Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 69 of 444
Found at i:16340203 original size:22 final size:22
Alignment explanation
Indices: 16340178--16340221 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16340168 TACATAATGC
16340178 ATAAAAAAACAATTTAAAATAA
1 ATAAAAAAACAATTTAAAATAA
* * *
16340200 ATAATAATACAATTTTAAATAA
1 ATAAAAAAACAATTTAAAATAA
16340222 TCGATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAAAAAAACAATTTAAAATAA
Found at i:16340310 original size:24 final size:25
Alignment explanation
Indices: 16340275--16340325 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
16340265 ATCTAATGTA
*
16340275 AACAGCATATAAAATA-TTTAAAAT
1 AACAGCATATAAAACATTTTAAAAT
16340299 AACA-CATAATAAAACATTTTAAAAT
1 AACAGCAT-ATAAAACATTTTAAAAT
16340324 AA
1 AA
16340326 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 3 0.12
24 11 0.46
25 10 0.42
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (25 bp):
AACAGCATATAAAACATTTTAAAAT
Found at i:16342063 original size:44 final size:45
Alignment explanation
Indices: 16341992--16342287 Score: 196
Period size: 45 Copynumber: 6.5 Consensus size: 45
16341982 TTGATCCGAC
* * *
16341992 CTACTGTAACTTCAGAG-GTATAGGATTT-ATAGCTTTAATCTACT
1 CTACTGCAACTTCAGAGAG-ATAAGATTTGATAACTTTAATCTACT
* * * *
16342036 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACT
1 CTACTGCAACTTCAGAGAGATAAGATTTGATAACTTTAATCTACT
* * *
16342081 TTACTGCAACTTCAGAGAGATAAGACTTG-TAACTTCAATCTACT
1 CTACTGCAACTTCAGAGAGATAAGATTTGATAACTTTAATCTACT
* * * * * *
16342125 CCACTGCGACTTCAG-GGGATAAGATTTGGTAAC-TTGATCCAAC-
1 CTACTGCAACTTCAGAGAGATAAGATTTGATAACTTTAAT-CTACT
* * *
16342168 CTACTGCAACTTCAGAG-GTATAGGACTTGTAACTCATAGCTTTAATCTATT
1 CTACTGCAACTTCAGAGAG-ATAAGA-TT-TGA-T-A-A-CTTTAATCTACT
* * * * *
16342219 CTACTGCAACTTCAGGGAAATAAGATTT-ACTATC-TTCATCCTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTTGA-TAACTTTAAT-CTACT
* *
16342264 CTACTACAACTTCAGGGAGATAAG
1 CTACTGCAACTTCAGAGAGATAAG
16342288 GCTCTGTAAT
Statistics
Matches: 201, Mismatches: 35, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
43 28 0.14
44 66 0.33
45 68 0.34
46 1 0.00
47 2 0.01
48 4 0.02
49 2 0.01
50 5 0.02
51 25 0.12
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
CTACTGCAACTTCAGAGAGATAAGATTTGATAACTTTAATCTACT
Found at i:16342090 original size:45 final size:44
Alignment explanation
Indices: 16342029--16342347 Score: 205
Period size: 45 Copynumber: 6.9 Consensus size: 44
16342019 TATAGCTTTA
16342029 ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
* * *
16342073 AGTCTACTTTACTGCAACTTCAGAGAGATAAGACTTG-TAACTTC
1 A-TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
* * * * * *
16342117 AATCTACTCCACTGCGACTTCAG-GGGATAAGATTTGGTAACTTG
1 -ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
* * * *
16342161 ATCCAAC-CTACTGCAACTTCAGAG-GTATAGGACTTGTAACTCATAGCTTTA
1 AT-CTACTCTACTGCAACTTCAGAGAG-ATAAGA-TT-T-GCT-AT--C-TTC
* * * *
16342212 ATCTATTCTACTGCAACTTCAGGGAAATAAGATTTACTATCTTC
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
* * * * * *
16342256 ATCCTGCTCTACTACAACTTCAGGGAGATAAGGCTCTGTAATCTATAGCTCTG
1 AT-CTACTCTACTGCAACTTCAGAGAGATAA-GAT-T-T--GCTAT--CT-TC
* *
16342309 ATCTACTCTATTGTAACTTCAGAGAGATAAGATTTGCTA
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTA
16342348 CTGGTAGCTT
Statistics
Matches: 214, Mismatches: 37, Indels: 45
0.72 0.12 0.15
Matches are distributed among these distances:
43 27 0.13
44 44 0.21
45 61 0.29
46 3 0.01
47 7 0.03
48 5 0.02
49 2 0.01
50 10 0.05
51 27 0.13
52 25 0.12
53 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC
Found at i:16350380 original size:14 final size:15
Alignment explanation
Indices: 16350361--16350398 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
16350351 TATGAAACTT
*
16350361 AATGCATATG-ATGA
1 AATGCAAATGAATGA
16350375 AATGCAAATGAATGA
1 AATGCAAATGAATGA
16350390 AATG-AAATG
1 AATGCAAATG
16350399 CAAAAGAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (15 bp):
AATGCAAATGAATGA
Found at i:16354530 original size:28 final size:28
Alignment explanation
Indices: 16354497--16354572 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
16354487 GAAAAGAGCC
* * *
16354497 AAAATATATAATATATACAAAATAGTTT
1 AAAATAAATAATATATACAAAACAATTT
* * * *
16354525 AGAATACATAATGTATAAAAAAACAATTT
1 AAAATAAATAATATAT-ACAAAACAATTT
16354554 AAAATAAATAATA-ATACAA
1 AAAATAAATAATATATACAA
16354573 TTTTAAATAA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
27 3 0.08
28 15 0.41
29 19 0.51
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAATAAATAATATATACAAAACAATTT
Found at i:16354564 original size:22 final size:22
Alignment explanation
Indices: 16354539--16354582 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16354529 TACATAATGT
16354539 ATAAAAAAACAATTTAAAATAA
1 ATAAAAAAACAATTTAAAATAA
* * *
16354561 ATAATAATACAATTTTAAATAA
1 ATAAAAAAACAATTTAAAATAA
16354583 TCGATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAAAAAAACAATTTAAAATAA
Found at i:16354671 original size:24 final size:24
Alignment explanation
Indices: 16354636--16354686 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
16354626 ATCTAATGTA
16354636 AACAGCATATAAA-ATATTTAAAAT
1 AACAGCATATAAACAT-TTTAAAAT
16354660 AACA-CATAATAAAGCATTTTAAAAT
1 AACAGCAT-ATAAA-CATTTTAAAAT
16354685 AA
1 AA
16354687 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.12
24 9 0.38
25 10 0.42
26 2 0.08
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.27
Consensus pattern (24 bp):
AACAGCATATAAACATTTTAAAAT
Found at i:16360792 original size:24 final size:25
Alignment explanation
Indices: 16360742--16360793 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
16360732 CAATAGTGTC
*
16360742 TAAATATTAGTTAGGTAAAAAAAATA
1 TAAATATTAATTAGGT-AAAAAAATA
16360768 TAAATATTAATTAGGT-AAAAAATA
1 TAAATATTAATTAGGTAAAAAAATA
16360792 TA
1 TA
16360794 CTTGAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.40
26 15 0.60
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.33
Consensus pattern (25 bp):
TAAATATTAATTAGGTAAAAAAATA
Found at i:16365638 original size:27 final size:27
Alignment explanation
Indices: 16365586--16365640 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
16365576 TGCCCAGGAA
* *
16365586 AAATCCCATGTGCGCCAGGTCTAGCAG
1 AAATCCCATGTGCGCCAGATCCAGCAG
16365613 AAATCCCATGTGCGCCA-ATACCAGCAG
1 AAATCCCATGTGCGCCAGAT-CCAGCAG
16365640 A
1 A
16365641 TGGTCCAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (27 bp):
AAATCCCATGTGCGCCAGATCCAGCAG
Found at i:16371260 original size:6 final size:6
Alignment explanation
Indices: 16371249--16371465 Score: 164
Period size: 6 Copynumber: 35.8 Consensus size: 6
16371239 AACCAAAATG
* *
16371249 AGAATC AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
16371297 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* * *
16371345 AGAATC AAAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
* * * * *
16371394 AGAATC AGTATC AGTATT AGTAA-C AGAATC CGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
16371442 AG-GTGAC AGAATC AGAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGAAT
16371466 GTGAATGCAA
Statistics
Matches: 169, Mismatches: 22, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
5 14 0.08
6 140 0.83
7 11 0.07
8 4 0.02
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:16371264 original size:30 final size:30
Alignment explanation
Indices: 16371249--16371465 Score: 270
Period size: 30 Copynumber: 7.4 Consensus size: 30
16371239 AACCAAAATG
* *
16371249 AGAATCAGAATCAGAATCAGTAACAAAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
16371279 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
16371309 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
16371339 AGAATCAGAATCAAAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
16371364 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
16371394 AGAATCAGTATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
16371424 CGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
16371455 AGAATCAGAAT
1 AGAATCAGAAT
16371466 GTGAATGCAA
Statistics
Matches: 165, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.01
25 18 0.11
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 117 0.71
31 23 0.14
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:16371394 original size:85 final size:85
Alignment explanation
Indices: 16371278--16371465 Score: 315
Period size: 85 Copynumber: 2.2 Consensus size: 85
16371268 GTAACAAAAT
*
16371278 CAGAATCAGAATCA-ATATTAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGA
1 CAGAATCAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGA
16371342 ATCAGAATCAAAATTAGGTGA
65 ATCAGAATCAAAATTAGGTGA
* * *
16371363 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATCAGTATTAGTAACAGAATCCGAA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAA
*
16371428 TCAGAATCAGAATTAGGTGA
66 TCAGAATCAAAATTAGGTGA
16371448 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
16371466 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
85 96 0.99
86 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (85 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAA
TCAGAATCAAAATTAGGTGA
Found at i:16371619 original size:27 final size:26
Alignment explanation
Indices: 16371583--16371648 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
16371573 AGCATGGCTG
*
16371583 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGACA
* *
16371609 CCAGATACAGATATTGTGGCAGAGACA
1 CCAGA-ACAGATATCGTGACAGAGACA
16371636 CCAGAATCAGATA
1 CCAGAA-CAGATA
16371649 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGACA
Found at i:16371653 original size:27 final size:27
Alignment explanation
Indices: 16371583--16371656 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
16371573 AGCATGGCTG
* *
16371583 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGACA
*
16371609 CCAG-ATACAGATATTGTGGCAGAGACA
1 CCAGAAT-CAGATAATGTGGCAGAGACA
16371636 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
16371657 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGACA
Found at i:16371664 original size:27 final size:27
Alignment explanation
Indices: 16371607--16371664 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
16371597 GTGACAGAGT
* * *
16371607 CACCAGATACAGATATTGTGGCAGAGA
1 CACCAGATACAGATAATGTGGCAAACA
*
16371634 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACA
16371661 CACC
1 CACC
16371665 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACA
Found at i:16372044 original size:27 final size:26
Alignment explanation
Indices: 16371965--16372047 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
