Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005568.1 Hibiscus syriacus cultivar Beakdansim tig00012915_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: 154668
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:409 original size:18 final size:19
Alignment explanation
Indices: 386--425 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
376 TTTCATTAAA
386 AACCGAAAAA-CCGAACCG
1 AACCGAAAAACCCGAACCG
404 AACCGAAAAACCCGAACCG
1 AACCGAAAAACCCGAACCG
423 AAC
1 AAC
426 TGAACCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.50, C:0.35, G:0.15, T:0.00
Consensus pattern (19 bp):
AACCGAAAAACCCGAACCG
Found at i:1013 original size:20 final size:18
Alignment explanation
Indices: 990--1031 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
980 TTTTTTTATG
990 TTTTTTAATATTTGTAATAA
1 TTTTTTAATATTT-TAAT-A
1010 TTTTTTAATATTTTAATA
1 TTTTTTAATATTTTAATA
1028 TTTT
1 TTTT
1032 GTTTTATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 4 0.18
20 13 0.59
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTTAATATTTTAATA
Found at i:1092 original size:22 final size:20
Alignment explanation
Indices: 1060--1124 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 20
1050 CTTCTTGCGA
1060 TTTTTTA-AATTTTGAATACTT
1 TTTTTTATAATTTT-AATA-TT
1081 TTTTTTATAATTCTTAATATT
1 TTTTTTATAATT-TTAATATT
* *
1102 TATTTTCTATTATTTTACTATT
1 T-TTTT-TATAATTTTAATATT
1124 T
1 T
1125 AAATTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.26
22 20 0.53
23 8 0.21
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTTATAATTTTAATATT
Found at i:1107 original size:21 final size:21
Alignment explanation
Indices: 1062--1107 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1052 TCTTGCGATT
*
1062 TTTTAAATTTTGAATACTTTT
1 TTTTAAATTTTGAATACTTTA
1083 TTTTATAATTCTT-AATA-TTTA
1 TTTTA-AATT-TTGAATACTTTA
1104 TTTT
1 TTTT
1108 CTATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 12 0.55
22 8 0.36
23 2 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTAAATTTTGAATACTTTA
Found at i:3040 original size:142 final size:142
Alignment explanation
Indices: 2784--3070 Score: 574
Period size: 142 Copynumber: 2.0 Consensus size: 142
2774 TTCATCCTTT
2784 CTTCAATACAATAACTTTCAATTTTCAATTATAATTTCACAACTTTCACCTTTTCAATTTCAATT
1 CTTCAATACAATAACTTTCAATTTTCAATTATAATTTCACAACTTTCACCTTTTCAATTTCAATT
2849 CATCTCTAGATAGATCTACTATGATATCTCTAGCAGTTTATCTCAACGCTTATGTGGTTCATAGT
66 CATCTCTAGATAGATCTACTATGATATCTCTAGCAGTTTATCTCAACGCTTATGTGGTTCATAGT
2914 CATCTCTCATAA
131 CATCTCTCATAA
2926 CTTCAATACAATAACTTTCAATTTTCAATTATAATTTCACAACTTTCACCTTTTCAATTTCAATT
1 CTTCAATACAATAACTTTCAATTTTCAATTATAATTTCACAACTTTCACCTTTTCAATTTCAATT
2991 CATCTCTAGATAGATCTACTATGATATCTCTAGCAGTTTATCTCAACGCTTATGTGGTTCATAGT
66 CATCTCTAGATAGATCTACTATGATATCTCTAGCAGTTTATCTCAACGCTTATGTGGTTCATAGT
3056 CATCTCTCATAA
131 CATCTCTCATAA
3068 CTT
1 CTT
3071 GTGGATGAAT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 145 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (142 bp):
CTTCAATACAATAACTTTCAATTTTCAATTATAATTTCACAACTTTCACCTTTTCAATTTCAATT
CATCTCTAGATAGATCTACTATGATATCTCTAGCAGTTTATCTCAACGCTTATGTGGTTCATAGT
CATCTCTCATAA
Found at i:3185 original size:32 final size:32
Alignment explanation
Indices: 3049--3211 Score: 109
Period size: 32 Copynumber: 5.0 Consensus size: 32
3039 CTTATGTGGT
* * *
3049 TCATAGTCATCTCTCATAACTTGTGGATGAA-
1 TCATAATCATCTCTCATAACTTGTAGAAGAAC
* * * *
3080 TCTATATTCACCTCTCAT-ACTTGTAGAGGAAT
1 TC-ATAATCATCTCTCATAACTTGTAGAAGAAC
* * *
3112 TCATAATGATCATCTATCAAAAC-T-TACGAAGGTAC
1 TCAT-A--ATCATCTCTCATAACTTGTA-GAA-GAAC
* *
3147 TTATAATCATCTCTCATAACTTGCAGAAGAAC
1 TCATAATCATCTCTCATAACTTGTAGAAGAAC
* * *
3179 TCATAATCATTTCTCATAAATTGTAGATGAAC
1 TCATAATCATCTCTCATAACTTGTAGAAGAAC
3211 T
1 T
3212 ACGATCATCT
Statistics
Matches: 101, Mismatches: 21, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
31 15 0.15
32 60 0.59
33 6 0.06
34 13 0.13
35 7 0.07
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (32 bp):
TCATAATCATCTCTCATAACTTGTAGAAGAAC
Found at i:6580 original size:17 final size:17
Alignment explanation
Indices: 6560--6595 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6550 AAAGTGCTGC
6560 AACAAAAGAAAAAGAAA
1 AACAAAAGAAAAAGAAA
*
6577 AACAAAAGAGAAAGAAA
1 AACAAAAGAAAAAGAAA
6594 AA
1 AA
6596 TACTCCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.06, G:0.14, T:0.00
Consensus pattern (17 bp):
AACAAAAGAAAAAGAAA
Found at i:6830 original size:15 final size:16
Alignment explanation
Indices: 6792--6833 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
6782 GAGTTGTAAG
*
6792 TTATCTTCATTTTCTCT
1 TTAT-TTCATTTCCTCT
6809 TTATTTCATTTCCT-T
1 TTATTTCATTTCCTCT
*
6824 TTCTTTCATT
1 TTATTTCATT
6834 CTTTCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 9 0.39
17 4 0.17
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTCATTTCCTCT
Found at i:11171 original size:8 final size:8
Alignment explanation
Indices: 11160--11199 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
11150 CGCCAACAAG
11160 GCTAGAAA
1 GCTAGAAA
*
11168 GCTAGCAA
1 GCTAGAAA
11176 GCTAGAAA
1 GCTAGAAA
*
11184 GCTATAAA
1 GCTAGAAA
11192 GCTAGAAA
1 GCTAGAAA
11200 TAAAGAACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (8 bp):
GCTAGAAA
Found at i:18598 original size:19 final size:19
Alignment explanation
Indices: 18576--18613 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18566 GGGTCAGACC
* *
18576 GGTTCGGACTGGTCAAACT
1 GGTTCAGACCGGTCAAACT
18595 GGTTCAGACCGGTCAAACT
1 GGTTCAGACCGGTCAAACT
18614 AGTCAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (19 bp):
GGTTCAGACCGGTCAAACT
Found at i:22063 original size:20 final size:20
Alignment explanation
Indices: 22038--22085 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
22028 CATACGATAA
22038 GGAGCCATTGAAATTGGGGT
1 GGAGCCATTGAAATTGGGGT
22058 GGAGCCATTGAAATTGGGGT
1 GGAGCCATTGAAATTGGGGT
*
22078 GGAACCAT
1 GGAGCCAT
22086 AATAGACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.38, T:0.23
Consensus pattern (20 bp):
GGAGCCATTGAAATTGGGGT
Found at i:28982 original size:600 final size:590
Alignment explanation
Indices: 27807--28999 Score: 2206
Period size: 600 Copynumber: 2.0 Consensus size: 590
27797 GGGCAAGCAA
27807 CCAATCCTTCGTTGCTACAAAGCGATCAAGTCTCTCAACAATAAAGGAGAATCACAATTACCATG
1 CCAATCCTTCGTTGCTACAAAGCGATCAAGTCTCTCAACAATAAAGGAGAATCACAATTACCATG
*
27872 AATCCAAGTGAACCATCCCTTAGATGGTCGGCAGTCAATGAGATTATTCTTATCAATAGCATATC
66 AATACAAGTGAACCATCCCTTAGATGGTCGGCAGTCAATGAGATTATTCTTATCAATAGCATATC
** *
27937 TAAATTCTTCAAGATGAACTCTATGCTTTTTCCTACCCCCACTTTTCTCAGAATCCGTTAACACT
131 TAAATTCTTCAAGATGAACTCTATGCTTTCGCCTACCCCCACTTTTCTCACAATCCGTTAACACT
28002 TCATTAAAATCACCGCCAACTATCCAAGGTAGTGAGGAAGCATGACCTAGAGTATCAAGTAGGTT
196 TCATTAAAATCACCGCCAACTATCCAAGGTAGTGAGGAAGCATGACCTAGAGTATCAAGTAGGTT
*
28067 CCATGTTTCAAGCTTATGATTAGCATTGGAATGACCGTATATACCAGCAAATCGGTAACAGGTAT
261 CCATGTTTCAAGCTTATGATTAGCATTGGAATGACCGTATATACCAGCAAATCGGTAACAAGTAT
28132 TATCAGTTTTAATTGTTATATCAATATGATTTGGTGAGTAAGACAAAAGTTCAACGTCAATATTA
326 TATCAGTTTTAATTGTTATATCAATATGATTTGGTGAGTAAGACAAAAGTTCAACGTCAATATTA
