Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 151 of 199
Found at i:44738457 original size:10 final size:9
Alignment explanation
Indices: 44738426--44738468 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
44738416 AAAAAATTAT
44738426 AATTTTTAA
1 AATTTTTAA
44738435 AA-TTTTAA
1 AATTTTTAA
44738443 TAATTTTTACA
1 -AATTTTTA-A
44738454 AATTTTTAA
1 AATTTTTAA
*
44738463 TATTTT
1 AATTTT
44738469 AAATTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 6 0.20
9 10 0.33
10 13 0.43
11 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTTAA
Found at i:44738469 original size:18 final size:16
Alignment explanation
Indices: 44738418--44738471 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
44738408 ATTTTTAAAA
*
44738418 AAAATTATAAT-TTTT
1 AAAATTTTAATATTTT
44738433 AAAATTTTAATAATTTTT
1 AAAATTTTAAT-A-TTTT
44738451 ACAAATTTTTAATATTTT
1 A-AAA-TTTTAATATTTT
44738469 AAA
1 AAA
44738472 TTAAATTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 10 0.30
17 2 0.06
18 10 0.30
19 4 0.12
20 7 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTTTAATATTTT
Found at i:44748213 original size:50 final size:50
Alignment explanation
Indices: 44748101--44748342 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
44748091 ATTTGGGTAA
* * * *
44748101 AGAGATCCCATGTAAGACCATATCTGGGACATAGCATTGGCATCCTTGATATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--G--A-GATG
*
44748157 AGAGGTCTCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGATC-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
44748207 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** *
44748257 AGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
*
44748307 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
44748343 TTTGGCATTT
Statistics
Matches: 167, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
49 2 0.01
50 94 0.56
51 31 0.19
53 1 0.01
55 2 0.01
56 35 0.21
57 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:44748292 original size:100 final size:104
Alignment explanation
Indices: 44748101--44748350 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
44748091 ATTTGGGTAA
* * * *
44748101 AGAGATCCCATGTAAGACCATATCTGGGACATAGCATTGGCATCCTTGATATCATGAGAGGTCTC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGA-ATCATGAGAGATCCC
* *
44748166 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
64 CCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* * *
44748207 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-G-A-GATGAGAGATCCCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAATCATGAGAGATCCCCC
44748268 GTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
66 GTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* *
44748307 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44748351 TTTTTTACCA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 51 0.39
101 38 0.29
103 1 0.01
105 2 0.02
106 38 0.29
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAATCATGAGAGATCCCCC
GTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
Found at i:44750027 original size:21 final size:21
Alignment explanation
Indices: 44750001--44750063 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
44749991 TACACCATCC
*
44750001 CAGGGAACACCGTAGTGAT-AA
1 CAGGGAACACCGAAGTG-TGAA
*
44750022 CAGGGAA-ACCAAAGTGTGAA
1 CAGGGAACACCGAAGTGTGAA
*
44750042 CAGGG-ACACCGAAGTGTAAA
1 CAGGGAACACCGAAGTGTGAA
44750062 CA
1 CA
44750064 TATAGGCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.06
20 27 0.75
21 7 0.19
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.11
Consensus pattern (21 bp):
CAGGGAACACCGAAGTGTGAA
Found at i:44751364 original size:21 final size:20
Alignment explanation
Indices: 44751336--44751374 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
44751326 GAGCATTTGG
* *
44751336 GAGTAAAATGAGTGAAAAAC
1 GAGTAAAATCAGAGAAAAAC
44751356 GAGTGAAAATCAGAGAAAA
1 GAGT-AAAATCAGAGAAAA
44751375 GGAGCAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.05, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGTAAAATCAGAGAAAAAC
Found at i:44756271 original size:14 final size:14
Alignment explanation
Indices: 44756252--44756290 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
44756242 TTGTTTCACT
*
44756252 GAAAATGGCTTCTG
1 GAAAATGACTTCTG
* *
44756266 GAAAATTATTTCTG
1 GAAAATGACTTCTG
44756280 GAAAATGACTT
1 GAAAATGACTT
44756291 ACTTTTTTGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTCTG
Found at i:44756898 original size:18 final size:18
Alignment explanation
Indices: 44756860--44756895 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44756850 TTATTTTTTT
*
44756860 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
44756878 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
44756896 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:44758824 original size:21 final size:21
Alignment explanation
Indices: 44758786--44758826 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44758776 TTAAATAAAT
* **
44758786 TTTAGTTAATTTTTTTAAGTA
1 TTTAATTAATTTAGTTAAGTA
44758807 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
44758827 GTTAAATGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:44761488 original size:25 final size:25
Alignment explanation
Indices: 44761443--44761490 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44761433 GTGAGTGCTT
*
44761443 TGATTCATAGCTCATGTGAGCATTC
1 TGATTCACAGCTCATGTGAGCATTC
*
44761468 TGATTCACAGCTCGTGTGAGCAT
1 TGATTCACAGCTCATGTGAGCAT
44761491 ACATGTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (25 bp):
TGATTCACAGCTCATGTGAGCATTC
Found at i:44761839 original size:188 final size:188
Alignment explanation
Indices: 44761517--44761896 Score: 634
Period size: 188 Copynumber: 2.0 Consensus size: 188
44761507 ACGGATTACA
* ** * *
44761517 GTTATATGAGCTAGCACACTATGTGTGAGCTATCCTGGGTATCCAACGGTATTCGAAATGGTTTA
1 GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCGAAATGGTTCA
* * * * *
44761582 TTGGACATGATTTGAAAGCAAATGGTAAGAGTTCGATATGAACTAATATATGTTCATATATGAAT
66 ATGGACATGATTTGAAAGAAAATGGTAAGAGTTCGATAAGAACTAAGATATGTTCACATATGAAT
*
44761647 TGCATTGGATGGGTGATATATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
131 TGCATTGGATGGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
*
44761705 GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCTAAATGGTTCA
1 GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCGAAATGGTTCA
*
44761770 ATGGACATGATTTGAAAGAAAATGGTAAGGGTTCGATAAGAACTAAGATATGTTCACATATGAAT
66 ATGGACATGATTTGAAAGAAAATGGTAAGAGTTCGATAAGAACTAAGATATGTTCACATATGAAT
*
44761835 TGCATTGGATTGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
131 TGCATTGGATGGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
44761893 GTTA
1 GTTA
44761897 AATGCTTAAA
Statistics
Matches: 178, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
188 178 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.32
Consensus pattern (188 bp):
GTTACATGAGCTAGCACAAAATGTGTGAGCTATCCCGGGTATCCAACGGTATTCGAAATGGTTCA
ATGGACATGATTTGAAAGAAAATGGTAAGAGTTCGATAAGAACTAAGATATGTTCACATATGAAT
TGCATTGGATGGGTGATACATGGATAAATGTAAGTTGAGATGGATGATATATTCATAT
Found at i:44762045 original size:15 final size:15
Alignment explanation
Indices: 44762025--44762054 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44762015 CTTACTTATA
44762025 TAAGTGCCCAAATGG
1 TAAGTGCCCAAATGG
44762040 TAAGTGCCCAAATGG
1 TAAGTGCCCAAATGG
44762055 AAATATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
TAAGTGCCCAAATGG
Found at i:44767206 original size:23 final size:23
Alignment explanation
Indices: 44767180--44767298 Score: 130
Period size: 23 Copynumber: 5.2 Consensus size: 23
44767170 ATAAGTGCCA
*
44767180 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* ** *
44767203 CACTGATACGTAATCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
44767226 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
** *
44767249 CACTGATATGTAGCCTTATCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
44767272 CACTGAAATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
44767295 CACT
1 CACT
44767299 AATCAATAAC
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 75 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:44767254 original size:46 final size:46
Alignment explanation
Indices: 44767187--44767298 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 46
44767177 CCACACTGAT
* *
44767187 ATGTAGCCAAAGCTACCACTGATACGTAATCGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTGATACGTAACCGTAGCTACCACTAAA
* * * * *
44767233 ATGTAGCCGAAGCTACCACTGATATGTAGCCTTATCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAACCGTAGCTACCACTAAA
*
44767279 ATGTAGTCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
44767299 AATCAATAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGTAACCGTAGCTACCACTAAA
Found at i:44767553 original size:18 final size:17
Alignment explanation
Indices: 44767527--44767565 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
44767517 ATTTTCCTTC
44767527 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
44767544 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
44767562 CACA
1 CACA
44767566 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:44770819 original size:12 final size:12
Alignment explanation
Indices: 44770798--44770841 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
44770788 AGACCACTGA
* *
44770798 TTTTATTTTTAT
1 TTTTAGTTTTAC
*
44770810 TTTTAGTTTTAG
1 TTTTAGTTTTAC
*
44770822 TTTTAATTTTAC
1 TTTTAGTTTTAC
44770834 TTTTAGTT
1 TTTTAGTT
44770842 GTTTTAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTAGTTTTAC
Found at i:44770825 original size:18 final size:18
Alignment explanation
Indices: 44770798--44770841 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44770788 AGACCACTGA
* * *
44770798 TTTTATTTTTATTTTTAG
1 TTTTAGTTTTAATTTTAC
44770816 TTTTAGTTTTAATTTTAC
1 TTTTAGTTTTAATTTTAC
44770834 TTTTAGTT
1 TTTTAGTT
44770842 GTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTTAGTTTTAATTTTAC
Found at i:44771268 original size:21 final size:21
Alignment explanation
