Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009302.1 Hibiscus syriacus cultivar Beakdansim tig00113024_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: 125207
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3125 original size:2 final size:2
Alignment explanation
Indices: 3118--3143 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3108 GATTTAACTC
3118 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
3144 TAATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7743 original size:30 final size:31
Alignment explanation
Indices: 7682--7752 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
7672 GTTATATGAG
* *
7682 CTATGTGATAAAGGTATGGAAAATGATATGT
1 CTATGTGATAAAGGTATAGAAAATAATATGT
7713 CTATGTGATAAAGGTATAG-AAATAATATGT
1 CTATGTGATAAAGGTATAGAAAATAATATGT
*
7743 CTATGAGATA
1 CTATGTGATA
7753 CACTATGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (31 bp):
CTATGTGATAAAGGTATAGAAAATAATATGT
Found at i:7946 original size:20 final size:20
Alignment explanation
Indices: 7918--7965 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
7908 GACACCTATT
*
7918 TGATCCTTGGTATATGTATA
1 TGATTCTTGGTATATGTATA
7938 TGATTCTTGGTATATGTATA
1 TGATTCTTGGTATATGTATA
7958 TGATTCTT
1 TGATTCTT
7966 AAGGAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (20 bp):
TGATTCTTGGTATATGTATA
Found at i:8090 original size:24 final size:23
Alignment explanation
Indices: 8010--8087 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
8000 TATGGCACCA
8010 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGTGGCACTT
* * *
8033 CGGTACATTTCTACGCGGTC-CTT
1 CGGTGCAATTCTACGTGG-CACTT
* *
8056 TGG-GATAAATTCTACGTGGCACTT
1 CGGTG--CAATTCTACGTGGCACTT
8080 CGGTGCAA
1 CGGTGCAA
8088 ATTTATACGA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
23 23 0.57
24 16 0.40
25 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCAATTCTACGTGGCACTT
Found at i:10138 original size:20 final size:20
Alignment explanation
Indices: 10123--10189 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
10113 CATTCCATAT
10123 TCTTCCATAAGGTTCCACAC
1 TCTTCCATAAGGTTCCACAC
*
10143 TCTTCCATAAGGTTTCACAC
1 TCTTCCATAAGGTTCCACAC
*
10163 TCTTCCATAAGGTTTCACAC
1 TCTTCCATAAGGTTCCACAC
10183 TCTTCCA
1 TCTTCCA
10190 GAATATTCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.34
Consensus pattern (20 bp):
TCTTCCATAAGGTTCCACAC
Found at i:10942 original size:29 final size:29
Alignment explanation
Indices: 10909--10981 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 29
10899 AAAATTTGAC
*
10909 TAGTA-ACTAAAATATAAATTTTGAAAATT
1 TAGTAGAC-AAAATATAAATTTGGAAAATT
* *
10938 TAGTAGGCAAAGTATAAATTTGGAAAAAGTT
1 TAGTAGACAAAATATAAATTTGG-AAAA-TT
10969 TAGT-GACCAAAAT
1 TAGTAGA-CAAAAT
10982 GATCATTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 18 0.51
30 6 0.17
31 11 0.31
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (29 bp):
TAGTAGACAAAATATAAATTTGGAAAATT
Found at i:13578 original size:26 final size:26
Alignment explanation
Indices: 13549--13601 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13539 TACATTTATA
*
13549 TATTTGGGATCATAGGTACATTGTTG
1 TATTCGGGATCATAGGTACATTGTTG
13575 TATTCGGGATCATAGGTACATTGTTG
1 TATTCGGGATCATAGGTACATTGTTG
13601 T
1 T
13602 TGTGTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (26 bp):
TATTCGGGATCATAGGTACATTGTTG
Found at i:13646 original size:54 final size:54
Alignment explanation
Indices: 13586--13690 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
13576 ATTCGGGATC
* *
13586 ATAGGTACATTGTTGTTGTGTTCTATAGTACTTGTACATTCACAGGGCACTATT
1 ATAGGTACATTGTTGTTGTGTTCTACAATACTTGTACATTCACAGGGCACTATT
*
13640 ATAGGTACATTGTTGTTGTGTTCTACAATATTTGTACATTCACAGGGCACT
1 ATAGGTACATTGTTGTTGTGTTCTACAATACTTGTACATTCACAGGGCACT
13691 GAATATACCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (54 bp):
ATAGGTACATTGTTGTTGTGTTCTACAATACTTGTACATTCACAGGGCACTATT
Found at i:14132 original size:17 final size:17
Alignment explanation
Indices: 14092--14134 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
14082 AAAGAATCAG
*
14092 TAAAAGAAACAATAGAA
1 TAAAAGAAATAATAGAA
*
14109 T--AAGAAATAATATAA
1 TAAAAGAAATAATAGAA
14124 TAAAAGAAATA
1 TAAAAGAAATA
14135 GTAAGGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (17 bp):
TAAAAGAAATAATAGAA
Found at i:17563 original size:95 final size:95
Alignment explanation
Indices: 17400--17592 Score: 386
Period size: 95 Copynumber: 2.0 Consensus size: 95
17390 TTCCTAGATC
17400 TATGTACTATGTTTTATATCACTTAAGAATTGAATCAGTTTTAAATCATCATTTCATTGAAACAT
1 TATGTACTATGTTTTATATCACTTAAGAATTGAATCAGTTTTAAATCATCATTTCATTGAAACAT
17465 CTGGAATTTTCTATACAACATATATATATA
66 CTGGAATTTTCTATACAACATATATATATA
17495 TATGTACTATGTTTTATATCACTTAAGAATTGAATCAGTTTTAAATCATCATTTCATTGAAACAT
1 TATGTACTATGTTTTATATCACTTAAGAATTGAATCAGTTTTAAATCATCATTTCATTGAAACAT
17560 CTGGAATTTTCTATACAACATATATATATA
66 CTGGAATTTTCTATACAACATATATATATA
17590 TAT
1 TAT
17593 ATATATATAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (95 bp):
TATGTACTATGTTTTATATCACTTAAGAATTGAATCAGTTTTAAATCATCATTTCATTGAAACAT
CTGGAATTTTCTATACAACATATATATATA
Found at i:17586 original size:2 final size:2
Alignment explanation
Indices: 17579--17638 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
17569 TCTATACAAC
17579 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17621 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
17639 TCCCTATTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22296 original size:239 final size:232
Alignment explanation
Indices: 21959--22427 Score: 685
Period size: 239 Copynumber: 2.0 Consensus size: 232
21949 CTTTATTTCA
* *
21959 GTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCGGGTTTAGGATGAAATATA
1 GTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCGAGTTTAGGATGAAAAATA
* * * *
22024 CCCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCGCTC-
66 ACCGACCCGAAAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCA
* *
22088 TATATATTTTTTTT-CAATTAAGTCACTGTTTTTATTGAATAAAAAT-ATTTTTTTATTATTTCG
131 TATATATTTTTTTTCCAATTAAGTCAATATTTTTATTGAATAAAAATAATTTTTTTATTATTTCG
22151 GGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGG
196 GGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGG
*
22188 GTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATACTCGGGTCGGGTCGGGTTCGAGTTTA-GAGTG
1 GTCGGGTCGGGTC-GGTTTTTTTAAGTGTGATA-T----TCGGGTCGAGTTCGAGTTTAGGA-TG
22252 AAAAAAATCAAACCGACCCGAAAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAAT
59 --AAAAAT--AACCGACCCGAAAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAAT
*
22317 AATACCCCTCTATATATATTTTTTTTCCAATTAAGTCAATATTTTTATTGAATAAAAGTAATTTT
120 AATACCCCTC-ATATATATTTTTTTTCCAATTAAGTCAATATTTTTATTGAATAAAAATAATTTT
* * *
22382 TTTATTATTTTGTGTCGTGTCGGGTCGGATTTCTAATTCATATATT
184 TTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATT
22428 GAATAAAAAT
Statistics
Matches: 212, Mismatches: 13, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
229 13 0.06
230 19 0.09
231 1 0.00
234 2 0.01
235 20 0.09
237 5 0.02
239 61 0.29
241 14 0.07
242 29 0.14
243 48 0.23
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (232 bp):
GTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCGAGTTTAGGATGAAAAATA
ACCGACCCGAAAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCA
TATATATTTTTTTTCCAATTAAGTCAATATTTTTATTGAATAAAAATAATTTTTTTATTATTTCG
GGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGG
Found at i:24662 original size:15 final size:16
Alignment explanation
Indices: 24644--24676 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24634 GTGGCAGATC
24644 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
24659 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
24675 AA
1 AA
24677 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:30957 original size:252 final size:252
Alignment explanation
Indices: 30499--31004 Score: 739
Period size: 252 Copynumber: 2.0 Consensus size: 252
30489 TGAACTTGTC
* *
30499 CTAGAAGGCACTCATGGCAAGGAAAATTCTTCTATAAAATCCAGTAAAGATGAATCAAAATCTTC
1 CTAGAAGGCACACATGGCAAGGAAAATTCTTCTATAAAATCCAGTAAAGATGAATAAAAATCTTC
* * * * * * * *
30564 GACAAATTCAATGGATGCGAATGAACCATTAAAACCATATGGTGAAAGTAATCCTGATTTTATCA
66 GACAAACTCAACGGATGCAAAAGAACAATCAAAACCATATGGTGAAAGTAATCCTGATTGTAACA
