Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2122653
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:3538 original size:16 final size:16
Alignment explanation
Indices: 3517--3552 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3507 TGGGCTAAGG
3517 CTTTCCCTCACGTAGC
1 CTTTCCCTCACGTAGC
3533 CTTTCCCTCACGTAGC
1 CTTTCCCTCACGTAGC
3549 CTTT
1 CTTT
3553 TTCCATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.42, G:0.11, T:0.36
Consensus pattern (16 bp):
CTTTCCCTCACGTAGC
Found at i:6298 original size:18 final size:18
Alignment explanation
Indices: 6255--6292 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6245 GTGAAGTATG
*
6255 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
6273 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTCGTGGCA
6291 AA
1 AA
6293 GTGTGTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.37, T:0.32
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:9697 original size:28 final size:28
Alignment explanation
Indices: 9666--9722 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
9656 ACTCTCCGTC
* *
9666 ATATTATGTCGTCGATCTC-ATACTTGAA
1 ATATTATATCGTCGAGC-CAATACTTGAA
9694 ATATTATATCGTCGAGCCAATACTTGAA
1 ATATTATATCGTCGAGCCAATACTTGAA
9722 A
1 A
9723 GCAATGACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (28 bp):
ATATTATATCGTCGAGCCAATACTTGAA
Found at i:10184 original size:2 final size:2
Alignment explanation
Indices: 10177--10212 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10167 GGTGTGGATG
10177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10213 TAAGGCATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12775 original size:31 final size:31
Alignment explanation
Indices: 12737--12818 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
12727 TTAGTCACCC
* * * **
12737 AACTATTCATGCGTTTGCGTTTTGGTTTTCA
1 AACTATTCATGAGGTTACGTTTTGGTCGTCA
12768 AACTATTCATGAGGTTACGTTTTGGTCGTCA
1 AACTATTCATGAGGTTACGTTTTGGTCGTCA
*
12799 AACTATTCATGTGGTTACGT
1 AACTATTCATGAGGTTACGT
12819 ATTAATCACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (31 bp):
AACTATTCATGAGGTTACGTTTTGGTCGTCA
Found at i:18879 original size:5 final size:5
Alignment explanation
Indices: 18871--18897 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18861 TATTATTAAA
18871 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
18898 TCACGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:29271 original size:16 final size:16
Alignment explanation
Indices: 29244--29288 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
29234 GGTGTGCAAA
*
29244 TTCGGGTACCCGGATT
1 TTCGAGTACCCGGATT
29260 TTCTGA-TACCC-GATT
1 TTC-GAGTACCCGGATT
29275 TTCGAGTACCCGGA
1 TTCGAGTACCCGGA
29289 ACTTTCGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 10 0.40
17 1 0.04
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (16 bp):
TTCGAGTACCCGGATT
Found at i:30047 original size:6 final size:7
Alignment explanation
Indices: 30028--30052 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30018 GTTTCTTATA
30028 TATTTTT
1 TATTTTT
30035 TATTTTT
1 TATTTTT
30042 TATTTTT
1 TATTTTT
30049 TATT
1 TATT
30053 CCTAATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:30170 original size:39 final size:39
Alignment explanation
Indices: 30063--30171 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 39
30053 CCTAATTCTC
* * ** *
30063 AAATTATTTCACCATAATATTTTAAATTCCTACTTTTTT
1 AAATTATTTCACCATAACATTCTAAATTATTAATTTTTT
* * *
30102 AAAATATTTTACCATATCATTCTAAATTATTAATTTTTT
1 AAATTATTTCACCATAACATTCTAAATTATTAATTTTTT
*
30141 AAATTATTTCACCATAACAATCTAAATTATT
1 AAATTATTTCACCATAACATTCTAAATTATT
30172 TCTTTTAACT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (39 bp):
AAATTATTTCACCATAACATTCTAAATTATTAATTTTTT
Found at i:30355 original size:17 final size:17
Alignment explanation
Indices: 30335--30367 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30325 GTAATTGCTT
*
30335 TTTAAAGAATAATATAA
1 TTTAAAAAATAATATAA
30352 TTTAAAAAATAATATA
1 TTTAAAAAATAATATA
30368 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TTTAAAAAATAATATAA
Found at i:30368 original size:2 final size:2
Alignment explanation
Indices: 30363--30433 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
30353 TTAAAAAATA
30363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30434 AATCGGGTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36498 original size:32 final size:32
Alignment explanation
Indices: 36462--36525 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
