Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003893.1 Hibiscus syriacus cultivar Beakdansim tig00008411_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: 92644
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:11598 original size:52 final size:52
Alignment explanation
Indices: 11137--11591 Score: 774
Period size: 52 Copynumber: 8.8 Consensus size: 52
11127 TATGTGCTCA
11137 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
11189 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
11241 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
11293 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
11345 ATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCATAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
* *
11397 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTT-GATCATAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
* *
11449 ATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCATAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
11501 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* *
11553 ATAGCATTTTCTGGAAGTGTTCTTTGAGATATCTGATCT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
11592 AATTGGATAG
Statistics
Matches: 389, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
51 4 0.01
52 381 0.98
53 4 0.01
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.39
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:12431 original size:113 final size:113
Alignment explanation
Indices: 12232--12896 Score: 1134
Period size: 113 Copynumber: 5.8 Consensus size: 113
12222 CAAAGATTCA
* *
12232 AATTCATCACTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AATTCATCACTTGATGGATCAACATTACCAGA-GAA-AGTTCATAATGAGAAGAA--C-TCATCT
*
12297 GAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
61 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
12350 AATTCATCACTTGATGGATCAACATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
12415 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * *
12463 AATTCATCACTTGATGGATCATCGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
12528 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
12576 AATTCATCACTTGATGGATCAACATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
12641 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * *
12689 AATTCATCACTTGATGGATCATCGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
12754 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
12802 AATTCATCAGTTGATGGATCAACACTACCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCACTTGATGGATCAACATTACCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
*
12866 AAGGAAGAAAAAGTTCATAATGAGAAGAACT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACT
12897 CATCAAGAGC
Statistics
Matches: 522, Mismatches: 24, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
112 1 0.00
113 470 0.90
114 1 0.00
116 17 0.03
117 3 0.01
118 30 0.06
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
AATTCATCACTTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:13160 original size:3 final size:3
Alignment explanation
Indices: 13145--13245 Score: 132
Period size: 3 Copynumber: 34.0 Consensus size: 3
13135 TTTATCCATT
* * * * *
13145 TTA TTA ATA TTA TTA TTA ATA TTA TTC TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
13193 TCA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13240 TTA TTA
1 TTA TTA
13246 AATATATTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:26211 original size:42 final size:43
Alignment explanation
Indices: 26152--26244 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
26142 TCGAAATCCC
*
26152 GTGTTTGTTTCAAGTAATTTATTTTCCGG-AAAATATTTTCCT
1 GTGTTTGTTTCAAGTAATTTATTTTCCGGAAAAATATTTTCCA
* * *
26194 GTGTTTGTTTCACGTAATTTGTTTTCCGGAAAAAATGTTTTCCA
1 GTGTTTGTTTCAAGTAATTTATTTTCCGG-AAAAATATTTTCCA
26238 GTGTTTG
1 GTGTTTG
26245 GTTGGAGGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 27 0.60
44 18 0.40
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (43 bp):
GTGTTTGTTTCAAGTAATTTATTTTCCGGAAAAATATTTTCCA
Found at i:26478 original size:30 final size:30
Alignment explanation
Indices: 26444--26528 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
26434 TTTTAATTAA
* *
26444 AATATTA-ATTATTAATATTTCTAATAATAT
1 AATATTATATTATTAATA-TTATAATAAAAT
*
26474 AATATTATATTTTTAATATTATAATAAAAT
1 AATATTATATTATTAATATTATAATAAAAT
*
26504 AATCAATTATATTA-TAATAATATAA
1 AAT--ATTATATTATTAATATTATAA
26529 GATATTATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 20 0.43
31 19 0.40
32 8 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
AATATTATATTATTAATATTATAATAAAAT
Found at i:26483 original size:22 final size:23
Alignment explanation
Indices: 26444--26499 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
