAG
* * * * *
2984886 TACCTATACCATGGCCTATAGCTAAATCAAGGTAACTTATCCCAGAG
1 TACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCATCCAAAAA
* * * *
2984933 TACCTATACCATTGCCTATAGCCAAATCAAGGTAGCTCCTCTAAAAA
1 TACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCATCCAAAAA
* * *
2984980 TACTTATACCATGGCATGTAGCCAAAT
1 TACCTATACCATGGCCTATAGCCAAAT
2985007 TGGGCCAACA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (47 bp):
TACCTATACCATGGCCTATAGCCAAATCAAGGTAACTCATCCAAAAA
Found at i:2985347 original size:27 final size:26
Alignment explanation
Indices: 2985280--2985388 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 26
2985270 GGAAGCGTTA
2985280 TGGTGGCTATGCCACAAATATCTGTTTC
1 TGGTGGCTATGCCAC-AATATCTG-TTC
2985308 TGGTGGCTATGCCACAAATATCTGTTC
1 TGGTGGCTATGCCAC-AATATCTGTTC
* *
2985335 TGGTGGCTCTGCCACAATACCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TC
* * *
2985362 TGGTGACTCTGTCACAATATCTGTTC
1 TGGTGGCTATGCCACAATATCTGTTC
2985388 T
1 T
2985389 AGCAGCCATG
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
26 11 0.15
27 40 0.53
28 24 0.32
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTC
Found at i:2986637 original size:47 final size:47
Alignment explanation
Indices: 2986580--2986710 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 47
2986570 CACAATCGAT
* * *
2986580 AAATACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATGTCG
1 AAATACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCA
* * * * * * * *
2986627 GAGTACCTATACCAAGGCCCAGAGCCATATCCAGGTAGCTCCTCTCA
1 AAATACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCA
*
2986674 AAATACCTATACCATGG-CCAGTAGCCAAACCAAGGTA
1 AAATACCTATACCATGGCCCA-TAGCCAAATCAAGGTA
2986711 TTATTCGCAC
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
46 3 0.05
47 62 0.95
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (47 bp):
AAATACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCA
Found at i:2992060 original size:43 final size:43
Alignment explanation
Indices: 2991972--2992086 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
2991962 TGTGTTCTCG
* * * * *
2991972 TGTAAGACAAAGTCT-GAGACGTTGGCATCG-GATTTGATTTCA
1 TGTAAGACCATGTCTAG-GACGTTGGCATTGATATTTGATTACA
*
2992014 TGTAAGACCCTGTCTAGGACAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCATGTCTAGGAC-GTTGGCATTGATATTTGATTACA
*
2992057 TGTAAGACCATGTCTGGGACGTTGGCATTG
1 TGTAAGACCATGTCTAGGACGTTGGCATTG
2992087 TACAAGCTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 23 0.38
43 38 0.62
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACGTTGGCATTGATATTTGATTACA
Found at i:2995491 original size:47 final size:47
Alignment explanation
Indices: 2995422--2995601 Score: 148
Period size: 47 Copynumber: 3.7 Consensus size: 47
2995412 TTTGAGAGCC
* *
2995422 AGTGTAGGACATGTCTAGGACATGCATCGGCCTCAACAGAGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATAGCT
* * * *
2995469 AGTGTACGACGTGTCTGGGACATGCATCGG-CT-AAGAGTTGTGCTAGTGTAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACA-----G--AG-ATA--GCT
* * *
2995524 AGTGTAAGACATGTCTGGGACATGCATCGTCCTCAACAGAAAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATAGCT
* * *
2995571 AGTGTAAGACGTGTTTGGGACACGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
2995602 TATGTAACGC
Statistics
Matches: 105, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
45 3 0.03
46 2 0.02
47 57 0.54
49 1 0.01
50 2 0.02
52 3 0.03
53 2 0.02
55 30 0.29
56 2 0.02
57 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATAGCT
Found at i:2997518 original size:47 final size:47
Alignment explanation
Indices: 2997455--2998004 Score: 763
Period size: 47 Copynumber: 11.6 Consensus size: 47
2997445 CCCTTCGGGA
* * *
2997455 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2997502 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
2997549 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCTGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
2997596 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
2997643 CTTATCACACATACT-CA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATA-TACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
2997690 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