36452 ATGAAAGTCG
*
36462 TTAACAAGGGGTGTGATTAATGTATATGTATA
1 TTAACAAGGGGTGTGATTAATATATATGTATA
*
36494 TTAACAAGGGGTGTGATTAGTATATATGTATA
1 TTAACAAGGGGTGTGATTAATATATATGTATA
36526 GTTTGGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAACAAGGGGTGTGATTAATATATATGTATA
Found at i:36595 original size:61 final size:59
Alignment explanation
Indices: 36523--36704 Score: 208
Period size: 60 Copynumber: 3.1 Consensus size: 59
36513 GTATATATGT
* *
36523 ATAGTTT-GGGATAAAATTAAAATGTTCAAAAAGTTTGGGGACCAATTTAGAATTAAAGTC
1 ATAGTTTAGGGATAAAATTAAAATGTT-AAAAA-TTTGGGGACTAATTTAGAATGAAAGTC
* * *
36583 ATAGTTTAGGGATAAAATTAAAATGTTTAAAATTTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTTAGGGATAAAATTAAAATG-TTAAAAATTTGGGGACTAATTTAGAATGAAAGTC
** * * *
36643 ATAGTTTA-GGATGTAATTGAAATAT-TTAAAAATTTAGGGATTAATTTAAAATGAAAGTC
1 ATAGTTTAGGGATAAAATT-AAA-ATGTTAAAAATTTGGGGACTAATTTAGAATGAAAGTC
36702 ATA
1 ATA
36705 CTATGAGAAC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
59 39 0.37
60 41 0.39
61 23 0.22
62 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (59 bp):
ATAGTTTAGGGATAAAATTAAAATGTTAAAAATTTGGGGACTAATTTAGAATGAAAGTC
Found at i:36643 original size:60 final size:60
Alignment explanation
Indices: 36523--36704 Score: 217
Period size: 59 Copynumber: 3.0 Consensus size: 60
36513 GTATATATGT
* * * *
36523 ATAGTTT-GGGATAAAATTAAAATGTTCAAAAAGTTTGGGGACCAATTTAGAATTAAAGTC
1 ATAGTTTAGGGATAAAATTAAAATGTTTAAAAA-TTTGAGGACTAATTTAGAATGAAAGTC
* *
36583 ATAGTTTAGGGATAAAATTAAAATGTTTAAAATTTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTTAGGGATAAAATTAAAATGTTTAAAAATTTGAGGACTAATTTAGAATGAAAGTC
** * * * *
36643 ATAGTTTA-GGATGTAATTGAAATATTTAAAAATTT-AGGGATTAATTTAAAATGAAAGTC
1 ATAGTTTAGGGATAAAATTAAAATGTTTAAAAATTTGA-GGACTAATTTAGAATGAAAGTC
36702 ATA
1 ATA
36705 CTATGAGAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 44 0.42
60 38 0.36
61 23 0.22
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (60 bp):
ATAGTTTAGGGATAAAATTAAAATGTTTAAAAATTTGAGGACTAATTTAGAATGAAAGTC
Found at i:39268 original size:20 final size:20
Alignment explanation
Indices: 39245--39307 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
39235 AATATTTTTC
39245 TAAACCTACCAATTTTTTAT
1 TAAACCTACCAATTTTTTAT
* ****
39265 TAAAAC-ACCAAAAGATTAT
1 TAAACCTACCAATTTTTTAT
* *
39284 TAAACTTATCAATTTTTTAT
1 TAAACCTACCAATTTTTTAT
39304 TAAA
1 TAAA
39308 ACACCAAAAG
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAACCTACCAATTTTTTAT
Found at i:39274 original size:19 final size:19
Alignment explanation
Indices: 39252--39314 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
39242 TTCTAAACCT
39252 ACCAATTTTTTATTAAAAC
1 ACCAATTTTTTATTAAAAC
****
39271 ACCAAAAGATTATT-AAAC
1 ACCAATTTTTTATTAAAAC
*
39289 TTATCAATTTTTTATTAAAAC
1 --ACCAATTTTTTATTAAAAC
39310 ACCAA
1 ACCAA
39315 AAGATTAATG
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 4 0.13
19 14 0.45
20 9 0.29
21 4 0.13
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.37
Consensus pattern (19 bp):
ACCAATTTTTTATTAAAAC
Found at i:39297 original size:39 final size:39
Alignment explanation
Indices: 39245--39321 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
39235 AATATTTTTC
39245 TAAACCTACCAATTTTTTATTAAAACACCAAAAGATTAT
1 TAAACCTACCAATTTTTTATTAAAACACCAAAAGATTAT
* *
39284 TAAACTTATCAATTTTTTATTAAAACACCAAAAGATTA
1 TAAACCTACCAATTTTTTATTAAAACACCAAAAGATTA
39322 ATGTAATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.35
Consensus pattern (39 bp):
TAAACCTACCAATTTTTTATTAAAACACCAAAAGATTAT
Found at i:39416 original size:14 final size:13
Alignment explanation
Indices: 39385--39412 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39375 GTCTTTTTCA
39385 TTATTAAATTTTT
1 TTATTAAATTTTT
39398 TTATTAAATTTTT
1 TTATTAAATTTTT
39411 TT
1 TT
39413 TATTTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTAAATTTTT
Found at i:39421 original size:13 final size:14
Alignment explanation
Indices: 39385--39416 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
39375 GTCTTTTTCA
39385 TTATTAAA-TTTTT
1 TTATTAAATTTTTT
39398 TTATTAAATTTTTT
1 TTATTAAATTTTTT
39412 TTATT
1 TTATT
39417 TATTTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTAAATTTTTT
Found at i:49620 original size:59 final size:59
Alignment explanation
Indices: 49496--49627 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 59
49486 TTGAGTGACC
* * *
49496 ATTTTGTAACTTTTAATAGTCGGTGACTCAACAAAGCAACACCCTATAGTCAGAGAACT
1 ATTTTGTAACTTTTAATAGTCGATGACTCAACAAAGCAACACACTATAGTAAGAGAACT
