Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000841.1 Hibiscus syriacus cultivar Beakdansim tig00001623_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: 66347
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:7048 original size:11 final size:11
Alignment explanation
Indices: 7032--7062 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7022 TAAAAACAGT
7032 AAATAAAATGA
1 AAATAAAATGA
7043 AAATAAAATGA
1 AAATAAAATGA
*
7054 AAAGAAAAT
1 AAATAAAAT
7063 AATCCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:7051 original size:16 final size:16
Alignment explanation
Indices: 7032--7064 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7022 TAAAAACAGT
7032 AAAT-AAAATGAAAATA
1 AAATGAAAA-GAAAATA
7048 AAATGAAAAGAAAATA
1 AAATGAAAAGAAAATA
7064 A
1 A
7065 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATGAAAAGAAAATA
Found at i:7583 original size:24 final size:24
Alignment explanation
Indices: 7539--7588 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
7529 ATAAAGAACC
*
7539 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
7563 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
7587 AA
1 AA
7589 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:8919 original size:35 final size:35
Alignment explanation
Indices: 8873--8942 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
8863 AATACTCATG
* *
8873 GGGTATCGATACTGAA-GTGGTAGTATTGGTACCAT
1 GGGTATCGATAC-CAATGGGGTAGTATTGGTACCAT
* *
8908 GGGTATTGATACCAATGGGGTGGTATTGGTACCAT
1 GGGTATCGATACCAATGGGGTAGTATTGGTACCAT
8943 TTCTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.24, C:0.11, G:0.33, T:0.31
Consensus pattern (35 bp):
GGGTATCGATACCAATGGGGTAGTATTGGTACCAT
Found at i:10222 original size:2 final size:2
Alignment explanation
Indices: 10215--10244 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10205 TGACAATAAG
10215 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
10245 GTACATGTGA
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:12250 original size:183 final size:183
Alignment explanation
Indices: 11940--12285 Score: 487
Period size: 183 Copynumber: 1.9 Consensus size: 183
11930 AAGTTTCCAA
* * * * *
11940 TTTGTAGTACCTTTAAGATACTTAGGTAGGCGTCTCATCATGGTTCAATGTTCACCACTTGGACT
1 TTTGTAGTACCTTTAAGATACTTAAGTAAGCGTATCATCATGGTCCAATGTTCACCACTTAGACT
* * * * * ** *
12005 ATGAGTATATCTACTTAATCTACTCACAATATAGACAATATCTAGCAGAGTGTAGTTCATTAATA
66 ATGAATATATCTACTTAATATACTCACAACATAGACAATATATAGCAGAGTATACCTCATTAAGA
*
12070 AAATAAGGCTCCAT-ATGGTTTTAACATACTTTTTTTTGGGAAACACTACTTCC
131 AAATAAGGCT-CATGATAGTTTTAACATACTTTTTTTTGGGAAACACTACTTCC
** *
12123 TTTGTAGTACCTTTAAGATACTTAAGTAAGCGTATCATTGTGGTCCAATGTTCACCACTTAGATT
1 TTTGTAGTACCTTTAAGATACTTAAGTAAGCGTATCATCATGGTCCAATGTTCACCACTTAGACT
* * *
12188 ATGAATATATCTACTTAATATACTCACAACATAGGCAATATATGGCAGAGTATACCTCATTAAGC
66 ATGAATATATCTACTTAATATACTCACAACATAGACAATATATAGCAGAGTATACCTCATTAAGA
*
12253 ACATAAGGCTCATGATAGTTTTAACATACTTTT
131 AAATAAGGCTCATGATAGTTTTAACATACTTTT
12286 GTTAGGAAAC
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
182 3 0.02
183 138 0.98
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (183 bp):
TTTGTAGTACCTTTAAGATACTTAAGTAAGCGTATCATCATGGTCCAATGTTCACCACTTAGACT
ATGAATATATCTACTTAATATACTCACAACATAGACAATATATAGCAGAGTATACCTCATTAAGA
AAATAAGGCTCATGATAGTTTTAACATACTTTTTTTTGGGAAACACTACTTCC
Found at i:14174 original size:43 final size:43
Alignment explanation
Indices: 14118--14302 Score: 228
Period size: 43 Copynumber: 4.3 Consensus size: 43
14108 ACCAGATCTT
* * * * * *
14118 TTGCGGCGCTTGTGGGAAAAATGCCGCAAAATCTCAAGACATA
1 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTA
* * * * *
14161 TTGCGGTGTTTGTGTAAAAAAACGCTGCTAAATCTCAATACTTA
1 TTGCGGCGTTTGTG-GAAAAAACGCCGCTAAATCTCAACACCTA
14205 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTA
* *
14248 TTGCGGCGTTTGTTGG-AAAAACGTCGCTAAATATCAACACCTA
1 TTGCGGCGTTTG-TGGAAAAAACGCCGCTAAATCTCAACACCTA
14291 TTGCGGCGTTTG
1 TTGCGGCGTTTG
14303 AACACCGCTA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 86 0.69
44 38 0.31
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTA
Found at i:14225 original size:87 final size:86
Alignment explanation
Indices: 14118--14302 Score: 237
Period size: 87 Copynumber: 2.1 Consensus size: 86
14108 ACCAGATCTT
* * * * *
14118 TTGCGGCGCTTGTGGGAAAAATGCCGCAAAATCTCAAGACATATTGCGGTGTTTGTGTAAAAAAA
1 TTGCGGCGTTTGTGGAAAAAACGCCGCAAAATCTCAACACATATTGCGGCGTTTGT-TAAAAAAA
* * *
14183 CG-CTGCTAAATCTCAATACTTA
65 CGTC-GCTAAATATCAACACCTA
* * **
14205 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTTGGAAAAAC
1 TTGCGGCGTTTGTGGAAAAAACGCCGCAAAATCTCAACACATATTGCGGCGTTTGTTAAAAAAAC
14270 GTCGCTAAATATCAACACCTA
66 GTCGCTAAATATCAACACCTA
14291 TTGCGGCGTTTG
1 TTGCGGCGTTTG
14303 AACACCGCTA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 35 0.41
87 50 0.59
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (86 bp):
TTGCGGCGTTTGTGGAAAAAACGCCGCAAAATCTCAACACATATTGCGGCGTTTGTTAAAAAAAC
GTCGCTAAATATCAACACCTA
Found at i:22297 original size:19 final size:21
Alignment explanation
Indices: 22255--22297 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
22245 CAAAATATTT
*
22255 TATATATTCTAAAATCTGGTA
1 TATATATTCTAAAATCTGGAA
*
22276 TATATA-TC-AAAATCTTGAA
1 TATATATTCTAAAATCTGGAA
22295 TAT
1 TAT
22298 CATAACCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (21 bp):
TATATATTCTAAAATCTGGAA
Found at i:23356 original size:14 final size:14
Alignment explanation
Indices: 23334--23380 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
23324 TGCAAAGGAA
*
23334 AATTAATATAGTTT
1 AATTTATATAGTTT
23348 AATTTATATA----
1 AATTTATATAGTTT
23358 AA-TTATATAGTTT
1 AATTTATATAGTTT
23371 AATTTATATA
1 AATTTATATA
23381 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:23367 original size:23 final size:24
Alignment explanation
Indices: 23333--23382 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
23323 ATGCAAAGGA
23333 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
23357 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
23380 AAA
1 AAA
23383 GAAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:23560 original size:7 final size:7
Alignment explanation
Indices: 23548--23639 Score: 91
Period size: 7 Copynumber: 13.3 Consensus size: 7
23538 TCTATTTATA
23548 TTATGGT
1 TTATGGT
23555 TTATGGT
1 TTATGGT
23562 TTA-GTGT
1 TTATG-GT
23569 TTATGGT
1 TTATGGT
**
23576 TTAAAGT
1 TTATGGT
23583 TTATGGT
1 TTATGGT
*
23590 TTACGGT
1 TTATGGT
23597 TTATGGT
1 TTATGGT
23604 TTA-GTGT
1 TTATG-GT
23611 TTATGGT
1 TTATGGT
*
23618 TTA-AGT
1 TTATGGT
*
23624 TTAGGGT
1 TTATGGT
*
23631 TTAGGGT
1 TTATGGT
23638 TT
1 TT
23640 CTATAAACTA
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
6 7 0.10
7 63 0.88
8 2 0.03
ACGTcount: A:0.17, C:0.01, G:0.28, T:0.53
Consensus pattern (7 bp):
TTATGGT
Found at i:23572 original size:14 final size:14
Alignment explanation