* *
30629 AGCATCTTGGAGGATCAGAAAAACTGACTGAACATAACTCTGGAACTGATCCATCAAAATCAAAT
131 AGCATCTTGGAGGATCAGAAAAACGGACTGAACATAACTCTGGAACTGATCCATCAAAACCAAAT
* * * *
30694 GAAGAAAATGCTAACTCAGCTGATCCTA-ACACTATGGTGACAGGAAAGGTAATCCCA
196 GAAGAAAATGCTAAATCAGATGATCCTATA-ACTATGGAGACAGAAAAGGTAATCCCA
*
30751 CTAGAAGGCACACATGGCAAGGAAGATTCTTCTATAAAATCCAGTAAAGATGAATTAAAAAT-TT
1 CTAGAAGGCACACATGGCAAGGAAAATTCTTCTATAAAATCCAGTAAAGATGAA-TAAAAATCTT
** * * * *
30815 CGATGAGCTCAACGGATGCAAAAGAACAATCAGAACCATCTTGTGAAAGTAATCCTGATTGTAAC
65 CGACAAACTCAACGGATGCAAAAGAACAATCAAAACCATATGGTGAAAGTAATCCTGATTGTAAC
*
30880 GAGCATCTTGGAGGATCAGAAAAACGGACTGAACATAACTCTGGAACTGATCCATCAAAACCAGA
130 AAGCATCTTGGAGGATCAGAAAAACGGACTGAACATAACTCTGGAACTGATCCATCAAAACCA-A
*
30945 A-GAAGGAAATGCTAAATCAGATGATCCTATAACTATGGAGACAGAAAAGGTAATCCCA
194 ATGAAGAAAATGCTAAATCAGATGATCCTATAACTATGGAGACAGAAAAGGTAATCCCA
31003 CT
1 CT
31005 TGTTAATCTT
Statistics
Matches: 226, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
252 217 0.96
253 9 0.04
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (252 bp):
CTAGAAGGCACACATGGCAAGGAAAATTCTTCTATAAAATCCAGTAAAGATGAATAAAAATCTTC
GACAAACTCAACGGATGCAAAAGAACAATCAAAACCATATGGTGAAAGTAATCCTGATTGTAACA
AGCATCTTGGAGGATCAGAAAAACGGACTGAACATAACTCTGGAACTGATCCATCAAAACCAAAT
GAAGAAAATGCTAAATCAGATGATCCTATAACTATGGAGACAGAAAAGGTAATCCCA
Found at i:32988 original size:14 final size:16
Alignment explanation
Indices: 32959--32990 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
32949 TGTTCGTGAA
32959 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
32975 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
32989 CG
1 CG
32991 AACAGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:33269 original size:10 final size:10
Alignment explanation
Indices: 33254--33348 Score: 55
Period size: 10 Copynumber: 8.5 Consensus size: 10
33244 GTGTTTGTAT
33254 TGTTCGTTTA
1 TGTTCGTTTA
33264 TGTTCGTTTA
1 TGTTCGTTTA
*
33274 TTGTGTTCGTCTA
1 ---TGTTCGTTTA
*
33287 TGTTCATTTATTA
1 TGTTC--GT-TTA
*
33300 TGTTTGTTTA
1 TGTTCGTTTA
*
33310 TGTTCGTTTGTTTG
1 TGTTC----GTTTA
33324 TGTTCGTTTA
1 TGTTCGTTTA
*
33334 CGTTCGTTTA
1 TGTTCGTTTA
33344 TGTTC
1 TGTTC
33349 ATCTATCATT
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
10 39 0.60
11 1 0.02
12 1 0.02
13 15 0.23
14 9 0.14
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.60
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:33272 original size:23 final size:23
Alignment explanation
Indices: 33254--33344 Score: 119
Period size: 23 Copynumber: 3.9 Consensus size: 23
33244 GTGTTTGTAT
33254 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
* * *
33277 TGTTCGTCTATGTTCATTTATTA
1 TGTTCGTTTATGTTCGTTTATTG
* *
33300 TGTTTGTTTATGTTCGTTTGTTTG
1 TGTTCGTTTATGTTCGTTT-ATTG
*
33324 TGTTCGTTTACGTTCGTTTAT
1 TGTTCGTTTATGTTCGTTTAT
33345 GTTCATCTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 37 0.66
24 19 0.34
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.60
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:33320 original size:14 final size:14
Alignment explanation
Indices: 33301--33332 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33291 CATTTATTAT
33301 GTTTGTTTATGTTC
1 GTTTGTTTATGTTC
*
33315 GTTTGTTTGTGTTC
1 GTTTGTTTATGTTC
33329 GTTT
1 GTTT
33333 ACGTTCGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.06, G:0.25, T:0.66
Consensus pattern (14 bp):
GTTTGTTTATGTTC
Found at i:42041 original size:21 final size:21
Alignment explanation
Indices: 42001--42055 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
41991 GATTCTTGAA
42001 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
42021 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
42043 AATCGCAACGCGA
1 AATCGCAATGCGA
42056 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:42104 original size:20 final size:20
Alignment explanation
Indices: 42081--42234 Score: 247
Period size: 20 Copynumber: 7.7 Consensus size: 20
42071 CGCAAACACA
42081 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42101 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
42121 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42141 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
42161 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* *
42181 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
42201 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
42221 TAAATCGCAACGCG
1 TAAATCGCAACGCG
42235 ATTTTTTAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 1 0.01
20 120 0.98
21 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:42126 original size:60 final size:60
Alignment explanation
Indices: 42043--42234 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
42033 GATTTTACAG
* ** * *
42043 AATCGCAACGCGAATATGAAAATCGCAACGCAAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCAAACACGTAAATCGCAACGCGTATCCGTA
* * * *
42103 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGC-AAACACGTAAATCGCAACGCGTATCCGTA
* *
42163 TATCGCAACGCGTATCCGTAAATCGCAACG-ACAATACGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCA-AACACGTAAATCGCAACGCGTATCCGTA
42223 AATCGCAACGCG
1 AATCGCAACGCG
42235 ATTTTTTAAA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.01
60 110 0.97
61 2 0.02
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCAAACACGTAAATCGCAACGCGTATCCGTA
Found at i:42654 original size:33 final size:33
Alignment explanation
Indices: 42615--42685 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
42605 TTCACTTAGA
*
42615 TTTCATTTCGCGTTACGATTCTCTTGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
42648 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
42681 TTTCA
1 TTTCA
42686 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:42785 original size:21 final size:20
Alignment explanation
Indices: 42759--42822 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
42749 TGCAGAAGAG
42759 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
42780 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
42800 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
42822 T
1 T
42823 TACGATTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 9 0.26
21 17 0.49
22 9 0.26
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:42873 original size:21 final size:21
Alignment explanation
Indices: 42847--42911 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
42837 CGCGTTGCGA
42847 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
42868 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
*
42888 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
42909 TTC
1 TTC
42912 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:42908 original size:20 final size:20
Alignment explanation
Indices: 42846--42909 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
42836 TCGCGTTGCG
42846 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
42866 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
*
42887 ATTCTCTCGTTACGATTTTC
1 ATTCTCTCGTTGCGATTTTC
42907 ATT
1 ATT
42910 TCAACCAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:44753 original size:93 final size:93
Alignment explanation
Indices: 44594--44969 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
44584 TAGATTGCTT
* *
44594 AGTAAATTTATTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
44659 TTTGTCTTTGTTTTGTCTTTTGGATGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44687 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44752 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44780 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44845 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44873 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
44938 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
44965 AGTAA
1 AGTAA
44970 TGCAATCCAT
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 274 0.98
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:45073 original size:19 final size:17
Alignment explanation
Indices: 45049--45140 Score: 70
Period size: 19 Copynumber: 5.4 Consensus size: 17
45039 GCAACGAGAG
45049 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA--AA
*