* * *
49555 ATTTTGTAACTTTTAATAGTTGATGGACTCAACAAAGCATCACACTATAGTTAAG-GGACT
1 ATTTTGTAACTTTTAATAGTCGAT-GACTCAACAAAGCAACACACTATAG-TAAGAGAACT
49615 ATTTGTGT-ACTTT
1 ATTT-TGTAACTTT
49628 ACCCAAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 22 0.34
60 36 0.56
61 6 0.09
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTCGATGACTCAACAAAGCAACACACTATAGTAAGAGAACT
Found at i:49806 original size:24 final size:25
Alignment explanation
Indices: 49774--49824 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
49764 GAAGTTATAC
* *
49774 TAAATATTTAAAGAGTATAAAATTA
1 TAAATATTTAAAGAATACAAAATTA
* *
49799 TAAA-ATTTTAGGAATACAAAATTA
1 TAAATATTTAAAGAATACAAAATTA
49823 TA
1 TA
49825 TCATCAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (25 bp):
TAAATATTTAAAGAATACAAAATTA
Found at i:56476 original size:34 final size:34
Alignment explanation
Indices: 56436--56608 Score: 176
Period size: 34 Copynumber: 4.9 Consensus size: 34
56426 CATATATATA
56436 ATATATAATTTTTAAAATCATTTTGAAAA-ATTAT
1 ATATATAATTTTTAAAA-CATTTTGAAAACATTAT
*
56470 ATATATAATTTTTGAAAACATTTTTGAAAACA-CAT
1 ATATATAATTTTT-AAAACA-TTTTGAAAACATTAT
* *
56505 ATATTATAGTTTTGAAAACATTTTGAAAACATTTAT
1 ATA-TATAATTTTTAAAACATTTTGAAAACA-TTAT
*
56541 ATATTATATAGTTTTTAAAACGTTTTTGAAAAC-TTAT
1 ATA-TATA-A-TTTTTAAAAC-ATTTTGAAAACATTAT
*
56578 ATA-AT-ATTTTTGAAAACATGTTGAAAACATT
1 ATATATAATTTTT-AAAACATTTTGAAAACATT
56609 CGTATATTAT
Statistics
Matches: 119, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
32 14 0.12
33 8 0.07
34 26 0.22
35 26 0.22
36 19 0.16
37 7 0.06
38 9 0.08
39 10 0.08
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (34 bp):
ATATATAATTTTTAAAACATTTTGAAAACATTAT
Found at i:56492 original size:12 final size:12
Alignment explanation
Indices: 56477--56501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56467 TATATATATA
56477 ATTTTTGAAAAC
1 ATTTTTGAAAAC
56489 ATTTTTGAAAAC
1 ATTTTTGAAAAC
56501 A
1 A
56502 CATATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTTTGAAAAC
Found at i:56530 original size:11 final size:11
Alignment explanation
Indices: 56514--56538 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56504 TATATTATAG
56514 TTTTGAAAACA
1 TTTTGAAAACA
56525 TTTTGAAAACA
1 TTTTGAAAACA
56536 TTT
1 TTT
56539 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:56557 original size:108 final size:110
Alignment explanation
Indices: 56410--56676 Score: 302
Period size: 108 Copynumber: 2.4 Consensus size: 110
56400 TTTTTAAAAA
* * * * *
56410 AAAAACGTTTTAAAAACATATATATAATATATAATTTTTAAAATCATTTTGAAAAATTATATATA
1 AAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATCATTTTGAAAAATTATATA-A
* *
56475 TAATTTTTGAAAACATTTTTGAAAACA-CATATA-T-TATAGTTT-TG
65 T-ATTTTTGAAAACA-TGTTGAAAACATCATATATTATATAGTTTAAG
* *
56519 -AAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAA-CGTTTTTGAAAACTTATATAA
1 AAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATC-ATTTTGAAAAATTATATAA
*
56582 TATTTTTGAAAACATGTTGAAAACATTCGTATATTATATAGTTTAAG
65 TATTTTTGAAAACATGTTGAAAACA-TCATATATTATATAGTTTAAG
56629 AAAAAAACATTTTG-AAA-ATTTATATATTATAT-GTTTTTGAAAAT-ATTT
1 --AAAAACATTTTGAAAACATTTATATATTATATAGTTTTT-AAAATCATTT
56677 ATGTATATAT
Statistics
Matches: 136, Mismatches: 11, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
105 10 0.07
106 13 0.10
107 8 0.06
108 54 0.40
109 8 0.06
110 10 0.07
111 19 0.14
112 3 0.02
113 11 0.08
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (110 bp):
AAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATCATTTTGAAAAATTATATAAT
ATTTTTGAAAACATGTTGAAAACATCATATATTATATAGTTTAAG
Found at i:56595 original size:71 final size:74
Alignment explanation
Indices: 56436--56625 Score: 231
Period size: 71 Copynumber: 2.7 Consensus size: 74
56426 CATATATATA
56436 ATATAT-A-ATTTTT-AAAATCATTTTGAAAA-A-TTATATA-TATA-A-TTTTTGAAAACATTT
1 ATATATAATATTTTTGAAAA-CATTTTGAAAACATTTATATATTATATAGTTTTTGAAAACATTT
56493 TTGAAAACAC
65 TTGAAAACAC
* * *
56503 ATATATTATAGTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTT-AAAACGTTTT
1 ATATATAATATTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTGAAAACATTTT
56567 TG-AAA-AC
66 TGAAAACAC
* * **
56574 TTATATAATATTTTTGAAAACATGTTGAAAACATTCGTATATTATATAGTTT
1 ATATATAATATTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTT
56626 AAGAAAAAAA
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
67 6 0.06
68 1 0.01
69 16 0.15
70 5 0.05
71 55 0.51
72 7 0.07
73 12 0.11
74 5 0.05
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (74 bp):
ATATATAATATTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTGAAAACATTTT
TGAAAACAC
Found at i:56656 original size:71 final size:70
Alignment explanation
Indices: 56436--56655 Score: 175
Period size: 71 Copynumber: 3.1 Consensus size: 70
56426 CATATATATA
* * **
56436 ATATATAATTTTT-AAAATCATTTTGAAAA-ATT-ATATA-TATA-ATTTTTGAAAAC-ATTTTT
1 ATATAT-ATTTTTGAAAA-CATGTTGAAAACATTCATATATTATATAGTTTAAAAAACGA-TTTT
*
56495 GAAAACACAT
63 G-AAA-ACTT
* * * ** *
56505 ATATTATAGTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAACGTTTTTGA
1 ATA-TATATTTTTGAAAACATGTTGAAAACATTCATATATTATATAGTTTAAAAAACGATTTTGA
56570 AAACTT
65 AAACTT
*
56576 ATATAATATTTTTGAAAACATGTTGAAAACATTCGTATATTATATAGTTTAAGAAAAAAAC-ATT
1 ATAT-ATATTTTTGAAAACATGTTGAAAACATTCATATATTATATAGTTT----AAAAAACGATT
*
56640 TTGAAAATTT
61 TTGAAAACTT
56650 ATATAT
1 ATATAT
56656 TATATGTTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
69 19 0.15
70 11 0.09
71 52 0.41
72 7 0.06
73 17 0.13
74 15 0.12
75 5 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (70 bp):
ATATATATTTTTGAAAACATGTTGAAAACATTCATATATTATATAGTTTAAAAAACGATTTTGAA
AACTT
Found at i:56705 original size:3 final size:3
Alignment explanation
Indices: 56692--56727 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
56682 TATATATATG
56692 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56728 TTTCATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:58066 original size:25 final size:25
Alignment explanation
Indices: 58012--58068 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
58002 AATTTTATCT
* *
58012 TTATTTTTTTTATTTAACTTTTTAA
1 TTATTTTTTTAATTTAACCTTTTAA
*
58037 ATATTTTTTTAAATTTAACCTTTT-A
1 TTATTTTTTT-AATTTAACCTTTTAA
58062 TTATTTT
1 TTATTTT
58069 ATTATTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (25 bp):
TTATTTTTTTAATTTAACCTTTTAA
Found at i:58068 original size:8 final size:8
Alignment explanation
Indices: 58057--58121 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
58047 AAATTTAACC
58057 TTTTATTA
1 TTTTATTA
58065 TTTTATTA
1 TTTTATTA
*
58073 TTTCT-TTC
1 TTT-TATTA
*
58081 TTTCATTA
1 TTTTATTA
58089 TTATTATTA
1 TT-TTATTA
*
58098 TTTTTTATA
1 TTTTAT-TA
*
58107 TTTTTTTA
1 TTTTATTA
58115 -TTTATTA
1 TTTTATTA
58122 GCATTTTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
7 6 0.13
8 25 0.53
9 16 0.34
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATTA
Found at i:63408 original size:166 final size:165
Alignment explanation
Indices: 63137--64119 Score: 1415
Period size: 166 Copynumber: 6.0 Consensus size: 165
63127 TGCAGCTTGG
* *
63137 CTCAAGGCCAGAAGGGCTATC--TGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGG
63200 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
66 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
63265 CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
131 CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
*
63300 CTCAAGGCTAGAAGGGTTATCTGTGACCACCAAGACCTTCGAGTTCGACTACGCTCAGCTTTAAG
1 CTCAAGGCTAGAAGGGTTATCTGTG-CCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAG
63365 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
65 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
63430 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
130 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
63466 CTCAAGGCTAGAAGGGTTATCTGTGACCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAG
1 CTCAAGGCTAGAAGGGTTATCTGTG-CCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAG
63531 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
65 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
63596 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
130 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* *
63632 CTCAAGGCTAGAAGGGTTATCTGTGACCACCAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAG
1 CTCAAGGCTAGAAGGGTTATCTGTG-CCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAG
*** *
63697 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACT
65 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
* * * * * *
63762 ACGCTCAGC-TCCAAGGCACATCATTTGCAGAATAG
130 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* * * * ** * * * *
63797 CTTAAGTCGAGAAGGGCTATC--TGCCA--AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAG
* * * * *
63858 GCACACCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCCACCAAAGACCCCCGAGTTC
65 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTC
* *
63923 GATTACACTCAGCTTCGAGGGCACACCATTTGCAGCATAA