26434 TTTTAATTAA
26444 AATATTAATTATTAATATTTCTAAT
1 AATA-TAA-TATTAATATTTCTAAT
*
26469 AATATAATATT-ATATTTTTAAT
1 AATATAATATTAATATTTCTAAT
*
26491 ATTATAATA
1 AATATAATA
26500 AAATAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 18 0.62
23 4 0.14
24 3 0.10
25 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATAATATTAATATTTCTAAT
Found at i:26866 original size:20 final size:20
Alignment explanation
Indices: 26819--26866 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
26809 TAAAAAATTA
26819 TAAAAATTATATTTAATAAT
1 TAAAAATTATATTTAATAAT
* *
26839 AAATAAATTAT-TTTAATATTT
1 TAA-AAATTATATTTAATA-AT
26860 TAAAAAT
1 TAAAAAT
26867 AATAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAAATTATATTTAATAAT
Found at i:27099 original size:14 final size:14
Alignment explanation
Indices: 27067--27112 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
27057 TTCAGAAATG
*
27067 TAATTGAATTTCCA
1 TAATTCAATTTCCA
*
27081 GTAATTCATTTTCCA
1 -TAATTCAATTTCCA
27096 TAATTCAATTTCCA
1 TAATTCAATTTCCA
27110 TAA
1 TAA
27113 ATCCAATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.43
Consensus pattern (14 bp):
TAATTCAATTTCCA
Found at i:27119 original size:15 final size:14
Alignment explanation
Indices: 27073--27120 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
27063 AATGTAATTG
*
27073 AATTTCCAGTAATTC
1 AATTTCCA-TAATCC
* *
27088 ATTTTCCATAATTC
1 AATTTCCATAATCC
27102 AATTTCCATAAATCC
1 AATTTCCAT-AATCC
27117 AATT
1 AATT
27121 ACAACCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (14 bp):
AATTTCCATAATCC
Found at i:30200 original size:30 final size:30
Alignment explanation
Indices: 30138--30202 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
30128 CAGGACCCCA
* * *
30138 TTTTTTCATCCTTGTAATTGGGGCCCTCAT
1 TTTTTTCATCCTTATAATTAGGGCCCTAAT
* * *
30168 TTTTTTCATCTTTATAATTAGGTCCTTAAT
1 TTTTTTCATCCTTATAATTAGGGCCCTAAT
30198 TTTTT
1 TTTTT
30203 AAATCTTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (30 bp):
TTTTTTCATCCTTATAATTAGGGCCCTAAT
Found at i:30235 original size:43 final size:44
Alignment explanation
Indices: 30169--30273 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 44
30159 GGCCCTCATT
* *
30169 TTTTTCATCTTTATAATT-AGGTCCTTAAT-TTTTTAAATCTTA-
1 TTTTTCATCTTTATAATTGAGGTCC-TAATATTATTAAATCTAAC
* *
30211 TTTTTCACCTTTATAATTGAGGTCCTAATATTATTCAATCTAAC
1 TTTTTCATCTTTATAATTGAGGTCCTAATATTATTAAATCTAAC
30255 TTTTT-ATCTTTATAATTGA
1 TTTTTCATCTTTATAATTGA
30274 AATCTTTAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 21 0.38
43 29 0.53
44 5 0.09
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.53
Consensus pattern (44 bp):
TTTTTCATCTTTATAATTGAGGTCCTAATATTATTAAATCTAAC
Found at i:30308 original size:42 final size:43
Alignment explanation
Indices: 30254--30356 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
30244 TTCAATCTAA
*
30254 CTTTTTATCTTTATAATTGAAATCTTTAG-TTTTTTTTAATTC
1 CTTTTTACCTTTATAATTGAAATCTTTAGTTTTTTTTTAATTC
*
30296 CTTTTTACCTTTATAATTGTAATCTTTAGTTTTTTTTTAATTC
1 CTTTTTACCTTTATAATTGAAATCTTTAGTTTTTTTTTAATTC
30339 CTTTTTACCTTTATAATT
1 CTTTTTACCTTTATAATT
30357 ATTTTTTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.22, C:0.12, G:0.04, T:0.62
Consensus pattern (43 bp):
CTTTTTACCTTTATAATTGAAATCTTTAGTTTTTTTTTAATTC
Found at i:30362 original size:32 final size:32
Alignment explanation
Indices: 30326--30388 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
30316 AATCTTTAGT
30326 TTTTTTTTAATTCCTTTTTACCTTTATAATTA
1 TTTTTTTTAATTCCTTTTTACCTTTATAATTA
30358 TTTTTTTTAATTCCTTTTTACCTTTATAATT
1 TTTTTTTTAATTCCTTTTTACCTTTATAATT
30389 GAGGCCCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.67
Consensus pattern (32 bp):
TTTTTTTTAATTCCTTTTTACCTTTATAATTA
Found at i:30376 original size:43 final size:43
Alignment explanation
Indices: 30254--30377 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
30244 TTCAATCTAA
* * *
30254 CTTTTTATCTTTATAATTGA-AATCTTTAGTT-TTTTTTAATTC
1 CTTTTTACCTTTATAATT-ATAATCTTTAATTCCTTTTTAATTC
* * **
30296 CTTTTTACCTTTATAATTGTAATCTTTAGTTTTTTTTTAATTC
1 CTTTTTACCTTTATAATTATAATCTTTAATTCCTTTTTAATTC
** *
30339 CTTTTTACCTTTATAATTATTTTTTTTAATTCCTTTTTA
1 CTTTTTACCTTTATAATTATAATCTTTAATTCCTTTTTA
30378 CCTTTATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
42 28 0.39
43 43 0.61
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.64
Consensus pattern (43 bp):
CTTTTTACCTTTATAATTATAATCTTTAATTCCTTTTTAATTC
Found at i:30547 original size:43 final size:44
Alignment explanation
Indices: 30359--30709 Score: 239
Period size: 44 Copynumber: 8.2 Consensus size: 44
30349 TTATAATTAT
*
30359 TTTTTTTAAT-TC-CTTTTTACCTTTATAATTGAGGCCCCTAA-
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAG
* * ***
30400 TTTTGT-AATCTCAC-TTTTAACTTTATAATTGAGGCTTTTAAG