*
28197 TTAATCCAAATCATCACAAGGCCAGTACATTGAGAATCACAATCCACTGTAAAACAATCATGTAT
391 TTAATCCAAAGCATCACAAGGCCAGTACATTGAGAATCACAATCCACTGTAAAACAATCATGTAT
28262 ACCTAACTTGAACAAATTCACTCTTATTCTATCTTAACCTAGTCTCACTTAAAAAATAACTGAAG
456 ACCTAACTTGAACAAATTCACTCTTATTCTATCTTAACCTAGTCTCACTTAAAAAATAACTGAAG
* *
28327 TGGAACGATTGGCGATAAAACACCTAAGATACGAAAGCATTCTTTGGTGCAGTAGGATTCGAAAC
521 TAGAACGAATGGCGATAAAACACCTAAGATACGAAAGCATTCTTTGGTGCAGTAGGATTCGAAAC
28392 ACTGT
586 ACTGT
*
28397 CCAATCCTTCGTTGCTACAAAGCGATCAAGTCTCTCAACAATAGTAGGAGAATCACAATTACCAT
1 CCAATCCTTCGTTGCTACAAAGCGATCAAGTCTCTCAACAATA-AAGGAGAATCACAATTACCAT
28462 GAATACAAGTGAACCATCCCTTAGATGGTCGGCAGTCAATGAGATTATTCTTATCAATAGCATAT
65 GAATACAAGTGAACCATCCCTTAGATGGTCGGCAGTCAATGAGATTATTCTTATCAATAGCATAT
28527 CTAAATTCTTCAAGATGAACTCTATGCTTTCGCCTACCCCCACTTTTCTCACAATCCGTTAACAC
130 CTAAATTCTTCAAGATGAACTCTATGCTTTCGCCTACCCCCACTTTTCTCACAATCCGTTAACAC
28592 TTCATTAAAATCACCGCCAACTATCCAAGGTAGTGAGGAAGCATGACCTAGAGTATCAAGTAGGT
195 TTCATTAAAATCACCGCCAACTATCCAAGGTAGTGAGGAAGCATGACCTAGAGTATCAAGTAGG-
*
28657 TCCATCACTTCCATTTTTCAAGCTTATGATTAGCATTGGAATGACCGTATATACCAGCAAATCGG
259 --------TTCCATGTTTCAAGCTTATGATTAGCATTGGAATGACCGTATATACCAGCAAATCGG
28722 TAACAAGTATTATCAGTTTTAATTGTTATATCAATATGATTTGGTGAGTAAGACAAAAGTTCAAC
316 TAACAAGTATTATCAGTTTTAATTGTTATATCAATATGATTTGGTGAGTAAGACAAAAGTTCAAC
28787 GTCAATATTATTAATCCAAAGCATCACAAGGCCAGTACATTGAGAATCACAATCCACTGTAAAAC
381 GTCAATATTATTAATCCAAAGCATCACAAGGCCAGTACATTGAGAATCACAATCCACTGTAAAAC
28852 AATCATGTATACCTAACTTGAACAAATTCACTCTTATTCTATCTTAACCTAGTCTCACTTAAAAA
446 AATCATGTATACCTAACTTGAACAAATTCACTCTTATTCTATCTTAACCTAGTCTCACTTAAAAA
28917 ATAACTGAAGTAGAACGAATGGCGATAAAACACCTAAGATACGAAAGCATTCTTTGGTGCAGTAG
511 ATAACTGAAGTAGAACGAATGGCGATAAAACACCTAAGATACGAAAGCATTCTTTGGTGCAGTAG
28982 GATTCGAAACACTGT
576 GATTCGAAACACTGT
28997 CCA
1 CCA
29000 CCTTAGTCTT
Statistics
Matches: 583, Mismatches: 10, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
590 43 0.07
591 210 0.36
600 330 0.57
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (590 bp):
CCAATCCTTCGTTGCTACAAAGCGATCAAGTCTCTCAACAATAAAGGAGAATCACAATTACCATG
AATACAAGTGAACCATCCCTTAGATGGTCGGCAGTCAATGAGATTATTCTTATCAATAGCATATC
TAAATTCTTCAAGATGAACTCTATGCTTTCGCCTACCCCCACTTTTCTCACAATCCGTTAACACT
TCATTAAAATCACCGCCAACTATCCAAGGTAGTGAGGAAGCATGACCTAGAGTATCAAGTAGGTT
CCATGTTTCAAGCTTATGATTAGCATTGGAATGACCGTATATACCAGCAAATCGGTAACAAGTAT
TATCAGTTTTAATTGTTATATCAATATGATTTGGTGAGTAAGACAAAAGTTCAACGTCAATATTA
TTAATCCAAAGCATCACAAGGCCAGTACATTGAGAATCACAATCCACTGTAAAACAATCATGTAT
ACCTAACTTGAACAAATTCACTCTTATTCTATCTTAACCTAGTCTCACTTAAAAAATAACTGAAG
TAGAACGAATGGCGATAAAACACCTAAGATACGAAAGCATTCTTTGGTGCAGTAGGATTCGAAAC
ACTGT
Found at i:33594 original size:168 final size:167
Alignment explanation
Indices: 33301--33633 Score: 553
Period size: 168 Copynumber: 2.0 Consensus size: 167
33291 TATTTTAGGA
33301 TTAGAATATTTGTTTTGTCTGATAAGGAAAAAAGGTGGGGTTTATTCAAACTTCAGGGAAAAATC
1 TTAGAATATTTGTTTTGTCTGATAAGGAAAAAAGGTGGGGTTTATTCAAACTTCAGGGAAAAATC
* *
33366 ACGTAGAGCCTCTCCCTATTTTAGCCTTTTCTTCGTTTTAGCCACTACTTCTGCGATTAATCATG
66 ACGTAGAGCCTCTCCCTATTTCAGCCTTTTCTTCGTTTTAGCCACTACTTCTGCGATTAATCACG
*
33431 CTTCATTCCTCAAACTTTATGTGTGTATTTACGATGG
131 CTTCAGTCCTCAAACTTTATGTGTGTATTTACGATGG
*
33468 TTAGAATATTTGTTTTGTCTGGTAAGGAAAAAAGGTGGGGTTTATTTCAAACTTCAGGGAAAAAT
1 TTAGAATATTTGTTTTGTCTGATAAGGAAAAAAGGTGGGGTTTA-TTCAAACTTCAGGGAAAAAT
* * * *
33533 CACGTAGAGGCTCTCCCTCA-TTCAGCCTTTTCTTTGTTTTAG-CATCTACTTTTGTGATTAATC
65 CACGTAGAGCCTCTCCCT-ATTTCAGCCTTTTCTTCGTTTTAGCCA-CTACTTCTGCGATTAATC
33596 ACGCTTCAGTCCTCAAACTTTATGTGTGTATTTACGAT
128 ACGCTTCAGTCCTCAAACTTTATGTGTGTATTTACGAT
33634 CTGGTCATTG
Statistics
Matches: 155, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
167 45 0.29
168 109 0.70
169 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (167 bp):
TTAGAATATTTGTTTTGTCTGATAAGGAAAAAAGGTGGGGTTTATTCAAACTTCAGGGAAAAATC
ACGTAGAGCCTCTCCCTATTTCAGCCTTTTCTTCGTTTTAGCCACTACTTCTGCGATTAATCACG
CTTCAGTCCTCAAACTTTATGTGTGTATTTACGATGG
Found at i:41362 original size:16 final size:16
Alignment explanation
Indices: 41341--41378 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
41331 CATTTAAATC
41341 TGAAAATTGAAATTTT
1 TGAAAATTGAAATTTT
*
41357 TGAAAATTTAAATTTT
1 TGAAAATTGAAATTTT
41373 TGAAAA
1 TGAAAA
41379 GTAAGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (16 bp):
TGAAAATTGAAATTTT
Found at i:41777 original size:233 final size:226
Alignment explanation
Indices: 41357--42059 Score: 812
Period size: 233 Copynumber: 3.1 Consensus size: 226
41347 TTGAAATTTT
*
41357 TGAAAATTTAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACT-TTTCCAAATCGGAA
1 TGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAT-GG-A
* * * * *
41421 AGTCATTCGGGCAATCGGTAAGTCTTTCGAGCATGATGCTTAATTCCTTCGTGTCATCTATAAGT
64 AGTC-TTCAGGC-ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGT
* * * * *
41486 CTTTCGAGAAAGATGATAAGTCTTTCGGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCACAT
127 CTTTCGAG-AAGATGATAAAT-TTTCGGGTCATCCATAAGACCTTCGGGCAAGATGTTTTCACAT
*
41551 GTCTCTCCAAAAATGAGAAAGGATTCTCATTTAAATC
190 GTCTCTCAAAAAATGAGAAAGGATTCTCATTTAAATC
* * *
41588 TGAAAATTGAAATTTTTGAATATTAAGAAAAGTTTCTTACCTAGTAAAATATTTCCAAATTTGGT
1 TGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAA--TGG-
* * * *
41653 AAGTCCTTCAGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAATACTTCGAGTCATTTGTATG
63 AAGT-CTTCAGGC-ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAG
* * *
41718 TCTTTCGAGAGAGAGGATAAATTATTCGGGTCATCCATAAGACCTTCAGGCAAGATGTTTTCAAA
126 TCTTTCGAGA-AGATGATAAATT-TTCGGGTCATCCATAAGACCTTCGGGCAAGATGTTTTCACA
*
41783 TGTCTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATC
189 TGTCTCTCAAAAAATGAGAAAGGATTCTCATTTAAATC
* *
41821 TGAAAATTAAAATTTTTGAAAAGTAAGAAAAGATTCTTACCTAGTAAACTATTTCC------AA-
1 TGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAATGGAAG
* * *
41879 -----A---ATCAGTAAGTCTTTCGAGCATTATGCTTAAATCCTTCGGGTCATCTGTAAATCTTT
66 TCTTCAGGCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGTCTTT
* * * *
41936 CGAGCAAGATGATAAATTCTTCGGGTCATCCACAAGACCTTTGGGCATGATGTTTTTACATGTCT
131 CGAG-AAGATGATAAATT-TTCGGGTCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGTCT
* *
42001 CT-AGAGAAATGAGAAA-AATTTCTCATTTAAATC
194 CTCA-AAAAATGAGAAAGGA-TTCTCATTTAAATC
*
42034 TGAAAATTGAAATTTTTTAAAAGTAA
1 TGAAAATTGAAATTTTTGAAAAGTAA
42060 AAACCAATTT
Statistics
Matches: 413, Mismatches: 50, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
212 1 0.00
213 155 0.38
214 1 0.00
217 1 0.00
224 2 0.00
231 46 0.11
232 10 0.02
233 195 0.47
234 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (226 bp):
TGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAATGGAAG
TCTTCAGGCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGTCTTT
CGAGAAGATGATAAATTTTCGGGTCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGTCTCT
CAAAAAATGAGAAAGGATTCTCATTTAAATC
Found at i:41959 original size:41 final size:42
Alignment explanation
Indices: 41884--41965 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
41874 TCCAAAATCA
* ** *
