Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002676.1 Hibiscus syriacus cultivar Beakdansim tig00005524_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: 209796
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:2521 original size:31 final size:31
Alignment explanation
Indices: 2449--2570 Score: 113
Period size: 31 Copynumber: 3.9 Consensus size: 31
2439 GAGTCGAGGG
* *
2449 TATACCTATGTTCTACGGAACATATGGATAGA
1 TATACCTATGTTCTAAGGAACATATGGACA-A
**
2481 -ATTACCTATG-TCTTTGGAGACATATGGACAA
1 TA-TACCTATGTTCTAAGGA-ACATATGGACAA
*
2512 TATACCTATGTTCTAAGGAACATATGGACAG
1 TATACCTATGTTCTAAGGAACATATGGACAA
* * ** *
2543 TTTACCTAGGTTCTTCGGAACCTATGGA
1 TATACCTATGTTCTAAGGAACATATGGA
2571 TAGTTGCCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 50 0.67
32 25 0.33
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (31 bp):
TATACCTATGTTCTAAGGAACATATGGACAA
Found at i:2603 original size:30 final size:30
Alignment explanation
Indices: 2562--2633 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
2552 GTTCTTCGGA
* *
2562 ACCTATGGATAGTTGCCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
2592 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
2622 ACCTCTGGATAG
1 ACCTCTGGATAG
2634 GTCCTTCAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:6650 original size:16 final size:17
Alignment explanation
Indices: 6620--6652 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6610 AAATCGATCC
*
6620 AAAAAACCGATAACCGA
1 AAAAAAACGATAACCGA
6637 AAAAAAACGA-AACCGA
1 AAAAAAACGATAACCGA
6653 TTTAGTGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.21, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAACGATAACCGA
Found at i:13307 original size:147 final size:145
Alignment explanation
Indices: 13126--13547 Score: 410
Period size: 134 Copynumber: 3.0 Consensus size: 145
13116 TTGTGCCGCT
* *
13126 AATAGTGTTTGAAAATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGCTTTAGCATTGAAAATCTA
1 AATAGCGTTTGAAGATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGCTTTAGCATTGAAAATCTA
*
13191 GCAATGACGACCGAGTTGAATCTTAAAACTTGTCGATCGTGCTCGACTTAAACATAATTGGCGTC
66 GCAATGACGACCGAGTTGAATCTTAAAACTTGTCGAT-GTGCTCGACTTATACATAATTGG-GTC
13256 TGAAACTTCAAGCTGCG
129 TGAAACTTCAAGCTGCG
* * * ** *
13273 AATGGCGTTTG-AGAGGTATTAGTTTC-TT-C--C---CT-G-CTA-CCATAGGCATTGCAAATC
1 AATAGCGTTTGAAGATG-ATTAGTTTCTTTGCTGCTGTCTGGTGTAGCTTTA-GCATTGAAAATC
* * * *
13327 TAGCAATGATG---G-GTTGAATCTT-AAACTTG-CTGAATATGCTCGATTTATGCATTAACTTG
64 TAGCAATGACGACCGAGTTGAATCTTAAAACTTGTC-G-ATGTGCTCGACTTATACA-TAA-TTG
* * * ** *
13386 GATTTGATACTTGGAGCTGCT
125 GGTCTGAAACTTCAAGCTGCG
*
13407 AATAGTGTTTGAAGATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGCTTTAGCATTGAAAATCTA
1 AATAGCGTTTGAAGATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGCTTTAGCATTGAAAATCTA
* * * * *
13472 GCAATGACAACCGAGTTAAATATTAAAACTTGTGGATTGTGCTCGACTTATACATATTTGGAGTC
66 GCAATGACGACCGAGTTGAATCTTAAAACTTGTCGA-TGTGCTCGACTTATACATAATTGG-GTC
13537 TGAAACTTCAA
129 TGAAACTTCAA
13548 ATCATTAATG
Statistics
Matches: 210, Mismatches: 40, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
132 1 0.00
133 20 0.10
134 47 0.22
135 11 0.05
136 1 0.00
137 3 0.01
138 24 0.11
139 1 0.00
140 2 0.01
141 2 0.01
142 1 0.00
143 23 0.11
144 3 0.01
145 1 0.00
146 10 0.05
147 38 0.18
148 22 0.10
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (145 bp):
AATAGCGTTTGAAGATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGCTTTAGCATTGAAAATCTA
GCAATGACGACCGAGTTGAATCTTAAAACTTGTCGATGTGCTCGACTTATACATAATTGGGTCTG
AAACTTCAAGCTGCG
Found at i:13479 original size:281 final size:279
Alignment explanation
Indices: 12978--13547 Score: 906
Period size: 281 Copynumber: 2.0 Consensus size: 279
12968 ATCGAGGTCC
* * *
12978 GAAACTTCGAGCTGCTAATGGCATTTGAGAAGTATTCGTTTCTTCCCTGCTACCATAGGCATTGA
1 GAAACTTCAAGCTGCGAATGGCATTTGAGAAGTATTAGTTTCTTCCCTGCTACCATAGGCATTGA
* * * * *
13043 AATCTAGCAAGGATGGGTTGAATCTTGAAGTTGCTGAATGTGCTTGATTTCTGCATAACTGGGAT
66 AATCTAGCAAGGATGGGTTGAATCTTAAACTTGCTGAATATGCTCGATTTATGCATAACTGGGAT
* *
13108 TTGATACTTTGTGCCGCTAATAGTGTTTGAAAATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGC
131 TTGATACTTGGAGCCGCTAATAGTGTTTGAAAATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGC
* * *
13173 TTTAGCATTGAAAATCTAGCAATGACGACCGAGTTGAATCTTAAAACTTGTCGATCGTGCTCGAC
196 TTTAGCATTGAAAATCTAGCAATGACAACCGAGTTAAATATTAAAACTTGTCGATCGTGCTCGAC
*
13238 TTAAACATAATTGGCGTCT
261 TTAAACATAATTGGAGTCT
* *
13257 GAAACTTCAAGCTGCGAATGGCGTTTGAGAGGTATTAGTTTCTTCCCTGCTACCATAGGCATTGC
1 GAAACTTCAAGCTGCGAATGGCATTTGAGAAGTATTAGTTTCTTCCCTGCTACCATAGGCATTG-
* *
13322 AAATCTAGCAATGATGGGTTGAATCTTAAACTTGCTGAATATGCTCGATTTATGCATTAACTTGG
65 AAATCTAGCAAGGATGGGTTGAATCTTAAACTTGCTGAATATGCTCGATTTATGCA-TAACTGGG
* *
13387 ATTTGATACTTGGAGCTGCTAATAGTGTTTGAAGATGATTAGTTTCTTTGCTGCTGTCTGGTGTA
129 ATTTGATACTTGGAGCCGCTAATAGTGTTTGAAAATGATTAGTTTCTTTGCTGCTGTCTGGTGTA
* *
13452 GCTTTAGCATTGAAAATCTAGCAATGACAACCGAGTTAAATATTAAAACTTGTGGATTGTGCTCG
194 GCTTTAGCATTGAAAATCTAGCAATGACAACCGAGTTAAATATTAAAACTTGTCGATCGTGCTCG
* *
13517 ACTTATACATATTTGGAGTCT
259 ACTTAAACATAATTGGAGTCT
13538 GAAACTTCAA
1 GAAACTTCAA
13548 ATCATTAATG
Statistics
Matches: 265, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
279 59 0.22
280 50 0.19
281 156 0.59
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (279 bp):
GAAACTTCAAGCTGCGAATGGCATTTGAGAAGTATTAGTTTCTTCCCTGCTACCATAGGCATTGA
AATCTAGCAAGGATGGGTTGAATCTTAAACTTGCTGAATATGCTCGATTTATGCATAACTGGGAT
TTGATACTTGGAGCCGCTAATAGTGTTTGAAAATGATTAGTTTCTTTGCTGCTGTCTGGTGTAGC
TTTAGCATTGAAAATCTAGCAATGACAACCGAGTTAAATATTAAAACTTGTCGATCGTGCTCGAC
TTAAACATAATTGGAGTCT
Found at i:14821 original size:113 final size:112
Alignment explanation
Indices: 14613--14868 Score: 440
Period size: 113 Copynumber: 2.3 Consensus size: 112
14603 TTGTCGGTTT
* * * *
14613 GTGTCGATATTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGGCAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
14678 GGTCTATAAATGACAAAACAGGTAAAACGCTATCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
*
14725 GTGTCGATACTTTATAAAAATGTATCGTTCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
14790 CGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
*
14838 GTGACGATACTTTATAAAAATGTATCGATCC
1 GTGTCGATACTTTATAAAAATGTATCGATCC
14869 TTTATAAAAA
Statistics
Matches: 135, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
112 44 0.33
113 91 0.67
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
Found at i:14888 original size:21 final size:21
Alignment explanation
Indices: 14842--14889 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
14832 TTGAAAGTGA
*
14842 CGATACTTTATAAAAATGTAT
1 CGATCCTTTATAAAAATGTAT
14863 CGATCCTTTATAAAAATGTAT
1 CGATCCTTTATAAAAATGTAT
14884 CGATCC
1 CGATCC
14890 ATAACAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
CGATCCTTTATAAAAATGTAT
Found at i:14978 original size:132 final size:132
Alignment explanation
Indices: 14722--15002 Score: 429
Period size: 132 Copynumber: 2.1 Consensus size: 132
14712 GGATATATTG
* *
14722 AAAGTGTCGATACTTTATAAAAATGTATCGTTCCATAACAATATAACAGGTAAAAAAAATGACAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAA
14787 AACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGACGATACTTTA
65 AACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGACGATACTTTA
14852 TAA
130 TAA
*
14855 AAATGTATCGATCCTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAA
1 AAA-GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAA
* * * * * * *
14919 AATCGGTCTATAAATGACAAAACATGTAAAGCGCTACTGGATATGTTGATAGTGTCGATACTTTA
65 AACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGACGATACTTTA
*
14984 TTA
130 TAA
*
14987 TAAGTATCGATACTTT
1 AAAGTATCGATACTTT
15003 TGGAATTTAA
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
131 12 0.09
132 74 0.55
133 3 0.02
134 45 0.34
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (132 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
ACCGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGACGATACTTTAT
AA
Found at i:15734 original size:22 final size:22
Alignment explanation
Indices: 15708--15751 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15698 AAATAGGTCA
*
15708 ATATAAACGCTACATATTATAT
1 ATATAAACGCTACATAATATAT
* *
15730 ATATAAGCGCTACCTAATATAT
1 ATATAAACGCTACATAATATAT
15752 TATTGTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAACGCTACATAATATAT
Found at i:17304 original size:65 final size:68
Alignment explanation
Indices: 17139--17308 Score: 240
Period size: 65 Copynumber: 2.5 Consensus size: 68
17129 ATTTAAAAAC
* *
17139 ACAATCCCACATGGCTAAG-AACATAGAAGAGCATTCCAAAAGTCTAAAAAGTAAAAATATGAGA
1 ACAATACC-CATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTCT-AAAAGTAAAAATATGAGA
17203 ACAAA
64 ACAAA
* * *
17208 ACAATACTACATGGCTAAGAAACATAAAAGAGCATCCCAAAAGTCT-AAAG-ATAAATATGAGAA
1 ACAATAC-CCATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAAGTAAAAATATGAGAA
17271 CAAA
65 CAAA
17275 ACAAT-CCCATGGCTAAGAAACATAGAAGAGCATC
1 ACAATACCCATGGCTAAGAAACATAGAAGAGCATC
17309 ACAACTAACT
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
65 26 0.28
66 1 0.01
67 21 0.23
68 4 0.04
69 16 0.17
70 24 0.26
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (68 bp):
ACAATACCCATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTCTAAAAGTAAAAATATGAGAAC
AAA
Found at i:17701 original size:20 final size:20
Alignment explanation
Indices: 17670--17722 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
17660 TTTCAGCCGG
*
17670 TTCACACCGGTTTTACC-GTT
1 TTCA-ACCGGTTCTACCAGTT
*
17690 TCTCAGCCGGTTCTACCAGTT
1 T-TCAACCGGTTCTACCAGTT
17711 TTCAACCGGTTC
1 TTCAACCGGTTC
17723 ACGGTCTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.15, C:0.32, G:0.17, T:0.36
Consensus pattern (20 bp):
TTCAACCGGTTCTACCAGTT
Found at i:20697 original size:29 final size:30
Alignment explanation
Indices: 20635--20702 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
20625 AAAAATAATA
* *
20635 AGGGGAAAATTGCATATCTAAGCCAAAGTC
1 AGGGGCAAATTGCATATCTAAACCAAAGTC
*
20665 -GGGGCAAATTGCATATC-AAACCAAATTC
1 AGGGGCAAATTGCATATCTAAACCAAAGTC
20693 AGGGGACAAA
1 AGGGG-CAAA
20703 AGGTACATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.27
29 20 0.61
30 4 0.12
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (30 bp):
AGGGGCAAATTGCATATCTAAACCAAAGTC