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAG
* * * * *
30442 TTTTTTCAATCTCACTTTCTACCGTTT-CAATTAAGGTCTCTAAG
1 TTTTTTCAATCTCACTTTTTACC-TTTATAATTGAGGCCCCTAAG
* * *
30486 TTTTTTCAATCTTATTTTTTACCTTTATAATTTAGGCCCCTAA-
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAG
* * * *
30529 TTTTTT-AGTCTCACTTTTTTAACTTTATAATTGAGTCCCTTAAG
1 TTTTTTCAATCTCAC-TTTTTACCTTTATAATTGAGGCCCCTAAG
* * * *
30573 -TTTTTCTAATCGCA-TTTTCTAACTTTCTAATTGAGGCTCCTAAG
1 TTTTTTC-AATCTCACTTTT-TACCTTTATAATTGAGGCCCCTAAG
** * * * * *
30617 AATTTTCAATCTCA-ATTATA---GTATAATTGAGGCCTCT-AT
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAG
* * * * *
30656 TTTTTTCAATCTCAATTTCTATCTTTATAATTAAGGCCTCTAA-
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAG
30699 TTTTTTACAAT
1 TTTTTT-CAAT
30710 TTCATAAAAT
Statistics
Matches: 243, Mismatches: 48, Indels: 35
0.75 0.15 0.11
Matches are distributed among these distances:
39 13 0.05
40 20 0.08
41 30 0.12
42 11 0.05
43 73 0.30
44 83 0.34
45 13 0.05
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (44 bp):
TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAG
Found at i:30623 original size:131 final size:129
Alignment explanation
Indices: 30372--30628 Score: 340
Period size: 131 Copynumber: 2.0 Consensus size: 129
30362 TTTTAATTCC
**
30372 TTTTTACCTTTATAATTGAGGCCCCTAATTTTGTAATCTCACTTTTAACTTTATAATTGAGGCTT
1 TTTTTACCTTTATAATTGAGGCCCCTAATTTTGTAATCTCACTTTTAACTTTATAATTGAGGCCC
* * **
30437 TTAAGTTTTTTCAATCTCACTTTCTACCGTTTCAATTAAGGTCTCTAAGTTTTTTCAATCTTAT
66 TTAAGTTTTTTCAATCGCACTTTCTAACGTTTCAATTAAGGTCTCTAAGAATTTTCAATCTTAT
* * * *
30501 TTTTTACCTTTATAATTTAGGCCCCTAATTTTTTAGTCTCACTTTTTTAACTTTATAATTGAGTC
1 TTTTTACCTTTATAATTGAGGCCCCTAATTTTGTAATCTCAC--TTTTAACTTTATAATTGAGGC
* *
30566 CCTTAAG-TTTTTCTAATCGCATTTTCTAAC-TTTCTAATTGAGG-CTCCTAAGAATTTTCAATC
64 CCTTAAGTTTTTTC-AATCGCACTTTCTAACGTTTC-AATTAAGGTCT-CTAAGAATTTTCAATC
30628 T
126 T
30629 CAATTATAGT
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
129 39 0.35
130 12 0.11
131 60 0.54
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.49
Consensus pattern (129 bp):
TTTTTACCTTTATAATTGAGGCCCCTAATTTTGTAATCTCACTTTTAACTTTATAATTGAGGCCC
TTAAGTTTTTTCAATCGCACTTTCTAACGTTTCAATTAAGGTCTCTAAGAATTTTCAATCTTAT
Found at i:34430 original size:25 final size:26
Alignment explanation
Indices: 34401--34452 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
34391 AATTACAATC
* *
34401 ATAAAATTATATAAATT-TAAATTTT
1 ATAAAATAATATAAATTATAAACTTT
*
34426 ATAAAATAATATTAATTATAAACTTT
1 ATAAAATAATATAAATTATAAACTTT
34452 A
1 A
34453 AGAGTGTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAAAATAATATAAATTATAAACTTT
Found at i:40411 original size:2 final size:2
Alignment explanation
Indices: 40400--40434 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
40390 GATTTTAAAC
40400 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40435 ACTTATCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:41719 original size:20 final size:20
Alignment explanation
Indices: 41694--41750 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
41684 TTTGGTTCAC
41694 GGAATGTAAGATTACCAATA
1 GGAATGTAAGATTACCAATA
* * *
41714 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATTACCAATA
41734 GGAATGTAAGATTACCA
1 GGAATGTAAGATTACCA
41751 GGGAATAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (20 bp):
GGAATGTAAGATTACCAATA
Found at i:42819 original size:59 final size:59
Alignment explanation
Indices: 42756--42884 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 59
42746 GGCAAAGTAC
* *
42756 ACAAATGGTCTCC-CAACTATATAAAATTATTTTGTTGAGTCC-TCTAAGTATTAAAAGTT
1 ACAAATGGTC-CCTCAACTATAGAAAATTACTTTGTTGAGTCCATC-AAGTATTAAAAGTT
** * * * * *
42815 ACAAAATGGTCCCTTTACTATAGGATATTGCTTTGTTGAGTCCATCGATTATTAAAAGTT
1 AC-AAATGGTCCCTCAACTATAGAAAATTACTTTGTTGAGTCCATCAAGTATTAAAAGTT
42875 ACAAATGGTC
1 ACAAATGGTC
42885 ATCCGACTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
59 12 0.21
60 44 0.76
61 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (59 bp):
ACAAATGGTCCCTCAACTATAGAAAATTACTTTGTTGAGTCCATCAAGTATTAAAAGTT
Found at i:57771 original size:3 final size:3
Alignment explanation
Indices: 57763--57801 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
57753 AACTATTAAT
57763 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57802 CTGAATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58411 original size:2 final size:2
Alignment explanation
Indices: 58404--58453 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
58394 TAAACTAAAT
58404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58446 TA TA TA TA
1 TA TA TA TA
58454 ATACATTGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60056 original size:21 final size:21