41884 GTAAGTCTTTCGAGCATTATGCTTAAATCCTTCGGGTCATCT
1 GTAAATCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCT
*
41926 GTAAATCTTTCGAGCAAGATG-ATAAATTCTTCGGGTCATC
1 GTAAATCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATC
41966 CACAAGACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (42 bp):
GTAAATCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCT
Found at i:42034 original size:213 final size:213
Alignment explanation
Indices: 41667--42059 Score: 574
Period size: 213 Copynumber: 1.8 Consensus size: 213
41657 CCTTCAGGCT
* **
41667 ATCAGTAAGTCTTTCGAGCATGATGATTAAATACTTCGAGTCATTTGTATGTCTTTCGAGAGAGA
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATACTTCGAGTCATCTGTAAATCTTTCGAGAGAGA
*
41732 GGATAAATTATTCGGGTCATCCATAAGACCTTCAGGCAAGATGTTTTCAAATGTCTCTCAAAAAA
66 GGATAAATTATTCGGGTCATCCACAAGACCTTCAGGCAAGATGTTTTCAAATGTCTCTCAAAAAA
**
41797 TGAGAAAGGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTAAGAAAAGATTCTTACC
131 TGAGAAAAATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTAAGAAAAGATTCTTACC
41862 TAGTAAACTATTTCCAAA
196 TAGTAAACTATTTCCAAA
* * * *
41880 ATCAGTAAGTCTTTCGAGCATTATGCTTAAATCCTTCGGGTCATCTGTAAATCTTTCGAGCA-AG
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATACTTCGAGTCATCTGTAAATCTTTCGAG-AGAG
* * ** * * * *
41944 ATGATAAATTCTTCGGGTCATCCACAAGACCTTTGGGCATGATGTTTTTACATGTCTCT-AGAGA
65 AGGATAAATTATTCGGGTCATCCACAAGACCTTCAGGCAAGATGTTTTCAAATGTCTCTCA-AAA
* *
42008 AATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTTAAAAGTAA
129 AATGAGAAAAATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTAA
42060 AAACCAATTT
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
212 1 0.01
213 156 0.99
214 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (213 bp):
ATCAGTAAGTCTTTCGAGCATGATGATTAAATACTTCGAGTCATCTGTAAATCTTTCGAGAGAGA
GGATAAATTATTCGGGTCATCCACAAGACCTTCAGGCAAGATGTTTTCAAATGTCTCTCAAAAAA
TGAGAAAAATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTAAGAAAAGATTCTTACC
TAGTAAACTATTTCCAAA
Found at i:45931 original size:17 final size:18
Alignment explanation
Indices: 45895--45932 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
45885 TTTTTTTTTG
45895 TTCTGTCTCTGTCCCTGGT
1 TTCTGTCTC-GTCCCTGGT
*
45914 TTCTGTCTC-TCTCTGGT
1 TTCTGTCTCGTCCCTGGT
45931 TT
1 TT
45933 TTTGCTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.00, C:0.29, G:0.18, T:0.53
Consensus pattern (18 bp):
TTCTGTCTCGTCCCTGGT
Found at i:46430 original size:3 final size:3
Alignment explanation
Indices: 46422--46531 Score: 184
Period size: 3 Copynumber: 36.7 Consensus size: 3
46412 TTAATATATT
*
46422 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
46470 TAA TAA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46518 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
46532 TGGATAAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47263 original size:113 final size:113
Alignment explanation
Indices: 46847--47594 Score: 1261
Period size: 113 Copynumber: 6.6 Consensus size: 113
46837 GAATTATGCC
* * *
46847 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
46911 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
46958 AAAAGGTTCAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
47023 TATGAACTTTTTCTGGAAAAAATGTTCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
47071 AAAAGGTTGAATAAATTCTTCTCA--ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
47134 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
47182 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
47247 TATGAACTTTTTCTGGAAAAAATGTTCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
47295 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47360 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
47408 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
47473 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAA-GTGATGAATTCAGGT
*
47522 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
47587 TATGAACT
66 TATGAACT
47595 CTACCTGGCA
Statistics
Matches: 600, Mismatches: 32, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
111 110 0.18
112 63 0.10
113 342 0.57
114 85 0.14
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
Found at i:48372 original size:83 final size:84
Alignment explanation
Indices: 48273--48651 Score: 694
Period size: 83 Copynumber: 4.6 Consensus size: 84
48263 GTAGTTCTTA
*
48273 CCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
48338 ATTCAATGATTGGTTCTG-
66 ATTCAATGATTGGTTCTGT
48356 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
48421 ATTCAATGATTGATTCTGT
66 ATTCAATGATTGGTTCTGT
* *
48440 CC-AACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
48504 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
48523 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
48587 ATTCAATGATTGGTTCTG-
66 ATTCAATGATTGGTTCTGT
48605 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
48652 CTGTCTAACC
Statistics
Matches: 287, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
82 2 0.01
83 283 0.99
84 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:48662 original size:50 final size:50
Alignment explanation
Indices: 48608--48852 Score: 409
Period size: 50 Copynumber: 4.9 Consensus size: 50
48598 GGTTCTGCCA
48608 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
*
48658 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGATATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
* *
48708 AACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTTTTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
* *
48758 AACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTTGGTTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC-T-ATTCTGTCT
* *
48810 AACCAGATCAGATAACTCTAAGAACACTTCCAAAAGATGCTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
48853 GAGTCTCTTT
Statistics
Matches: 184, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
50 137 0.74
51 2 0.01
52 45 0.24
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (50 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
Found at i:49663 original size:16 final size:17
Alignment explanation
Indices: 49625--49669 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
49615 AATATAAAAG
*
49625 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
49643 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
49659 AATAAATTGAA
1 AATAAATTGAA
49670 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:50019 original size:18 final size:19
Alignment explanation
Indices: 49998--50035 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
49988 CTTGACCCCC
*
49998 TTTTTTCTTT-TTCT-TTT
1 TTTTTTTTTTATTCTCTTT
50015 TTTTTTTTTTATTCTCTTT
1 TTTTTTTTTTATTCTCTTT
50034 TT
1 TT
50036 ATTCTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTTATTCTCTTT
Found at i:61431 original size:12 final size:12
Alignment explanation
Indices: 61414--61448 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
61404 TATTTATTAT
61414 ATATTT-ATAAAA
1 ATATTTAAT-AAA
61426 ATATTTAATAAA
1 ATATTTAATAAA
61438 ATATTTAATAA
1 ATATTTAATAA