Found at i:24414 original size:22 final size:22
Alignment explanation
Indices: 24380--24427 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
24370 TGACAATCAT
24380 AGCACCGAATCGAGATTATTCA
1 AGCACCGAATCGAGATTATTCA
24402 AGCACC-AACTCGAGATTATTCA
1 AGCACCGAA-TCGAGATTATTCA
24424 AGCA
1 AGCA
24428 TATCACTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (22 bp):
AGCACCGAATCGAGATTATTCA
Found at i:25913 original size:298 final size:298
Alignment explanation
Indices: 25233--26115 Score: 935
Period size: 300 Copynumber: 2.9 Consensus size: 298
25223 CAAACATGTG
* * * * * **
25233 ACGTT-TAAGGATGGTAATTATTATCTTTTAGGCCACAATTTTTCCAGAAAAGAGAAAATG---A
1 ACGTTCTAA-GATAGTAGTTATGATCTTTTAGGACACAAGTTTTCTGGAAAAGAGAAAATGAACA
* ** * * *
25294 ACCAGCAGTAATATCTCTCACATGTAGTGACATTGAAATTCCAAGTTCTCTTCGGTTATTTCACA
65 ACCAACAAAAAGATCTCTCCCATGTGGTGACATTGAAATTCCAAGTTCTCTTCGGTTATTTCACA
* * * * * * * *
25359 TCATTTCCAGATATATTATCCCTTCATTTTCC-TCACACACACCGATGTCTTCAAAGCCACGTAG
130 TCATTTCCGGATATATTATTCATTTATTGTCCTTCACACACACCGACGACTTCAAAGCCACATAG
* * * *
25423 AGATTCCAAACAACTAATAAAAATCAAGGATTCTAAATACGGACAGGTTACGCAATTCCAAGGCA
195 AGCTTCCTAACAACTAATAAAAATCAAGGATTCTAAATAC--AAAGGTTATGC-ATTCCAAGGCA
* * *
25488 ATCAAAACATA-CAGCAAAAGAGCACATGTATCATACATGCAAATA
257 ATCAAAACATATGA-CAAAAG-G-GCA-GTATCATACATACAAATA
* **
25533 ATGTTCTAAGATAGTAGTTATGATCTTTTAGGACACGGGTTTTCTGGAAAAGAGAAAATGAACAA
1 ACGTTCTAAGATAGTAGTTATGATCTTTTAGGACACAAGTTTTCTGGAAAAGAGAAAATGAACAA
* * * *
25598 CCACCAAAAAGATCTCTCCCATGTGGTGACATCGAGATTCCACGTTCTCTTCGGTTATTTCACAT
66 CCAACAAAAAGATCTCTCCCATGTGGTGACATTGAAATTCCAAGTTCTCTTCGGTTATTTCACAT
* * * * * * *
25663 CTTTTTCGGGTATATTATTCATTTATAGTCCTTTCACACACTCCAACGACTTCAAAGCCACACAG
131 CATTTCCGGATATATTATTCATTTATTGTCC-TTCACACACACCGACGACTTCAAAGCCACATAG
*
25728 AGCTTCCTAACAACTAATAAAAATCAAGGATTCTAAATACAGAGGTTATGCATTCCAAGGCAATC
195 AGCTTCCTAACAACTAATAAAAATCAAGGATTCTAAATACAAAGGTTATGCATTCCAAGGCAATC
* * *
25793 AAAAAATATGACAAAAGGGCA-TA-CATGCAATACAAGTA
260 AAAACATATGACAAAAGGGCAGTATCATAC-ATACAAATA
* * *
25831 ACGTT-TAAAGATAGTAGTTATGATCTTTTAGGACACAAGTTTTCTGGAAAGGAGAAAGTGACCA
1 ACGTTCT-AAGATAGTAGTTATGATCTTTTAGGACACAAGTTTTCTGGAAAAGAGAAAATGAACA
* * * * *
25895 ATCAACAGAAAGATCTCTCCCCCACGTGGTAACATTGAAATT-TAATGTTCTCTTCGGTTATTTC
65 ACCAACAAAAAGATCTCT--CCCATGTGGTGACATTGAAATTCCAA-GTTCTCTTCGGTTATTTC
* * * * *
25959 ACATCAATTCCGGATATATTATTCATTTATTGACCCTTCACACACACCGGC-ACTTCAAAACCAT
127 ACATCATTTCCGGATATATTATTCATTTATTG-TCCTTCACACACACCGACGACTTCAAAGCCAC
* * *
26023 ATAGAGCTTCCTAAAAACTAATAAAAGTCAAGGATTCTAAATATGAAAAGGTTAGGTG-ATTCCA
191 ATAGAGCTTCCTAACAACTAATAAAAATCAAGGATTCTAAATA--CAAAGGTTA--TGCATTCCA
* *
26087 ATGCAATCAAAACATATGACTAAAGGGCA
252 AGGCAATCAAAACATATGACAAAAGGGCA
26116 CAAGTGTAAC
Statistics
Matches: 488, Mismatches: 78, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
297 5 0.01
298 80 0.16
299 52 0.11
300 123 0.25
301 13 0.03
302 59 0.12
303 92 0.19
305 64 0.13
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.28
Consensus pattern (298 bp):
ACGTTCTAAGATAGTAGTTATGATCTTTTAGGACACAAGTTTTCTGGAAAAGAGAAAATGAACAA
CCAACAAAAAGATCTCTCCCATGTGGTGACATTGAAATTCCAAGTTCTCTTCGGTTATTTCACAT
CATTTCCGGATATATTATTCATTTATTGTCCTTCACACACACCGACGACTTCAAAGCCACATAGA
GCTTCCTAACAACTAATAAAAATCAAGGATTCTAAATACAAAGGTTATGCATTCCAAGGCAATCA
AAACATATGACAAAAGGGCAGTATCATACATACAAATA
Found at i:28185 original size:2 final size:2
Alignment explanation
Indices: 28178--28206 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
28168 ATATCTACCG
28178 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28207 GATGAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29988 original size:182 final size:182
Alignment explanation
Indices: 29696--30169 Score: 675
Period size: 182 Copynumber: 2.6 Consensus size: 182
29686 GATCCAAATT
* * * *
29696 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCA-AAATGAT
* * * * *
29760 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
* *
29825 CGTGAATTTAAAAGAGAAGCAG-TTTTA-AATCCTATAAAGTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAACAGTTTTTAGAA-CCTATAAAGTGTCGATACTTTAA
* * *
29878 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCTATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
* *
29943 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
* *
30008 TGAATTTAAAAGAGAAACAGTTTTTAGCACCTATAATGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAACAGTTTTTAGAACCTATAAAGTGTCGATACTTTAA
** *
30060 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
* ** *
30125 AAACCGGTAAAATGATACCATATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
30170 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 28, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
181 38 0.15
182 221 0.85
183 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAACAGTTTTTAGAACCTATAAAGTGTCGATACTTTAA
Found at i:32381 original size:21 final size:21
Alignment explanation
Indices: 32357--32399 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32347 AAGACAATCA
32357 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
32378 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
32399 A
1 A
32400 AGCATAAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:32476 original size:33 final size:33
Alignment explanation
Indices: 32434--32499 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
32424 AAATAGATGG
*
32434 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
32467 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
32500 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:34316 original size:19 final size:19
Alignment explanation
Indices: 34292--34341 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
34282 AATGTAGGGT
34292 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
34311 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
34330 TATTTTTGTATA
1 TAATTTTGTATA
34342 TGAATATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:34802 original size:200 final size:200
Alignment explanation
Indices: 34459--35452 Score: 1580
Period size: 199 Copynumber: 4.9 Consensus size: 200
34449 CAATATGGCC
*
34459 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
34524 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
34589 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATATTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
34654 TGGAA
196 TGGAA
34659 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
34724 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
34789 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
34854 TGGAA
196 TGGAA
34859 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCTATATAAAAAGTGT
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-----AAAAA----
*
34924 CGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACA
57 C-AT--C-----GA---AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACA
* * ****
34989 AGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGA
111 AGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGA
35054 TATTTTTGGTCCAGAATGAATGGAA
176 TATTTTTGGTCCAGAATGAATGGAA
35079 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
35143 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * **** *
35208 GAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
35273 TGGAA
196 TGGAA
* *
35278 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
35342 CCAAAAGTATATTGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
35407 GAATATGTATAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATA
35453 CTAATTTAAA
Statistics
Matches: 750, Mismatches: 24, Indels: 42
0.92 0.03 0.05
Matches are distributed among these distances:
198 14 0.02
199 286 0.38
200 249 0.33
205 5 0.01
208 1 0.00
209 1 0.00
210 4 0.01
211 1 0.00
212 1 0.00
215 5 0.01
217 1 0.00
220 182 0.24
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:34930 original size:21 final size:21
Alignment explanation
Indices: 34875--34930 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
34865 GTGCAACCAT
*
34875 AAAGTGTCGATCCATATATAA
1 AAAGTGTCGATCCCTATATAA
34896 AAAGTGTCGATCCCTATATAA
1 AAAGTGTCGATCCCTATATAA
34917 AAAGTGTCGATCCC
1 AAAGTGTCGATCCC
34931 AAAAACATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
AAAGTGTCGATCCCTATATAA
Found at i:35462 original size:419 final size:402
Alignment explanation
Indices: 34459--35433 Score: 1523
Period size: 420 Copynumber: 2.4 Consensus size: 402
34449 CAATATGGCC
*
34459 AACAGGGTGCAACCAT-AA--AGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGA
1 AACAGGGTGCAACCATAAAGGAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-
34521 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
65 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
* ** * ****
34586 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATATTTGGTCCAGAAT
130 AGAGAATATGTATAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATATTTGGTCCAGAAT
34651 GAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
195 GAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
34716 ATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTT
260 ATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTT
** * ****
34781 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCC
325 TTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCC
34846 AGAATGAATGGAA
390 AGAATGAATGGAA
*
34859 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCTATATAAAAAGTGT
1 AACAGGGTGCAACCATAAA--G--G--------------AGTGTCGATCCATATATAAAAAGTGT
34924 CGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACA
48 CGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACA
*
34989 AGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGA
113 AGTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACCATTTAAAAAAGTGTCGA
*
35054 TATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAA
178 TATATTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAA
35119 GTGTCGATCCCAAAAACATCG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
243 GTGTCGATCCCAAAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
*
35183 GTACAAGTATACTGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGT
308 GTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGT
*
35248 GTCGATATTTTTGGTCCATAATGAATGGAA
373 GTCGATATTTTTGGTCCAGAATGAATGGAA
*
35278 AACAGTGTGCAACCAT-AA-G-GTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
1 AACAGGGTGCAACCATAAAGGAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
*
35340 ACCCAAAAGTATATTGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
66 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
35405 GAGAATATGTATAAATAATGTGTCGACAC
131 GAGAATATGTATAAATAATGTGTCGACAC
35434 TTTTTAGTTT
Statistics
Matches: 531, Mismatches: 23, Indels: 44
0.89 0.04 0.07
Matches are distributed among these distances:
398 134 0.25
400 16 0.03
401 2 0.00
413 1 0.00
418 2 0.00
419 144 0.27
420 191 0.36
421 41 0.08
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (402 bp):
AACAGGGTGCAACCATAAAGGAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
GAGAATATGTATAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATATTTGGTCCAGAATG
AATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACA
TCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
TATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCA
GAATGAATGGAA
Found at i:36928 original size:6 final size:6
Alignment explanation
Indices: 36917--37039 Score: 86
Period size: 6 Copynumber: 20.0 Consensus size: 6
36907 CAAGCGGTCA
* * * *
36917 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACA- ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA-AG ATGAAG
* * * * * *
36965 CTGACG ATGAAG ATGATGACG ATGATG ATGATG ATGACG ATGAAG ATGATG
1 ATGAAG ATGAAG ATGA--A-G ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * *
37016 ACGATG ATGATG ATGAAG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG
37040 CCGCCTTCAA
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
5 1 0.01
6 87 0.93
8 1 0.01
9 5 0.05
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:36938 original size:18 final size:18
Alignment explanation
Indices: 36917--37037 Score: 115
Period size: 18 Copynumber: 6.9 Consensus size: 18
36907 CAAGCGGTCA
*
36917 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
36935 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
*
36953 ATGACA-ATGAAGCTGACG
1 ATGA-AGATGAAGATGACG
36971 ATGAAGAT---GATGACG
1 ATGAAGATGAAGATGACG
* *
36986 ATGATGATGATGATGACG
1 ATGAAGATGAAGATGACG
* * *
37004 ATGAAGATGATGACGATG
1 ATGAAGATGAAGATGACG
*
37022 ATGATGATGAAGATGA
1 ATGAAGATGAAGATGA
37038 AGCCGCCTTC
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.15
17 1 0.01
18 69 0.82
19 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.32, T:0.21
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:36939 original size:12 final size:12
Alignment explanation
Indices: 36917--37037 Score: 113
Period size: 12 Copynumber: 10.3 Consensus size: 12
36907 CAAGCGGTCA
*
36917 ATGAAGATGAAG
1 ATGACGATGAAG
*
36929 CTGACGATGAAG
1 ATGACGATGAAG
*
36941 ATGACGATGATG
1 ATGACGATGAAG
*
36953 ATGACAATGAAG
1 ATGACGATGAAG
*
36965 CTGACGATGAAG
1 ATGACGATGAAG
*
36977 AT---GATGACG
1 ATGACGATGAAG
* *
36986 ATGATGATGATG
1 ATGACGATGAAG
36998 ATGACGATGAAG
1 ATGACGATGAAG
* * *
37010 ATGATGACGATG
1 ATGACGATGAAG
*
37022 ATGATGATGAAG
1 ATGACGATGAAG
37034 ATGA
1 ATGA
37038 AGCCGCCTTC
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
9 8 0.09
12 80 0.91
ACGTcount: A:0.39, C:0.07, G:0.32, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:36986 original size:15 final size:15
Alignment explanation
Indices: 36966--37039 Score: 103
Period size: 15 Copynumber: 4.7 Consensus size: 15
36956 ACAATGAAGC
36966 TGACGATGAAGATGA
1 TGACGATGAAGATGA
36981 TGACGATGATGATGATGA
1 TGACGATGA--A-GATGA
36999 TGACGATGAAGATGA
1 TGACGATGAAGATGA
*
37014 TGACGATGATGATGA
1 TGACGATGAAGATGA
*
37029 TGAAGATGAAG
1 TGACGATGAAG
37040 CCGCCTTCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
15 37 0.70
16 1 0.02
17 1 0.02
18 14 0.26
ACGTcount: A:0.38, C:0.05, G:0.34, T:0.23
Consensus pattern (15 bp):
TGACGATGAAGATGA
Found at i:38655 original size:23 final size:23
Alignment explanation
Indices: 38583--38645 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
38573 ATCGGTAAAA
*
38583 ATATGATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTATCGCTT
*
38606 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
38629 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
38646 GTGGTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:38680 original size:20 final size:21
Alignment explanation
Indices: 38655--38697 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38645 AGTGGTTATA
*
38655 TTAT-AAAGTATCTATCCTTT
1 TTATAAAAGTATCTATACTTT
*
38675 TTATAAAAGTGTCTATACTTT
1 TTATAAAAGTATCTATACTTT
38696 TT
1 TT
38698 TCACTGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (21 bp):
TTATAAAAGTATCTATACTTT
Found at i:39044 original size:23 final size:23
Alignment explanation
Indices: 39013--39085 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
39003 ATAGGTAAAA
*
39013 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
39036 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
39059 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
39082 ATAT
1 ATAT
39086 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:39110 original size:20 final size:21
Alignment explanation
Indices: 39085--39127 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
39075 AGTGGTTATA
*
39085 TTGT-AAAGTATCTATCCTTT
1 TTGTAAAAGTATCTATACTTT
*
39105 TTGTAAAAGTGTCTATACTTT
1 TTGTAAAAGTATCTATACTTT
39126 TT
1 TT
39128 TCACTGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (21 bp):
TTGTAAAAGTATCTATACTTT
Found at i:39180 original size:430 final size:431
Alignment explanation
Indices: 38375--39682 Score: 2435
Period size: 430 Copynumber: 3.0 Consensus size: 431
38365 CTTTGGTTAA
* *
38375 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
38439 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTG
*
38503 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCA
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCA
* *
38568 ATATAATCGGTAAAAATATGATGTAATAGGTATCGCTTATATAATGTAATAGGTATCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
*
38633 AATGTAATAGGTAGTGGTTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
260 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
38698 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
38763 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
38805 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
38870 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
38935 AACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTAT-AAAAGTATGAACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAA
38999 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
39064 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTGTAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
* *
39129 CACTGTGGAAAACATTAATTTAAAGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
39194 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
*
39235 TATTATTAAATTAAAAATTTTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
39300 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
* *
39364 AACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGTACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAA
39429 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
39494 ATGTAATAGGTAGTGATTATATTGTAAAGTATCTATCCTTTTTATAAAAAGTGTCTATACTTTTT
261 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTAT-AAAAGTGTCTATACTTTTT
39559 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
39624 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
39666 TATTATTAAATTAAAAA
1 TATTATTAAATTAAAAA
39683 CAATAAACAT
Statistics
Matches: 855, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
429 53 0.06
430 506 0.59
431 296 0.35
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATGAACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
Found at i:39474 original size:23 final size:23
Alignment explanation
Indices: 39443--39515 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
39433 ATAGGTAAAA
* *
39443 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGATT
* *
39466 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGATT
*
39489 ATATAATGTAATAGGTAGTGATT
1 ATATAATGTAATAGGTAGCGATT
39512 ATAT
1 ATAT
39516 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGATT
Found at i:39964 original size:23 final size:23
Alignment explanation
Indices: 39933--40005 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
39923 ATAGGTAAAA
*
39933 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
39956 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
39979 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
40002 ATAT
1 ATAT
40006 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:40033 original size:21 final size:22
Alignment explanation
Indices: 40009--40058 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
39999 GTTATATTGT
*
40009 AAAGTATCTATCCTTTTTAT-A
1 AAAGTATCGATCCTTTTTATAA
40030 AAAGTATCGATCCTTTTTATAA
1 AAAGTATCGATCCTTTTTATAA
40052 AAAGTAT
1 AAAGTAT
40059 GTACACTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (22 bp):
AAAGTATCGATCCTTTTTATAA
Found at i:46089 original size:26 final size:26
Alignment explanation
Indices: 46060--46109 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
46050 TATTATTGAA
46060 AGCCCTTAATTTTAACTAAAAGTAGT
1 AGCCCTTAATTTTAACTAAAAGTAGT
46086 AGCCCTTAATTTTAACTAAAAGTA
1 AGCCCTTAATTTTAACTAAAAGTA
46110 CAATTGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (26 bp):
AGCCCTTAATTTTAACTAAAAGTAGT
Found at i:49619 original size:2 final size:2
Alignment explanation
Indices: 49612--49655 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
49602 TAAGGTGGTG
49612 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
49654 AT
1 AT
49656 GAAAAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51222 original size:25 final size:27
Alignment explanation
Indices: 51194--51255 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
51184 ATCTAACATT
51194 AAAATATATAAGTT-ATT-TTTTAAAA
1 AAAATATATAAGTTAATTCTTTTAAAA
*
51219 AAAATATACAAGTTACATTCTTTTAAAA
1 AAAATATATAAGTTA-ATTCTTTTAAAA
*
51247 AGAATATAT
1 AAAATATAT
51256 TATTGTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.42
27 3 0.10
28 15 0.48
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (27 bp):
AAAATATATAAGTTAATTCTTTTAAAA
Found at i:55978 original size:17 final size:18
Alignment explanation
Indices: 55943--55981 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