Indices: 23553--23639 Score: 106
Period size: 14 Copynumber: 6.3 Consensus size: 14
23543 TTATATTATG
*
23553 GTTTATGGTTTAGT
1 GTTTATGGTTTAGA
*
23567 GTTTATGGTTTAAA
1 GTTTATGGTTTAGA
23581 GTTTATGGTTTACG-
1 GTTTATGGTTTA-GA
*
23595 GTTTATGGTTTAGT
1 GTTTATGGTTTAGA
23609 GTTTATGGTTTA-A
1 GTTTATGGTTTAGA
* *
23622 GTTTAGGGTTTAGG
1 GTTTATGGTTTAGA
23636 GTTT
1 GTTT
23640 CTATAAACTA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.19
14 52 0.81
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.53
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:23726 original size:9 final size:9
Alignment explanation
Indices: 23712--23745 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
23702 AGTAATTTAT
23712 TTTATATAG
1 TTTATATAG
23721 TTTATATA-
1 TTTATATAG
*
23729 TATATATAG
1 TTTATATAG
23738 TTTATATA
1 TTTATATA
23746 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:23763 original size:20 final size:18
Alignment explanation
Indices: 23714--23752 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
23704 TAATTTATTT
23714 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
23731 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
23749 TATA
1 TATA
23753 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:23817 original size:15 final size:15
Alignment explanation
Indices: 23771--23825 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
23761 ATACATACAT
*
23771 ATTATATAAA-ATTA
1 ATTATATAAATATAA
*
23785 TTTA-ATAAATTAATAA
1 ATTATATAAA-T-ATAA
*
23801 ATTATTTAAATATAA
1 ATTATATAAATATAA
23816 ATTATATAAA
1 ATTATATAAA
23826 ACATGATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.16
14 3 0.09
15 13 0.41
16 7 0.22
17 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTATATAAATATAA
Found at i:24128 original size:21 final size:21
Alignment explanation
Indices: 24099--24150 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
24089 TCCATTTATA
* * *
24099 TTAGGGTTTATGATTTACTGT
1 TTAGAGTTTATAATTTACGGT
* *
24120 TTAGTGTTTATAATTTAGGGT
1 TTAGAGTTTATAATTTACGGT
24141 TTAGAGTTTA
1 TTAGAGTTTA
24151 GGGTTTCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.52
Consensus pattern (21 bp):
TTAGAGTTTATAATTTACGGT
Found at i:24150 original size:14 final size:14
Alignment explanation
Indices: 24118--24156 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
24108 ATGATTTACT
* *
24118 GTTTAGTGTTTATA
1 GTTTAGGGTTTAGA
*
24132 ATTTAGGGTTTAGA
1 GTTTAGGGTTTAGA
24146 GTTTAGGGTTT
1 GTTTAGGGTTT
24157 CTATAAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:24299 original size:20 final size:20
Alignment explanation
Indices: 24234--24307 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
24224 TAAACTTTAT
*
24234 ATAGTTTATATATA-TATAT
1 ATAGTTTATATATACTATAC
*
24253 ATA-TATATATATATA-TATAT
1 ATAGT-T-TATATATACTATAC
24273 ATAGTTTATATATACTATAC
1 ATAGTTTATATATACTATAC
*
24293 ATGGTTTATATATAC
1 ATAGTTTATATATAC
24308 ATATTATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 35 0.71
21 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (20 bp):
ATAGTTTATATATACTATAC
Found at i:24303 original size:39 final size:39
Alignment explanation
Indices: 24231--24311 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
24221 TAATAAACTT
* *
24231 TATATAGTTTATATATATATATATATATATATATATATA
1 TATATAGTTTATATATATATACATATATATATATATACA
*
24270 TATATAGTTTATATATACTATACATGGT-T-TATATATACA
1 TATATAGTTTATATATA-TATACAT-ATATATATATATACA
24309 TAT
1 TAT
24312 TATATTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 29 0.78
40 7 0.19
41 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (39 bp):
TATATAGTTTATATATATATACATATATATATATATACA
Found at i:24306 original size:2 final size:2
Alignment explanation
Indices: 24240--24291 Score: 77
Period size: 2 Copynumber: 25.0 Consensus size: 2
24230 TTATATAGTT
*
24240 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
24283 TA TA CTA TA
1 TA TA -TA TA
24292 CATGGTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 43 0.93
3 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25179 original size:21 final size:21
Alignment explanation
Indices: 25155--25197 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
25145 AGTACTTATG
25155 GTTTAA-AGTTTAGGGTTTAGA
1 GTTTAAGA-TTTAGGGTTTAGA
*
25176 GTTTATGATTTAGGGTTTAGA
1 GTTTAAGATTTAGGGTTTAGA
25197 G
1 G
25198 ATTCTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (21 bp):
GTTTAAGATTTAGGGTTTAGA
Found at i:25187 original size:14 final size:14
Alignment explanation
Indices: 25129--25194 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
25119 TTAATTTTCA
*
25129 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
*
25143 TTAGTA-CTTATGGT
1 TTAG-AGTTTATGGT
* *
25157 TTAAAGTTTAGGGT
1 TTAGAGTTTATGGT
*
25171 TTAGAGTTTATGAT
1 TTAGAGTTTATGGT
*
25185 TTAGGGTTTA
1 TTAGAGTTTA
25195 GAGATTCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
13 1 0.02
14 40 0.98
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:25292 original size:2 final size:2
Alignment explanation
Indices: 25287--25339 Score: 63
Period size: 2 Copynumber: 26.5 Consensus size: 2
25277 TTATATAGTT
* *
25287 TA TA TA TA TA TA TA TA TA TA TA TA TA TG T- TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
25328 GTT TA TA TA TA T
1 -TA TA TA TA TA T
25340 TATTATACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25412 original size:14 final size:14
Alignment explanation
Indices: 25395--25459 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
25385 AGTTTAGGGG
25395 TTAGGGTTTAGAGT
1 TTAGGGTTTAGAGT
* * *
25409 TTAGGATTAATAGT
1 TTAGGGTTTAGAGT
25423 TTAGGGTTTACGA-T
1 TTAGGGTTTA-GAGT
*
25437 TTAGGATTTA-AGGT
1 TTAGGGTTTAGA-GT
*
25451 TTAGAGTTT
1 TTAGGGTTT
25460 TATAAACTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
12 1 0.03
14 37 0.95
15 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTAGAGT
Found at i:25991 original size:2 final size:2
Alignment explanation
Indices: 25984--26211 Score: 106
Period size: 2 Copynumber: 115.0 Consensus size: 2
25974 ACTTTGAATA
*
25984 AT AT AT AT AT AT AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * * * * *
26024 AGT TT AT AA ACT AT AT ACT TT TT AT AGT TT AT AC AT AT AT AGT TT
1 A-T AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT
* * * * *
26069 AC AT AT AT A- AT TT AT AT AT AT -T CAT AT AA AC AT A- AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
*
26109 AT AT A- ACT -T AT A- AT A- AT -T AT AT AGT TT AT A- AT AT A- AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* *
26146 AT AGT AT AT AT AT AGT TT AT AT AA ACT AT AT AT AT -T AT AT AT
1 AT A-T AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT
26188 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
26212 TTTTTTTTCA
Statistics
Matches: 171, Mismatches: 29, Indels: 52
0.68 0.12 0.21
Matches are distributed among these distances:
1 14 0.08
2 144 0.84
3 13 0.08
