Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008352.1 Hibiscus syriacus cultivar Beakdansim tig00111086_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: 217463
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:241 original size:36 final size:36
Alignment explanation
Indices: 194--266 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
184 GATCAGGTTG
*
194 AGGTTTTCCCTTCAGATAATGCAAACAAAGGCTGCA
1 AGGTTTTCCCTTCAGATAATGCAAACAAAGGCCGCA
*
230 AGGTTTTCCCTTCAGATAATGCAAACAAGGGCCGCA
1 AGGTTTTCCCTTCAGATAATGCAAACAAAGGCCGCA
266 A
1 A
267 AGACGGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (36 bp):
AGGTTTTCCCTTCAGATAATGCAAACAAAGGCCGCA
Found at i:1196 original size:41 final size:40
Alignment explanation
Indices: 1135--1213 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 40
1125 CTCTGCTATG
* *
1135 TATCTTCAGAACGTTTTATCTTGTTTCTAGCACTGTTTTGT
1 TATCTTCAGAACATTGTATCTTG-TTCTAGCACTGTTTTGT
1176 TATCTTCAGAACATTGTATCTTGTTCTAGCACTGTTTT
1 TATCTTCAGAACATTGTATCTTGTTCTAGCACTGTTTT
1214 ATTTATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 15 0.42
41 21 0.58
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (40 bp):
TATCTTCAGAACATTGTATCTTGTTCTAGCACTGTTTTGT
Found at i:12405 original size:59 final size:59
Alignment explanation
Indices: 12342--12469 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 59
12332 ATAAGTACCT
** ***
12342 ATATTTTTT-GTCAAAGTA-GTAACCTAAGGTATATTGCCTTTTTCATCTAGGTACCTATA
1 ATATTTTTTGGTCAAACAATGT-ACCTAAGGTATACCACCTTTTTCATCTAGGTACCTA-A
* *
12401 ATATTTTTTGGTCAAACAATGTACCTAAGGTGTACCACCTTTTTCATGTAGGTACCTAA
1 ATATTTTTTGGTCAAACAATGTACCTAAGGTATACCACCTTTTTCATCTAGGTACCTAA
12460 AGTATTTTTT
1 A-TATTTTTT
12470 AATAGATGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
59 11 0.19
60 46 0.78
61 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (59 bp):
ATATTTTTTGGTCAAACAATGTACCTAAGGTATACCACCTTTTTCATCTAGGTACCTAA
Found at i:27194 original size:15 final size:16
Alignment explanation
Indices: 27165--27200 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
27155 TATATGAAAA
27165 TAAAATAAACACAAAG
1 TAAAATAAACACAAAG
*
27181 TAAATTAAAC-CAAAG
1 TAAAATAAACACAAAG
27196 TAAAA
1 TAAAA
27201 ACATTCCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (16 bp):
TAAAATAAACACAAAG
Found at i:29526 original size:2 final size:2
Alignment explanation
Indices: 29519--29545 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29509 AATATGGCAT
29519 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
29546 GTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29550 original size:2 final size:2
Alignment explanation
Indices: 29545--29584 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
29535 TATATATATA
29545 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
29585 GAAGTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:35166 original size:21 final size:21
Alignment explanation
Indices: 35141--35185 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
35131 CTTTAACTTA
*
35141 AAACCCTAAATTATAAACC-CT
1 AAACCCTAAATCAT-AACCTCT
35162 AAACCCTAAATCATAACCTCT
1 AAACCCTAAATCATAACCTCT
35183 AAA
1 AAA
35186 TTATAAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAATCATAACCTCT
Found at i:43285 original size:23 final size:23
Alignment explanation
Indices: 43217--43318 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 23
43207 AAGTATATTT
** *
43217 ATAATATTATGAAATTATTTTTAA
1 ATAATATTATTTAATTA-TTTAAA
43241 AT-AT-TTATTTAATT-TTTAAA
1 ATAATATTATTTAATTATTTAAA
* * *
43261 ATCATATTATTTATTTATTTGAA
1 ATAATATTATTTAATTATTTAAA
* *
43284 ATAATATTAATTAATTATTTCAA
1 ATAATATTATTTAATTATTTAAA
*
43307 ATAATATAATTT
1 ATAATATTATTT
43319 TTAAAATTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 7 0.11
21 2 0.03
22 17 0.27
23 36 0.56
24 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATAATATTATTTAATTATTTAAA
Found at i:43523 original size:24 final size:23
Alignment explanation
Indices: 43477--43562 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
43467 ATTTTAAAAT
*
43477 TAAATAAATATTTTTATAATATTA
1 TAAATATAT-TTTTTATAATATTA
43501 TAAATATATTTTTTATAATTATT-
1 TAAATATATTTTTTATAA-TATTA
* * * *
43524 T-CATATAATTTGTATAAAAATATA
1 TAAATATATTTTTTAT-AATAT-TA
43548 TAAAT-TATTTTTTAT
1 TAAATATATTTTTTAT
43563 TTTGAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 13 0.27
23 13 0.27
24 21 0.43
25 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (23 bp):
TAAATATATTTTTTATAATATTA
Found at i:43632 original size:35 final size:37
Alignment explanation
Indices: 43540--43638 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
43530 AATTTGTATA
43540 AAAATATATAAATTATTTTTTATTTTGAAATAAAGTG
1 AAAATATATAAATTATTTTTTATTTTGAAATAAAGTG
43577 AAAATATATAAATTATTTTTTATTTTGAAATAAAGTG
1 AAAATATATAAATTATTTTTTATTTTGAAATAAAGTG
43614 AAAAT-TA-AAATTATTTTTTAATTTT
1 AAAATATATAAATTATTTTTT-ATTTT
43639 ACTAACCTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
35 12 0.20
36 7 0.11
37 42 0.69
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (37 bp):
AAAATATATAAATTATTTTTTATTTTGAAATAAAGTG
Found at i:45275 original size:2 final size:2
Alignment explanation
Indices: 45268--45327 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
45258 ATCCTTCAGG
45268 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
45310 CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT
45328 TCTTCTTCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:49864 original size:2 final size:2
Alignment explanation
Indices: 49857--49882 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49847 GGGGAAAATG
49857 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
49883 GTGGGTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52764 original size:13 final size:12
Alignment explanation
Indices: 52723--52760 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
52713 CACTTTTATT
52723 AAATA-AAATAA
1 AAATATAAATAA
* *
52734 AAACATAATTAA
1 AAATATAAATAA
52746 AAATATAAATAA
1 AAATATAAATAA
52758 AAA
1 AAA
52761 ATATTATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATATAAATAA
Found at i:52996 original size:6 final size:6
Alignment explanation
Indices: 52985--53048 Score: 119
Period size: 6 Copynumber: 10.7 Consensus size: 6
52975 AGGAGGGAAA
52985 GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG
1 GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG GAAGTG
*
53033 GAAGTG CAAGTG GAAG
1 GAAGTG GAAGTG GAAG
53049 ACGGGTGGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.34, C:0.02, G:0.48, T:0.16
Consensus pattern (6 bp):
GAAGTG
Found at i:53405 original size:26 final size:24
Alignment explanation
Indices: 53354--53399 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
53344 AAAATATCAT
*
53354 TTTTTTAAATATTTTTCGGTTGAA
1 TTTTTTAAATATTTTTCAGTTGAA
53378 TTTTTTATAATA-TTTTCAGTTG
1 TTTTTTA-AATATTTTTCAGTTG
53400 CCAATTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (24 bp):
TTTTTTAAATATTTTTCAGTTGAA
Found at i:54030 original size:30 final size:30
Alignment explanation
Indices: 53994--54050 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
53984 GAAGGTTTGA
53994 GACT-AAAATATAAAGTTGTAAAAGTTATGT
1 GACTAAAAATA-AAAGTTGTAAAAGTTATGT
* *
54024 GACTAAAAATAAAATTTTTAAAAGTTA
1 GACTAAAAATAAAAGTTGTAAAAGTTA
54051 CGTTTTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (30 bp):
GACTAAAAATAAAAGTTGTAAAAGTTATGT
Found at i:55673 original size:2 final size:2
Alignment explanation
Indices: 55668--55693 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55658 ATAGTTTCGA
55668 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
55694 TGCTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56135 original size:24 final size:26
Alignment explanation
Indices: 56108--56166 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
56098 GAACTGTTCA
*
56108 TATATGATTTTAT-AA-GAATTGTTT
1 TATATGATTATATGAATGAATTGTTT
56132 TATATTGGATTATATGAATGAATTGTTT
1 TATA-T-GATTATATGAATGAATTGTTT
56160 TAATATG
1 T-ATATG
56167 CAAATTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 7 0.24
27 3 0.10
28 11 0.38
29 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (26 bp):
TATATGATTATATGAATGAATTGTTT
Found at i:57924 original size:30 final size:30
Alignment explanation
Indices: 57882--57948 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
57872 CACACGATAT
* *
57882 TTTTAAA-ATTTTATTATT-TTTAAATTTT
1 TTTTAAATATTTTAATATTATTTAAATTTC
*
57910 TCTTTAAATATTTTAATATTATTTTAATTTC
1 T-TTTAAATATTTTAATATTATTTAAATTTC
57941 TTTTAAAT
1 TTTTAAAT
57949 TTCAAATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 6 0.18
30 17 0.52
31 9 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTAAATATTTTAATATTATTTAAATTTC