16371955 TCGATCGGTC
* * *
16371965 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
16371991 ATATAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
16372018 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
16372045 AAC
1 AAC
16372048 GCTTCTTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:16372276 original size:27 final size:27
Alignment explanation
Indices: 16372246--16372433 Score: 225
Period size: 27 Copynumber: 7.0 Consensus size: 27
16372236 GGGGCAAAAT
* * * *
16372246 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16372273 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16372300 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
16372327 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16372354 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
16372381 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16372408 AGTAATTCTACCCTA-AAGGGGTATTT
1 GGTAATTCTACCCTACAA-GGGTATTT
16372434 TAGTAATTTC
Statistics
Matches: 140, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16372402 original size:54 final size:53
Alignment explanation
Indices: 16372274--16372441 Score: 248
Period size: 54 Copynumber: 3.1 Consensus size: 53
16372264 AGGTATCTCG
* *
16372274 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA-AAGGGTATTTTA
*
16372327 GATAATTCTACCCTACGGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA-AAGGGTATTTTA
* *
16372382 GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAA-GGGTATTTTA
16372436 GTAATT
1 GTAATT
16372442 TCACAATTGA
Statistics
Matches: 105, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
53 3 0.03
54 98 0.93
55 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAAGGGTATTTTA
Found at i:16372468 original size:53 final size:54
Alignment explanation
Indices: 16372356--16372469 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
16372346 GGTATTTCGG
* * *** *
16372356 TAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTATAAGGGTATTTTAGTAATTCTACACAATAGGGGTAAAACAA
*
16372410 TAATTCTACCCTA-AAGGGGTATTTTAGTAATT-T-CACAATTGAGGGTAAAACAA
1 TAATTCTACCCTATAA-GGGTATTTTAGTAATTCTACACAATAG-GGGTAAAACAA
16372463 TAATTCT
1 TAATTCT
16372470 GTAAATCGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
52 5 0.10
53 17 0.33
54 29 0.57
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTATAAGGGTATTTTAGTAATTCTACACAATAGGGGTAAAACAA
Found at i:16372480 original size:27 final size:27
Alignment explanation
Indices: 16372450--16372936 Score: 586
Period size: 27 Copynumber: 18.0 Consensus size: 27
16372440 TTTCACAATT
**
16372450 GAGGGTAAAACAATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * * *
16372477 GAGGGTAAAAAGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
16372504 GAGGGTAAACCAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* **
16372531 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
16372558 AAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
16372585 AAGGGTAAAACAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
16372611 TGAGGGTAAAATGATAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
*
16372639 GAGGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
16372665 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
** * ** *
16372693 GAGGGTAAAATAGTAATTTTACAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
16372720 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
**
16372747 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
16372773 TGAGGGTAAAATGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* *
16372801 GAGGGTAAAATGGTAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
16372827 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * **
16372855 GAGGGTAAAACAGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
16372882 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
16372909 GAGGATAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
16372936 G
1 G
16372937 GGAGTACTTT
Statistics
Matches: 397, Mismatches: 55, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.01
27 389 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:16378926 original size:35 final size:35
Alignment explanation
Indices: 16378887--16378957 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16378877 CGTCGTGCCC
16378887 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
16378922 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
16378957 A
1 A
16378958 AAAGAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.34, G:0.25, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
Found at i:16379971 original size:10 final size:10
Alignment explanation
Indices: 16379926--16379985 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
16379916 TAATTTTAAG
16379926 ATTTAT-TTT
1 ATTTATCTTT
16379935 CATTTATCTTT
1 -ATTTATCTTT
**
16379946 AAATATCTTT
1 ATTTATCTTT
*
16379956 AATTATCTTT
1 ATTTATCTTT
16379966 ATTTAT-TTGT
1 ATTTATCTT-T
16379976 ATTTATCTTT
1 ATTTATCTTT
16379986 TAAAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:16382453 original size:56 final size:56
Alignment explanation
Indices: 16382371--16382488 Score: 166
Period size: 56 Copynumber: 2.1 Consensus size: 56
16382361 TACTTGGGAA
* * * *
16382371 ATCTCATACGTATCATAGGATGCCAATGCCATATCCTAGATATGGTCTTACATGGG
1 ATCTCATACATATCATAGGATGCCAATGCCATATCCCAGACATGATCTTACATGGG
* *
16382427 ATCTCATACATGTCAT-GCGATGCCAATGCCATGTCCCAGACATGATCTTACATGGG
1 ATCTCATACATATCATAG-GATGCCAATGCCATATCCCAGACATGATCTTACATGGG
16382483 ATCTCA
1 ATCTCA
16382489 ACTCGATGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 1 0.02
56 54 0.98
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (56 bp):
ATCTCATACATATCATAGGATGCCAATGCCATATCCCAGACATGATCTTACATGGG
Found at i:16382497 original size:48 final size:48
Alignment explanation
Indices: 16382444--16382680 Score: 253
Period size: 48 Copynumber: 5.0 Consensus size: 48
16382434 ACATGTCATG
* * * * *
16382444 CGATGCCAATGCCATGTCCCAGACATGATCTTACATGGGATCTCAACT
1 CGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCAAAT
* * ** *
16382492 CGATGCCGATGCCATATCCCAGATATGGTCTTATACAAGATCCCAAAT
1 CGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCAAAT
* * * *
16382540 -GATACCAATGCCATGTCCCAAACATAGTCTTATACGGGATCTCATAAT
1 CGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCA-AAT
* * ** * *
16382588 -GGTGCTGATGCCATGTCCCAGACATGGTCTTATATAGGACCTCATAT
1 CGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCAAAT
* *
16382635 CGATGCCGATGCCATGTCCCAGACATGGGCTTACACGGGATCTCAA
1 CGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCAA
16382681 TAGCTCAATG
Statistics
Matches: 150, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
47 37 0.25
48 113 0.75
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (48 bp):
CGATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCAAAT
Found at i:16382615 original size:95 final size:95
Alignment explanation
Indices: 16382444--16382680 Score: 273
Period size: 95 Copynumber: 2.5 Consensus size: 95
16382434 ACATGTCATG
* * *
16382444 CGATGCCAATGCCATGTCCCAGACATGATCTTACATGGGATCTCAACTCGATGCCGATGCCATAT
1 CGATACCAATGCCATGTCCCAGACATG-TCTTACACGGGATCTCAAATCGATGCCGATGCCATAT
*
16382509 CCCAGATATGGTCTTATACAAGATCC-CAAAT
65 CCCAGACATGGTCTTATACAAGA-CCTCAAAT
* * * * *
16382540 -GATACCAATGCCATGTCCCAAACATAGTCTTATACGGGATCTCATAAT-GGTGCTGATGCCATG
1 CGATACCAATGCCATGTCCCAGACAT-GTCTTACACGGGATCTCA-AATCGATGCCGATGCCATA
* * *
16382603 TCCCAGACATGGTCTTATATAGGACCTCATAT
64 TCCCAGACATGGTCTTATACAAGACCTCAAAT
* * *
16382635 CGATGCCGATGCCATGTCCCAGACATGGGCTTACACGGGATCTCAA
1 CGATACCAATGCCATGTCCCAGACAT-GTCTTACACGGGATCTCAA
16382681 TAGCTCAATG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
94 2 0.02
95 76 0.64
96 41 0.34
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (95 bp):
CGATACCAATGCCATGTCCCAGACATGTCTTACACGGGATCTCAAATCGATGCCGATGCCATATC
CCAGACATGGTCTTATACAAGACCTCAAAT
Found at i:16384137 original size:14 final size:14
Alignment explanation
Indices: 16384118--16384144 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16384108 AAAATAATTA
16384118 TTTTTATCTCAAAT
1 TTTTTATCTCAAAT
16384132 TTTTTATCTCAAA
1 TTTTTATCTCAAA
16384145 ACCACTATTC
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:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTTATCTCAAAT
Found at i:16385099 original size:23 final size:23
Alignment explanation
Indices: 16385073--16385121 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
16385063 TATGATAGAC
16385073 TGATTTGAGTTAGGAAACTGATA
1 TGATTTGAGTTAGGAAACTGATA
16385096 TGATTTGAGTTAGGAAACTGATA
1 TGATTTGAGTTAGGAAACTGATA
16385119 TGA
1 TGA
16385122 ATGTCTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (23 bp):
TGATTTGAGTTAGGAAACTGATA
Found at i:16388769 original size:16 final size:16
Alignment explanation
Indices: 16388748--16388791 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
16388738 TTGGATAAAG
16388748 TGAAAAAATTAATTAT
1 TGAAAAAATTAATTAT
*
16388764 TG-AAAAATTAAGTAT
1 TGAAAAAATTAATTAT
*
16388779 T-AAAAAGTTAATT
1 TGAAAAAATTAATT
16388792 TAGTATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 22 0.92
16 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (16 bp):
TGAAAAAATTAATTAT
Found at i:16398632 original size:13 final size:13
Alignment explanation
Indices: 16398614--16398656 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
16398604 AAAGAAAGAT
16398614 GAAAAAATTGAAA
1 GAAAAAATTGAAA
* *
16398627 GAAAAAA-AG-AT
1 GAAAAAATTGAAA
16398638 GAAAAAATTGAAA
1 GAAAAAATTGAAA
16398651 GAAAAA
1 GAAAAA
16398657 TAATTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 14 0.58
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAAAAATTGAAA
Found at i:16398635 original size:24 final size:24
Alignment explanation
Indices: 16398603--16398656 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
16398593 GGTGTGCTTG
*
16398603 GAAAGAAAGATGAAAAAATTGAAA
1 GAAAAAAAGATGAAAAAATTGAAA
16398627 GAAAAAAAGATGAAAAAATTGAAA
1 GAAAAAAAGATGAAAAAATTGAAA
16398651 GAAAAA
1 GAAAAA
16398657 TAATTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (24 bp):
GAAAAAAAGATGAAAAAATTGAAA
Found at i:16404422 original size:34 final size:32
Alignment explanation
Indices: 16404365--16404429 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
16404355 TACCAAAGCC
16404365 AATTCAGAAAATGAACTGAAGAATACTAAAATGT
1 AATTCAGAAAATGAACTGAAGAAT--TAAAATGT
*
16404399 AATTCAGAAAATGACCTTG-AGAATTAAAATG
1 AATTCAGAAAATGAAC-TGAAGAATTAAAATG
16404430 ATTTCCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.24
34 20 0.69
35 2 0.07
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (32 bp):
