Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005384.1 Hibiscus syriacus cultivar Beakdansim tig00012323_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: 242709
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:106 original size:18 final size:18
Alignment explanation
Indices: 83--128 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
73 TGGTTCATCT
* *
83 GTTCGTTTGTACAGGACG
1 GTTCGTTGGTACAAGACG
101 GTTCGTTGGTACAAGACG
1 GTTCGTTGGTACAAGACG
*
119 ATTCGTTGGT
1 GTTCGTTGGT
129 TATCGCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (18 bp):
GTTCGTTGGTACAAGACG
Found at i:857 original size:17 final size:17
Alignment explanation
Indices: 826--865 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
816 ATTCTAAAGG
*
826 AATTAACATATGATTATA
1 AATT-ACATAGGATTATA
844 AATTACATAGGATTATA
1 AATTACATAGGATTATA
861 AATTA
1 AATTA
866 GTTAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (17 bp):
AATTACATAGGATTATA
Found at i:4272 original size:4 final size:4
Alignment explanation
Indices: 4263--4291 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
4253 TCACAATTTA
4263 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
4292 AAGGGAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:8123 original size:147 final size:141
Alignment explanation
Indices: 7862--8155 Score: 534
Period size: 147 Copynumber: 2.0 Consensus size: 141
7852 GATATCCCAC
7862 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAAACTAGTTCCA
1 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAAACTAGTTCCA
7927 TCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTGAAATGC
66 TCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTGAAATGC
7992 TTTAATTGCAA
131 TTTAATTGCAA
8003 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAAAAAAAAACTA
1 CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGC------AAAAAAAAAAACTA
8068 GTTCCATCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTG
60 GTTCCATCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTG
8133 AAATGCTTTAATTGCAA
125 AAATGCTTTAATTGCAA
8150 CAATAA
1 CAATAA
8156 CAACAATAGA
Statistics
Matches: 147, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
141 45 0.31
147 102 0.69
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (141 bp):
CAATAAATAGCTTCCCATTCTCGAGCATCTTTCTTTCTACATTGCAAAAAAAAAAACTAGTTCCA
TCAGTACGAAGTCCAAACTATCTCGAAATAGAAAGCCAAATCAATTGTTTGATTCAGTGAAATGC
TTTAATTGCAA
Found at i:10834 original size:14 final size:14
Alignment explanation
Indices: 10817--10844 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10807 TTCCATCTCC
10817 AAGATTCCAAACAA
1 AAGATTCCAAACAA
10831 AAGATTCCAAACAA
1 AAGATTCCAAACAA
10845 TGTCATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
AAGATTCCAAACAA
Found at i:12484 original size:20 final size:21
Alignment explanation
Indices: 12447--12485 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
12437 TAAGAGGATG
*
12447 AATAAGAAAGAAATAAAGGTT
1 AATAAGAAAGAAAGAAAGGTT
*
12468 AATAAG-AAGAACGAAAGG
1 AATAAGAAAGAAAGAAAGG
12486 AAGCATCGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (21 bp):
AATAAGAAAGAAAGAAAGGTT
Found at i:12522 original size:35 final size:34
Alignment explanation
Indices: 12476--12581 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 34
12466 TTAATAAGAA
* *
12476 GAACGAAAGGAAGCATCGACATTTTCGATTCAAGT
1 GAACGGAAGGAAGCATCG-CACTTTCGATTCAAGT
**
12511 GAACGGAAGGAAATATCGGCACTTTCGATTCAAGT
1 GAACGGAAGGAAGCATC-GCACTTTCGATTCAAGT
* *
12546 CGAACGGAAGGAGGCGTCGCACTTTCGATTCAAGT
1 -GAACGGAAGGAAGCATCGCACTTTCGATTCAAGT
12581 G
1 G
12582 TTCATCTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
34 1 0.02
35 46 0.75
36 14 0.23
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (34 bp):
GAACGGAAGGAAGCATCGCACTTTCGATTCAAGT
Found at i:14382 original size:3 final size:3
Alignment explanation
Indices: 14374--14414 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
14364 TCAAATTAAA
14374 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14415 TAATACTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:19339 original size:139 final size:140
Alignment explanation
Indices: 19089--19423 Score: 446
Period size: 139 Copynumber: 2.4 Consensus size: 140
19079 GGGTTTTATT
* * * * * *
19089 TTAATTATTTGATTCAATAAATTCTTAAAATTTG-TTAGGTCTTAATGTTAGAGTCTTCACCTTA
1 TTAATTATTCGATTCAATAAATTGTTAAAA-TTGATTAGGTTTTAATATTAGAGCCTTCACATTA
* * * * * *
19153 GTTTTGATTTCACTTTAGTTCTTCAATTTAGGTGAATTTTTAATTTGGTCTTTA-CGTTTTG-TC
65 GTTTTAATTTCACTTTAGTCCTTCAATTTACGTGAATTTTTAATTTGGTCATCATCATTTTGCTC
19216 TGAGATTCCAAG
130 -GAGATTCCAAG
*
19228 TTAATTATTCGATTCAATAATTTGTTAAAATTGATTAGGTTTTAATATTAGAGCCTTCACATTAG
1 TTAATTATTCGATTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGCCTTCACATTAG
*
19293 TTTTAATTTCA-TCTTAGTCCTTTAATTTACGTGAATTTTTAATTTGGTCATCATCATTTTGCTC
66 TTTTAATTTCACT-TTAGTCCTTCAATTTACGTGAATTTTTAATTTGGTCATCATCATTTTGCTC
*
19357 GAGGTTCCAAG
130 GAGATTCCAAG
* *
19368 TTAGTTATTC-ATTTCAATAAGTTGTTAAAATTGATTAGGTTTTAATATTAGAGCCT
1 TTAATTATTCGA-TTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGCCT
19424 ACATGTTATG
Statistics
Matches: 174, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
138 4 0.02
139 100 0.57
140 68 0.39
141 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (140 bp):
TTAATTATTCGATTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGCCTTCACATTAG
TTTTAATTTCACTTTAGTCCTTCAATTTACGTGAATTTTTAATTTGGTCATCATCATTTTGCTCG
AGATTCCAAG
Found at i:21086 original size:20 final size:19
Alignment explanation
Indices: 21063--21109 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
21053 CGATATTCCA
21063 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
21083 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
21103 GGTAAAA
1 GGTAAAA
21110 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:21186 original size:181 final size:182
Alignment explanation
Indices: 20851--21324 Score: 664
Period size: 182 Copynumber: 2.6 Consensus size: 182
20841 GATCCAAATT
* * * * **
20851 AAAAATGTGTCGATCCAAAACGATATAACAGATAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * * * *
20916 AAACCGGTAAAGCGCTACCAGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTA
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTA
* *
20981 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
** * *
21033 AAAAATGTATCGATCCAAAACGATATTCCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* *
21098 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTA
** *
21162 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
21214 AAAATATATATCGATCCACAACGATATAACATGTAAAAATATGATAAAA-CATGTATCAAAATGA
1 AAAA-ATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCA-GTATCAAAATGA
* *
21278 TAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGCTACTTT
64 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
21325 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
181 70 0.27
182 188 0.73
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTA
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:21277 original size:20 final size:20
Alignment explanation
Indices: 21236--21283 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21226 GATCCACAAC
*
21236 GATATAACATGTAAAAATAT
1 GATAAAACATGTAAAAATAT
*
21256 GATAAAACATGTATCAAA-AT
1 GATAAAACATGTA-AAAATAT
21276 GATAAAAC
1 GATAAAAC
21284 CGGTAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.25
Consensus pattern (20 bp):
GATAAAACATGTAAAAATAT
Found at i:23546 original size:21 final size:21
Alignment explanation
Indices: 23520--23584 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
23510 AAGACAATCA
*
23520 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
23541 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
23562 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
23583 AG
1 AG
23585 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:23660 original size:33 final size:33
Alignment explanation
Indices: 23618--23683 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
23608 AAATAAATGG
*
23618 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
23651 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
23684 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:25502 original size:19 final size:19
Alignment explanation
Indices: 25478--25526 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
25468 AATGTAGGGT
25478 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
25497 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
25516 TAATTTTGTAT
1 TAATTTTGTAT
25527 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:25988 original size:200 final size:200
Alignment explanation
Indices: 25639--26621 Score: 1619
Period size: 200 Copynumber: 4.9 Consensus size: 200
25629 AATTTACAAT
* * * *
25639 ATGGCCAACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATTCCAAAAATAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* * *
25704 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTTCAAGTATATCAGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
25769 ATGAGAGAATATGTCTAAATAATTTGTCTACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
25834 AATGA
196 AATGA
* *
25839 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
25904 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
25969 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
26034 AATGA
196 AATGA
* *
26039 ATGGCCAATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
26104 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
26169 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTAGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
*
26234 AATTA
196 AATGA
* * *
26239 ATGGCAAATAGGGTACAACCGTAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
26304 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
26369 ATGAGATAATAGGTCTAAATAATGTGTCAACACTGTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
26434 AATGA
196 AATGA
* * * *
26439 ATGGCAAACAGGCTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* *
26504 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
** * * * *
26569 ATGAGAGAATCGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 ATGAGAGAATATGTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
26622 CTAATTTAAA
Statistics
Matches: 742, Mismatches: 39, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
200 735 0.99
201 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:28096 original size:6 final size:6
Alignment explanation
Indices: 28085--28184 Score: 85
Period size: 6 Copynumber: 16.7 Consensus size: 6
28075 CAAGCGGTCA
* * * *
28085 ATGAAG ATGAAG ATGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
28133 ATGACG ATGAA- ACTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG
1 ATGAAG ATGAAG A-TGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
28181 ATGA
1 ATGA
28185 TCCAAACAAG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
5 1 0.01
6 77 0.97
7 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.32, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:28185 original size:12 final size:12
Alignment explanation
Indices: 28085--28184 Score: 121
Period size: 12 Copynumber: 8.3 Consensus size: 12
28075 CAAGCGGTCA
*
28085 ATGAAGATGAAG
1 ATGACGATGAAG
28097 ATGACGATGAAG
1 ATGACGATGAAG
28109 ATGACGATGAAG
1 ATGACGATGAAG
*
28121 ATGACGATGATG
1 ATGACGATGAAG
28133 ATGACGATGAA-
1 ATGACGATGAAG
28144 ACTGACGATGAAG
1 A-TGACGATGAAG
* * *
28157 ATGATGACGATG
1 ATGACGATGAAG
* *
28169 ATGATGATGATG
1 ATGACGATGAAG
28181 ATGA
1 ATGA
28185 TCCAAACAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
11 1 0.01
12 77 0.97
13 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.32, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:29738 original size:183 final size:183
Alignment explanation
Indices: 29401--30037 Score: 1136
Period size: 183 Copynumber: 3.5 Consensus size: 183
29391 CAAAGTTTTC
* *
29401 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * *
29465 TAAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
65 TCAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
29528 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
29585 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
29650 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
29715 AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
29768 ACACTTTTTAATATTATGTCGGTACTTTATGCCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
29833 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
29898 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
29951 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
30016 CAAAAAGTGTCGACATTTACAC
66 CAAAAAGTGTCGACATTTACAC
30038 TTTCGAAAAA
Statistics
Matches: 437, Mismatches: 13, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
183 366 0.84
184 68 0.16
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:39291 original size:31 final size:30
Alignment explanation
Indices: 39256--39331 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
39246 TTCATGTCTT
39256 TTTTTTCTCTCTCTTTTTCTTTCGAACTGC-C
1 TTTTTT-TCTCTCTTTTT-TTTCGAACTGCTC
* *
39287 TTTTTTT-TC-CTTTTTTTTCGAATTGCTGT
1 TTTTTTTCTCTCTTTTTTTTCGAACTGCT-C
*
39316 TTTTTTTCTTTCTTTT
1 TTTTTTTCTCTCTTTT
39332 ATTCAACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 10 0.26
28 6 0.16
29 9 0.24
30 2 0.05
31 11 0.29
ACGTcount: A:0.05, C:0.20, G:0.07, T:0.68
Consensus pattern (30 bp):
TTTTTTTCTCTCTTTTTTTTCGAACTGCTC
Found at i:39308 original size:27 final size:27
Alignment explanation
Indices: 39268--39331 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
39258 TTTTCTCTCT
39268 CTTTTTCTTTCGAACTGCCT-TTTTTTTC
1 CTTTTT-TTTCGAACTG-CTGTTTTTTTC
* *
39296 CTTTTTTTTCGAATTGCTGTTTTTTTT
1 CTTTTTTTTCGAACTGCTGTTTTTTTC
*
39323 CTTTCTTTT
1 CTTTTTTTT
39332 ATTCAACATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 24 0.75
28 6 0.19
ACGTcount: A:0.06, C:0.19, G:0.08, T:0.67
Consensus pattern (27 bp):
CTTTTTTTTCGAACTGCTGTTTTTTTC
Found at i:40258 original size:12 final size:12
Alignment explanation
Indices: 40237--40270 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
40227 GATCGAAATG
40237 AAAAAT-AAAAC
1 AAAAATAAAAAC
40248 AAAAATAAAAAC
1 AAAAATAAAAAC
40260 AAAAATAAAAA
1 AAAAATAAAAA
40271 TGTAATGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:48377 original size:23 final size:21
Alignment explanation
Indices: 48343--48399 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
48333 AGCCTAAAAT
* *
48343 GAAGCAGAGAGAGCAGCA-ACG
1 GAAGCACAGAGAGAAGCAGA-G
48364 GAAGCACAGAGAGAAGCAGAG
1 GAAGCACAGAGAGAAGCAGAG
48385 GAAGCACAGAGAGAA
1 GAAGCACAGAGAGAA
48400 ACAACATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.37, T:0.00
Consensus pattern (21 bp):
GAAGCACAGAGAGAAGCAGAG
Found at i:48379 original size:12 final size:12
Alignment explanation
Indices: 48364--48399 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
48354 AGCAGCAACG
48364 GAAGCACAGAGA
1 GAAGCACAGAGA
48376 GAAG--CAGAG-
1 GAAGCACAGAGA
48385 GAAGCACAGAGA
1 GAAGCACAGAGA
48397 GAA
1 GAA
48400 ACAACATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 4 0.19
10 5 0.24
11 5 0.24
12 7 0.33
ACGTcount: A:0.50, C:0.14, G:0.36, T:0.00
Consensus pattern (12 bp):
GAAGCACAGAGA
Found at i:48848 original size:43 final size:42
Alignment explanation
Indices: 48793--48949 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
48783 CTTAAAACCC
* *
48793 CGCTTTATACCAGACCTTTTACGGCGTTTATAAGAAAAAATGT
1 CGCTATATACCAGACCTTTTACGGCGTTTATATG-AAAAATGT
* * * * *
48836 CACTATATACCAGACCTTTTGCGGCGTTTATATGAGAAACGC
1 CGCTATATACCAGACCTTTTACGGCGTTTATATGAAAAATGT
* * *
48878 CGCTATATACCAGACC-TTTAGCGGTGTTTGTATCTAAAAATGT
1 CGCTATATACCAGACCTTTTA-CGGCGTTTATAT-GAAAAATGT
* * *
48921 CGTTATATACCAGATCTTTTACGGTGTTT
1 CGCTATATACCAGACCTTTTACGGCGTTT
48950 GTATCCGAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.03
42 30 0.32
43 57 0.61
44 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (42 bp):
CGCTATATACCAGACCTTTTACGGCGTTTATATGAAAAATGT
Found at i:48895 original size:85 final size:85
Alignment explanation
Indices: 48787--48949 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
48777 TGTATCCTTA
* *
48787 AAACCCCGCTTTATACCAGACCTTTTA-CGGCGTTTATAAGAAAAAATGTCACTATATACCAGAC
1 AAACCCCGCTATATACCAGACC-TTTAGCGGCGTTTATAACAAAAAATGTCACTATATACCAGAC
*
48851 CTTTTGCGGCGTTTATATGAG
65 CTTTTACGGCGTTTATATGAG
* * * * * ** *
48872 AAACGCCGCTATATACCAGACCTTTAGCGGTGTTTGTATCTAAAAATGTCGTTATATACCAGATC
1 AAACCCCGCTATATACCAGACCTTTAGCGGCGTTTATAACAAAAAATGTCACTATATACCAGACC
*
48937 TTTTACGGTGTTT
66 TTTTACGGCGTTT
48950 GTATCCGAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 4 0.06
85 61 0.94
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (85 bp):
AAACCCCGCTATATACCAGACCTTTAGCGGCGTTTATAACAAAAAATGTCACTATATACCAGACC
TTTTACGGCGTTTATATGAG
Found at i:49178 original size:32 final size:32
Alignment explanation
Indices: 49086--49166 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
49076 TTGTGAGAAA
*
49086 AAACGCCGCTAAATCTCAACACCTATTACAAC
1 AAACGCCGCTAAATCTCAACACCTATTGCAAC
49118 AAACGCCGCTAAATCTCAACACCTATTGCAAC
1 AAACGCCGCTAAATCTCAACACCTATTGCAAC
*
49150 AAACGCCGCTATATCTC
1 AAACGCCGCTAAATCTC
49167 GTTACCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.37, C:0.35, G:0.09, T:0.20
Consensus pattern (32 bp):
AAACGCCGCTAAATCTCAACACCTATTGCAAC
Found at i:49489 original size:3 final size:3
Alignment explanation
Indices: 49481--49542 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
49471 CTGGGTTTTA
* * *
49481 ATT ATT ATT TTT ATT ATA ATTT ATT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
*
49527 ATT ATAT ATT AAT ATT
1 ATT AT-T ATT ATT ATT
49543 TATTTATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 44 0.90
4 5 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:49522 original size:28 final size:28
Alignment explanation
Indices: 49481--49542 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
49471 CTGGGTTTTA
* *
49481 ATTATTATTTTTATTATAATT-TATTATT
1 ATTATTACTATTATTATAATTATA-TATT
*
49509 ATTATTACTATTATTATTATTATATATT
1 ATTATTACTATTATTATAATTATATATT
*
49537 AATATT
1 ATTATT
49543 TATTTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTATTACTATTATTATAATTATATATT
Found at i:54106 original size:21 final size:21
Alignment explanation
Indices: 54080--54131 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
54070 AGATCAAATC
54080 AAAGCAAAGAAAAAAAGAAAA
1 AAAGCAAAGAAAAAAAGAAAA
*
54101 AAAGCAAAG-AGAAAAGAAAA
1 AAAGCAAAGAAAAAAAGAAAA
*
54121 AAGAGAAAAGA
1 AA-AGCAAAGA
54132 GAAGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAGCAAAGAAAAAAAGAAAA
Found at i:54123 original size:14 final size:14
Alignment explanation
Indices: 54085--54131 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
54075 AAATCAAAGC
54085 AAAGAAAAAA-AGA
1 AAAGAAAAAAGAGA
54098 AAA-AAAGCAAAGAGA
1 AAAGAAA--AAAGAGA
54113 AAAGAAAAAAGAGA
1 AAAGAAAAAAGAGA
54127 AAAGA
1 AAAGA
54132 GAAGAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 15 0.50
15 6 0.20
16 3 0.10
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAGAGA
Found at i:56806 original size:36 final size:37
Alignment explanation
Indices: 56750--56864 Score: 112
Period size: 37 Copynumber: 3.2 Consensus size: 37
56740 CATCTCGCTA
* *
56750 GAGACAATTTTTCTT-GAAACAAA-ATTGATCTCACTT
1 GAGACAGTTTTTCTTAAAAACAAATATTG-TCTCACTT
** * *
56786 GAGATTG-TTTTCTTAAAAACAAATTTTGTCTCTCTT
1 GAGACAGTTTTTCTTAAAAACAAATATTGTCTCACTT
*
56822 GAGACAGTTTTTCTTAAAAACAAAT-TTCGTCACACTT
1 GAGACAGTTTTTCTTAAAAACAAATATT-GTCTCACTT
*
56859 TAGACA
1 GAGACA
56865 ATCTTCATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
35 7 0.11
36 25 0.39
37 32 0.50
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (37 bp):
GAGACAGTTTTTCTTAAAAACAAATATTGTCTCACTT
Found at i:56843 original size:37 final size:38
Alignment explanation
Indices: 56741--56848 Score: 116
Period size: 36 Copynumber: 2.9 Consensus size: 38
56731 ACAAAGCTTC
* * * * *
56741 ATCTCGCTAGAGACAATTTTTCTT-GAAACAAA-ATTG
1 ATCTCACTTGAGACAGTTTTTCTTAAAAACAAATTTTG
**
56777 ATCTCACTTGAGATTG-TTTTCTTAAAAACAAATTTTG
1 ATCTCACTTGAGACAGTTTTTCTTAAAAACAAATTTTG
*
56814 -TCTCTCTTGAGACAGTTTTTCTTAAAAACAAATTT
1 ATCTCACTTGAGACAGTTTTTCTTAAAAACAAATTT
56849 CGTCACACTT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
35 7 0.12
36 30 0.51
37 22 0.37
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (38 bp):
ATCTCACTTGAGACAGTTTTTCTTAAAAACAAATTTTG
Found at i:57186 original size:140 final size:139
Alignment explanation
Indices: 56933--57191 Score: 342
Period size: 140 Copynumber: 1.9 Consensus size: 139
56923 TTGAGACGTT
* * ** * *
56933 CTTATCACGTAGGAACAATGTCGTCCACCGACCAGATTTCCTCAACGCGTAGAAGTAGTATTATC
1 CTTATCACGTAGGAACAATGTCGTCCACCAACCAGATCTCCTCAACGCAAAGAAGCAGTATCATC
* * * * *
56998 CTCATGCAATCAGACTTCCTCATCACGTATGAACCGTGTTGTCTCCAAAGTTATCCCTAAAGAAG
66 ATCATGCAATCAGACATCCTCATCACATAAGAACCGTGTTGTCACCAAA-TTATCCCTAAAGAAG
57063 GCTAGACATC
130 GCTAGACATC
* * * *
57073 CTTATCACGTAGGAACAATGTCGTCCACCAACCATATCTCCTCAATGCAAAGGAGCAGTGTCA-C
1 CTTATCACGTAGGAACAATGTCGTCCACCAACCAGATCTCCTCAACGCAAAGAAGCAGTATCATC
57137 TATCA-GACAATCAGACATCCTCATCACATAAGAACCGTGTTGTCACCAAATTATC
66 -ATCATG-CAATCAGACATCCTCATCACATAAGAACCGTGTTGTCACCAAATTATC
57192 TTCAGATTGA
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
139 7 0.07
140 95 0.93
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (139 bp):
CTTATCACGTAGGAACAATGTCGTCCACCAACCAGATCTCCTCAACGCAAAGAAGCAGTATCATC