Found at i:63304 original size:42 final size:41
Alignment explanation
Indices: 63204--63527 Score: 322
Period size: 42 Copynumber: 7.9 Consensus size: 41
63194 CCGGAAAATA
* * * *
63204 ATGTACTTTAGTGGCATTTTTATACAAACGCCGCTAA--AG
1 ATGTACTTTAGTGGCGTTTTAACACAAACGCCGCTAATTAC
*
63243 GTCGTACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATTAC
1 AT-GTACTTTAGTGGCGTTTTAA-CACAAACGCCGCTAATTAC
* *
63286 ATGTTCTTTAGTGGCGTTTTACGCACAAACGCCGCTAATTAC
1 ATGTACTTTAGTGGCGTTTTA-ACACAAACGCCGCTAATTAC
* * * * * * * *
63328 ATGCACTATAGTGGCGTTTTTATATAAACGCTGATAAATAC
1 ATGTACTTTAGTGGCGTTTTAACACAAACGCCGCTAATTAC
* *
63369 -TGTACTTTAGTGGCGATTTT-ATACAAACGCCGCTAA--AG
1 ATGTACTTTAGTGGCG-TTTTAACACAAACGCCGCTAATTAC
* *
63407 GTCGTACTTTAGTGGCGTTTTAAGCAAAAACGCCGCTAATTAC
1 AT-GTACTTTAGTGGCGTTTTAA-CACAAACGCCGCTAATTAC
*
63450 ATGTTCTTTAGTGGCGTTTTATACACAAACGCCGCTAATTAC
1 ATGTACTTTAGTGGCGTTTTA-ACACAAACGCCGCTAATTAC
* *
63492 ACGTACTTTAGTGGCATTTTTAA-A-AAACGCCGCTAA
1 ATGTACTTTAGTGGC-GTTTTAACACAAACGCCGCTAA
63528 AGGTCGTCTT
Statistics
Matches: 238, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 71 0.30
41 46 0.19
42 104 0.44
43 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (41 bp):
ATGTACTTTAGTGGCGTTTTAACACAAACGCCGCTAATTAC
Found at i:63479 original size:164 final size:163
Alignment explanation
Indices: 63199--63521 Score: 540
Period size: 164 Copynumber: 2.0 Consensus size: 163
63189 AAACGCCGGA
63199 AAATAATGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGGTCGTACTTTAGTGGCGTTTT
1 AAATAATGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGGTCGTACTTTAGTGGCGTTTT
* *
63264 AAGCACAAACGCCGCTAATTACATGTTCTTTAGTGGCGTTTTACGCACAAACGCCGCTAATTACA
66 AAGCAAAAACGCCGCTAATTACATGTTCTTTAGTGGCGTTTTACACACAAACGCCGCTAATTACA
* * *
63329 TGCACTATAGTGGCGTTTTTATATAAACGCTGAT
131 CGCACTATAGTGGCATTTTTA-AAAAACGCTGAT
*
63363 AAATACTGTACTTTAGTGGCGA-TTTTATACAAACGCCGCTAAAGGTCGTACTTTAGTGGCGTTT
1 AAATAATGTACTTTAGTGGC-ATTTTTATACAAACGCCGCTAAAGGTCGTACTTTAGTGGCGTTT
*
63427 TAAGCAAAAACGCCGCTAATTACATGTTCTTTAGTGGCGTTTTATACACAAACGCCGCTAATTAC
65 TAAGCAAAAACGCCGCTAATTACATGTTCTTTAGTGGCGTTTTACACACAAACGCCGCTAATTAC
* *
63492 ACGTACTTTAGTGGCATTTTTAAAAAACGC
130 ACGCACTATAGTGGCATTTTTAAAAAACGC
63522 CGCTAAAGGT
Statistics
Matches: 149, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
163 7 0.05
164 141 0.95
165 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (163 bp):
AAATAATGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAAGGTCGTACTTTAGTGGCGTTTT
AAGCAAAAACGCCGCTAATTACATGTTCTTTAGTGGCGTTTTACACACAAACGCCGCTAATTACA
CGCACTATAGTGGCATTTTTAAAAAACGCTGAT
Found at i:67892 original size:43 final size:43
Alignment explanation
Indices: 67795--68145 Score: 553
Period size: 43 Copynumber: 8.2 Consensus size: 43
67785 ACGGTCATTA
** *
67795 GCGGCGTTTGTATCAAAAACGCCGCTATAGATCT-AACCT-TT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
* * * *
67836 GTGGCGTTTGTTCCAAAAACGCCGCTATAAATCTCGACATATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
* * * *
67879 GTGGCGTTTGTTCCAAAAATGTCGCTATAGATCTCGACCTATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
67922 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
*
67965 GAGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
* *
68008 GAGGCGTTTATCCCAAAAACGCCGCTATAGATCTCGACCTATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
68051 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
*
68094 GCGGCGTTTGTCCTAAAAACGCCGCTATAGATCTCGACCTATT
1 GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
68137 GCGGCGTTT
1 GCGGCGTTT
68146 TTTGTTCACA
Statistics
Matches: 289, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 30 0.10
42 3 0.01
43 256 0.89
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
GCGGCGTTTGTCCCAAAAACGCCGCTATAGATCTCGACCTATT
Found at i:76828 original size:2 final size:2
Alignment explanation
Indices: 76821--76855 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
76811 TGGTTTAAGG
76821 AT AT AT AT 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 AT AT AT AT A
76856 ATAAAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:77668 original size:16 final size:17
Alignment explanation
Indices: 77640--77675 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
77630 AACGGTTAAA
*
77640 AAATAACGTGATCTGTT
1 AAATAACGTGATCGGTT
77657 AAATAA-GTGATCGGTT
1 AAATAACGTGATCGGTT
77673 AAA
1 AAA
77676 ATTTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (17 bp):
AAATAACGTGATCGGTT
Found at i:77677 original size:17 final size:18
Alignment explanation
Indices: 77639--77677 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
77629 AAACGGTTAA
*
77639 AAAATAACGTGATCTGTT
1 AAAATAACGTGATCGGTT
77657 -AAATAA-GTGATCGGTT
1 AAAATAACGTGATCGGTT
77673 AAAAT
1 AAAAT
77678 TTAAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (18 bp):
AAAATAACGTGATCGGTT
Found at i:78372 original size:182 final size:181
Alignment explanation
Indices: 78159--78608 Score: 742
Period size: 182 Copynumber: 2.5 Consensus size: 181
78149 TTTACTATCG
* * *
78159 GTTTTGTCA-TTCGAGACCGATTTTATCATATTTTTACGTTTTATATTGTTATGGATCGATATAT
1 GTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
* * *
78223 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCG
66 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAAATCCAAAAGTGTCG
*
78288 ATACTTATAATAAAGTATCAACACTTTCAACATATAC-GGTAGCTCTTTACTA
131 ATACTTATAATAAAGTATCAACACTTTCAACATAT-CTGATAGCTCTTTAC-A
*
78340 GTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATTGATACAT
1 GTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
*
78405 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAAATCTAAAAGTGTCG
66 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAAATCCAAAAGTGTCG
* * *
78470 ATACTTATAATAAAGTATCGACACTTTCAACATATCTGATAGTTCTTTACC
131 ATACTTATAATAAAGTATCAACACTTTCAACATATCTGATAGCTCTTTACA
*
78521 GATTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACA
1 G-TTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACA
78586 TTTTTATAAAGTATCGACACTTT
65 TTTTTATAAAGTATCGACACTTT
78609 CAATATATCC
Statistics
Matches: 252, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
181 11 0.04
182 241 0.96
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (181 bp):
GTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAAATCCAAAAGTGTCG
ATACTTATAATAAAGTATCAACACTTTCAACATATCTGATAGCTCTTTACA
Found at i:78678 original size:112 final size:112
Alignment explanation
Indices: 78479--78832 Score: 566
Period size: 112 Copynumber: 3.2 Consensus size: 112
78469 GATACTTATA
* * *** ** * *
78479 ATAAAGTATCGACACTTTCAACATATCTGATAGTTCTTTACC-GATTTTGTCATTTCGAGACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACCTG-TTTTGTCATTTATAGATCGA
* * *
78543 TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
65 TTTTGTCATTTTTTTACCAGTTATATTGTTATGGATCGATACATTTTT
78591 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACCTGTTTTGTCATTTATAGATCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACCTGTTTTGTCATTTATAGATCGAT
78656 TTTGTCATTTTTTTACCAGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCAGTTATATTGTTATGGATCGATACATTTTT
*
78703 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACATGTTTTGTCATTTATAGATCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACCTGTTTTGTCATTTATAGATCGAT
*
78768 TTTGTCATTTTTTTACCAATTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCAGTTATATTGTTATGGATCGATACATTTTT
78815 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
78833 ATTGGCGCTA
Statistics
Matches: 227, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
112 226 1.00
113 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACCTGTTTTGTCATTTATAGATCGAT
TTTGTCATTTTTTTACCAGTTATATTGTTATGGATCGATACATTTTT
Found at i:78965 original size:20 final size:20
Alignment explanation
Indices: 78918--78965 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
78908 ATCCGGTAGC
78918 TCTTTACCAGTTTTGTCATT
1 TCTTTACCAGTTTTGTCATT
**
78938 TCGATACCAGTTTTGTCATAT
1 TCTTTACCAGTTTTGTCAT-T
78959 T-TTTACC
1 TCTTTACC
78966 TGTTATATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (20 bp):
TCTTTACCAGTTTTGTCATT
Found at i:78973 original size:293 final size:293
Alignment explanation
Indices: 78591--79125 Score: 840
Period size: 293 Copynumber: 1.8 Consensus size: 293
78581 ATACATTTTT
* * *
78591 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACCTGTTTTGTCATTTATAGATCGAT
1 ATAAAGTATCGACACTTTCAACATATCCGATAACACTTTACCAGTTTTGTCATTTATAGATCCAT
*
78656 TTTGTCATTTTTTTACCAGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCAGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * *
78721 CAATATATCCGATAACACTTTACATGTTTTGTCATTTATAGATCGATTTTGTCATTTTTTTACCA