55933 CTTTTTCTTC
55943 TTTTCATCTATGTTATTA
1 TTTTCATCTATGTTATTA
* *
55961 TTTTC-TCTCTGTTTTTA
1 TTTTCATCTATGTTATTA
55978 TTTT
1 TTTT
55982 ACAACAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTCATCTATGTTATTA
Found at i:60741 original size:32 final size:33
Alignment explanation
Indices: 60705--60792 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 33
60695 TCCAAGAGTG
*
60705 TACCTTGGGGCCTAAGAGCCTACCTA-AGGGAA
1 TACCTTGGGGCCTAAGAGCCTACCTACAGGAAA
* *
60737 TACCTTGGGGCCTTAGACCCTA--TACGAGGAAA
1 TACCTTGGGGCCTAAGAGCCTACCTAC-AGGAAA
* *
60769 TACCTTAGGGCCTCAGAGCCTACC
1 TACCTTGGGGCCTAAGAGCCTACC
60793 CAAGTGTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
30 2 0.04
32 44 0.96
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.20
Consensus pattern (33 bp):
TACCTTGGGGCCTAAGAGCCTACCTACAGGAAA
Found at i:65515 original size:37 final size:36
Alignment explanation
Indices: 65440--65515 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
65430 TTTTTATATT
*
65440 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
65476 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
65513 TTT
1 TTT
65516 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:65697 original size:20 final size:20
Alignment explanation
Indices: 65661--65698 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65651 ATCCTATTCC
**
65661 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
65681 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
65699 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:66187 original size:3 final size:3
Alignment explanation
Indices: 66179--66210 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
66169 TATTTGTAGA
66179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66211 AAGAAACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66896 original size:13 final size:13
Alignment explanation
Indices: 66880--66907 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
66870 AAATACAAGA
66880 TATATTATATATT
1 TATATTATATATT
66893 TATATTATATATT
1 TATATTATATATT
66906 TA
1 TA
66908 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATTATATATT
Found at i:66930 original size:17 final size:17
Alignment explanation
Indices: 66880--66932 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
66870 AAATACAAGA
* *
66880 TATATTATATATTTATAT
1 TATA-TATATATTAAAAT
* **
66898 TATATATTTAAAAAAAT
1 TATATATATATTAAAAT
66915 TATATATATATTAAAAT
1 TATATATATATTAAAAT
66932 T
1 T
66933 TGATGTATGT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATATATATTAAAAT
Found at i:74087 original size:45 final size:45
Alignment explanation
Indices: 74038--74125 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
74028 GAACATCGAA
* * *
74038 TGCATTTTATTCATCGATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCAG
*
74083 TGCATTTGATGCATCGATGCACAAACCATGCATCGTTGCACTC
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTC
74126 TGGCTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCAG
Found at i:79967 original size:20 final size:21
Alignment explanation
Indices: 79942--80036 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 21
79932 TTGTGCTTAA
79942 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
79962 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
79984 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAAAG
* * *
80005 TGCACCGATGCATGCCTTGAATG
1 TGCATCGATACA--CCTTGAAAG
80028 TGCATCGAT
1 TGCATCGAT
80037 GCATAGGGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 19 0.32
22 13 0.22
23 17 0.28
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:80007 original size:21 final size:22
Alignment explanation
Indices: 79961--80036 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
79951 ACACCTAACA
*
79961 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATACATCCTTGAAT
* *
79983 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATACATCCTTGAAT
* *
80004 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCGATACAT-CCTTGAAT
80027 GTGCATCGAT
1 GTGCATCGAT
80037 GCATAGGGCC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 17 0.39
22 12 0.27
23 15 0.34
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (22 bp):
GTGCATCGATACATCCTTGAAT
Found at i:80030 original size:23 final size:22
Alignment explanation
Indices: 79961--80040 Score: 108
Period size: 23 Copynumber: 3.6 Consensus size: 22
79951 ACACCTAACA
79961 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCTTGAAT
* * *
79983 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
80004 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
80027 GTGCATCGATGCAT
1 GTGCATCGATGCAT
80041 AGGGCCAAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.35
22 12 0.25
23 19 0.40
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:80032 original size:44 final size:42
Alignment explanation
Indices: 79942--80036 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 42
79932 TTGTGCTTAA
*
79942 TGCATCGATACACCTAACAGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCATCCTTGAATG
*
79984 TGCATCGATACACCATGAA-GGTGCACCGATGCATGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGCAT-CCTTGAATG
80028 TGCATCGAT
1 TGCATCGAT
80037 GCATAGGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
42 14 0.29
43 14 0.29
44 20 0.42
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCATCCTTGAATG
Found at i:81607 original size:21 final size:21
Alignment explanation
Indices: 81565--81608 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
81555 ACTCTGGGAG
* *
81565 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
81586 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
81607 CT
1 CT
81609 CATCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:84253 original size:12 final size:12
Alignment explanation
Indices: 84238--84273 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
84228 TCCACCACTA
84238 CATGTTTTATTC
1 CATGTTTTATTC
84250 CATGTTTTATTC
1 CATGTTTTATTC
84262 CATGTTTTATTC
1 CATGTTTTATTC
84274 TTCTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (12 bp):
CATGTTTTATTC
Found at i:89840 original size:39 final size:39
Alignment explanation
Indices: 89792--90151 Score: 406
Period size: 39 Copynumber: 9.5 Consensus size: 39
89782 TTCTTAAAAC
* *
89792 AAGATTTTATCTCGCTTGAGATAGTTGCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
*
89831 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
* * *
89870 AAGATTTTGTCTCGCTTGAGATAGTTTCCTTTGAAACGG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
* *
89909 AAGATTTTTATCTCGCTTGAGATAGTTTCCCTCGGAACAG
1 AAGA-TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
* *
89949 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
* * * * * *
89988 AAGATCTTGTCTCCCTTGAGATGGTTTCCCTTGAAATAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
90027 AA-A----ATCT---TTGAGATAGTTTCCCTTGAAAC--
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
* *
90056 AA-ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA-
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
** *
90093 AA-ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACAAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-AG
*
90132 AA-ATTTTATCTCACTTGAGA
1 AAGATTTTATCTCGCTTGAGA
90152 AAGCTTTTCT
Statistics
Matches: 282, Mismatches: 28, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
29 3 0.01
31 20 0.07
33 4 0.01
34 3 0.01
36 21 0.07
37 33 0.12
38 2 0.01
39 162 0.57
40 34 0.12
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAG
Found at i:89935 original size:118 final size:115
Alignment explanation
Indices: 89788--90151 Score: 446
Period size: 118 Copynumber: 3.2 Consensus size: 115
89778 GTTTTTCTTA
*
89788 AAACAAGATTTTATCTCGCTTGAGATAGTTGCCCTCGAAACAGAAGATTTTATCTCGCTTGAGAT
1 AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGAT
*
89853 AGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCTTTG
66 AGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTG
*
89903 AAACGGAAGATTTTTATCTCGCTTGAGATAGTTTCCCTCGGAACAGAAGATTTTATCTCGCTTGA
1 AAAC--AAGA-TTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGA
* * * *
89968 GATAGTTTCCCTCGAAATAGAAGATCTTGTCTCCCTTGAGATGGTTTCCCTTG
63 GATAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTG
* * * *
90021 AAATATA-A---AATCT---TTGAGATAGTTTCCCTTGAAAC--AA-ATTTTATCTCCCTTGAGA
1 AAACA-AGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGA
* * * *
90076 CAGTTTCCCTTGAAACA-AA-ATTTCGTCTCGCTTGAGACAGTTTCCCTTG
65 TAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTG
*
90125 AAACAAGAAATTTTATCTCACTTGAGA
1 AAACAAG--ATTTTATCTCGCTTGAGA
90152 AAGCTTTTCT
Statistics
Matches: 214, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
103 1 0.00
104 29 0.14
105 2 0.01
106 32 0.15
107 2 0.01
109 24 0.11
112 10 0.05
115 4 0.02
116 2 0.01
117 5 0.02
118 103 0.48
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (115 bp):
AAACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGAT
AGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTG
Found at i:89953 original size:79 final size:77
Alignment explanation
Indices: 89792--90151 Score: 386
Period size: 79 Copynumber: 4.8 Consensus size: 77
89782 TTCTTAAAAC
* * *
89792 AAGATTTTATCTCGCTTGAGATAGTTGCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-GAAGATTTTATCTCCCTTGAGATAGTT
89857 TCCCTCGAAACAG
65 TCCCTCGAAACAG
* * *
89870 AAGATTTTGTCTCGCTTGAGATAGTTTCCTTTGAAACGGAAGATTTTTATCTCGCTTGAGATAGT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-GAAGA-TTTTATCTCCCTTGAGATAGT
*
89935 TTCCCTCGGAACAG
64 TTCCCTCGAAACAG
* * * * *
89949 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATCTTGTCTCCCTTGAGATGGTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAA-CGAAGATTTTATCTCCCTTGAGATAGTT
* * *
90014 TCCCTTGAAATAT
65 TCCCTCGAAACAG
*
90027 AA-A----ATCT---TTGAGATAGTTTCCCTTGAAAC-AA-ATTTTATCTCCCTTGAGACAGTTT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACGAAGATTTTATCTCCCTTGAGATAGTTT
*
90082 CCCTTGAAACA-
66 CCCTCGAAACAG
** * *
90093 AA-ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAAC-AAGAAATTTTATCTCACTTGAGA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACGAAG--ATTTTATCTCCCTTGAGA
90152 AAGCTTTTCT
Statistics
Matches: 242, Mismatches: 28, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
66 3 0.01
67 30 0.12
68 2 0.01