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26031 original size:29 final size:29
Alignment explanation
Indices: 25982--26039 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25972 TCACTTTGAA
* *
25982 TAATATATATATATATATATATACTATAT
1 TAATATAAATATATATATATAAACTATAT
*
26011 TAATATAAAT-TATAGTTTATAAACTATAT
1 TAATATAAATATATA-TATATAAACTATAT
26040 ACTTTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (29 bp):
TAATATAAATATATATATATAAACTATAT
Found at i:26066 original size:15 final size:15
Alignment explanation
Indices: 26046--26089 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
26036 ATATACTTTT
26046 TATAGTTTATACATA
1 TATAGTTTATACATA
26061 TATAG-TT-TACATA
1 TATAGTTTATACATA
* *
26074 TATAATTTATATATA
1 TATAGTTTATACATA
26089 T
1 T
26090 TCATATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:26071 original size:13 final size:13
Alignment explanation
Indices: 26055--26089 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26045 TTATAGTTTA
*
26055 TACATATATAGTT
1 TACATATATAATT
26068 TACATATATAATT
1 TACATATATAATT
*
26081 TATATATAT
1 TACATATAT
26090 TCATATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (13 bp):
TACATATATAATT
Found at i:26157 original size:46 final size:47
Alignment explanation
Indices: 25987--26206 Score: 126
Period size: 46 Copynumber: 4.7 Consensus size: 47
25977 TTGAATAATA
* *
25987 TATATATA-TATATATATACTATAT-TAATATAAATTATAGTT-TATAAAC
1 TATATATATTATATATATA-TATATAT-ATATATA-TA-ACTTATATAAAC
* * * * **
26035 TATATACT-TT-T-TATAGTTTATACATATATAGT-TTACATATATAATT
1 TATATA-TATTATATATA-TATATATATATATA-TATAACTTATATAAAC
* * *
26081 TATATATATTCATATA-A-ACATA-ATTTATATATAACTTATA-ATAAT
1 TATATATATT-ATATATATATATATATATATATATAACTTATATA-AAC
**
26126 TATATAGT-TTATA-ATATA-ATATAGTATATATATAGTTTATATAAAC
1 TATATA-TATTATATATATATATATA-TATATATATAACTTATATAAAC
26172 TATATATATTATATATATATATATATATATATATA
1 TATATATATTATATATATATATATATATATATATA
26207 TATATTTTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 43
0.69 0.09 0.22
Matches are distributed among these distances:
43 1 0.01
44 9 0.07
45 29 0.22
46 45 0.34
47 29 0.22
48 16 0.12
49 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (47 bp):
TATATATATTATATATATATATATATATATATATAACTTATATAAAC
Found at i:26157 original size:82 final size:79
Alignment explanation
Indices: 25981--26168 Score: 188
Period size: 82 Copynumber: 2.3 Consensus size: 79
25971 CTCACTTTGA
* * *
25981 ATAATATATATATATAT-ATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTT
1 ATAATATATATATATATAATTTATA-TATATTAATATAAAATATAGTTTATAAACTATATACATT
*
26045 TTATAGTTTATACAT
65 ATATAGTTTATACAT
* * * *
26060 AT-ATAGTTTACATATATAATTTATATATATTCATATAAACATA-ATTTATATATAACTTATAAT
1 ATAATA-TATATATATATAATTTATATATATTAATATAAA-ATATAGTT-TATA-AAC-TAT-AT
26123 A-ATTATATAGTTTATA-AT
60 ACATTATATAGTTTATACAT
*
26141 ATAATATAGTATATATATAGTTTATATA
1 ATAATATA-TATATATATAATTTATATA
26169 AACTATATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 27 0.30
80 12 0.13
81 8 0.09
82 36 0.40
83 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (79 bp):
ATAATATATATATATATAATTTATATATATTAATATAAAATATAGTTTATAAACTATATACATTA
TATAGTTTATACAT
Found at i:27819 original size:76 final size:74
Alignment explanation
Indices: 27734--27957 Score: 306
Period size: 77 Copynumber: 3.0 Consensus size: 74
27724 AAGCGTTTTG
* * *
27734 AATATATATATAATATATGATTTCTAAAACATTTTGAAAAATTATATATATTATATAGTTTTTAA
1 AATAAATATATAATATATGATTTTTAAAACATTTTG-AAAA-CATATATATTATATAGTTTTTAA
27799 AATATTTTGAA
64 AATATTTTGAA
* ** *
27810 AATAAATATATAATATATGGTTTTTCTAACATTTTGAAAACATATATATTATATAGGTTTTTTTT
1 AATAAATATATAATATATGATTTTTAAAACATTTTGAAAACATATATATTATATA-G--TTTTTA
*
27875 AAACATTTTGAA
63 AAATATTTTGAA
*
27887 AATAAATATATAATATATGATTTTTAAAGCATTTTTGAAAACATATATATTATATAG-TTTTAAA
1 AATAAATATATAATATATGATTTTTAAAACA-TTTTGAAAACATATATATTATATAGTTTTTAAA
27951 ATATTTT
65 ATATTTT
27958 TTGGAAAATA
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
74 26 0.20
75 5 0.04
76 31 0.24
77 44 0.34
78 24 0.18
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (74 bp):
AATAAATATATAATATATGATTTTTAAAACATTTTGAAAACATATATATTATATAGTTTTTAAAA
TATTTTGAA
Found at i:27884 original size:39 final size:38
Alignment explanation
Indices: 27700--27947 Score: 202
Period size: 38 Copynumber: 6.5 Consensus size: 38
27690 CAATACATTG
* * * *
27700 TATATAATATATAGTCTTTTTTAAAAGCGTTTTGAATATA
1 TATATATTATATAGT-TTTTTTTAAA-CATTTTGAAAATA
* * * *
27740 TATATAATATAT-G-ATTTCTAAAACATTTTGAAAAATTA
1 TATATATTATATAGTTTTTTTTAAACATTTTG-AAAA-TA
* *
27778 TATATATTATATAG--TTTTTAAAATATTTTGAAAATA
1 TATATATTATATAGTTTTTTTTAAACATTTTGAAAATA
* * * * *
27814 AATATATAATATATGGTTTTTCT-AACATTTTGAAAACA
1 TATATATTATATA-GTTTTTTTTAAACATTTTGAAAATA
27852 TATATATTATATAGGTTTTTTTTAAACATTTTGAAAATA
1 TATATATTATATA-GTTTTTTTTAAACATTTTGAAAATA
* * ** *
27891 AATATATAATATA-TGATTTTTAAAGCATTTTTGAAAACA
1 TATATATTATATAGTTTTTTTTAAA-CA-TTTTGAAAATA
27930 TATATATTATATAGTTTT
1 TATATATTATATAGTTTT
27948 AAAATATTTT
Statistics
Matches: 170, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
36 19 0.11
37 25 0.15
38 60 0.35
39 52 0.31
40 14 0.08
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (38 bp):
TATATATTATATAGTTTTTTTTAAACATTTTGAAAATA
Found at i:27975 original size:39 final size:38
Alignment explanation
Indices: 27777--28000 Score: 113
Period size: 39 Copynumber: 5.8 Consensus size: 38
27767 TTGAAAAATT
* * * *
27777 ATATATATTATATAGTTTT-TAAA-ATATTTTGAAAAT
1 ATATATATCATATAGTTTTAAAAACATTTTTTGAAAAC
* * ***
27813 AAATATATAATATATGGTTTTTCTAACA--TTTTGAAAAC
1 ATATATATCATATA--GTTTTAAAAACATTTTTTGAAAAC
* ** *
27851 ATATATATTATATAGGTTTTTTTTAAACA--TTTTGAAAAT
1 ATATATATCATATA-G--TTTTAAAAACATTTTTTGAAAAC
* * * *
27890 AAATATATAATATATGATTTTTAAAGCA-TTTTTGAAAAC
1 ATATATATCATATA-G-TTTTAAAAACATTTTTTGAAAAC
* * *
27929 ATATATATTATATAGTTTT-AAAATATTTTTTGGAAAAT
1 ATATATATCATATAGTTTTAAAAACATTTTTT-GAAAAC
*
27967 ATATTATATCATATGGTTTTGAAAAACATTTTTT
1 ATA-TATATCATATAGTTTT-AAAAACATTTTTT
28001 TTTAAATCAT
Statistics
Matches: 151, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
36 16 0.11
37 11 0.07
38 44 0.29
39 68 0.45
40 1 0.01
41 11 0.07
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (38 bp):
ATATATATCATATAGTTTTAAAAACATTTTTTGAAAAC
Found at i:28060 original size:22 final size:21
Alignment explanation
Indices: 28035--28082 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
28025 TTTTTAAAAA
* *
28035 TATTTTTTTTTATTTTTTTATT
1 TATTTTATTTTA-TTTATTATT
*
28057 TATTCTATTTTATTTATTATT
1 TATTTTATTTTATTTATTATT
28078 TATTT
1 TATTT
28083 GTTATCTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TATTTTATTTTATTTATTATT
Found at i:28067 original size:17 final size:16
Alignment explanation
Indices: 28043--28082 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
28033 AATATTTTTT
28043 TTTATTTT-TTTATTTA
1 TTTATTTTATTTA-TTA
28059 TTCTATTTTATTTATTA
1 TT-TATTTTATTTATTA
28076 TTTATTT
1 TTTATTT