Indices: 44771239--44771288 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
44771229 ATTTTGTCGA
44771239 TTTGAGATTTTTGTTGATGTGT
1 TTTG-GATTTTTGTTGATGTGT
44771261 TTTGGA-TTTTGTTGATGTGT
1 TTTGGATTTTTGTTGATGTGT
44771281 TTTGGATT
1 TTTGGATT
44771289 AATTTGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 20 0.74
21 3 0.11
22 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (21 bp):
TTTGGATTTTTGTTGATGTGT
Found at i:44784328 original size:38 final size:37
Alignment explanation
Indices: 44784278--44784461 Score: 131
Period size: 38 Copynumber: 4.7 Consensus size: 37
44784268 ATAGTATTAT
*
44784278 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
44784315 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
44784355 ATATTTAATAATAATTATGTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
44784397 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
*
44784435 TTATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
44784462 TTTTTATTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
37 27 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.04
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:44784348 original size:56 final size:55
Alignment explanation
Indices: 44784287--44784478 Score: 199
Period size: 56 Copynumber: 3.3 Consensus size: 55
44784277 TATATTATGA
44784287 TTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
44784343 TTTTATTAAATTATATTTAATAATAATT-ATGTTAA-ATTATATTATATAGTATTATATATTAT
1 TTTTATTAAATTATA--TAAGAATATTTAATATTAAGA--ATTTTAT-TA--AAT-TATA-TAT
*
44784405 GATTTTATTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATAT
1 --TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
44784463 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
44784479 TTAATAATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
55 8 0.07
56 30 0.27
57 15 0.14
58 5 0.05
59 4 0.04
60 4 0.04
61 4 0.04
62 5 0.05
63 15 0.14
64 17 0.15
65 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (55 bp):
TTTTATTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:44784385 original size:66 final size:65
Alignment explanation
Indices: 44784315--44784498 Score: 203
Period size: 56 Copynumber: 3.0 Consensus size: 65
44784305 AGAATATTTA
44784315 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
1 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA-
44784380 T
65 T
* * * * * * *
44784381 ATATTATATAGTATTA-TATATTAT-GA-TTTTATTAAATT-CA--T-ATAAGAA-TAT-TT--A
1 ATATTA-AGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
44784435 T
65 T
44784436 -TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
44784499 AAATGATTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
53 6 0.07
54 12 0.13
55 2 0.02
56 13 0.14
57 1 0.01
58 2 0.02
59 4 0.04
60 12 0.13
61 4 0.04
62 2 0.02
63 1 0.01
64 13 0.14
65 1 0.01
66 13 0.14
67 6 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (65 bp):
ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:44784399 original size:120 final size:120
Alignment explanation
Indices: 44784260--44784498 Score: 469
Period size: 120 Copynumber: 2.0 Consensus size: 120
44784250 ATTATTAATC
44784260 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
44784325 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
*
44784380 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTATTATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
44784445 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
44784499 AAATGATTAA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:44784451 original size:15 final size:16
Alignment explanation
Indices: 44784423--44784452 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44784413 TAAATTCATA
44784423 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
44784439 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
44784453 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:44784736 original size:15 final size:16
Alignment explanation
Indices: 44784711--44784742 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
44784701 TTGATTTGCT
44784711 ATTATGCCTCTATTCC
1 ATTATGCCTCTATTCC
44784727 ATTA-GCCTCTATTCC
1 ATTATGCCTCTATTCC
44784742 A
1 A
44784743 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTATGCCTCTATTCC
Found at i:44788440 original size:17 final size:16
Alignment explanation
Indices: 44788418--44788451 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44788408 GAGGATGGCG
44788418 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
44788435 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
44788451 T
1 T
44788452 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:44795851 original size:29 final size:28
Alignment explanation
Indices: 44795790--44796001 Score: 167
Period size: 29 Copynumber: 7.2 Consensus size: 28
44795780 GCGTGTTAAA
* * *
44795790 CGATGGTCGAAATCATCCCTTTTCTTTAAT
1 CGATGGTC-AAACCATCCCTTTTC-ATATT
* *
44795820 CGATGGTCATCACCATCCTTTTTCATATT
1 CGATGGTCA-AACCATCCCTTTTCATATT
**
44795849 CGATGGTCGAAACCATCCCTTTTCATTAAA
1 CGATGGTC-AAACCATCCCTTTTCA-TATT
44795879 CGATGACCGTC--ACCATCCCTTTTCATATT
1 CGATG---GTCAAACCATCCCTTTTCATATT
* * * *
44795908 CGATAGTTGAAACTATCTCTTTTCATATT
1 CGAT-GGTCAAACCATCCCTTTTCATATT
** *
44795937 CGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTC-AAACCATCCCTTTTCATATT
* *
44795966 CGATAGTCGAAACTATCCCTTTTCATATT
1 CGATGGTC-AAACCATCCCTTTTCATATT
44795995 CGATGGT
1 CGATGGT
44796002 TGTCGATTCG
Statistics
Matches: 144, Mismatches: 28, Indels: 21
0.75 0.15 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 96 0.67
30 42 0.29
33 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (28 bp):
CGATGGTCAAACCATCCCTTTTCATATT
Found at i:44795969 original size:58 final size:58
Alignment explanation
Indices: 44795790--44796001 Score: 264
Period size: 59 Copynumber: 3.6 Consensus size: 58
44795780 GCGTGTTAAA
* * * * *
44795790 CGATGGTCGAAA-TCATCCCTTTTCTTTAATCGATGGTCATCACCATCCTTTTTCATATT
1 CGATAGTCGAAACT-ATCCCTTTTC-ATATTCGATGGTCGTCACCATCCCTTTTCATATT
* * ** **
44795849 CGATGGTCGAAACCATCCCTTTTCATTAAACGATGACCGTCACCATCCCTTTTCATATT
1 CGATAGTCGAAACTATCCCTTTTCA-TATTCGATGGTCGTCACCATCCCTTTTCATATT
* * *
44795908 CGATAGTTGAAACTATCTCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATAGTCGAAACTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
44795966 CGATAGTCGAAACTATCCCTTTTCATATTCGATGGT
1 CGATAGTCGAAACTATCCCTTTTCATATTCGATGGT
44796002 TGTCGATTCG
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
58 62 0.47
59 71 0.53
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (58 bp):
CGATAGTCGAAACTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATT
Found at i:44803804 original size:32 final size:32
Alignment explanation
Indices: 44803768--44803832 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
44803758 CATCAACAAC
44803768 ACATGTTACTTCATTTAAACATGATTCATATG
1 ACATGTTACTTCATTTAAACATGATTCATATG
* *
44803800 ACATGTTAGTTCATTTAAACATGATTTATATG
1 ACATGTTACTTCATTTAAACATGATTCATATG
44803832 A
1 A
44803833 ATTTGACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (32 bp):
ACATGTTACTTCATTTAAACATGATTCATATG
Found at i:44804279 original size:29 final size:29
Alignment explanation
Indices: 44804207--44804495 Score: 224
Period size: 29 Copynumber: 9.9 Consensus size: 29
44804197 TGTGCTAAAC
** * *
44804207 GATGGTCGAAATAATCCCTTTTCTTTAATT
1 GATGGTCGAAACCATCCCTTTTC-ATAGTT
* ** * *
44804237 GATGGTTGTCACCATCCCATTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
*
44804266 GATGGTCGAAACCATCCCTTTTCATTAATT
1 GATGGTCGAAACCATCCCTTTTCA-TAGTT
** ** ** * *
44804296 GATGACCGTCACCATCTATTTTCTTATTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
* *
44804325 GATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TAGTT
* **
44804355 GATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
* * **
44804384 CATGGTTGTCACCAT-CCTTTTCATAGTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
* * *
44804412 GATAGTCGAAACTATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATAGTT
*
44804441 GATGGTC-ATCACCATCCCTTTTCATAGTT
1 GATGGTCGA-AACCATCCCTTTTCATAGTT
*
44804470 GATGGTCGAAACTA-CCCTTTTTCATA
1 GATGGTCGAAACCATCCC-TTTTCATA
44804496 TTCAATGGTC
Statistics
Matches: 204, Mismatches: 49, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
28 26 0.13
29 115 0.56
30 63 0.31
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATAGTT
Found at i:44804299 original size:59 final size:59
Alignment explanation
Indices: 44804207--44804477 Score: 273
Period size: 59 Copynumber: 4.6 Consensus size: 59
44804197 TGTGCTAAAC
** * *
44804207 GATGGTCGAAATAATCCCTTTTCTTTAATTGATGGTTGTCACCATCCCATTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
** * *
44804266 GATGGTCGAAACCATCCCTTTTCATTAATTGATGACCGTCACCAT-CTATTTTCTTATTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCA-TTTCATATTT
* * * *
44804325 GATGGTCGAAACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
* * ** * * ** * *
44804384 CATGGTTGTCACCAT-CCTTTTCA-TAGTTGATAGTCGAAACTATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
* *
44804441 GATGGTC-ATCACCATCCCTTTTCA-TAGTTGATGGTCG
1 GATGGTCGA-AACCATCCCTTTTCATTAATTGATGGTCG
44804478 AAACTACCCT
Statistics
Matches: 176, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
57 37 0.21
58 30 0.17
59 108 0.61
60 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (59 bp):
GATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCATTTCATATTT
Found at i:44808535 original size:85 final size:86
Alignment explanation
Indices: 44808420--44808613 Score: 241
Period size: 85 Copynumber: 2.3 Consensus size: 86
44808410 CGTTTATGTG
44808420 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTACCGAAAAACACCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACC-AAAAACACCGCTAAAGAACAT
44808484 GACCTTTAGCGGTGCTTTACCC
65 GACCTTTAGCGGTGCTTTACCC
* * * * * * *
44808506 AAAAACGCTGCTAAA-AACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACCAAAAACACCGCTAAAGAACATG
* *
44808570 ACCTTTAGCGGTGTTTTTA-TC
66 ACCTTTAGCGGTG-CTTTACCC
* * *
44808591 ACAAACGCCGATATAGAACATGA
1 AAAAACGCCGCTAAAGAACATGA
44808614 TCTATAGTGG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 62 0.67