AATTCAGAAAATGAACTGAAGAATTAAAATGT
Found at i:16409856 original size:27 final size:26
Alignment explanation
Indices: 16409807--16409900 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 26
16409797 AAAGTAAACA
*
16409807 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
* **
16409833 ATAAAACAAGTTTCAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
* * **
16409860 ATAAAGCATTTTAAAATTTATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
* * *
16409886 ACAAAGCAAATTAAA
1 ATAAAACAATTTAAA
16409901 GAATGACATA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 33 0.62
27 20 0.38
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:16409973 original size:27 final size:27
Alignment explanation
Indices: 16409915--16409967 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16409905 GACATATATG
* *
16409915 ATTAATTTTAAAATAAATAATATATAA
1 ATTAATTTAAAAATAAATAATATAGAA
*
16409942 ATTAATTTAAAAATAATTAATA-AGAA
1 ATTAATTTAAAAATAAATAATATAGAA
16409968 GTTTAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
ATTAATTTAAAAATAAATAATATAGAA
Found at i:16411476 original size:24 final size:26
Alignment explanation
Indices: 16411421--16411478 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
16411411 TTGGGCTTTA
* * *
16411421 GAGTTTTAAGTTATTGGGTTTATTTT
1 GAGTTTTAAATTATTGGGTCTAGTTT
*
16411447 GGGTTTTAAATT-TTGGG-CTAGTTT
1 GAGTTTTAAATTATTGGGTCTAGTTT
16411471 GAGTTTTA
1 GAGTTTTA
16411479 CAAATAGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 12 0.44
25 5 0.19
26 10 0.37
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.53
Consensus pattern (26 bp):
GAGTTTTAAATTATTGGGTCTAGTTT
Found at i:16418522 original size:4 final size:4
Alignment explanation
Indices: 16418503--16418538 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
16418493 CAATATTAAC
*
16418503 AATA AATG AA-A AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
16418539 TAACAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:16421261 original size:46 final size:46
Alignment explanation
Indices: 16421208--16421383 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
16421198 TATTTGGGCA
16421208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
16421254 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAG-CG
* *
16421301 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16421347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16421384 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16421365 original size:93 final size:93
Alignment explanation
Indices: 16421206--16421375 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
16421196 GATATTTGGG
* *
16421206 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
16421271 GAGTCCGAGTTCGTGAGATGTAACTAGT
66 GAGTCCGAGTTCGTGAGATGTAACTAGT
* *
16421299 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
16421364 GAGTCCGAGTTC
66 GAGTCCGAGTTC
16421376 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGT
Found at i:16425302 original size:20 final size:20
Alignment explanation
Indices: 16425277--16425327 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16425267 GGCATATGCT
* *
16425277 CGTGTGGCCTGGGACACGCC
1 CGTGTGGCCTAGAACACGCC
*
16425297 CGTGTGGCCTAGAACATGCC
1 CGTGTGGCCTAGAACACGCC
*
16425317 TGTGTGGCCTA
1 CGTGTGGCCTA
16425328 CCCATGGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.35, T:0.22
Consensus pattern (20 bp):
CGTGTGGCCTAGAACACGCC
Found at i:16426202 original size:53 final size:52
Alignment explanation
Indices: 16426117--16426276 Score: 162
Period size: 52 Copynumber: 3.1 Consensus size: 52
16426107 CGGATTACAT
* * * *
16426117 ATCATACCGATGCCATATCCCAGATATGGTCTTATACAGAATCACAT-TATCGC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAA--ACATGAATCAC
* * *
16426170 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACATGAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAACATGAATCAC
** * * * *
16426222 ATTGTACTGATGCCATAGCCCGGCTATGGTCTTATACGGAAGCAT-ATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAACATGA-ATCAC
16426274 ATC
1 ATC
16426277 TTTTCGTCAA
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
51 5 0.06
52 49 0.54
53 36 0.40
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAACATGAATCAC
Found at i:16433593 original size:52 final size:52
Alignment explanation
Indices: 16433471--16433630 Score: 180
Period size: 52 Copynumber: 3.1 Consensus size: 52
16433461 CGGATTACAT
* * * * *
16433471 ATCATACCGATGCCATATCCTAGATATGGTCTTATACAGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACATAATCAC
* *
16433524 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGA-ACATGAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAACACAT-AATCAC
** * *
16433576 ATTGTACCGATGCCATAGCCCGGCTATGGTCTTATACGGAA-GCATATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAACACATA-ATCAC
16433628 ATC
1 ATC
16433631 TTTTCGTCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
51 5 0.05
52 51 0.56
53 35 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAACACATAATCAC
Found at i:16435291 original size:17 final size:18
Alignment explanation
Indices: 16435259--16435295 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16435249 ACTTTACTAG
16435259 AAAACAAATCTATTTACAT
1 AAAACAAA-CTATTTACAT
16435278 AAAACAAA-TATTTACAT
1 AAAACAAACTATTTACAT
16435295 A
1 A
16435296 CACAGTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAACAAACTATTTACAT
Found at i:16437452 original size:3 final size:3
Alignment explanation
Indices: 16437439--16437492 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
16437429 GAGATAAAAT
* * *
16437439 ATA ACA ATA ATA ATA ACA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16437487 ATA ATA
1 ATA ATA
16437493 TGTGTAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:16442173 original size:18 final size:17
Alignment explanation
Indices: 16442150--16442187 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
16442140 TTATTAAATT
*
16442150 TTTTAAAAAAATTTATAA
1 TTTTAAAAAAAATT-TAA
16442168 TTTTAAAAAAAATTTAA
1 TTTTAAAAAAAATTTAA
16442185 TTT
1 TTT
16442188 CATAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAAAAAAAATTTAA
Found at i:16442187 original size:24 final size:25
Alignment explanation
Indices: 16442159--16442212 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
16442149 TTTTTAAAAA
16442159 AATTT-ATAATTTTAAAAAA-AATTT
1 AATTTCATAA-TTTAAAAAATAATTT
*
16442183 AATTTCATAATTTAAAAAATTATTT
1 AATTTCATAATTTAAAAAATAATTT
16442208 AATTT
1 AATTT
16442213 TTTTTTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AATTTCATAATTTAAAAAATAATTT
Found at i:16445702 original size:20 final size:19
Alignment explanation
Indices: 16445670--16445707 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16445660 TGCGATGGAA
16445670 TAATAATATATAACACAAAG
1 TAATAATATATAA-ACAAAG
16445690 TAATAAT-TCATAAACAAA
1 TAATAATAT-ATAAACAAA
16445708 ATGTTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (19 bp):
TAATAATATATAAACAAAG
Found at i:16445925 original size:21 final size:23
Alignment explanation
Indices: 16445878--16445931 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
16445868 CATTCAAGAT
**
16445878 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
16445901 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
16445922 AAAAT-ATATA
1 AAAATAATATA
16445932 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:16447007 original size:21 final size:23
Alignment explanation
Indices: 16446960--16447013 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
16446950 CATTCAAGAT
**
16446960 AAAATAATATATAAAACTCCTTA
1 AAAATAATATATAAAACTAATTA
*
16446983 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
16447004 AAAAT-ATATA
1 AAAATAATATA
16447014 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:16447251 original size:15 final size:17
Alignment explanation
Indices: 16447231--16447270 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
16447221 ATAGAAACAA
16447231 AAATATAATAA-A-TAG
1 AAATATAATAATAGTAG
16447246 AAATATAATAATAGTAG
1 AAATATAATAATAGTAG
16447263 AAATATAA
1 AAATATAA
16447271 ATAGATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
AAATATAATAATAGTAG
Found at i:16447290 original size:15 final size:14
Alignment explanation
Indices: 16447235--16447317 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 14
16447225 AAACAAAAAT
16447235 ATAATAAATAGA-AA
1 ATAA-AAATAGATAA
* *
16447249 TATAATAATAGTAGAA
1 -ATAAAAATAG-ATAA
*
16447265 ATATAAATAGATAA
1 ATAAAAATAGATAA
16447279 ATAAAAATTAGATAA
1 ATAAAAA-TAGATAA
*
16447294 ATAATAATAGTATTAGA
1 ATAAAAATAG-A-TA-A
16447311 ATAAAAA
1 ATAAAAA
16447318 ACTAAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
14 17 0.31
15 27 0.49
16 4 0.07
17 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (14 bp):
ATAAAAATAGATAA
Found at i:16447295 original size:29 final size:28
Alignment explanation
Indices: 16447238--16447333 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 28
16447228 CAAAAATATA
* *
16447238 ATAAATAGA-AATATAATAATAGTAGAAAT
1 ATAAATAGATAA-ATAAAAATAG-ATAAAT
16447267 ATAAATAGATAAATAAAAATTAGATAAAT
1 ATAAATAGATAAATAAAAA-TAGATAAAT
*
16447296 A-ATAATAGTATTAGAATAAAAA-A-CTAAAT
1 ATA-AATAG-A-TA-AATAAAAATAGATAAAT
16447325 ATAAATAGA
1 ATAAATAGA
16447334 AACATAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
28 2 0.04
29 37 0.65
30 8 0.14
31 2 0.04
32 8 0.14
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (28 bp):
ATAAATAGATAAATAAAAATAGATAAAT
Found at i:16452503 original size:5 final size:5
Alignment explanation
Indices: 16452487--16452524 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
16452477 AATATTTTTT
16452487 AGAAA A-AAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
16452525 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:16454611 original size:16 final size:15
Alignment explanation
Indices: 16454590--16454642 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
16454580 ATATGATATT
16454590 TATACATTGATATTTA
1 TATACATT-ATATTTA
* *
16454606 TATACA-CATATATA
1 TATACATTATATTTA
*
16454620 TATATATATATATTTA
1 TATACAT-TATATTTA
16454636 TATACAT
1 TATACAT
16454643 AATTTAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 11 0.38
16 18 0.62
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (15 bp):
TATACATTATATTTA
Found at i:16467669 original size:66 final size:66
Alignment explanation
Indices: 16467563--16467689 Score: 218
Period size: 66 Copynumber: 1.9 Consensus size: 66
16467553 CATTCATATA
* * *
16467563 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACACT
1 ATAACACATCTAGTTAGAAGCATTTAATTCATTTCAATCATAGCATCCTAATCATTTGACACACT