126 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
* * * * * *
63963 CTTAAGTCAAGAAGAGTTATCTG-GCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
1 CTCAAGGCTAGAAGGGTTATCTGTGCCACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCTAAG
* * * *
64027 GCATATCATTTGCAGTATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATT
65 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT
* * * *
64092 ACACTCAACTTCGAAGTCATATCATTTA
130 ACACTCAGCTTCGAGGGCACATCATTTA
64120 TCATGGCAAG
Statistics
Matches: 742, Mismatches: 64, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
160 23 0.03
161 42 0.06
162 3 0.00
163 21 0.03
165 109 0.15
166 475 0.64
167 3 0.00
169 42 0.06
170 24 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (165 bp):
CTCAAGGCTAGAAGGGTTATCTGTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGG
CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
CACTCAGCTTCGAGGGCACATCATTTACAGCATAA
Found at i:63593 original size:246 final size:243
Alignment explanation
Indices: 63146--64105 Score: 1118
Period size: 246 Copynumber: 3.9 Consensus size: 243
63136 GCTCAAGGCC
** * *
63146 AGAAGGGCTATCTG-CCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTT
1 AGAAGGGCTATCTGCCCA-CAAGACCCCCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTT
* ** * *
63210 GCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTT
65 GCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* * * * * * * * * **
63275 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCACCAAGACCTTC
129 CCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATC--TG-CCA--AAGACCCCC
* * * * * * *
63340 GAGTTCGACTACGCTCAGCTT-TAAGGCACATCATTTGCAGAATAGCTTAAGTCG
189 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
* *
63394 AGAAGGGCTATCTG-CCA-AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
1 AGAAGGGCTATCTGCCCACAAGACCCCCGAGTTCGACTACACTCAGC-TCGAAGGCACATCATTT
* * * * * *
63457 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCACCAAGACCTTCGAGTTCGACTACGCTC
65 GCAGAATAACTTAAGTCGAGAAGGGCTATC--TG-CCA--AAGACCTTCGAGTTCGACTACGCTC
*
63522 AGCTCTAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCG
125 AGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCG
* * * *
63587 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
190 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
* * *** * *
63641 AGAAGGGTTATCTGTGACCACCAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
1 AGAAGGGCTATC--TGCCCA-CAAGACCCCCGAGTTCGACTACACTCAGCTCGAAGGCACATCAT
* *
63706 TTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGC
63 TTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC
63771 TCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGT
128 TCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGT
*
63836 TCGATTACACTCAGCTTCGAGGGCACACCATTTGCAGCATAACTTAAGTCA
193 TCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
* * * *
63887 AGAAGGGTTATCTGCCCACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACACCAT
1 AGAAGGGCTATCTGCCCA-C-AAGACCCCCGAGTTCGACTACACTCAGC-TCGAAGGCACATCAT
* * * *
63952 TTGCAGCATAACTTAAGTCAAGAAGAGTTATCTGGCAACCAAAGACCTTCGAGTTCGACTACGCT
63 TTGCAGAATAACTTAAGTCGAGAAGGGCTATCT-G---CCAAAGACCTTCGAGTTCGACTACGCT
* * * *
64017 CAGCTCCAAGGCATATCATTTGCAGTATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCC
124 CAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCC
*
64082 GAGTTCGATTACACTCAACTTCGA
189 GAGTTCGATTACACTCAGCTTCGA
64106 AGTCATATCA
Statistics
Matches: 614, Mismatches: 80, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
244 7 0.01
245 23 0.04
246 239 0.39
247 75 0.12
248 23 0.04
249 8 0.01
250 116 0.19
251 76 0.12
252 47 0.08
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (243 bp):
AGAAGGGCTATCTGCCCACAAGACCCCCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTG
CAGAATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
ATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
Found at i:64863 original size:34 final size:34
Alignment explanation
Indices: 64823--64995 Score: 176
Period size: 34 Copynumber: 4.9 Consensus size: 34
64813 CATATATATA
64823 ATATATAATTTTTAAAATCATTTTGAAAA-ATTAT
1 ATATATAATTTTTAAAA-CATTTTGAAAACATTAT
*
64857 ATATATAATTTTTGAAAACATTTTTGAAAACA-CAT
1 ATATATAATTTTT-AAAACA-TTTTGAAAACATTAT
* *
64892 ATATTATAGTTTTGAAAACATTTTGAAAACATTTAT
1 ATA-TATAATTTTTAAAACATTTTGAAAACA-TTAT
*
64928 ATATTATATAGTTTTTAAAACGTTTTTGAAAAC-TTAT
1 ATA-TATA-A-TTTTTAAAAC-ATTTTGAAAACATTAT
*