45068 AATCGCAA--C-AAAAG
1 AATCGCAACGCGAAAAA
45082 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA--AA
*
45101 AATCGCAA--CG-ACAA
1 AATCGCAACGCGAAAAA
45115 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA--AA
45134 AATCGCA
1 AATCGCA
45141 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 19 0.32
16 7 0.12
17 7 0.12
19 26 0.44
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.08
Consensus pattern (17 bp):
AATCGCAACGCGAAAAA
Found at i:45075 original size:33 final size:33
Alignment explanation
Indices: 45017--45140 Score: 169
Period size: 33 Copynumber: 3.7 Consensus size: 33
45007 TAGTTTACTT
* * *
45017 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGAAAGAA
** *
45051 TCGCAACGCGAAATGAAAATCGCAACAAAAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
45084 TCGCAACGCGAAACCAAAATCGCAACGACAA-AA
1 TCGCAACGCGAAACCAAAATCGCAACGA-AAGAA
45117 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
45141 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
33 67 0.83
34 14 0.17
ACGTcount: A:0.48, C:0.27, G:0.17, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGAAAGAA
Found at i:45117 original size:14 final size:14
Alignment explanation
Indices: 45098--45124 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45088 AACGCGAAAC
45098 CAAAATCGCAACGA
1 CAAAATCGCAACGA
45112 CAAAATCGCAACG
1 CAAAATCGCAACG
45125 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:45158 original size:19 final size:19
Alignment explanation
Indices: 45136--45308 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
45126 GAAACCAAAA
*
45136 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
45155 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
45169 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
45188 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
45204 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
45221 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
45240 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
45259 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
45278 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
45298 TCGTGTTGCGA
1 TCGCGTTGCGA
45309 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:45177 original size:14 final size:14
Alignment explanation
Indices: 45158--45214 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
45148 TTTCATTTCG
45158 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
45172 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
45189 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
45205 CGTTGCGATT
1 CGTTGCGATT
45215 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:45266 original size:38 final size:38
Alignment explanation
Indices: 45136--45308 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
45126 GAAACCAAAA
*
45136 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
45171 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
45204 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
45240 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
45278 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
45309 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:47250 original size:14 final size:14
Alignment explanation
Indices: 47231--47266 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
47221 ATTGTTTAAT
47231 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
47245 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
47259 TGATTTGT
1 TGATTTGT
47267 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:47389 original size:19 final size:19
Alignment explanation
Indices: 47373--47470 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
47363 AAAAATGACT
47373 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
47392 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
47411 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
47425 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
47444 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
47464 ATCGCAA
1 ATCGCAA
47471 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:47502 original size:53 final size:53
Alignment explanation
Indices: 47373--47489 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
47363 AAAAATGACT
47373 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
47425 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
47478 ATCGCAATGCGA
1 ATCGCAATGCGA
47490 TTTTAATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:47507 original size:19 final size:19
Alignment explanation
Indices: 47479--47719 Score: 254
Period size: 19 Copynumber: 13.7 Consensus size: 19
47469 AACGAGAGAA
* *
47479 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
47498 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
47514 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
47531 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
47550 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
47569 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
47585 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
47602 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
47621 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
47638 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
47654 TCACATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
47673 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
47691 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
47707 TCGCATTGCGATT
1 TCGCATTGCGATT
47720 CTCTCGTTGC
Statistics
Matches: 188, Mismatches: 12, Indels: 44
0.77 0.05 0.18
Matches are distributed among these distances:
14 29 0.15
15 3 0.02
16 21 0.11
17 16 0.09
18 10 0.05
19 84 0.45
20 25 0.13
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:47542 original size:52 final size:52
Alignment explanation
Indices: 47479--47719 Score: 256
Period size: 52 Copynumber: 4.6 Consensus size: 52
47469 AACGAGAGAA
* * * *
47479 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-
1 TCGCATTGCGATTTTCATTTCGCATTGCGATT-T-TCATTGCGCA-TTGCGATTC
*
47531 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
* * *
47583 TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TTGCGCATTGCGATTC
* * * * *
47636 TCTCGTTGCGA-TTTCATTTCACATTGCGATTTTCATTTCCGCATTGCGATTT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TTGCGCATTGCGATTC
*** *
47688 TCATGTTGGGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATT
47720 CTCTCGTTGC
Statistics
Matches: 170, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
50 9 0.05
51 5 0.03
52 111 0.65
53 45 0.26
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
Found at i:47560 original size:71 final size:71
Alignment explanation
Indices: 47479--47733 Score: 346
Period size: 71 Copynumber: 3.6 Consensus size: 71
47469 AACGAGAGAA
* *
47479 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
47544 TTCATT
66 TTCATT
47550 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
47615 TTCATT
66 TTCATT
* * * * *
47621 TCCGCATTGCGATTCTCTCGTTGCG-ATTTC-ATT-TCACATTGCGATTTTCATTTCCGCATTGC
1 T-CGCATTGCGATT-T-TCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGC
47683 GATTTTCA--
62 GATTTTCATT
*
47691 T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
47734 GTAATTTCCG
Statistics
Matches: 164, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
64 6 0.04
65 5 0.03
66 10 0.06
67 11 0.07
68 1 0.01
70 1 0.01
71 88 0.54
72 31 0.19
73 5 0.03
74 6 0.04
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:47741 original size:33 final size:33
Alignment explanation
Indices: 47485--47733 Score: 245
Period size: 33 Copynumber: 7.2 Consensus size: 33
47475 AGAATCGCAA
*
47485 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
47518 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
47556 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
47589 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
* * * * *
47628 TGCGATTCTCTCGTTGCG-ATTTC-ATT-TCACAT
1 TGCGATT-T-TCATTTCGCATTGCGATTCTCTCGT
*
47660 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
47694 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
47727 TGCGATT
1 TGCGATT
47734 GTAATTTCCG
Statistics