16467628 C
66 C
*
16467629 ATAACACATCTAGTTAGAAGCATTTAATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGAAGCATTTAATTCATTTCAATCATAGCATCCTAATCATTTGACA
16467690 TAAGCATAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGAAGCATTTAATTCATTTCAATCATAGCATCCTAATCATTTGACACACT
C
Found at i:16467904 original size:86 final size:86
Alignment explanation
Indices: 16467793--16468479 Score: 1198
Period size: 86 Copynumber: 8.0 Consensus size: 86
16467783 TGAAGATTTA
* *
16467793 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
16467858 GTAGGGTAACAGACCGAATTG
66 GTAGGGTAACAGACCGAATTG
16467879 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
16467944 GTAGGGTAACAGACCGAATTG
66 GTAGGGTAACAGACCGAATTG
16467965 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
16468030 GTAGGGTAACAGACCGAATTG
66 GTAGGGTAACAGACCGAATTG
* * *
16468051 CAGATCTTATCTCCCTAAGCAGTAGGAAAACCGATCGAAGACAAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
*
16468116 GTAGGGTAACAGACTGAATTG
66 GTAGGGTAACAGACCGAATTG
16468137 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
16468202 GTAGGGTAACAGACCGAATTG
66 GTAGGGTAACAGACCGAATTG
*
16468223 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
16468288 GTAGGGTAACAGACCGAATTG
66 GTAGGGTAACAGACCGAATTG
*
16468309 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAGGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
16468374 GTAGGGTAACAGACCGAATTG
66 GTAGGGTAACAGACCGAATTG
* * * * * * *
16468395 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG-CTTTAACCCCCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTC-TTAAACCCCTAATC
*
16468459 AGTAGGGTAACA-AGCCGAATT
65 GGTAGGGTAACAGA-CCGAATT
16468480 TACAAGCTTT
Statistics
Matches: 577, Mismatches: 22, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
85 2 0.00
86 575 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (86 bp):
CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
GTAGGGTAACAGACCGAATTG
Found at i:16468503 original size:43 final size:43
Alignment explanation
Indices: 16468442--16468878 Score: 321
Period size: 43 Copynumber: 10.0 Consensus size: 43
16468432 AAGATGATGG
16468442 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
16468485 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
* * * *
16468528 GCCTTAACCCCCTAAGCAGTAGAGTAACAGGCTGAAGATTTAC-A
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAA
* * * * * * * **
16468572 GATCTTAACCCCCTAAGTAGTAGGGAAAC-AGATCAAAGATGATGA
1 GCT-TTAACCCCCTAAGCAGTAGGGTAACAAG-CCGAA-TTTACAA
*
16468617 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATCTACAA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
* * * * * **
16468660 ACCTTAAACCCTTAAGCAGTAGGGTAACAGGCTAAAGATTTA-AA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CGA-ATTTACAA
* * * * * * * **
16468704 GATCTTAACCCCCTAAGTAGTAGGGAAAC-AGATCAAAGATGATGA
1 GCT-TTAACCCCCTAAGCAGTAGGGTAACAAG-CCGAA-TTTACAA
* *
16468749 GCTTTAACCCCCTAAGCAGTAGGGTAATAAGCCGAATCTACAA
1 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
* * * **
16468792 -ATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAA
1 GCT-TTAACCCCCTAAGCAGTAGGGTAACAAGC-CGA-ATTTACAA
* * **
16468837 -ATCTTAACCCCCTAACCTA-TAGGGTAACAAGTTGAATTTACA
1 GCT-TTAACCCCCTAAGC-AGTAGGGTAACAAGCCGAATTTACA
16468879 GATCTTGTCT
Statistics
Matches: 305, Mismatches: 71, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.00
43 139 0.46
44 68 0.22
45 96 0.31
46 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (43 bp):
GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
Found at i:16468542 original size:258 final size:259
Alignment explanation
Indices: 16467747--16468851 Score: 1139
Period size: 258 Copynumber: 4.2 Consensus size: 259
16467737 CAGTGAATTC
* * * * *
16467747 ACAAGCCTTAAGCCCCTAAGCGGTAGGGTAATAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGTCTTAAACCCCTAAGCGGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAG
16467812 CAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAAT
66 CAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAAT
* * * *
16467877 TGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAT
131 TGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCCTAAG
* * * * *
16467942 CGGTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAA-G
196 CAGTAGGGTAACAGACCGAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGACCGAATG
* * * *
16468005 ACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TTGCAGATCTTATCTCCCT
1 AC-AA--GTCTTAAACCCCTAAGCGGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCT
* * * *
16468067 AAGCAGTAGGAAAACCGATCGAAGACAAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACTG
63 AAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG
* * *
16468132 AATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCT
128 AATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCCT
* * * * * *
16468197 AATCGGTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAA
193 AAGCAGTAGGGTAACAGACCGAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGACCGAA
16468262 -G
258 TG
* * * *
16468263 ACAAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TTGCAGATCTTATCTCCCT
1 AC-AA--GTCTTAAACCCCTAAGCGGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCT
*
16468325 AAGCAGTAGGGAAACAGATCGAGGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG
63 AAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG
* * *
16468390 AATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGG-CTTTAACCCCC
128 AATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTC-TTAAACCCC
* *
16468454 TAAGCAGTAGGGTAACA-AGCCGAATTTACA-AGCTTTAACCCCCTAAGCAGTAGGGTAACA-AG
192 TAAGCAGTAGGGTAACAGA-CCGAA-TTACAGATC-TTAACCCCCTAAGCAGTAGGGAAACAGA-
*
16468516 CCGAATTT
253 CCGAA-TG
* * * * * *
16468524 ACAAGCCTTAACCCCCTAAGCAGTAGAGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGTCTTAAACCCCTAAGCGGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAG
* * * * * * * *
16468589 TAGTAGGGAAACAGATCAAAGATGATGAG-CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGA
66 CAGTAGGGAAACAGATCGAAGACGAAGGGTC-TTAAACCCCTAATCGGTAGGGTAACAGA-CCGA
* * * * * * * ** * * *
16468652 ATCTACAAACCTTAAACCCTTAAGCAGTAGGGTAACAG-GCTAAAGATTTAAAGATCTTAACCCC
129 AT-TGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGA-CGAAGGGTCTTAAACCC
* * ** * * *
16468716 CTAAGTAGTAGGGAAACAGATCAAAGATGA-TGAGCTTTAACCCCCTAAGCAGTAGGGTAATA-A
191 CTAAGCAGTAGGGTAACAGA-CCGA-ATTACAGATC-TTAACCCCCTAAGCAGTAGGG-AA-ACA
*
16468779 G-CCGAATCT
251 GACCGAAT-G
* * * ** *
16468788 ACAAATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAAATCTTAACCCCCTAA
1 ACAAGTCTTAAACCCCTAAGCGGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAA
16468852 CCTATAGGGT
Statistics
Matches: 743, Mismatches: 78, Indels: 46
0.86 0.09 0.05
Matches are distributed among these distances:
257 2 0.00
258 437 0.59
259 35 0.05
260 6 0.01
261 102 0.14
262 34 0.05
263 28 0.04
264 95 0.13
265 3 0.00
266 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (259 bp):
ACAAGTCTTAAACCCCTAAGCGGTAGGGTAACAGACCGAAGATTTACAGATCTTAACCCCCTAAG
CAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAAT
TGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGTCTTAAACCCCTAAG
CAGTAGGGTAACAGACCGAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGACCGAATG
Found at i:16468557 original size:172 final size:171
Alignment explanation
Indices: 16467793--16468653 Score: 1135
Period size: 172 Copynumber: 5.0 Consensus size: 171
16467783 TGAAGATTTA
* *
16467793 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGTCTTAAACCCCTAATCG
* *
16467858 GTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGA
65 GTAGGGTAACAGACCGAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA
16467923 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
130 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
16467965 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGTCTTAAACCCCTAATCG
* * * * *
16468030 GTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGAAAACCGATCGAAGACAA
65 GTAGGGTAACAGACCGAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA
*
16468095 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACTGAATTG
130 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
16468137 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGTCTTAAACCCCTAATCG
* * *
16468202 GTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACAA
65 GTAGGGTAACAGACCGAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA
16468267 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
130 AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
*
16468309 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAGGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGTCTTAAACCCCTAATCG
* *
16468374 GTAGGGTAACAGACCGAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGA
65 GTAGGGTAACAGACCGAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA
* * * * *
16468439 TGGG-CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTA
130 AGGGTC-TTAAACCCCTAATCGGTAGGGTAACAGA-CCGAA-TTG
* * * * * * * *
16468482 CA-AGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTAC-AA-GCCTTAACCCCCTAA
1 CAGATC-TTATCTCCCTAAGCAGTAGGGAAACAGA-TCGAA--GACGAAGGTCTTAAACCCCTAA
* * * * * * * *
16468543 GCAGTAGAGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAA
62 TCGGTAGGGTAACAGACCG-A-A-TTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGA
* * * * * *
16468608 AGATGATGAG-CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAAT
124 AGACGAAGGGTC-TTAAACCCCTAATCGGTAGGGTAACAGA-CCGAAT
16468654 CTACAAACCT
Statistics
Matches: 642, Mismatches: 37, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
171 2 0.00
172 520 0.81
173 31 0.05
174 4 0.01
175 85 0.13
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (171 bp):
CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGTCTTAAACCCCTAATCGG
TAGGGTAACAGACCGAATTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA
GGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
Found at i:16468645 original size:132 final size:132
Alignment explanation
Indices: 16468484--16469039 Score: 655
Period size: 132 Copynumber: 4.2 Consensus size: 132
16468474 CGAATTTACA
* * *
16468484 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAACCCCCTAAGCAGTA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATCTACAAACCTTAAACCCCTAAGCAGTA
* *
16468549 GAGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGA
66 GGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGA
16468614 TG
131 TG
*