70 23 0.10
73 27 0.11
76 17 0.07
77 1 0.00
78 67 0.28
79 72 0.30
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (77 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACGAAGATTTTATCTCCCTTGAGATAGTTT
CCCTCGAAACAG
Found at i:90149 original size:143 final size:148
Alignment explanation
Indices: 89792--90151 Score: 372
Period size: 157 Copynumber: 2.4 Consensus size: 148
89782 TTCTTAAAAC
* * * * * * *
89792 AAGATTTTATCTCGCTTGAGATAGTTGCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTT
1 AAGATTTCATCTCGCTTGAGACAGTTTCCCTCGAAAAAGAAGATCTTATCTCACTTGAGATGGTT
* * * * *
89857 TCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCCTTTGAAACGGAAGATTTTTATCT
66 TCCCTTGAAATATAA-A----ATCT---TTGAGATAGTTTCCCTTGAAAC-GAAGATTTTTATCT
* * *
89922 CGCTTGAGATAGTTTCCCTCGGAACAG
122 CCCTTGAGACAGTTTCCCTCGAAACAG
* * * * *
89949 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATCTTGTCTCCCTTGAGATGGTT
1 AAGATTTCATCTCGCTTGAGACAGTTTCCCTCGAAAAAGAAGATCTTATCTCACTTGAGATGGTT
90014 TCCCTTGAAATATAAAATCTTTGAGATAGTTTCCCTTGAAAC-AA-A-TTTTATCTCCCTTGAGA
66 TCCCTTGAAATATAAAATCTTTGAGATAGTTTCCCTTGAAACGAAGATTTTTATCTCCCTTGAGA
*
90076 CAGTTTCCCTTGAAACA-
131 CAGTTTCCCTCGAAACAG
* * *
90093 AA-ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACAAGAA-ATTTTATCTCACTTGAGA
1 AAGATTTCATCTCGCTTGAGACAGTTTCCCTCGAAA-AAGAAGATCTTATCTCACTTGAGA
90152 AAGCTTTTCT
Statistics
Matches: 179, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
143 44 0.25
144 6 0.03
145 30 0.17
146 1 0.01
147 2 0.01
149 21 0.12
152 3 0.02
156 1 0.01
157 71 0.40
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (148 bp):
AAGATTTCATCTCGCTTGAGACAGTTTCCCTCGAAAAAGAAGATCTTATCTCACTTGAGATGGTT
TCCCTTGAAATATAAAATCTTTGAGATAGTTTCCCTTGAAACGAAGATTTTTATCTCCCTTGAGA
CAGTTTCCCTCGAAACAG
Found at i:90168 original size:143 final size:148
Alignment explanation
Indices: 89885--90168 Score: 339
Period size: 143 Copynumber: 1.9 Consensus size: 148
89875 TTTGTCTCGC
* * * *
89885 TTGAGATAGTTTCCTTTGAAACGGAAGATTTTTATCTCGCTTGAGATAGTTTCCCTCGGAACAGA
1 TTGAGATAGTTTCCCTTGAAAC-GAAGATTTTTATCTCCCTTGAGACAGTTTCCCTCGAAACAGA
* * * * * * *
89950 AGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAGAAGATCTTGTCTCCCTTGAGATGGTTT
65 AGATTTCATCTCGCTTGAGACAGTTTCCCTCGAAAAAGAAGATCTTATCTCACTTGAGAAGCTTT
*
90015 CCCTTGAAATATAAAATCT
130 CCCTTAAAATATAAAATCT
*
90034 TTGAGATAGTTTCCCTTGAAAC-AA-A-TTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA-AA
1 TTGAGATAGTTTCCCTTGAAACGAAGATTTTTATCTCCCTTGAGACAGTTTCCCTCGAAACAGAA
* * *
90095 -ATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACAAGAA-ATTTTATCTCACTTGAGAAAGCTT
66 GATTTCATCTCGCTTGAGACAGTTTCCCTCGAAA-AAGAAGATCTTATCTCACTTGAG-AAGCTT
*
90158 T-TCTTAAAATA
129 TCCCTTAAAATA
90169 GATTTCTTAT
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
143 51 0.44
144 11 0.09
145 30 0.26
146 1 0.01
147 2 0.02
149 21 0.18
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (148 bp):
TTGAGATAGTTTCCCTTGAAACGAAGATTTTTATCTCCCTTGAGACAGTTTCCCTCGAAACAGAA
GATTTCATCTCGCTTGAGACAGTTTCCCTCGAAAAAGAAGATCTTATCTCACTTGAGAAGCTTTC
CCTTAAAATATAAAATCT
Found at i:91358 original size:132 final size:131
Alignment explanation
Indices: 90606--91471 Score: 918
Period size: 132 Copynumber: 6.5 Consensus size: 131
90596 GTTCAAATCT
*
90606 ATCACAGAAGGAGGTGGATCGATATTTTTATTTTCTCTCAAATCCATCGCAGAAGGAGTTGGATC
1 ATCACAGAAGGAGGTGGATCGATA-TTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
* * * ** * * * * * *
90671 ATCGTCAACTTTTAGCTCGATTCTATCGTAGAAAGAGGTATATCAACACCAACATCTTGTT-TAA
64 AGCATCAACTTTTTGCTCGATTCTATCACAGAAAGAGATAGATCATCACCAACATCTCGTTCGAT
90735 ATCC
129 A-CC
* * *
90739 ATCATAGAAGGAGGTGGATCAACATTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
1 ATCACAGAAGGAGGTGGATCGATATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
* * * * * * *
90803 CGTCAACTTTTTGCTTGATTCTATCACAGAATGAGGTAGATCAGCACCAACATCTTGTTCTATTA
66 CATCAACTTTTTGCTCGATTCTATCACAGAAAGAGATAGATCATCACCAACATCTCGTTCGA-TA
90868 -C
130 CC
* *
90869 ATCACAGAAGGAGATGGATTGATA-TTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
1 ATCACAGAAGGAGGTGGATCGATATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
* * * * * * * *
90932 CGTCAACTTTTTGCTCGATTTTATCACAGAATGAGGTAGATTAGT-ACTAACATCTCGTTAGATT
66 CATCAACTTTTTGCTCGATTCTATCACAGAAAGAGATAGATCA-TCACCAACATCTCGTTCGATA
90996 CC
130 CC
* * * * *
90998 ATCAGAGAAGGAGATGGATCGACATTTTATTTCGCTCATATCCATCGCAGAAGGAGTTGGATCAA
1 ATCACAGAAGGAGGTGGATCGATATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
* * *
91063 CATCAACTTTTAGCTCGATTCTATCACAG-AAGAGTATAGATCAGCACCAACATCTCGTTCGATT
66 CATCAACTTTTTGCTCGATTCTATCACAGAAAGAG-ATAGATCATCACCAACATCTCGTTCGATA
91127 CC
130 CC
* *
91129 ATCACAGAAGGAGGTGGATCGACATTTTTTATTATTATTTTCACTCAAATCCATCACAGAAGGAG
1 ATCACAGAAGGAGGTGGATCG--A-----TATT-TTA-TTTCGCTCAAATCCATCGCAGAAGGAG
* * * * * *
91194 TTGTATCAGCATCAACTTTTTGCTTGATTCTATCACAGAAAGAGATAGATCATCATCGATATCCC
57 TTGGATCAGCATCAACTTTTTGCTCGATTCTATCACAGAAAGAGATAGATCATCACCAACATCTC
* * *
91259 ATTCGACACT
122 GTTCGATACC
* * * *
91269 ATCACAAAAGGAGGTGGATCAATGTTTTCATTTCGCTCAAATCCATCGCAGAAGGAGTTGGGTCA
1 ATCACAGAAGGAGGTGGATCGATATTTT-ATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * * * * *
91334 GCATCAACTTTTTGCTTGAATCTATCACAGAAAGAGATAGATCATCATCGACATCTTGTTCGATT
65 GCATCAACTTTTTGCTCGATTCTATCACAGAAAGAGATAGATCATCACCAACATCTCGTTCGATA
*
91399 TC
130 CC
* * * * * *
91401 ATCACAGAAGGAGATGGATCGATGTTTTCATTTCACTCAAAACCATCGCATACGGAGTTGGATCA
1 ATCACAGAAGGAGGTGGATCGATATTTT-ATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
91466 GCATCA
65 GCATCA
91472 TCAACATTGT
Statistics
Matches: 630, Mismatches: 84, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
128 1 0.00
129 114 0.18
130 113 0.18
131 106 0.17
132 159 0.25
133 26 0.04
138 4 0.01
139 3 0.00
140 99 0.16
141 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCACAGAAGGAGGTGGATCGATATTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
CATCAACTTTTTGCTCGATTCTATCACAGAAAGAGATAGATCATCACCAACATCTCGTTCGATAC
C
Found at i:105807 original size:17 final size:18
Alignment explanation
Indices: 105774--105807 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
105764 CATTATATAT
105774 ATATAACATACTATACAC
1 ATATAACATACTATACAC
*
105792 ATATAA-ATATTATACA
1 ATATAACATACTATACA
105808 TTATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATAACATACTATACAC
Found at i:109874 original size:20 final size:20
Alignment explanation
Indices: 109849--109889 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
109839 TTACCATAAC
109849 GTTTATAGGAGATTCATTGT
1 GTTTATAGGAGATTCATTGT
109869 GTTTATAGGAGATTCATTGT
1 GTTTATAGGAGATTCATTGT
109889 G
1 G
109890 ATTCTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (20 bp):
GTTTATAGGAGATTCATTGT
Found at i:115536 original size:50 final size:50
Alignment explanation
Indices: 115465--115578 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
115455 AAATAAGTGT
* * * * **
115465 GATAATTCAGTAAAGGAAAGAACTAATTTATACCGGTGTAATTAAGTATG
1 GATAATTAAGTAAACGAAAGAACTAACTCATACCAATGTAATTAAGTATG
* *
115515 GATAAATTAA-TAAACGAAAGAACTAACTCATACCAATGTAATTAAGTGTT
1 GAT-AATTAAGTAAACGAAAGAACTAACTCATACCAATGTAATTAAGTATG
115565 GATAATTAAGTAAA
1 GATAATTAAGTAAA
115579 TTTATCGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 6 0.11
50 43 0.80
51 5 0.09
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (50 bp):
GATAATTAAGTAAACGAAAGAACTAACTCATACCAATGTAATTAAGTATG
Found at i:122454 original size:27 final size:27
Alignment explanation
Indices: 122423--122493 Score: 133
Period size: 27 Copynumber: 2.6 Consensus size: 27
122413 TCTATTTACA
122423 AAATCATATCTCTATGGGAATGGTAAC
1 AAATCATATCTCTATGGGAATGGTAAC
*
122450 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATGGGAATGGTAAC
122477 AAATCATATCTCTATGG
1 AAATCATATCTCTATGG
122494 TAACAAATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATGGGAATGGTAAC
Found at i:122495 original size:21 final size:23
Alignment explanation
Indices: 122423--122513 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 23
122413 TCTATTTACA
122423 AAATCATATCTCTATGGGAATGGTAAC
1 AAATCATATCTC-AT---AATGGTAAC
122450 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTC-AT---AATGGTAAC
122477 AAATCATATCTC-T-ATGGTAAC
1 AAATCATATCTCATAATGGTAAC
*
122498 AAATCATCTCT-ATAAT
1 AAATCATATCTCATAAT
122514 TCCTACACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
21 19 0.32
22 2 0.03
25 1 0.02
27 38 0.63
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (23 bp):
AAATCATATCTCATAATGGTAAC
Found at i:122508 original size:19 final size:20
Alignment explanation
Indices: 122469--122510 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
122459 CTCTATAGGA
122469 ATGGTAACAAATCATATCTCT
1 ATGGTAACAAATCA-ATCTCT
122490 ATGGTAACAAATC-ATCTCT
1 ATGGTAACAAATCAATCTCT
122509 AT
1 AT
122511 AATTCCTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGGTAACAAATCAATCTCT
Found at i:126267 original size:19 final size:20
Alignment explanation
Indices: 126228--126269 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
126218 CTCCATAGGA
126228 ATGGTAACAAATCATATCTCT
1 ATGGTAACAAATCA-ATCTCT
126249 ATGGTAACAAATC-ATCTCT
1 ATGGTAACAAATCAATCTCT
126268 AT
1 AT
126270 AATTCCTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGGTAACAAATCAATCTCT
Found at i:128517 original size:36 final size:36
Alignment explanation
Indices: 128470--128540 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
128460 GAATCGGGTA
*
128470 GATAGATATATAGTCAACAATTACGAGAAAGAAATG
1 GATAGATATATAGTCAACAATTAAGAGAAAGAAATG
*
128506 GATAGATATATAGTCAACGATTAAGAGAAAGAAAT
1 GATAGATATATAGTCAACAATTAAGAGAAAGAAAT
128541 AGAGTGGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.23
Consensus pattern (36 bp):
GATAGATATATAGTCAACAATTAAGAGAAAGAAATG
Found at i:129441 original size:28 final size:28
Alignment explanation
Indices: 129401--129454 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
129391 TCGTTGATTA
129401 AATAACTAGAAACTAAATTAATTAATCG
1 AATAACTAGAAACTAAATTAATTAATCG
129429 AATAACTAGAAACTAAATTAATTAAT
1 AATAACTAGAAACTAAATTAATTAAT
129455 AATTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (28 bp):
AATAACTAGAAACTAAATTAATTAATCG
Found at i:129558 original size:2 final size:2
Alignment explanation
Indices: 129551--129612 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
129541 TTAAATACAT