Alignment explanation
Indices: 60030--60069 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60020 TCAAAAATGT
*
60030 TAAAAACATTAATATTTTAAG
1 TAAAAACAATAATATTTTAAG
*
60051 TAAAAATAATAATATTTTA
1 TAAAAACAATAATATTTTA
60070 CATAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAAACAATAATATTTTAAG
Found at i:63990 original size:8 final size:8
Alignment explanation
Indices: 63977--64017 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
63967 CTCATTTTCA
63977 GAGAATTT
1 GAGAATTT
63985 GAGAATTT
1 GAGAATTT
*
63993 -AGAGTTT
1 GAGAATTT
64000 GAGAATTT
1 GAGAATTT
64008 GAGAATTT
1 GAGAATTT
64016 GA
1 GA
64018 AAGATTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:64002 original size:15 final size:16
Alignment explanation
Indices: 63977--64017 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
63967 CTCATTTTCA
63977 GAGAATTTGAGAATTT
1 GAGAATTTGAGAATTT
*
63993 -AGAGTTTGAGAATTT
1 GAGAATTTGAGAATTT
64008 GAGAATTTGA
1 GAGAATTTGA
64018 AAGATTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (16 bp):
GAGAATTTGAGAATTT
Found at i:64318 original size:128 final size:128
Alignment explanation
Indices: 64090--65099 Score: 1627
Period size: 128 Copynumber: 7.9 Consensus size: 128
64080 ATCGGAGTAT
*
64090 TATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
64155 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
64218 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
* *
64283 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** *
64346 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
**
64410 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* *
64474 TATTCACATGAAGGCGCGTTCCC-AGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
* * *
64538 TTGCCATATTATGTCACTCAAGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * * *
64601 -AGGGGACATGAAGGCTCGTTCCCGGGGGCGCGCCTTCCATTATTTTGCCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
* **
64665 ATTACCCTATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
64729 TATTCACATGAAGGCGCGTTCCCAGGGGG-GCGCCTTCCATTATTTCATCAGAGAATATGTTATC
1 TATTCACATGAAGGCGCGTTCCC-GGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
*
64793 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * *
64857 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGCCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
*
64921 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACCCA-ATATATCAGTACCTATTATTTCAC
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACA-CTAGATATATCAGTACCTATTATTTCAC
64985 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
65050 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65100 AATCAGGTAA
Statistics
Matches: 804, Mismatches: 67, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
126 1 0.00
127 122 0.15
128 671 0.83
129 10 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (128 bp):
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
Found at i:64895 original size:256 final size:256
Alignment explanation
Indices: 64097--65099 Score: 1848
Period size: 256 Copynumber: 3.9 Consensus size: 256
64087 TATTATTCAT
* *
64097 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCCCT
**
64162 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACAT
66 ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
64227 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTAT
131 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTAT
*
64292 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTCTCAGGGGAC
196 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGAC
*
64353 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCATAGAATATGTTATCATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCCCT
64418 ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
66 ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
* *
64483 GAAGGCGCGTTCCC-AGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCATAT
131 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTAT
*
64547 TATGTCACTCAAGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGAC
196 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGAC
* * *
64608 ATGAAGGCTCGTTCCCGGGGGCGCGCCTTCCATTATTTTGCCATAGAATATGTTATCATTACCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCCCT
64673 ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
66 ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
64738 GAAGGCGCGTTCCCAGGGGG-GCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTA
131 GAAGGCGCGTTCCC-GGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTA
64802 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGAC
195 TTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGAC
*
64864 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGCCATAGAATATGTTATCATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCCCT
*
64929 ATTATGTCACTCATGTCCCTCGGGGACACCCAATATATCAGTACCTATTATTTCACTATTCACAT
66 ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
*
64994 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGCCCTAT
131 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTAT
65059 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
196 TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65100 AATCAGGTAA
Statistics
Matches: 726, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
255 252 0.35
256 471 0.65
257 3 0.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (256 bp):
ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGCCATAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCTCGGGGACACCCGATATATCAGTACCTATTATTTCACTATTCACAT
GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTCAGGGGAC
Found at i:65561 original size:33 final size:33
Alignment explanation
Indices: 65500--65599 Score: 128
Period size: 34 Copynumber: 3.0 Consensus size: 33
65490 AAATTTAATG
*
65500 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTT-GAATAATATAATTTATATTTTAAAT
* * * *
65534 TTAAATTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTGAATAATATAATTTATATTTTAAAT
*
65567 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAA-TTTGAATAATATAATTTATATTTTAAA
65600 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 25 0.45
34 31 0.55
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (33 bp):
TTAAATTTGAATAATATAATTTATATTTTAAAT
Found at i:66020 original size:15 final size:15
Alignment explanation
Indices: 66002--66031 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65992 ATCGATGTCT
66002 GTGATCCAGATGGAG
1 GTGATCCAGATGGAG
66017 GTGATCCAGATGGAG
1 GTGATCCAGATGGAG
66032 ATTGAGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (15 bp):
GTGATCCAGATGGAG
Found at i:66201 original size:21 final size:21
Alignment explanation
Indices: 66134--66206 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
66124 TATGGTATAA
* *
66134 AACCTTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
66155 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
66176 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
66197 AACCCCGCGG
1 AACCCTGCGG
66207 AGATGGCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 41 0.89
22 3 0.07
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:66236 original size:21 final size:21
Alignment explanation
Indices: 66210--66257 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
66200 CCCGCGGAGA
*
66210 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
66231 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
66252 GGGCAT
1 TGGCAT
66258 GTACCCCCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:68039 original size:33 final size:30
Alignment explanation
Indices: 67980--68056 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 30
67970 TTAATAATTC
* *
67980 TAAATAAATAATAATTATATAAATATTATTTAA
1 TAAA-AAATAATAATTACATAAATATTA-AT-A
* *
68013 TAAAAATATAATATTTACATATATATTAATA
1 TAAAAA-ATAATAATTACATAAATATTAATA
68044 TAAAAAATAATAA
1 TAAAAAATAATAA
68057 CTATTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
30 6 0.16
31 7 0.18
32 3 0.08
33 22 0.58
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAAAAATAATAATTACATAAATATTAATA
Found at i:75504 original size:20 final size:20
Alignment explanation
Indices: 75479--75571 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
75469 TTTTCCCAAT
75479 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
75499 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
75519 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
75540 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
75561 TCGCAATGCGA
1 TCGCAATGCGA
75572 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:75521 original size:41 final size:41
Alignment explanation
Indices: 75476--75571 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
75466 CGATTTTCCC
75476 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
75517 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
75558 AAATCGCAATGCGA
1 AATTCGCAATGCGA
75572 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:75525 original size:21 final size:20
Alignment explanation
Indices: 75479--75571 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
75469 TTTTCCCAAT
*
75479 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
75499 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
75519 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
75540 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
75561 TCGCAATGCGA
1 TCGCAATGCGA
75572 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:75584 original size:41 final size:41