16468616 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATCTACAAACCTTAAACCCTTAAGCAGTA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATCTACAAACCTTAAACCCCTAAGCAGTA
*
16468681 GGGTAACAGGCTAAAGATTTAAAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGA
66 GGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGA
16468746 TG
131 TG
* *
16468748 AGCTTTAACCCCCTAAGCAGTAGGGTAATAAGCCGAATCTACAAATCTTAAACCCCTAAGCAGTA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATCTACAAACCTTAAACCCCTAAGCAGTA
* * * ** *
16468813 GGGTAACAGGCTAAAGATTTACAAATCTTAACCCCCTAACCTA-TAGGGTAACA-AGTTGAA-TT
66 GGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAA-GTAGTAGGGAAACAGA-TCAAAGAT
* *
16468875 TACAG
129 GA-TG
* * * * * * *
16468880 ATCTTGT--CTCCCTAAGCATTAGTGG-AGATAA-TCGAAGACGA-AGAACCTTAAACCCCTAAG
1 AGCTT-TAACCCCCTAAGCAGTAG-GGTA-ACAAGCCGAA-TCTACA-AACCTTAAACCCCTAAG
* * * * * *
16468940 CAGTAGGGTAACAGG-TTAA-ATTCACATATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAA
61 CAGTAGGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAA
* *
16469003 TACGATG
126 GATGATG
* * *
16469010 GGCCTTAACCCCCTAAGTAGTAGGGTAACA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACA
16469040 GGCTAGAAAT
Statistics
Matches: 365, Mismatches: 45, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
129 3 0.01
130 39 0.11
131 40 0.11
132 280 0.77
133 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (132 bp):
AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATCTACAAACCTTAAACCCCTAAGCAGTA
GGGTAACAGGCTAAAGATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGATGA
TG
Found at i:16468951 original size:87 final size:87
Alignment explanation
Indices: 16468659--16469039 Score: 252
Period size: 87 Copynumber: 4.3 Consensus size: 87
16468649 CGAATCTACA
* * * * * * * * *
16468659 AACCTTAAACCCTTAAGCAGTAGGGTAACAGGCTAAAGATTTAAAGATCTTAACCCCCTAAGTAG
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAAG-TTAA-ATTCACAGATCTTATCACCCTAAGCAG
* * *
16468724 TAGGGAAACAGATCAAAGATGATG
64 TAGGGAAACAGATCGAAGACGAAG
* * * *** * *
16468748 AGCTTTAACCCCCTAAGCAGTAGGGTAATAAGCCGAA-TCTACAAATCTTA-AACCCCTAAGCAG
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAAGTTAAATTC-ACAGATCTTATCA-CCCTAAGCAG
* * * **
16468811 TAGGGTAACAG-GCTAAAGATTTACA-
64 TAGGGAAACAGATC-GAAGA-CGA-AG
* * * * * * *
16468836 AATCTTAACCCCCTAACCTA-TAGGGTAACAAGTTGAATTTACAGATCTTGTCTCCCTAAGCATT
1 AACCTTAACCCCCTAAGC-AGTAGGGTAACAAGTTAAATTCACAGATCTTATCACCCTAAGCAGT
* *
16468900 AGTGGAGATA-ATCGAAGACGAAG
65 AG-GGAAACAGATCGAAGACGAAG
* * * *
16468923 AACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTCACATATCTTATCACCCTAAGTAGTA
1 AACCTTAACCCCCTAAGCAGTAGGGTAACAAGTTAAATTCACAGATCTTATCACCCTAAGCAGTA
* *
16468988 GGGAAACAGATCGAATACGATG
66 GGGAAACAGATCGAAGACGAAG
** *
16469010 GGCCTTAACCCCCTAAGTAGTAGGGTAACA
1 AACCTTAACCCCCTAAGCAGTAGGGTAACA
16469040 GGCTAGAAAT
Statistics
Matches: 221, Mismatches: 58, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
86 9 0.04
87 124 0.56
88 55 0.25
89 33 0.15
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (87 bp):
AACCTTAACCCCCTAAGCAGTAGGGTAACAAGTTAAATTCACAGATCTTATCACCCTAAGCAGTA
GGGAAACAGATCGAAGACGAAG
Found at i:16469172 original size:68 final size:68
Alignment explanation
Indices: 16469053--16469322 Score: 344
Period size: 68 Copynumber: 4.0 Consensus size: 68
16469043 TAGAAATCAA
* *
16469053 ATCTCTTTTCCCTAAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAAATCTCCTTAAAGTTTCAG
1 ATCTCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAG
16469118 TGG
66 TGG
* * *
16469121 GTCTCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAGTTTCAG
1 ATCTCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAG
* *
16469186 CGA
66 TGG
* * * * *
16469189 ACCTCTTCTT-CTTGAAATGGCGTTGGAGCGGTTAAAACCCACAGCAGATCTCCTTGAATGTTTC
1 ATCTCTT-TTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTT-AAAGTTTC
*
16469253 AGTAG
64 AGTGG
* * * ** *
16469258 ATCTCTTCTCCCTGAAATGGCGTTGGAACGACTAAAAGTTACAGCAGATTTCCTTAAAGTTTCAG
1 ATCTCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAG
16469323 CGGAAGAAGA
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
68 117 0.69
69 53 0.31
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (68 bp):
ATCTCTTTTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAG
TGG
Found at i:16469304 original size:137 final size:136
Alignment explanation
Indices: 16469067--16469324 Score: 381
Period size: 137 Copynumber: 1.9 Consensus size: 136
16469057 CTTTTCCCTA
* * * *
16469067 AAATGGCGTTGGAGCGGCTAAAAGCCACAGCAAATCTCCTTAAAGTTTCAGTGGGTCTCTTTTCC
1 AAATGGCGTTGGAGCGGCTAAAACCCACAGCAAATCTCCTTAAAGTTTCAGTAGATCTCTTCTCC
* * * *
16469132 CTGAAATGGCGTTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAGTTTCAGCGAACCTCTTC
66 CTGAAATGGCGTTGGAACGACTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGAACCTCTTC
16469197 TTCTTG
131 TTCTTG
* * *
16469203 AAATGGCGTTGGAGCGGTTAAAACCCACAGCAGATCTCCTTGAATGTTTCAGTAGATCTCTTCTC
1 AAATGGCGTTGGAGCGGCTAAAACCCACAGCAAATCTCCTT-AAAGTTTCAGTAGATCTCTTCTC
** *
16469268 CCTGAAATGGCGTTGGAACGACTAAAAGTTACAGCAGATTTCCTTAAAGTTTCAGCG
65 CCTGAAATGGCGTTGGAACGACTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAGCG
16469325 GAAGAAGATC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
136 38 0.36
137 69 0.64
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (136 bp):
AAATGGCGTTGGAGCGGCTAAAACCCACAGCAAATCTCCTTAAAGTTTCAGTAGATCTCTTCTCC
CTGAAATGGCGTTGGAACGACTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGAACCTCTTC
TTCTTG
Found at i:16469570 original size:88 final size:88
Alignment explanation
Indices: 16469478--16469733 Score: 435
Period size: 88 Copynumber: 2.9 Consensus size: 88
16469468 ACAGTAGATT
*
16469478 TGGCATCCCTGTGCTTATAGGGAAC-AGATTGAAGATAGCAGATCTGACATTCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGATCTGACATTCCTGTGCTTATAG
16469542 TGAAGCAGATCGAAGATTTCAGCA
65 TGAAGCAGATCGAAGATTTCAGCA
*
16469566 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTATAGT
16469631 GAAGCAGATCGAAGATTTCAGCA
66 GAAGCAGATCGAAGATTTCAGCA
* * * *
16469654 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTATAGT
16469719 GAA-CAGATCGAAGAT
66 GAAGCAGATCGAAGAT
16469734 AGCAGATCTG
Statistics
Matches: 160, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
87 12 0.08
88 146 0.91
89 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (88 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTATAGT
GAAGCAGATCGAAGATTTCAGCA
Found at i:16469621 original size:132 final size:131
Alignment explanation
Indices: 16469376--16469785 Score: 443
Period size: 132 Copynumber: 3.1 Consensus size: 131
16469366 GGAGCAGACT
* * * * *
16469376 GAAGATAGCAGGTCTGACATTCCTGTGCTTACAGTGAAACAGGTCGAAGATTTCATCATGGTATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTG-AACAGATCGAAGATTTCAGCATGGCATC
* * * * * * *
16469441 CCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
65 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTACAGAGAACAGA
*
16469506 TT
130 TC
16469508 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAA-CAGATCGAAGATTTCAGCATGGCATC
*
16469573 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAG
65 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTACAGAGAA-CAG
16469638 ATC
129 ATC
** * * * * * **
16469641 GAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAATAGCAG-ATTTGGC
1 GAAGATAGCAGATC-TGACATTCCTGTGCTTATAGTGAACAGA-TCGAAGATTTCAGCA--TGGC
* * * *
16469702 ATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACATTCTTATGCTTACAGTAGA
62 ATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGATCTGACATTCCTGTGCTTACAG-AGA
*
16469766 GCAGATC
125 ACAGATC
*
16469773 GAAGATAACAGAT
1 GAAGATAGCAGAT
16469786 TTGGCGTCTC
Statistics
Matches: 238, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
130 2 0.01
131 16 0.07
132 204 0.86
133 16 0.07
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (131 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAACAGATCGAAGATTTCAGCATGGCATCC
CTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATCTGACATTCCTGTGCTTACAGAGAACAGAT
C
Found at i:16469736 original size:44 final size:44
Alignment explanation
Indices: 16469376--16469790 Score: 317
Period size: 44 Copynumber: 9.4 Consensus size: 44
16469366 GGAGCAGACT
* * * * * *
16469376 GAAGATAGCAGGTCTGACATTCCTGTGCTTACAGTGAAACAGGTC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAG-GGAACAGATC
** * *
16469421 GAAGATTTC--ATCATGGTATCCCTGTGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * * * *
16469464 GAAAACAGTAGATTTGGCATCCCTGTGCTTATAGGGAACAGATT
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
* * *
16469508 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
16469553 GAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* * * * *
16469596 GAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAGATC
** *
16469641 GAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACA-AGTT
1 GAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAGA-TC
* *
16469684 GAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
* * * * * * *
16469728 GAAGATAGCAGATCTGACATTCTTATGCTTACAGTAGAGCAGATC
1 GAAGATAGCAGATCTGGCATCCCTGTGCTTATAG-GGAACAGATC
* *
16469773 GAAGATAACAGATTTGGC
1 GAAGATAGCAGATCTGGC
16469791 GTCTCTGTAG
Statistics
Matches: 288, Mismatches: 64, Indels: 36
0.74 0.16 0.09
Matches are distributed among these distances:
42 2 0.01
43 36 0.12
44 189 0.66
45 60 0.21
46 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
GAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGATC
Found at i:16469771 original size:220 final size:220
Alignment explanation
Indices: 16469375--16469778 Score: 684
Period size: 220 Copynumber: 1.8 Consensus size: 220
16469365 AGGAGCAGAC
* * * * *
16469375 TGAAGATAGCAGGTCTGACATTCCTGTGCTTACAGTGAAACAGGTCGAAGATTTCATCATGGTAT
1 TGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATTTCAGCATGGCAT
*
16469440 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
* * *
16469505 ATTGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATCGAAGATTTCAGCATGGC
131 ATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGC
16469570 ATCCCTGTGCTTATAGGGAACAAGT
196 ATCCCTGTGCTTATAGGGAACAAGT
*
16469595 TGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 TGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATTTCAGCATGGCAT
*
16469660 CCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
*
16469725 ATCGAAGATAGCAGATCTGACATTCTTATGCTTACAGT-AGAGCAGATCGAAGAT
131 ATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGA-AGCAGATCGAAGAT
16469779 AACAGATTTG
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
219 1 0.01
220 170 0.99
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (220 bp):
TGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCGAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
ATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGC
ATCCCTGTGCTTATAGGGAACAAGT
Found at i:16469824 original size:44 final size:44
Alignment explanation
Indices: 16469763--16469955 Score: 242
Period size: 44 Copynumber: 4.4 Consensus size: 44
16469753 TGCTTACAGT
*
16469763 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAG
1 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAG
* * * * *
16469807 AGAGCATATCGAAGATAACAGATTTGACGTTTTTGTAGCGGCAG
1 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAG
* * *
16469851 AGAGCAGATCAAATATAACAGATTTGGTGTCTCTGTAGCGGCGG
1 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAG
* * ** *
16469895 AGAGCAGATCAAAGATGACAGATTTGGTGTCTCTGTATTGGACGG
1 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGG-CAG
*
16469940 GGAGCAGATCAAAGAT
1 AGAGCAGATCAAAGAT
16469956 TGTAGGTATC
Statistics
Matches: 131, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 113 0.86
45 18 0.14
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (44 bp):
AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAG
Found at i:16476582 original size:31 final size:31
Alignment explanation
Indices: 16476547--16476621 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
16476537 ATGTTAATGG
* *
16476547 GTGACTGGTTTGTCACTTTTCAATAATATTA
1 GTGACTGATTTGTCACTTTTCAATAACATTA
16476578 GTGACTGATTTGTCACTTTTCAATAACATTA
1 GTGACTGATTTGTCACTTTTCAATAACATTA
*
16476609 TTGACTGATTTGT
1 GTGACTGATTTGT
16476622 TATTTTTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTCAATAACATTA
Found at i:16477295 original size:6 final size:6
Alignment explanation
Indices: 16477286--16477315 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
16477276 TAAAAAATTC
*
16477286 AATTCA AATTTA AATTTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA
16477316 GAACATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:16478145 original size:96 final size:97
Alignment explanation
Indices: 16478026--16478200 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 97
16478016 AATTTTAGGG
* * ** * *
16478026 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGTATTTGTTAATTAAATTAATTACCAATTTT-
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGATTACTTAAGTAAATTAATTACAAATTTTA
*
16478090 AAAAAATTAGATTATGGTTTAGTGTTTATGGT
66 AAAAAATTAAATTATGGTTTAGTGTTTATGGT
* * *
16478122 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGATTACTTAAGTAAATTAATTACAAATTTTA
16478187 AAAAAATTAAATTA
66 AAAAAATTAAATTA
16478201 GGATTTTAGG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 55 0.81
97 13 0.19
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (97 bp):
TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGATTACTTAAGTAAATTAATTACAAATTTTA
AAAAAATTAAATTATGGTTTAGTGTTTATGGT
Found at i:16478475 original size:126 final size:126
Alignment explanation
Indices: 16478258--16478796 Score: 819
Period size: 126 Copynumber: 4.3 Consensus size: 126
16478248 AAAAGCTTCT
*
16478258 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
16478323 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAATAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
16478384 ACGTGGACGCTCTTTCGCTACAGTAGTATCTAAAAAAATAATTTTAAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
16478449 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTGAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
16478510 ACGTGGATGCTTTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
16478575 ATAGTGGT-CAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * ****
16478636 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTATATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
16478701 ATAGTATCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
16478762 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
16478797 TAACTTGGGC
Statistics
Matches: 376, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 373 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:16479474 original size:26 final size:26
Alignment explanation
Indices: 16479438--16479521 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
16479428 TGATACAAAT
* *
16479438 TGATAATAGGTTAGGTAAACGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16479464 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16479490 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16479516 TGATAA
1 TGATAA
16479522 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16484966 original size:55 final size:55
Alignment explanation
Indices: 16484907--16485086 Score: 170
Period size: 55 Copynumber: 3.2 Consensus size: 55
16484897 TACATGAAAT
16484907 AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
1 AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
* * * * *
16484962 AATATAAAAGTA---AATTATAATTACTTTATTTAAAACAACCTTTT-ATATTATCACATGAAA
1 AATATAAAAATATTCAA-AAT-ATTGCTTTATTTAAAATAA--TTTTCAT-TT-T---ATTAAA
* * *
16485022 TAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAA
1 -AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
16485078 AATATAAAA
1 AATATAAAA
16485087 GTAAATTACA
Statistics
Matches: 98, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
52 2 0.02
53 2 0.02
54 17 0.17
55 22 0.22
56 11 0.11
57 1 0.01
59 1 0.01
60 10 0.10
61 13 0.13
62 15 0.15
63 2 0.02
64 2 0.02
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (55 bp):
AATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTAAA
Found at i:16485070 original size:116 final size:116
Alignment explanation
Indices: 16484893--16485161 Score: 475
Period size: 116 Copynumber: 2.3 Consensus size: 116
16484883 TATTTATATT
* * *
16484893 TTATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTAT
1 TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
*
16484958 TAAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATA
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
*
16485009 TTATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
1 TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
*
16485074 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATC
66 TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
*
16485125 TAATTACATGAAATAATATAAAAATATTCAAAATGTT
1 TTATTACATGAAATAATATAAAAATATTCAAAATGTT
16485162 TGTACAAATA
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 145 1.00
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.41
Consensus pattern (116 bp):
TTATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTAT
TAAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATA
Found at i:16485572 original size:18 final size:18
Alignment explanation
Indices: 16485546--16485588 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16485536 GACTAGAAAA
* *
16485546 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
16485564 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
16485582 AGGATAC
1 AGGATAC
16485589 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:16485683 original size:30 final size:30
Alignment explanation
Indices: 16485649--16485706 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16485639 TGTTGGGCCC
*
16485649 GGTGACTGTGTAGGTC-CTGTTGCTGGGCTG
1 GGTGACTGTGTAGG-CGCTGTTGATGGGCTG
*
16485679 GGTGATTGTGTAGGCGCTGTTGATGGGC
1 GGTGACTGTGTAGGCGCTGTTGATGGGC
16485707 CTGCGTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.09, C:0.14, G:0.45, T:0.33
Consensus pattern (30 bp):
GGTGACTGTGTAGGCGCTGTTGATGGGCTG
Found at i:16487337 original size:15 final size:15
Alignment explanation
Indices: 16487317--16487346 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16487307 TTTTTATTTT
*
16487317 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
16487332 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
16487347 CGCTTTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:16487386 original size:22 final size:22
Alignment explanation
Indices: 16487374--16487423 Score: 86
Period size: 20 Copynumber: 2.4 Consensus size: 22
16487364 TAACGAGAGT
16487374 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
16487396 TTTGAGA-G-ATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
16487416 TTTGAGAG
1 TTTGAGAG
16487424 AATATTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 19 0.70
21 1 0.04
22 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:16487397 original size:11 final size:11
Alignment explanation
Indices: 16487378--16487425 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
16487368 GAGAGTTTTG
*
16487378 AGAGGAATTTA
1 AGAGAAATTTA
16487389 AGAGAAATTT-
1 AGAGAAATTTA
*
16487399 -GAGAGATTTA
1 AGAGAAATTTA
*
16487409 AGAGAAATTTG
1 AGAGAAATTTA
16487420 AGAGAA
1 AGAGAA
16487426 TATTGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 8 0.26
11 23 0.74
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (11 bp):
AGAGAAATTTA
Found at i:16494232 original size:42 final size:43
Alignment explanation
Indices: 16494173--16494260 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 43
16494163 TAGGGTTATT
*
16494173 TGAGTTTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
1 TGAGTTTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATA
* * *
16494215 TGAGTTTTTGTGTAAGACTATAGCTGGGCTATTGGCATCGATA
1 TGAGTTTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATA
16494258 TGA
1 TGA
16494261 AATCCAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 27 0.66
43 14 0.34
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (43 bp):
TGAGTTTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATA
Found at i:16500123 original size:40 final size:40
Alignment explanation
Indices: 16500078--16500244 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16500068 CGGAATATAA
16500078 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16500118 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
16500158 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16500198 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16500237 CCGGATAT
1 CCGGATAT
16500245 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16500228 original size:80 final size:79
Alignment explanation
Indices: 16500078--16500244 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
16500068 CGGAATATAA
* *
16500078 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
16500143 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
16500158 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
16500220 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
16500237 CCGGATAT
1 CCGGATAT