Matches: 179, Mismatches: 18, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
30 4 0.02
31 3 0.02
32 13 0.07
33 73 0.41
34 17 0.09
35 11 0.06
36 9 0.05
37 4 0.02
38 25 0.14
39 9 0.05
40 5 0.03
41 6 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:50971 original size:20 final size:20
Alignment explanation
Indices: 50943--51151 Score: 222
Period size: 20 Copynumber: 10.4 Consensus size: 20
50933 AAATTTCAGT
* * *
50943 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
50963 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
50983 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
51003 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
51023 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
51043 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
51063 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
51083 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
51103 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* ** *
51123 GTTGCGATTTTCATATTCTC
1 GTTGCGATTTACGGATTCGC
51143 GTTGCGATT
1 GTTGCGATT
51152 CTGTAAAATC
Statistics
Matches: 166, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 165 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:51177 original size:21 final size:22
Alignment explanation
Indices: 51145--51191 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
51135 ATATTCTCGT
51145 TGCG-ATTCTGTAAAATCGCAA
1 TGCGAATTCTGTAAAATCGCAA
** *
51166 TGCGAATT-TGTACTATCGCAT
1 TGCGAATTCTGTAAAATCGCAA
51187 TGCGA
1 TGCGA
51192 TTTTCAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (22 bp):
TGCGAATTCTGTAAAATCGCAA
Found at i:55102 original size:2 final size:2
Alignment explanation
Indices: 55095--55129 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55085 AGGAAATAAT
55095 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55130 TCTCTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55999 original size:54 final size:54
Alignment explanation
Indices: 55917--56024 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
55907 TTTGCTTCTT
55917 GGATTTCCATGAAATCAACGAACTTCCAAGCTTAATGCAGAAACCAGAAACAGA
1 GGATTTCCATGAAATCAACGAACTTCCAAGCTTAATGCAGAAACCAGAAACAGA
*
55971 GGATTTCCATGAAATCAATGAACTTCCAAGCTTAATGCAGAAACCAGAAACAGA
1 GGATTTCCATGAAATCAACGAACTTCCAAGCTTAATGCAGAAACCAGAAACAGA
56025 CTTCCTTGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (54 bp):
GGATTTCCATGAAATCAACGAACTTCCAAGCTTAATGCAGAAACCAGAAACAGA
Found at i:61336 original size:16 final size:17
Alignment explanation
Indices: 61302--61337 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
61292 ATTTATTATT
*
61302 ATTTTAAAGTTAGAGTG
1 ATTTGAAAGTTAGAGTG
61319 ATTTGAAAGTTA-AGTG
1 ATTTGAAAGTTAGAGTG
61335 ATT
1 ATT
61338 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (17 bp):
ATTTGAAAGTTAGAGTG
Found at i:66248 original size:2 final size:2
Alignment explanation
Indices: 66241--66281 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
66231 TAATAACAAT
66241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66282 CTTGAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66735 original size:21 final size:21
Alignment explanation
Indices: 66705--66808 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 21
66695 GATTTACATA
*
66705 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
66726 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
66749 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
66768 TTCGCGTTGTGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
66791 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
66809 AATCGCAACG
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
19 16 0.24
21 33 0.49
23 18 0.27
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:66762 original size:42 final size:42
Alignment explanation
Indices: 66711--66808 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
66701 CATATTCGCA
*
66711 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
66753 TTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
66795 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
66809 AATCGCAACG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:66944 original size:10 final size:11
Alignment explanation
Indices: 66913--66946 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
66903 AACACGTATT
66913 ACCACGACCACG
1 ACCACGACC-CG
66925 ACCACGACCCG
1 ACCACGACCCG
66936 ACC-CGACCCG
1 ACCACGACCCG
66946 A
1 A
66947 GACGAGACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:67438 original size:5 final size:5
Alignment explanation
Indices: 67428--67473 Score: 74
Period size: 5 Copynumber: 8.8 Consensus size: 5
67418 CGCTGTCGTC
67428 CGTGT CGTGT CGTGT CGTGT CGTGT CGTGT CGTGGT CGTGGT CGTG
1 CGTGT CGTGT CGTGT CGTGT CGTGT CGTGT CGT-GT CGT-GT CGTG
67474 GTCGAATACT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 29 0.73
6 11 0.28
ACGTcount: A:0.00, C:0.20, G:0.43, T:0.37
Consensus pattern (5 bp):
CGTGT
Found at i:67567 original size:21 final size:20
Alignment explanation
Indices: 67543--67685 Score: 96
Period size: 21 Copynumber: 6.9 Consensus size: 20
67533 TGCGATTTTG
67543 GACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAA-TTC
67564 GACTATCGCAATGCGAATAT-
1 GACTATCGCAATGCGAAT-TC
* *
67584 GTA-AATCGCAATGCGATAGTC
1 G-ACTATCGCAATGCGA-ATTC
* * *
67605 GAAGT-TCGCATTGCGATAGTCC
1 G-ACTATCGCAATGCGA-A-TTC
* * * *
67627 AAGT-TCGCAATACGATAGTC
1 GACTATCGCAATGCGA-ATTC
67647 GACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAA-TTC
67668 GACTATCGCAATGCGAAT
1 GACTATCGCAATGCGAAT
67686 ATGTAAATCG
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
20 20 0.20
21 77 0.79
22 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (20 bp):
GACTATCGCAATGCGAATTC
Found at i:67697 original size:83 final size:82
Alignment explanation
Indices: 67609--67835 Score: 219
Period size: 83 Copynumber: 2.7 Consensus size: 82
67599 ATAGTCGAAG
* * * *
67609 TTCGCATTGCGATAGTCCAAGTTCGCAATACGATAGTCGACTATCGCAATGCGA-ACTTCGACTA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCAACT-TCGCAATGCGATA-GTCGACTA
67673 TCGCAATGCGAATATGTA-A-A
64 TCGCAATGCG-AT-T-TACATA
* * * * * * *
67693 -TCGCAATACGATAGTCGAAGTTCACATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGATTAT
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CAACTTCGCAATGCGATAGTCGACTAT
* *
67757 CGCATTTCGATTTACATA
65 CGCAATGCGATTTACATA
* **
67775 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CAACTTCGCAATGCGATAGTCGA
67836 AGTTTGCGTT
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
80 2 0.02
81 2 0.02
82 3 0.03
83 109 0.91
84 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (82 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCAACTTCGCAATGCGATAGTCGACTATC
GCAATGCGATTTACATA
Found at i:67727 original size:21 final size:21
Alignment explanation
Indices: 67701--67839 Score: 158
Period size: 21 Copynumber: 6.7 Consensus size: 21
67691 AATCGCAATA
* *
67701 CGATAGTCGAAGTTCACATTG
1 CGATAGTCCAAGTTCGCATTG
67722 CGATAGTCCAAGTTCGCATTG
1 CGATAGTCCAAGTTCGCATTG
* * *
67743 CGATAGT-CGATTATCGCATTT
1 CGATAGTCCAAGT-TCGCATTG
* *
67764 CGAT-TTACATA-TTCGCATTG
1 CGATAGTCCA-AGTTCGCATTG
67784 CGATAGTCCAAGTTCGCATTG
1 CGATAGTCCAAGTTCGCATTG
*
67805 CGATAGTCCAAGTTCGCGTTG
1 CGATAGTCCAAGTTCGCATTG
*
67826 CGATAGTCGAAGTT
1 CGATAGTCCAAGTT
67840 TGCGTTGTGA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
20 16 0.16
21 84 0.83
22 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (21 bp):
CGATAGTCCAAGTTCGCATTG
Found at i:67801 original size:41 final size:42
Alignment explanation
Indices: 67589--67839 Score: 169
Period size: 42 Copynumber: 6.0 Consensus size: 42
67579 AATATGTAAA
*
67589 TCGCAATGCGATAGT-CGAAGTTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTAC-AAGTTCGCATTGCGATAGTCCAAGT
* * * * * * * * *
67631 TCGCAATACGATAGT-CGACTATCGCAATGCGA-ACTTCGACT
1 TCGCATTGCGATAGTACAAGT-TCGCATTGCGATAGTCCAAGT
* * * *
67672 ATCGCAATGCGAATATGTA-AA--TCGCAATACGATAGTCGAAGT
1 -TCGCATTGCG-ATA-GTACAAGTTCGCATTGCGATAGTCCAAGT
* * * *
67714 TCACATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGATT
1 TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCCAAGT
* *