86 30 0.33
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACCAAAAACACCGCTAAAGAACATG
ACCTTTAGCGGTGCTTTACCC
Found at i:44808588 original size:43 final size:43
Alignment explanation
Indices: 44808422--44808677 Score: 227
Period size: 43 Copynumber: 6.0 Consensus size: 43
44808412 TTTATGTGAA
** * *
44808422 AAACGCCGCTAAAGAACATGACCTTTAGCGGC-ACTTTACCGAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATC-AC
* * * * *
44808465 AAACACCGCTAAAGAACATGACCTTTAGCGGTG-CTTTACCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTA-TCAC
* * *
44808508 AAACGCTGCTAAA-AACATGATCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATCAC
* *
44808550 AAACGCCGCTAAAGATCATGACCTTTAGCGGTGTTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATCAC
* * * * *
44808593 AAACGCCGATATAGAACATGATCTATAGTGGCGTTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATCAC
* * * *
44808636 AAATGCCGGTAAAAGTACCAT--TCTTTAGCGGCGTTTTT-TCAC
1 AAACGCCGCT-AAAG-AACATGACCTTTAGCGGCGTTTTTATCAC
44808678 TAACTTTGGC
Statistics
Matches: 180, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
42 35 0.19
43 136 0.76
44 5 0.03
45 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATCAC
Found at i:44808662 original size:86 final size:84
Alignment explanation
Indices: 44808422--44808677 Score: 203
Period size: 85 Copynumber: 3.0 Consensus size: 84
44808412 TTTATGTGAA
* * * * * * * * *
44808422 AAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTACCGAAAAACACCGCTAAAGAACATGA
1 AAACGCCGATATAGAACATGATCTATAGCGGCGCTTTTATC-ACAAACGCCGCTAAAGACCAT-A
* *** *
44808486 CCTTTAGCGGTGCTTTACCCAA
64 CCTTTAGCGGCG-TTTTTTCAC
* * * * *
44808508 AAACGCTGCTA-AAAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCATGAC
1 AAACGCCGATATAGAACATGATCTATAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCAT-AC
*
44808572 CTTTAGCGGTGTTTTTATCAC
65 CTTTAGCGGCGTTTTT-TCAC
* * * *
44808593 AAACGCCGATATAGAACATGATCTATAGTGGCGTTTTTATCACAAATGCCGGTAAAAGTACCAT-
1 AAACGCCGATATAGAACATGATCTATAGCGGCGCTTTTATCACAAACGCCGCT-AAAG-ACCATA
*
44808657 TCTTTAGCGGCGTTTTTTCAC
64 CCTTTAGCGGCGTTTTTTCAC
44808678 TAACTTTGGC
Statistics
Matches: 142, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
84 3 0.02
85 66 0.46
86 65 0.46
87 4 0.03
88 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (84 bp):
AAACGCCGATATAGAACATGATCTATAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCATACC
TTTAGCGGCGTTTTTTCAC
Found at i:44813372 original size:7 final size:7
Alignment explanation
Indices: 44813360--44813492 Score: 56
Period size: 7 Copynumber: 18.7 Consensus size: 7
44813350 ACTAATTAAT
44813360 CTAAACC
1 CTAAACC
44813367 CTAAACCC
1 CTAAA-CC
**
44813375 CTATCCC
1 CTAAACC
**
44813382 CTATCCC
1 CTAAACC
*
44813389 CTAAACT
1 CTAAACC
44813396 CTAAACC
1 CTAAACC
**
44813403 CTAAAAT
1 CTAAACC
* **
44813410 ATAAATA
1 CTAAACC
*
44813417 ATAAACC
1 CTAAACC
44813424 CTAAACC
1 CTAAACC
*
44813431 CTTAACAC
1 CTAAAC-C
* *
44813439 TTAACCC
1 CTAAACC
44813446 CT-AACTC
1 CTAAAC-C
*
44813453 CTAACCC
1 CTAAACC
44813460 CT-AACC
1 CTAAACC
44813466 CTTAAACC
1 C-TAAACC
44813474 CT-AACC
1 CTAAACC
44813480 CTTAAACC
1 C-TAAACC
*
44813488 ATAAA
1 CTAAA
44813493 TCATAATCTC
Statistics
Matches: 95, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
6 11 0.12
7 64 0.67
8 20 0.21
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:44813478 original size:14 final size:14
Alignment explanation
Indices: 44813420--44813487 Score: 77
Period size: 14 Copynumber: 4.9 Consensus size: 14
44813410 ATAAATAATA
44813420 AACCC-TAAACCCTT
1 AACCCTTAAACCC-T
* *
44813434 AACACTTAACCCCT
1 AACCCTTAAACCCT
*
44813448 AACTCC-TAACCCCT
1 AAC-CCTTAAACCCT
44813462 AACCCTTAAACCCT
1 AACCCTTAAACCCT
44813476 AACCCTTAAACC
1 AACCCTTAAACC
44813488 ATAAATCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.04
14 38 0.81
15 7 0.15
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTTAAACCCT
Found at i:44813492 original size:21 final size:21
Alignment explanation
Indices: 44813418--44813492 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
44813408 ATATAAATAA
*
44813418 TAAACCCTAAACCCTTAACACT
1 TAAACCCTAAACCC-TAACCCT
* *
44813440 TAACCCCT-AACTCCTAACCCC
1 TAAACCCTAAAC-CCTAACCCT
44813461 T-AACCCTTAAACCCTAACCCT
1 TAAACCC-TAAACCCTAACCCT
*
44813482 TAAACCATAAA
1 TAAACCCTAAA
44813493 TCATAATCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.09
21 23 0.53
22 16 0.37
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAACCCTAACCCT
Found at i:44816248 original size:16 final size:16
Alignment explanation
Indices: 44816227--44816262 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
44816217 ACTATACACA
44816227 ATATCACCATATC-TGC
1 ATATCA-CATATCATGC
44816243 ATATCACATATCATGC
1 ATATCACATATCATGC
44816259 ATAT
1 ATAT
44816263 TATTCAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (16 bp):
ATATCACATATCATGC
Found at i:44820108 original size:17 final size:17
Alignment explanation
Indices: 44820088--44820125 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
44820078 ACACGGCTAT
44820088 GTGACACACACAGTCAA
1 GTGACACACACAGTCAA
*
44820105 GTG--ACACACGGTCAA
1 GTGACACACACAGTCAA
44820120 GTGACA
1 GTGACA
44820126 TAGCCATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
15 14 0.78
17 4 0.22
ACGTcount: A:0.37, C:0.26, G:0.24, T:0.13
Consensus pattern (17 bp):
GTGACACACACAGTCAA
Found at i:44820111 original size:15 final size:15
Alignment explanation
Indices: 44820093--44820125 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44820083 GCTATGTGAC
44820093 ACACACAGTCAAGTG
1 ACACACAGTCAAGTG
*
44820108 ACACACGGTCAAGTG
1 ACACACAGTCAAGTG
44820123 ACA
1 ACA
44820126 TAGCCATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.12
Consensus pattern (15 bp):
ACACACAGTCAAGTG
Found at i:44821528 original size:25 final size:24
Alignment explanation
Indices: 44821491--44821547 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
44821481 TCCTGTACAA
44821491 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTCTAAA-CG
* *
44821516 GTATGCTCTTACGAGCTGTAAACG
1 GTATGCTCATACGAGCTCTAAACG
*
44821540 GTAAGCTC
1 GTATGCTC
44821548 CTCCAAGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAAACG
Found at i:44821571 original size:25 final size:25
Alignment explanation
Indices: 44821540--44821597 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
44821530 GCTGTAAACG
44821540 GTAAGCTCCTCCAAGCTGAATAACA
1 GTAAGCTCCTCCAAGCTGAATAACA
** *
44821565 GTAAGCTCCTCTGAGCTGAATAACG
1 GTAAGCTCCTCCAAGCTGAATAACA
44821590 GTAAGCTC
1 GTAAGCTC
44821598 ATGCAAGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (25 bp):
GTAAGCTCCTCCAAGCTGAATAACA
Found at i:44837063 original size:13 final size:13
Alignment explanation
Indices: 44837045--44837089 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
44837035 CTATAAATTC
44837045 TGTTTTCAAGTTA
1 TGTTTTCAAGTTA
*
44837058 TGTTTTCAAGTCA
1 TGTTTTCAAGTTA
44837071 TGTTTTCAAGTTA
1 TGTTTTCAAGTTA
44837084 TGTTTT
1 TGTTTT
44837090 ACACGAGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (13 bp):
TGTTTTCAAGTTA
Found at i:44838327 original size:17 final size:18
Alignment explanation
Indices: 44838294--44838329 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
44838284 AGTCATGTCT
44838294 TATGTTGTTATGCGAACC
1 TATGTTGTTATGCGAACC
*
44838312 TATGTTG-TATGTGAACC
1 TATGTTGTTATGCGAACC
44838329 T
1 T
44838330 TTATAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (18 bp):
TATGTTGTTATGCGAACC
Found at i:44845668 original size:23 final size:23
Alignment explanation
Indices: 44845602--44845669 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
44845592 CAACACTAAT
**
44845602 ATGTAGCCGAAGCTACCACTGTT
1 ATGTAGCCGAAGCTACCACTGAA
44845625 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
44845648 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
44845670 TCAATAACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:44849224 original size:37 final size:37
Alignment explanation
Indices: 44849183--44849256 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
44849173 TTTAATAAAA
44849183 TAATTAGACCATTAATTTTAATAGTGGACAAAGATGG
1 TAATTAGACCATTAATTTTAATAGTGGACAAAGATGG
44849220 TAATTAGACCATTAATTTTAATAGTGGACAAAGATGG
1 TAATTAGACCATTAATTTTAATAGTGGACAAAGATGG
44849257 ACATCTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (37 bp):
TAATTAGACCATTAATTTTAATAGTGGACAAAGATGG
Found at i:44856244 original size:14 final size:13
Alignment explanation
Indices: 44856226--44856259 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
44856216 TAAATAATTA
44856226 ATTTTTTAATATT
1 ATTTTTTAATATT
44856239 ATTTTTTAATATT
1 ATTTTTTAATATT
44856252 ATTTTTTA
1 ATTTTTTA
44856260 TAAAACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTTAATATT
Found at i:44856497 original size:20 final size:19
Alignment explanation
Indices: 44856446--44856499 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
44856436 TTCTAATGTT
44856446 TTTTTAGTAATTTTTTATA
1 TTTTTAGTAATTTTTTATA
* *
44856465 TTTTTCTGCAATTTTTTATA
1 TTTTT-AGTAATTTTTTATA
44856485 TTTTTAGTAAATTTT
1 TTTTTAGT-AATTTT
44856500 ATAATGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTAGTAATTTTTTATA
Found at i:44856783 original size:18 final size:18
Alignment explanation
Indices: 44856757--44856800 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
44856747 TCTTTTCAAC
*
44856757 AATATCATAAAATATATT
1 AATACCATAAAATATATT
*
44856775 AATACCATAAAATGTATT
1 AATACCATAAAATATATT
44856793 AATACCAT
1 AATACCAT
44856801 GCTTAAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATACCATAAAATATATT
Found at i:44857156 original size:33 final size:33
Alignment explanation
Indices: 44857111--44857173 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
44857101 TAATTATTTT
44857111 AATTAATTAAATTTTATTAAAAT-TATATTTAAA
1 AATTAATTAAATTTT-TTAAAATATATATTTAAA
*
44857144 AATT-ATTGAAATTTTTTATAATATATATTT
1 AATTAATT-AAATTTTTTAAAATATATATTT
44857174 TAAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
AATTAATTAAATTTTTTAAAATATATATTTAAA
Found at i:44859771 original size:58 final size:60
Alignment explanation