129551 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
129593 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
129613 AGTTCAACTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129803 original size:30 final size:27
Alignment explanation
Indices: 129769--129824 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
129759 AACTTTGTTA
*
129769 AATTCAATTAATAATCTAAAAGGAAAAATC
1 AATTCAATTAACAAT-T-AAA-GAAAAATC
*
129799 AATTCATTTAACAATTAAAGAAAAAT
1 AATTCAATTAACAATTAAAGAAAAAT
129825 TGATTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 3 0.12
29 1 0.04
30 13 0.54
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (27 bp):
AATTCAATTAACAATTAAAGAAAAATC
Found at i:130950 original size:189 final size:189
Alignment explanation
Indices: 130630--131010 Score: 753
Period size: 189 Copynumber: 2.0 Consensus size: 189
130620 CATAATGCAA
130630 CATACAGGACTCGGGGGTTCCGGACAATTTCCGGGGCAGGTCCGCATCTGCATATTGTTTCATGT
1 CATACAGGACTCGGGGGTTCCGGACAATTTCCGGGGCAGGTCCGCATCTGCATATTGTTTCATGT
130695 ATTCGACGCTTTCCTCCTCTGATACTTTCTTTTAGAAATCAAATTCTTGAATAATATTACCACTA
66 ATTCGACGCTTTCCTCCTCTGATACTTTCTTTTAGAAATCAAATTCTTGAATAATATTACCACTA
130760 CTGCAGTATGTATCTCCCTTTCATTACAAGAAATACGGGACTCCTGTCCTTGGCCCTCT
131 CTGCAGTATGTATCTCCCTTTCATTACAAGAAATACGGGACTCCTGTCCTTGGCCCTCT
*
130819 CATACAGGACTCGGGGGTTCCGGACAATTTCCGGGGCAGGTCCGCATCTGCATATTGTTTCATTT
1 CATACAGGACTCGGGGGTTCCGGACAATTTCCGGGGCAGGTCCGCATCTGCATATTGTTTCATGT
130884 ATTCGACGCTTTCCTCCTCTGATACTTTCTTTTAGAAATCAAATTCTTGAATAATATTACCACTA
66 ATTCGACGCTTTCCTCCTCTGATACTTTCTTTTAGAAATCAAATTCTTGAATAATATTACCACTA
130949 CTGCAGTATGTATCTCCCTTTCATTACAAGAAATACGGGACTCCTGTCCTTGGCCCTCT
131 CTGCAGTATGTATCTCCCTTTCATTACAAGAAATACGGGACTCCTGTCCTTGGCCCTCT
131008 CAT
1 CAT
131011 CTGATTATTC
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 191 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (189 bp):
CATACAGGACTCGGGGGTTCCGGACAATTTCCGGGGCAGGTCCGCATCTGCATATTGTTTCATGT
ATTCGACGCTTTCCTCCTCTGATACTTTCTTTTAGAAATCAAATTCTTGAATAATATTACCACTA
CTGCAGTATGTATCTCCCTTTCATTACAAGAAATACGGGACTCCTGTCCTTGGCCCTCT
Found at i:134412 original size:36 final size:36
Alignment explanation
Indices: 134353--134473 Score: 147
Period size: 36 Copynumber: 3.3 Consensus size: 36
134343 TGGCAACCAA
* *
134353 CTTTGAAAAATTGGTTTTTAAAGTTTGGTAAATGTTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGATAAATG-TTT
134391 CTTTG-AAAATGGTTTTCAAAGTTTGATAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGATAAATGTTT
* **
134426 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGTTGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGATAAATGTTT
*
134463 -GTTGAAAAATG
1 CTTTGAAAAATG
134474 ATAATGGGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
35 9 0.12
36 35 0.47
37 26 0.35
38 5 0.07
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.46
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGATAAATGTTT
Found at i:134425 original size:20 final size:20
Alignment explanation
Indices: 134366--134425 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
134356 TGAAAAATTG
* *
134366 GTTTTTAAAGTTTGGTAAAT
1 GTTTTCAAAGTTTGATAAAT
134386 GTTTTC----TTTGA-AAAT
1 GTTTTCAAAGTTTGATAAAT
134401 GGTTTTCAAAGTTTGATAAAT
1 -GTTTTCAAAGTTTGATAAAT
134422 GTTT
1 GTTT
134426 CTTTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 4 0.12
16 10 0.31
20 14 0.44
21 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.50
Consensus pattern (20 bp):
GTTTTCAAAGTTTGATAAAT
Found at i:139028 original size:20 final size:20
Alignment explanation
Indices: 139003--139062 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
138993 TGAAAAATTG
139003 GTTTTCAAAGTTTGGTAAAT
1 GTTTTCAAAGTTTGGTAAAT
*
139023 GTTTTC----TTT-GAAAAT
1 GTTTTCAAAGTTTGGTAAAT
139038 GGTTTTCAAAGTTTGGTAAAT
1 -GTTTTCAAAGTTTGGTAAAT
139059 GTTT
1 GTTT
139063 CTTTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 5 0.16
16 9 0.28
20 13 0.41
21 5 0.16
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (20 bp):
GTTTTCAAAGTTTGGTAAAT
Found at i:139045 original size:36 final size:37
Alignment explanation
Indices: 138990--139099 Score: 170
Period size: 36 Copynumber: 3.0 Consensus size: 37
138980 TGACAACCAA
138990 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATGTTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTTT
139028 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATG-TTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTT
* *
139063 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
139100 GTTAAAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.12
36 28 0.42
37 24 0.36
38 7 0.10
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.46
Consensus pattern (37 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTT
Found at i:145788 original size:28 final size:28
Alignment explanation
Indices: 145748--145804 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
145738 AAAAGATGAT
*
145748 ATACTTTATGTACCTACTTTGACAAAAA
1 ATACTTTAAGTACCTACTTTGACAAAAA
*
145776 ATACTTTAAGTACCTATTTTGACAAAAA
1 ATACTTTAAGTACCTACTTTGACAAAAA
145804 A
1 A
145805 AAATACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (28 bp):
ATACTTTAAGTACCTACTTTGACAAAAA
Found at i:150579 original size:28 final size:28
Alignment explanation
Indices: 150522--150579 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
150512 GGTACCTAAC
* **
150522 TTCTTTGGTGCAATTAGGTACCCATTTT
1 TTCTTTGGTGCAATTAAGTACCCAAGTT
* *
150550 TTCTTTGGTTCAATTAAGTACCTAAGTT
1 TTCTTTGGTGCAATTAAGTACCCAAGTT
150578 TT
1 TT
150580 TTCCTTGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (28 bp):
TTCTTTGGTGCAATTAAGTACCCAAGTT
Found at i:150594 original size:30 final size:28
Alignment explanation
Indices: 150530--150595 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 28
150520 ACTTCTTTGG
* * * *
150530 TGCAATTAGGTACCCATTTTTTCTTTGG
1 TGCAATTAAGTACCAATTTTTTCCTTGA
*
150558 TTCAATTAAGTACCTAAGTTTTTTCCTTGA
1 TGCAATTAAGTACC-AA-TTTTTTCCTTGA
150588 TGCAATTA
1 TGCAATTA
150596 CGTATGTAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 12 0.40
29 1 0.03
30 17 0.57
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (28 bp):
TGCAATTAAGTACCAATTTTTTCCTTGA
Found at i:150837 original size:20 final size:21
Alignment explanation
Indices: 150812--150863 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
150802 TTTTCCCAAT
*
150812 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
150832 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
150853 TCGCAATGCGA
1 TCGCAATGCGA
150864 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:150877 original size:20 final size:20
Alignment explanation
Indices: 150852--150965 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
150842 AATTGGGAAA
*
150852 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
150872 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
150892 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
150913 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
150933 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
150953 TTCGCAACGCGAT
1 ATCGCAACGCGAT
150966 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:150896 original size:61 final size:61
Alignment explanation
Indices: 150849--150965 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
150839 GCGAATTGGG
* * * * *
150849 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
150910 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
150966 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:151523 original size:19 final size:19
Alignment explanation
Indices: 151485--151540 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
151475 TTCGAGAATG
151485 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
151505 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
*
151524 AAAATCGTAACGCGAAA
1 AAAATCGCAACGCGAAA
151541 CCAAAATTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:151546 original size:19 final size:19
Alignment explanation
Indices: 151485--151547 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
151475 TTCGAGAATG
*
151485 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAACA
** *
151505 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAACA
* *
151524 AAAATCGTAACGCGAAACC
1 AAAATCGCAACGCGAAACA
151543 AAAAT
1 AAAAT
151548 TGCATTGCGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 25 0.69
20 11 0.31
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACA
Found at i:151574 original size:19 final size:19
Alignment explanation
Indices: 151552--151711 Score: 124
Period size: 19 Copynumber: 8.8 Consensus size: 19
151542 CAAAATTGCA
151552 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
151571 TTGCGATTTTAATTTCGCG
1 TTGCGATTTTCATTTCGCG
**
151590 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
151609 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
* **
151623 TTACGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
151642 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
151656 TTGCGATAGTCATTTTCGCG
1 TTGCGATTTTCA-TTTCGCG
* *
151676 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
151696 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
151712 AACCAAAAGA
Statistics
Matches: 111, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
14 19 0.17
16 4 0.04
17 4 0.04
19 53 0.48
20 31 0.28
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:151635 original size:33 final size:33
Alignment explanation
Indices: 151588--151686 Score: 180
Period size: 33 Copynumber: 3.0 Consensus size: 33
151578 TTTAATTTCG
151588 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
*
151621 CGTTACGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
151654 CGTTGCGATAGTCATTTTCGCGTTGCGATTCTC
1 CGTTGCGATAGTCA-TTTCGCGTTGCGATTCTC
151687 ATTATCTCGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 45 0.71
34 18 0.29
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.39
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:151703 original size:20 final size:20
Alignment explanation
Indices: 151651--151709 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
151641 GTTGCGATTC
** *
151651 TCTCGTTGCGATAGTCATTT
1 TCTCGTTGCGATTCTCATTA
*
151671 TCGCGTTGCGATTCTCATTA
1 TCTCGTTGCGATTCTCATTA
*
151691 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTCTCATT
151710 TCAACCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (20 bp):