28083 GTTATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTATTTATTA
Found at i:28069 original size:14 final size:12
Alignment explanation
Indices: 28037--28074 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
28027 TTTAAAAATA
28037 TTTTTT-TTTAT
1 TTTTTTATTTAT
28048 TTTTTTATTTAT
1 TTTTTTATTTAT
28060 TCTATTTTATTTAT
1 T-T-TTTTATTTAT
28074 T
1 T
28075 ATTTATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 1 0.04
14 11 0.46
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:32405 original size:19 final size:18
Alignment explanation
Indices: 32375--32417 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
32365 CAATCAGAAC
*
32375 AAAAAG-GAAAAAGAAAA
1 AAAAAGAGAAAAACAAAA
32392 AACAAAGAGAAAAACAAAA
1 AA-AAAGAGAAAAACAAAA
32411 AAAAAGA
1 AAAAAGA
32418 AACAAAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 12 0.52
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAAAACAAAA
Found at i:32424 original size:19 final size:19
Alignment explanation
Indices: 32382--32425 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
32372 AACAAAAAGG
* *
32382 AAAAAGAAAAAACAAAGAG
1 AAAAACAAAAAACAAAGAA
32401 AAAAACAAAAAA-AAAGAA
1 AAAAACAAAAAACAAAGAA
32419 ACAAAAC
1 A-AAAAC
32426 CCAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAACAAAAAACAAAGAA
Found at i:34039 original size:34 final size:34
Alignment explanation
Indices: 34001--34074 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
33991 GGATTCCAAC
* *
34001 TTCACAACGAAGGACGCCCAATTAAAAGCTTAAT
1 TTCACAACGAAGGACGCCCAATTAAAAACTCAAT
* *
34035 TTCACAATGAAGGACGTCCAATTAAAAACTCAAT
1 TTCACAACGAAGGACGCCCAATTAAAAACTCAAT
34069 TTCACA
1 TTCACA
34075 GCGTCGAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (34 bp):
TTCACAACGAAGGACGCCCAATTAAAAACTCAAT
Found at i:34341 original size:35 final size:37
Alignment explanation
Indices: 34302--34380 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
34292 AATTTACTCA
34302 AAACAAA-TTTT-TCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTTGTCTCTCTTGAGACAATTTCCCTTG
*
34337 AAACAAATTTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTTGTCTCTCTTGAGACAATTTCCCTTG
34374 AAACAAA
1 AAACAAA
34381 ATCTTTGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 7 0.17
36 4 0.10
37 30 0.73
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (37 bp):
AAACAAATTTTTGTCTCTCTTGAGACAATTTCCCTTG
Found at i:34443 original size:65 final size:66
Alignment explanation
Indices: 34332--34570 Score: 209
Period size: 65 Copynumber: 3.5 Consensus size: 66
34322 AGACAATTTC
* * * * *
34332 CCTTGAAACAAATTTTTGTCTCTCTTGAGACAGTTTCCCTTG-AAACAAAATCTTTGAATCTGTT
1 CCTTGAAACTAA-TTTCGTCTCCCTTGAGACAATTTCACTTGAAAACAAAATCTTTGAATCTGTT
*
34396 TT
65 TA
* **
34398 CCTTGAAACTGATTTCGTCTCGATTGAGACTAATTT-ACTT-AAAACAAATTTTATCTCTCTTGA
1 CCTTGAAACTAATTTCGTCTCCCTTGAGAC-AATTTCACTTGAAAACAAA----A--TCT-TTGA
* *
34461 GA-CAGTTTC
58 -ATCTGTTTA
* * * *
34470 CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAA-AAAATCTTTGAATCTGTTT
1 CCTTGAAACTAATTTCGTCTCCCTTGAGACAATTTCACTTGAAAACAAAATCTTTGAATCTGTTT
34534 A
66 A
*
34535 CCTTGAAACTAATTTCGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACTAATTTCGTCTCCCTTGAGACAATTTC
34571 CCTTTAAACA
Statistics
Matches: 139, Mismatches: 21, Indels: 27
0.74 0.11 0.14
Matches are distributed among these distances:
64 1 0.01
65 66 0.47
66 17 0.12
68 1 0.01
69 1 0.01
71 8 0.06
72 40 0.29
73 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (66 bp):
CCTTGAAACTAATTTCGTCTCCCTTGAGACAATTTCACTTGAAAACAAAATCTTTGAATCTGTTT
A
Found at i:34479 original size:36 final size:36
Alignment explanation
Indices: 34421--34513 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
34411 TTCGTCTCGA
* *
34421 TTGAGACTAATTT-ACTTAAAACAAATTTTATCTCTC
1 TTGAGAC-AATTTCCCTTGAAACAAATTTTATCTCTC
* *
34457 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTC
1 TTGAGACAATTTCCCTTGAAACAAATTTTATCTCTC
34493 TTGAGACAATTTCCCTTGAAA
1 TTGAGACAATTTCCCTTGAAA
34514 AAAAATCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.08
36 47 0.92
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (36 bp):
TTGAGACAATTTCCCTTGAAACAAATTTTATCTCTC
Found at i:34492 original size:137 final size:137
Alignment explanation
Indices: 34275--34618 Score: 548
Period size: 137 Copynumber: 2.5 Consensus size: 137
34265 AAACAAGGGG
*
34275 TCGTCTCGCTTGAGACTAATTTACTCAAAACAAATTTTTCTCTCTTGAGACAATTTCCCTTGAAA
1 TCGTCTCGCTTGAGACTAATTTACTTAAAACAAATTTTTCTCTCTTGAGACAATTTCCCTTGAAA
* * *
34340 CAAATTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAA
66 CAAATTTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAAATCTTTGAATCTGTTTACCTTGAA
*
34405 ACTGATT
131 ACTAATT
* *
34412 TCGTCTCGATTGAGACTAATTTACTTAAAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTGAA
1 TCGTCTCGCTTGAGACTAATTTACTTAAAACAAATTTT-TCTCTCTTGAGACAATTTCCCTTGAA
34477 ACAAA-TTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAAATCTTTGAATCTGTTTACCTTGA
65 ACAAATTTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAAATCTTTGAATCTGTTTACCTTGA
34541 AACTAATT
130 AACTAATT
* * * *
34549 TCGTCTCCCTTGAGAC-AGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGA
1 TCGTCTCGCTTGAGACTAATTT-ACTTAAAACAAATTTT-TCTCTCTTGAGACAATTTCCCTTGA
34613 AACAAA
64 AACAAA
34619 ATCTTTGAAT
Statistics
Matches: 191, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
136 4 0.02
137 157 0.82
138 30 0.16
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.38
Consensus pattern (137 bp):
TCGTCTCGCTTGAGACTAATTTACTTAAAACAAATTTTTCTCTCTTGAGACAATTTCCCTTGAAA
CAAATTTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAAATCTTTGAATCTGTTTACCTTGAA
ACTAATT
Found at i:34501 original size:21 final size:20
Alignment explanation
Indices: 34441--34501 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 20
34431 TTTACTTAAA
34441 ACAAATTTTATCTCTCTTGAG
1 ACAAATTTT-TCTCTCTTGAG
* *
34462 AC--A-GTTTC-C-CTTGAA
1 ACAAATTTTTCTCTCTTGAG
34477 ACAAATTTTGTCTCTCTTGAG
1 ACAAATTTT-TCTCTCTTGAG
34498 ACAA
1 ACAA
34502 TTTCCCTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 3 0.10
18 4 0.13
19 3 0.10
20 1 0.03
21 11 0.37
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (20 bp):
ACAAATTTTTCTCTCTTGAG
Found at i:34549 original size:101 final size:101
Alignment explanation
Indices: 34451--34702 Score: 384
Period size: 101 Copynumber: 2.5 Consensus size: 101
34441 ACAAATTTTA
*
34451 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAA
1 TCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAA
34516 AAATCTTTGAATCTGTTTACCTTGAAACTAATTTCG
66 AAATCTTTGAATCTGTTTACCTTGAAACTAATTTCG
* * *
34552 TCTCCCTTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACA
1 TCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAA
* * *
34617 AAATCTTTGAATTTGTTTTCCTTGAATCTAATTTCG
66 AAATCTTTGAATCTGTTTACCTTGAAACTAATTTCG
* *
34653 TCT-TCCTTGAGACAGTTT--CTCAAAACAAAGTTTTGTCTCTCTTGAAACAA
1 TCTCT-CTTGAGACAGTTTCCCTTAAAACAAA-TTTTGTCTCTCTTGAGACAA