Indices: 44859709--44859841 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 60
44859699 ATAATTTTAA
* *
44859709 TATTAAATTAATATAATACTTA-T-GAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATATAATACTTACTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
* **
44859767 TATTAAATTAATAGAATGTTTATCTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
1 TATTAAATTAATATAATACTTA-CTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
* *
44859828 TAGTAAAATAATAT
1 TATTAAATTAATAT
44859842 CATCTTTGGA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 19 0.30
60 1 0.02
61 44 0.69
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (60 bp):
TATTAAATTAATATAATACTTACTAGAAGATAAATATTAAATTAAATTTAATATTAAAAC
Found at i:44863295 original size:27 final size:26
Alignment explanation
Indices: 44863242--44863295 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
44863232 AAAGGTTGTT
* * *
44863242 AAAACTCCTTTAAAAGAAAACTCAAG
1 AAAAATCCTTAAAAAGAAAACTAAAG
44863268 AAAAATCCTTAAAAAGAAAACCTAAAG
1 AAAAATCCTTAAAAAGAAAA-CTAAAG
44863295 A
1 A
44863296 GAAGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (26 bp):
AAAAATCCTTAAAAAGAAAACTAAAG
Found at i:44864918 original size:21 final size:21
Alignment explanation
Indices: 44864893--44864934 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44864883 GTTTCTGGGT
*
44864893 TTTTCTTCATTTTCAATTTCC
1 TTTTCTACATTTTCAATTTCC
* *
44864914 TTTTCTAGATTTTCTATTTCC
1 TTTTCTACATTTTCAATTTCC
44864935 ATCTCATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTCTACATTTTCAATTTCC
Found at i:44866326 original size:26 final size:26
Alignment explanation
Indices: 44866291--44866340 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
44866281 AATGTGAAAG
*
44866291 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
44866317 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
44866341 AGTTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:44866423 original size:103 final size:103
Alignment explanation
Indices: 44866212--44866476 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 103
44866202 GTTGTACATA
** *
44866212 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
44866277 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
*
44866315 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
44866379 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATT-CCCC
* * *
44866418 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
44866477 AATAACGGTT
Statistics
Matches: 148, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
102 25 0.17
103 122 0.82
104 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
Found at i:44873947 original size:103 final size:104
Alignment explanation
Indices: 44873703--44873968 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
44873693 GTTGTACATA
** *
44873703 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
44873768 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
44873807 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
44873871 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
44873910 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
44873969 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:44882499 original size:11 final size:11
Alignment explanation
Indices: 44882479--44882579 Score: 77
Period size: 11 Copynumber: 9.4 Consensus size: 11
44882469 TTAAAAATTA
44882479 AAAAAGTATTTT
1 AAAAA-TATTTT
44882491 AAAAATATTTT
1 AAAAATATTTT
* ***
44882502 AAAATTA-AAA
1 AAAAATATTTT
44882512 AAAAAGTATTTT
1 AAAAA-TATTTT
*
44882524 TAAAATATTTT
1 AAAAATATTTT
*
44882535 TAAAATATTTT
1 AAAAATATTTT
*
44882546 --AAA-A-TTA
1 AAAAATATTTT
44882553 AAAAAGTATTTT
1 AAAAA-TATTTT
44882565 AAAAATATTTT
1 AAAAATATTTT
44882576 AAAA
1 AAAA
44882580 TTTAAAAAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 6 0.08
10 4 0.06
11 42 0.59
12 16 0.23
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:44882570 original size:30 final size:30
Alignment explanation
Indices: 44882525--44882589 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
44882515 AAGTATTTTT
*
44882525 AAAATATTTTTAAAATATTTTAAAA-TTAA
1 AAAATATTTTAAAAATATTTTAAAATTTAA
44882554 AAAAGTATTTTAAAAATATTTTAAAATTTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTTAA
44882585 AAAAT
1 AAAAT
44882590 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 4 0.12
30 21 0.64
31 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
AAAATATTTTAAAAATATTTTAAAATTTAA
Found at i:44882597 original size:18 final size:18
Alignment explanation
Indices: 44882562--44882609 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
44882552 AAAAAAGTAT
*
44882562 TTTAAAAATATTTTAAAA
1 TTTAAAAATATTTAAAAA
44882580 TTTAAAAA-ATTTAAAAA
1 TTTAAAAATATTTAAAAA
* *
44882597 -ATAAATATATTTA
1 TTTAAAAATATTTA
44882610 TTATATCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAAATATTTAAAAA
Found at i:44882597 original size:41 final size:42
Alignment explanation
Indices: 44882479--44882597 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 42
44882469 TTAAAAATTA
* **
44882479 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAAGTATTTT
1 AAAAA-TATTTTTAAAATATTAAAAAATT--AAAAAAAGTATTTT
* **
44882524 TAAAATATTTTTAAAATATTTTAAAATT-AAAAAAGTATTTT
1 AAAAATATTTTTAAAATATTAAAAAATTAAAAAAAGTATTTT
*
44882565 AAAAATA-TTTTAAAAT-TTAAAAAATTTAAAAAA
1 AAAAATATTTTTAAAATATTAAAAAATTAAAAAAA
44882598 TAAATATATT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
39 8 0.12
40 15 0.22
41 19 0.28
44 22 0.32
45 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (42 bp):
AAAAATATTTTTAAAATATTAAAAAATTAAAAAAAGTATTTT
Found at i:44887286 original size:13 final size:13
Alignment explanation
Indices: 44887251--44887288 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
44887241 TTTATAAATT
*
44887251 ATAAAAGATTTAA
1 ATAAAATATTTAA
44887264 ATAAAATATTTAA
1 ATAAAATATTTAA
44887277 A-AAAATTATTTA
1 ATAAAA-TATTTA
44887289 GGTGGACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATAAAATATTTAA
Found at i:44889528 original size:22 final size:23
Alignment explanation
Indices: 44889500--44889547 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
44889490 ACACGTTAGC
44889500 AAACAAATA-TATAAATAT-AAAT
1 AAACAAATACT-TAAATATAAAAT
*
44889522 AAACAAATACTTATATATAAAAT
1 AAACAAATACTTAAATATAAAAT
44889545 AAA
1 AAA
44889548 ATAAATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACAAATACTTAAATATAAAAT
Found at i:44893249 original size:79 final size:79
Alignment explanation
Indices: 44893118--44893276 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
44893108 CATGCTGATA
44893118 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
44893183 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
44893197 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
44893262 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
44893276 T
1 T
44893277 AATGAATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.55
Consensus pattern (79 bp):
TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
TGTTGTTTGTGTTT
Found at i:44893563 original size:52 final size:52
Alignment explanation
Indices: 44893480--44893580 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
44893470 TAAGGCAACG
* *
44893480 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
*
44893532 TAATAGACAGTAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
44893581 TATGTGCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:44896808 original size:79 final size:79
Alignment explanation
Indices: 44896677--44896835 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
44896667 CATGCTGATA
44896677 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
44896742 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
44896756 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
44896821 TGTTGTTTGTGTTT
66 TGTTGTTTGTGTTT
44896835 T
1 T
44896836 AATGAATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.55
Consensus pattern (79 bp):
TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
TGTTGTTTGTGTTT
Found at i:44899916 original size:87 final size:86
Alignment explanation
Indices: 44899720--44900031 Score: 339
Period size: 87 Copynumber: 3.7 Consensus size: 86
44899710 AACAAAATCA
* * * **
44899720 AAATAAAATCTGTTAAACGGC-GAGAATAAATCCCAAAATAGA--TTACTCAA-TTTAATTCTAT
1 AAATAAAATCTGTTAAACGACAG-GAATAAATCCCAAAACAGATTTTATTCAATTTTAATTCTCG
* *
44899781 TTTGGAAACAAAAT-TAAAATC
65 TTTGGAAACAAAATAAAAAATG
* * * *
44899802 AAATAAAATCTATTAAACGGCAGGAATAAATCTCAAAACAGATTTTATTTAATTTTAAATTCTCG
1 AAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAGATTTTATTCAATTTT-AATTCTCG
44899867 TTTGGAAACAAAATAAAAAATG
65 TTTGGAAACAAAATAAAAAATG
* * * * * *
44899889 GAATAAAATCTGTTGAATGAC-GAGAATAAATCCCAAAAAAGATTTTATTTAATTTTAATACTCG
1 AAATAAAATCTGTTAAACGACAG-GAATAAATCCCAAAACAGATTTTATTCAATTTTAATTCTCG
* *
44899953 TTTTGAAACAAAGTCAAAAAATG
65 TTTGGAAACAAAAT-AAAAAATG
* * * *
44899976 AAATAAAATATGTTGAACAACAGGAATAAATCCTAAAACAGATTTTATTCAATTTT
1 AAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAGATTTTATTCAATTTT
44900032 TATTTTTATT
Statistics
Matches: 195, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
82 37 0.19
83 1 0.01
84 6 0.03
85 3 0.02
86 40 0.21
87 107 0.55
88 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (86 bp):
AAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAGATTTTATTCAATTTTAATTCTCGT
TTGGAAACAAAATAAAAAATG
Found at i:44900019 original size:174 final size:169
Alignment explanation
Indices: 44899721--44900031 Score: 392
Period size: 174 Copynumber: 1.8 Consensus size: 169
44899711 ACAAAATCAA
* * *
44899721 AATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAATAGATTACTCAATTTAATTCTATTTTGG
1 AATAAAATCTGTTAAACGACGAGAATAAATCCCAAAAAAGATTACTCAATTTAATACTATTTTGG
* * **
44899786 AAACAAAATTAAAATCAAATAAAATCTATTAAACGGCAGGAATAAATCTCAAAACAGATTTTATT
66 AAACAAAATAAAAATCAAATAAAATATATTAAACAACAGGAATAAATCTCAAAACAGATTTTATT
*
44899851 TAATTTTAAATTCTCGTTTGGAAACAAAATAAAAAATGG
131 CAATTTTAAATTCTCGTTTGGAAACAAAATAAAAAATGG
* * * * *
44899890 AATAAAATCTGTTGAATGACGAGAATAAATCCCAAAAAAGATTTTATTTAATTTTAATACTCGTT