64965 ATA-AT-ATTTTTGAAAACATGTTGAAAACATT
1 ATATATAATTTTT-AAAACATTTTGAAAACATT
64996 CGTATATTAT
Statistics
Matches: 119, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
32 14 0.12
33 8 0.07
34 26 0.22
35 26 0.22
36 19 0.16
37 7 0.06
38 9 0.08
39 10 0.08
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (34 bp):
ATATATAATTTTTAAAACATTTTGAAAACATTAT
Found at i:64879 original size:12 final size:12
Alignment explanation
Indices: 64864--64888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64854 TATATATATA
64864 ATTTTTGAAAAC
1 ATTTTTGAAAAC
64876 ATTTTTGAAAAC
1 ATTTTTGAAAAC
64888 A
1 A
64889 CATATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTTTGAAAAC
Found at i:64917 original size:11 final size:11
Alignment explanation
Indices: 64901--64925 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64891 TATATTATAG
64901 TTTTGAAAACA
1 TTTTGAAAACA
64912 TTTTGAAAACA
1 TTTTGAAAACA
64923 TTT
1 TTT
64926 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:64944 original size:108 final size:110
Alignment explanation
Indices: 64797--65063 Score: 302
Period size: 108 Copynumber: 2.4 Consensus size: 110
64787 TTTTTAAAAA
* * * * *
64797 AAAAACGTTTTAAAAACATATATATAATATATAATTTTTAAAATCATTTTGAAAAATTATATATA
1 AAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATCATTTTGAAAAATTATATA-A
* *
64862 TAATTTTTGAAAACATTTTTGAAAACA-CATATA-T-TATAGTTT-TG
65 T-ATTTTTGAAAACA-TGTTGAAAACATCATATATTATATAGTTTAAG
* *
64906 -AAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAA-CGTTTTTGAAAACTTATATAA
1 AAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATC-ATTTTGAAAAATTATATAA
*
64969 TATTTTTGAAAACATGTTGAAAACATTCGTATATTATATAGTTTAAG
65 TATTTTTGAAAACATGTTGAAAACA-TCATATATTATATAGTTTAAG
65016 AAAAAAACATTTTG-AAA-ATTTATATATTATAT-GTTTTTGAAAAT-ATTT
1 --AAAAACATTTTGAAAACATTTATATATTATATAGTTTTT-AAAATCATTT
65064 ATGTATATAT
Statistics
Matches: 136, Mismatches: 11, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
105 10 0.07
106 13 0.10
107 8 0.06
108 54 0.40
109 8 0.06
110 10 0.07
111 19 0.14
112 3 0.02
113 11 0.08
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (110 bp):
AAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATCATTTTGAAAAATTATATAAT
ATTTTTGAAAACATGTTGAAAACATCATATATTATATAGTTTAAG
Found at i:64982 original size:71 final size:74
Alignment explanation
Indices: 64823--65012 Score: 231
Period size: 71 Copynumber: 2.7 Consensus size: 74
64813 CATATATATA
64823 ATATAT-A-ATTTTT-AAAATCATTTTGAAAA-A-TTATATA-TATA-A-TTTTTGAAAACATTT
1 ATATATAATATTTTTGAAAA-CATTTTGAAAACATTTATATATTATATAGTTTTTGAAAACATTT
64880 TTGAAAACAC
65 TTGAAAACAC
* * *
64890 ATATATTATAGTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTT-AAAACGTTTT
1 ATATATAATATTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTGAAAACATTTT
64954 TG-AAA-AC
66 TGAAAACAC
* * **
64961 TTATATAATATTTTTGAAAACATGTTGAAAACATTCGTATATTATATAGTTT
1 ATATATAATATTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTT
65013 AAGAAAAAAA
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
67 6 0.06
68 1 0.01
69 16 0.15
70 5 0.05
71 55 0.51
72 7 0.07
73 12 0.11
74 5 0.05
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (74 bp):
ATATATAATATTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTGAAAACATTTT
TGAAAACAC
Found at i:65043 original size:71 final size:70
Alignment explanation
Indices: 64823--65042 Score: 175
Period size: 71 Copynumber: 3.1 Consensus size: 70
64813 CATATATATA
* * **
64823 ATATATAATTTTT-AAAATCATTTTGAAAA-ATT-ATATA-TATA-ATTTTTGAAAAC-ATTTTT
1 ATATAT-ATTTTTGAAAA-CATGTTGAAAACATTCATATATTATATAGTTTAAAAAACGA-TTTT
*
64882 GAAAACACAT
63 G-AAA-ACTT
* * * ** *
64892 ATATTATAGTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAACGTTTTTGA
1 ATA-TATATTTTTGAAAACATGTTGAAAACATTCATATATTATATAGTTTAAAAAACGATTTTGA
64957 AAACTT
65 AAACTT
*
64963 ATATAATATTTTTGAAAACATGTTGAAAACATTCGTATATTATATAGTTTAAGAAAAAAAC-ATT
1 ATAT-ATATTTTTGAAAACATGTTGAAAACATTCATATATTATATAGTTT----AAAAAACGATT
*
65027 TTGAAAATTT
61 TTGAAAACTT
65037 ATATAT
1 ATATAT
65043 TATATGTTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
69 19 0.15
70 11 0.09
71 52 0.41
72 7 0.06
73 17 0.13
74 15 0.12
75 5 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (70 bp):
ATATATATTTTTGAAAACATGTTGAAAACATTCATATATTATATAGTTTAAAAAACGATTTTGAA
AACTT
Found at i:65092 original size:3 final size:3
Alignment explanation
Indices: 65079--65108 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
65069 TATATATATG
65079 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