34703 ATTTTGTCTC
Statistics
Matches: 139, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
99 9 0.06
100 19 0.14
101 111 0.80
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (101 bp):
TCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAA
AAATCTTTGAATCTGTTTACCTTGAAACTAATTTCG
Found at i:34597 original size:36 final size:36
Alignment explanation
Indices: 34530--34618 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
34520 CTTTGAATCT
* *
34530 GTTTACCTTGAAACTAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
* * *
34566 GTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
*
34602 ATTTCCCTTGAAACAAA
1 GTTTCCCTTGAAACAAA
34619 ATCTTTGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:34706 original size:56 final size:57
Alignment explanation
Indices: 34637--34755 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 57
34627 ATTTGTTTTC
* *
34637 CTTGAATCTAATTTCGTCT-TCCTTGAGACAGTTT-CTCAAAACAAAGTTTTGTCTCT
1 CTTGAAACAAATTTCGTCTCT-CTTGAGACAGTTTCCTCAAAACAAAGTTTTGTCTCT
* *
34693 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAAGTTTTGTCTCT
1 CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTT-CCTCAAAACAAAGTTTTGTCTCT
34751 CTTGA
1 CTTGA
34756 GACAGTTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
56 29 0.52
57 1 0.02
58 26 0.46
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (57 bp):
CTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCTCAAAACAAAGTTTTGTCTCT
Found at i:34709 original size:21 final size:22
Alignment explanation
Indices: 34675--34755 Score: 88
Period size: 21 Copynumber: 4.0 Consensus size: 22
34665 CAGTTTCTCA
34675 AAACAAAGTTTTGTCTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTG
34697 AAACAAA-TTTTGTCTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTG
* *
34718 AGAC--AG--TT-TC-C-CTTA
1 AAACAAAGTTTTGTCTCTCTTG
34733 AAACAAAGTTTTGTCTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTG
34755 A
1 A
34756 GACAGTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
15 6 0.13
16 1 0.02
17 4 0.09
18 2 0.04
19 3 0.06
20 2 0.04
21 18 0.38
22 11 0.23
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (22 bp):
AAACAAAGTTTTGTCTCTCTTG
Found at i:34747 original size:37 final size:36
Alignment explanation
Indices: 34697--34774 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 36
34687 GTCTCTCTTG
34697 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
* *
34733 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTA
34770 AAACA
1 AAACA
34775 CCAATCTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 7 0.18
37 32 0.82
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
Found at i:34794 original size:30 final size:30
Alignment explanation
Indices: 34760--34871 Score: 102
Period size: 30 Copynumber: 3.5 Consensus size: 30
34750 TCTTGAGACA
34760 GTTTCTCTTGAAACACCAATCTTTGAATAT
1 GTTTCTCTTGAAACACCAATCTTTGAATAT
* *
34790 GTTTCTCTTGAAACA-AAATTTTGTCTCTCTTGAGT-T
1 GTTTCTCTTGAAACACCAA-------TCT-TTGAATAT
*
34826 AGTTTCTCTTAAAACACCAATCTTTGAATAT
1 -GTTTCTCTTGAAACACCAATCTTTGAATAT
34857 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
34872 AAATTTTGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
29 2 0.03
30 34 0.52
31 4 0.06
36 4 0.06
37 19 0.29
38 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.42
Consensus pattern (30 bp):
GTTTCTCTTGAAACACCAATCTTTGAATAT
Found at i:34831 original size:67 final size:67
Alignment explanation
Indices: 34723--34941 Score: 305
Period size: 67 Copynumber: 3.2 Consensus size: 67
34713 TCTTGAGACA
* * *
34723 GTTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAAT
1 GTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAAT
34788 AT
66 AT
** *
34790 GTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGTTAGTTTCTCTTAAAACACCAATCTTTGAAT
1 GTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAAT
34855 AT
66 AT
* * * *
34857 GTTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACACAAAGAACCTTTG
1 GTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC---CAATCTTTG
34922 AA-ATT
63 AATA-T
34927 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
34942 CAAAAAACCT
Statistics
Matches: 135, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
67 109 0.81
69 1 0.01
70 25 0.19
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (67 bp):
GTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGAAT
AT
Found at i:34958 original size:23 final size:24
Alignment explanation
Indices: 34928--34993 Score: 125
Period size: 23 Copynumber: 2.8 Consensus size: 24
34918 TTTGAAATTG
34928 TTTCTCTTGAAACACAAAAAA-CC
1 TTTCTCTTGAAACACAAAAAATCC
34951 TTTCTCTTGAAACACAAAAAATCC
1 TTTCTCTTGAAACACAAAAAATCC
34975 TTTCTCTTGAAACACAAAA
1 TTTCTCTTGAAACACAAAA
34994 GACGTTCGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 21 0.50
24 21 0.50
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (24 bp):
TTTCTCTTGAAACACAAAAAATCC
Found at i:38795 original size:20 final size:20
Alignment explanation
Indices: 38770--38814 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
38760 TATATTGGGC
* *
38770 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
38790 TATTGTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
38810 TATTG
1 TATTG
38815 AATAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.56
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:38886 original size:46 final size:45
Alignment explanation
Indices: 38818--38924 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 45
38808 GTTATTGAAT
* * * *
38818 AATGGAAAGTATATTGGCAAAATAAGTTTAC-AGGCTTATGATATTA
1 AATGGTAAGTATTTTGGCAAAATAAGCTTACGA-GCTTATGAGA-TA
* *
38864 AATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGGATA
1 AATGGTAAGTATTTTGGCAAAATAAGCTTACGAGCTTATGAGATA
38909 AATGGTAAGATATTTT
1 AATGGTAAG-TATTTT
38925 ATCTTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 11 0.21
46 41 0.77
47 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (45 bp):
AATGGTAAGTATTTTGGCAAAATAAGCTTACGAGCTTATGAGATA
Found at i:46117 original size:33 final size:33
Alignment explanation
Indices: 46075--46141 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
46065 CTTAATATAG
*
46075 ATGGTGGACATGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
46108 ATGGTGGACACGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
46141 A
1 A
46142 GCACTACAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (33 bp):
ATGGTGGACACGACCTTATGTGTCATACGGATT
Found at i:46229 original size:20 final size:20
Alignment explanation
Indices: 46201--46245 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46191 TATATTGGGC
* *
46201 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
*
46221 TATTTTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
46241 TATTG
1 TATTG
46246 AATAATGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.04, G:0.20, T:0.58