16500245 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:16501093 original size:17 final size:19
Alignment explanation
Indices: 16501070--16501115 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
16501060 AAGAAGCATG
16501070 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
16501088 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
16501106 AATCATGCTC
1 AATCATGCTC
16501116 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:16510036 original size:17 final size:19
Alignment explanation
Indices: 16510013--16510058 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
16510003 AAGAAGCATG
16510013 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
16510031 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
16510049 AATCATGCTC
1 AATCATGCTC
16510059 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:16517064 original size:40 final size:40
Alignment explanation
Indices: 16517019--16517185 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16517009 CGGAATATAA
16517019 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
16517059 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
16517099 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16517139 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16517178 CCGGATAT
1 CCGGATAT
16517186 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16517169 original size:80 final size:79
Alignment explanation
Indices: 16517019--16517185 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
16517009 CGGAATATAA
* *
16517019 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
16517084 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
16517099 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
16517161 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
16517178 CCGGATAT
1 CCGGATAT
16517186 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:16518034 original size:17 final size:19
Alignment explanation
Indices: 16518011--16518056 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
16518001 AAGAAGCATG
16518011 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
16518029 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
16518047 AATCATGCTC
1 AATCATGCTC
16518057 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:16521274 original size:45 final size:45
Alignment explanation
Indices: 16521174--16521300 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
16521164 TTTTCTCAAA
* *
16521174 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
16521216 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
16521260 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
16521301 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:16521739 original size:38 final size:38
Alignment explanation
Indices: 16521691--16521968 Score: 371
Period size: 38 Copynumber: 7.3 Consensus size: 38
16521681 GGCACGAAGG
* * * *
16521691 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
16521729 CCCGGATATAATACCAACACGAAGCCTATGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
16521767 CCCGGATAT-TTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
16521805 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
16521844 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
* *
16521883 GCCCGGATATAATACTAGCACTAAGCCTGC-GGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
16521921 CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
16521959 CCCGGATATA
1 CCCGGATATA
16521969 CATCAAATAT
Statistics
Matches: 208, Mismatches: 26, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
37 44 0.21
38 97 0.47
39 21 0.10
40 46 0.22
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:16521827 original size:77 final size:75
Alignment explanation
Indices: 16521702--16521968 Score: 351
Period size: 77 Copynumber: 3.5 Consensus size: 75
16521692 CCGAATATAA
* * * *
16521702 TACCAGCACTAGGCCTGCGGGATTT-ATCCCGGATATAATACCAACACGAAGCCTATGGGATTTA
1 TACCAGCACGAAGCCTGCGGGATTTAAGCCCGGATATAATACCAGCACGAAGCCT-TGGGATTTA
16521766 ACCCGGATATT
65 ACCCGGATATT
* *
16521777 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 TACCAGCACGAAGCCTGCGGG-ATTTAAGCCCGGATATAATACCAGCACGAAGCCT-TGGGATTT
16521842 AACCCGGATATTT
64 AACCCGGATA-TT
* * *
16521855 TACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACTAGCACTAAGCC-TGCGGATTT
1 TACCAGCACGAAGCCTGCGGG-ATTTAAGCCCGGATATAATACCAGCACGAAGCCTTG-GGATTT
* *
16521919 AACCTGGATATAA
64 AACCCGGATAT-T
16521932 TACCAGCACGAAGCCTGCGGGATTTAA-CCCGGATATA
1 TACCAGCACGAAGCCTGCGGGATTTAAGCCCGGATATA
16521969 CATCAAATAT
Statistics
Matches: 174, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
75 29 0.17
76 10 0.06
77 80 0.46
78 55 0.32
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (75 bp):
TACCAGCACGAAGCCTGCGGGATTTAAGCCCGGATATAATACCAGCACGAAGCCTTGGGATTTAA
CCCGGATATT
Found at i:16521928 original size:115 final size:115
Alignment explanation
Indices: 16521690--16521968 Score: 375
Period size: 115 Copynumber: 2.4 Consensus size: 115
16521680 AGGCACGAAG
* * * *
16521690 GCCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAACACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAACACGAAGCC
* * *
16521755 TATGGGATTTAACCCGGATATTTACCAGCACGAAGCCTGCGGGTCTTTAA
66 TACGGGATTTAACCCGGATATATACCAGCACGAAGCCTGCGGGTATTTAA
** *
16521805 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAACACGAAGCC
* * * *
16521870 TGCGGGTCTTTAAGCCCGGATATAATACTAGCACTAAGCCTGC-GG-ATTTAA
66 TACGGG-ATTTAA-CCCGGATAT-ATACCAGCACGAAGCCTGCGGGTATTTAA
*
16521921 -CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
16521969 CATCAAATAT
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
115 108 0.74
116 10 0.07
117 11 0.08
118 16 0.11
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (115 bp):
GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAACACGAAGCC
TACGGGATTTAACCCGGATATATACCAGCACGAAGCCTGCGGGTATTTAA
Found at i:16525515 original size:26 final size:26
Alignment explanation
Indices: 16525479--16525614 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
16525469 TGATACAAAT
16525479 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16525505 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16525531 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16525557 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16525583 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16525609 TGATAA
1 TGATAA
16525615 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16527131 original size:26 final size:26
Alignment explanation
Indices: 16527102--16527154 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16527092 TTTACAGTTT
16527102 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
16527128 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16527154 T
1 T
16527155 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16530183 original size:18 final size:18
Alignment explanation
Indices: 16530146--16530185 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16530136 CGAAGTTCTG
**
16530146 TCAATTCTATGTTCTGGT
1 TCAATTCTATGTTCCAGT
*
16530164 TCAATTTTATGTTCCAGT
1 TCAATTCTATGTTCCAGT
16530182 TCAA
1 TCAA
16530186 AACTAGTCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (18 bp):
TCAATTCTATGTTCCAGT
Found at i:16531381 original size:10 final size:10
Alignment explanation
Indices: 16531366--16531391 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16531356 AAAATTAATG
16531366 TAAAAAAATA
1 TAAAAAAATA
16531376 TAAAAAAATA
1 TAAAAAAATA
16531386 TAAAAA
1 TAAAAA
16531392 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:16531433 original size:23 final size:23
Alignment explanation
Indices: 16531371--16531422 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
16531361 TAATGTAAAA
* *
16531371 AAATATAAAAAAATATA-AAAATT
1 AAAT-TAAAAAAATTTATCAAATT
16531394 AAATTAAAAAAATTTATCAAATT
1 AAATTAAAAAAATTTATCAAATT
16531417 -AATTAA
1 AAATTAA
16531423 CTAAATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATTAAAAAAATTTATCAAATT
Found at i:16533658 original size:43 final size:42
Alignment explanation
Indices: 16533564--16533660 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
16533554 TTTTGTTTTG
* *
16533564 CATGTAAGACCATGTCTAAGACATTGGCATCGTATCTGATTT
1 CATGTAAGACCATGTCTAAGACAGTGGCATCGTATCTGATTA
* * ** * * *
16533606 CGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTAAGACAGTGGCATCG-TATCTGATTA
16533649 CATGTAAGACCA
1 CATGTAAGACCA
16533661 CGTTTGGGAC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCATGTCTAAGACAGTGGCATCGTATCTGATTA
Found at i:16536182 original size:43 final size:42
Alignment explanation
Indices: 16536090--16536184 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
16536080 CTGTTTTGTG
* * *
16536090 TGTAAGACCATGTCTAAGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTAAGACAGTGGCATCGTATCTGATTACA
* ** * *
16536132 TGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAAGACAGTGGCATCG-TATCTGATTACA
16536175 TGTAAGACCA
1 TGTAAGACCA
16536185 CGTTTGGGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTAAGACAGTGGCATCGTATCTGATTACA
Found at i:16537743 original size:3 final size:3
Alignment explanation
Indices: 16537730--16537802 Score: 55
Period size: 3 Copynumber: 25.0 Consensus size: 3
16537720 ATATAGATAT
* * *
16537730 TTA TTA TTTA TTA TTA TT- CTA TTA -AA TTA TAA TT- TCTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
16537774 -AA TTA TGA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16537803 AAAATAAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
2 4 0.07
3 46 0.85
4 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:16537774 original size:20 final size:20
Alignment explanation
Indices: 16537739--16537793 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
16537729 TTTATTATTT
16537739 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
16537761 ATT-TCTATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
16537781 ATTATTATTATTA
1 ATTATTATTATTA
16537794 TTATTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:16538101 original size:8 final size:8
Alignment explanation
Indices: 16538086--16538129 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
16538076 TAAAGTTAAT
16538086 AAAATAAA
1 AAAATAAA
*
16538094 AGAATAAA
1 AAAATAAA
16538102 AGAAATGAAA
1 A-AAAT-AAA
16538112 TAAAATAAA
1 -AAAATAAA
16538121 AAAATAAA
1 AAAATAAA
16538129 A
1 A
16538130 CAAAGTAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 7 0.23
11 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:16538101 original size:13 final size:13
Alignment explanation