61449 TAAAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATTTAATAAA
Found at i:62409 original size:17 final size:18
Alignment explanation
Indices: 62373--62410 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
62363 TTTTTTTTTG
62373 TTCTGTCTCTGTCCCTGGT
1 TTCTGTCTC-GTCCCTGGT
*
62392 TTCTGTCTC-TCTCTGGT
1 TTCTGTCTCGTCCCTGGT
62409 TT
1 TT
62411 TTTGCTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.00, C:0.29, G:0.18, T:0.53
Consensus pattern (18 bp):
TTCTGTCTCGTCCCTGGT
Found at i:62900 original size:3 final size:3
Alignment explanation
Indices: 62892--63013 Score: 199
Period size: 3 Copynumber: 40.7 Consensus size: 3
62882 TTAATATATT
*
62892 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
62940 TAA TAA TGA GAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
62988 TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
63014 TGGATAAAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:67114 original size:146 final size:143
Alignment explanation
Indices: 66777--67179 Score: 440
Period size: 146 Copynumber: 2.8 Consensus size: 143
66767 GTATAATTTT
* *
66777 AAGAAAATATTTATATTTTTTATAAATAAGATATTTATTTACTTTGAAATATCAGAAAAGGACTT
1 AAGAAAATATATATATTTTTTATAAATAAGATATTTATTTA-TTTAAAATATCAGAAAAGGACTT
* * *
66842 CTAGGTGCTTTAAGACATCCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAATATTTC
65 CTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATGAATAAAATAATTC
*
66907 TCTAAAAATAATTA
130 TATAAAAATAATTA
* * * * *
66921 AA-ATAAATTAATATATAATTTATAAAAATAGGATATTTATTTATTTAATAATATCATAAAAGGA
1 AAGA-AAA-T-ATATATATTTTTTATAAATAAGATATTTATTTATTTAA-AATATCAGAAAAGGA
* * *
66985 TTTCTAGGTGCTTTAAGACAACCCTTTTCTTAATATTAAAAAATACATAATAAAATATGATTAAA
62 CTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAAT--A-AAT-AAATATGAATAAA
*
67050 ATAATT-TAT-ATAA-AATTA
123 ATAATTCTATAAAAATAATTA
* * * *
67068 AAGAAAATATATATATTTTTTATAAATATGATATTTATTATTTTTAAAATACCAGAATAA-GACA
1 AAGAAAATATATATATTTTTTATAAATAAGATATTTATT-TATTTAAAATATCAGAA-AAGGACT
* ** ** *
67132 TCTAGTTATTTTAAGACTGCCC-TTTCTTAATATTTAAAAATAAATAAA
64 TCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAA
67180 GATTATTATT
Statistics
Matches: 218, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
140 3 0.01
141 3 0.01
142 1 0.00
143 1 0.00
144 23 0.11
145 59 0.27
146 92 0.42
147 10 0.05
148 5 0.02
149 5 0.02
150 16 0.07
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (143 bp):
AAGAAAATATATATATTTTTTATAAATAAGATATTTATTTATTTAAAATATCAGAAAAGGACTTC
TAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATGAATAAAATAATTCT
ATAAAAATAATTA
Found at i:67297 original size:22 final size:22
Alignment explanation
Indices: 67270--67320 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
67260 ATAAATAGAA
*
67270 TAAAATTGCATTAAATAATGAC
1 TAAAATAGCATTAAATAATGAC
67292 TAAAATAGCATTAAATAATGAC
1 TAAAATAGCATTAAATAATGAC
67314 TAAAATA
1 TAAAATA
67321 AAAGGAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAATAGCATTAAATAATGAC
Found at i:69231 original size:123 final size:124
Alignment explanation
Indices: 69012--69348 Score: 457
Period size: 123 Copynumber: 2.7 Consensus size: 124
69002 TGAGTTGAGT
* * ** * *
69012 AAAAGGCTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTACAGATTAGTTCTTCTTATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTTATT
* * * * * * *
69077 ATGAAC-TCTTTCTGGAAATGTTGATGCTGATCTATTTCCTTCTGTGATAGAATTGAT-C
66 ATGAACTTCTCTCTGGAAAAGTTGATGATGATCTATCTCCTTCTATGATAG-AGTCATGC
*
69135 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTTATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTTATT
69200 ATGAACTTC-CTCTGGAAAAGTTGATGATGATCTATCTCCTTCTATGATAGAGTCATGC
66 ATGAACTTCTCTCTGGAAAAGTTGATGATGATCTATCTCCTTCTATGATAGAGTCATGC
* *
69258 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTTAT
* * *
69323 TATGAAC-TCTATCTGGTAATGTTGAT
65 TATGAACTTCTCTCTGGAAAAGTTGAT
69349 CCATCAAGCG
Statistics
Matches: 190, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
122 4 0.02
123 144 0.76
124 42 0.22
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (124 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTTATT
ATGAACTTCTCTCTGGAAAAGTTGATGATGATCTATCTCCTTCTATGATAGAGTCATGC
Found at i:69584 original size:113 final size:113
Alignment explanation
Indices: 69259--69593 Score: 584
Period size: 112 Copynumber: 3.0 Consensus size: 113
69249 GAGTCATGCA
69259 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
69324 ATGAACTCTATCTGGTAATGTTGATCCATCAAGCGATGAATTCGAGCG
66 ATGAACTCTATCTGGTAATGTTGATCCATCAAGTGATGAATTCGAGCG
* * *
69372 AAATGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCGTT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
69436 ATGAACTCTACCTGGTAATGTTGATCCATCAAGTGATGAATTCGAGCG
66 ATGAACTCTATCTGGTAATGTTGATCCATCAAGTGATGAATTCGAGCG
*
69484 AAAGGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
69549 ATGAACTCT-TCTGGGTAATGCTGATCCATCAAGTGATGAATTCGA
66 ATGAACTCTATCT-GGTAATGTTGATCCATCAAGTGATGAATTCGA
69594 ATCTTTGTTA
Statistics
Matches: 209, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
112 108 0.52
113 101 0.48
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTATCTGGTAATGTTGATCCATCAAGTGATGAATTCGAGCG
Found at i:73760 original size:16 final size:15
Alignment explanation
Indices: 73734--73763 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
73724 ATTTCTCATC
73734 TTTTCTTTTTTTCTT
1 TTTTCTTTTTTTCTT
73749 TTTTCATTTTTTTCT
1 TTTTC-TTTTTTTCT
73764 GATGAATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:76397 original size:21 final size:21
Alignment explanation
Indices: 76373--76412 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
76363 AAAAGTATGA
76373 ATGCAAAATGAAAATGCAAAG
1 ATGCAAAATGAAAATGCAAAG
*
76394 ATGCAAAATGCAAATGCAA
1 ATGCAAAATGAAAATGCAA
76413 GTATGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (21 bp):
ATGCAAAATGAAAATGCAAAG
Found at i:76406 original size:7 final size:7
Alignment explanation
Indices: 76372--76412 Score: 59
Period size: 6 Copynumber: 6.0 Consensus size: 7
76362 TAAAAGTATG
76372 AATGCAA
1 AATGCAA
76379 AATG-AA
1 AATGCAA
76385 AATGCAA
1 AATGCAA
76392 AGATGCAA
1 A-ATGCAA
76400 AATGC-A
1 AATGCAA
76406 AATGCAA
1 AATGCAA
76413 GTATGAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:77384 original size:23 final size:22
Alignment explanation
Indices: 77336--77384 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
77326 ACAGAATGTC
77336 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
77357 TAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
77380 AAGGA
1 AAGGA
77385 AAATATAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.29, G:0.29, T:0.10
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:78001 original size:31 final size:31
Alignment explanation
Indices: 77963--78118 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
77953 AGGGTCAAGG
*
77963 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
77994 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
78025 GTTTACCTATGTTATTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
78056 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