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:46306 original size:46 final size:45
Alignment explanation
Indices: 46249--46344 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 45
46239 GTTATTGAAT
* *
46249 AATGGCAAGTATATTGGTAAAATAAGCTTACGGGCTTATGGTATTA
1 AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGGA-TA
46295 AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGGATA
1 AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGGATA
46340 AATGG
1 AATGG
46345 TAAGAGATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 7 0.15
46 41 0.85
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.30
Consensus pattern (45 bp):
AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGGATA
Found at i:47558 original size:38 final size:37
Alignment explanation
Indices: 47516--47840 Score: 215
Period size: 38 Copynumber: 8.7 Consensus size: 37
47506 TACATATACA
*
47516 TATATATATTATACAGTTTTTAAATA-ATTTTGAAAACT
1 TATATATATTATATAGTTTTTAAA-ACATTTTGAAAA-T
* *
47554 TATATA-A-TATATAGTCTTTTTTAAAAGCGTTTTG-AAAG
1 TATATATATTATATAG---TTTTTAAAA-CATTTTGAAAAT
* * * *
47592 TATATATAATATATTGTTTCTAAAACATTTTGAAAAAG
1 TATATATATTATATAGTTTTTAAAACATTTTG-AAAAT
* ** *
47630 TATATATATTATATAGTTTTTAAAAAAAATCGAAAA-
1 TATATATATTATATAGTTTTTAAAACATTTTGAAAAT
* * *
47666 TAAATATATAATATATGAATTTTAAAACATTTTGAAAA-
1 TATATATATTATATA-G-TTTTTAAAACATTTTGAAAAT
*
47704 TATACATATTATATAGGTTTTTTTAAAACATTTTGAAAAT
1 TATATATATTATATA-G--TTTTTAAAACATTTTGAAAAT
* * * *
47744 AAATATATAATATATGGTTTTTAAAGCATTTTGAAAA-
1 -TATATATATTATATAGTTTTTAAAACATTTTGAAAAT
* * *
47781 CATATATA-TATTATAG-TTTTAAAATATTTTTTGGAAA-
1 TATATATATTA-TATAGTTTTTAAAACA--TTTTGAAAAT
*
47818 -ATATATATCATAT-GTTTTTAAAA
1 TATATATATTATATAGTTTTTAAAA
47841 AATATTTTTT
Statistics
Matches: 231, Mismatches: 37, Indels: 40
0.75 0.12 0.13
Matches are distributed among these distances:
35 11 0.05
36 54 0.23
37 23 0.10
38 89 0.39
39 31 0.13
40 12 0.05
41 11 0.05
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
TATATATATTATATAGTTTTTAAAACATTTTGAAAAT
Found at i:47622 original size:76 final size:76
Alignment explanation
Indices: 47517--47800 Score: 271
Period size: 77 Copynumber: 3.7 Consensus size: 76
47507 ACATATACAT
* **
47517 ATATATATTATACAGTTTTTAAATA-ATTTTGAAAACT-TATATAATATATAGTCTTTTTTAAAA
1 ATATATAATATATTGTTTTTAAA-ACATTTTGAAAACTATATATAATATATAGT-TTTTTTAAAA
* *
47580 GCGTTTTGAAAGT-
64 -CATTTTGAAAATA
* * * *
47593 ATATATAATATATTGTTTCTAAAACATTTTGAAAAAGTATATATATTATATAG--TTTTTAAAAA
1 ATATATAATATATTGTTTTTAAAACATTTTG-AAAACTATATATAATATATAGTTTTTTTAAAAC
** *
47656 AAATCGAAAATAA
65 ATTTTGAAAAT-A
* * *
47669 ATATATAATATA-TGAATTTTAAAACATTTTGAAAA-TATACATATTATATAGGTTTTTTTAAAA
1 ATATATAATATATTG-TTTTTAAAACATTTTGAAAACTATATATAATATATA-GTTTTTTTAAAA
47732 CATTTTGAAAATAA
64 CATTTTGAAAAT-A
* *
47746 ATATATAATATATGGTTTTTAAAGCATTTTGAAAAC-ATATAT-ATATTATAGTTTT
1 ATATATAATATATTGTTTTTAAAACATTTTGAAAACTATATATAATA-TATAGTTTT
47801 AAAATATTTT
Statistics
Matches: 172, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
74 20 0.12
75 17 0.10
76 58 0.34
77 63 0.37
78 14 0.08
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (76 bp):
ATATATAATATATTGTTTTTAAAACATTTTGAAAACTATATATAATATATAGTTTTTTTAAAACA
TTTTGAAAATA
Found at i:47822 original size:36 final size:38
Alignment explanation
Indices: 47772--47850 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 38
47762 TTTTAAAGCA
47772 TTTTGAAAACATATATAT-ATTATAG-TTTT-AAAATATT
1 TTTTGAAAACATATATATCA-TAT-GTTTTTAAAAATATT
*
47809 TTTTGGAAA-ATATATATCATATGTTTTTAAAAAATATT
1 TTTTGAAAACATATATATCATATGTTTTT-AAAAATATT
47847 TTTT
1 TTTT
47851 ATTTATTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
35 1 0.03
36 15 0.41
37 9 0.24
38 12 0.32
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (38 bp):
TTTTGAAAACATATATATCATATGTTTTTAAAAATATT
Found at i:47857 original size:4 final size:4
Alignment explanation
Indices: 47843--47891 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
47833 TTTTAAAAAA
47843 TATT T-TT TATT TATT CTATTT TATT TA-T TATT TATT TA-T TAGTT TATT
1 TATT TATT TATT TATT -TA-TT TATT TATT TATT TATT TATT TA-TT TATT
47891 T
1 T
47892 TTTTTTTCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 9 0.23
4 21 0.54
5 7 0.18
6 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:47873 original size:21 final size:20
Alignment explanation
Indices: 47843--47882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
47833 TTTTAAAAAA
*
47843 TATTTTTTATTTATTCTATTT
1 TATTTATTATTTATT-TATTT
47864 TATTTATTATTTATTTATT
1 TATTTATTATTTATTTATT
47883 AGTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTATTATTTATTTATTT
Found at i:47876 original size:11 final size:11
Alignment explanation
Indices: 47843--47891 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
47833 TTTTAAAAAA
*
47843 TATTTTTTATT
1 TATTTATTATT
47854 TATTCTA-T-TT
1 TATT-TATTATT
47864 TATTTATTATT
1 TATTTATTATT
47875 TATTTATTAGTT
1 TATTTATTA-TT
47887 TATTT
1 TATTT
47892 TTTTTTTCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.06
10 7 0.21
11 16 0.48
12 8 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TATTTATTATT
Found at i:49046 original size:10 final size:11
Alignment explanation
Indices: 49031--49103 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 11
49021 TTCCTCTTGA
49031 TTTATTTAT-T
1 TTTATTTATCT
49041 TTTATTTAT-T
1 TTTATTTATCT
* *
49051 GTTTCTTTAATAT
1 -TTTATTT-ATCT
*
49064 TTTTTTTATCT
1 TTTATTTATCT
49075 TTTCATGCTTATCT
1 TTT-AT--TTATCT
49089 TTTATTTAT-T
1 TTTATTTATCT
49099 TTTAT
1 TTTAT
49104 CTAACATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 16 0.30
11 16 0.30
12 9 0.17
13 3 0.06
14 9 0.17
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTATTTATCT
Found at i:50562 original size:30 final size:30
Alignment explanation
Indices: 50497--50565 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
50487 ATAAGCCTTA
* * * *
50497 GAAAAATTTGGGGACCATTTTATAATTTTT
1 GAAAAGTTAGGGGACCAATTTATAAATTTT
50527 GAAAAGTTAGGGGACCAATTTA-ACAATTTT
1 GAAAAGTTAGGGGACCAATTTATA-AATTTT
50557 GAAAAGTTA
1 GAAAAGTTA
50566 TTAATGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (30 bp):
GAAAAGTTAGGGGACCAATTTATAAATTTT
Found at i:51132 original size:24 final size:24
Alignment explanation
Indices: 51100--51148 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
51090 TGCATGACAT
* *
51100 TGTACATAGATGTTTTGTTCATCA
1 TGTACATAGATGTTTTATACATCA
51124 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
51148 T
1 T
51149 TTGGAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:51593 original size:40 final size:40
Alignment explanation
Indices: 51463--51690 Score: 415
Period size: 40 Copynumber: 5.8 Consensus size: 40
51453 AGGACACTAA
*
51463 GTGTATATGGTGGGCACGACCTTATGTGTAATACAC-TTC
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
*
51502 GTGTATATGGTGGGCACAACCTTATGTGTAATACAC-TTG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
51541 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