Indices: 16538083--16538129 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
16538073 TTATAAAGTT
16538083 AATAAAATAAAAG
1 AATAAAATAAAAG
* *
16538096 AATAAAAGAAATG
1 AATAAAATAAAAG
*
16538109 AAATAAAATAAAAA
1 -AATAAAATAAAAG
16538123 AATAAAA
1 AATAAAA
16538130 CAAAGTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAAG
Found at i:16538833 original size:45 final size:45
Alignment explanation
Indices: 16538759--16538860 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
16538749 ACTGTTTTTG
* * * *
16538759 TTACCGTTACTGTTACCGATTTGACACTTTGTGTGTCGAATACTA
1 TTACCGTTACTGTTACAGATTAGACACTTTGTATGTCGAAAACTA
* * *
16538804 TTACCGTTACTGTTACAGATTCAG-TACTTTGTATGTTGAAAACTG
1 TTACCGTTACTGTTACAGATT-AGACACTTTGTATGTCGAAAACTA
*
16538849 TTACTGTTACTG
1 TTACCGTTACTG
16538861 CTACTGCTAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TTACCGTTACTGTTACAGATTAGACACTTTGTATGTCGAAAACTA
Found at i:16542921 original size:16 final size:16
Alignment explanation
Indices: 16542900--16542932 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16542890 CAGAAAGAGT
16542900 TGAATTTGAGGCAGCG
1 TGAATTTGAGGCAGCG
16542916 TGAATTTGAGGCAGCG
1 TGAATTTGAGGCAGCG
16542932 T
1 T
16542933 CTATGGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (16 bp):
TGAATTTGAGGCAGCG
Found at i:16544979 original size:20 final size:20
Alignment explanation
Indices: 16544917--16544985 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
16544907 ATATAGATAT
* *
16544917 TTATTATT-TATTATTATTA
1 TTATTATTAAATTATAATTA
*
16544936 TT-CTATTAAATTATAATT-
1 TTATTATTAAATTATAATTA
*
16544954 TATATTATTAAATTATGATTA
1 T-TATTATTAAATTATAATTA
16544975 TTATTATTAAA
1 TTATTATTAAA
16544986 AATAAATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 5 0.12
19 11 0.27
20 24 0.59
21 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
TTATTATTAAATTATAATTA
Found at i:16545284 original size:13 final size:14
Alignment explanation
Indices: 16545266--16545312 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
16545256 TTATAAAGTT
16545266 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
16545279 AATAAAAGAAATGA
1 AATAAAATAAAAGA
16545293 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
16545306 AATAAAA
1 AATAAAA
16545313 CAAAGTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:16545306 original size:18 final size:18
Alignment explanation
Indices: 16545270--16545324 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
16545260 AAAGTTAATA
* *
16545270 AAATAAAAGAATA-AAAG
1 AAATAAAACAAAATAAAG
* *
16545287 AAATGAAATAAAATAAAG
1 AAATAAAACAAAATAAAG
*
16545305 AAATAAAACAAAGTAAAG
1 AAATAAAACAAAATAAAG
16545323 AA
1 AA
16545325 GAAACAGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAACAAAATAAAG
Found at i:16545952 original size:12 final size:12
Alignment explanation
Indices: 16545935--16545959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16545925 GCCGACTACT
16545935 GTTACTGTTACC
1 GTTACTGTTACC
16545947 GTTACTGTTACC
1 GTTACTGTTACC
16545959 G
1 G
16545960 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:16545992 original size:45 final size:45
Alignment explanation
Indices: 16545937--16546043 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
16545927 CGACTACTGT
* *
16545937 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCAAA
* * *
16545982 TACTATTACCGTTACTGTTATAGATTCAGCACTTTGTGTGTTAAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
*
16546027 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
16546044 CTACTGCTGC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
Found at i:16547856 original size:23 final size:23
Alignment explanation
Indices: 16547825--16547875 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
16547815 CGTGACCTTT
*
16547825 TTTTTTTTTGAAAAACATAT-AAA
1 TTTTATTTTGAAAAA-ATATAAAA
**
16547848 TTTTATTTTTCAAAAATATAAAA
1 TTTTATTTTGAAAAAATATAAAA
16547871 TTTTA
1 TTTTA
16547876 AAAATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTATTTTGAAAAAATATAAAA
Found at i:16547856 original size:24 final size:23
Alignment explanation
Indices: 16547824--16547875 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
16547814 ACGTGACCTT
* *
16547824 TTTTTTTTTTGAAAAACATATAAA
1 TTTTATTTTTCAAAAACATA-AAA
*
16547848 TTTTATTTTTCAAAAATATAAAA
1 TTTTATTTTTCAAAAACATAAAA
16547871 TTTTA
1 TTTTA
16547876 AAAATTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTATTTTTCAAAAACATAAAA
Found at i:16547945 original size:18 final size:17
Alignment explanation
Indices: 16547915--16547948 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16547905 AATAAAGAAA
16547915 TATATAATTTAAAAATG
1 TATATAATTTAAAAATG
16547932 TATATAATTTTAAAAAT
1 TATATAA-TTTAAAAAT
16547949 ATAAAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TATATAATTTAAAAATG
Found at i:16560678 original size:17 final size:18
Alignment explanation
Indices: 16560638--16560678 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16560628 TATTTGTGCC
*
16560638 TTATTTCTTTCTTTTTAT
1 TTATTTATTTCTTTTTAT
*
16560656 GT-TTTATTTC-TTTTAT
1 TTATTTATTTCTTTTTAT
16560672 TTATTTA
1 TTATTTA
16560679 ATATGTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.37
17 11 0.58
18 1 0.05
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTTATTTCTTTTTAT
Found at i:16562820 original size:276 final size:276
Alignment explanation
Indices: 16562327--16562878 Score: 1032
Period size: 276 Copynumber: 2.0 Consensus size: 276
16562317 GATGTAAAGC
*
16562327 AAAAGAACTATCATGTGTTTCTCAGAGTATCAACTTTTTCAATTCTGAAGCAGTTGGGATGCAAA
1 AAAAGAACTACCATGTGTTTCTCAGAGTATCAACTTTTTCAATTCTGAAGCAGTTGGGATGCAAA
16562392 GTCGATTCTGATATCTCAAACAATCATGCTCATCAATGCTAAAATTTTCTATCATACTATTCCGC
66 GTCGATTCTGATATCTCAAACAATCATGCTCATCAATGCTAAAATTTTCTATCATACTATTCCGC
16562457 ACCATTTCTCTCTTCTTCATTAGCTTTTCATCTTCTATCTGTGTTGTTCTAATTTGATCAAACAT
131 ACCATTTCTCTCTTCTTCATTAGCTTTTCATCTTCTATCTGTGTTGTTCTAATTTGATCAAACAT
16562522 TACTGGTTTTACTCTCAATTCAGCTAGAAGACTTCCATCATCAACAATACTAAGCTGTGCAAACA
196 TACTGGTTTTACTCTCAATTCAGCTAGAAGACTTCCATCATCAACAATACTAAGCTGTGCAAACA
16562587 TTGCTCTCAATTCAGT
261 TTGCTCTCAATTCAGT
* * *
16562603 AAAAGAACTGCCATGTGTTTCTCGGAGTATCAACTTTTTCAATTTTGAAGCAGTTGGGATGCAAA
1 AAAAGAACTACCATGTGTTTCTCAGAGTATCAACTTTTTCAATTCTGAAGCAGTTGGGATGCAAA
*
16562668 GTTGATTCTGATATCTCAAACAATCATGCTCATCAATGCTAAAATTTTCTATCATACTATTCCGC
66 GTCGATTCTGATATCTCAAACAATCATGCTCATCAATGCTAAAATTTTCTATCATACTATTCCGC
16562733 ACCATTTCTCTCTTCTTCATTAGCTTTTCATCTTCTATCTGTGTTGTTCTAATTTGATCAAACAT
131 ACCATTTCTCTCTTCTTCATTAGCTTTTCATCTTCTATCTGTGTTGTTCTAATTTGATCAAACAT
* *
16562798 TACTGGTTTTACTCTCAATTCAGCTAGAAGACTTCCATCATCAACAATACTGAGCTGTGCAAATA
196 TACTGGTTTTACTCTCAATTCAGCTAGAAGACTTCCATCATCAACAATACTAAGCTGTGCAAACA
*
16562863 TTTCTCTCAATTCAGT
261 TTGCTCTCAATTCAGT
16562879 TGCAGCCTTC
Statistics
Matches: 268, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
276 268 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (276 bp):
AAAAGAACTACCATGTGTTTCTCAGAGTATCAACTTTTTCAATTCTGAAGCAGTTGGGATGCAAA
GTCGATTCTGATATCTCAAACAATCATGCTCATCAATGCTAAAATTTTCTATCATACTATTCCGC
ACCATTTCTCTCTTCTTCATTAGCTTTTCATCTTCTATCTGTGTTGTTCTAATTTGATCAAACAT
TACTGGTTTTACTCTCAATTCAGCTAGAAGACTTCCATCATCAACAATACTAAGCTGTGCAAACA
TTGCTCTCAATTCAGT
Found at i:16568235 original size:20 final size:18
Alignment explanation
Indices: 16568197--16568240 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
16568187 AAACCCTAAT
16568197 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
16568214 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
16568234 TTTCCCT
1 TTTCCCT
16568241 GCTATTCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:16574830 original size:26 final size:25
Alignment explanation
Indices: 16574792--16574848 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
16574782 GTACAAGAAC
*
16574792 AAAA-ACAGA-AAAACCTCGTGTCA
1 AAAAGACAGACAAAAACTCGTGTCA
*
16574815 AAAGGACAGACAAAAACTCGTGTCA
1 AAAAGACAGACAAAAACTCGTGTCA
16574840 AAAAGACAG
1 AAAAGACAG
16574849 TCTTCAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 5 0.17
25 21 0.72
ACGTcount: A:0.53, C:0.19, G:0.18, T:0.11
Consensus pattern (25 bp):
AAAAGACAGACAAAAACTCGTGTCA
Found at i:16577061 original size:26 final size:25
Alignment explanation
Indices: 16577032--16577094 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
16577022 TACATCAAAT
* *
16577032 TTTTCAAAAACATTTTTTTACGTTAA
1 TTTTCAAAAACA-CTTTTTACGGTAA
* * *
16577058 TTTTCCAAAATACTTTTTACGGTAT
1 TTTTCAAAAACACTTTTTACGGTAA
*
16577083 TTTTTAAAAACA
1 TTTTCAAAAACA
16577095 ATGTCTTAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.48
Consensus pattern (25 bp):
TTTTCAAAAACACTTTTTACGGTAA
Found at i:16577485 original size:14 final size:14
Alignment explanation
Indices: 16577466--16577493 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16577456 CTAACGACGA
16577466 AGACTTGTCATATT
1 AGACTTGTCATATT
16577480 AGACTTGTCATATT
1 AGACTTGTCATATT
16577494 CAAGTACACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
AGACTTGTCATATT
Found at i:16579347 original size:144 final size:144
Alignment explanation
Indices: 16579199--16579500 Score: 480
Period size: 144 Copynumber: 2.1 Consensus size: 144
16579189 TAATTATCTC
** * *
16579199 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGTGTTGCAGTTGTTGAAAAA
1 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGACTTACAGTTGTCGAAAAA
*
16579264 CAATCTCACTGGTGTCATCCCT-ATTTCCATAGGAAACTTGACTAACTTGGACAATCTTGAGCTT
66 CAATCTCACTGGTGTCATCCCTGA-TTCCATAGCAAACTTGACTAACTTGGACAATCTTGAGCTT
16579328 GATTCTAATGGGCTT
130 GATTCTAATGGGCTT
* * * *
16579343 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCTCTTTTCGACTTACAGTTGTCGGAGAA
1 TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGACTTACAGTTGTCGAAAAA
* * *
16579408 TAATCTCACTGGTGTCATCCCTGATTCCATAGCAAACTTGACTAACTTGGACAATCTTGGGCTTT
66 CAATCTCACTGGTGTCATCCCTGATTCCATAGCAAACTTGACTAACTTGGACAATCTTGAGCTTG
16579473 ATTCTAATGGGCTT
131 ATTCTAATGGGCTT
16579487 TCTGGTTCTATCCC
1 TCTGGTTCTATCCC
16579501 AACTTCCATG
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 144 0.99
145 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (144 bp):
TCTGGTTCTATCCCCAGTGAGATAGGAATGCTCAAATCGCTTTCCGACTTACAGTTGTCGAAAAA
CAATCTCACTGGTGTCATCCCTGATTCCATAGCAAACTTGACTAACTTGGACAATCTTGAGCTTG
ATTCTAATGGGCTT
Found at i:16583051 original size:3 final size:3
Alignment explanation
Indices: 16583043--16583081 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
16583033 AAAAGAGGAA
* *
16583043 AAT AAT AAT AAT AAT AAT AAT AAC AAT GAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16583082 TAAAAGTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Done.