78087 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
78118 G
1 G
78119 GTCCTTCGGG
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:81385 original size:21 final size:21
Alignment explanation
Indices: 81341--81385 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
81331 GATTTTTGGG
* * *
81341 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
81362 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
81383 CAA
1 CAA
81386 ACGAACCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:81459 original size:24 final size:22
Alignment explanation
Indices: 81410--81451 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
81400 ACAGAATGTC
81410 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
81431 TAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
81452 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.33, G:0.29, T:0.10
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:82223 original size:31 final size:31
Alignment explanation
Indices: 82038--82211 Score: 285
Period size: 31 Copynumber: 5.6 Consensus size: 31
82028 AGGGTCGAGG
*
82038 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
82069 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
82100 GTTTACCTATTTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
82131 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
82162 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
82193 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
82212 AATCTATGGA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:85491 original size:21 final size:21
Alignment explanation
Indices: 85447--85491 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
85437 GATTTTTGGG
* * *
85447 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
85468 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
85489 CAA
1 CAA
85492 ACGAACCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:85565 original size:24 final size:22
Alignment explanation
Indices: 85516--85557 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
85506 ACAGAATGTC
85516 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
85537 TAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
85558 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.33, G:0.29, T:0.10
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:86329 original size:31 final size:31
Alignment explanation
Indices: 86144--86317 Score: 285
Period size: 31 Copynumber: 5.6 Consensus size: 31
86134 AGGGTCGAGG
*
86144 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
86175 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
86206 GTTTACCTATTTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
86237 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
86268 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
86299 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
86318 AATCTATGGA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:87514 original size:36 final size:36
Alignment explanation
Indices: 87467--87538 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
87457 TTTTGCCGTA
*
87467 GAATGCTTTTGGTATCAATCTAACAGGATCTTTGTG
1 GAATGCTTTTGGTATCAATATAACAGGATCTTTGTG
*
87503 GAATGCTTTTGGTATTAATATAACAGGATCTTTGTG
1 GAATGCTTTTGGTATCAATATAACAGGATCTTTGTG
87539 TGCATATCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (36 bp):
GAATGCTTTTGGTATCAATATAACAGGATCTTTGTG
Found at i:89267 original size:23 final size:23
Alignment explanation
Indices: 89239--89284 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
89229 ATTAAAGCAA
*
89239 ATATATATATTTTTTTATAAATATG
1 ATATATA-ATATTTTTA-AAATATG
*
89264 ATATTTAATATTTTTAAAATA
1 ATATATAATATTTTTAAAATA
89285 CCAGAATAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 8 0.42
25 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATATAATATTTTTAAAATATG
Found at i:89468 original size:22 final size:22
Alignment explanation
Indices: 89441--89491 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
89431 ATAAATAGAA
*
89441 TAAAATTGCATTAAATAATGAC
1 TAAAATAGCATTAAATAATGAC
89463 TAAAATAGCATTAAATAATGAC
1 TAAAATAGCATTAAATAATGAC
89485 TAAAATA
1 TAAAATA
89492 AAAGGAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAATAGCATTAAATAATGAC
Found at i:89685 original size:75 final size:75
Alignment explanation
Indices: 89599--89748 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
89589 ATAAAAGAAA
89599 TTTATATTTAATTAATATCTATATAATAAAGTCAAATAGTATTAATTTCTACTATGATTAAAAAT
1 TTTATATTTAATTAATATCTATATAATAAAGTCAAATAGTATTAATTTCTACTATGATTAAAAAT
89664 GGATAGAATG
66 GGATAGAATG
*
89674 TTTATATTTAATTAATATCTATATAATAAAGTCAAATAGTATTAATTTCTATTATGATTAAAAAT
1 TTTATATTTAATTAATATCTATATAATAAAGTCAAATAGTATTAATTTCTACTATGATTAAAAAT
89739 GGATAGAATG
66 GGATAGAATG
89749 GAAAGTAAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (75 bp):
TTTATATTTAATTAATATCTATATAATAAAGTCAAATAGTATTAATTTCTACTATGATTAAAAAT
GGATAGAATG
Found at i:92237 original size:2 final size:2
Alignment explanation
Indices: 92230--92256 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92220 TAAATTTTAA
92230 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
92257 AATCGTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93645 original size:60 final size:60
Alignment explanation
Indices: 93578--93692 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
93568 GTAGTCGGGT
* ** *
93578 GACCATTTTGTAACTTCTAATAGTCGGATGACTCAACAAAGCAACACCCTATAGTCGAAA
1 GACCATTTTGTAACTTCTAATAGTCAGAAAACTCAACAAAGAAACACCCTATAGTCGAAA
* * *
93638 GACCATTTTGTAACTTTTAATAGTCATAAAACTCAATAAAGAAACACCCTATAGT
1 GACCATTTTGTAACTTCTAATAGTCAGAAAACTCAACAAAGAAACACCCTATAGT
93693 TGGGGGATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (60 bp):
GACCATTTTGTAACTTCTAATAGTCAGAAAACTCAACAAAGAAACACCCTATAGTCGAAA
Found at i:98277 original size:78 final size:78
Alignment explanation
Indices: 98112--98277 Score: 230
Period size: 78 Copynumber: 2.1 Consensus size: 78
98102 AGAAAAATAT
* * * *
98112 TATATTATTCATGAATTTATATTCGATTAAAATATAGTATTATAATTTTGGCATCATTGTTATAC
1 TATATTATTTATGAATTTATATTCGATTAAAATATAGTATTATAATTCTGACATCATTGATATAC
*
98177 CTTAATTTTGAAA
66 CTTAATTTTAAAA
*
98190 TATATTATTTATGAATTTATATTCGATTAAAATA-AGGTATTATAGTTCTGACAAT-ATTGATAT
1 TATATTATTTATGAATTTATATTCGATTAAAATATA-GTATTATAATTCTGAC-ATCATTGATAT
98253 ACCTT-ATTTTCAAAA
64 ACCTTAATTTT-AAAA
98268 TATATTATTT
1 TATATTATTT
98278 CCAATTATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
77 6 0.08
78 71 0.90
79 2 0.03
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (78 bp):
TATATTATTTATGAATTTATATTCGATTAAAATATAGTATTATAATTCTGACATCATTGATATAC
CTTAATTTTAAAA
Found at i:101026 original size:420 final size:418
Alignment explanation
Indices: 100247--101086 Score: 1621
Period size: 420 Copynumber: 2.0 Consensus size: 418
100237 AAAAGGTTGG
*
100247 ATGATAATCAAAGTTGATCTTGAAAAGGCTTTTGACCGTATACGTTTGGATTTCATCCATGATAC
1 ATGATAATCAAAGTTGATCTTGAAAAGGCTTTTGACCGTATACGTTGGGATTTCATCCATGATAC
100312 TCTTCTTGATGTAAAATTTCCTCCATGTATCTTTCATGTGATCATGCACTGCACTACATCGACTT
66 TCTTCTTGATGTAAAATTTCCTCCATGTATCTTTCATGTGATCATGCACTGCACTACATCGACTT