67755 ATCGCATTTCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTACA-AGTTCGCATTGCGATAGTCCAAGT
* * *
67797 TCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCCAAGT
67839 T
1 T
67840 TGCGTTGTGA
Statistics
Matches: 160, Mismatches: 35, Indels: 28
0.72 0.16 0.13
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 58 0.36
42 89 0.56
43 3 0.02
44 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (42 bp):
TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCCAAGT
Found at i:67839 original size:104 final size:104
Alignment explanation
Indices: 67543--67760 Score: 391
Period size: 104 Copynumber: 2.1 Consensus size: 104
67533 TGCGATTTTG
67543 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAA
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAA
67608 GTTCGCATTGCGATAGTCCAAGTTCGCAATACGATAGTC
66 GTTCGCATTGCGATAGTCCAAGTTCGCAATACGATAGTC
*
67647 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATACGATAGTCGAA
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAA
* * *
67712 GTTCACATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
66 GTTCGCATTGCGATAGTCCAAGTTCGCAATACGATAGTC
*
67751 GATTATCGCA
1 GACTATCGCA
67761 TTTCGATTTA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (104 bp):
GACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAA
GTTCGCATTGCGATAGTCCAAGTTCGCAATACGATAGTC
Found at i:70155 original size:11 final size:11
Alignment explanation
Indices: 70126--70159 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
70116 AATCAAAGAA
70126 ATTAAATTAAA-
1 ATTAAA-TAAAT
70137 ATTAAATAAAT
1 ATTAAATAAAT
70148 ATTAAATAAAT
1 ATTAAATAAAT
70159 A
1 A
70160 AGAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTAAATAAAT
Found at i:71414 original size:3 final size:3
Alignment explanation
Indices: 71406--71471 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
71396 TTAAATAAGA
* * *
71406 AAT AAT AAT AAT AAAT AA- AAT AAT TAC AAT AAT AAT AAAT GAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
71452 AAT AAAT AAT AAT TAT AAT A
1 AAT -AAT AAT AAT AAT AAT A
71472 GTATAATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:71421 original size:13 final size:13
Alignment explanation
Indices: 71399--71469 Score: 83
Period size: 13 Copynumber: 5.6 Consensus size: 13
71389 AAAATAATTA
*
71399 AATAAGAAATAAT
1 AATAATAAATAAT
71412 AATAATAAATAA-
1 AATAATAAATAAT
* *
71424 AATAAT-TACAAT
1 AATAATAAATAAT
*
71436 AATAATAAATGAT
1 AATAATAAATAAT
71449 AATAATAAATAAT
1 AATAATAAATAAT
*
71462 AATTATAA
1 AATAATAA
71470 TAGTATAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 3 0.06
12 12 0.25
13 33 0.69
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:71479 original size:37 final size:36
Alignment explanation
Indices: 71399--71471 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
71389 AAAATAATTA
*
71399 AATAAGAAATAATAATAATAAATAAAATAATTACAAT
1 AATAATAAATAATAATAATAAAT-AAATAATTACAAT
* *
71436 AATAATAAATGATAATAATAAAT-AATAATTATAAT
1 AATAATAAATAATAATAATAAATAAATAATTACAAT
71471 A
1 A
71472 GTATAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 12 0.36
37 21 0.64
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (36 bp):
AATAATAAATAATAATAATAAATAAATAATTACAAT
Found at i:71617 original size:36 final size:36
Alignment explanation
Indices: 71490--71787 Score: 223
Period size: 36 Copynumber: 8.1 Consensus size: 36
71480 TATATAAATA
**
71490 TTTTAAAAAC-ATATA-ATATATAATTTCCAAAATGTTT
1 TTTTAAAAACTATATATATATAT-ATTTTAAAAATG--T
** * *
71527 TTTTAAAATTTTATAATATATATATTTTTTAAAAAATGC
1 TTTTAAAA-ACTAT-ATATATATATATTTT-AAAAATGT
* * *
71566 TTTAAAAAAAT-TATAT-TATATATTTTAAAATATTT
1 TTTTAAAAACTATATATATATATATTTTAAAA-ATGT
* *
71601 TTTTAAAAACTATATATATATAAATGTTTTCAAAATG-
1 TTTTAAAAACTATATATATAT--ATATTTTAAAAATGT
* *
71638 TTTTCAAAACTATATATCATATAAATTTTCAAAAATGT
1 TTTTAAAAACTATATAT-ATATATATTTT-AAAAATGT
* * *
71676 TTTTCAAAACTATATAT-TATATACGTTTTCAAAATGC
1 TTTTAAAAACTATATATATATATA--TTTTAAAAATGT
* * *
71713 TTTTAAATA-TATATATTATATACATTTTCAAAATGT
1 TTTTAAAAACTATATA-TATATATATTTTAAAAATGT
* * *
71749 TTTCAAAGACTATATATATATATATTTTTAAAATGT
1 TTTTAAAAACTATATATATATATATTTTAAAAATGT
71785 TTT
1 TTT
71788 CGAAAAAAAA
Statistics
Matches: 211, Mismatches: 32, Indels: 37
0.75 0.11 0.13
Matches are distributed among these distances:
34 4 0.02
35 20 0.09
36 64 0.30
37 54 0.26
38 33 0.16
39 18 0.09
40 6 0.03
41 12 0.06
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTTAAAAACTATATATATATATATTTTAAAAATGT
Found at i:71620 original size:74 final size:74
Alignment explanation
Indices: 71491--71781 Score: 265
Period size: 75 Copynumber: 3.9 Consensus size: 74
71481 ATATAAATAT
* ** * * * *
71491 TTTAAAAACATATA-A-TATATAATTTCCAAAATGTTTTTTTAAAATTTTATAATATATATATTT
1 TTTAAAAAAATATATATTATATAATTTTAAAAATG-TTTTTAAAAACTATAT-ATATATATATGT
71554 TTTAAAAAATGC
64 TTT-AAAAATGC
* *
71566 TTTAAAAAAAT-TATATTATAT-ATTTTAAAATATTTTTTTAAAAACTATATATATATAAATGTT
1 TTTAAAAAAATATATATTATATAATTTTAAAA-ATGTTTTTAAAAACTATATATATATATATGTT
*
71629 TTCAAAATG-
65 TTAAAAATGC
** * * * *
71638 TTTTCAAAACTATATATCATATAAATTTTCAAAAATGTTTTTCAAAACTATATAT-TATATACGT
1 TTTAAAAAAATATATATTATAT-AATTTT-AAAAATGTTTTTAAAAACTATATATATATATATGT
*
71702 TTTCAAAATGC
64 TTTAAAAATGC
* * * * *
71713 TTT-TAAATATATATATTATATACATTTTCAAAATGTTTTCAAAGACTATATATATATATAT-TT
1 TTTAAAAAAATATATATTATATA-ATTTTAAAAATGTTTTTAAAAACTATATATATATATATGTT
71776 TTAAAA
65 TTAAAA
71782 TGTTTTCGAA
Statistics
Matches: 178, Mismatches: 28, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
72 8 0.04
73 44 0.25
74 57 0.32
75 58 0.33
76 11 0.06
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (74 bp):
TTTAAAAAAATATATATTATATAATTTTAAAAATGTTTTTAAAAACTATATATATATATATGTTT
TAAAAATGC
Found at i:71638 original size:11 final size:11
Alignment explanation
Indices: 71622--71646 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
71612 ATATATATAT
71622 AAATGTTTTCA
1 AAATGTTTTCA
71633 AAATGTTTTCA
1 AAATGTTTTCA
71644 AAA
1 AAA
71647 CTATATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:71804 original size:36 final size:36
Alignment explanation
Indices: 71729--71810 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
71719 ATATATATAT
* ** * *
71729 TATATACATTTTCAAAATGTTTTCAAAGACTATATA
1 TATATATATTTTCAAAATGTTTTCAAAGAAAAAACA
*
71765 TATATATATTTTTAAAATGTTTTCGAAA-AAAAAACA
1 TATATATATTTTCAAAATGTTTTC-AAAGAAAAAACA
71801 TATATTATAT
1 TATA-TATAT
71811 ATATAATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 30 0.79
37 8 0.21
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (36 bp):
TATATATATTTTCAAAATGTTTTCAAAGAAAAAACA
Found at i:72655 original size:84 final size:81
Alignment explanation
Indices: 72512--73181 Score: 581
Period size: 84 Copynumber: 8.2 Consensus size: 81
72502 TCGAATATAA
* * *
72512 TCGAACTCAAAGGTCTTTAG-CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCC
1 TCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCC
*
72576 TTGGAGCTGAGCGGAG
66 TTGGAGCTGAGCGTAG
* * * * *
72592 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
72657 GCCGTT-GAGCTGAGCGTAG
63 GCC-TTGGAGCTGAGCGTAG
* * * * * *
72676 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATGT
1 TCGAACTCGAAGGTC-TTTG--GTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
* * * *
72741 GCCCTCGAAGCTGAGTGTAA
63 G-CCTTGGAGCTGAGCGTAG
* ** * * *
72761 TCGAACTTGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCC
1 TCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCC
72825 TTGGAGCTGAGCGTAG
66 TTGGAGCTGAGCGTAG
* * * * * * *
72841 TCGAACTCGAAGGTCTTTTAGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATAT
1 TCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
* * * * *
72906 GCCCTCGAACCTGAGTGTAA
63 G-CCTTGGAGCTGAGCGTAG
* * *
72926 TCGAACTC-AGGGGTCTTTGG-CAGATAGCCC-T-T---CTTAAGCTATTCTGCAAATGATGTGC
1 TCGAACTCGA-AGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGC
*
72984 CTTGGAGCTGAGCGAAG
65 CTTGGAGCTGAGCGTAG
* * * * * ** * *
73001 TCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGTTATG
1 TCGAACTCGAAGGTCTTTGGT--CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG
* * *
73066 CCCTTGAAGCTGAGTGTAA
64 -CCTTGGAGCTGAGCGTAG
* * * * *
73085 TAGAACT-TAAGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGC
1 TCGAACTCGAA-GGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGC
73148 CTTGGAGCTGAGCGTAG
65 CTTGGAGCTGAGCGTAG
73165 TCGAACTCGAAGGTCTT
1 TCGAACTCGAAGGTCTT
73182 GGTGGCAGGT
Statistics
Matches: 463, Mismatches: 100, Indels: 54
0.75 0.16 0.09
Matches are distributed among these distances:
75 28 0.06
76 21 0.05
78 9 0.02
79 2 0.00
80 69 0.15
81 86 0.19
82 1 0.00
83 20 0.04
84 176 0.38
85 50 0.11
86 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (81 bp):
TCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCC
TTGGAGCTGAGCGTAG
Found at i:72841 original size:165 final size:165
Alignment explanation
Indices: 72512--73181 Score: 774
Period size: 165 Copynumber: 4.1 Consensus size: 165
72502 TCGAATATAA
* * * *
72512 TCGAACTCAAAGGTC---T-TTAGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * * * * *
72573 G-CCTTGGAGCTGAGCGGAGTCGAACTCGAA-GGTCTTTTGGTCACAGATAACCCTTCTAGCCTT
66 GCCCTCGAAGCTGAGTGTAATCGAACTC-AAGGGTC-TTTGG---CAGATAGCCCTTCTCGACTT
* * ** *
72636 GAGTTATGATGTAAATGATGTGCCGTT-GAGCTGAGCGTAG
126 AAGCTATTCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
** * * * *
72676 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
***
72741 GCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
66 GCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
72806 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * * * *
72841 TCGAACTCGAAGGTCTTTTAG-TCACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATA
1 TCGAACTCAAAGGTCTTTT-GTTAACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATA
* *
72905 TGCCCTCGAACCTGAGTGTAATCGAACTCAGGGGTCTTTGGCAGATAGCCC-T-T---CTTAAGC
65 TGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
*
72965 TATTCTGCAAATGATGTGCCTTGGAGCTGAGCGAAG
130 TATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * ** *
73001 TCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGTTAT
1 TCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * *
73065 GCCCTTGAAGCTGAGTGTAATAGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
66 GCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
73130 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
131 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
73165 TCGAACTCGAAGGTCTT
1 TCGAACTCAAAGGTCTT
73182 GGTGGCAGGT
Statistics
Matches: 442, Mismatches: 49, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
158 1 0.00
159 88 0.20
160 57 0.13
161 1 0.00
163 1 0.00
164 74 0.17
165 149 0.34
166 1 0.00
167 1 0.00
168 45 0.10
169 24 0.05
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (165 bp):
TCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
GCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:78118 original size:4 final size:4
Alignment explanation
Indices: 78081--78141 Score: 54
Period size: 4 Copynumber: 15.0 Consensus size: 4
78071 AAGTAGTAAT
* *
78081 ATAA AAAA ATAA ATCAA AGAA ATTAA ATTAA ATAA AT-A ATAA ATAA AT-A
1 ATAA ATAA ATAA AT-AA ATAA A-TAA A-TAA ATAA ATAA ATAA ATAA ATAA
*
78130 TTAA ATAA ATAA
1 ATAA ATAA ATAA
78142 GAAAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 5 0.11
4 31 0.66
5 11 0.23
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:78125 original size:11 final size:11
Alignment explanation
Indices: 78109--78141 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
78099 GAAATTAAAT
78109 TAAATAAATAA
1 TAAATAAATAA
*
78120 TAAATAAATAT
1 TAAATAAATAA
78131 TAAATAAATAA
1 TAAATAAATAA
78142 GAAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:78135 original size:22 final size:22
Alignment explanation
Indices: 78107--78150 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
78097 AAGAAATTAA
* *
78107 ATTAAATAAATAATAAATAAAT
1 ATTAAATAAATAAGAAAAAAAT
78129 ATTAAATAAATAAGAAAAAAAT
1 ATTAAATAAATAAGAAAAAAAT
78151 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
ATTAAATAAATAAGAAAAAAAT
Found at i:79392 original size:3 final size:3
Alignment explanation
Indices: 79384--79465 Score: 76
Period size: 3 Copynumber: 26.3 Consensus size: 3
79374 TTAAATAAGA
* * * *
79384 AAT AAT AAT AAT AAAT AAA AAT TAC AAT AAT AAT AAAT GAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
*
79431 AAT AAT AAT AAT AAT AGT -AT AAT ATAT ATAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT A
79466 TTTTAAAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 1 0.02
3 51 0.78
4 13 0.20
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:79415 original size:22 final size:22
Alignment explanation
Indices: 79364--79441 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
79354 GAAAAACAAA
79364 AACAA-AATAATTAAATAAGAAAT
1 AACAATAATAA-TAAATAA-AAAT
79387 ---AATAATAATAAATAAAAAT
1 AACAATAATAATAAATAAAAAT
* * *
79406 TACAATAATAATAAATGATAAT
1 AACAATAATAATAAATAAAAAT
*
79428 AATAATAATAATAA
1 AACAATAATAATAA
79442 TAATAGTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 4 0.09
20 9 0.19
21 5 0.11
22 29 0.62
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (22 bp):
AACAATAATAATAAATAAAAAT
Found at i:79418 original size:25 final size:26
Alignment explanation
Indices: 79384--79454 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 26
79374 TTAAATAAGA
*
79384 AATAATAATAATA-AATAAAAATTAC
1 AATAATAATAATATAATAAAAATAAC
* *
79409 AATAATAATAAATGATAATAATAATAAT
1 AATAATAAT-AAT-ATAATAAAAATAAC
*
79437 AATAATAATAGTATAATA
1 AATAATAATAATATAATA
79455 TATATATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 9 0.23
26 9 0.23
27 3 0.08
28 18 0.46
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (26 bp):
AATAATAATAATATAATAAAAATAAC
Found at i:79421 original size:16 final size:16
Alignment explanation
Indices: 79397--79435 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
79387 AATAATAATA
*
79397 AATAA-AAATTACAAT
1 AATAATAAATGACAAT
*
79412 AATAATAAATGATAAT
1 AATAATAAATGACAAT
79428 AATAATAA
1 AATAATAA
79436 TAATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AATAATAAATGACAAT
Found at i:79608 original size:11 final size:11
Alignment explanation
Indices: 79592--79652 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
79582 TATAATATAT
79592 AAATGTTTTCA
1 AAATGTTTTCA
79603 AAATGTTTTCA
1 AAATGTTTTCA
* *
79614 AAACTATATTCA
1 AAA-TGTTTTCA
*
79626 TATAA-ATTTTCAA
1 -A-AATGTTTTC-A
79639 AAATGTTTTCA
1 AAATGTTTTCA
79650 AAA
1 AAA
79653 CTATATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 20 0.49
12 17 0.41
13 2 0.05
14 2 0.05
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:79647 original size:12 final size:12
Alignment explanation
Indices: 79592--79652 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
79582 TATAATATAT
79592 AAATGTTTTC-A
1 AAATGTTTTCAA
79603 AAATGTTTTCAA
1 AAATGTTTTCAA
* * *
79615 AACTATATTCATA
1 AAATGTTTTCA-A
79628 TAAA--TTTTCAA
1 -AAATGTTTTCAA
79639 AAATGTTTTCAA
1 AAATGTTTTCAA
79651 AA
1 AA
79653 CTATATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 3 0.08
11 11 0.28
12 23 0.57
13 1 0.03
14 2 0.05
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (12 bp):
AAATGTTTTCAA
Found at i:79677 original size:34 final size:35
Alignment explanation
Indices: 79575--79701 Score: 134
Period size: 36 Copynumber: 3.5 Consensus size: 35
79565 TTTTTTTAAA
79575 AAAACTATATAATATATAAATGTTTTCAAAATGTTTTC
1 AAAACTATAT-ATATAT-AA-GTTTTCAAAATGTTTTC
*
79613 AAAACTATAT-TCATATAAATTTTCAAAAATGTTTTC
1 AAAACTATATAT-ATATAAGTTTTC-AAAATGTTTTC
*
79649 AAAACTATATATATATACGTTTTC-AAATGCTTTT-
1 AAAACTATATATATATAAGTTTTCAAAATG-TTTTC
*
79683 AATATAATATATATATATA
1 AA-A-ACTATATATATATA
79702 TTATATATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 14
0.81 0.04 0.14
Matches are distributed among these distances:
34 7 0.09
35 10 0.13
36 47 0.59
37 5 0.06
38 10 0.13
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (35 bp):
AAAACTATATATATATAAGTTTTCAAAATGTTTTC
Found at i:79696 original size:2 final size:2
Alignment explanation
Indices: 79684--79753 Score: 119
Period size: 2 Copynumber: 36.5 Consensus size: 2
79674 AATGCTTTTA
79684 AT AT A- AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79724 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79754 CTTCAAAATG
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.05
2 62 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86409 original size:20 final size:20