51581 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
*
51621 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
51661 GTGTATATGGTGGGCACGACCTTATGTGTA
1 GTGTATATGGTGGGCACGACCTTATGTGTA
51691 GCACTACGGT
Statistics
Matches: 184, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 72 0.39
40 112 0.61
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
Found at i:54093 original size:32 final size:29
Alignment explanation
Indices: 54052--54110 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 29
54042 GACAGAGGAG
*
54052 AGTATCGATACTCTAGCTCGAGTATCGATACC
1 AGTATCGATACT-T-GCACGA-TATCGATACC
54084 AGTATCGATACTTGCACGATATCGATA
1 AGTATCGATACTTGCACGATATCGATA
54111 TCAAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 5 0.19
31 1 0.04
32 12 0.46
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (29 bp):
AGTATCGATACTTGCACGATATCGATACC
Found at i:56369 original size:19 final size:19
Alignment explanation
Indices: 56347--56412 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
56337 CAGTCAATGG
56347 AAAAGTAAATGGTCAACAA
1 AAAAGTAAATGGTCAACAA
* * ***
56366 AAAAGTCAATGGTTAATGG
1 AAAAGTAAATGGTCAACAA
* * *
56385 ATAAGTCAATGATCAACAA
1 AAAAGTAAATGGTCAACAA
56404 AAAAGTAAA
1 AAAAGTAAA
56413 CGATCAATGG
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (19 bp):
AAAAGTAAATGGTCAACAA
Found at i:56430 original size:38 final size:38
Alignment explanation
Indices: 56340--56422 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
56330 AATTCAACAG
* * * * * *
56340 TCAATGGAAAAGTAAATGGTCAACAAAAAAGTCAATGG
1 TCAATGGATAAGTCAATGATCAACAAAAAAGTAAACGA
*
56378 TTAATGGATAAGTCAATGATCAACAAAAAAGTAAACGA
1 TCAATGGATAAGTCAATGATCAACAAAAAAGTAAACGA
56416 TCAATGG
1 TCAATGG
56423 GTTAGTCAGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (38 bp):
TCAATGGATAAGTCAATGATCAACAAAAAAGTAAACGA
Found at i:57555 original size:5 final size:5
Alignment explanation
Indices: 57545--57579 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
57535 TATTTAATAT
57545 TAAAA TAAAA TAAAA TAAAA -AATAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA
57580 CATAAGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 2 0.07
5 24 0.86
6 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:57571 original size:15 final size:15
Alignment explanation
Indices: 57553--57584 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57543 ATTAAAATAA
57553 AATAAAATAAAAAAT
1 AATAAAATAAAAAAT
*
57568 AATAAAATAAAACAT
1 AATAAAATAAAAAAT
57583 AA
1 AA
57585 GATAATCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAATAAAAAAT
Found at i:60659 original size:68 final size:68
Alignment explanation
Indices: 60550--60893 Score: 537
Period size: 68 Copynumber: 5.1 Consensus size: 68
60540 TTTTAGAAAA
* * *
60550 CACAATCCATGTGAATTAGATTACAACCATTGATAAAGAAAGGAAACTTTCGATCTCAGCCATTC
1 CACAATCCATGTGAATTGGATTACAACCATTGATAAAGAAAGGAATCTTTCGATCTCAGCCGTTC
60615 ATT
66 ATT
* *
60618 CACAATCCATGTTAATTGCATTACAACCATTGATAAAGAAAGGAATCTTTCGATCTCAGCCGTTC
1 CACAATCCATGTGAATTGGATTACAACCATTGATAAAGAAAGGAATCTTTCGATCTCAGCCGTTC
60683 ATT
66 ATT
* *
60686 CACAATCCATGTGAATTGGATTACAACCATTGATAAATAAAGGAATCTTTCGATCTCATCCGTTC
1 CACAATCCATGTGAATTGGATTACAACCATTGATAAAGAAAGGAATCTTTCGATCTCAGCCGTTC
60751 ATT
66 ATT
* *
60754 TACAATCCATGTGAATTGGATTACAACCATTGATAAAGAAAGGAATCTTTCAATCTCAGCCGTTC
1 CACAATCCATGTGAATTGGATTACAACCATTGATAAAGAAAGGAATCTTTCGATCTCAGCCGTTC
60819 ATT
66 ATT
* * * **
60822 CATAATCCATGTGAATTGGATTACAACCATTGA-AAACGAAAAGAATCTTTCAATCTCATTCGTT
1 CACAATCCATGTGAATTGGATTACAACCATTGATAAA-GAAAGGAATCTTTCGATCTCAGCCGTT
*
60886 CACT
65 CATT
60890 CACA
1 CACA
60894 TGTGCTTGCA
Statistics
Matches: 255, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
67 3 0.01
68 252 0.99
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (68 bp):
CACAATCCATGTGAATTGGATTACAACCATTGATAAAGAAAGGAATCTTTCGATCTCAGCCGTTC
ATT
Found at i:62317 original size:21 final size:21
Alignment explanation
Indices: 62288--62328 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
62278 AATAAAAGGA
*
62288 AAAGAAAAAAAATAACAAAAG
1 AAAGAAAAAAAATAAAAAAAG
* *
62309 AAAGTAAAAATATAAAAAAA
1 AAAGAAAAAAAATAAAAAAA
62329 ACCAAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAGAAAAAAAATAAAAAAAG
Found at i:62335 original size:18 final size:19
Alignment explanation
Indices: 62314--62358 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
62304 AAAAGAAAGT
62314 AAAAATATA-AAAAA-AACC
1 AAAAATATAGAAAAATAA-C
62332 AAAAAT-TAGAAAAATAAC
1 AAAAATATAGAAAAATAAC
*
62350 AAATATATA
1 AAAAATATA
62359 TATAATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAATATAGAAAAATAAC
Found at i:63219 original size:3 final size:3
Alignment explanation
Indices: 63211--63255 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
63201 AATTAATATA
*
63211 AAT AAT AAT AAAT AAT AAT ATT AAAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A
63256 TTAACTCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 33 0.87
4 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:63229 original size:13 final size:13
Alignment explanation
Indices: 63211--63255 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
63201 AATTAATATA
63211 AATAATAATAAAT
1 AATAATAATAAAT
*
63224 AATAATATTAAAT
1 AATAATAATAAAT
63237 AATAATAAT-AAT
1 AATAATAATAAAT
63249 AATAATA
1 AATAATA
63256 TTAACTCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:63721 original size:134 final size:133
Alignment explanation
Indices: 63434--64866 Score: 1505
Period size: 134 Copynumber: 10.7 Consensus size: 133
63424 TCTTTTTGTA
*** * * *
63434 ATCAGATCTCGA-AAAATTTTGATCCACTTTGTTACTCTTCATGGAAGATTGAATCGAACTCAAT
1 ATCAGA-CTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAA-TCGAT
** * ** * * * * *
63498 TTACTTCATTTTTCTTCAGAAATACCAAATTTGAAAGAA-AGAGAATCTGCTCCACTGCTCTTTA
64 TTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA-AGAATATGCTCCACTACTCTTTA
63562 GGGGAG
128 GGGGAG
* ** * *
63568 ATCAAACTCGAGAAAATTTTGATCCACTTCGTTGCTCTTCAGGGAAGATTGAATTGAACTTGATT
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAA-TCGATT
* * *
63633 TGTTTCGCTGCTCTTCACGAAGACCAAATCTTGAAAGAAGAAGAATATGCTCCACTACTTTTTAG
65 TGTTTCACTGCTCTTCAGGAAGACCAAATC-TGAAAGAAGAAGAATATGCTCCACTACTCTTTAG
63698 GGGAG
129 GGGAG
* * * ** * * * **
63703 ATCATA-TACG-TAATATTTTGATCCACTTCGGTACTTTTTAGGGAAGATTGAATCGAAATTAAT
1 ATCAGACT-CGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCG-AATCGAT
* *
63766 TTGTTTCACTGCTCTTCAGGAAGA-CTAATCTGAAAGAAGAAGAATCA-ACTCCACTACTCTTTA
64 TTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAT-ATGCTCCACTACTCTTTA
** *
63829 GAAGAC
128 GGGGAG
* * * * *
63835 ATCA-AGCTTGATAAAAATTTGATCCACTTCATTGCTCTTCAGGGAAGATTGAATCGAATTTGAT
1 ATCAGA-CTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAA-TCGAT
* ** * * * *
63899 TTGCTTCGGTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAAAATCTGCTCCTCTACTCTTTAT