TCTCGTTGCGATTCTCATTA
Found at i:153559 original size:95 final size:89
Alignment explanation
Indices: 153397--153581 Score: 262
Period size: 91 Copynumber: 2.0 Consensus size: 89
153387 TAGATTGCTT
* * *
153397 AGTAAATTTATTCGGTTGCTGTCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTACTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAATTAGTATTT
153462 GTCTTTTTGTTTTATCTTTTGGTTGA
66 GTC--TTTGTTTTATCTTTTGGTTGA
* *
153488 AGTAAATTTATTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATTAGT
1 AGTAAATTTATTCGGTTACTGCCAATACTGCTAAA-T-TGT-TT-ATTAACACTGTGAAATTAGT
*
153553 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
62 ATTTGTCTTTGTTTTATCTTTTGGTTGA
153581 A
1 A
153582 AGTTTGAAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
91 32 0.38
92 1 0.01
93 24 0.29
94 2 0.02
95 25 0.30
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.48
Consensus pattern (89 bp):
AGTAAATTTATTCGGTTACTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAATTAGTATTT
GTCTTTGTTTTATCTTTTGGTTGA
Found at i:153872 original size:42 final size:42
Alignment explanation
Indices: 153803--153891 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
153793 GACTCGCCTG
*
153803 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCATCGTTGAAGAGGCCCCTA
* * * * * *
153845 TCATTCCTCGAGAGTCCCCTCCCATCGTTTAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCATCGTTGAAGAGGCCCCTA
153887 TCATC
1 TCATC
153892 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCATCGTTGAAGAGGCCCCTA
Found at i:156489 original size:24 final size:24
Alignment explanation
Indices: 156455--156508 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
156445 CTGAAACATC
*
156455 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
156479 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
156503 ATCAAA
1 ATCAAA
156509 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:157350 original size:21 final size:21
Alignment explanation
Indices: 157281--157353 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
157271 TTTTCCTAAT
* *
157281 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTAGAAAA
* *
157301 TCGCAATACGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
157322 TCGCAATGCGAATTTAGAAAA
1 TCGCAATGCGAATTTAGAAAA
157343 TCGCAATGCGA
1 TCGCAATGCGA
157354 TACTGACTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 11 0.24
21 35 0.76
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGAAAA
Found at i:157375 original size:20 final size:20
Alignment explanation
Indices: 157342--157420 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
157332 AATTTAGAAA
* *
157342 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
157362 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
157383 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* * *
157403 TTCACAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
157421 AAATCGCAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 29 0.62
21 14 0.30
22 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:157738 original size:20 final size:20
Alignment explanation
Indices: 157643--157730 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
157633 CAACGGGGAA
157643 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
157663 ATCGCAACGCGAAACTGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
157683 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
157703 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
157723 ATCGCAAC
1 ATCGCAAC
157731 TAGAAAATCG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 4 0.07
20 45 0.83
21 5 0.09
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:157781 original size:14 final size:14
Alignment explanation
Indices: 157762--157815 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
157752 GAAAATCGCA
157762 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
157776 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
157793 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
157809 TTGCGAT
1 TTGCGAT
157816 AGTCTGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:157781 original size:33 final size:33
Alignment explanation
Indices: 157744--157814 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
157734 AAAATCGTAA
157744 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
157777 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
157810 TGCGA
1 TGCGA
157815 TAGTCTGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:157961 original size:14 final size:14
Alignment explanation
Indices: 157942--157978 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
157932 CAGCAATTAA
157942 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
157956 ACAAATCATCTTTT
1 ACAAATCAACATTT
157970 ACAAATCAA
1 ACAAATCAA
157979 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:159421 original size:21 final size:20
Alignment explanation
Indices: 159397--159456 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
159387 AACGGTGGGG
159397 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
159418 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
159439 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
159457 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:159878 original size:19 final size:20
Alignment explanation
Indices: 159823--159890 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
159813 GAAACTTAAA
* *
159823 ATCGTAACGCGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
159843 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* **
159863 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
159882 ATCGCAACG
1 ATCGCAACG
159891 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:159898 original size:14 final size:14
Alignment explanation
Indices: 159879--159969 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
159869 ATGCGAAATG
159879 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
159893 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
159912 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
159926 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
159942 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
159958 AAAATCGCAACG
1 AAAATCGCAACG
159970 CGAAATACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 9 0.15
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:159955 original size:32 final size:33
Alignment explanation
Indices: 159863--159985 Score: 205
Period size: 33 Copynumber: 3.8 Consensus size: 33
159853 GGAAATGGCT
159863 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
159896 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
159929 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
159961 ATCGCAACGCGAAAT-ACAAATCGCA
1 ATCGCAATGCGAAATGA-AAATCGCA
159986 TTTTGATTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
32 29 0.34
33 56 0.66
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:160022 original size:14 final size:14
Alignment explanation
Indices: 160003--160061 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
159993 TTTCATTTCG
160003 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
160017 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
160034 CACATTGCGATTTTGT
1 --CGTTGCGATTTTGT
160050 CGTTGCGATTTT
1 CGTTGCGATTTT
160062 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 19 0.53
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 7 0.19
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:160032 original size:33 final size:33
Alignment explanation
Indices: 159990--160077 Score: 158
Period size: 33 Copynumber: 2.7 Consensus size: 33
159980 ATCGCATTTT
*
159990 GATTTTCATTTCGCGTTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
*
160023 GATTTTCATTTCACATTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
160056 GATTTTCATTTCGCATTGCGAT
1 GATTTTCATTTCGCATTGCGAT
160078 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (33 bp):
GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
Found at i:160096 original size:20 final size:19
Alignment explanation
Indices: 160062--160116 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
160052 TTGCGATTTT
*
160062 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
160081 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
160101 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
160117 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:160332 original size:21 final size:21
Alignment explanation
Indices: 160308--160350 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
160298 ATTCTACAAC
160308 GATGCTACCATCTCACGTAGA
1 GATGCTACCATCTCACGTAGA
160329 GATGCTACCATCTCACGTAGA
1 GATGCTACCATCTCACGTAGA
160350 G
1 G
160351 CGGCTACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
GATGCTACCATCTCACGTAGA
Found at i:160356 original size:21 final size:21
Alignment explanation
Indices: 160311--160358 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
160301 CTACAACGAT
*
160311 GCTACCATCTCACGTAGAGAT
1 GCTACCATCTCACGTAGAGAG
*
160332 GCTACCATCTCACGTAGAGCG
1 GCTACCATCTCACGTAGAGAG
160353 GCTACC
1 GCTACC
160359 TCACCGCGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (21 bp):
GCTACCATCTCACGTAGAGAG
Found at i:160645 original size:18 final size:18
Alignment explanation
Indices: 160619--160663 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
160609 GTCGATCAGA
*
160619 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
160637 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
160655 TGATGGCTC
1 TGATGGCTC
160664 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:162009 original size:20 final size:20
Alignment explanation
Indices: 161984--162021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
161974 AATAGTTTCT
161984 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
162004 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
162022 GCAAATTTGA
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:162329 original size:22 final size:22
Alignment explanation
Indices: 162302--162345 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
162292 GATGGAGATA
162302 GACGGATCTCGCCGGAGATGGG
1 GACGGATCTCGCCGGAGATGGG
* *
162324 GACGGATTTCGTCGGAGATGGG
1 GACGGATCTCGCCGGAGATGGG
162346 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.18
Consensus pattern (22 bp):