Alignment explanation
Indices: 86381--86473 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
86371 ACTCAGTTTC
* *
86381 TAAATTCGCAACACGAATGTG
1 TAAA-TCGCAACGCGAATCTG
** * * *
86402 TAAATCGCATTGCGATTTTC
1 TAAATCGCAACGCGAATCTG
*
86422 CAAATTCGCAACGCGAATCTG
1 TAAA-TCGCAACGCGAATCTG
*
86443 TAATTCGCAACGCGAATCTG
1 TAAATCGCAACGCGAATCTG
*
86463 TAATTCGCAAC
1 TAAATCGCAAC
86474 ATAGAAGTCA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (20 bp):
TAAATCGCAACGCGAATCTG
Found at i:86487 original size:20 final size:20
Alignment explanation
Indices: 86464--86512 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
86454 GCGAATCTGT
*
86464 AATTCGCAACATAGAAGTCA
1 AATTCGCAACACAGAAGTCA
*
86484 AATTCGCAACACATAAGTCA
1 AATTCGCAACACAGAAGTCA
86504 AATTCGCAA
1 AATTCGCAA
86513 AGCGCGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.20
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:86491 original size:81 final size:81
Alignment explanation
Indices: 86341--86491 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
86331 AAATGACCAA
* ** * *
86341 CAAATTCGCAACGCGAACTCTAATTTCGCAACTCAGTTTCTAAATTCGCAACACGAATGTGTAAA
1 CAAATTCGCAACGCGAACTCTAATTTCGCAACGCAGAATCTAAATTCGCAACAAGAATGTGCAAA
86406 TCGCATTGCGATTTTC
66 TCGCATTGCGATTTTC
* *
86422 CAAATTCGCAACGCGAATCTGTAA-TTCGCAACGC-GAATCTGTAATTCGCAACATAGAA-GT-C
1 CAAATTCGCAACGCGAA-CTCTAATTTCGCAACGCAGAATCT-AAATTCGCAACA-AGAATGTGC
86483 AAATTCGCA
63 AAA-TCGCA
86492 ACACATAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
80 7 0.12
81 44 0.75
82 8 0.14
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (81 bp):
CAAATTCGCAACGCGAACTCTAATTTCGCAACGCAGAATCTAAATTCGCAACAAGAATGTGCAAA
TCGCATTGCGATTTTC
Found at i:86715 original size:22 final size:22
Alignment explanation
Indices: 86660--86717 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
86650 TCACTCTCTA
* * *
86660 CGGCGACATCCATCCCCATCTT
1 CGGCGAAATCCGTCCCCATCTC
*
86682 CGACGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
86704 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
86718 TATCTCCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.43, G:0.17, T:0.19
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:87074 original size:20 final size:20
Alignment explanation
Indices: 87051--87101 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
87041 TTTGAAACTT
87051 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
87071 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACACGAAAATG
*
87091 AAAACCGCAAC
1 AAAATCGCAAC
87102 TCGATTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.53, C:0.24, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:88914 original size:63 final size:63
Alignment explanation
Indices: 88847--88967 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
88837 AGGTCGGTAC
* * *
88847 TTTACGTGACGACAATGGTGCATGGCGTGATGAGGTAT-GACCTTTACGTGGTGAGGTAGAGGT
1 TTTACGCGACGACAATGGTGCATGACGTGATGAGGTATCGA-CTTTACGTGATGAGGTAGAGGT
* * * * *
88910 TTTACGCGATGACAATGGTGCTTTACGTGGTGAGGTATCTACTTTACGTGATGAGGTA
1 TTTACGCGACGACAATGGTGCATGACGTGATGAGGTATCGACTTTACGTGATGAGGTA
88968 ACCGCTCTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 48 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.33, T:0.31
Consensus pattern (63 bp):
TTTACGCGACGACAATGGTGCATGACGTGATGAGGTATCGACTTTACGTGATGAGGTAGAGGT
Found at i:89144 original size:42 final size:41
Alignment explanation
Indices: 89092--89210 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 41
89082 GATTCATCTG
*
89092 TCATCGTTCAAGAG-GCCTCTCATGTCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGCCCCTCTCA--TCGTTCAAGAGGCCCCTA
*
89134 TCATCCTTCAAGAAGCCCCTCTCATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAG-AGCCCCTCTCATCGTTCAAGAGGCCCCTA
* * *
89176 TCATCGTTCAAGATGTCCCTCCCACCGTTCAAGAG
1 TCATCGTTCAAGA-GCCCCTCTCATCGTTCAAGAG
89211 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 58 0.85
43 2 0.03
44 7 0.10
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (41 bp):
TCATCGTTCAAGAGCCCCTCTCATCGTTCAAGAGGCCCCTA
Found at i:89195 original size:21 final size:21
Alignment explanation
Indices: 89092--89188 Score: 133
Period size: 21 Copynumber: 4.6 Consensus size: 21
89082 GATTCATCTG
*
89092 TCATCGTTCAAGAGGCCTCTCA
1 TCATCGTTCAAGAGGCCCCT-A
*
89114 T-GTCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
* * *
89134 TCATCCTTCAAGAAGCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
89155 TCATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
89176 TCATCGTTCAAGA
1 TCATCGTTCAAGA
89189 TGTCCCTCCC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
20 2 0.03
21 62 0.95
22 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.26
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:89207 original size:63 final size:62
Alignment explanation
Indices: 89092--89213 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 62
89082 GATTCATCTG
* * *
89092 TCATCGTTCAAGAGGCCTCTCATGTCGTTCAAGAGGCCCCTATCATCCTTCAAGAAGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCATATCGTTCAAGAGGCCCCTACCATCCTTCAAG-AGCCCCTC
* * *
89155 TCATCGTTCAAGAGGCCCCT-ATCATCGTTCAAGATGTCCCTCCCA-CCGTTCAAGAGCCC
1 TCATCGTTCAAGAGGCCCCTCAT-ATCGTTCAAGAGGCCCCTACCATCC-TTCAAGAGCCC
89214 GATTCACATG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
62 9 0.18
63 42 0.82
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (62 bp):
TCATCGTTCAAGAGGCCCCTCATATCGTTCAAGAGGCCCCTACCATCCTTCAAGAGCCCCTC
Found at i:90589 original size:14 final size:15
Alignment explanation
Indices: 90570--90608 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
90560 GCTTGTTTAA
90570 TTGATTTGTAAAA-G
1 TTGATTTGTAAAAGG
*
90584 TTGATTTATAAAAGTG
1 TTGATTTGTAAAAG-G
90600 TTGATTTGT
1 TTGATTTGT
90609 TTAATTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (15 bp):
TTGATTTGTAAAAGG
Found at i:90788 original size:29 final size:30
Alignment explanation
Indices: 90754--90832 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 30
90744 TTTCGCGTTT
90754 CGAATTTGACTTTCGCAAC-AATCGCAACG
1 CGAATTTGACTTTCGCAACAAATCGCAACG
90783 CGAATTTGACTTTCGCAACAAAAAATCGCAACG
1 CGAATTTGACTTTCGCAAC---AAATCGCAACG
*
90816 TGAATTTGACTTTCGCA
1 CGAATTTGACTTTCGCA
90833 TTGCGAATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 19 0.42
33 26 0.58
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (30 bp):
CGAATTTGACTTTCGCAACAAATCGCAACG
Found at i:93365 original size:24 final size:24
Alignment explanation
Indices: 93331--93384 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
93321 CTGAAACATC
93331 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
93355 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
93379 ATCAAA
1 ATCAAA
93385 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:94161 original size:14 final size:15
Alignment explanation
Indices: 94127--94164 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
94117 GAAATCATTG
94127 AAAAATTATATAGAA
1 AAAAATTATATAGAA
94142 ATAAAATTATATA-AA
1 A-AAAATTATATAGAA
94157 AAAAATTA
1 AAAAATTA
94165 GAGACGGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:94320 original size:18 final size:18
Alignment explanation
Indices: 94297--94368 Score: 90
Period size: 18 Copynumber: 3.9 Consensus size: 18
94287 TACCCAAAAG
94297 TGTTGCGAAACTAAAACC
1 TGTTGCGAAACTAAAACC
* *
94315 TGTTGCGAAATTAAAATTCG
1 TGTTGCGAAACTAAAA--CC
*
94335 TGTTGTGAAACTAAAACC
1 TGTTGCGAAACTAAAACC
*
94353 TGTTGCGAAATTAAAA
1 TGTTGCGAAACTAAAA
94369 TTCGTGTTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
18 30 0.67
20 15 0.33
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (18 bp):
TGTTGCGAAACTAAAACC
Found at i:94344 original size:20 final size:20
Alignment explanation
Indices: 94296--94421 Score: 102
Period size: 20 Copynumber: 6.5 Consensus size: 20
94286 ATACCCAAAA
*
94296 GTGTTGCGAAACTAAAA--C
1 GTGTTGCGAAATTAAAATTC
*
94314 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
* *
94334 GTGTTGTGAAACTAAAA--C
1 GTGTTGCGAAATTAAAATTC
*
94352 CTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
*
94372 GTGTTACG-AATTCGAAAA-TC
1 GTGTTGCGAAATT--AAAATTC
* **
94392 GAGTTGCGAAAACAAAATTC
1 GTGTTGCGAAATTAAAATTC
*
94412 GCGTTGCGAA
1 GTGTTGCGAA
94422 TTCAGAAATC