2997737 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
2997784 CTTATCACACATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTAT--CAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
2997835 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2997882 CTTATCACATATATACACTTTCACATTCATCACATTGGCCA-TCAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTC-GGC
*
2997929 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2997978 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
2998005 TATTCAAATA
Statistics
Matches: 460, Mismatches: 31, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
46 3 0.01
47 367 0.80
49 50 0.11
50 1 0.00
51 38 0.08
52 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:2999520 original size:56 final size:56
Alignment explanation
Indices: 2999453--2999572 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
2999443 TATTAGTTTA
2999453 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2999509 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2999565 TTGCCCAT
1 TTGCCCAT
2999573 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:3005761 original size:28 final size:27
Alignment explanation
Indices: 3005718--3005832 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
3005708 GGAGGAAGCA
*
3005718 TTCTGGTGGCTATGCCACAAATATTTG
1 TTCTGGTGGCTATGCCACAAATATCTG
*
3005745 TTTTTGGTGGCTATGCCACAAATATCTG
1 -TTCTGGTGGCTATGCCACAAATATCTG
* * *
3005773 TTCTGGTGGCTCTCCCAC-AATATCCG
1 TTCTGGTGGCTATGCCACAAATATCTG
* * *
3005799 TATCTGGTGACTCTGTCAC-AATATCTG
1 T-TCTGGTGGCTATGCCACAAATATCTG
3005826 TTCTGGT
1 TTCTGGT
3005833 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
26 14 0.18
27 37 0.49
28 25 0.33
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAAATATCTG
Found at i:3007075 original size:47 final size:47
Alignment explanation
Indices: 3007018--3007148 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 47
3007008 CACAATCGAT
* * *
3007018 AAATACCTATACAATGGCCCGTAGCCAAATCAAGGTAACTTATGC-CG
1 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCAT-CTCA
* * * * * * *
3007065 GAGTACCTATACCATAGCCCAG-AGCCATATCCAGGTAGCTCCTCTCA
1 AAATACCTATACCATGGCCC-GTAGCCAAATCAAGGTAACTCATCTCA
*
3007112 AAATACCTATACCATGGCCCGTAGCCAAACCAAGGTA
1 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
3007149 TTATTCGCAC
Statistics
Matches: 65, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
46 2 0.03
47 62 0.95
48 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.20
Consensus pattern (47 bp):
AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCA
Found at i:3013491 original size:63 final size:63
Alignment explanation
Indices: 3013379--3013700 Score: 565
Period size: 63 Copynumber: 5.1 Consensus size: 63
3013369 ACATTTCCAA
* *
3013379 CCCTTATATTCATAAATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAG
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
** * * *
3013442 CGAATAATATTTA-AAATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 C-CCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3013505 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3013568 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3013631 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3013694 CCCTTAT
1 CCCTTAT
3013701 GAGCTTCCTA
Statistics
Matches: 247, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
62 7 0.03
63 233 0.94
64 7 0.03
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (63 bp):
CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
Found at i:3020542 original size:63 final size:63
Alignment explanation
Indices: 3020207--3020529 Score: 576
Period size: 63 Copynumber: 5.1 Consensus size: 63
3020197 ACATTTCCAA
*
3020207 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAG
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
** * * *
3020270 CGAATAATATTTA-AAATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 C-CCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3020333 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3020396 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3020459 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