65109 TTTCATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:66416 original size:26 final size:25
Alignment explanation
Indices: 66387--66460 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 25
66377 TGATCCTAAA
*
66387 TTTTATCTTTATTTTTTTATTTAACT
1 TTTTAT-TTTATTTTTTTATTTAACC
**
66413 TTTTA-AATATTTTTTTAAATTTAACC
1 TTTTATTTTATTTTTTT--ATTTAACC
*
66439 TTTTATTATTATTTTATTATTT
1 TTTTATT-TTATTTTTTTATTT
66461 CTTTCTTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
24 9 0.24
26 21 0.55
28 8 0.21
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTATTTTATTTTTTTATTTAACC
Found at i:67177 original size:37 final size:37
Alignment explanation
Indices: 67057--67250 Score: 126
Period size: 36 Copynumber: 5.5 Consensus size: 37
67047 ATTATATTAG
* *
67057 ATAATATATA-AGTGACTAAATAGGTAATTTA-CCTAA
1 ATAATA-ATAGAGTGACCAAATAGGTAGTTTACCCTAA
* ** ** * *
67093 ATAATAATCGAGTGACCAAA-ACATAAATTA--GTTA
1 ATAATAATAGAGTGACCAAATAGGTAGTTTACCCTAA
*
67127 AT-ATATATA-AGTGATCAAATAGGTAGTTTACCCTAA
1 ATAATA-ATAGAGTGACCAAATAGGTAGTTTACCCTAA
** ** **
67163 ATAATAATAGAGTGACCAAA-ACATAAATTA-GAT-A
1 ATAATAATAGAGTGACCAAATAGGTAGTTTACCCTAA
67197 AT-AT-ATA-AGTGACCAAATAGGTAGTTTACCCTAA
1 ATAATAATAGAGTGACCAAATAGGTAGTTTACCCTAA
*
67231 ATAATAATCGAGTGACCAAA
1 ATAATAATAGAGTGACCAAA
67251 ACATAAATTA
Statistics
Matches: 116, Mismatches: 29, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
31 10 0.09
32 9 0.08
33 15 0.13
34 18 0.16
35 12 0.10
36 30 0.26
37 22 0.19
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (37 bp):
ATAATAATAGAGTGACCAAATAGGTAGTTTACCCTAA
Found at i:67208 original size:31 final size:31
Alignment explanation
Indices: 67160--67281 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 31
67150 TAGTTTACCC
67160 TAAATAATA-ATAGAGTGACCAAAACATAAAT
1 TAAATAATATATA-AGTGACCAAAACATAAAT
* * ***
67191 TAGATAATATATAAGTGACCAAATAGGTAGTTTACCC
1 TAAATAATATATAAGTGACCAAA-A--CA---TAAAT
*
67228 TAAATAATA-ATCGAGTGACCAAAACATAAAT
1 TAAATAATATAT-AAGTGACCAAAACATAAAT
67259 TAAATAATATATAAGTGACCAAA
1 TAAATAATATATAAGTGACCAAA
67282 GAGGTAGTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
31 39 0.56
32 6 0.09
34 2 0.03
36 3 0.04
37 20 0.29
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (31 bp):
TAAATAATATATAAGTGACCAAAACATAAAT
Found at i:67238 original size:68 final size:68
Alignment explanation
Indices: 66966--67299 Score: 468
Period size: 68 Copynumber: 5.0 Consensus size: 68
66956 TTTTGAAAAA
*
66966 AATAATCGAGTGACCAAAACATAAATTATATAATATATAAGTGACCAAATAGGTAGTTTA-CCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
67030 AAT
66 AAT
* * * * * * *
67033 AAAAAT--A-T-A-TATGAA-TTATATTAGATAATATATAAGTGACTAAATAGGTAATTTA-CCT
1 AATAATCGAGTGACCA-AAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCT
67091 AAAT
65 AAAT
* *
67095 AATAATCGAGTGACCAAAACATAAATTAGTTAATATATATAAGTGATCAAATAGGTAGTTTACCC
1 AATAATCGAGTGACCAAAACATAAATTAGAT-A-ATATATAAGTGACCAAATAGGTAGTTTACCC
67160 TAAAT
64 TAAAT
*
67165 AATAATAGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
67230 AAT
66 AAT
* *
67233 AATAATCGAGTGACCAAAACATAAATTAAATAATATATAAGTGACCAAAGAGGTAGTTTACCCTA
1 AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
67298 AA
66 AA
67300 AAAATCCCTA
Statistics
Matches: 234, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
62 48 0.21
63 3 0.01
64 2 0.01
65 2 0.01
66 3 0.01
67 14 0.06
68 100 0.43
69 26 0.11
70 36 0.15
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (68 bp):
AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCTA
AAT
Found at i:70635 original size:241 final size:242
Alignment explanation
Indices: 70063--70790 Score: 1440
Period size: 242 Copynumber: 3.0 Consensus size: 242
70053 TTAAGGTAAA
*
70063 ATTAAGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
1 ATTATGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
70128 TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
66 TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
70193 TCATTTTAAGATAGTAAAATTGTTGAACAAACAAGAAAAAAAGGCATTTTAATCCAATTTTATGC
131 TCATTTTAAGATAGTAAAATTGTTGAACAAACAAGAAAAAAAGGCATTTTAATCCAATTTTATGC
70258 AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
196 AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
70305 ATTATGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
1 ATTATGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
70370 TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
66 TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