GACGGATCTCGCCGGAGATGGG
Found at i:162576 original size:41 final size:41
Alignment explanation
Indices: 162513--162626 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
162503 CGCTTTGAAA
* *
162513 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAAT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAAT
* * * *
162554 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAAT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAAT
*
162595 ATCGCATTGCGA-TA-GTCAGTATCGCATTGCGA
1 ATCGCATTGCGATTATGT-ATTATCGCATTGCGA
162627 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 15 0.24
41 45 0.73
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAAT
Found at i:162599 original size:20 final size:20
Alignment explanation
Indices: 162574--162627 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
162564 GATTTTGTAT
162574 TATCGCATTGCGATAGTAAA
1 TATCGCATTGCGATAGTAAA
* *
162594 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAA
162614 TATCGCATTGCGAT
1 TATCGCATTGCGAT
162628 TTTCCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAA
Found at i:162612 original size:61 final size:62
Alignment explanation
Indices: 162513--162630 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 62
162503 CGCTTTGAAA
* * * *
162513 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAATATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAATATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTGTATT
* *
162575 ATCGCATTGCGA-TA-GTAAATATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGATTATGT-AATATCGCATTGCGAAAGTCAATATCGCATTGCGATTTT
162631 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 2 0.04
61 35 0.71
62 12 0.24
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAATATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTGTATT
Found at i:173328 original size:12 final size:12
Alignment explanation
Indices: 173286--173378 Score: 69
Period size: 12 Copynumber: 7.8 Consensus size: 12
173276 TGAATGTTTT
* *
173286 ATCTTATTTCCG
1 ATCTGATTTCTG
* *
173298 ATTTGAATTCTG
1 ATCTGATTTCTG
* *
173310 TTCTGATTTATG
1 ATCTGATTTCTG
173322 ATCTGATTTCTG
1 ATCTGATTTCTG
* *
173334 TTCTGATTTCTT
1 ATCTGATTTCTG
* *
173346 ATCTGAATTATG
1 ATCTGATTTCTG
* *
173358 TTCTGATATCTG
1 ATCTGATTTCTG
*
173370 ATATGATTT
1 ATCTGATTT
173379 TTGTTCTAAT
Statistics
Matches: 58, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.53
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:173332 original size:24 final size:24
Alignment explanation
Indices: 173291--173395 Score: 102
Period size: 24 Copynumber: 4.4 Consensus size: 24
173281 GTTTTATCTT
* * *
173291 ATTTCCGATTTGAATTCTGTTCTG
1 ATTTCTGATCTGATTTCTGTTCTG
*
173315 ATTTATGATCTGATTTCTGTTCTG
1 ATTTCTGATCTGATTTCTGTTCTG
* * *
173339 ATTTCTTATCTGAATTATGTTCTG
1 ATTTCTGATCTGATTTCTGTTCTG
* * * *
173363 ATATCTGATATGATTTTTGTTCTA
1 ATTTCTGATCTGATTTCTGTTCTG
*
173387 ATATCTGAT
1 ATTTCTGAT
173396 ATCTCCATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.52
Consensus pattern (24 bp):
ATTTCTGATCTGATTTCTGTTCTG
Found at i:173667 original size:152 final size:154
Alignment explanation
Indices: 173419--173714 Score: 452
Period size: 152 Copynumber: 1.9 Consensus size: 154
173409 TGATGAAAAT
* * *
173419 ATGTTTTATTTGGGGGGTATTATTGGAGGAAGTATATATGCAGACTCCTCGGCTTTGTGCTCAGG
1 ATGTTTTATTTGGGGGGTATTATTGGAGGAAG-ATATATGAAGACTCATCGGCATTGTGCTCAGG
* * *
173484 GTCTTACTGTTGTGCCAGAGTTGTATGGTTCTGGGGAACCTATACATTAT-GATGTGTTCAGTTG
65 GCCTTACTGTTGTGCAAGAGGTGTATGGTTCTGGGGAACCTATACATTATGGATGTGTTCAGTTG
* *
173548 AGGGATTTACTATGGTTTTTGATAA
130 AGAGAATTACTATGGTTTTTGATAA
* * *
173573 ATGTTTTATTTGGGGGGTATTGTTGGAGGAAG-TATATGAAGGCTCATCGGCATTGTGCTTAGGG
1 ATGTTTTATTTGGGGGGTATTATTGGAGGAAGATATATGAAGACTCATCGGCATTGTGCTCAGGG
* *
173637 CCTTACTGTTGTGCAAGGGGTGTATGGTTCTGGGGAACCTATACATTATGGATGTGTTCGGTTGA
66 CCTTACTGTTGTGCAAGAGGTGTATGGTTCTGGGGAACCTATACATTATGGATGTGTTCAGTTGA
173702 GAGAATTACTATG
131 GAGAATTACTATG
173715 ATTTCTGAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
152 72 0.56
153 25 0.20
154 31 0.24
ACGTcount: A:0.21, C:0.11, G:0.31, T:0.37
Consensus pattern (154 bp):
ATGTTTTATTTGGGGGGTATTATTGGAGGAAGATATATGAAGACTCATCGGCATTGTGCTCAGGG
CCTTACTGTTGTGCAAGAGGTGTATGGTTCTGGGGAACCTATACATTATGGATGTGTTCAGTTGA
GAGAATTACTATGGTTTTTGATAA
Found at i:181710 original size:29 final size:29
Alignment explanation
Indices: 181677--181732 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
181667 AAAATCAATC
*
181677 TTCAAATTTGAGTAATCAAATTAAAAAAA
1 TTCAAAGTTGAGTAATCAAATTAAAAAAA
* *
181706 TTCAAAGTTGAGTAATTAAATTGAAAA
1 TTCAAAGTTGAGTAATCAAATTAAAAA
181733 GTGTAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (29 bp):
TTCAAAGTTGAGTAATCAAATTAAAAAAA
Found at i:189036 original size:29 final size:29
Alignment explanation
Indices: 188994--189053 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
188984 TTTACCATTA
*
188994 AGCATTTACCTCATCTTGGTAAATTTCTT
1 AGCAGTTACCTCATCTTGGTAAATTTCTT
*
189023 AGCAGTTATCTCATCTTGGTAAATTTCTT
1 AGCAGTTACCTCATCTTGGTAAATTTCTT
189052 AG
1 AG
189054 GTTCTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (29 bp):
AGCAGTTACCTCATCTTGGTAAATTTCTT
Found at i:190234 original size:2 final size:2
Alignment explanation
Indices: 190227--190295 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
190217 TTCTTAGAAT
190227 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
190269 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
190296 GGGTTTGTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:193922 original size:71 final size:71
Alignment explanation
Indices: 193782--193924 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
193772 TTCTTTAAAT
* *
193782 TCTCTAGGATTAATCAAAAAGTTCTGATCAATTGTTGTGTTTTAGTTAAGATTAACTCATGACGC
1 TCTCTAGGATTAATCAAAAAGTTCTGAACAATTGTTGTGTTTTAGTTAAGATTAACTCATAACGC
193847 GTGTCA
66 GTGTCA
* * **
193853 TCTCTAGGATTTATTAAAAAGTTCTGAACAATTGTTGTGTTGTT-GTTAAGATTAACTTTTAACG
1 TCTCTAGGATTAATCAAAAAGTTCTGAACAATTGTTGTGTT-TTAGTTAAGATTAACTCATAACG
*
193917 TGTGTCA
65 CGTGTCA
193924 T
1 T
193925 TTCTTTAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 62 0.97
72 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (71 bp):
TCTCTAGGATTAATCAAAAAGTTCTGAACAATTGTTGTGTTTTAGTTAAGATTAACTCATAACGC
GTGTCA
Found at i:197274 original size:21 final size:21
Alignment explanation
Indices: 197226--197305 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
197216 TTATTCAATA
* *
197226 AACTTGACATCCATAACAAACA
1 AACTTGAAATCCATAAC-AACC
*
197248 AACTTGAAATCTATAACAACC
1 AACTTGAAATCCATAACAACC
*
197269 AACTTGAAATCTATAACAACC
1 AACTTGAAATCCATAACAACC
*
197290 AGCTTGAAATCCATAA
1 AACTTGAAATCCATAA
197306 TAATAAATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 38 0.72
22 15 0.28
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (21 bp):
AACTTGAAATCCATAACAACC
Found at i:201342 original size:81 final size:81
Alignment explanation
Indices: 201156--201647 Score: 402
Period size: 81 Copynumber: 6.1 Consensus size: 81
201146 ATAGTGACAT
* * * * * ** **
201156 TTTTAACATAAACGCCACTATATATCAGGCTATTGCGGTGTTTTTAACATAAATTCCACTAAAGT
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAGCATTTTT-ACATAAACGCCACTAAAGT
* * *
201221 ACTCGTACTTTAGTGGCG
65 ACGCGT-TTTTAGCGGCG
* * *
201239 TTTACACAAAAATGCCAC--TATATCTGGCTATAGTAGCATTTTTACATAAACGCCACTAAAGTA
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAGCATTTTTACATAAACGCCACTAAAGTA
* * *
201302 CACGTTTTTAACGACG
66 CGCGTTTTTAGCGGCG
* * * *
201318 TTTTCAAAAAAATGCAACTATATATCTGTCTATAGC-GACATTTTTTACATAAACGCCACTAAAG
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAG-CA-TTTTTACATAAACGCCACTAAAG
* *
201382 TATGCCTTTTTAGCGGCG
64 TACGCGTTTTTAGCGGCG
* * * * * *
201400 TTTTCACATAAACACCACTATATATTTGGCTATAGCAGCGTTGTTTACATAAATG-CACAAAAGT
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAGCATT-TTTACATAAACGCCACTAAAGT
** * **
201464 GTGTGTTTTTAGCGGAA
65 ACGCGTTTTTAGCGGCG
* * * * * ** * *
201481 TTTTCACAAAAACGCCACGACATATCTGGATATAACGGTGTTTTTACATAAACGCTATTAAAGT-
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAGCATTTTTACATAAACGCCACTAAAGTA
*
201545 -GTGTTTTTAGCGGCG
66 CGCGTTTTTAGCGGCG
* * * **
201560 TTTTCATAAAAACGTCACTATATATCTGACTATAGTGGCATTTTTTTACATAAACGCCACTAAAG
1 TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAGCA--TTTTTACATAAACGCCACTAAAG
* * *
201625 TACGTGTTTCTAGCGGTG
64 TACGCGTTTTTAGCGGCG
201643 TTTTC
1 TTTTC
201648 TTACAAACAG
Statistics
Matches: 327, Mismatches: 71, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
79 65 0.20
80 34 0.10
81 118 0.36
82 77 0.24
83 33 0.10
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (81 bp):
TTTTCACAAAAACGCCACTATATATCTGGCTATAGCAGCATTTTTACATAAACGCCACTAAAGTA
CGCGTTTTTAGCGGCG
Found at i:203880 original size:53 final size:53
Alignment explanation
Indices: 203822--203932 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
203812 ACCAACCATT
*
203822 CATCACTATCATTTCATCCAAGTTTTAAACACCACAATCACTATAAACGACTA
1 CATCACTATCATTTCATCCAAGTTTTAAACACCACAATCACTATAAACAACTA
*
203875 CATCACTATCATTTCATCTAAGTTTTAAACACCACAATCACTATAAACAACTA
1 CATCACTATCATTTCATCCAAGTTTTAAACACCACAATCACTATAAACAACTA
203928 CATCA
1 CATCA
203933 ATCTCGAGTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.29
Consensus pattern (53 bp):
CATCACTATCATTTCATCCAAGTTTTAAACACCACAATCACTATAAACAACTA
Found at i:204942 original size:44 final size:45
Alignment explanation
Indices: 204889--204977 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 45
204879 CAGCTCGTAA
*
204889 TTTGCACCGAAGTGCCACATA-ACTGTCCCGAAGGACCACATAGG
1 TTTGCACCGAAGTACCACATAGACTGTCCCGAAGGACCACATAGG
* **
204933 TTTGCACCGAAGTACGACATAGGTTTGTCCCGAAGGACCACATAG
1 TTTGCACCGAAGTACCACATA-GACTGTCCCGAAGGACCACATAG
204978 AACCCTCGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 19 0.49
46 20 0.51
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (45 bp):
TTTGCACCGAAGTACCACATAGACTGTCCCGAAGGACCACATAGG
Found at i:204952 original size:23 final size:23
Alignment explanation
Indices: 204912--204977 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
204902 GCCACATAAC
204912 TGTCCCGAAGGACCACATAGGTT
1 TGTCCCGAAGGACCACATAGGTT
* *
204935 TG-CACCGAAGTACGACATAGGTT
1 TGTC-CCGAAGGACCACATAGGTT
204958 TGTCCCGAAGGACCACATAG
1 TGTCCCGAAGGACCACATAG
204978 AACCCTCGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
TGTCCCGAAGGACCACATAGGTT
Done.