ATCATGCAATCAGACATCCTCATCACATAAGAACCGTGTTGTCACCAAATTATCCCTAAAGAAGG
CTAGACATC
Found at i:57439 original size:3 final size:3
Alignment explanation
Indices: 57431--57491 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
57421 CCGGGTTTTA
*
57431 ATT ATT ATT ATC ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
57478 ATT -TT ATT AAT ATT
1 ATT ATT ATT ATT ATT
57492 TATTTACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:61340 original size:6 final size:6
Alignment explanation
Indices: 61329--61365 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
61319 TTTTAATATA
*
61329 ATTTAT ATTTAT ATTTAT ATTTAT ATTAAT AATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT -ATTTAT
61366 TCATTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTAT
Found at i:62630 original size:2 final size:2
Alignment explanation
Indices: 62623--62664 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
62613 TTTAACCCTT
62623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
62665 TTTCCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62728 original size:2 final size:2
Alignment explanation
Indices: 62715--62745 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
62705 AATATTATTT
*
62715 TA TA TA TG 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 TA TA T
62746 TTCCTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62827 original size:13 final size:13
Alignment explanation
Indices: 62803--62848 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
62793 TATACATATA
62803 TATTTT-ATTTAT
1 TATTTTCATTTAT
62815 TATTTTCATTTAT
1 TATTTTCATTTAT
*
62828 TATATTCATCATTAT
1 TATTTTCAT--TTAT
62843 TATTTT
1 TATTTT
62849 ATTACTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 6 0.21
13 14 0.48
15 9 0.31
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTCATTTAT
Found at i:66784 original size:22 final size:24
Alignment explanation
Indices: 66756--66810 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
66746 TCTATTTTTT
*
66756 TTATTATTTTCTTTTTTA-CTATC
1 TTATTATTTTCTTTGTTATCTATC
*
66779 TT-TTATTTTTCTTTGTTATCTATT
1 TTATTA-TTTTCTTTGTTATCTATC
66803 TTATTATT
1 TTATTATT
66811 ATTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 13 0.48
24 8 0.30
25 3 0.11
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTATTTTCTTTGTTATCTATC
Found at i:66811 original size:3 final size:3
Alignment explanation
Indices: 66794--66842 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
66784 TTTTTCTTTG
66794 TTA TCTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
66838 ATA TT
1 TTA TT
66843 TTTTTCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:70634 original size:105 final size:105
Alignment explanation
Indices: 70445--72241 Score: 2485
Period size: 105 Copynumber: 17.3 Consensus size: 105
70435 CTCGAGAGTA
* ** * * * * *
70445 AATTTCAAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAA
1 AATTTC-AACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAA
* * * *
70509 GGGGCGGCTGATTGTCAACAAACACTTCCCAATTTCAGAGCC
64 GGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
* * *
70551 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
70616 GACCGCTGGTTGTCAACAAA-TTTTCCCGATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
70655 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
70720 GACCGCTGCTTGTCAACAATA-ATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-ACATTTCCCAATTTCAGAGCC
*
70760 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
70825 GACCGCTGGTTGTCAATAAAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTC-A-ACAAACATTTCCCAATTTCAGAGCC
*
70867 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
70932 AACCGCTGGTTGTCAACAAATATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
* * *
70972 AATCTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
71037 GACCGCTGCTTGTCAACAATA-ATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-ACATTTCCCAATTTCAGAGCC
*
71077 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71142 GACCGCTGGTTGTCAATAAA-A-----AAAATTC----CC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
71172 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
71237 GACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
*
71277 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71342 GACCGCTGGTTGTCAATAAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-CAAACATTTCCCAATTTCAGAGCC
71383 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
71448 GACCGCTGGTTGTCAA-TAA-A-----CAACTTC----CC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
* *
71477 AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71542 GACCGCTGGTTGTCAATAAACAATTTTCCAA-TTCTAGAGTC
66 GACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTC-AGAGCC
* *
71583 AATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71648 GACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCC
*
71689 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
71754 GACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCC
* * *
71795 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
71860 GACCGCTGGTTGTCAACAAA-TTTTCCCGATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
*
71899 AATTTCAACTTCACAGCGAAGGATATTGGACGCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71964 GACCGCTGCTTGTCAAC-AACAACTTCCCAATCTCAGAGCC
66 GACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCC
*
72004 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
72069 GACCGCTGCTTGTCAACAAA-ATTT--C-A-TTCAGAATC
66 GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
* * * * *
72104 AATTTCAACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* ** *
72169 GA-CGACTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCC
66 GACCG-CTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCC
*
72210 AATTTCAACTTCAC-GACGGAGGATATTGGACT
1 AATTTCAACTTCACAG-CGAAGGATATTGGACT
72242 TGGAACAATG
Statistics
Matches: 1529, Mismatches: 120, Indels: 84
0.88 0.07 0.05
Matches are distributed among these distances:
94 81 0.05
95 87 0.06
96 1 0.00
97 1 0.00
98 6 0.00
99 7 0.00
100 82 0.05
101 9 0.01
102 8 0.01
103 3 0.00
104 197 0.13
105 524 0.34
106 425 0.28
107 98 0.06
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCC
Found at i:70947 original size:212 final size:210
Alignment explanation
Indices: 70445--72241 Score: 2465
Period size: 212 Copynumber: 8.7 Consensus size: 210
70435 CTCGAGAGTA
* * * * * * *
70445 AATTTCAAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAA
1 AATTTC-AACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAA
* * * * *
70509 GGGGCGGCTGATTGTCAACAA-ACACTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
64 GGGACCGCTGGTTGTCAACAACA-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * * *
70573 ATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-AACAAAT
128 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAA
*
70637 TTTCCCGATTTCAGAGCC
193 TTTCCCAATTTCAGAGCC
*
70655 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * **
70720 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 GACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
70785 TTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAAAA
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-A-AAAAAAAT
70850 TTCCCAATTTCAGAGCC
194 TTCCCAATTTCAGAGCC
70867 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
70932 AACCGCTGGTTGTCAACAA-ATATTTCTCAATTTCAGAGCCAATCTCAACTTCACAGCGAAGGAT
66 GACCGCTGGTTGTCAACAACA-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * * * *
70996 ATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGCTTGTCAACAATAATT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAATT
**
71061 TCATAATTTCAGAGCC
195 TCCCAATTTCAGAGCC
* *
71077 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71142 GACCGCTGGTTGTCAATAA-AA-----AAAATTC----CCAATTTCAACTTCACAGCGAAGGATA
66 GACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
71197 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAATTT
*
71262 CTCAATTTCAGAGCC
196 CCCAATTTCAGAGCC
* *
71277 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71342 GACCGCTGGTTGTCAATAAAAAAATTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
66 GACCGCTGGTTGTCAA-CAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
*
71407 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC--AATAAA--
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAATT
*
71468 ---CAACTTC----CC
195 TCCCAATTTCAGAGCC
*
71477 AATTTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71542 GACCGCTGGTTGTCAATAAACAATTTTCCAA-TTCTAGAGTCAATTTCAACTTCACAGCGAAGGA
66 GACCGCTGGTTGTCAA-CAACAATTTCCCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGA
* * * *
71606 TAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAA
129 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAAAAA
* *
71671 CTTCTCAATTTCAGAGCC
193 TTTCCCAATTTCAGAGCC
71689 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
71754 GACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGAT
66 GACCGCTGGTTGTCAA-CAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * * *
71819 ATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-AACAAATTT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAATT
*
71883 TCCCGATTTCAGAGCC
195 TCCCAATTTCAGAGCC
* *
71899 AATTTCAACTTCACAGCGAAGGATATTGGACGCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
71964 GACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATA
66 GACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
72029 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTC-AACAAAATTT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAATTT
**
72093 --C-A-TTCAGAATC
196 CCCAATTTCAGAGCC
* * * *
72104 AATTTCAACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
** * *
72169 GA-CGACTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGG
66 GACCG-CTGGTTGTCAACAA-CAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGG
72232 ATATTGGACT
128 ATATTGGACT
72242 TGGAACAATG
Statistics
Matches: 1438, Mismatches: 115, Indels: 72
0.88 0.07 0.04
Matches are distributed among these distances:
199 3 0.00
200 351 0.24
201 2 0.00
202 2 0.00
203 4 0.00
204 13 0.01
205 81 0.06
206 46 0.03
207 6 0.00
208 6 0.00
209 262 0.18
210 209 0.15
211 84 0.06
212 366 0.25
213 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (210 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAAAATTT
CCCAATTTCAGAGCC
Found at i:71447 original size:43 final size:43
Alignment explanation
Indices: 71386--71541 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
71376 CAGAGCCAAT
71386 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * * *
71429 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
* *
71480 TTCAACTTCGCAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