100377 CCATGTAAGTTCAATGGAACGATCCCATTCTTCGATCTTTAGACTAGAAGAGGGTTCGACAAGGG
131 CCATGTAAGTTCAATGGAACGATCCCATTCTTCGATCTTTAGACTAGAAGAGGGTTCGACAAGGG
100442 GATCCCTTCTCCCCTTGCTTGCTTGTCTCGGCCATGGAACGCTTGGGTTATAACATTCATAATGA
196 GATCCCTTCTCCCCTTGCTTGCTTGTCTCGGCCATGGAACGCTTGGGTTATAACATTCATAATGA
100507 TGTTTTGTCTGGCACATGGAAACCTTTTCGGCTCGTTCGCATTGAGAGTCCAATATCCCACTTAT
261 TGTTTTGTCTGGCACATGGAAACCTTTTCGGCTCGTTCGCATTGAGAGTCCAATATCCCACTTAT
100572 TTTTTGTCGATGACCTGATCTTTTATGATAGAGCTGATGTAAACCAATAAATATTATTGATTCGA
326 TTTTTGTCGATGACCTGATCTTTTATGATAGAGCTGATGTAAACC-A-AAATATTATTGATTCGA
100637 TCCTAATCAAATTTGGCTCATTTTCTGGAC
389 TCCTAATCAAATTTGGCTCATTTTCTGGAC
100667 ATGATAATCAAAGTTGATCTTGAAAAGGCTTTTGACCGTATACGTTGGGATTTCATCCATGATAC
1 ATGATAATCAAAGTTGATCTTGAAAAGGCTTTTGACCGTATACGTTGGGATTTCATCCATGATAC
100732 TCTTCTTGATGTAAAATTTCCTCCATGTATCTTTCATGTGATCATGCACTGCACTACATCGACTT
66 TCTTCTTGATGTAAAATTTCCTCCATGTATCTTTCATGTGATCATGCACTGCACTACATCGACTT
100797 CCATGTAAGTTCAATGGAACAGATCCCATTCTTCGATCTTTAGACTAGAAAGAGGGTTCGACAAG
131 CCATGTAAGTTCAATGGAAC-GATCCCATTCTTCGATCTTTAGACTAG-AAGAGGGTTCGACAAG
100862 GGGATCCCTTCTCCCCTTGCTTGCTTGTCTCGGCCATGGAACGCTTGGGTTATAACATTCATAAT
194 GGGATCCCTTCTCCCCTTGCTTGCTTGTCTCGGCCATGGAACGCTTGGGTTATAACATTCATAAT
100927 GATGTTTTGTCTGGCACATGGAAACC-TTTCGGCTCGTTCGCA-TGAGAGTCCAATATCCCACTT
259 GATGTTTTGTCTGGCACATGGAAACCTTTTCGGCTCGTTCGCATTGAGAGTCCAATATCCCACTT
100990 ATTTTTTGTCGATGACCTGATCTTTTATGATAGAGCTGATGTAAACCAAAATATTATTGATTCGA
324 ATTTTTTGTCGATGACCTGATCTTTTATGATAGAGCTGATGTAAACCAAAATATTATTGATTCGA
101055 TCCTAATCAAATTTGGCTCATTTTCTGGAC
389 TCCTAATCAAATTTGGCTCATTTTCTGGAC
101085 AT
1 AT
101087 AAGGTTAACA
Statistics
Matches: 417, Mismatches: 1, Indels: 6
0.98 0.00 0.01
Matches are distributed among these distances:
418 49 0.12
419 1 0.00
420 217 0.52
421 43 0.10
422 107 0.26
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (418 bp):
ATGATAATCAAAGTTGATCTTGAAAAGGCTTTTGACCGTATACGTTGGGATTTCATCCATGATAC
TCTTCTTGATGTAAAATTTCCTCCATGTATCTTTCATGTGATCATGCACTGCACTACATCGACTT
CCATGTAAGTTCAATGGAACGATCCCATTCTTCGATCTTTAGACTAGAAGAGGGTTCGACAAGGG
GATCCCTTCTCCCCTTGCTTGCTTGTCTCGGCCATGGAACGCTTGGGTTATAACATTCATAATGA
TGTTTTGTCTGGCACATGGAAACCTTTTCGGCTCGTTCGCATTGAGAGTCCAATATCCCACTTAT
TTTTTGTCGATGACCTGATCTTTTATGATAGAGCTGATGTAAACCAAAATATTATTGATTCGATC
CTAATCAAATTTGGCTCATTTTCTGGAC
Found at i:108750 original size:23 final size:24
Alignment explanation
Indices: 108724--108771 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
108714 TTCTTCTAAT
108724 ATTCATAGAAACC-AAACATAAAC
1 ATTCATAGAAACCAAAACATAAAC
*
108747 ATTCATAGAAACCAAAACATGAAC
1 ATTCATAGAAACCAAAACATAAAC
108771 A
1 A
108772 ATAAATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.17
Consensus pattern (24 bp):
ATTCATAGAAACCAAAACATAAAC
Found at i:109108 original size:16 final size:16
Alignment explanation
Indices: 109089--109119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109079 TATAATATAT
109089 ATATATGGATGGATGA
1 ATATATGGATGGATGA
*
109105 ATATATGGGTGGATG
1 ATATATGGATGGATG
109120 GATGTTGCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (16 bp):
ATATATGGATGGATGA
Found at i:109110 original size:2 final size:2
Alignment explanation
Indices: 109059--109094 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
109049 TATTTTTTTA
109059 AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109095 GGATGGATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:114716 original size:105 final size:103
Alignment explanation
Indices: 114529--114720 Score: 244
Period size: 106 Copynumber: 1.8 Consensus size: 103
114519 AAAGCCCCGA
* * * *
114529 CCAGGTGATTTTGGGGATTTGGTTTTCGTCTTTCGTCCCCAAAGCTGCTACGCGATTAGGGTGTT
1 CCAGGTGATTTTGGGGATTAGGTTTTCGTCTTTCATCCCAAAAGCTGCTACGCGATTAGGGTATT
*
114594 CTTAGCTAGTTTTGGTGAGACTATTTTTATCTATCCAG
66 CTTACCTAGTTTTGGTGAGACTATTTTTATCTATCCAG
* * * *
114632 CCAGTTGATTTTGGGGATTAGGTTTCATTCAG-CTTTCATCCCAAAAGTTGCTACGCGTTTTGGG
1 CCAGGTGATTTTGGGGATTAGG-TT--TTC-GTCTTTCATCCCAAAAGCTGCTACGCGATTAGGG
*
114696 TATTC-TCCCTAGTTTTGGTGAGACT
62 TATTCTTACCTAGTTTTGGTGAGACT
114721 GTTTCATTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
103 20 0.27
104 2 0.03
105 18 0.24
106 34 0.45
107 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (103 bp):
CCAGGTGATTTTGGGGATTAGGTTTTCGTCTTTCATCCCAAAAGCTGCTACGCGATTAGGGTATT
CTTACCTAGTTTTGGTGAGACTATTTTTATCTATCCAG
Found at i:119131 original size:2 final size:2
Alignment explanation
Indices: 119124--119201 Score: 106
Period size: 2 Copynumber: 38.5 Consensus size: 2
119114 TGGAAGCGGA
*
119124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
119166 GA- AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
119202 AGCTGGTGAT
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
1 2 0.03
2 64 0.90
3 5 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120655 original size:5 final size:5
Alignment explanation
Indices: 120645--120932 Score: 530
Period size: 5 Copynumber: 58.0 Consensus size: 5
120635 GCATTATGCC
120645 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
120695 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
120745 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
120795 TTATA TTATA TTATA TTATA -T-TA TTATA TTATA TTATA -TATA -TATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
120841 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
120891 TTATA TTATA TTATA TTATA TTATA TTATAAA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTAT--A TTATA TTATA
120933 AATATTAAAA
Statistics
Matches: 278, Mismatches: 0, Indels: 10
0.97 0.00 0.03
Matches are distributed among these distances:
3 2 0.01
4 10 0.04
5 261 0.94
7 5 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:125506 original size:45 final size:45
Alignment explanation
Indices: 125455--125556 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
125445 CACTTATATG
* * * *
125455 CATTTCAATTATGTCATCCTTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCCTTACATGCCTTTGATACACTATTATA
* * *
125500 CCTTTCATTTATGGCATCCTTTCATGCCTTTGATACACTGTTATA
1 CATTTCATTTATGGCATCCTTACATGCCTTTGATACACTATTATA
125545 CATTTCATTTAT
1 CATTTCATTTAT
125557 AACATTCATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (45 bp):
CATTTCATTTATGGCATCCTTACATGCCTTTGATACACTATTATA
Found at i:125569 original size:45 final size:45
Alignment explanation
Indices: 125412--125569 Score: 115
Period size: 45 Copynumber: 3.5 Consensus size: 45
125402 TATTCCTTAT
* * * * * *
125412 TTTCATTGATAGCATCCATTCATG-ATTATAATGCACT-TATATGCA
1 TTTCATTTATAACATCCATTCATGCCTT-TGATACACTAT-TATACA
* ** * * *
125457 TTTCAATTATGTCATCC-TTACATGTCTTTTATACACTATTATACC
1 TTTCATTTATAACATCCATT-CATGCCTTTGATACACTATTATACA
** * *
125502 TTTCATTTATGGCATCCTTTCATGCCTTTGATACACTGTTATACA
1 TTTCATTTATAACATCCATTCATGCCTTTGATACACTATTATACA
*
125547 TTTCATTTATAACATTCATTCAT
1 TTTCATTTATAACATCCATTCAT
125570 ACAATTATGC
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
44 2 0.02
45 83 0.92
46 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (45 bp):
TTTCATTTATAACATCCATTCATGCCTTTGATACACTATTATACA