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
18 30 0.35
19 8 0.09
20 41 0.48
21 6 0.07
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:94347 original size:38 final size:38
Alignment explanation
Indices: 94296--94381 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
94286 ATACCCAAAA
94296 GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAAATTC
*
94334 GTGTTGTGAAACTAAAACCTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAAATTC
*
94372 GTGTTACGAA
1 GTGTTGCGAA
94382 TTCGAAAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (38 bp):
GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAAATTC
Found at i:94431 original size:40 final size:40
Alignment explanation
Indices: 94354--94441 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
94344 ACTAAAACCT
** * *
94354 GTTGCGAAATTAAAATTCGTGTTACGAATTCGAAAATCGA
1 GTTGCGAAAACAAAATTCGCGTTACGAATTCGAAAATCAA
*
94394 GTTGCGAAAACAAAATTCGCGTTGCGAATTC-AGAAATCAA
1 GTTGCGAAAACAAAATTCGCGTTACGAATTCGA-AAATCAA
*
94434 GTTTCGAA
1 GTTGCGAA
94442 TTTGAAATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCGCGTTACGAATTCGAAAATCAA
Found at i:95248 original size:38 final size:37
Alignment explanation
Indices: 95206--95317 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 37
95196 ATATATTTGT
*
95206 AATAATATATTCGTATTTAAATTGAATATAAATTCATA
1 AATAATATATTCGTATTT-AATCGAATATAAATTCATA
* * * * *
95244 AATAATATTTTTGTATTTAAGCAAATATAAATTTATA
1 AATAATATATTCGTATTTAATCGAATATAAATTCATA
* *
95281 AATAACATATTCATATTTCAATCGAATA-AAAGTTCAT
1 AATAATATATTCGTATTT-AATCGAATATAAA-TTCAT
95318 TATAACATAT
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
37 32 0.54
38 27 0.46
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (37 bp):
AATAATATATTCGTATTTAATCGAATATAAATTCATA
Found at i:96795 original size:51 final size:51
Alignment explanation
Indices: 96719--96848 Score: 172
Period size: 51 Copynumber: 2.5 Consensus size: 51
96709 TTAGCAGGAA
* * * *
96719 AGCGCGCCCCCTGCACTGCGCTATACGCTGATTTGGTGT-CATGTGGAGTAT
1 AGCGCGCCCCCTGAACAGCGCTATACGCTGACTGGGT-TACATGTGGAGTAT
* * *
96770 AGCGCGCCACCTGAACCGCGCTATACGCTGACTGGGTTACATGTGGGGTAT
1 AGCGCGCCCCCTGAACAGCGCTATACGCTGACTGGGTTACATGTGGAGTAT
*
96821 AGCGCGCCCCCTGATCAGCGCTATACGC
1 AGCGCGCCCCCTGAACAGCGCTATACGC
96849 CACGTAGGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.01
51 68 0.99
ACGTcount: A:0.18, C:0.31, G:0.29, T:0.22
Consensus pattern (51 bp):
AGCGCGCCCCCTGAACAGCGCTATACGCTGACTGGGTTACATGTGGAGTAT
Found at i:102079 original size:16 final size:17
Alignment explanation
Indices: 102060--102091 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
102050 AGAGGATCTC
102060 AACAGTACC-GAGCTCT
1 AACAGTACCGGAGCTCT
102076 AACAGTACCGGAGCTC
1 AACAGTACCGGAGCTC
102092 ACTCAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (17 bp):
AACAGTACCGGAGCTCT
Found at i:104766 original size:73 final size:73
Alignment explanation
Indices: 104654--104795 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 73
104644 TAAAATGGGC
* ** *
104654 CCCACTAAATTATTATATTTTTGAGTTTTTAAAAT-AAAAAATGATGTTTAAAAATATTTTTTAA
1 CCCACTAAATTATCATATTTTCAAGTATTTAAAATAAAAAAAT-ATGTTTAAAAATATTTTTTAA
104718 TTATTGGAG
65 TTATTGGAG
*
104727 CCCATTAAATTATCATATTTTCAAGTATTTAAAATAAAAAAATATGTTTAAAAATATTTTTTAAT
1 CCCACTAAATTATCATATTTTCAAGTATTTAAAATAAAAAAATATGTTTAAAAATATTTTTTAAT
104792 TATT
66 TATT
104796 AAACTTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 56 0.89
74 7 0.11
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (73 bp):
CCCACTAAATTATCATATTTTCAAGTATTTAAAATAAAAAAATATGTTTAAAAATATTTTTTAAT
TATTGGAG
Found at i:109819 original size:6 final size:6
Alignment explanation
Indices: 109808--109843 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
109798 ACCTTTTACA
109808 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
109844 GTAAAAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:111807 original size:21 final size:21
Alignment explanation
Indices: 111772--111831 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
111762 TGCTATAATG
111772 AATGGTCAATTTGAAAAATTA
1 AATGGTCAATTTGAAAAATTA
* * *
111793 AGA-GGTTAGTTTGAAATATTA
1 A-ATGGTCAATTTGAAAAATTA
111814 AATGGTCAATTTGAAAAA
1 AATGGTCAATTTGAAAAA
111832 CTAGTAAGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (21 bp):
AATGGTCAATTTGAAAAATTA
Found at i:113200 original size:215 final size:215
Alignment explanation
Indices: 112787--113212 Score: 705
Period size: 216 Copynumber: 2.0 Consensus size: 215
112777 TTAAATGATC
*
112787 AATATTTATTATCTTCTCTGTTATTAATACAAGTGTTTATATTTTTTTTGAATATTTAATAGTTT
1 AATATTTATTATCTTCTCTGTTATTAATACAAGTGTTTATATTTTTTTTAAATATTTAATAGTTT
* *
112852 ATCGATATCTATGTGTATGATTTGTACTTGAGAGAAGAGCCTATGCGAAAGAAATTTATATTTGC
66 ATCGATATCTATATGTATGATTTGTACTTGAGAGAAGAGCCTATGCGAAAGAAAGTTATATTTGC
112917 ATCTGTCCTTTCAAGTAAAAATTAATTTATGGGTTACGTTTCACATTATTTTTAGTCTATGATTT
131 ATCTGTCCTTTCAAGTAAAAATTAATTTATGGGTTACGTTTCACATTATTTTTAGTCTATGATTT
112982 CATG-ACATTTTCAAATATTT
196 CATGAAC-TTTTCAAATATTT
* * * *
113002 AATAGTTTATTATTTTGTCTGTTATTAATATAAGTGTTTGTATTTTTTTTAAATATTTAATAGTT
1 AATA-TTTATTATCTTCTCTGTTATTAATACAAGTGTTTATATTTTTTTTAAATATTTAATAGTT
*
113067 TATCGATCTCTATATGTATGATTTGTACTTGAGAGAAGAGCCTATGCGAAAG-AAGTTATATTTG
65 TATCGATATCTATATGTATGATTTGTACTTGAGAGAAGAGCCTATGCGAAAGAAAGTTATATTTG
* * *
113131 TC-TTTGTCCTTTCGAGTAAAAATTAATTTATGGGTTACGTTTCACATTATTTTTAGTTTATGAT
130 -CATCTGTCCTTTCAAGTAAAAATTAATTTATGGGTTACGTTTCACATTATTTTTAGTCTATGAT
113195 TTCATGAACTTTTCAAAT
194 TTCATGAACTTTTCAAAT
113213 TTAATGTTTG
Statistics
Matches: 197, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
215 89 0.45
216 108 0.55
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (215 bp):
AATATTTATTATCTTCTCTGTTATTAATACAAGTGTTTATATTTTTTTTAAATATTTAATAGTTT
ATCGATATCTATATGTATGATTTGTACTTGAGAGAAGAGCCTATGCGAAAGAAAGTTATATTTGC
ATCTGTCCTTTCAAGTAAAAATTAATTTATGGGTTACGTTTCACATTATTTTTAGTCTATGATTT
CATGAACTTTTCAAATATTT
Found at i:120551 original size:6 final size:6
Alignment explanation
Indices: 120542--120574 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
120532 GTGGTGGTGG
120542 TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA TGG
1 TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA TGG
120575 TGGGACATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.36, T:0.18
Consensus pattern (6 bp):
TGGCAA
Found at i:123145 original size:16 final size:16
Alignment explanation
Indices: 123124--123154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123114 GCAATACTTT
123124 TATTCACTTTATTTTC
1 TATTCACTTTATTTTC
*
123140 TATTCATTTTATTTT
1 TATTCACTTTATTTT
123155 AGTCCTATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTCACTTTATTTTC
Found at i:124114 original size:45 final size:45
Alignment explanation
Indices: 124065--124165 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
124055 TAATTATATG
* *
124065 TCTTTATATTGAAAGAATAAATTTGTTTGTTGTACATTATTTGTT
1 TCTTTATATTGAAAGAATAAATTTGTGTGTTGTACATTATTTATT
* * * *
124110 TCTTTAGATTTAAAGATTATATTTGTGTGTTGTACATTATTTATT
1 TCTTTATATTGAAAGAATAAATTTGTGTGTTGTACATTATTTATT
124155 TCTTTTATATT
1 TC-TTTATATT
124166 TTTCCTCACA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 41 0.85
46 7 0.15
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (45 bp):
TCTTTATATTGAAAGAATAAATTTGTGTGTTGTACATTATTTATT
Found at i:124436 original size:44 final size:44
Alignment explanation
Indices: 124387--124481 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
124377 GAAAGTCTGT
* *
124387 AATGGACCAGGATTGAGGGTTTGACAGTCCAAGAGGACACCAAC
1 AATGGACCAAGATTAAGGGTTTGACAGTCCAAGAGGACACCAAC
124431 AATGGACCAAGATTAAGGGTTTGACAGTCCAAGAGGACACCAAC
1 AATGGACCAAGATTAAGGGTTTGACAGTCCAAGAGGACACCAAC
*
124475 AAAGGAC
1 AATGGAC
124482 AATTCGTTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (44 bp):
AATGGACCAAGATTAAGGGTTTGACAGTCCAAGAGGACACCAAC
Found at i:125075 original size:20 final size:20
Alignment explanation
Indices: 125038--125077 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
125028 TTTCATTTTA
*
125038 CATTCACATATTTGCATTTG
1 CATTCACATATTTACATTTG
* *
125058 CATTCGCATCTTTACATTTG
1 CATTCACATATTTACATTTG
125078 TATTTATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (20 bp):
CATTCACATATTTACATTTG
Done.