64 TTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAG
63964 GGGAG
129 GGGAG
* * * * * * *
63969 ATTAGACACG-TAATATTTTGATCCACTTCACTACTCTTCAGGGAAGATTGAATTGTAATTGATT
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCG-AATCGATT
* * * *
64033 TGTTTAACTGCTCTTCAGGAAGACCAAATCTG--A-AAGAAGATTCTGCTCCACTACTCATTAGG
65 TGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGG
64095 GGAG
130 GGAG
* * * * * *
64099 ATCAGACAC-ATAATATTTTGATCCTCTTCGA-TGCTCTTCATGGAAGATTGAATCGTAATAGAT
1 ATCAGACTCGAGAAAATTTTGATCCACTTC-ACTGCTCTTCAGGGAAGATTGAATCG-AATCGAT
* *
64162 TTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAG-AGAAAGAATCTACTCCACTACTCTTTA
64 TTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAG-AAGAATATGCTCCACTACTCTTTA
64226 GGGGAG
128 GGGGAG
* * * * *
64232 ATCAGATTCAAGAAAACTTTGATCCACTTCACTGCTCTTCAGGGAATATTGAATTAGAATCGATT
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAA-TCGAATCGATT
* * * * *
64297 TGTTTCACTGCTATTCAGGATGACCAAATCTGAAAGAAGAAGAATCTACTCCACTACTCTTTAGT
65 TGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGG
64362 GGAG
130 GGAG
* * * *
64366 ATCATACTCGAGAAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGATTAAATCAGAATCAATT
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATC-GAATCGATT
* * * * *
64431 TGCTTCACTTCTCTTTAGGAAGACCAAATATGAAAGAAGAAGAATATGCTCCACTACTCTTTAAG
65 TGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGG
64496 GGAG
130 GGAG
* * * *
64500 ATCAGACTCGAGAAAACTTTGATCCACTTCACTCCTCTTCAGCGAAGATTGAATCAAAATCGATT
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATC-GAATCGATT
* * * * *
64565 TGGTTT-ACTGTTCTTCATGAATACCAAATCTAAAAAAAGAAGAATATGCTCCACTACTCTTTAG
65 T-GTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAG
64629 GGGAG
129 GGGAG
* *
64634 ATCAGACTCGAGAAAAATTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCAGAATCGATC
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATC-GAATCGATT
* * *
64699 TGCTTCACTGCTCTTCAGGAAGGCCAAATCTGAAAGAAGAAGAATATGTTCCACTACTCTTTA-G
65 TGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGG
*
64763 GGAT
130 GGAG
* ** * * * * * * * *
64767 ATCAGACTCAAGAAACCTTTGATCTACTTCAATGATATTTATGAAAGATTGAATCGAA-CGTGGT
1 ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAATC--GAT
* *
64831 TTGTTTCACTTCTCTTCAGGAAGACCAAATATGAAA
64 TTGTTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
64867 ATCAATCATT
Statistics
Matches: 1109, Mismatches: 161, Indels: 59
0.83 0.12 0.04
Matches are distributed among these distances:
130 114 0.10
131 4 0.00
132 45 0.04
133 270 0.24
134 624 0.56
135 51 0.05
136 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (133 bp):
ATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGATTGAATCGAATCGATTT
GTTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATATGCTCCACTACTCTTTAGGG
GAG
Found at i:65868 original size:117 final size:117
Alignment explanation
Indices: 65500--66093 Score: 795
Period size: 117 Copynumber: 5.2 Consensus size: 117
65490 AAGTCAATAA
* * * * *
65500 TTCATGAGGGAGTCAAGAATAACAAAGGTTAACTTCTCTTCACGAGGAAGCCAAGAATAAAAAAA
1 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAA
* *
65565 TATCGACTTCTCTTCACGTGAAAGTCAAGAATAACATTG-AA-ATTGACTCCTC
66 T-T-GACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTC
* * *
65617 TTCACGAGGGAGTCAATAATAACAAAGATTGACTTCTCTTCATGAGGAAGTAAAGAAT-A-AAAA
1 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAA
65680 TTGACTTCTCTTCACGAGGAAGTCAA-AATAACATTGAAAGATCT-ACT-CTC
66 TTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGAT-TGACTCCTC
**
65730 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCAC-AATAAGTCAAGAATAACAAAG
1 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA-
* * *
65794 ATTAACCTCTCTTCACGAGGAAGTCAAGAATAACGTTGAAAGATTGACTCCTC
65 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTC
* *
65847 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCATCACGAGGAAATCAAGAATAACAAAA
1 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAA
* * *
65912 TTGACTTCTCTTCACGGGGAAGTAAAGAATAACATTGAAATATTGACTCCTC
66 TTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTC
* * *
65964 TTAATGAGGGAGTCAAGAATAAC-AAGATTGACTTCTCTTCACGAGGAATTCAAGAATAACAAAG
1 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA-
* * *
66028 ATTGACTTCTC-TCATGAGGAAGTCAAGAAT-AC---G-ACGATTGACTCTTC
65 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTC
*
66075 TTCATGAGGGAGTCAAGAA
1 TTCACGAGGGAGTCAAGAA
66094 AGACAATGAA
Statistics
Matches: 428, Mismatches: 38, Indels: 28
0.87 0.08 0.06
Matches are distributed among these distances:
111 29 0.07
112 22 0.05
113 69 0.16
114 9 0.02
115 34 0.08
116 73 0.17
117 175 0.41
118 17 0.04
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (117 bp):
TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAA
TTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTC
Found at i:66047 original size:37 final size:38
Alignment explanation
Indices: 65500--66093 Score: 604
Period size: 37 Copynumber: 15.5 Consensus size: 38
65490 AAGTCAATAA
* * * *
65500 TTCATGAGGGAGTCAAGAATAACAAAGGTTAACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
* *
65538 TTCACGAGGAAGCCAAGAATAA-AAAAATATCGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGAT-T-GACTTCTC
* * *
65577 TTCACGTGAAAGTCAAGAATAACATTGAA-ATTGACTCCTC
1 TTCACGAGGAAGTCAAGAATAACA---AAGATTGACTTCTC
* *
65617 TTCACGAGGGAGTCAATAATAACAAAGATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
* *
65655 TTCATGAGGAAGTAAAGAAT-A-AAA-ATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
65690 TTCACGAGGAAGTCAA-AATAACATTGAAAGATCT-AC-TCTC
1 TTCACGAGGAAGTCAAGAATAAC----AAAGAT-TGACTTCTC
*
65730 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
** * *
65768 TTCAC-AATAAGTCAAGAATAACAAAGATTAACCTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
*
65805 TTCACGAGGAAGTCAAGAATAACGTTGAAAGATTGACTCCTC
1 TTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTC
*
65847 TTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
* *
65885 ATCACGAGGAAATCAAGAATAACAAA-ATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
* * * *
65922 TTCACGGGGAAGTAAAGAATAACATTGAAATATTGACTCCTC
1 TTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTC
* * *
65964 TTAATGAGGGAGTCAAGAATAAC-AAGATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
*
66001 TTCACGAGGAATTCAAGAATAACAAAGATTGACTTCTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
* * *
66039 -TCATGAGGAAGTCAAGAAT-ACGACGATTGAC-TCTTC
1 TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTC-TC
* *
66075 TTCATGAGGGAGTCAAGAA
1 TTCACGAGGAAGTCAAGAA
66094 AGACAATGAA
Statistics
Matches: 467, Mismatches: 58, Indels: 63
0.79 0.10 0.11
Matches are distributed among these distances:
34 3 0.01
35 28 0.06
36 16 0.03
37 142 0.30
38 121 0.26
39 26 0.06
40 50 0.11
41 14 0.03
42 65 0.14
43 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (38 bp):
TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTC
Done.