Alignment explanation
Indices: 75498--75632 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
75488 GAATAAGTAA
* * *
75498 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
75539 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
75580 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
75621 TTCGCAACGCGA
1 ATCGCAACGCGA
75633 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:75585 original size:20 final size:20
Alignment explanation
Indices: 75560--75654 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
75550 AATTGGGAAA
*
75560 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
75580 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
75601 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
75621 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
75641 TTCGCAACGCGATA
1 ATCGCAACGCGATA
75655 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:76174 original size:20 final size:20
Alignment explanation
Indices: 76149--76186 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76139 CGATTCTCTC
76149 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
76169 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
76187 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:77525 original size:18 final size:18
Alignment explanation
Indices: 77504--77548 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
77494 TCCACTTCGG
*
77504 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
77522 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
77540 GAGCCATCA
1 GAGCCATCA
77549 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:78074 original size:19 final size:20
Alignment explanation
Indices: 78020--78075 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
78010 TAGTTTACTT
* *
78020 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
78040 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
78060 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
78076 AAATCACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:78099 original size:14 final size:14
Alignment explanation
Indices: 78075--78132 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
78065 ATGCGAAATG
*
78075 AAAATCACAACGAC
1 AAAATCGCAACGAC
* *
78089 AAAATTGCAACGCGAA
1 AAAATCGCAA--CGAC
78105 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
78121 AAAATCGCAACG
1 AAAATCGCAACG
78133 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 19 0.54
16 8 0.23
18 8 0.23
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:78118 original size:32 final size:33
Alignment explanation
Indices: 78059--78149 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
78049 GGAAATGGCT
* *
78059 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
78092 ATTGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
78124 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
78150 TGCGATTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 30 0.57
33 23 0.43
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:78143 original size:19 final size:19
Alignment explanation
Indices: 78020--78154 Score: 67
Period size: 19 Copynumber: 7.6 Consensus size: 19
78010 TAGTTTACTT
* **
78020 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
78040 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
78060 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
78079 TCACAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
78093 TTGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
78111 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
78125 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
78144 TCGCAATGCGA
1 TCGCAACGCGA
78155 TTTGTGTTTC
Statistics
Matches: 88, Mismatches: 15, Indels: 25
0.69 0.12 0.20
Matches are distributed among these distances:
14 18 0.20
15 1 0.01
16 6 0.07
17 2 0.02
18 10 0.11
19 26 0.30
20 24 0.27
21 1 0.01
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:78200 original size:32 final size:32
Alignment explanation
Indices: 78161--78271 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
78151 GCGATTTGTG
78161 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
*
78193 TTTCGCGTTGCGATTTTTTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
78225 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
78258 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
78272 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 57 0.76
33 18 0.24
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:78270 original size:19 final size:18
Alignment explanation
Indices: 78161--78312 Score: 130
Period size: 14 Copynumber: 8.9 Consensus size: 18
78151 GCGATTTGTG
78161 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
78177 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