71523 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
71542 GACCGCTGGT
Statistics
Matches: 82, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
43 36 0.44
44 4 0.05
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 19 0.23
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:74054 original size:27 final size:27
Alignment explanation
Indices: 74022--74104 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 27
74012 GTCATTTTCT
*
74022 TTATTTATTTTTTATCTATTTTTTTTA
1 TTATTTCTTTTTTATCTATTTTTTTTA
*
74049 TTATTTTCTTTTTTA-CTA--TCTTTTA
1 TTA-TTTCTTTTTTATCTATTTTTTTTA
* * *
74074 TT-TTTCTTTGTTATCTATTATTATTA
1 TTATTTCTTTTTTATCTATTTTTTTTA
74100 TTATT
1 TTATT
74105 ATTATTATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
23 10 0.22
24 3 0.07
25 8 0.18
26 6 0.13
27 8 0.18
28 10 0.22
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.73
Consensus pattern (27 bp):
TTATTTCTTTTTTATCTATTTTTTTTA
Found at i:74097 original size:3 final size:3
Alignment explanation
Indices: 74084--74130 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
74074 TTTTTCTTTG
*
74084 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA ATA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
74129 TT
1 TT
74131 TTTTTCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:76145 original size:27 final size:29
Alignment explanation
Indices: 76097--76150 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
76087 TTTAAACAAA
76097 TTAAAAATAATTAAAAAATT-AATTTAAT
1 TTAAAAATAATTAAAAAATTAAATTTAAT
*
76125 TTAAAAAT-A-TAAAAACTTTAAATTTA
1 TTAAAAATAATTAAAAA-ATTAAATTTA
76151 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 3 0.13
28 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
TTAAAAATAATTAAAAAATTAAATTTAAT
Found at i:95611 original size:15 final size:15
Alignment explanation
Indices: 95591--95635 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
95581 TAATAAGGTT
*
95591 ATTTATTAAAAAATA
1 ATTTATTATAAAATA
*
95606 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
*
95621 AATTATTATAAAATA
1 ATTTATTATAAAATA
95636 TGGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:95656 original size:22 final size:22
Alignment explanation
Indices: 95631--95801 Score: 87
Period size: 22 Copynumber: 7.2 Consensus size: 22
95621 AATTATTATA
95631 AAATATGGATTGATTTATTTTT
1 AAATATGGATTGATTTATTTTT
** * * *
95653 AAATAATTTATTTTAAATAATTTATT
1 AAAT-ATGGA--TTGATTTATTT-TT
* *
95679 -AGTATGGATTGATTTATTTTA
1 AAATATGGATTGATTTATTTTT
95700 AAATATGGATTGATTTATTTTAATT
1 AAATATGGATTGATTTA-TTT--TT
* * *
95725 AATTTAT-TAGTATGAATTGATTTATTTT
1 AA-ATATGGA-T-TG-ATTTA-TT--TTT
*
95753 AAAATATGGATTGATTTATTTTA
1 -AAATATGGATTGATTTATTTTT
95776 AAATATGGATTGATTTA-TTTT
1 AAATATGGATTGATTTATTTTT
95797 AAATA
1 AAATA
95802 ATTCATTAGT
Statistics
Matches: 111, Mismatches: 22, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
21 9 0.08
22 44 0.40
23 8 0.07
24 3 0.03
25 16 0.14
26 10 0.09
27 4 0.04
28 13 0.12
29 3 0.03
30 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
AAATATGGATTGATTTATTTTT
Found at i:95663 original size:15 final size:15
Alignment explanation
Indices: 95643--95678 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
95633 ATATGGATTG
95643 ATTTATTTTTAAATA
1 ATTTATTTTTAAATA
95658 ATTTA-TTTTAAATA
1 ATTTATTTTTAAATA
95672 ATTTATT
1 ATTTATT
95679 AGTATGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTAAATA
Found at i:95695 original size:18 final size:18
Alignment explanation
Indices: 95672--95750 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
95662 ATTTTAAATA
*
95672 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
* *
95690 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AGTATGAATTG
*
95712 ATTTATT--T-T-AATTA
1 ATTTATTAGTATGAATTG
95726 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
95744 ATTTATT
1 ATTTATT
95751 TTAAAATATG
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 1 0.02
18 16 0.33
20 4 0.08
22 15 0.31
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:95696 original size:32 final size:32
Alignment explanation
Indices: 95658--95755 Score: 108
Period size: 32 Copynumber: 3.4 Consensus size: 32
95648 TTTTTAAATA
95658 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
95690 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
95712 ATTTATTTTAATTAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
95744 ATTTATTTTAAA
1 ATTTATTTTAAA
95756 ATATGGATTG
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
22 14 0.26
23 4 0.07
25 1 0.02
26 3 0.06
28 3 0.06
29 1 0.02
31 4 0.07
32 24 0.44
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:95728 original size:54 final size:54
Alignment explanation
Indices: 95658--96323 Score: 403
Period size: 54 Copynumber: 12.4 Consensus size: 54
95648 TTTTTAAATA
95658 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
95712 ATTTATTTTAATTAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
** ** * ** * * * * *
95766 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTCATTAGTATAGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
* * * ***
95820 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
95868 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
* * ** *
95932 ATTTATTTTAAA-ACATGTATT-G-AT---TT-A-TTATTGTAGTTATATGTATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
95980 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
96034 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
96088 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
96132 A-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *** *
96186 A-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
96248 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
96302 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
96324 TTGTAGTTGT
Statistics
Matches: 494, Mismatches: 65, Indels: 106
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
45 1 0.00
47 5 0.01
48 68 0.14
49 11 0.02
50 15 0.03
51 2 0.00
52 9 0.02
53 19 0.04
54 256 0.52
55 17 0.03
56 7 0.01
57 8 0.02
58 17 0.03
59 5 0.01
60 3 0.01
62 16 0.03
63 6 0.01
64 22 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:95882 original size:80 final size:78
Alignment explanation
Indices: 95685--96174 Score: 488
Period size: 80 Copynumber: 6.2 Consensus size: 78
95675 TATTAGTATG
*
95685 GATTGATTTA-T-TT-TAAAATATGGATTGATTTATTTTAATTAATTTATTAGTATGAATTGATT
1 GATTGATTTATTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATT
*
95747 TATTTTAAAATATG
65 TATTTTAAAATATA
*
95761 GATTGATTTA-T-TT-TAAAATATGGATTGATTTATTTTAAATAATTCATTAGTATAGATTGATT
1 GATTGATTTATTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATT
95823 TATTTTAAAATATA
65 TATTTTAAAATATA
***
95837 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 GATTGATTTATTATTGTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGAT
95902 TTATTTTAAATAATTTATTA
64 TTATTTT-AA-AA--TA-TA
* * * * *
95922 G-TATGAATTGATTTATTTTAAAACATGTATTGATTTA--TT--AT--TGTAGTTA-TATGTATT
1 GAT-TG-ATTTA-TTATTGTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATG-ATT
95979 GATTTATTTTAAATAATTTATTA
61 GATTTATTTT-AA-AA--TA-TA
* *
96002 G-TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 GAT-TG-ATTTA-TTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTG
*
96066 ATTTATTTTAAAATATG
62 ATTTATTTTAAAATATA
***
96083 GATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGAT
1 GATTGATTTATTATTGTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGAT
*
96148 TTATTTTAAAATATG
64 TTATTTTAAAATATA
96163 GATTGATTTATT
1 GATTGATTTATT
96175 TTAAATAATT
Statistics
Matches: 363, Mismatches: 26, Indels: 46
0.83 0.06 0.11
Matches are distributed among these distances:
76 81 0.22
77 2 0.01
78 2 0.01
79 10 0.03
80 188 0.52
81 9 0.02
82 9 0.02
84 9 0.02
85 10 0.03
86 35 0.10
87 8 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (78 bp):
GATTGATTTATTATTGTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTT
ATTTTAAAATATA
Found at i:95899 original size:32 final size:32
Alignment explanation
Indices: 95858--95943 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
95848 TATTGTAGTT
95858 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
95890 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
95922 GTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
95944 ACATGTATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:95922 original size:112 final size:112
Alignment explanation
Indices: 95779--96174 Score: 454
Period size: 112 Copynumber: 3.6 Consensus size: 112
95769 TATTTTAAAA
*
95779 TATGGATTGATTTATTTTAAATAATTCATTAGTATAGATTGATTTATTTTAAAATATAG-ATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATAGTATTGA
*
95843 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
65 TTTATTATTGTAGTTATATGGATTGATTTATTTTAAATAATTTATTAG
*
95891 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAACAT-GTATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATAGTATTGA
*
95955 TTTATTATTGTAGTTATATGTATTGATTTATTTTAAATAATTTATTAG
65 TTTATTATTGTAGTTATATGGATTGATTTATTTTAAATAATTTATTAG
*
96003 TATGAATTGATTTATTTT-AA-AA--TA-T-G---GATTGATTTATTTTAAATAATTTATTAGTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTT-AA-AA--TA-TAGTA
* * * ** *
96059 TGGATTGATTTATTTTA-AAATATGGATTGATTTA--TT--AT--TGTAGTT-G
61 TTGATTTA-TTATTGTAGTTATATGGATTGATTTATTTTAAATAATTTA-TTAG
*
96105 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATAT-GGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATAGTATTGA
96169 TTTATT
65 TTTATT
96175 TTAAATAATT
Statistics
Matches: 247, Mismatches: 17, Indels: 47
0.79 0.05 0.15
Matches are distributed among these distances:
102 34 0.14
103 7 0.03
104 6 0.02
105 2 0.01
106 14 0.06
107 4 0.02
108 28 0.11
109 7 0.03
110 4 0.02
111 6 0.02
112 135 0.55
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATAGTATTGAT
TTATTATTGTAGTTATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:95937 original size:18 final size:18
Alignment explanation
Indices: 95882--95938 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
95872 ATTTTAAATA
*
95882 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
* *
95900 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
95914 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
95932 ATTTATT
1 ATTTATT
95939 TTAAAACATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 9 0.30
15 1 0.03
16 2 0.07
17 1 0.03
18 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:96017 original size:32 final size:31
Alignment explanation
Indices: 95971--96077 Score: 124
Period size: 32 Copynumber: 3.6 Consensus size: 31
95961 ATTGTAGTTA
95971 TATGTATTGATTTATTTTAAATAATTTATTAG
1 TATG-ATTGATTTATTTTAAATAATTTATTAG
96003 TATGAATTGATTTATTTT-AA-AA--TA-T-G