Found at i:125788 original size:81 final size:80
Alignment explanation
Indices: 125649--125889 Score: 270
Period size: 81 Copynumber: 3.0 Consensus size: 80
125639 AAAAATTCCC
* ** *
125649 TTATTCTCTTACTCAAC-AGTGTTTAA-CGTTCGTCTAACTGGCATAATTGACAACTTTCTGCCA
1 TTATTCTTTTACTCAACGA-TACTTAACCGTTCATCTAACTGGCATAATTGAC-ACTTTCTGCCA
125712 AATGCACAGCTAGGCCA
64 AATGCACAGCTAGGCCA
* * * * **
125729 TTATTCTTTTACTCAATGGTACTTAACCGTTCATCTAACTGACATAATTTACACTTTTCTATCAA
1 TTATTCTTTTACTCAACGATACTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAA
* *
125794 ATTCATAGCTAGGCCA
65 ATGCACAGCTAGGCCA
* ** * *
125810 TTATTCTTTTACTCAACGATACATAACTATTAATTTAACTGGCATAATTGACACCTTTCTGCCAA
1 TTATTCTTTTACTCAACGATACTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAA
*
125875 AAGCACAGCTAGGCC
65 ATGCACAGCTAGGCC
125890 TCAAAGACAC
Statistics
Matches: 131, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
80 22 0.17
81 108 0.82
82 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (80 bp):
TTATTCTTTTACTCAACGATACTTAACCGTTCATCTAACTGGCATAATTGACACTTTCTGCCAAA
TGCACAGCTAGGCCA
Found at i:125932 original size:68 final size:68
Alignment explanation
Indices: 125845--126366 Score: 668
Period size: 68 Copynumber: 7.7 Consensus size: 68
125835 ACTATTAATT
* * * * * **
125845 TAACTGGCATAATTGACACCTTTCTGCCAAAAGCACAGCTAGGCCTCAAAGACACTTAGTTTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
*
125910 ATA
66 ATC
* * * *
125913 TAACTAGCATAAATGACACCTTTCTATCATATGAACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
125978 ATC
66 ATC
* * * * *
125981 TAACAGACATAAATGACACATTTCTGTCAAATGCACAGTTAGGTCTCAAAGGCATTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
*
126046 ATT
66 ATC
** ** *
126049 TAACTGAAATAAATGACACCTTTCTGTCATGTGCACAGTTAGGCCTCAAAGGCACTTAGCCGTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
126114 ATC
66 ATC
* * * * * *
126117 TAACTGGCATAAAAGACACATTTCTATCAAATGCATAATTAGGCCTCAAAGGCACTTAGTCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
126182 ATC
66 ATC
* * *
126185 TAACTGGCATAAATGACATCTTTCTGTCATATACACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
126250 ATC
66 ATC
* * * * *
126253 TAACTGGCATAAATGATACCTTTTTGTCATATGAACAGTTAGGCCTCAAAGGCATTTAGCCTTTC
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
126318 ATC
66 ATC
* * *
126321 TAACTGGCATAAATGACACCTTTATGTTATATGCACA-TTAAGGCCT
1 TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTT-AGGCCT
126367 ATTGATCTTT
Statistics
Matches: 392, Mismatches: 61, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
67 2 0.01
68 390 0.99
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (68 bp):
TAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTC
ATC
Found at i:126920 original size:117 final size:117
Alignment explanation
Indices: 126741--126968 Score: 320
Period size: 117 Copynumber: 1.9 Consensus size: 117
126731 TTTCCCATAC
* * *
126741 GGAAATTCATATACATAGTATGAATTTCTTGTCCTTTAGCACACAAGGTGCCCAATACAGAAATT
1 GGAAATTCATACACATAGTATGAATTTCTTATCATTTAGCACACAAGGTGCCCAATACAGAAATT
* *
126806 TATACACTTAGTATGAATTT-CTTATCATGTTAGCACACGAAGTGCCATATCT
66 CATACACTTACTATG-ATTTCCTTATCATGTTAGCACACGAAGTGCCATATCT
* *
126858 GGAAATTCATACACATAGT-TGATTTTCTTATCATGTTAGCACACGAA-GTGCCCTAT-CTAGAA
1 GGAAATTCATACACATAGTATGAATTTCTTATCAT-TTAGCACAC-AAGGTGCCCAATAC-AGAA
*
126920 ATTCATACACTTACTATGATTTCCTTATCATTTTAGCACACGAAGTGCC
63 ATTCATACACTTACTATGATTTCCTTATCATGTTAGCACACGAAGTGCC
126969 CTATTTGGTA
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
116 17 0.17
117 80 0.81
118 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (117 bp):
GGAAATTCATACACATAGTATGAATTTCTTATCATTTAGCACACAAGGTGCCCAATACAGAAATT
CATACACTTACTATGATTTCCTTATCATGTTAGCACACGAAGTGCCATATCT
Found at i:126969 original size:59 final size:58
Alignment explanation
Indices: 126742--126972 Score: 281
Period size: 58 Copynumber: 3.9 Consensus size: 58
126732 TTCCCATACG
* * * * *
126742 GAAATTCATATACATAGTATGAATTTCTTGTCCT-TTAGCACAC-AAGGTGCCCAATAC-A
1 GAAATTCATACACTTAGTATG-ATTTCTTATCATGTTAGCACACGAA-GTGCCCTAT-CTA
* * *
126800 GAAATTTATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCATATCTG
1 GAAATTCATACACTTAGTATG-ATTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
*
126859 GAAATTCATACACATAGT-TGATTTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGA-TTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
* *
126917 GAAATTCATACACTTACTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTAT
1 GAAATTCATACACTTAGTATGATTT-CTTATCATGTTAGCACACGAAGTGCCCTAT
126973 TTGGTAATCA
Statistics
Matches: 152, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
57 1 0.01
58 85 0.56
59 64 0.42
60 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGCACACGAAGTGCCCTATCTA
Found at i:127990 original size:3 final size:3
Alignment explanation
Indices: 127982--128012 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
127972 GCACCCACGT
127982 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
128013 TATAGAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:128203 original size:24 final size:24
Alignment explanation
Indices: 128176--128227 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
128166 TTTACCAATT
128176 ATTCAATTCAATCATCAAATTTTA
1 ATTCAATTCAATCATCAAATTTTA
** *
128200 ATTCTTTTCAATTATCAAATTTTA
1 ATTCAATTCAATCATCAAATTTTA
128224 ATTC
1 ATTC
128228 TTTTCAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTCAATTCAATCATCAAATTTTA
Found at i:128228 original size:24 final size:24
Alignment explanation
Indices: 128182--128236 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
128172 AATTATTCAA
*
128182 TTCAATCATCAAATTTTAATTCTT
1 TTCAATTATCAAATTTTAATTCTT
128206 TTCAATTATCAAATTTTAATTCTT
1 TTCAATTATCAAATTTTAATTCTT
128230 TTCAATT
1 TTCAATT
128237 TAGTCCTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (24 bp):
TTCAATTATCAAATTTTAATTCTT
Found at i:130614 original size:45 final size:45
Alignment explanation
Indices: 130533--130634 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
130523 CACCTATATG
* * * *
130533 CATTTCAATTATGTCATCTTTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATGGCATCTTTACATGCCTTTGATACACTATTATA
* *
130578 CCTTTTATTTATGGCATCCTTT-CATGCCTTTGATACACTATTATA
1 CATTTCATTTATGGCAT-CTTTACATGCCTTTGATACACTATTATA
130623 CATTTCATTTAT
1 CATTTCATTTAT
130635 AACATCCATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 44 0.92
46 4 0.08
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (45 bp):
CATTTCATTTATGGCATCTTTACATGCCTTTGATACACTATTATA
Found at i:130641 original size:45 final size:45
Alignment explanation
Indices: 130533--130647 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
130523 CACCTATATG
* * * *
130533 CATTTCAATTATGTCAT-CTTTACATGTCTTTTATACACTATTATA
1 CATTTCATTTATGACATCCTTT-CATGCCTTTGATACACTATTATA
* * *
130578 CCTTTTATTTATGGCATCCTTTCATGCCTTTGATACACTATTATA
1 CATTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATA
* *
130623 CATTTCATTTATAACATCCATTCAT
1 CATTTCATTTATGACATCCTTTCAT
130648 ACAATTATGC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 54 0.93
46 4 0.07
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.47