131 CAATATATCCGATAACACTTTACATGTTTTGTCATTTATAGACCGATTTTATCATATTTTTACCA
*
78786 ATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAATTTTT
196 ATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACACTTTATTGGCGCTATAATTTTT
78851 TTCTTTTAAATTCTAAAAGTGTAGATACTTATA
261 TTCTTTTAAATTCTAAAAGTGTAGATACTTATA
* * * * * *
78884 ATAAAGTATTGACATTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCA-TT-TCGATACCA
1 ATAAAGTATCGACACTTTCAACATATCCGATAACACTTTACCAGTTTTGTCATTTATAGAT-CCA
*
78947 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
65 -TTTTGTCATATTTTTACCAGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* * * * *
79012 TTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTATCATATTTTTAC
129 TTCAATATATCCGATAACACTTTACATGTTTTGTCATTTATAGACCGATTTTATCATATTTTTAC
**
79077 CTGTTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACACTTT
194 CAATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACACTTT
79126 CAATATATCC
Statistics
Matches: 218, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
291 4 0.02
292 4 0.02
293 210 0.96
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (293 bp):
ATAAAGTATCGACACTTTCAACATATCCGATAACACTTTACCAGTTTTGTCATTTATAGATCCAT
TTTGTCATATTTTTACCAGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCGATAACACTTTACATGTTTTGTCATTTATAGACCGATTTTATCATATTTTTACCA
ATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACACTTTATTGGCGCTATAATTTTT
TTCTTTTAAATTCTAAAAGTGTAGATACTTATA
Found at i:79043 original size:112 final size:112
Alignment explanation
Indices: 78884--79238 Score: 525
Period size: 112 Copynumber: 3.2 Consensus size: 112
78874 GATACTTATA
* * * * * ** *
78884 ATAAAGTATTGACATTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATTTCGATACCAGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
*
78949 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
78996 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACC-GA
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAG-
*
79060 TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATAAATTTTT
65 TTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
79108 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACC-AG
* * *
79173 TTTTTTAAT-TCTTTTACCTGTTATATTATTATGGATCGATACATTTTT
65 TTTTATCATAT-TTTTACCTGTTATATTGTTATGGATCGATACATTTTT
79221 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
79239 ATTAGCGCTA
Statistics
Matches: 221, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
111 1 0.00
112 160 0.72
113 60 0.27
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
TTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:79535 original size:111 final size:112
Alignment explanation
Indices: 79291--79568 Score: 432
Period size: 111 Copynumber: 2.5 Consensus size: 112
79281 GACACTTATA
* * * * *
79291 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTATCGGTTTTGTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTTAGAGACCAGT
*
79356 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* * *
79403 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTTAGAGACCAGT
**
79468 TTTGTCAT-TTTTTATTTGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* *
79514 ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTATCTGTTTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTT
79569 TTACCTATTA
Statistics
Matches: 151, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 86 0.57
112 65 0.43
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTTAGAGACCAGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:79567 original size:406 final size:404
Alignment explanation
Indices: 78297--79568 Score: 1994
Period size: 405 Copynumber: 3.1 Consensus size: 404
78287 GATACTTATA
* * * * **
78297 ATAAAGTATCAACACTTTCAACATATACGGTAGCTCTTTAC-TAGTTTTGTCATTTCGAGACCGA
1 ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTACAT-GTTTTGTCATTTATAGACCGA
*
78361 TTTTATCATATTTTTACCTGTTATATTGTTATGGATTGATACATTTTTATAAAGTATCGACACTT
65 TTTTATCAT-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
*
78426 TATTAGCGCTATAACTTATTCTCTTTTAAAATCTAAAAGTGTCGATACTTATAATAAAGTATCGA
129 TATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGA
* * * * *
78491 CACTTTCAACATATCTGATAGTTCTTTACCGATTTTGTCATTTCGAGACCGGTTTTATCATATTT
194 CACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTT
*
78556 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGA
259 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGG
* * * *
78621 TAACACTTTACCTGTTTTGTCATTTATAGATCGATTTTGTCATTTTTTTACCAGTTATATTGTTA
324 TAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCA-TTTTTTACCTGTTATATTGTTA
78686 TGGATCGATACATTTTT
388 TGGATCGATACATTTTT
* * * *
78703 ATAAAGTATCGACACTTTCAATATATCCGATAACACTTTACATGTTTTGTCATTTATAGATCGAT
1 ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTACATGTTTTGTCATTTATAGACCGAT
* **
78768 TTTGTCATTTTTTTACCAATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTATCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * * * *
78833 ATTGGCGCTATAA-TTTTTTTCTTTTAAATTCTAAAAGTGTAGATACTTATAATAAAGTATTGAC
130 ATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGAC
* * * *
78897 ATTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATTTCGATACCAGTTTTGTCATATTTT
195 ACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTT
*
78962 TACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTGGT
260 TACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGT
*
79027 AGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTATCATATTTTTACCTGTTATATTGTTAT
325 AGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCAT-TTTTTACCTGTTATATTGTTAT
*
79092 GGATCGATAAATTTTT
389 GGATCGATACATTTTT
* *
79108 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTACATGTTTTGTCATTTATAGACCGA-
* * *
79173 TTTTTTAATTCTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTATCATT-TTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
* *
79238 TATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGACACTTATAATAAAGTATCGA
129 TATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGA
*
79303 CACTTTCAACATATCCGGTAGCTCTTTATCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTT
194 CACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTT
79368 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGG
259 TTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGG
* **
79433 TAGCGCTTTACCTATTTTGTCATTTATAGACC-AGTTTTGTCATTTTTTATTTGTTATATTGTTA
324 TAGCGCTTTACCTGTTTTGTCATTTATAGACCGA-TTTTGTCATTTTTTACCTGTTATATTGTTA
*
79497 TGGATCAATACATTTTT
388 TGGATCGATACATTTTT
79514 ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTATC-TGTTTTGTCATTT
1 ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTA-CATGTTTTGTCATTT
79569 TTACCTATTA
Statistics
Matches: 793, Mismatches: 65, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
404 1 0.00
405 300 0.38
406 281 0.35
407 211 0.27
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (404 bp):
ATAAAGTATCAACACTTTCAATATATCCGATAGCGCTTTACATGTTTTGTCATTTATAGACCGAT
TTTATCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTA
TTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGACA
CTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTT
ACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTA
GCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTACCTGTTATATTGTTATGG
ATCGATACATTTTT
Found at i:79620 original size:90 final size:90
Alignment explanation
Indices: 79466--79658 Score: 314
Period size: 90 Copynumber: 2.1 Consensus size: 90
79456 TTATAGACCA
** *
79466 GTTTTGTCATTTTTTATTTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTT
1 GTTTTGTCA-TTTTTACCTATTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTT
*
79531 TCAATATATCCGATAGCGCTTTATCT
65 TCAATATATCCGATAGCGCTTTACCT
* *
79557 GTTTTGTCATTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
1 GTTTTGTCATTTTTACCTATTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTT
*
79622 CAATATATCCGGTAGCGCTTTACCT
66 CAATATATCCGATAGCGCTTTACCT
79647 GTTTTGTCATTT
1 GTTTTGTCATTT
79659 ATAGACTGGT
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 86 0.91
91 9 0.09
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (90 bp):
GTTTTGTCATTTTTACCTATTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTT
CAATATATCCGATAGCGCTTTACCT
Found at i:79715 original size:201 final size:201
Alignment explanation
Indices: 79354--79769 Score: 715
Period size: 201 Copynumber: 2.1 Consensus size: 201
79344 TTCGAGACCG
*
79354 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTC--ATTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
**
79419 TTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCATTTTTTATT
64 TTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCATTTTTTACC
79484 TGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTTCAATATATCCGATAGCG
129 TGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTTCAATATATCCGATAGCG
*
79549 CTTTATCT
194 CTTTACCT
79557 GTTTTGTCATTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
1 GTTTTGTCATTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* **
79622 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGTTTTGTCATTTTTTACCTG
66 CAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCATTTTTTACCTG
* * * *
79687 TTATATTTTTATGGATCAATATATTTTTATAAAGTATCAACACTTTCAATATATCTGGTAGCGCT
131 TTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTTCAATATATCCGATAGCGCT
79752 TTACCT
196 TTACCT
79758 GTTTTGTCATTT
1 GTTTTGTCATTT
79770 ATAGACCGGT
Statistics
Matches: 202, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
201 194 0.96
203 8 0.04
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (201 bp):
GTTTTGTCATTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGACCAGTTTTGTCATTTTTTACCTG
TTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTTCAATATATCCGATAGCGCT
TTACCT
Found at i:79760 original size:111 final size:111
Alignment explanation
Indices: 79557--79837 Score: 447
Period size: 111 Copynumber: 2.5 Consensus size: 111
79547 CGCTTTATCT
* * *
79557 GTTTTGTCA-TTTTTACCTATTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 GTTTTGTCATTTTTTACCTATTATATTGTTATGGATCAATATATTTTTATAAAGTATCAACACTT
*
79621 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTG
66 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
* *
79667 GTTTTGTCATTTTTTACCTGTTATATTTTTATGGATCAATATATTTTTATAAAGTATCAACACTT
1 GTTTTGTCATTTTTTACCTATTATATTGTTATGGATCAATATATTTTTATAAAGTATCAACACTT
*
79732 TCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
66 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
* * *
79778 GTTTTATCATTTTTTTACCTTTTATATTGTTATTGATCAATATATTTTTTATAAAGTATC
1 GTTTTGTCA-TTTTTTACCTATTATATTGTTATGGATCAATATA-TTTTTATAAAGTATC
79838 GATACAAACC
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
110 9 0.06
111 102 0.65
112 31 0.20
113 15 0.10
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (111 bp):
GTTTTGTCATTTTTTACCTATTATATTGTTATGGATCAATATATTTTTATAAAGTATCAACACTT
TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
Found at i:80339 original size:16 final size:16
Alignment explanation
Indices: 80318--80378 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
80308 TAATAAATAA
80318 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
80334 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
80350 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
80366 ACGAACATAAACG
1 ACGAACATAAACG
80379 TTGGAGACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:81433 original size:14 final size:14
Alignment explanation
Indices: 81416--81471 Score: 84
Period size: 14 Copynumber: 4.3 Consensus size: 14
81406 AATGAACATA
81416 AACGAACATAACCG
1 AACGAACATAACCG
81430 AACGAACAT-A---
1 AACGAACATAACCG
81440 AACGAACATAACCG
1 AACGAACATAACCG
81454 AACGAACATAACCG
1 AACGAACATAACCG
81468 AACG
1 AACG
81472 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.27, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:81470 original size:10 final size:10
Alignment explanation
Indices: 81409--81456 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
81399 ATAAATGAAT
81409 GAACATAAAC
1 GAACATAAAC
81419 GAACATAACCGAAC
1 GAACAT-A---AAC
81433 GAACATAAAC
1 GAACATAAAC
*
81443 GAACATAACC
1 GAACATAAAC
81453 GAAC
1 GAAC
81457 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:81481 original size:24 final size:24
Alignment explanation
Indices: 81409--81470 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
81399 ATAAATGAAT
81409 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
81433 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
81457 GAACATAACCGAAC
1 GAACATAAACGAAC
81471 GTTCACGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.53, C:0.26, G:0.13, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:81705 original size:2 final size:2
Alignment explanation
Indices: 81698--81841 Score: 74
Period size: 2 Copynumber: 73.0 Consensus size: 2
81688 ACGATCCCAC
*
81698 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CAG CT GCT -T C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T CT -CT CT CT
* * *
81740 CT -T CT CA CT TT CT ACT CC CT CGT CT -T CT C- CT CT CT CT CT CT
1 CT CT CT CT CT CT CT -CT CT CT C-T CT CT CT CT CT CT CT CT CT CT
* * * *
81781 CT CT CAG CT GCT -T C- CT -T CT CA CT TT CT ACT CC CT CGT CT -T
1 CT CT C-T CT -CT CT CT CT CT CT CT CT CT CT -CT CT CT C-T CT CT
81821 CT C- CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
81842 TCCGTAATCG
Statistics
Matches: 108, Mismatches: 16, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
1 10 0.09
2 84 0.78
3 14 0.13
ACGTcount: A:0.04, C:0.47, G:0.04, T:0.45
Consensus pattern (2 bp):
CT
Found at i:81798 original size:55 final size:55
Alignment explanation
Indices: 81709--81840 Score: 255
Period size: 55 Copynumber: 2.4 Consensus size: 55
81699 TCTCTCTCTC
81709 TCTCTCTCTCTCTCTCTCTCTCAGCTGCTTCCTTCTCACTTTCTACTCCCTCGTCT
1 TCTC-CTCTCTCTCTCTCTCTCAGCTGCTTCCTTCTCACTTTCTACTCCCTCGTCT
81765 TCTCCTCTCTCTCTCTCTCTCAGCTGCTTCCTTCTCACTTTCTACTCCCTCGTCT
1 TCTCCTCTCTCTCTCTCTCTCAGCTGCTTCCTTCTCACTTTCTACTCCCTCGTCT
81820 TCTCCTCTCTCTCTCTCTCTC
1 TCTCCTCTCTCTCTCTCTCTC
81841 TTCCGTAATC
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
55 72 0.95
56 4 0.05
ACGTcount: A:0.05, C:0.46, G:0.05, T:0.45
Consensus pattern (55 bp):
TCTCCTCTCTCTCTCTCTCTCAGCTGCTTCCTTCTCACTTTCTACTCCCTCGTCT
Found at i:91494 original size:24 final size:25
Alignment explanation
Indices: 91450--91508 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
91440 TTTTGTCAAT
*
91450 TAAGTTAATAATAAAATATATTTAA
1 TAAGTTAATAATAAAACATATTTAA
* **
91475 TAAGTTAAT-GTAAAACATATTTTT
1 TAAGTTAATAATAAAACATATTTAA
91499 TAAGTTAATA
1 TAAGTTAATA
91509 TATACAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (25 bp):
TAAGTTAATAATAAAACATATTTAA
Found at i:111004 original size:15 final size:15
Alignment explanation
Indices: 110984--111013 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110974 GATTAGTATC
110984 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
110999 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
111014 ATATAAGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:120703 original size:2 final size:2
Alignment explanation
Indices: 120696--120735 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
120686 TTGCTTTTTG
120696 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
120736 ATTCTTCTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:125795 original size:15 final size:15
Alignment explanation
Indices: 125761--125799 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
125751 TTTGTAAAAA
125761 AAATATAAATTTTAT
1 AAATATAAATTTTAT
* *
125776 GAATATAAATTTTTT
1 AAATATAAATTTTAT
125791 AAATA-AAAT
1 AAATATAAAT
125800 ATATAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATATAAATTTTAT
Found at i:126382 original size:22 final size:22
Alignment explanation
Indices: 126336--126382 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
126326 GAAATAATAT
** * *
126336 ATTTAATAAAAATATTATTTTA
1 ATTTAATAAAAATAGGAATTAA
126358 ATTTAATAAAAATAGGAATTAA
1 ATTTAATAAAAATAGGAATTAA
126380 ATT
1 ATT
126383 AAAATATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
ATTTAATAAAAATAGGAATTAA
Found at i:127061 original size:14 final size:14
Alignment explanation
Indices: 127042--127068 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
127032 ATCTCTCTGT
127042 TTGATATTTTAAAC
1 TTGATATTTTAAAC
127056 TTGATATTTTAAA
1 TTGATATTTTAAA
127069 GTTGTTGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TTGATATTTTAAAC
Found at i:127773 original size:344 final size:343
Alignment explanation
Indices: 127089--127777 Score: 1188
Period size: 344 Copynumber: 2.0 Consensus size: 343
127079 AGATCAGCTT
127089 TATAGATGTTTAATTCGATAATCGACTTTGAAAAAGTTTTATTTGCAAATTGCGGTCTTTATTAG
1 TATAGATGTTTAATTCGATAATCGACTTTGAAAAAGTTTTATTTGCAAATTGCGGTCTTTATTAG
127154 AAAGAAGTTGTGCATAAATGAAAAAAGTTTTGGTTGTTTGAACTGGTTACTGCTATATAAAGTTG
66 AAAGAAGTTGTGCATAAATGAAAAAAGTTTTGGTTGTTTGAACTGGTTACTGCTATATAAAGTTG
* *
127219 CAGTCTCACATGTTTATTCTCAAGTAACTGGGAATTTAGTCTCATTGAGCATAAAAAGTTTTAAG
131 CAGTCTCACATGTTTATCCTCAAGTAACTGGGAATTTAGTCTCATTGAGCATAAAAAGTTTGAAG
*
127284 TGTTGTTGCGTTGATGGTTCAACCAACCATTACAATTTTTACCTCTAAACTGTTTAGATGGCTAT
196 TGTTGTTGCGTTGATGGTTCAACCAACCATTACAATCTTTACCTCTAAACTGTTTAGATGGCTAT