1 CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
3020522 CCCTTATA
1 CCCTTATA
3020530 AAGCTTCCTA
Statistics
Matches: 247, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
62 7 0.03
63 233 0.94
64 7 0.03
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (63 bp):
CCCTTATATTCATACATAAGGGATCAACTTAACCAAAGGCCGGAAGCTTATTAATCGACTGAT
Found at i:3022813 original size:36 final size:36
Alignment explanation
Indices: 3022766--3022838 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3022756 AGCTCGAGAG
3022766 ATCAAAGAGCTAAAAAATAAATGCATAGATTTAATA
1 ATCAAAGAGCTAAAAAATAAATGCATAGATTTAATA
3022802 ATCAAAGAGCTAAAAAATAAATGCATAGATTTAATA
1 ATCAAAGAGCTAAAAAATAAATGCATAGATTTAATA
3022838 A
1 A
3022839 AAGTCTTCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (36 bp):
ATCAAAGAGCTAAAAAATAAATGCATAGATTTAATA
Found at i:3024125 original size:29 final size:29
Alignment explanation
Indices: 3024092--3024149 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
3024082 ATTCGACGAT
3024092 GATTCAACAATTAGAAGTCCGGTTGAACC
1 GATTCAACAATTAGAAGTCCGGTTGAACC
*
3024121 GATTCAACAATTGGAAGTCCGGTTGAACC
1 GATTCAACAATTAGAAGTCCGGTTGAACC
3024150 TTAAGAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (29 bp):
GATTCAACAATTAGAAGTCCGGTTGAACC
Found at i:3024289 original size:29 final size:28
Alignment explanation
Indices: 3024241--3024295 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
3024231 GTGAGATAAA
* *
3024241 CTAATTTGGATTCGGGCCATGCATATCGG
1 CTAATTTGGATTCAGACCATG-ATATCGG
*
3024270 CTAATTTGGCTTCAGACCATGATATC
1 CTAATTTGGATTCAGACCATGATATC
3024296 AGTATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (28 bp):
CTAATTTGGATTCAGACCATGATATCGG
Found at i:3037453 original size:22 final size:22
Alignment explanation
Indices: 3037427--3037470 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3037417 GAAAATAATC
*
3037427 AAAATTAATAAAAATTTATTAT
1 AAAATTAATAAAAATTCATTAT
* *
3037449 AAAATTATTTAAAATTCATTAT
1 AAAATTAATAAAAATTCATTAT
3037471 GTTAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATAAAAATTCATTAT
Found at i:3040653 original size:27 final size:27
Alignment explanation
Indices: 3040623--3040685 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
3040613 TTAGTTTACC
3040623 AAATTACTGAAATACCCTCGATTTAAA
1 AAATTACTGAAATACCCTCGATTTAAA
*** * *
3040650 AAATTACTGTTTTATCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTAAA
*
3040677 GAATTACTG
1 AAATTACTG
3040686 TTTTACCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTAAA
Found at i:3040686 original size:27 final size:27
Alignment explanation
Indices: 3040635--3040881 Score: 300
Period size: 27 Copynumber: 9.2 Consensus size: 27
3040625 ATTACTGAAA
* * *
3040635 TACCCTCGATTTAAAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
3040662 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
3040689 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
3040716 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
3040743 TACCCTCGATTTACA-AA-TACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
3040768 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
3040795 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
3040822 TACCCTCAATTTATTGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
3040849 TACCTTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
3040876 TCCCCT
1 TACCCT
3040882 ACGGTGTTAA
Statistics
Matches: 191, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
25 20 0.10
26 4 0.02
27 167 0.87
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:3040811 original size:106 final size:107
Alignment explanation
Indices: 3040635--3040881 Score: 334
Period size: 106 Copynumber: 2.3 Consensus size: 107
3040625 ATTACTGAAA
* * **
3040635 TACCCTCGATTTAAAAAATTACTGTTTTATCCTCGATTTACAGAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTT-AAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
* **
3040700 TATAGAATTACCGTTTTACCCTTGATTTATAGAATTACCGTTT
65 TATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTT
* * **
3040743 TACCCTCGATTTACAAA-TACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTT
1 TACCCTCGATTTAAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTT
*