1 AATAAAATCTGTTAAACGACGAGAATAAATCCCAAAAAAGA--TTACTCAA-TTTAATACT-ATT
* * * *
44899955 TT-GAAACAAAGTCAAAAAATGAAATAAAATATGTTGAACAACAGGAATAAATC-CTAAAACAGA
62 TTGGAAACAAAAT--AAAAATCAAATAAAATATATTAAACAACAGGAATAAATCTC-AAAACAGA
44900018 TTTTATTCAATTTT
124 TTTTATTCAATTTT
44900032 TATTTTTATT
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
169 37 0.31
171 6 0.05
172 17 0.14
173 5 0.04
174 53 0.45
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (169 bp):
AATAAAATCTGTTAAACGACGAGAATAAATCCCAAAAAAGATTACTCAATTTAATACTATTTTGG
AAACAAAATAAAAATCAAATAAAATATATTAAACAACAGGAATAAATCTCAAAACAGATTTTATT
CAATTTTAAATTCTCGTTTGGAAACAAAATAAAAAATGG
Found at i:44900433 original size:14 final size:14
Alignment explanation
Indices: 44900414--44900444 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44900404 ATCGAAGCAA
44900414 TAACACCTCTGCAG
1 TAACACCTCTGCAG
*
44900428 TAACACCTTTGCAG
1 TAACACCTCTGCAG
44900442 TAA
1 TAA
44900445 TCAACGAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (14 bp):
TAACACCTCTGCAG
Found at i:44901554 original size:20 final size:20
Alignment explanation
Indices: 44901529--44901567 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44901519 GTTAATGTGA
*
44901529 AAATTTGTGACTATATTTTG
1 AAATTTGTCACTATATTTTG
44901549 AAATTTGTCACTATATTTT
1 AAATTTGTCACTATATTTT
44901568 ACTTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (20 bp):
AAATTTGTCACTATATTTTG
Found at i:44901598 original size:12 final size:12
Alignment explanation
Indices: 44901581--44901607 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44901571 TTAATTGATG
44901581 TTTGCCATTATA
1 TTTGCCATTATA
44901593 TTTGCCATTATA
1 TTTGCCATTATA
44901605 TTT
1 TTT
44901608 TACTCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTGCCATTATA
Found at i:44903935 original size:19 final size:18
Alignment explanation
Indices: 44903908--44903960 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
44903898 GTAAGGGTTA
*
44903908 ATTTCATTTTTTTAATATT
1 ATTTAATTTTTTTAAT-TT
44903927 ATTTAATTTTTTATAATTT
1 ATTTAATTTTTT-TAATTT
*
44903946 AATTAATATTTTTTA
1 ATTTAAT-TTTTTTA
44903961 TAATAGTCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTAATTTTTTTAATTT
Found at i:44906001 original size:59 final size:59
Alignment explanation
Indices: 44905895--44906098 Score: 309
Period size: 59 Copynumber: 3.4 Consensus size: 59
44905885 ATTGATTTAT
* * *
44905895 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTAAATAAAATGGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
* * *
44905954 TTTTGAATATTTTTGTACAAATTATTTTTATATGGTTTTATTTAATAAAATAAAAGTTA
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
* * * *
44906013 TTTTGAATATTTTTATACAACTTATTTTTATATTATTTCATTTAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
44906072 TTTTGAATATTTTTGTACAAATATATT
1 TTTTGAATATTTTTGTACAAAT-TATT
44906099 ACTGACTATG
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 125 0.97
60 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTA
Found at i:44906174 original size:29 final size:28
Alignment explanation
Indices: 44906142--44906220 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 28
44906132 TAAAAAAATC
*
44906142 CATCTAGTCAAAATAATTTTTTCAGAACA
1 CATCTAGTCAAAAT-ATTTTTTCAAAACA
* *
44906171 CATC-ATGTCAAATTTATTTTTTCAAAATA
1 CATCTA-GTCAAA-ATATTTTTTCAAAACA
* *
44906200 CATATTGTCAAAAGTATTTTT
1 CATCTAGTCAAAA-TATTTTT
44906221 CCCATAACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 1 0.03
29 38 0.95
30 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (28 bp):
CATCTAGTCAAAATATTTTTTCAAAACA
Found at i:44906290 original size:24 final size:23
Alignment explanation
Indices: 44906249--44906293 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
44906239 AATTAAAAAA
*
44906249 AATTAAACCCTAAAACCCTAAAC
1 AATTAAAACCTAAAACCCTAAAC
*
44906272 AATTAAAAACCTAATACCCTAA
1 AATT-AAAACCTAAAACCCTAA
44906294 TTTAATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (23 bp):
AATTAAAACCTAAAACCCTAAAC
Found at i:44906937 original size:22 final size:20
Alignment explanation
Indices: 44906906--44906946 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
44906896 AAATTTAAAA
44906906 ATTTTAAAAATATATAAAAATT
1 ATTTTAAAAA-A-ATAAAAATT
*
44906928 ATTTTTAAAAAATAAAAAT
1 ATTTTAAAAAAATAAAAAT
44906947 CATTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAAATAAAAATT
Found at i:44922901 original size:69 final size:68
Alignment explanation
Indices: 44922821--44923139 Score: 266
Period size: 69 Copynumber: 4.6 Consensus size: 68
44922811 CCTAGTTTTC
* * *
44922821 ATAGTCCAACCATATTCTTACATAGTATATTCC-CCTTGTTTACTGTCCTGGCAAACTATTCTGG
1 ATAGTCCAACCATAGTCTTACAT-GTATATTCCTCC-TGTTTACTGTCCTGGCAAACTATCCAGG
*
44922885 TTGTT
64 TTGCT
* * * **
44922890 ATAGTCTAACCATGGTCTTAGACTGTATATTCCTCCTGTTTACTGTCCTGGTGAACTATCCAGGT
1 ATAGTCCAACCATAGTCTTACA-TGTATATTCCTCCTGTTTACTGTCCTGGCAAACTATCCAGGT
44922955 TGCT
65 TGCT
* * ** ** *
44922959 ATAGTCCAACCATAGTCTTACATCGAATATTCATTATGTTTACTGT-CTCGGTGAACTATCCTGG
1 ATAGTCCAACCATAGTCTTACAT-GTATATTCCTCCTGTTTACTGTCCT-GGCAAACTATCCAGG
*
44923023 TTGCC
64 TTGCT
* * * ** * * ** * *
44923028 ATAGTCCAACCATGGTATTATACTAAATATTTCTCGTGTTTACTGTTATGGCAGACTATCCTGGT
1 ATAGTCCAACCATAGTCTTACA-TGTATATTCCTCCTGTTTACTGTCCTGGCAAACTATCCAGGT
*
44923093 TGCC
65 TGCT
* * *
44923097 ATAGTCCAACCATGGTCTTA-ACCGTATATTCCTCATGTTTACT
1 ATAGTCCAACCATAGTCTTACA-TGTATATTCCTCCTGTTTACT
44923140 CAGAGTTTTG
Statistics
Matches: 208, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
68 21 0.10
69 182 0.88
70 5 0.02
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (68 bp):
ATAGTCCAACCATAGTCTTACATGTATATTCCTCCTGTTTACTGTCCTGGCAAACTATCCAGGTT
GCT
Found at i:44922978 original size:138 final size:138
Alignment explanation
Indices: 44922820--44923139 Score: 351
Period size: 138 Copynumber: 2.3 Consensus size: 138
44922810 ACCTAGTTTT
* * * *
44922820 CATAGTCCAACCATATTCTTACATAGTATATTCCCCTTGTTTACTGTC-CTGGCAAACTATTCTG
1 CATAGTCCAACCATAGTCTTACATCGTATATTCCACTTGTTTACTGTCTC-GGCAAACTATCCTG
** * * ** * *
44922884 GTTGTTATAGTCTAACCATGGTCTTAGACTGTATATTCCTCCTGTTTACTGTCCTGG-TGAACTA
65 GTTGCCATAGTCCAACCATGGTATTAGACTAAATATTCCTCCTGTTTACTGTCATGGCAG-ACTA
44922948 TCCAGGTTGC
129 TCCAGGTTGC
* * * **
44922958 TATAGTCCAACCATAGTCTTACATCGAATATT-CATTATGTTTACTGTCTCGGTGAACTATCCTG
1 CATAGTCCAACCATAGTCTTACATCGTATATTCCACT-TGTTTACTGTCTCGGCAAACTATCCTG
* * * *
44923022 GTTGCCATAGTCCAACCATGGTATTATACTAAATATTTCTCGTGTTTACTGTTATGGCAGACTAT
65 GTTGCCATAGTCCAACCATGGTATTAGACTAAATATTCCTCCTGTTTACTGTCATGGCAGACTAT
*
44923087 CCTGGTTGC
130 CCAGGTTGC
* * * *
44923096 CATAGTCCAACCATGGTCTTA-ACCGTATATTCCTCATGTTTACT
1 CATAGTCCAACCATAGTCTTACATCGTATATTCCACTTGTTTACT
44923140 CAGAGTTTTG
Statistics
Matches: 149, Mismatches: 29, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
137 18 0.12
138 129 0.87
139 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (138 bp):
CATAGTCCAACCATAGTCTTACATCGTATATTCCACTTGTTTACTGTCTCGGCAAACTATCCTGG
TTGCCATAGTCCAACCATGGTATTAGACTAAATATTCCTCCTGTTTACTGTCATGGCAGACTATC
CAGGTTGC
Found at i:44925634 original size:29 final size:27
Alignment explanation
Indices: 44925602--44925702 Score: 84
Period size: 29 Copynumber: 3.7 Consensus size: 27
44925592 ATATAAACAG
44925602 TAATAAACATAACATATATAATATCCTAC
1 TAATAAACAT-ACATA-ATAATATCCTAC
* *
44925631 TAATATACATACATAAT-ATA-CATAC
1 TAATAAACATACATAATAATATCCTAC
*
44925656 --ATAAACATTAATATACATAATATCCATAC
1 TAATAAACA-T-ACATA-ATAATATCC-TAC
*
44925685 TAATATACATACATAATA
1 TAATAAACATACATAATA
44925703 GACATAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
23 6 0.11
24 1 0.02
25 8 0.14
26 5 0.09
27 5 0.09
28 9 0.16
29 16 0.28
30 1 0.02
31 6 0.11
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (27 bp):
TAATAAACATACATAATAATATCCTAC
Found at i:44925645 original size:54 final size:54
Alignment explanation
Indices: 44925586--44925712 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
44925576 TAAAGTCAGT
*
44925586 TACATAATATAAACAGTA-ATAAACA-TAACATATATAATATCC-TACTAATATACA
1 TACATAATAT--ACA-TACATAAACATTAACATACATAATATCCATACTAATATACA
*
44925640 TACATAATATACATACATAAACATTAATATACATAATATCCATACTAATATACA
1 TACATAATATACATACATAAACATTAACATACATAATATCCATACTAATATACA
*
44925694 TACATAATAGACATA-ATAA
1 TACATAATATACATACATAA
44925713 TATACAATTG
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
51 2 0.03
52 10 0.15
53 19 0.28
54 36 0.54
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.30
Consensus pattern (54 bp):
TACATAATATACATACATAAACATTAACATACATAATATCCATACTAATATACA
Found at i:44925653 original size:9 final size:9
Alignment explanation
Indices: 44925639--44925711 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
44925629 ACTAATATAC
44925639 ATACATAAT
1 ATACATAAT
44925648 ATACATACAT
1 ATACATA-AT
*
44925658 AAACATTAAT
1 ATACA-TAAT
44925668 ATACATAAT
1 ATACATAAT
* *
44925677 ATCCATACT
1 ATACATAAT
* *
44925686 A-ATAT-AC
1 ATACATAAT
44925693 ATACATAAT
1 ATACATAAT
*
44925702 AGACATAAT
1 ATACATAAT
44925711 A
1 A
44925712 ATATACAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
7 1 0.02
8 5 0.10
9 29 0.59
10 12 0.24
11 2 0.04
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.30
Consensus pattern (9 bp):
ATACATAAT
Found at i:44925658 original size:41 final size:40
Alignment explanation
Indices: 44925586--44925699 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 40
44925576 TAAAGTCAGT
* *
44925586 TACATAATATA-A-ACAGTAATAAACATAACATATA-TAATA
1 TACATAATATACATACA-TAATATACAT-ACATACATTAATA
*
44925625 TCCTACTAATATACATACATAATATACATACATAAACATTAATA
1 TAC-A-TAATATACATACATAATATACATACAT--ACATTAATA
*
44925669 TACATAATATCCATAC-TAATATACATACATA
1 TACATAATATACATACATAATATACATACATA
44925700 ATAGACATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
39 3 0.05
40 1 0.02
41 25 0.40
42 21 0.33
43 6 0.10
44 7 0.11
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (40 bp):
TACATAATATACATACATAATATACATACATACATTAATA
Found at i:44925660 original size:62 final size:65
Alignment explanation
Indices: 44925594--44925718 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 65
44925584 GTTACATAAT
* *
44925594 ATAAACAGTAATAAACATAACAT-ATA-TAATAT-CCTAC-TAATATACATACATAATATACATA