Consensus pattern (45 bp):
CATTTCATTTATGACATCCTTTCATGCCTTTGATACACTATTATA
Found at i:130870 original size:68 final size:68
Alignment explanation
Indices: 130761--131236 Score: 560
Period size: 68 Copynumber: 7.0 Consensus size: 68
130751 TATTCTTTTA
* * * * * * * *
130761 CTCAACGGTACTTAACCGTTCATCTAACTGACATAATTGACACATTT-TTTCCAAATGCACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGT-CAAATGCACAGTT
130825 AGGC
65 AGGC
* * * *
130829 CTCAAAGACACTTAGTCTTTCATCTAATTGGCATAAATGACATC-TTTCTGTCATATGCACAGTT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACA-CATTTCTGTCAAATGCACAGTT
130893 AGGC
65 AGGC
* * * * *
130897 CTCAAAGGTACTTAGCCTTTCATCTAATTGGCATAAATGACACCTTTTTGTAAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
130962 GGC
66 GGC
* * * * * *
130965 CTCAAAGACACTTAGCCTTTCATATAATTGGCATAAATGACACCTTTCTGTCATATGTACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
131030 GGC
66 GGC
* * * * * * * *
131033 CTTAAAGGTACCTAGTCTTTCATGTAACTGGCATAAATGACTCATTTATGTCAAATGCACTGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
131098 GGC
66 GGC
* *
131101 CTCAAAGGCAATTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCATATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
*
131166 GGT
66 GGC
* * * * * *
131169 CTTAAAGGCATTTAGCCTTTCATCGAACTGGCATAAATGACACCTTTCTGTCATATGCACGGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
131234 GGC
66 GGC
131237 TTCTTGATCT
Statistics
Matches: 350, Mismatches: 55, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
67 1 0.00
68 346 0.99
69 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
GGC
Found at i:131005 original size:136 final size:135
Alignment explanation
Indices: 130761--131236 Score: 630
Period size: 136 Copynumber: 3.5 Consensus size: 135
130751 TATTCTTTTA
* * * * * *
130761 CTCAACGGTACTTAACCGTTCATCTAACTGACATAATTGACACATTTTT-TCCAAATGCACAGCT
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTTTGT-CAAATGCACAGTT
*
130825 AGGCCTCAAAGACACTTAGTCTTTCATCTAATTGGCATAAATGACATCTTTCTGTCATATGCACA
65 AGGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACA-CTTTCTGTCATATGCACA
130890 GTTAGGC
129 GTTAGGC
* * *
130897 CTCAAAGGTACTTAGCCTTTCATCTAATTGGCATAAATGACACCTTTTTGTAAAATGCACAGTTA
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTTTGTCAAATGCACAGTTA
* *
130962 GGCCTCAAAGACACTTAGCCTTTCATATAATTGGCATAAATGACACCTTTCTGTCATATGTACAG
66 GGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACA-CTTTCTGTCATATGCACAG
131027 TTAGGC
130 TTAGGC
* * * * * * *
131033 CTTAAAGGTACCTAGTCTTTCATGTAACTGGCATAAATGACTCATTTATGTCAAATGCACTGTTA
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTTTGTCAAATGCACAGTTA
* * *
131098 GGCCTCAAAGGCAATTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCATATGCACAG
66 GGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACAC-TTTCTGTCATATGCACAG
*
131163 TTAGGT
130 TTAGGC
* * * * * * * *
131169 CTTAAAGGCATTTAGCCTTTCATCGAACTGGCATAAATGACACCTTTCTGTCATATGCACGGTTA
1 CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTTTGTCAAATGCACAGTTA
131234 GGC
66 GGC
131237 TTCTTGATCT
Statistics
Matches: 298, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
135 1 0.00
136 296 0.99
137 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (135 bp):
CTCAAAGGTACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTTTGTCAAATGCACAGTTA
GGCCTCAAAGACACTTAGCCTTTCATCTAATTGGCATAAATGACACTTTCTGTCATATGCACAGT
TAGGC
Found at i:131741 original size:59 final size:59
Alignment explanation
Indices: 131608--131844 Score: 327
Period size: 59 Copynumber: 4.0 Consensus size: 59
131598 TATGTTTCCC
* * * *
131608 ATATGGAAATTCATACACTTAGTATGAATTTCTTGTCCT-TTAGCACAC-AAGGTGCCCA
1 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAA-GTGCCCT
* *
131666 ATACAGAAATTTATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
1 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
* * *
131725 ATATGGAAATTCATACACTTAGTATGATTTTCTTTTCATGTTAGCACACGAAGTGCCCT
1 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
* * *
131784 ATATAGAAATTCATACACTTAGTATG-CTTTACTTATCATTTTAGCACACAAAGTGCCCT
1 ATATAGAAATTCATACACTTAGTATGAATTT-CTTATCATGTTAGCACACGAAGTGCCCT
131843 AT
1 AT
131845 CTGGTAATCA
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
58 37 0.23
59 121 0.76
60 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (59 bp):
ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCT
Found at i:135328 original size:20 final size:20
Alignment explanation
Indices: 135299--135337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
135289 TTTCCACCAC
*
135299 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
135319 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
135338 TGTGGCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:144094 original size:21 final size:21
Alignment explanation
Indices: 144068--144124 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
144058 TTGAGGGTCT
144068 TATGTGGTCCTTCGGGAAAAA
1 TATGTGGTCCTTCGGGAAAAA
* *
144089 TATGTGGTCCTTCGAGACAAA
1 TATGTGGTCCTTCGGGAAAAA
144110 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
144125 TGCAAACCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGAAAAA
Found at i:144140 original size:23 final size:23
Alignment explanation
Indices: 144110--144162 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
144100 TCGAGACAAA
144110 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* *
144133 TATGTGGCACTTCGGTGTACACC
1 TATGTGGCACTTCGGTGCAAACC
144156 TATGTGG
1 TATGTGG
144163 TCCTTTGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:153315 original size:31 final size:31
Alignment explanation
Indices: 153246--153398 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
153236 AGGGTCGAGG
153246 GTTTACCTATGTTCTTC-GGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
153276 G-TTACCTATGTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
153306 GTTTACCTATGTTCTTCGGGAC-TATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
153336 ATTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
153367 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
153398 G
1 G
153399 GTCCTTCGGG
Statistics
Matches: 112, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
29 14 0.12
30 43 0.38
31 54 0.48
32 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:153368 original size:61 final size:60
Alignment explanation
Indices: 153246--153398 Score: 238
Period size: 61 Copynumber: 2.5 Consensus size: 60
153236 AGGGTCGAGG
153246 GTTTACCTATGTTCTTC-GGACATATGGACTGTTACCTATGTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGAC-TATGGACTGTTACCTATGTTTTTCGGGACATATGGACT
*
153306 GTTTACCTATGTTCTTCGGGACTATGGACTATTTACCTATGTTCTTT-GGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACTATGGACT-GTTACCTATGTT-TTTCGGGACATATGGACT
*
153367 GTTTACCTAGGTTCTTCGGGATCTATGGACTG
1 GTTTACCTATGTTCTTCGGGA-CTATGGACTG
153399 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
60 25 0.29
61 49 0.57
62 12 0.14
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (60 bp):
GTTTACCTATGTTCTTCGGGACTATGGACTGTTACCTATGTTTTTCGGGACATATGGACT
Done.