78193 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
78209 TTT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
78225 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
78241 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
* **
78258 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGAT-TTCA
*
78277 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGAT-TTCA
78297 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
78313 TAAGTTTCGT
Statistics
Matches: 111, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
14 30 0.27
15 3 0.03
16 12 0.11
17 2 0.02
18 24 0.22
19 23 0.21
20 17 0.15
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.45
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:78290 original size:20 final size:19
Alignment explanation
Indices: 78256--78310 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
78246 TTGCGATTTT
*
78256 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
78275 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
78295 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
78311 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:80195 original size:14 final size:14
Alignment explanation
Indices: 80176--80211 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
80166 ATTGTTTAAT
80176 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
80190 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
80204 TGATTTGT
1 TGATTTGT
80212 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:80778 original size:14 final size:14
Alignment explanation
Indices: 80759--80795 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
80749 GATTGTTTAA
80759 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
80773 TTGATTTGTAAATG
1 TTGATTTGTAAAAG
80787 TTGATTTGT
1 TTGATTTGT
80796 TTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:82066 original size:24 final size:24
Alignment explanation
Indices: 82010--82068 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
82000 AGTCAGTATT
* *
82010 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
82034 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
82058 CGAATTTTGAT
1 CGAAATTTGAT
82069 GATGTTCAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:84535 original size:19 final size:19
Alignment explanation
Indices: 84513--84596 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
84503 GGAAATTACT
84513 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
84532 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
84546 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
84565 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
84584 ATCGCAACGCGAA
1 ATCGCAATGCGAA
84597 TTTAATTTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 41 0.72
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:84772 original size:14 final size:14
Alignment explanation
Indices: 84753--84789 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
84743 CATCAATTAA
84753 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
84767 ACAAATCACCTTTT
1 ACAAATCAACTTTT
84781 ACAAATCAA
1 ACAAATCAA
84790 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:86191 original size:21 final size:21
Alignment explanation
Indices: 86125--86191 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
86115 GTGAATCGGG
*
86125 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
86145 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
86167 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
86188 CTCT
1 CTCT
86192 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:86210 original size:42 final size:41
Alignment explanation
Indices: 86125--86247 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
86115 GTGAATCGGG
* * * * *
86125 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
86167 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* ** * * *
86209 CTCTTCAACAATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
86248 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:88250 original size:20 final size:19
Alignment explanation
Indices: 88219--88435 Score: 143
Period size: 20 Copynumber: 11.8 Consensus size: 19
88209 TCTTTTGGTT
88219 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
88238 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
88259 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
88278 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
88292 G-AATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
88307 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
88324 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
*
88344 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* * *
88364 GAAATTAAAATCACAACGC