*
127349 ATGCATTTTTTTCCTTATCTCCATTGGTAGTTGGTAGAAATTCTAGATTTGGATATGTATCATAT
261 ATGCATTTTTTTCCTTATCTCCATTGGTAGTTGGTAGAAATTCTAGATTTGGATATATATCATAT
127414 CTGACAATTTTTTTTTCTG
326 CTGACAA-TTTTTTTTCTG
* *
127433 TATAGATGTTTAATTCGATAATTGACTTTGAAAAAGTTTTATTTGCGAATTGCGGTCTTTATT-G
1 TATAGATGTTTAATTCGATAATCGACTTTGAAAAAGTTTTATTTGCAAATTGCGGTCTTTATTAG
* *
127497 AAAGAAGTTGTGCATAAATGAAAATAAGTTTTGGTTGTTTGAACTGGTTACTGTTTTATAAAGTT
66 AAAGAAGTTGTGCATAAATGAAAA-AAGTTTTGGTTGTTTGAACTGGTTACTGCTATATAAAGTT
*
127562 GCAGTCTCACATGTTTATCCTCAAGTAACTGGGAATTTAGTCTCATTGAGCTTAAAAAGTTTGAG
130 GCAGTCTCACATGTTTATCCTCAAGTAACTGGGAATTTAGTCTCATTGAGCATAAAAAGTTT---
127627 GAAGTGTTGTTGCGTTGATGGTTCAACCAACCATTACAATCTTTA-CTCCTAAACTGTTTAGATG
192 GAAGTGTTGTTGCGTTGATGGTTCAACCAACCATTACAATCTTTACCT-CTAAACTGTTTAGATG
*
127691 GCTATATGCA-TTTTTTCCTTGTCTCCATTGGTAGTTGGTAGAAATTCTAGATTTGGATATATAT
256 GCTATATGCATTTTTTTCCTTATCTCCATTGGTAGTTGGTAGAAATTCTAGATTTGGATATATAT
**
127755 TGTATCTGACAA-TTTTTTTCTG
321 CATATCTGACAATTTTTTTTCTG
127777 T
1 T
127778 TTTTTTTATA
Statistics
Matches: 328, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
343 25 0.08
344 170 0.52
346 64 0.20
347 69 0.21
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (343 bp):
TATAGATGTTTAATTCGATAATCGACTTTGAAAAAGTTTTATTTGCAAATTGCGGTCTTTATTAG
AAAGAAGTTGTGCATAAATGAAAAAAGTTTTGGTTGTTTGAACTGGTTACTGCTATATAAAGTTG
CAGTCTCACATGTTTATCCTCAAGTAACTGGGAATTTAGTCTCATTGAGCATAAAAAGTTTGAAG
TGTTGTTGCGTTGATGGTTCAACCAACCATTACAATCTTTACCTCTAAACTGTTTAGATGGCTAT
ATGCATTTTTTTCCTTATCTCCATTGGTAGTTGGTAGAAATTCTAGATTTGGATATATATCATAT
CTGACAATTTTTTTTCTG
Found at i:131315 original size:11 final size:12
Alignment explanation
Indices: 131295--131328 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
131285 CTCCTGTATA
131295 AAAATATTATT-
1 AAAATATTATTG
*
131306 AAAATGTTATTG
1 AAAATATTATTG
131318 AAAATATTATT
1 AAAATATTATT
131329 TCAAGATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (12 bp):
AAAATATTATTG
Found at i:131725 original size:14 final size:14
Alignment explanation
Indices: 131691--131726 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
131681 TATATGATCG
*
131691 TTTATGCTCATTCA
1 TTTATGTTCATTCA
*
131705 TTTATGTTCGTTCA
1 TTTATGTTCATTCA
131719 TTTATGTT
1 TTTATGTT
131727 TGAACAGAGG
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:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:131789 original size:13 final size:13
Alignment explanation
Indices: 131771--131797 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
131761 TATTGAAGTT
131771 GTTTGGATTTCAA
1 GTTTGGATTTCAA
131784 GTTTGGATTTCAA
1 GTTTGGATTTCAA
131797 G
1 G
131798 AAGATTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (13 bp):
GTTTGGATTTCAA
Found at i:132023 original size:14 final size:14
Alignment explanation
Indices: 131995--132034 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
131985 TTTTTTTTGT
*
131995 GTTTGTGTT-GTTC
1 GTTTATGTTCGTTC
132008 GTTTATGTTCGTTC
1 GTTTATGTTCGTTC
*
132022 GTTTTTGTTCGTT
1 GTTTATGTTCGTT
132035 TATCATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.03, C:0.10, G:0.25, T:0.62
Consensus pattern (14 bp):
GTTTATGTTCGTTC
Found at i:132125 original size:16 final size:16
Alignment explanation
Indices: 132101--132133 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
132091 CAAAAAAATT
132101 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
132117 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
132133 T
1 T
132134 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:132991 original size:23 final size:23
Alignment explanation
Indices: 132961--133005 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
132951 CACCAACTCA
132961 ACAACACCACCACGCCATACCCG
1 ACAACACCACCACGCCATACCCG
132984 ACAACACCACCACGCCATACCC
1 ACAACACCACCACGCCATACCC
133006 AACAGAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.53, G:0.07, T:0.04
Consensus pattern (23 bp):
ACAACACCACCACGCCATACCCG
Found at i:147813 original size:17 final size:18
Alignment explanation
Indices: 147772--147810 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
147762 ATTATATAAG
147772 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
147789 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
147807 TAAA
1 TAAA
147811 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:148527 original size:14 final size:13
Alignment explanation
Indices: 148504--148533 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
148494 GAAAATATTA
148504 ACAGTGGTAGAGC
1 ACAGTGGTAGAGC
148517 ACAGTTGGTAGAGC
1 ACAG-TGGTAGAGC
148531 ACA
1 ACA
148534 AGGCTCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (13 bp):
ACAGTGGTAGAGC
Found at i:156768 original size:29 final size:30
Alignment explanation
Indices: 156700--156769 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
156690 TCCTTGGTCC
*
156700 AATGGTATAATTGAAGTTAAAATCAAAGTTT
1 AATGGTATAATTGAAG-TAAAATAAAAGTTT
** *
156731 AATTATATAATTGAAG-AAATTAAAAGTTT
1 AATGGTATAATTGAAGTAAAATAAAAGTTT
*
156760 AGTGGTATAA
1 AATGGTATAA
156770 ATAATACAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
29 18 0.56
31 14 0.44
ACGTcount: A:0.47, C:0.01, G:0.16, T:0.36
Consensus pattern (30 bp):
AATGGTATAATTGAAGTAAAATAAAAGTTT
Found at i:157313 original size:23 final size:24
Alignment explanation
Indices: 157287--157338 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
157277 TTTAATATTG
*
157287 ATATTCACATTGACATTAAA-ATA
1 ATATTAACATTGACATTAAATATA
* *
157310 ATATTAATATTGATATTAAATATA
1 ATATTAACATTGACATTAAATATA
*
157334 TTATT
1 ATATT
157339 TTCATATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATTAACATTGACATTAAATATA
Found at i:162539 original size:10 final size:10
Alignment explanation
Indices: 162526--162563 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
162516 TTGCAAATAT
*
162526 AAAAAAATCA
1 AAAAAAATTA
162536 AAAAAAATTA
1 AAAAAAATTA
*
162546 CAAAAAATTA
1 AAAAAAATTA
162556 AAAAAAAT
1 AAAAAAAT
162564 AGTATGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:162543 original size:20 final size:21
Alignment explanation
Indices: 162520--162564 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
162510 TTAAGTTTGC
162520 AAATATA-AAAAAATCAAAAA
1 AAATATACAAAAAATCAAAAA
*
162540 AAAT-TACAAAAAATTAAAAA
1 AAATATACAAAAAATCAAAAA
162560 AAATA
1 AAATA
162565 GTATGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATATACAAAAAATCAAAAA
Found at i:163260 original size:63 final size:63
Alignment explanation
Indices: 163153--163339 Score: 329
Period size: 63 Copynumber: 3.0 Consensus size: 63
163143 CCATCGCTGA
*
163153 CAACTTCATTATGGAATATAAAAATATTAGAAAAAATTATGTATATTGTCAACTCTTTTTAGC
1 CAACTTCATTATGGAATATAAAAATATTAGAAAAAATTACGTATATTGTCAACTCTTTTTAGC
* * **
163216 CAACTTCATTATGGAATACAGAAATATTAGAAAATTTTACGTATATTGTCAACTCTTTTTAGC
1 CAACTTCATTATGGAATATAAAAATATTAGAAAAAATTACGTATATTGTCAACTCTTTTTAGC
163279 CAACTTCATTATGGAATATAAAAATATTAGAAAAAATTACGTATATTGTCAACTCTTTTTA
1 CAACTTCATTATGGAATATAAAAATATTAGAAAAAATTACGTATATTGTCAACTCTTTTTA
163340 AAGTCATATT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 115 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (63 bp):
CAACTTCATTATGGAATATAAAAATATTAGAAAAAATTACGTATATTGTCAACTCTTTTTAGC
Found at i:168175 original size:5 final size:5
Alignment explanation
Indices: 168165--168224 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
168155 CCTTTTACTT
* *
168165 TTTTA TTTTA -TTCA TTTTA TTTTA TTTTA TTTT- TTTATT TTTTA TTTTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTT-A
168215 --TTA TTTTA TT
1 TTTTA TTTTA TT
168225 ATTTTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
3 1 0.02
4 8 0.17
5 33 0.72
6 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:168184 original size:14 final size:12
Alignment explanation
Indices: 168157--168237 Score: 74
Period size: 13 Copynumber: 6.2 Consensus size: 12
168147 AAACTAACCC
168157 TTTTACTTTTTTA
1 TTTTA-TTTTTTA
168170 TTTTATTCATTTTA
1 TTTTATT--TTTTA
*
168184 TTTTATTTTATTT
1 TTTTATTTT-TTA
168197 TTTTATTTTTTA
1 TTTTATTTTTTA
168209 TTTTCATTATTTTA
1 TTTT-ATT-TTTTA
168223 TTATT-TTTGTTTA
1 TT-TTATTT-TTTA
168236 TT
1 TT
168238 ATCTTTTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
12 11 0.19
13 27 0.46
14 19 0.32
15 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:168195 original size:24 final size:22
Alignment explanation
Indices: 168165--168237 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 22
168155 CCTTTTACTT
168165 TTTTATTTTATTCATTTTATTTTA
1 TTTTATTTTATT-ATTTT-TTTTA
*
168189 TTTTATTTTTTTATTTTTTATT-
1 TTTTATTTTATTATTTTTT-TTA
168211 TTCATTATTTTATTATTTTTGTTTA
1 TT--TTATTTTATTATTTTT-TTTA
168236 TT