3040807 ATAGAATTACCATTTTACCCTCAATTTATTGAATTACCGTTT
66 ATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTT
* * *
3040849 TACCTTCGATTTATAAAATTACCATTTTCCCCT
1 TACCCTCGATTTA-AAAATTACTATTTTACCCT
3040882 ACGGTGTTAA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
106 90 0.74
107 7 0.06
108 24 0.20
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (107 bp):
TACCCTCGATTTAAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTT
ATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTT
Found at i:3040844 original size:133 final size:133
Alignment explanation
Indices: 3040635--3040881 Score: 361
Period size: 133 Copynumber: 1.9 Consensus size: 133
3040625 ATTACTGAAA
** * **
3040635 TACCCTCGATTTAAAAAATTACTGTTTTATCCTCGATTTACAGAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTTAAAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
* *
3040700 TATAGAATTACCGTTTTACCCTT-GATTTATAGAATTACCGTTTTACCCTCGATTTACAAATACT
66 TATAGAATTACCGTTTTA-CCTTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAATACT
3040764 ATTT
130 ATTT
* * * *
3040768 TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTAAAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
* *
3040833 TATTGAATTACCGTTTTACCTTCGATTTATAAAATTACCATTTTCCCCT
66 TATAGAATTACCGTTTTACCTTCGATTTATAAAATTACCATTTTACCCT
3040882 ACGGTGTTAA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
132 4 0.04
133 96 0.96
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (133 bp):
TACCCTCGATTTAAAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
TATAGAATTACCGTTTTACCTTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAATACTA
TTT
Found at i:3041159 original size:27 final size:26
Alignment explanation
Indices: 3041115--3041166 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
3041105 CTCGCTGCAA
*
3041115 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
3041142 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
3041167 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:3042326 original size:50 final size:50
Alignment explanation
Indices: 3042267--3042372 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 50
3042257 ACTATCTAGG
3042267 AAGAAATCATATATTTTT-CCATCAAATCTGTCCAACACCTTATTAGGGAA
1 AAGAAATCATATATTTTTCCCATCAAATCTGTCCAACACCTTATT-GGGAA
* * *
3042317 AAGAAATCATATTTTTTTCCCATCAAATCTGTCCAACATCTTATTGGGGA
1 AAGAAATCATATATTTTTCCCATCAAATCTGTCCAACACCTTATTGGGAA
3042367 AAGAAA
1 AAGAAA
3042373 ACTTGGAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 27 0.52
51 25 0.48
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (50 bp):
AAGAAATCATATATTTTTCCCATCAAATCTGTCCAACACCTTATTGGGAA
Found at i:3045696 original size:50 final size:50
Alignment explanation
Indices: 3045564--3046115 Score: 583
Period size: 50 Copynumber: 11.0 Consensus size: 50
3045554 GTAATCGAAG
* * * *
3045564 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
** *
3045613 AAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * *
3045663 CCATCTGATACACGTAGTAACCTACACTTAGTACTACACATGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * *
3045713 GTTGTCTGGTACGCATAGTAGCGTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
*
3045764 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
3045814 CCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * *
3045864 GTTTTCGGGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
3045915 CTATCTGGTACACATAGTAGCGTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
3045965 CCATCTGATACACGTAGTAGCGTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * *
3046015 GT-TTTCGAGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAA
1 CTATCT-G-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
*
3046066 CTATCTGGTACACGTAGTAGACTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
3046116 AACCATTTTA
Statistics
Matches: 412, Mismatches: 79, Indels: 23
0.80 0.15 0.04
Matches are distributed among these distances:
49 46 0.11
50 252 0.61
51 109 0.26
52 5 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:3045751 original size:101 final size:100
Alignment explanation
Indices: 3045564--3046111 Score: 593
Period size: 101 Copynumber: 5.5 Consensus size: 100
3045554 GTAATCGAAG
* * * * * ** * *