1 GAAATGAAAATCGCAACGA
*
88383 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
88402 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGA
88421 G-AATGAAAATCGCAA
1 GAAATGAAAATCGCAA
88436 TGCGATTTTG
Statistics
Matches: 165, Mismatches: 20, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
14 17 0.10
15 4 0.02
16 2 0.01
17 3 0.02
18 19 0.12
19 52 0.32
20 66 0.40
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:88302 original size:32 final size:33
Alignment explanation
Indices: 88244--88341 Score: 135
Period size: 32 Copynumber: 3.0 Consensus size: 33
88234 ACGAGATAAT
*
88244 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
88278 GAGAATCGCAACGCG-AATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
88310 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
88342 GCGAAATGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 29 0.51
33 14 0.25
34 14 0.25
ACGTcount: A:0.39, C:0.27, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:88335 original size:19 final size:19
Alignment explanation
Indices: 88313--88440 Score: 195
Period size: 19 Copynumber: 6.7 Consensus size: 19
88303 GCGACCAGAC
88313 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
88332 AATCGCAACCGCGAAATGAA
1 AATCGCAA-CGCGAAATGAA
*
88352 AATCGCAACCGCGAAATTAA
1 AATCGCAA-CGCGAAATGAA
*
88372 AATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
88391 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
88410 AATCGCAATGCG-AATGAA
1 AATCGCAACGCGAAATGAA
*
88428 AATCGCAATGCGA
1 AATCGCAACGCGA
88441 TTTTGGTTTC
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
18 18 0.18
19 47 0.46
20 37 0.36
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:88356 original size:39 final size:38
Alignment explanation
Indices: 88219--88440 Score: 207
Period size: 40 Copynumber: 6.1 Consensus size: 38
88209 TCTTTTGGTT
* *
88219 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
88258 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
88292 G-AATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
88324 GAAATGAAAATCGCAACCGCGAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAA-CGC
* *
88364 GAAATTAAAATCACAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
88402 GAAATGAAAATCGCAATGCG-AATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
88439 GA
1 GA
88441 TTTTGGTTTC
Statistics
Matches: 158, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
32 28 0.18
33 13 0.08
34 15 0.09
35 2 0.01
37 18 0.11
38 22 0.14
39 29 0.18
40 31 0.20
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:88470 original size:18 final size:19
Alignment explanation
Indices: 88436--88479 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
88426 AAAATCGCAA
*
88436 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
88455 TGCGATTTT-ATTTCGCGT
1 TGCGATTTTGATTTCGCGT
88473 TGCGATT
1 TGCGATT
88480 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:89095 original size:40 final size:40
Alignment explanation
Indices: 89051--89127 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
89041 CGAAAGTCAG
* * *
89051 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTAT
* *
89091 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
89128 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (40 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTAT
Found at i:89124 original size:20 final size:20
Alignment explanation
Indices: 89032--89124 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 20
89022 CGCTAAGTAA
*
89032 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
89052 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
89072 ATCTCGTTGCGATTTTTATT
1 ATCGCGTTGCGATAGTCAGT
*
89092 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
89112 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
89125 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:89157 original size:20 final size:20
Alignment explanation
Indices: 89113--89205 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
89103 ATAGTCAGTA
* **
89113 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
89134 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
89154 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
89175 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
89195 TCGCATTGCGA
1 TCGCATTGCGA
89206 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:89158 original size:41 final size:41
Alignment explanation
Indices: 89113--89208 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
89103 ATAGTCAGTA
*
89113 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
89154 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
89195 TCGCATTGCGAATT
1 TCGCATTGCGAATT
89209 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Done.