1 TT
168238 ATCTTTTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 28 0.67
25 3 0.07
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTTATTTTATTATTTTTTTTA
Found at i:168218 original size:9 final size:8
Alignment explanation
Indices: 168163--168229 Score: 70
Period size: 8 Copynumber: 8.5 Consensus size: 8
168153 ACCCTTTTAC
168163 TTTT-TTA
1 TTTTATTA
168170 TTTTATTCA
1 TTTTATT-A
168179 TTTTATT-
1 TTTTATTA
168186 TTATT-TTA
1 TT-TTATTA
*
168194 TTTTTTTA
1 TTTTATTA
168202 TTTT-TTA
1 TTTTATTA
168209 TTTTCATTA
1 TTTT-ATTA
168218 TTTTATTA
1 TTTTATTA
168226 TTTT
1 TTTT
168230 TGTTTATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
7 17 0.32
8 21 0.40
9 15 0.28
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTATTA
Found at i:168238 original size:21 final size:21
Alignment explanation
Indices: 168157--168239 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 21
168147 AAACTAACCC
168157 TTTTACTT-TTTTATTTTATTCA
1 TTTTA-TTATTTTATTTTATT-A
*
168179 --TT-TTATTTTATTTTATTT
1 TTTTATTATTTTATTTTATTA
168197 TTTTATT-TTTTATTTTCATTA
1 TTTTATTATTTTATTTT-ATTA
168218 TTTTATTATTTT-TGTTTATTA
1 TTTTATTATTTTAT-TTTATTA
168239 T
1 T
168240 CTTTTTTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.04
19 12 0.23
20 13 0.25
21 18 0.35
22 7 0.13
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (21 bp):
TTTTATTATTTTATTTTATTA
Found at i:168245 original size:39 final size:39
Alignment explanation
Indices: 168157--168246 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
168147 AAACTAACCC
*
168157 TTTTA-CTTTTTTATTTTATTCATTTTATTTTATTTTAT
1 TTTTATCTTTTTTATTTTATTCATTTTATTATATTTTAT
* * *
168195 TTTTTTATTTTTTATTTTCATT-ATTTTATTAT-TTTTGT
1 TTTTATCTTTTTTATTTT-ATTCATTTTATTATATTTTAT
168233 TTATTATCTTTTTT
1 TT-TTATCTTTTTT
168247 CACTAACTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
38 11 0.26
39 29 0.67
40 3 0.07
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (39 bp):
TTTTATCTTTTTTATTTTATTCATTTTATTATATTTTAT
Found at i:168247 original size:34 final size:34
Alignment explanation
Indices: 168181--168248 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
168171 TTTATTCATT
* *
168181 TTATTTTATTTTATTTTTTTATTTTTTATTTTCA
1 TTATTTTATTTTATTTGTTTATTTCTTATTTTCA
168215 TTATTTTATTATT-TTTGTTTATTATCTT-TTTTCA
1 TTATTTTATT-TTATTTGTTTATT-TCTTATTTTCA
168249 CTAACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (34 bp):
TTATTTTATTTTATTTGTTTATTTCTTATTTTCA
Found at i:171259 original size:15 final size:15
Alignment explanation
Indices: 171240--171312 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 15
171230 AATCAAGAAC
*
171240 AAAAAAGAAAAGAAG
1 AAAAAAGAAAAAAAG
*
171255 CAAAAAA-AAACAAAG
1 -AAAAAAGAAAAAAAG
171270 AAAAAAGAAAGAAAA-
1 AAAAAAGAAA-AAAAG
* *
171285 AAGAAAGAACAAAAAT
1 AAAAAAGAA-AAAAAG
*
171301 CAAAAAGAAAAA
1 AAAAAAGAAAAA
171313 GGGACAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
14 6 0.13
15 24 0.51
16 17 0.36
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.01
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:171266 original size:26 final size:25
Alignment explanation
Indices: 171237--171312 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 25
171227 TCCAATCAAG
171237 AACAAAAAAGAAAAG-AAGCAAAAAAA
1 AACAAAAAA-AAAAGAAAG-AAAAAAA
*
171263 AACAAAGAAAAAAGAAAGAAAAAAGA
1 AACAAAAAAAAAAGAAAGAAAAAA-A
* *
171289 AAGAACAAAAATCAA-AAAGAAAAA
1 AACAA-AAAAA-AAAGAAAGAAAAA
171313 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 11 0.26
26 16 0.38
27 13 0.31
28 2 0.05
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (25 bp):
AACAAAAAAAAAAGAAAGAAAAAAA
Found at i:171273 original size:11 final size:11
Alignment explanation
Indices: 171234--171298 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
171224 AGATCCAATC
*
171234 AAGAACAAA-A
1 AAGAAAAAACA
171244 AAGAAAAGAAGCA
1 AAGAAAA-AA-CA
171257 AA-AAAAAACA
1 AAGAAAAAACA
*
171267 AAGAAAAAAGA
1 AAGAAAAAACA
*
171278 AAGAAAAAAGA
1 AAGAAAAAACA
171289 AAGAACAAAA
1 AAGAA-AAAA
171299 ATCAAAAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.21
11 27 0.56
12 8 0.17
13 3 0.06
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (11 bp):
AAGAAAAAACA
Found at i:171278 original size:7 final size:7
Alignment explanation
Indices: 171240--171312 Score: 53
Period size: 7 Copynumber: 9.7 Consensus size: 7
171230 AATCAAGAAC
171240 AAAAAAG
1 AAAAAAG
171247 AAAAGAAG
1 AAAA-AAG
171255 CAAAAAA-
1 -AAAAAAG
171262 AAACAAAG
1 AAA-AAAG
171270 AAAAAAG
1 AAAAAAG
171277 AAAGAAA-
1 AAA-AAAG
171284 AAAGAAAG
1 AAA-AAAG
171292 AACAAAA-
1 AA-AAAAG
171299 ATCAAAAAG
1 A--AAAAAG
171308 AAAAA
1 AAAAA
171313 GGGACAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
6 3 0.05
7 26 0.46
8 20 0.36
9 7 0.12
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:171284 original size:25 final size:26
Alignment explanation
Indices: 171237--171286 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
171227 TCCAATCAAG
171237 AACAAAAAAGAAAAGAAGCAAAAAAA
1 AACAAAAAAGAAAAGAAGCAAAAAAA
*
171263 AACAAAGAA-AAAAGAAAG-AAAAAA
1 AACAAAAAAGAAAAG-AAGCAAAAAA
171287 GAAAGAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (26 bp):
AACAAAAAAGAAAAGAAGCAAAAAAA
Found at i:172383 original size:18 final size:18
Alignment explanation
Indices: 172360--172394 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
172350 TCAACATCAA
* *
172360 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
172378 ATATTGAGGCATCTTTG
1 ATATTGAGGCATCTTTG
172395 AAGATTCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.43
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:173035 original size:106 final size:106
Alignment explanation
Indices: 172907--173969 Score: 1739
Period size: 106 Copynumber: 10.0 Consensus size: 106
172897 ATATCGTGCT
* * * *
172907 ACTCGAGACAACGCAAGTTCAACTTCACGACGAATGGACTGCCGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
172972 AATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
173013 ACTCCATACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
173078 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
173119 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
173184 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
173225 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
173290 AATTTCAGAGCCAATTTCAACTTCATAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
173331 ACTCCAGACAACGGAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
173396 AATTTCAAAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
173437 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
173502 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
173543 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
173608 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
173649 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
173714 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
173755 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
173820 AATTTTAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
173861 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * ** *
173926 AGTTCCAGAGCCAATTTCAGCTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
173967 ACT
1 ACT
173970 TGGAACAATA
Statistics
Matches: 902, Mismatches: 55, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 902 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:174362 original size:165 final size:164
Alignment explanation
Indices: 174103--174619 Score: 673
Period size: 165 Copynumber: 3.1 Consensus size: 164
174093 AAAGACCTTC
* * * * * * *
174103 GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTA
1 GAGTTCGATTACACTCAGCATCGAGGGCACATCATTTACAGCATAACTTAAGTCTAGAAGGGTTA
* *
174167 TCTATCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCTAAGGCTCATCATTTGCAGCATAG
66 TCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AAGGCACATCATTTGCAGCATAG
*
174232 CTTAAGTTGAGAAGGGCTATCTGCCAAAGACCCCT
130 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCT
* * *
174267 GAGTTCGATTACACTTAGCATCGAGGGCATATCA-TTATCAGCAAAACTTAAGTCTAGAAGGGTT
1 GAGTTCGATTACACTCAGCATCGAGGGCACATCATTTA-CAGCATAACTTAAGTCTAGAAGGGTT
* * *
174331 ATCTATCACCAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCATCATA
65 ATCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATTTGCAGCATA
174396 GCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCCC-
129 GCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CCCT
* * * * *
174432 GAGTTCGATTACACTCAGCTTCGAGGGCACGTCATTTGCAACATAACTTAAGTCGAGAAGGGTTA
1 GAGTTCGATTACACTCAGCATCGAGGGCACATCATTTACAGCATAACTTAAGTCTAGAAGGGTTA
** *
174497 TCTGCCAACC-AAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATA
66 TCTATC-ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATTTGCAGCATA
* * *
174561 GCTTAAGTCGAAAAGGGCTATCTGCCAACAGAAGACCTT
129 GCTTAAGTCGAGAAGGGCTATCTGCCAA-AG-A-CCCCT
174600 CGAGTTCGATTACACTCAGC
1 -GAGTTCGATTACACTCAGC
174620 TCAGAGGCAA
Statistics
Matches: 308, Mismatches: 33, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
164 21 0.07
165 252 0.82
166 13 0.04
167 3 0.01
169 19 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (164 bp):
GAGTTCGATTACACTCAGCATCGAGGGCACATCATTTACAGCATAACTTAAGTCTAGAAGGGTTA
TCTATCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTGCAGCATAGC
TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCT
Found at i:174568 original size:249 final size:247
Alignment explanation
Indices: 174087--174628 Score: 556
Period size: 249 Copynumber: 2.2 Consensus size: 247
174077 GGGTATCGTG
* *
174087 CCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCA
1 CCAACAAAAGACCTTCGAGTTCGACTACACTCAGCT-CAAGGCACATCATTTACAGCATAACTCA
* * * ** * *
174152 AGGCTAGAAAGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCTAAGGCTCA
65 AGGCGAGAAAGGCTATC-ATCACCAAAAGACCTCCGAGTTCGACTACACTCAGCTCGAAGGCACA
* * * * * *
174217 TCATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTCGATTACACT
129 TCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAAAAAACCCTGAGTTCGACTACACT
* * * * * * *
174282 TAGCATCGAGGGCATATCATTATCAGCAAAACTTAAGTCTAGAAGGGTTATCTA
194 CAGCATCCAAGGCACATCATTATCAGCAAAACTTAAGTCGAAAAGGGCTATCTA
* * * * * * *
174336 TCACCAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCATCATAGCTTA
1 CCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCAA-GGCACATCATTTACAGCATAACTCA
* * * * *
174401 AGTCGAGAAGGGCTATC-T-GCC-AAAGA-CTCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
65 AGGCGAGAAAGGCTATCATCACCAAAAGACCT-CCGAGTTCGACTACACTCAGC-TCGAAGGCAC
* * *
174462 GTCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAATACCTTCGAGTTCGACT
128 ATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAA--AAA-ACCCT-GAGTTCGACT
* * * *
174527 ACGCTCAGC-TCCAAGGCACATCATT-TGCAGCATAGCTTAAGTCGAAAAGGGCTATCTG
189 ACACTCAGCATCCAAGGCACATCATTAT-CAGCAAAACTTAAGTCGAAAAGGGCTATCTA
* *
174585 CCAACAGAAGACCTTCGAGTTCGATTACACTCAGCTCAGAGGCA
1 CCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCA-AGGCA
174629 AACCAAATTT
Statistics
Matches: 238, Mismatches: 46, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
244 2 0.01
245 22 0.09
246 47 0.20
247 1 0.00
248 6 0.03
249 143 0.60
250 17 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (247 bp):
CCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCAAGGCACATCATTTACAGCATAACTCAA
GGCGAGAAAGGCTATCATCACCAAAAGACCTCCGAGTTCGACTACACTCAGCTCGAAGGCACATC
ATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAAAAAACCCTGAGTTCGACTACACTCA
GCATCCAAGGCACATCATTATCAGCAAAACTTAAGTCGAAAAGGGCTATCTA
Found at i:174628 original size:84 final size:83
Alignment explanation
Indices: 174074--174628 Score: 513
Period size: 84 Copynumber: 6.7 Consensus size: 83
174064 ACTTCACGAC
*
174074 GAAGGG-TATCGTGCCAACCA-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
1 GAAGGGCTATC-TGCCAA-CAGAAGACCTTCGAGTTCGACTACACTCAGCT-CAAGGCACATCAT
* * * *
174137 TTACAGCATAACTCAAGGCTA
63 TTGCAGCATAACTTAAGTCGA
* * ** * * ** *
174158 GAAAGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCTAAGGCTCATCATTT
1 GAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGACTACACTCAGCTC-AAGGCACATCATTT
* *
174223 GCAGCATAGCTTAAGTTGA
65 GCAGCATAACTTAAGTCGA
* * * * * *
174242 GAAGGGCTATCTGCCAA-AG-A-CCCCT-GAGTTCGATTACACTTAGCATCGAGGGCATATCATT
1 GAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGACTACACTCAGC-TC-AAGGCACATCATT
* *
174303 AT-CAGCAAAACTTAAGTCTA
64 -TGCAGCATAACTTAAGTCGA
* ** * * *
174323 GAAGGGTTATCTATCACCAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTT
1 GAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGACTACACTCAGCTCAA-GGCACATCATTT
* *
174388 GCATCATAGCTTAAGTCGA
65 GCAGCATAACTTAAGTCGA
** * * *
174407 GAAGGGCTATCTGCCAA-AG-ACTCC--CGAGTTCGATTACACTCAGCTTCGAGGGCACGTCATT
1 GAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGACTACACTCAGC-TC-AAGGCACATCATT
*
174468 TGCAACATAACTTAAGTCGA
64 TGCAGCATAACTTAAGTCGA
* * *
174488 GAAGGGTTATCTGCCAACCA-AATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 GAAGGGCTATCTGCCAA-CAGAAGACCTTCGAGTTCGACTACACTCAGCT-CAAGGCACATCATT
*
174552 TGCAGCATAGCTTAAGTCGA
64 TGCAGCATAACTTAAGTCGA
* *
174572 AAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGATTACACTCAGCTCAGAGGCA
1 GAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGACTACACTCAGCTCA-AGGCA
174629 AACCAAATTT
Statistics
Matches: 376, Mismatches: 74, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
80 33 0.09
81 88 0.23
82 7 0.02
83 16 0.04
84 192 0.51
85 40 0.11
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
GAAGGGCTATCTGCCAACAGAAGACCTTCGAGTTCGACTACACTCAGCTCAAGGCACATCATTTG
CAGCATAACTTAAGTCGA
Found at i:175599 original size:5 final size:5
Alignment explanation
Indices: 175589--175652 Score: 66
Period size: 5 Copynumber: 13.6 Consensus size: 5
175579 ACACCCATAC
* *
175589 ATTTT ATTTT ATTTT A-TTC ATTTT ATTTT ATTTT ATTTT -TATT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
175636 ATTTT CA--TT ATTTT ATT
1 ATTTT -ATTTT ATTTT ATT
175653 ATTTTTGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
3 1 0.02
4 11 0.22
5 37 0.74
6 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:175610 original size:19 final size:18
Alignment explanation
Indices: 175589--175652 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 18
175579 ACACCCATAC
175589 ATTTTATTTTATTTTATT
1 ATTTTATTTTATTTTATT
175607 CATTTTATTTTATTTTATT
1 -ATTTTATTTTATTTTATT
*
175626 -TTTATTTTTTATTTTCATT
1 ATTT-TATTTTATTTT-ATT
175645 ATTTTATT
1 ATTTTATT
175653 ATTTTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.25
19 24 0.60
20 3 0.08
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTTTATTTTATTTTATT
Found at i:175613 original size:14 final size:13
Alignment explanation
Indices: 175592--175652 Score: 74
Period size: 14 Copynumber: 4.8 Consensus size: 13
175582 CCCATACATT
175592 TTATTTTATTTTA
1 TTATTTTATTTTA
175605 TTCATTTTATTTTA
1 TT-ATTTTATTTTA
*
175619 TT-TTAT-TTTTA
1 TTATTTTATTTTA
175630 TT-TTTTATTTTCA
1 TTATTTTATTTT-A
175643 TTATTTTATT
1 TTATTTTATT
175653 ATTTTTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.24
12 7 0.17
13 5 0.12
14 20 0.48
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:175616 original size:24 final size:23
Alignment explanation
Indices: 175589--175665 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 23
175579 ACACCCATAC
175589 ATTTTATTTTATTTTATTCATTTT
1 ATTTTATTTTATTTTATT-ATTTT
175613 ATTTTATTTTATTTTTATT-TTTT
1 ATTTTATTTTA-TTTTATTATTTT
175636 ATTTTCA--TTATTTTATTATTTT
1 ATTTT-ATTTTATTTTATTATTTT
175658 -TGTTTATT
1 AT-TTTATT
175666 ATCTTTTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
21 9 0.19
22 10 0.21
23 9 0.19
24 12 0.26
25 7 0.15
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (23 bp):
ATTTTATTTTATTTTATTATTTT
Found at i:175648 original size:9 final size:8
Alignment explanation
Indices: 175597--175657 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 8
175587 ACATTTTATT
175597 TTATTTTA
1 TTATTTTA
175605 TTCATTTTA
1 TT-ATTTTA
175614 TT-TTATT-
1 TTATT-TTA
175621 TTA-TTT-
1 TTATTTTA
175627 TTATTTT-
1 TTATTTTA
175634 TTATTTTCA
1 TTATTTT-A
175643 TTATTTTA
1 TTATTTTA
175651 TTATTTT
1 TTATTTT
175658 TGTTTATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
6 5 0.11
7 15 0.32
8 12 0.26
9 15 0.32
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTA
Found at i:175655 original size:30 final size:28
Alignment explanation
Indices: 175589--175667 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
175579 ACACCCATAC
175589 ATTTTA-TTTTATTTTATTCATTTTATTTT
1 ATTTTATTTTTATTTT-TT-ATTTTATTTT
175618 ATTTTATTTTTATTTTTTATTTTCATTATT
1 ATTTTATTTTTATTTTTTATTTT-ATT-TT
* *
175648 -TTATTATTTTTGTTTATTAT
1 ATT-TTATTTTTATTTTTTAT
175668 CTTTTTTCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 5 0.11
29 13 0.30
30 26 0.59
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (28 bp):
ATTTTATTTTTATTTTTTATTTTATTTT
Found at i:181498 original size:30 final size:28
Alignment explanation
Indices: 181441--181499 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
181431 TAAGGGATTA
* *
181441 AATAAAAAAAAATTTAAAGTACCAAAAT
1 AATAAAAAAAAATTTAAAGAACAAAAAT
*
181469 AATACAAACAAAAATTTAAAGAATAAAAAT
1 AATA-AAA-AAAAATTTAAAGAACAAAAAT
181499 A
1 A
181500 GTATTAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 3 0.12
30 19 0.73
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.20