3045564 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAAAAATCCGGTACACGT
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACTATCTGGTACACAT
3045628 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
66 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * * * *
3045663 CCATCTGATACACGTAGTAACCTACACTTAGTACTACACATGTGA-TTGAAGTTGTCTGGTACGC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTT-AA-CTATCTGGTACAC
* * *
3045727 ATAGTAGCGTGCACTTAGTACTACACATGCGACCTAA
64 ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * *
3045764 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGT
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACTATCTGGTACACAT
* *
3045829 AGTAGCCTACACTTAGTACTACACACGTGA-TTGAA
66 AGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * * *
3045864 GTTTTCGGGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACTATCTGGTACACA
*
3045929 TAGTAGCGTGCACTTAGTACTACACACGTGACCTAA
65 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * *
3045965 CCATCTGATACACGTAGTAGCGTGCACTTAGTACTACACACGTGA-TTGAAGT-TTTCGAGTACG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTT-AACTATCT-G-GTACA
* * *
3046028 CATAGTAGCTTGCACTTAGTACTACACATGCGACCTAA
63 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
*
3046066 CTATCTGGTACACGTAGTAGACTGCACTTAGTACTACACACGTGAC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
3046112 CTAAAACCAT
Statistics
Matches: 368, Mismatches: 70, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
99 42 0.11
100 77 0.21
101 246 0.67
102 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACTATCTGGTACACAT
AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:3045840 original size:151 final size:151
Alignment explanation
Indices: 3045567--3046115 Score: 931
Period size: 151 Copynumber: 3.6 Consensus size: 151
3045557 ATCGAAGCTA
** *
3045567 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAAAATCCGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGT
*
3045631 AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAACCTACACTTAGTA
66 AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTA
* *
3045696 CTACACATGTGATTGAAGTTG
131 CTACACACGTGATTGAAGTTT
*
3045717 TCTGGTACGCATAGTAGCGTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGT
*
3045782 AGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTA
66 AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTA
3045847 CTACACACGTGATTGAAGTTT
131 CTACACACGTGATTGAAGTTT
* * *
3045868 TCGGGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACATAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGT
* * *
3045933 AGCGTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCGTGCACTTAGTA
66 AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTA
3045998 CTACACACGTGATTGAAGTTT
131 CTACACACGTGATTGAAGTTT
*
3046019 TC-GAGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAG
1 TCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAG
*
3046083 TAGACTGCACTTAGTACTACACACGTGACCTAA
65 TAGCCTGCACTTAGTACTACACACGTGACCTAA
3046116 AACCATTTTA
Statistics
Matches: 376, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
150 44 0.12
151 332 0.88
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (151 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTA
CTACACACGTGATTGAAGTTT
Found at i:3047236 original size:97 final size:97
Alignment explanation
Indices: 3047122--3047314 Score: 359
Period size: 97 Copynumber: 2.0 Consensus size: 97
3047112 GAATATGGGG
* *
3047122 TTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAAT
1 TTTTAAATTATGTTAGACAACCTGTGCTACCCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAAT
3047187 CGACAAAAATACCTAATAGTCACAAGTATATT
66 CGACAAAAATACCTAATAGTCACAAGTATATT
3047219 TTTTAAATTATGTTAGACAACCTGTGCTACCCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAAT
1 TTTTAAATTATGTTAGACAACCTGTGCTACCCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAAT
*
3047284 CGGCAAAAATACCTAATAGTCACAAGTATAT
66 CGACAAAAATACCTAATAGTCACAAGTATAT
3047315 GTTACAGAGA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (97 bp):
TTTTAAATTATGTTAGACAACCTGTGCTACCCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAAT
CGACAAAAATACCTAATAGTCACAAGTATATT
Done.