1 TATG-ATTGATTTATTTTAAATAATTTATTAG
96029 ---GATTGATTTATTTTAAATAATTTATTAG
1 TATGATTGATTTATTTTAAATAATTTATTAG
96057 TATGGATTGATTTATTTTAAA
1 TAT-GATTGATTTATTTTAAA
96078 ATATGGATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
22 13 0.20
23 3 0.05
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 2 0.03
32 34 0.53
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (31 bp):
TATGATTGATTTATTTTAAATAATTTATTAG
Found at i:96019 original size:22 final size:22
Alignment explanation
Indices: 96003--96045 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
95993 AATTTATTAG
96003 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
96025 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
96046 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:96029 original size:134 final size:134
Alignment explanation
Indices: 95891--96323 Score: 787
Period size: 134 Copynumber: 3.2 Consensus size: 134
95881 AATTTATTAG
* *
95891 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAACATGTATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
* *
95956 TTATTATTGTAGTTATATGTATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
96021 AAAA
131 AAAA
*
96025 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
*
96090 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTT
66 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTT
96154 TAAAA
130 TAAAA
96159 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
96224 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
96289 AAAA
131 AAAA
*
96293 TATGAATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
96324 TTGTAGTTGT
Statistics
Matches: 289, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
133 1 0.00
134 287 0.99
135 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
AAAA
Found at i:96071 original size:18 final size:18
Alignment explanation
Indices: 96048--96095 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
96038 ATTTTAAATA
*
96048 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
96066 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
96088 ATTTATTA
1 ATTTATTA
96096 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:96150 original size:32 final size:31
Alignment explanation
Indices: 96104--96211 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 31
96094 TATTGTAGTT
96104 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
96136 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
96162 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
96190 GTATGAATTGATTTATTTTAAA
1 GTATG-ATTGATTTATTTTAAA
96212 ATATGGATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
22 14 0.22
23 2 0.03
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 3 0.05
32 34 0.52
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:96248 original size:80 final size:80
Alignment explanation
Indices: 96159--96308 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
96149 TATTTTAAAA
* *
96159 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
96224 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
96239 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
96304 TTATT
66 TTATT
96309 TTAAATAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTG
Found at i:96283 original size:18 final size:17
Alignment explanation
Indices: 96236--96286 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
96226 ATTATTGTAG
96236 TTGTATGAATTGATTTA
1 TTGTATGAATTGATTTA
* *
96253 TT-T-T-AAATAATTTA
1 TTGTATGAATTGATTTA
96267 TTAGTATGAATTGATTTA
1 TT-GTATGAATTGATTTA
96285 TT
1 TT
96287 TTAAAATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 10 0.38
15 1 0.04
16 2 0.08
17 3 0.12
18 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTGTATGAATTGATTTA
Found at i:96296 original size:22 final size:22
Alignment explanation
Indices: 96271--96313 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
96261 AATTTATTAG
96271 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
96293 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
96314 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:96373 original size:31 final size:31
Alignment explanation
Indices: 96338--96396 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
96328 AGTTGTATGG
* *
96338 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
96369 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
96397 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:101907 original size:7 final size:7
Alignment explanation
Indices: 101895--101950 Score: 112
Period size: 7 Copynumber: 8.0 Consensus size: 7
101885 AAGAGTCCAG
101895 TCTTCAT
1 TCTTCAT
101902 TCTTCAT
1 TCTTCAT
101909 TCTTCAT
1 TCTTCAT
101916 TCTTCAT
1 TCTTCAT
101923 TCTTCAT
1 TCTTCAT
101930 TCTTCAT
1 TCTTCAT
101937 TCTTCAT
1 TCTTCAT
101944 TCTTCAT
1 TCTTCAT
101951 CCCCTCTGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (7 bp):
TCTTCAT
Found at i:102212 original size:16 final size:17
Alignment explanation
Indices: 102187--102218 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
102177 TCGCCGACCG
102187 AATTTCACTATTCACGA
1 AATTTCACTATTCACGA
102204 AATTT-ACTATTCACG
1 AATTTCACTATTCACG
102219 TGAATAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (17 bp):
AATTTCACTATTCACGA
Found at i:105930 original size:182 final size:180
Alignment explanation
Indices: 105714--106185 Score: 644
Period size: 182 Copynumber: 2.6 Consensus size: 180
105704 GATCCAAATT
* * ** *
105714 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATTATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATAAAAATGATA
* * *
105779 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAA-ATAAGGATCGACACTTC
*
105844 GTGAATTTAAAAGAGAAGCAGTTTTAAG-TCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAAAGTGTCGATAC-TTTA
* * *
105896 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAAAAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGT-ATAAAAATGAT
* * *
105961 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTAAATAAGGATCGACACTTT
65 AAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAAATAAGGATCGACACTTC
*
106026 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTA
* * *
106077 AAAAA-ATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAA-CAGGTATCAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCA-GTATAAAAATGAT
* *** * * *
106140 AAATCCGGTAAAATAATACCAGATATATTGAAAGTGCCGATACTTT
65 AAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTT
106186 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
179 50 0.19
180 41 0.16
181 11 0.04
182 107 0.41
183 50 0.19
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (180 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATAAAAATGATA
AAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAAATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTA
Found at i:105959 original size:21 final size:21
Alignment explanation
Indices: 105929--105973 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
105919 TATACCAGGT
*
105929 AAAAATATGATAAAACCGGTA
1 AAAAAAATGATAAAACCGGTA
105950 AAAAAAATGATAAAACCGGTA
1 AAAAAAATGATAAAACCGGTA
105971 AAA
1 AAA
105974 CGTTACCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.13, T:0.16
Consensus pattern (21 bp):
AAAAAAATGATAAAACCGGTA
Found at i:106125 original size:20 final size:19
Alignment explanation
Indices: 106097--106152 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
106087 GATCCACAAC
*
106097 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
*
106117 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
* *
106137 GATAAATCCGGTAAAA
1 GATAAAACAGGTAAAA
106153 TAATACCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.07
20 25 0.83
21 3 0.10
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:108392 original size:21 final size:21
Alignment explanation
Indices: 108366--108430 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
108356 AAGAGAATCA
*
108366 AGAGTCGAAGAGATACTTGAT
1 AGAGTCGAAGAGATACTTGAG
*
108387 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGATACTTGAG
*
108408 AGAGTCGAAGATATACTTGAG
1 AGAGTCGAAGAGATACTTGAG
108429 AG
1 AG
108431 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.40, C:0.09, G:0.31, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGATACTTGAG
Found at i:108506 original size:33 final size:33
Alignment explanation
Indices: 108464--108529 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
108454 AAATAGATGG
*
108464 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
108497 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
108530 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:110343 original size:19 final size:19
Alignment explanation
Indices: 110319--110367 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
110309 AATGTAGGGT
110319 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
110338 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
110357 TAATTTTGTAT
1 TAATTTTGTAT
110368 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:110829 original size:180 final size:180
Alignment explanation
Indices: 110523--111443 Score: 1087
Period size: 200 Copynumber: 4.8 Consensus size: 180
110513 CCATATATAA
110523 AAAGTGTCGATCC-CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
1 AAAGTGTCGATCCACAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
* *
110587 ACTGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACATTTTTTTAGT
66 ACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGT
110652 TTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGGTGCAACCAT
131 TTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACA-GGGTGCAACCAT
110703 AAAGTGTCGATCC-CAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
1 AAAGTGTCGATCCACAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
*
110767 ACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACTTTTTTAGT
66 ACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGT
110832 TTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGGTGCAACCAT
131 TTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACA-GGGTGCAACCAT
110883 AAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTA
1 AAAGTGTCGAT-C---------------C-A---CAAAAACATCGAAAACCAAAAGTATAATGTA
* *
110948 ATATGTAATTTTTCAATCTAACCGGTACATGTATACCGGTTTTATGAGAGAATATCTCTAAATAA
46 ATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAA
* *
111013 TGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCAAGAATGAATGAAAAACAGGGTGCA
111 TGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCA
111078 ACCAT
176 ACCAT
*
111083 AAAGTGTCGATCCATATATAAAAAGTGTCGATCTCAAAAACATCGAAAACCAAAAGTATAATGTA
1 AAAGTGTCGATCC----A-CAAAA------A---C------ATCGAAAACCAAAAGTATAATGTA
111148 ATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAA
46 ATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAA
111213 TGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCA
111 TGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCA
111278 ACCAT
176 ACCAT
* *
111283 AAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTACAATGTA
1 AAAGTGTCGATCC----------A----C-A---AAAA--CATCGAAAACCAAAAGTATAATGTA
* *
111348 ATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGAGAAT-TGGTATATAAT
46 ATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAT-GTCTA-AAT
* * *
111412 -ATGTATCGACACTGTTTAATGTTT-TGTCGATA
109 AATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
111444 CTAATTTAAA
Statistics
Matches: 659, Mismatches: 27, Indels: 90
0.85 0.03 0.12
Matches are distributed among these distances:
180 188 0.29
181 1 0.00
184 1 0.00
185 4 0.01
187 1 0.00
191 1 0.00
194 1 0.00
196 1 0.00
199 2 0.00
200 294 0.45
201 156 0.24
206 4 0.01
207 1 0.00
209 1 0.00
210 1 0.00
213 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (180 bp):
AAAGTGTCGATCCACAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
ACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGT
TTGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
Found at i:111184 original size:200 final size:200
Alignment explanation
Indices: 110703--111443 Score: 1299
Period size: 200 Copynumber: 3.7 Consensus size: 200
110693 GTGCAACCAT
110703 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
110768 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
110833 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGGTGCAACCATAAAGTGTCGATCCAT
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACA-GGGTGCAACCATAAAGTGTCGATCCAT
110898 ATATAA
195 ATATAA
*
110904 AAAGTATCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* *
110969 CCGGTACATGTATACCGGTTTTATGAGAGAATATCTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
* *
111034 TGTGTCGATATTTTTGGTCAAGAATGAATGAAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
111099 TATAA
196 TATAA
*
111104 AAAGTGTCGATCTCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
111169 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
111234 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
*
111299 TATAG
196 TATAA
*
111304 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* * * * *
111369 CCGGTACAAGTATACCAGTTTTATGAGAGAAT-TGGTATATAAT-ATGTATCGACACTGTTTAAT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-
111432 GTTT-TGTCGATA
128 GTTTGTGTCGATA
111444 CTAATTTAAA
Statistics
Matches: 517, Mismatches: 20, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
199 1 0.00
200 348 0.67
201 168 0.32
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAA
Found at i:112915 original size:6 final size:6
Alignment explanation
Indices: 112904--112961 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
112894 CAAGCGGTCA
* * * * *
112904 ATGAAG ATGAAG CTGACG ATGAAG ATGATG ATGACG ATGAA- ACTGACG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG A-TGAAG
112952 ATGAAG ATGA
1 ATGAAG ATGA
112962 TGACGATGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
5 1 0.02
6 39 0.95
7 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:112935 original size:3 final size:3
Alignment explanation
Indices: 112921--112983 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
112911 TGAAGCTGAC
* * * * * *
112921 GAT GAA GAT GAT GAT GAC GAT GA- AACT GAC GAT GAA GAT GAT GAC
1 GAT GAT GAT GAT GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GAT
112966 GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT
112984 CTAAACAAGT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
2 1 0.02
3 44 0.96
4 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:112954 original size:18 final size:18
Alignment explanation
Indices: 112904--112982 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
112894 CAAGCGGTCA
* *
112904 ATGAAGATGAAGCTGACG
1 ATGAAGATGACGATGACG
*
112922 ATGAAGATGATGATGACG
1 ATGAAGATGACGATGACG
112940 ATGAA-ACTGACGATGA--
1 ATGAAGA-TGACGATGACG
* *
112956 A-GATGATGACGATGATG
1 ATGAAGATGACGATGACG
*
112973 ATGATGATGA
1 ATGAAGATGA
112983 TCTAAACAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.21
16 2 0.04
17 2 0.04
18 37 0.71
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.22
Consensus pattern (18 bp):
ATGAAGATGACGATGACG
Found at i:114530 original size:183 final size:183
Alignment explanation
Indices: 114186--114946 Score: 1364
Period size: 183 Copynumber: 4.2 Consensus size: 183
114176 CAAAGTTTTC
* * *
114186 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * * *
114251 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
114314 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
114370 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
114435 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
114500 AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
114553 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
114618 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
114683 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
114736 ACATTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
114801 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
114866 AACCGGTATAAATATACCGGTTTTATGAGCGAACATGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
114919 ACACTTTCTAATATTGTGTCGGTACTTT
1 ACACTTTCTAATATTGTGTCGGTACTTT
114947 TAAGTAACGC
Statistics
Matches: 558, Mismatches: 17, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 482 0.86
184 73 0.13
186 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:117429 original size:25 final size:25
Alignment explanation
Indices: 117401--117465 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
117391 TTATCATTAA
117401 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
117426 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
117451 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
117466 TATTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:117843 original size:23 final size:23
Alignment explanation
Indices: 117812--117884 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
117802 ATAGGTAAAA
*
117812 ATATGATGTAATAGGTTGCGCTT
1 ATATAATGTAATAGGTTGCGCTT
* *
117835 ATATAATGTAATAGATAT-CGTTT
1 ATATAATGTAATAGGT-TGCGCTT
* *
117858 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTTGCGCTT
117881 ATAT
1 ATAT
117885 TGTAAAGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTTGCGCTT
Found at i:118332 original size:23 final size:23
Alignment explanation
Indices: 118301--118373 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
118291 ATAGGTAAAA
*
118301 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
118324 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
118347 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
118370 ATAT
1 ATAT
118374 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:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:118398 original size:46 final size:45
Alignment explanation
Indices: 118301--118398 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
118291 ATAGGTAAAA
* * *
118301 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATAGCTATCCTTT
* *
118347 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TAGCTATCCTTT
*
118393 TTATAA
1 ATATAA
118399 AAGTGTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATAGCTATCCTTT
Found at i:118821 original size:23 final size:23
Alignment explanation
Indices: 118790--118862 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
118780 ATAGGTAAAA
*
118790 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
118813 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
118836 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
118859 ATAT
1 ATAT
118863 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:118887 original size:46 final size:45
Alignment explanation
Indices: 118790--118887 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 45
118780 ATAGGTAAAA
* * *
118790 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTATCCTTT
*
118836 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTATCCTTT
*
118882 TTATAA
1 ATATAA
118888 AAGTGTCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.04
46 40 0.89
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTATCCTTT
Found at i:119162 original size:490 final size:489
Alignment explanation
Indices: 117468--119753 Score: 4297
Period size: 489 Copynumber: 4.7 Consensus size: 489
117458 TATATACATA
*
117468 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
*
117533 ACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
117598 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
117663 TTTTGTGTAAATAAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAA
117728 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
260 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
*
117793 TTCAATATAATAGGTAAAAATATGATGTAATAGGTTGCGCTTATATAATGTAATAGATATCGTTT
325 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTT
*
117858 ATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTCTATAAAAGTGTCCATACT
390 ATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACT
*
117923 TTTTTCACTGTGGAAAACTTTAATTTAAGGTTATC
455 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
117958 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
118023 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
118088 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
118153 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* * * *
118218 TTGAAACATAAATTACATAACTTAAAAAAAAATATCGATCTTTTTTATAAAAAGTATGAACACTT
261 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
*
118283 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTA
118348 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
391 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
118413 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
118447 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
118511 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
* *
118576 GGTTAATATTGTTAAATTTAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATACTT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
118641 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAA
*
118706 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACT
260 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
118771 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATG-TATCGTT
325 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA-GATATCGTT
118835 TATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC
389 TATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC
118900 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
454 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
* *
118936 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTTTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
119001 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
*
119066 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
119131 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
119196 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
261 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
119261 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTA
* *
119326 TATAATGTAATAGGCAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCAATACTT
391 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
119391 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
119425 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
119490 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
* *
119555 AGTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
119620 TTTTGTGTAAATAAAATTCTTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* *
119685 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAATGTATGAACACTT
261 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
119750 TCAA
326 TCAA
119754 CATATTATAA
Statistics
Matches: 1756, Mismatches: 36, Indels: 9
0.98 0.02 0.00
Matches are distributed among these distances:
488 196 0.11
489 1115 0.63
490 445 0.25
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (489 bp):
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
TTTTGTGTAAATGAAATTCTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTA
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
Found at i:119310 original size:23 final size:23
Alignment explanation
Indices: 119279--119351 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
119269 ATAGGTAAAA
*
119279 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
119302 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
119325 ATATAATGTAATAGGCAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
119348 ATAT
1 ATAT
119352 TGTAAAGTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:120679 original size:2 final size:2
Alignment explanation
Indices: 120659--120734 Score: 109
Period size: 2 Copynumber: 38.0 Consensus size: 2
120649 GGTAGTATTC
*
120659 AT AT A- AT AT AA AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
120701 AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120735 GATTATAGGT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.02
2 64 0.97
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122282 original size:29 final size:30
Alignment explanation
Indices: 122223--122288 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
122213 ATATGTAATC
122223 TTATTCTTTTCTTTATTTGTTCTTGCTTC-T
1 TTATT-TTTTCTTTATTTGTTCTTGCTTCTT
*
122253 TTATTTTTTTTTTA-TTGTTTCATTG-TTCTT
1 TTATTTTTTCTTTATTTG-TTC-TTGCTTCTT
122283 TTATTT
1 TTATTT
122289 GGTTATTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.09
29 14 0.44
30 15 0.47
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (30 bp):
TTATTTTTTCTTTATTTGTTCTTGCTTCTT
Found at i:125291 original size:104 final size:104
Alignment explanation
Indices: 125171--125372 Score: 379
Period size: 104 Copynumber: 1.9 Consensus size: 104
125161 ATTCACAAAC
*
125171 TCATTATGAACACCATCAATGCACACATAGTG-TCGAAAGTACACAAAGGTACTGATACGAAAAT
1 TCATTATGAACACCATCAATGCACACATAGTGCT-GAAAGTACACAAAGGTACTGATACAAAAAT
125235 GCAAAAAATGCATTAAACAAAATCGATCGATAACAAATGT
65 GCAAAAAATGCATTAAACAAAATCGATCGATAACAAATGT
125275 TCATTATGAACACCATCAATGCACACATAGTGCTGAAAGTACACAAAGGTACTGATACAAAAATG
1 TCATTATGAACACCATCAATGCACACATAGTGCTGAAAGTACACAAAGGTACTGATACAAAAATG
125340 CAAAAAATGCATTAAACAAAATCGATCGATAAC
66 CAAAAAATGCATTAAACAAAATCGATCGATAAC
125373 TATCATACTC
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
104 95 0.99
105 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (104 bp):
TCATTATGAACACCATCAATGCACACATAGTGCTGAAAGTACACAAAGGTACTGATACAAAAATG
CAAAAAATGCATTAAACAAAATCGATCGATAACAAATGT
Found at i:128858 original size:26 final size:26
Alignment explanation
Indices: 128825--128886 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
128815 TATCAGGACT
* *
128825 TGATGCAAAAAAGAAAGGTAGATGGA
1 TGATGCAAAAAAGAAAGATAAATGGA
*
128851 TGATGCAAAAAAGAAAGATAAATTGA
1 TGATGCAAAAAAGAAAGATAAATGGA
*
128877 TGAAGCAAAA
1 TGATGCAAAA
128887 CATCTCAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (26 bp):
TGATGCAAAAAAGAAAGATAAATGGA
Found at i:129934 original size:22 final size:20
Alignment explanation
Indices: 129881--129921 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
129871 TGTAAAAATG
129881 GTATC-GATACCATAATATA
1 GTATCAGATACCATAATATA
*
129900 GTATCAG-TACCATAGTATA
1 GTATCAGATACCATAATATA
129919 GTA
1 GTA
129922 GTACTGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCAGATACCATAATATA
Found at i:130349 original size:48 final size:48
Alignment explanation
Indices: 130293--130499 Score: 200
Period size: 57 Copynumber: 4.0 Consensus size: 48
130283 TATGTAAAAA
130293 GTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTAT
1 GTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTAT
*
130341 GTTAAGAAATTCATAATTAGTTTATGAATTTTCGTAT-GGCACTTTGTGTGCAAAAT
1 GTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCAC--T-T-T-----AT
* * *
130397 GTTAAGAAATTCATAATTAGTTTATAAATTTCCTTATGGGCACTTTGT
1 GTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTAT
*
130445 GTGCAAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 GT---------TAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
130500 GTGTGCAAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 29
0.78 0.05 0.17
Matches are distributed among these distances:
47 5 0.04
48 39 0.30
49 1 0.01
50 1 0.01
51 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 36 0.27
57 46 0.35
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (48 bp):
GTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTAT
Found at i:130427 original size:56 final size:57
Alignment explanation
Indices: 130339--130512 Score: 287
Period size: 57 Copynumber: 3.1 Consensus size: 57
130329 TGGGCACTTT
*
130339 ATGTTAAGAAATTCATAATTAGTTTATGAATTTTCGTAT-GGCACTTTGTGTGCAAA
1 ATGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAA
* *
130395 ATGTTAAGAAATTCATAATTAGTTTATAAATTTCCTTATGGGCACTTTGTGTGCAAA
1 ATGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAA
* * *
130452 AAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAA
1 ATGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAA
130509 ATGT
1 ATGT
130513 AACACCCCAA
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 36 0.34
57 71 0.66
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (57 bp):
ATGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAA
Found at i:133803 original size:12 final size:12
Alignment explanation
Indices: 133788--133844 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
133778 GATACATTAC
*
133788 CTGAATTATGTT
1 CTGAATTCTGTT
* *
133800 CTGATTTCTGAT
1 CTGAATTCTGTT
*
133812 CTGGATTCTGTT
1 CTGAATTCTGTT
*
133824 CTGAAATCTGATT
1 CTGAATTCTG-TT
133837 -TGAATTCT
1 CTGAATTCT
133845 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 33 0.94
13 2 0.06
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:133823 original size:24 final size:24
Alignment explanation
Indices: 133788--133859 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
133778 GATACATTAC
*
133788 CTGAATTATGTTCTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
* **
133812 CTGGATTCTGTTCTGAAATCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
* * *
133836 TTGAATTCTATTTTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
133860 ATCTCCATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTCTGATTTCTGAT
Found at i:134163 original size:154 final size:154
Alignment explanation
Indices: 133880--134193 Score: 393
Period size: 154 Copynumber: 2.0 Consensus size: 154
133870 ATTGATGGAG
* * * * *
133880 AAATGTTTTATCTGGGGGGTTTATTGTTGGAGGAAGAATACTTATAGGTTCCTCGGCTTTGTGCT
1 AAATGTTTTATCTGGGGGG-TTATTATTGGAGGAAGAATACTTACAGGCTCCTCAGCTTTATGCT
* * * * *
133945 CAAAGCCTAACTGTTATGCCGGGGTTGTATGGTTATGGGGAACCTACACATTATGTTGTGTTCGG
65 CAAAGCCTAACTGTTATACCGGGGTTGTATGGTTATGGGGAACCTACACATCATGATATATTCGG
134010 ATGG-GGGAATTTACTATGGTTTTTGAT
130 -TGGAGGG-A-TTACTATGGTTTTTGAT
* *
134037 AAATGTTTTAT-TTGGGGG-TATTATTGGAGGAAGAATA-TATACAGGCTCCTCAGTTTTATGCT
1 AAATGTTTTATCTGGGGGGTTATTATTGGAGGAAGAATACT-TACAGGCTCCTCAGCTTTATGCT
* ** * *
134099 TAGGGCCTAACTGTTGTACCGGGGTTGTATGGTTTTGGGGAACCTACACATCATGATATATTCGG
65 CAAAGCCTAACTGTTATACCGGGGTTGTATGGTTATGGGGAACCTACACATCATGATATATTCGG
134164 TGGAAGGGATTACTATGGTTTTTGAT
130 TGG-AGGGATTACTATGGTTTTTGAT
134190 AAAT
1 AAAT
134194 AAAAATATAT
Statistics
Matches: 137, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
153 25 0.18
154 92 0.67
155 3 0.02
156 6 0.04
157 11 0.08
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (154 bp):
AAATGTTTTATCTGGGGGGTTATTATTGGAGGAAGAATACTTACAGGCTCCTCAGCTTTATGCTC
AAAGCCTAACTGTTATACCGGGGTTGTATGGTTATGGGGAACCTACACATCATGATATATTCGGT
GGAGGGATTACTATGGTTTTTGAT
Found at i:134861 original size:57 final size:57
Alignment explanation
Indices: 134773--134959 Score: 270
Period size: 57 Copynumber: 3.3 Consensus size: 57
134763 AGGGGTTACA
134773 CAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGTGTG
1 CAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGTGTG
* * * **
134830 CAAAAAGTTAAGAAATTCATAACAAGTTTATGAATTTCCGTATGGGCACTTTGAGCA
1 CAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGTGTG
* * *
134887 CAAAAAGTTAACAAATTCATAATTAGTTTATGAATTTCCGTATGGGA-ACTTTATGTG
1 CAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT-GGACACTTTGTGTG
*
134944 CAAAAA-CTAAGAAATT
1 CAAAAAGTTAAGAAATT
134960 ATATGAATTT
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
56 8 0.07
57 104 0.91
58 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (57 bp):
CAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGTGTG
Found at i:139590 original size:21 final size:21
Alignment explanation
Indices: 139566--139617 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
139556 ATTTCAAGAC
*
139566 GATCCATCCCTCAAGAAAAAG
1 GATCGATCCCTCAAGAAAAAG
* **
139587 GATCGATCCCTCGATCAAAAG
1 GATCGATCCCTCAAGAAAAAG
139608 GATCGATCCC
1 GATCGATCCC
139618 AAACTTCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (21 bp):
GATCGATCCCTCAAGAAAAAG
Found at i:152186 original size:3 final size:3
Alignment explanation
Indices: 152178--152329 Score: 95
Period size: 3 Copynumber: 51.0 Consensus size: 3
152168 ATTTTCATTT
* * * *
152178 TTA TTA TTA TTA TTA TTG TTG TTG TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