Consensus pattern (28 bp):
AATAAAAAAAAATTTAAAGAACAAAAAT
Found at i:182965 original size:152 final size:152
Alignment explanation
Indices: 182684--182987 Score: 572
Period size: 152 Copynumber: 2.0 Consensus size: 152
182674 TCCTTCGTCG
* *
182684 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGTAATTGGCTCTGA
1 TGAAATTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
182749 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
66 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
182814 TGAAATCCAATGTTGTTTGTGA
131 TGAAATCCAATGTTGTTTGTGA
182836 TGAAATTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
1 TGAAATTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
* *
182901 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
66 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
182966 TGAAATCCAATGTTGTTTGTGA
131 TGAAATCCAATGTTGTTTGTGA
182988 GCACGATATC
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 148 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (152 bp):
TGAAATTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCATTCGCTATAAAGT
TGAAATCCAATGTTGTTTGTGA
Found at i:183123 original size:170 final size:170
Alignment explanation
Indices: 182836--183419 Score: 1132
Period size: 170 Copynumber: 3.4 Consensus size: 170
182826 TTGTTTGTGA
* *
182836 TGAAATTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCATGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
*
182901 ATGAAATTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
66 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
182966 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTCG
131 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTCG
183006 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
183071 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
66 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
183136 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTCG
131 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTCG
183176 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
183241 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
66 ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
*
183306 TGAAATCCAATGTTGTTTGTGACCACGATATCCTTCGTCG
131 TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTCG
183346 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
1 TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
183411 ATGAAACTG
66 ATGAAACTG
183420 CAAAGTTATG
Statistics
Matches: 410, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 410 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (170 bp):
TGAAGTTGAAATCGTGGATGTTTCGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGA
ATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTGAGCTTTGAATTGGATATCCTTCGCTGTAAAGT
TGAAATCCAATGTTGTTTGTGAGCACGATATCCTTCGTCG
Found at i:183353 original size:46 final size:45
Alignment explanation
Indices: 183286--183401 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 45
183276 CTTTGAATTG
* * *
183286 GATATCCTTCG-CTGTAAAGTTGAAATCCAAT-GTTGTTT-GTGACCA
1 GATATCCTTCGTC-GTGAAGTTGAAAT-C-ATGGATGTTTCGAGACCA
* *
183331 CGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGTTTCGAGTCCA
1 -GATATCCTTCGTCGTGAAGTTGAAATCATGGATGTTTCGAGACCA
183377 -ATATCCTTCGTCGTGAAGTTGAAAT
1 GATATCCTTCGTCGTGAAGTTGAAAT
183402 TGGCTCTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 26 0.42
45 7 0.11
46 28 0.45
47 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (45 bp):
GATATCCTTCGTCGTGAAGTTGAAATCATGGATGTTTCGAGACCA
Found at i:184282 original size:76 final size:75
Alignment explanation
Indices: 184151--184290 Score: 167
Period size: 76 Copynumber: 1.9 Consensus size: 75
184141 ACCCACCTTA
* * * * * *
184151 TTTTTTTTTTTTTTTTTTCTTCTCTTTTTTCTATTTAGTGTGCCCTTTCGGGTTTTCACCCTAAA
1 TTTTTTTTCTTTTTTTTTCTTCTCTTTTTTCGACTTAGTGTGCCATCTCGAGTTTTCACCCTAAA
184216 CATTTTTCTC
66 CATTTTTCTC
* *
184226 TTTTTTGTTCTTTTTTTTTCTT-TTTCTTTTTCGACTTAG-GATGCCATCTCGAGTTTTCATCCT
1 TTTTTT-TTCTTTTTTTTTCTTCTCT-TTTTTCGACTTAGTG-TGCCATCTCGAGTTTTCACCCT
184289 AA
63 AA
184291 GCGAAGTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
75 9 0.17
76 45 0.83
ACGTcount: A:0.11, C:0.19, G:0.09, T:0.61
Consensus pattern (75 bp):
TTTTTTTTCTTTTTTTTTCTTCTCTTTTTTCGACTTAGTGTGCCATCTCGAGTTTTCACCCTAAA
CATTTTTCTC
Found at i:191002 original size:39 final size:39
Alignment explanation
Indices: 190948--191027 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
190938 TTAACAGTAG
* *
190948 ATGCAGCTTTCCCTTTGGTAGAGGATGAGTCAC-CGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTC-CTCGGGTA
*
190987 ATGCAACTTTCCCTTTAGTAGCGGATGAGTCCTCGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTCCTCGGGTA
191026 AT
1 AT
191028 ACTCCGGGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
ATGCAACTTTCCCTTTAGTAGAGGATGAGTCCTCGGGTA
Found at i:194793 original size:30 final size:29
Alignment explanation
Indices: 194735--194794 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
194725 TAAGGGATTA
* *
194735 AATAAAAAAAAAATTTAAAGTACCAAAAT
1 AATAAAAAAAAAATTTAAAGAACAAAAAT
* *
194764 AATACAAACAAAAATTTAAAGAATAAAAAT
1 AATA-AAAAAAAAATTTAAAGAACAAAAAT
194794 A
1 A
194795 GTATTAACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (29 bp):
AATAAAAAAAAAATTTAAAGAACAAAAAT
Found at i:200259 original size:16 final size:16
Alignment explanation
Indices: 200211--200261 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
200201 CCCTGTCCCG
*
200211 ACCCGGATGTTACGGGT
1 ACCCGGAT-TTGCGGGT
* *
200228 ACCCGGTAATCG-GGGT
1 ACCCGG-ATTTGCGGGT
200244 ACCCGGATTTGCGGGT
1 ACCCGGATTTGCGGGT
200260 AC
1 AC
200262 TCGGTAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 3 0.11
16 16 0.59
17 7 0.26
18 1 0.04
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.22
Consensus pattern (16 bp):
ACCCGGATTTGCGGGT
Found at i:200761 original size:21 final size:20
Alignment explanation
Indices: 200723--200761 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
200713 ATGTACTTTT
*
200723 AAGTTTTAAAATTTTCAAAC
1 AAGTTTTAAAATTGTCAAAC
*
200743 AAGTTTTATTAATTGTCAA
1 AAGTTTTA-AAATTGTCAA
200762 TGTGATATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (20 bp):
AAGTTTTAAAATTGTCAAAC
Found at i:201654 original size:2 final size:2
Alignment explanation
Indices: 201647--201675 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
201637 CATCGGACTT
201647 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
201676 TGCAACCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:206209 original size:19 final size:19
Alignment explanation
Indices: 206173--206211 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
206163 AATTATTGCA
* **
206173 AACGAATTTGGACTATCGC
1 AACGAATTTGAAAAATCGC
206192 AACGAATTTGAAAAATCGC
1 AACGAATTTGAAAAATCGC
206211 A
1 A
206212 TTGCGATAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (19 bp):
AACGAATTTGAAAAATCGC
Found at i:211012 original size:28 final size:30
Alignment explanation
Indices: 210975--211043 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
210965 TTATGGCATT
*
210975 AATCTCCTAAAATCTTAAA-TTC-ATACTCA
1 AATCT-CTAAAATCTTAAATTTCAAGACTCA
* *
211004 AATCTCTAAATTCTTAAATTTCAAGACTCT
1 AATCTCTAAAATCTTAAATTTCAAGACTCA
211034 AATCTCTAAA
1 AATCTCTAAA
211044 TTTTAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.34
29 8 0.23
30 15 0.43
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (30 bp):
AATCTCTAAAATCTTAAATTTCAAGACTCA
Found at i:212411 original size:34 final size:35
Alignment explanation
Indices: 212363--212439 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
212353 CACAAACATT
*
212363 AATTACATTCTAAACC-CTAAA-TTCCAAATACTTA
1 AATTACATTCTAAACCTC-AAATTTCAAAATACTTA
* *
212397 AATTACATTTTAAACCTCAAATTTCAAAATACTTC
1 AATTACATTCTAAACCTCAAATTTCAAAATACTTA
212432 AATTACAT
1 AATTACAT
212440 GCCCAACCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 18 0.47
35 20 0.53
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (35 bp):
AATTACATTCTAAACCTCAAATTTCAAAATACTTA
Found at i:213399 original size:35 final size:35
Alignment explanation
Indices: 213360--213452 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
213350 AATGTATTAT
* * *
213360 GAATTTGGGGTTGGGTATGTAATTGAAGTATTTTG
1 GAATTTGGGGTTGAGAATGTAATTAAAGTATTTTG
* *
213395 GAATTTGAGGTTTAGAATGTAATTAAAGTATTTTG
1 GAATTTGGGGTTGAGAATGTAATTAAAGTATTTTG
* *
213430 GACTTTGGGGTT-ATAATGTAATT
1 GAATTTGGGGTTGAGAATGTAATT
213453 GATGACTGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
34 10 0.20
35 40 0.80
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (35 bp):
GAATTTGGGGTTGAGAATGTAATTAAAGTATTTTG
Done.