1 ATAAACAGTAATAAACATAACATCATACTAATATACATACATAATAGACATA-ATAATATACATA
44925655 C
65 C
* * *
44925656 ATAAACATTAATATACATAATATCCATACTAATATACATACATAATAGACATAATAATATACA
1 ATAAACAGTAATAAACATAACAT-CATACTAATATACATACATAATAGACATAATAATATACA
44925719 ATTGACTGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 20 0.38
64 3 0.06
65 6 0.11
66 14 0.26
67 10 0.19
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.30
Consensus pattern (65 bp):
ATAAACAGTAATAAACATAACATCATACTAATATACATACATAATAGACATAATAATATACATAC
Found at i:44925690 original size:12 final size:13
Alignment explanation
Indices: 44925586--44925718 Score: 105
Period size: 13 Copynumber: 10.0 Consensus size: 13
44925576 TAAAGTCAGT
44925586 TACATAATATA-A
1 TACATAATATACA
*
44925598 -ACAGTAATAAACA
1 TACA-TAATATACA
*
44925611 TAACATATATAATATCC
1 T-ACATA-AT-ATA-CA
44925628 TAC-TAATATACA
1 TACATAATATACA
44925640 TACATAATATACA
1 TACATAATATACA
* *
44925653 TACATAAACATTAATA
1 TACAT-AATA-T-ACA
*
44925669 TACATAATATCCA
1 TACATAATATACA
44925682 TAC-TAATATACA
1 TACATAATATACA
*
44925694 TACATAATAGACA
1 TACATAATATACA
44925707 TA-ATAATATACA
1 TACATAATATACA
44925719 ATTGACTGAC
Statistics
Matches: 97, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.03
12 30 0.31
13 32 0.33
14 8 0.08
15 11 0.11
16 11 0.11
17 2 0.02
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (13 bp):
TACATAATATACA
Found at i:44925696 original size:25 final size:25
Alignment explanation
Indices: 44925613--44925718 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
44925603 AATAAACATA
* *
44925613 ACATATATAATAT-CCTACTAATAT
1 ACATACATAATATACATACTAATAT
*
44925637 ACATACATAATATACATAC--ATAA
1 ACATACATAATATACATACTAATAT
44925660 ACAT---TAATATAC--A-TAATAT
1 ACATACATAATATACATACTAATAT
* *
44925679 CCATAC-TAATATACATACATAATAG
1 ACATACATAATATACATAC-TAATAT
44925704 ACATA-ATAATATACA
1 ACATACATAATATACA
44925719 ATTGACTGAC
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
18 1 0.02
19 6 0.09
20 8 0.12
21 8 0.12
23 8 0.12
24 12 0.18
25 22 0.34
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (25 bp):
ACATACATAATATACATACTAATAT
Found at i:44927422 original size:4 final size:4
Alignment explanation
Indices: 44927415--44927440 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
44927405 TTAATTAGTA
44927415 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
44927441 TTAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:44934556 original size:19 final size:20
Alignment explanation
Indices: 44934532--44934584 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
44934522 ATTTTTATAA
44934532 ATATTTTTTTACGA-AATTT
1 ATATTTTTTTACGATAATTT
* **
44934551 ATATTTCTTTAC-ATTTTTT
1 ATATTTTTTTACGATAATTT
44934570 ATAATTTTTTTACGA
1 AT-ATTTTTTTACGA
44934585 CCTTATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 9 0.33
21 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (20 bp):
ATATTTTTTTACGATAATTT
Found at i:44934619 original size:28 final size:28
Alignment explanation
Indices: 44934587--44934676 Score: 119
Period size: 29 Copynumber: 3.2 Consensus size: 28
44934577 TTTTACGACC
44934587 TTATAAAATTTTATATTTTTTTATATTT
1 TTATAAAATTTTATATTTTTTTATATTT
* * *
44934615 CTAT-ATATTTTATAATTTTTTATGATTT
1 TTATAAAATTTTATATTTTTTTAT-ATTT
*
44934643 TTATAAAATTTTAAATTTTTTTACTATTT
1 TTATAAAATTTTATATTTTTTTA-TATTT
44934672 TTATA
1 TTATA
44934677 TTTTTAAAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 17 0.33
28 10 0.19
29 24 0.46
30 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (28 bp):
TTATAAAATTTTATATTTTTTTATATTT
Found at i:44934635 original size:10 final size:10
Alignment explanation
Indices: 44934595--44934681 Score: 53
Period size: 10 Copynumber: 9.3 Consensus size: 10
44934585 CCTTATAAAA
*
44934595 TTTTATATTT
1 TTTTATAATT
44934605 TTTTAT-A-T
1 TTTTATAATT
* *
44934613 TTCTAT-ATA
1 TTTTATAATT
44934622 TTTTATAATT
1 TTTTATAATT
*
44934632 TTTTATGA-T
1 TTTTATAATT
**
44934641 TTTTATAAAA
1 TTTTATAATT
44934651 TTTTA-AATT
1 TTTTATAATT
*
44934660 TTTT-TACTAT
1 TTTTATAAT-T
44934670 TTTTAT-ATT
1 TTTTATAATT
44934679 TTT
1 TTT
44934682 AAAACTTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
8 7 0.12
9 25 0.42
10 26 0.44
11 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:44934644 original size:19 final size:18
Alignment explanation
Indices: 44934595--44934698 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
44934585 CCTTATAAAA
*
44934595 TTTTATATTTTT-TTATAT
1 TTTTATATTTTTATAAT-T
*
44934613 TTCTATATATTTTATAATT
1 TTTTATAT-TTTTATAATT
**
44934632 TTTTATGATTTTTATAAAA
1 TTTTAT-ATTTTTATAATT
* * *
44934651 TTTTAAATTTTTTTACTAT
1 TTTTATATTTTTATAAT-T
*
44934670 TTTTATATTTTTAAAACTT
1 TTTTATATTTTTATAA-TT
*
44934689 TTTAATATTT
1 TTTTATATTT
44934699 GATTTTTTTA
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
18 15 0.23
19 45 0.68
20 6 0.09
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTTATATTTTTATAATT
Found at i:44934647 original size:56 final size:56
Alignment explanation
Indices: 44934587--44934692 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
44934577 TTTTACGACC
* * *
44934587 TTATAAAATTTTATATTTTTTTA-TATTTCTATATATTTTATAATTTTTTATGATTT
1 TTATAAAATTTTAAATTTTTTTACTATTTCTATAT-TTTTAAAACTTTTTATGATTT
*
44934643 TTATAAAATTTTAAATTTTTTTACTATTTTTATATTTTTAAAACTTTTTA
1 TTATAAAATTTTAAATTTTTTTACTATTTCTATATTTTTAAAACTTTTTA
44934693 ATATTTGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 35 0.78
57 10 0.22
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (56 bp):
TTATAAAATTTTAAATTTTTTTACTATTTCTATATTTTTAAAACTTTTTATGATTT
Found at i:44934678 original size:8 final size:8
Alignment explanation
Indices: 44934594--44934682 Score: 52
Period size: 9 Copynumber: 9.9 Consensus size: 8
44934584 ACCTTATAAA
44934594 ATTTTATAT
1 ATTTT-TAT
*
44934603 TTTTTTAT
1 ATTTTTAT
*
44934611 ATTTCTAT
1 ATTTTTAT
44934619 ATATTTTAT
1 AT-TTTTAT
44934628 AATTTTTTAT
1 -A-TTTTTAT
44934638 GATTTTTAT
1 -ATTTTTAT
*
44934647 AAAATTTTAAAT
1 ---ATTTT-TAT
*
44934659 TTTTTTACT
1 ATTTTTA-T
44934668 ATTTTTAT
1 ATTTTTAT
44934676 ATTTTTA
1 ATTTTTA
44934683 AAACTTTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
8 20 0.32
9 27 0.43
10 8 0.13
11 6 0.10
12 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (8 bp):
ATTTTTAT
Found at i:44934683 original size:27 final size:26
Alignment explanation
Indices: 44934595--44934698 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 26
44934585 CCTTATAAAA
* *
44934595 TTTTATATTTTTTTATATTTCTATAT
1 TTTTAAATTTTTTTATATTTTTATAT
*
44934621 ATTTTATAA-TTTTTTATGATTTTTATAAAA
1 -TTTTA-AATTTTTTTAT-ATTTTTAT--AT
44934651 TTTTAAATTTTTTTACTATTTTTATAT
1 TTTTAAATTTTTTTA-TATTTTTATAT
* *
44934678 TTTTAAAACTTTTTAATATTT
1 TTTT-AAATTTTTTTATATTT
44934699 GATTTTTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
27 23 0.36
28 19 0.30
29 20 0.31
30 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (26 bp):
TTTTAAATTTTTTTATATTTTTATAT
Found at i:44934690 original size:29 final size:27
Alignment explanation
Indices: 44934601--44934698 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 27
44934591 AAAATTTTAT
* *
44934601 ATTTTTTTATATTTCTATATATTTTATA
1 ATTTTTTTATATTTTTATAT-TTTTAAA
*
44934629 A-TTTTTTATGATTTTTATAAAATTTT-AA
1 ATTTTTTTAT-ATTTTTAT--ATTTTTAAA
44934657 ATTTTTTTACTATTTTTATATTTTTAAA
1 ATTTTTTTA-TATTTTTATATTTTTAAA
* *
44934685 ACTTTTTAATATTT
1 ATTTTTTTATATTT
44934699 GATTTTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
27 18 0.31
28 19 0.33
29 19 0.33
30 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
ATTTTTTTATATTTTTATATTTTTAAA
Found at i:44934866 original size:90 final size:90
Alignment explanation
Indices: 44934772--44935000 Score: 331
Period size: 90 Copynumber: 2.5 Consensus size: 90
44934762 AATCTTTAAT
44934772 AAAAGAAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACACATTTTGAAAG
1 AAAAGAAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACACATTTTGAAAG
*
44934837 TTCAAGTACCCAATTGAGTGA-AAAA
66 TTCAAATACCCAATTGAGT-ACAAAA
** * * **
44934862 AAAAGGTAGGGGCTTAATTGCTTTTTTTTAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTGAAA
1 AAAAGAAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTC-TTTTTGACACATTTTGAAA
44934926 GTTCAAATACCCAATTGAGTACAAAA
65 GTTCAAATACCCAATTGAGTACAAAA
44934952 AAAA-AACAGGGGCTTAATTG-TTTTTGTTGAAAAAGTTTGAGGGTCTTTT
1 AAAAGAA-AGGGGCTTAATTGCTTTTT-TTGAAAAAGTTTGAGGGTCTTTT
44935001 GCACCCTTAA
Statistics
Matches: 123, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
89 7 0.06
90 115 0.93
91 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (90 bp):
AAAAGAAAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACACATTTTGAAAG
TTCAAATACCCAATTGAGTACAAAA
Found at i:44941798 original size:20 final size:21
Alignment explanation
Indices: 44941775--44941828 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
44941765 CTTCACTTGA
44941775 AAAAAAAAAGAAACAAAAA-G
1 AAAAAAAAAGAAACAAAAACG
* *
44941795 AAAAAAAAGGAAAAGAAAAACG
1 AAAAAAAAAG-AAACAAAAACG
44941817 AAAAATAAAAGA
1 AAAAA-AAAAGA
44941829 GAAAAAGGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 7 0.25
23 4 0.14
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAACAAAAACG
Found at i:44942356 original size:107 final size:107
Alignment explanation
Indices: 44942170--44942364 Score: 302
Period size: 107 Copynumber: 1.8 Consensus size: 107
44942160 TTTGAATTCT
44942170 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAACAAATTTCCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAACAAATTTCCATCTT
44942235 ATCCATTGTGATAATCTTTTTCATCTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTATACATCTCGTATCTC
* * ** * *
44942277 AGCAAAATTTGCTGTCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAAC-AAATTTCCATCT
* *
44942341 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
44942365 AGCATTTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 73 0.92
108 6 0.08
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.46
Consensus pattern (107 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTACTCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTATACATCTCGTATCTC
Found at i:44942948 original size:87 final size:87
Alignment explanation
Indices: 44942807--44943584 Score: 1083
Period size: 87 Copynumber: 8.9 Consensus size: 87
44942797 AGAAACAGAT
* * * *
44942807 CCTTACCTCCATCAGTTGCAGTGGAGCTGGTCAAATATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
44942872 GTGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * *
44942894 CCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGTCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44942959 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * *
44942981 TCTTGCCTCCATCGATTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44943046 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * * *
44943068 CCTTGCCTCTATCAGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44943133 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * * * * *
44943155 CCTTGCCTCCATCGGTTGTAGTGGAGATGGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * *
44943220 GCGAAGCAGATTGAAGACACAAG
66 GCGAAGCAGATCGAAAACA-AAA
* * * * ** *
44943243 CCTTGCCTCCCTCGTTTGTAGTGGAGCTGGTTGAAGATAATAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
44943308 GCGAAGCAGGTCGAAAACACAAA
66 GCGAAGCAGATCGAAAACA-AAA
* * * * * *
44943331 CGTTGCCTCTC-TCAGTTGTAGTGGAGTTGGTTAAAAATAGCAGATCTTGCCTTCCTACATTAAC
1 CCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAAC
*
44943395 AGCGAAACAGATCGAAAACAAAA
65 AGCGAAGCAGATCGAAAACAAAA
* * *
44943418 CCTTGCCTTCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCATGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44943483 GCGAAGCAGATCGAAAACAAAA
66 GCGAAGCAGATCGAAAACAAAA
* * * * *
44943505 CCTTGCCTCCATCGATTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTGAC-
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
44943569 GACGAAGCAGATCGAA
66 G-CGAAGCAGATCGAA
44943585 GAAACTAGTC
Statistics
Matches: 622, Mismatches: 65, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
86 2 0.00
87 468 0.75
88 151 0.24
89 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (87 bp):
CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCGAAAACAAAA
Found at i:44943248 original size:44 final size:45
Alignment explanation
Indices: 44943113--44943316 Score: 122
Period size: 44 Copynumber: 4.6 Consensus size: 45
44943103 GATAGCAGAT
* * *
44943113 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAA-A-AC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGACAATAGAC
* * * * * * *
44943156 CTTGCC-TCCAT-CGGTTG-TAGTGGAG-ATGGTTGAAGACAACAGAT
1 CTTGCCTTCC-TGC-ATTGACAGCGAAGCA-GATTGAAGACAATAGAC
44943200 CTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGACACA-AG-C
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGACA-ATAGAC
* * * * * * * * *
44943244 CTTGCCTCCCT-CGTTTG-TAGTGGAGCTGGTTGAAGATAATAGAT
1 CTTGCCTTCCTGC-ATTGACAGCGAAGCAGATTGAAGACAATAGAC
44943288 CTTGCCTTCCTGCATTGACAGCGAAGCAG
1 CTTGCCTTCCTGCATTGACAGCGAAGCAG
44943317 GTCGAAAACA
Statistics
Matches: 116, Mismatches: 30, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
41 1 0.01
42 19 0.16
43 28 0.24
44 37 0.32
45 29 0.25
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (45 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGACAATAGAC
Found at i:44943456 original size:350 final size:349
Alignment explanation
Indices: 44942807--44943600 Score: 1080
Period size: 350 Copynumber: 2.3 Consensus size: 349
44942797 AGAAACAGAT
* * * * * * * *
44942807 CCTTACCTCCATC-AGTTGCAGTGGAGCTGGTCAAATATAGCAGATCTTGCCTTCCTGCATTAAC
1 CCTTGCCTCCATCGA-TTACAGTGGAGATGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGAC
* * * *
44942871 AGTGAAGCAGATCGAAAACA-AAACCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAGC
65 AGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAAC
*
44942935 AGATCTTGTCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAATCTTGCCTCCATCGATTGC
130 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAATCTTGCCTCCATCGATTGC
* * *
44943000 AGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA
195 AGTGGAGCTGGTCAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAAACA
*
44943065 AAACCTTGCCTCTATCAGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCCTGCATTA
260 AAACCTTGCCTCTATCAGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCATGCATTA
44943130 ACAGCGAAGCAGATCGAAAACAAAA
325 ACAGCGAAGCAGATCGAAAACAAAA
* ** *
44943155 CCTTGCCTCCATCGGTTGTAGTGGAGATGGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCATCGATTACAGTGGAGATGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACA
* * * * * ** *
44943220 GCGAAGCAGATTGAAGACACAAGCCTTGCCTCCCTCGTTTGTAGTGGAGCTGGTTGAAGATAATA
66 GCGAAGCAGATCGAAGACACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAACA
* *
44943285 GATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAAACACAAA-CGTTGCCTCTC-TC-AGT
131 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAATC-TTGCCTC-CATCGA-T
* * *
44943347 TGTAGTGGAGTTGGTTAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAA
192 TGCAGTGGAGCTGGTCAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAA
* *
44943412 ACAAAACCTTGCCT-TCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCATGC
257 ACAAAACCTTGCCTCT-ATCAGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCATGC
44943476 ATTAACAGCGAAGCAGATCGAAAACAAAA
321 ATTAACAGCGAAGCAGATCGAAAACAAAA
* * * * *
44943505 CCTTGCCTCCATCGATTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTGAC-
1 CCTTGCCTCCATCGATTACAGTGGAGATGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACA
* * *
44943569 GACGAAGCAGATCGAAGAAACTAGTCTTGCCT
66 G-CGAAGCAGATCGAAGACACAAGCCTTGCCT
44943601 TCCTGTACTA
Statistics
Matches: 391, Mismatches: 47, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
348 70 0.18
349 79 0.20
350 241 0.62
351 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (349 bp):
CCTTGCCTCCATCGATTACAGTGGAGATGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACA
GCGAAGCAGATCGAAGACACAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTCAAAGATAACA
GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAATCTTGCCTCCATCGATTGCA
GTGGAGCTGGTCAAAAATAGCAGATCTTGCCTTCCTACATTAACAGCGAAACAGATCGAAAACAA
AACCTTGCCTCTATCAGTTGCAGTGGAGCTAGTCAAAGATAGCAGATCTTGCCTTCATGCATTAA
CAGCGAAGCAGATCGAAAACAAAA
Found at i:44943875 original size:44 final size:44
Alignment explanation
Indices: 44943826--44944022 Score: 134
Period size: 44 Copynumber: 4.5 Consensus size: 44
44943816 CCGGTAGTTC
44943826 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* * ** * ** * *
44943870 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* ** * * * *
44943914 TACCTCCCTGAGATTA-CAGT-GAAGTACATTGAAG-TCAGTAGTTC-
1 TATCTCCCT-AG-GCAGCAGTGGAA-TAGATTGAAGATTA-CAGATCT
* * *
44943958 TATCTCCCTGGGCAGCAGTGGAATAGATT-AAAACTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* *
44944001 TATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAGGCAGCAGTGGA
44944023 GCAGATCGAA
Statistics
Matches: 108, Mismatches: 37, Indels: 17
0.67 0.23 0.10
Matches are distributed among these distances:
42 7 0.06
43 30 0.28
44 57 0.53
45 13 0.12
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
Found at i:44943925 original size:132 final size:132
Alignment explanation
Indices: 44943762--44944254 Score: 740
Period size: 132 Copynumber: 3.7 Consensus size: 132
44943752 AATAGATTGA
* * * *
44943762 AGATTGAAGATGACGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
44943827 A-TCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
66 ACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
44943891 AGC
130 AGC
* * *
44943894 AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGAAGTACATTGAAGTCAGTAGTTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
44943959 A-TCTCCCTGGGCAGCAGTGGAATAGATT-AAAACTACAGATCTTATCTCCCTAAGCAGTAGTGG
66 ACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
44944022 AGC
130 AGC
* * * * *
44944025 AGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTCAAGCCAGAAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
44944090 ACTTCCATGGGCAATAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
44944155 GC
131 GC
* *
44944157 AGATCGAAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
44944222 ACTTCCCTGGACAACAGTGGAATAGATTGAAGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGA
44944255 GCAGAAGAAA
Statistics
Matches: 327, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 116 0.35
132 211 0.65
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:44944242 original size:263 final size:263
Alignment explanation
Indices: 44943762--44944249 Score: 757
Period size: 263 Copynumber: 1.9 Consensus size: 263
44943752 AATAGATTGA
* * * * * *
44943762 AGATTGAAGATGACGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGACGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTCAAGCCAGAAATTCT
* * *
44943827 ATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCATAGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGA
* *
44943892 GCAGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGAAGTACATTGAAGTCAGTAGTT
131 GCAGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGAAGTACATTGAAGCCAGTAATT
* *
44943957 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGG
196 CTATCTCCCTGGACAACAGTGGAATAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGG
44944022 AGC
261 AGC
* * *
44944025 AGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTCAAGCCAGAAATTCT
1 AGATCGAAGATGACGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTCAAGCCAGAAATTCT
* *
44944090 A-CTTCCATGGGCAATAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 ATC-TCCATAGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
*
44944154 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGAGATTACAGT-AGAGTACATTGAAGCCAGTAA
130 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGA-AGTACATTGAAGCCAGTAA
44944218 TTCTA-CTTCCCTGGACAACAGTGGAATAGATT
194 TTCTATC-TCCCTGGACAACAGTGGAATAGATT
44944250 GAAGAGCAGA
Statistics
Matches: 203, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
262 3 0.01
263 200 0.99
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (263 bp):
AGATCGAAGATGACGAATTTTACCTCCCTGAGATTACAGTGGAGTACATTCAAGCCAGAAATTCT
ATCTCCATAGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGA
GCAGATCGAAGATGGCGGATTTTACCTCCCTGAGATTACAGTGAAGTACATTGAAGCCAGTAATT
CTATCTCCCTGGACAACAGTGGAATAGATTAAAACTACAGATCTTATCTCCCTAAGCAGTAGTGG
AGC
Found at i:44947389 original size:13 final size:13
Alignment explanation
Indices: 44947371--44947414 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
44947361 AAGATTTAGT
44947371 ATTTATTAGTATA
1 ATTTATTAGTATA
*
44947384 ATTTATT--TAGA
1 ATTTATTAGTATA
*
44947395 ATTTATTAGCATA
1 ATTTATTAGTATA
44947408 ATTTATT
1 ATTTATT
44947415 TGACCTACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:44947392 original size:24 final size:24
Alignment explanation
Indices: 44947364--44947415 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
44947354 TTTTGAGAAG
* *
44947364 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGAATTTATTAGCATAATTT
44947388 ATTTAGAATTTATTAGCATAATTT
1 ATTTAGAATTTATTAGCATAATTT
44947412 ATTT
1 ATTT
44947416 GACCTACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATTT
Found at i:44949718 original size:20 final size:21
Alignment explanation
Indices: 44949687--44949729 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
44949677 TATGAATTAT
44949687 GAAATTTAAATATGTGAAATG
1 GAAATTTAAATATGTGAAATG
44949708 GAAATTT-AATATGTGAAATG
1 GAAATTTAAATATGTGAAATG
44949728 GA
1 GA
44949730 TTAGAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.33
Consensus pattern (21 bp):
GAAATTTAAATATGTGAAATG
Found at i:44950532 original size:20 final size:21
Alignment explanation
Indices: 44950493--44950533 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44950483 TGTTTTGACA
44950493 TGTTTTAAGCATGCTTAAATG
1 TGTTTTAAGCATGCTTAAATG
* *
44950514 TGTTTTGAGTATG-TTAAATG
1 TGTTTTAAGCATGCTTAAATG
44950534 GTTGGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (21 bp):
TGTTTTAAGCATGCTTAAATG
Found at i:44959749 original size:21 final size:20
Alignment explanation
Indices: 44959721--44959764 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 20
44959711 TTAATATAAT
44959721 ATTTATTAAATATTATATTA
1 ATTTATTAAATATTATATTA
44959741 ATTTAATTAAATATTATATTA
1 ATTT-ATTAAATATTATATTA
44959762 ATT
1 ATT
44959765 AAATATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATTAAATATTATATTA
Found at i:44959771 original size:16 final size:16
Alignment explanation
Indices: 44959701--44959772 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 16
44959691 TTAATCACTT
44959701 TTATATTAAATT-AATA
1 TTATATT-AATTAAATA
* *
44959717 TAATATTTATTAAATA
1 TTATATTAATTAAATA
44959733 TTATATTAATTTAATTAAATA
1 -T-TA-T-A-TTAATTAAATA
44959754 TTATATTAATTAAATA
1 TTATATTAATTAAATA
44959770 TTA
1 TTA
44959773 AATCTTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
15 3 0.07
16 24 0.52
17 2 0.04
18 2 0.04
19 3 0.07
20 2 0.04
21 10 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATATTAATTAAATA
Found at i:44959860 original size:19 final size:18
Alignment explanation
Indices: 44959814--44959861 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
44959804 CATGATAAAC
*
44959814 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATACTTAAT
44959831 ATTAAGA-TAATCACTTAAT
1 ATTAA-ATTAAT-ACTTAAT
44959850 ATTAAATTAATA
1 ATTAAATTAATA
44959862 AAATACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 15 0.58
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATACTTAAT
Found at i:44959898 original size:38 final size:36
Alignment explanation
Indices: 44959851--44959921 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
44959841 TCACTTAATA
*
44959851 TTAAATTAATA-AAATACTATTAACATAAGTATTAAAG
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAG
*
44959888 TTAAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAA-TTAATATAAAACTATTAAAATAATATTA
44959922 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
37 10 0.33
38 18 0.60
39 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAG
Found at i:44969889 original size:14 final size:15
Alignment explanation
Indices: 44969872--44969909 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
44969862 ATGTTTATTA
44969872 AATTAATTTA-AATT
1 AATTAATTTATAATT
44969886 AATTAATTTTATAATT
1 AATTAA-TTTATAATT
44969902 AA-TAATTT
1 AATTAATTT
44969910 TCTAAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTAATTTATAATT
Found at i:44969903 original size:16 final size:15
Alignment explanation
Indices: 44969872--44969910 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
44969862 ATGTTTATTA
44969872 AATTAA-TTTAAATT
1 AATTAATTTTAAATT
44969886 AATTAATTTTATAATT
1 AATTAATTTTA-AATT
44969902 AA-TAATTTT
1 AATTAATTTT
44969911 CTAAACTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 11 0.48
16 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTAAATT
Found at i:44973573 original size:42 final size:41
Alignment explanation
Indices: 44973440--44973573 Score: 96
Period size: 42 Copynumber: 3.2 Consensus size: 41
44973430 GAAAACCCGT
* * * * * * *
44973440 AAGGGTTGAATGGAAGCTCATAGGA-CTGAACGGAAACCTA
1 AAGGGTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
* * *
44973480 TAAGGGTT-AATCTGAAGCTCAGAAGAGCTAAACTGAAACCCATTA
1 -AAGGGTTAAAT-TGAAGCTCAAAAGAGCTGAACTG--ACAC-TTA
44973525 AA--GTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
1 AAGGGTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
44973564 GAAGGGTTAA
1 -AAGGGTTAA
44973574 TCTGAAACCC
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 18 0.25
42 35 0.48
43 3 0.04
44 4 0.05
45 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (41 bp):
AAGGGTTAAATTGAAGCTCAAAAGAGCTGAACTGACACTTA
Found at i:44986620 original size:83 final size:80
Alignment explanation
Indices: 44986469--44986629 Score: 223
Period size: 83 Copynumber: 2.0 Consensus size: 80
44986459 TGCAAGGTGC
** * * * *
44986469 TGGATCTTGACTCTGCTTTTTTTTCTTTCAGTAGAATGATTGTTTTCTGATAATGGACGAATAAT
1 TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATAGTTTTCTGATAATGGACGAATAAT
44986534 AAAATGAACGGTTGT
66 AAAATGAACGGTTGT
* *
44986549 TGGATCTTGACTCTCCGCTTTGGTTTCTATCAGTACAATCATAGTTTTTGTGATAATTGACGAAT
1 TGGATCTTGACTCT--GCTTTGGTTTCTATCAGTACAATCATAG-TTTTCTGATAATGGACGAAT
44986614 AATAAAATGAACGGTT
63 AATAAAATGAACGGTT
44986630 CCATTTGGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 14 0.20
82 22 0.31
83 34 0.49
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (80 bp):
TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATAGTTTTCTGATAATGGACGAATAAT
AAAATGAACGGTTGT
Found at i:44995538 original size:24 final size:24
Alignment explanation
Indices: 44995506--44995573 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
44995496 ACTGCAATAA
*
44995506 TGAGTGGCTTGACCATAACGTTAT
1 TGAGTGGCTTGACCACAACGTTAT
* *
44995530 TGAGTGGCTTGATCACAACCTTAT
1 TGAGTGGCTTGACCACAACGTTAT
44995554 TGAGTGGCTTGACCACAACG
1 TGAGTGGCTTGACCACAACG
44995574 ATGCAGCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
TGAGTGGCTTGACCACAACGTTAT
Found at i:44998648 original size:16 final size:16
Alignment explanation
Indices: 44998604--44998650 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
44998594 ATAGATTTAA
44998604 TATTAAATTTAATATTT
1 TATT-AATTTAATATTT
*
44998621 T-TCTTA-TTAATATTT
1 TAT-TAATTTAATATTT
44998636 TATTAATTTAATATT
1 TATTAATTTAATATT
44998651 AAAGTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTAATTTAATATTT
Found at i:44998801 original size:57 final size:59
Alignment explanation
Indices: 44998675--44998803 Score: 133
Period size: 57 Copynumber: 2.2 Consensus size: 59
44998665 AATATTTAAT
* * * *
44998675 TTAATTTAATTTAATATTTTTCTTATAGATAAATATTCTATTAATTTAATAGATTTAATA
1 TTAATTTAATCTAATATTTTTCTTATAGATAAATATTATATTAATTTAATA-ATTAAAGA
*
44998735 TGAAATTTAATCTAATATTTTTC-T-T-GAT-AATATTATATTAATTTAAT-ATTAAAGCGA
1 T-TAATTTAATCTAATATTTTTCTTATAGATAAATATTATATTAATTTAATAATTAAA--GA
44998792 TTAAGTTTAATC
1 TTAA-TTTAATC
44998804 ATAGTTGAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
55 5 0.08
56 2 0.03
57 27 0.46
58 3 0.05
59 1 0.02
60 2 0.03
61 19 0.32
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATTTAATCTAATATTTTTCTTATAGATAAATATTATATTAATTTAATAATTAAAGA
Found at i:44999768 original size:19 final size:20
Alignment explanation
Indices: 44999732--44999773 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44999722 TAAAATACCA
* *
44999732 AAAAAACCAAAGATCAAAGC
1 AAAAAACCAAAGAACAAACC
*
44999752 AAAAACCCAAA-AACAAACC
1 AAAAAACCAAAGAACAAACC
44999771 AAA
1 AAA
44999774 TCTGAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.69, C:0.24, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAAACCAAAGAACAAACC
Found at i:45001612 original size:45 final size:45
Alignment explanation
Indices: 45001562--45001652 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
45001552 TTGAAATAAA
45001562 TTATTTTCTCATTTTATTAAAAATTTAAAGATTCAAATTTTATTT
1 TTATTTTCTCATTTTATTAAAAATTTAAAGATTCAAATTTTATTT
*
45001607 TTATTTTCTCATTTTATTAAAAATTTAAATATTCAAATTTTATTT
1 TTATTTTCTCATTTTATTAAAAATTTAAAGATTCAAATTTTATTT
45001652 T
1 T
45001653 AACTTTTATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (45 bp):
TTATTTTCTCATTTTATTAAAAATTTAAAGATTCAAATTTTATTT
Found at i:45003440 original size:20 final size:21
Alignment explanation
Indices: 45003417--45003455 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45003407 TATTTTATAT
*
45003417 ATAAAAA-TTGTATTTATTCA
1 ATAAAAACTTGAATTTATTCA
45003437 ATAAAAACTTGAATTTATT
1 ATAAAAACTTGAATTTATT
45003456 AATGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAAAAACTTGAATTTATTCA
Found at i:45003867 original size:51 final size:51
Alignment explanation
Indices: 45003788--45003891 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
45003778 GTGTATAGCT
*
45003788 CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCGCCATG
1 CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCACCATG
* * *
45003839 CATTATCATATTGTTCGCCTGCATGGTTCGCCTATGCACTTCGCCACCATG
1 CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCACCATG
45003890 CA
1 CA
45003892 GGTGAACTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (51 bp):
CATTATCATATAGTTCACCTGCACGGTTCGCCTATGCACTTCGCCACCATG
Done.