152226 TTA TTA TTA TATA GGTT- TCA TTTA TATA GCA -TA TTA TTA TTA -TA
1 TTA TTA TTA T-TA --TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA
* *
152270 TTA TT- TTGA TTA TTA CTA -TA CTTA TTA TTA -TA TTA GTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
152314 AT- TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA
152330 AATAAATGGA
Statistics
Matches: 120, Mismatches: 14, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
2 13 0.11
3 95 0.79
4 10 0.08
5 1 0.01
6 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:152272 original size:11 final size:11
Alignment explanation
Indices: 152256--152329 Score: 71
Period size: 11 Copynumber: 6.5 Consensus size: 11
152246 TTTATATAGC
152256 ATATTATTATT
1 ATATTATTATT
152267 ATATTATT-TT
1 ATATTATTATT
* *
152277 -GATTATTACT
1 ATATTATTATT
152287 ATACTTATTATT
1 ATA-TTATTATT
*
152299 ATATTAGTATT
1 ATATTATTATT
152310 ATTAATTTATTATT
1 A-T-A-TTATTATT
152324 ATATTA
1 ATATTA
152330 AATAAATGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.12
10 3 0.06
11 20 0.39
12 12 0.24
13 2 0.04
14 8 0.16
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (11 bp):
ATATTATTATT
Found at i:152273 original size:8 final size:8
Alignment explanation
Indices: 152260--152329 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
152250 TATAGCATAT
152260 TATTATTA
1 TATTATTA
*
152268 TATTATTT
1 TATTATTA
152276 TGATTATTA
1 T-ATTATTA
*
152285 CTA-TACT-
1 -TATTATTA
152292 TATTATTA
1 TATTATTA
*
152300 TATTAGTA
1 TATTATTA
152308 TTATTAATT-
1 -TATT-ATTA
152317 TATTATTA
1 TATTATTA
152325 TATTA
1 TATTA
152330 AATAAATGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
6 2 0.04
7 6 0.12
8 27 0.55
9 11 0.22
10 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:152283 original size:20 final size:19
Alignment explanation
Indices: 152257--152325 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
152247 TTATATAGCA
152257 TATTATTATTATATTATTT
1 TATTATTATTATATTATTT
*
152276 TGATTATTACTATACTTATTAT
1 T-ATTATTATTATA-TTATT-T
* *
152298 TA-TATTAGTATTATTAATT
1 TATTATTATTA-TATTATTT
152317 TATTATTAT
1 TATTATTAT
152326 ATTAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.10
20 27 0.66
21 8 0.20
22 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TATTATTATTATATTATTT
Found at i:152807 original size:2 final size:2
Alignment explanation
Indices: 152800--152829 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
152790 CCAAACAGTG
152800 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
152830 TACTTCCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:154627 original size:17 final size:16
Alignment explanation
Indices: 154594--154628 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
154584 ATTTTAATAA
*
154594 TTATTAAAATTAAATT
1 TTATTAAAATAAAATT
154610 TTATTAAAATGAAAATT
1 TTATTAAAAT-AAAATT
154627 TT
1 TT
154629 TTGGGTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTATTAAAATAAAATT
Found at i:162512 original size:3 final size:3
Alignment explanation
Indices: 162497--162544 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
162487 TGGGCCTAAA
* * * *
162497 AAT AAT AAC AAT AAT AAT AAC AAT AAT ATT GAT AAT AATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
162543 AA
1 AA
162545 ACAATTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:163907 original size:94 final size:94
Alignment explanation
Indices: 163803--164022 Score: 331
Period size: 94 Copynumber: 2.4 Consensus size: 94
163793 GCATTTCAAA
* *
163803 GGAAACCTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAATAATCTCAAGTGAGATCAA-TTT
1 GGAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAAAAATCTCAAGTGAGATCAATTTT
*
163867 TGTTTCAAG-AGCAAAATTTTCAAATTATGT
66 TG-TTCAAGTA-CAAAAATTTCAAATTATGT
* *
163897 GGAAAACTGTCTCAAGCGAGACAAAATTTTTTTTTAGGAAAAAAATCTCAAGTGATATCAATTTT
1 GGAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAAAAATCTCAAGTGAGATCAATTTT
*
163962 TGTTCAAGTACAAAAATTTCAAATTTTGT
66 TGTTCAAGTACAAAAATTTCAAATTATGT
*
163991 GGAAAACTGTCCCAAGCGAGAC--AATTTGTTTT
1 GGAAAACTGTCTCAAGCGAGACAAAATTTGTTTT
164023 GAGAGAAACA
Statistics
Matches: 116, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
92 9 0.08
94 101 0.87
95 6 0.05
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (94 bp):
GGAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGGAAAAAAATCTCAAGTGAGATCAATTTT
TGTTCAAGTACAAAAATTTCAAATTATGT
Found at i:164105 original size:67 final size:65
Alignment explanation
Indices: 163994--164172 Score: 171
Period size: 67 Copynumber: 2.7 Consensus size: 65
163984 ATTTTGTGGA
* * * * *
163994 AAACTGTCCCAAGCGAGAC-AATTTGTTTTGAGAGAAACAGTCTCAAAGGCTTATATTTCAAAAG
1 AAACTGTCTCAAGCGAGACAAATTTGTTTGGAGAAAAACAATCTCAAAGGCTTACATTTCAAAAG
* * * * *
164058 AAATTGTCTCAAGCGAGACTAAACTTTGTTTGGGGAAAAACAATCTCAAAGGTTTACGTTTCAAG
1 AAACTGTCTCAAGCGAGAC-AAA-TTTGTTTGGAGAAAAACAATCTCAAAGGCTTACATTTCAAA
164123 AG
64 AG
* * * ** * *
164125 AAACTATGTCAAGTGAGACAAAATTTGTTTTTAGGAAAATAATCTCAA
1 AAACTGTCTCAAGCGAGAC-AAATTTGTTTGGAGAAAAACAATCTCAA
164173 GTGAAATTAA
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
64 17 0.18
66 22 0.24
67 53 0.58
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (65 bp):
AAACTGTCTCAAGCGAGACAAATTTGTTTGGAGAAAAACAATCTCAAAGGCTTACATTTCAAAAG
Found at i:167201 original size:6 final size:6
Alignment explanation
Indices: 167190--167259 Score: 79
Period size: 6 Copynumber: 11.2 Consensus size: 6
167180 ATTTGTTTTC
* *
167190 TTTCTT TTTCTT TTTCTT TTCTCTTTT TTTCTT TTTCTT TTCCTTT TTTCCT
1 TTTCTT TTTCTT TTTCTT TT-TC--TT TTTCTT TTTCTT TTTC-TT TTTCTT
167242 TTTCTT TTT-TT TTTCTT T
1 TTTCTT TTTCTT TTTCTT T
167260 GTTCACTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
5 5 0.09
6 37 0.67
7 7 0.13
8 2 0.04
9 4 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:167211 original size:21 final size:20
Alignment explanation
Indices: 167185--167255 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 20
167175 ACTTAATTTG
167185 TTTTCTTTCTTTTTCTTTTTC
1 TTTTCTTT-TTTTTCTTTTTC
167206 TTTTCTCTTTTTTTCTTTTTC
1 TTTTCT-TTTTTTTCTTTTTC
* *
167227 TTTTC-CTTTTTTCCTTTTC
1 TTTTCTTTTTTTTCTTTTTC
167246 TTTT-TTTTTT
1 TTTTCTTTTTT
167256 CTTTGTTCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 20 0.44
21 23 0.51
22 2 0.04
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTTTTTC
Found at i:167218 original size:15 final size:14
Alignment explanation
Indices: 167194--167252 Score: 61
Period size: 13 Copynumber: 4.4 Consensus size: 14
167184 GTTTTCTTTC
167194 TTTTTCTTTTTC-T
1 TTTTTCTTTTTCTT
*
167207 TTTCTCTTTTT-TT
1 TTTTTCTTTTTCTT
*
167220 CTTTTTC-TTTTCCT
1 -TTTTTCTTTTTCTT
*
167234 TTTTTCCTTTTCTT
1 TTTTTCTTTTTCTT
167248 TTTTT
1 TTTTT
167253 TTTCTTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 21 0.55
14 17 0.45
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:167224 original size:27 final size:25
Alignment explanation
Indices: 167185--167259 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 25
167175 ACTTAATTTG
*
167185 TTTTCTTTCTTTTTCTTTTTCTTTT
1 TTTTTTTTCTTTTTCTTTTTCTTTT
*
167210 CTCTTTTTTTCTTTTTCTTTTCCTTTT
1 -T-TTTTTTTCTTTTTCTTTTTCTTTT
**
167237 TTCCTTTTCTTTTT-TTTTTCTTT
1 TTTTTTTTCTTTTTCTTTTTCTTT
167260 GTTCACTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
24 8 0.19
25 11 0.26
26 2 0.05
27 22 0.51
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTTTTCTTTTTCTTTTTCTTTT
Found at i:167250 original size:20 final size:20
Alignment explanation
Indices: 167194--167250 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
167184 GTTTTCTTTC
*
167194 TTTTTCTTTTTCTTTTCTCTT
1 TTTTTCTTTTTCTTTT-TCCT
167215 TTTTTCTTTTTC-TTTTCCT
1 TTTTTCTTTTTCTTTTTCCT
*
167234 TTTTTCCTTTTCTTTTT
1 TTTTTCTTTTTCTTTTT
167251 TTTTTCTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 14 0.42
20 7 0.21
21 12 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTCTTTTTCCT
Found at i:167269 original size:33 final size:35
Alignment explanation
Indices: 167200--167272 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 35
167190 TTTCTTTTTC
* *
167200 TTTTT-CTTTTCTCTTTTTTTCTTTTTCTTTTCCT
1 TTTTTCCTTTTCTCTTTTTTTCTTCTTCTGTTCCT
167234 TTTTTCCTTTTCT-TTTTTTT-TTCTT-TGTTCACT
1 TTTTTCCTTTTCTCTTTTTTTCTTCTTCTGTTC-CT
167267 TTTTTC
1 TTTTTC
167273 TTTGATTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 4 0.11
33 12 0.34
34 12 0.34
35 7 0.20
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (35 bp):
TTTTTCCTTTTCTCTTTTTTTCTTCTTCTGTTCCT
Found at i:168169 original size:23 final size:23
Alignment explanation
Indices: 168143--168188 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
168133 CACCACAGCT
*
168143 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
168166 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
168189 TTTAAGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:168990 original size:64 final size:63
Alignment explanation
Indices: 168875--168994 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 63
168865 CATAAATCCT
* * * *
168875 ATTCGATGTTTGTATTTAAGGGGGTGCATCTATGCACTACTTGTACATCGATACACTGATGGC
1 ATTCGATGTTTGTATTTAAAGGAGTGCATCGATGCACTACATGTACATCGATACACTGATGGC
* * * *
168938 ATTCGATGTTTTTATTTTAAAGTAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 ATTCGATGTTTGTA-TTTAAAGGAGTGCATCGATGCACTACATGTACATCGATACAC
168995 CTTGAATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 13 0.27
64 35 0.73
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (63 bp):
ATTCGATGTTTGTATTTAAAGGAGTGCATCGATGCACTACATGTACATCGATACACTGATGGC
Found at i:175140 original size:23 final size:23
Alignment explanation
Indices: 175110--175170 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
175100 CTCGTATAAA
175110 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
175133 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
175156 TGCACC-ATAGTGCCA
1 TGCACCGA-AGTGCCA
175171 TATAAGATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:178315 original size:14 final size:15
Alignment explanation
Indices: 178286--178322 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
178276 TTCCATTTTC
178286 TTCTTTCATCTCTTT
1 TTCTTTCATCTCTTT
*
178301 TTCTTTC-TTTCTTT
1 TTCTTTCATCTCTTT
178315 TTCTTTCA
1 TTCTTTCA
178323 AACAACTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTTCATCTCTTT
Found at i:179678 original size:6 final size:6
Alignment explanation
Indices: 179667--179717 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
179657 TGCTTGAATG
* * *
179667 AATAAA AAT-AA AATGAAA CA-AAA AGTAAA GATAAA AATAAA AATAAA
1 AATAAA AATAAA AAT-AAA AATAAA AATAAA AATAAA AATAAA AATAAA
179714 AATA
1 AATA
179718 TAACGGAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
5 8 0.22
6 25 0.69
7 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (6 bp):
AATAAA
Done.