70435 TCATTTTAAGATAGTAAAATTGTTGAACAAACAAG-AAAAAAGGCATTTTAATCCAATTTTATGC
131 TCATTTTAAGATAGTAAAATTGTTGAACAAACAAGAAAAAAAGGCATTTTAATCCAATTTTATGC
70499 AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
196 AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
70546 ATTATGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
1 ATTATGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
70611 TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
66 TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
70676 TCATTTTAAGATAGTAAAATTGTTGAACAAACAAGAAAAAAAGGCATTTTAATCCAATTTTATGC
131 TCATTTTAAGATAGTAAAATTGTTGAACAAACAAGAAAAAAAGGCATTTTAATCCAATTTTATGC
70741 AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
196 AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
70788 ATT
1 ATT
70791 CTGCTTTAAG
Statistics
Matches: 484, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
241 241 0.50
242 243 0.50
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (242 bp):
ATTATGTTCCAAGCATTTCCGAGACATGTCAATTACATTGTTTTTGCAGATTCCAGTAGCAATTT
TAGGTTTATTTTTAATGGATAGATCTGGTAGACGACCACTTCTATTGGTTAGTTACGTAACCAAT
TCATTTTAAGATAGTAAAATTGTTGAACAAACAAGAAAAAAAGGCATTTTAATCCAATTTTATGC
AGCTTTCTGCAAGTGGAATATGCTTCAGCTGCTTTGTACAGGGACTC
Found at i:72370 original size:19 final size:20
Alignment explanation
Indices: 72346--72389 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
72336 GTATCGTAAA
72346 TTCGCGCTGC-ATTTTCCAT
1 TTCGCGCTGCGATTTTCCAT
* *
72365 TTCGCGTTGCGATTTTCCTT
1 TTCGCGCTGCGATTTTCCAT
72385 TTCGC
1 TTCGC
72390 ATTGCGATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.07, C:0.30, G:0.18, T:0.45
Consensus pattern (20 bp):
TTCGCGCTGCGATTTTCCAT
Found at i:72414 original size:41 final size:41
Alignment explanation
Indices: 72369--72609 Score: 296
Period size: 41 Copynumber: 6.0 Consensus size: 41
72359 TTCCATTTCG
* *
72369 CGTTGCGATTTTCCTTTTCGCATTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
* * *
72410 CGTTGCGATTTTTCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGT-GT
** * *
72451 CAATGCGATTTTCCTTTTCGCATTGCGATAGTC--CAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
* *
72490 TGTTGCGATTTTTCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
* *
72531 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTGTACAATGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
72572 CGTTGCGATTTTCCATATT--CGTTGCGATAGTCTACAGT
1 CGTTGCGATTTTCCAT-TTCGCGTTGCGATAGTCTACAGT
72610 AAATTAAAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 29 0.17
40 18 0.11
41 118 0.70
42 3 0.02
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (41 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
Found at i:72507 original size:80 final size:81
Alignment explanation
Indices: 72372--72602 Score: 292
Period size: 80 Copynumber: 2.9 Consensus size: 81
72362 CATTTCGCGT
72372 TGCGATTTTCCTTTTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTTCATTTCGCGTTGCG
1 TGCGATTTTCCTTTTCGCATTGCGATAGTC-ACAGTGTCGTTGCGATTTTTCATTTCGCGTTGCG
72437 ATAGTTGAAAATCGCAA
65 ATAGTTGAAAATCGCAA
*
72454 TGCGATTTTCCTTTTCGCATTGCGATAGTC-CAGTGTTGTTGCGATTTTTCATTTCGCGTTGCGA
1 TGCGATTTTCCTTTTCGCATTGCGATAGTCACAGTGTCGTTGCGATTTTTCATTTCGCGTTGCGA
* * **
72518 TAGTCT-ACAGT-GTCGT
66 TAGT-TGAAAATCG-CAA
* * * * *
72534 TGCGATTTTCCATTTCGCGTTGCGATAGTGTACAATGTCGTTGCGATTTTCCATATT--CGTTGC
1 TGCGATTTTCCTTTTCGCATTGCGATAGT-CACAGTGTCGTTGCGATTTTTCAT-TTCGCGTTGC
72597 GATAGT
64 GATAGT
72603 CTACAGTAAA
Statistics
Matches: 133, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
79 1 0.01
80 68 0.51
81 13 0.10
82 49 0.37
83 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (81 bp):
TGCGATTTTCCTTTTCGCATTGCGATAGTCACAGTGTCGTTGCGATTTTTCATTTCGCGTTGCGA
TAGTTGAAAATCGCAA
Found at i:72536 original size:21 final size:20
Alignment explanation
Indices: 72510--72607 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 20
72500 TTTCATTTCG
72510 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACA-TGT
* * *
72531 CGTTGCGAT--TTTCCATTT
1 CGTTGCGATAGTCTACATGT
*
72549 CGCGTTGCGATAGTGTACAATGT
1 --CGTTGCGATAGTCTAC-ATGT
** * *
72572 CGTTGCGATTTTCCATAT-T
1 CGTTGCGATAGTCTACATGT
72591 CGTTGCGATAGTCTACA
1 CGTTGCGATAGTCTACA
72608 GTAAATTAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
18 2 0.04
19 18 0.32
20 11 0.19
21 20 0.35
22 3 0.05
23 3 0.05
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCTACATGT
Found at i:72579 original size:121 final size:120
Alignment explanation
Indices: 72370--72603 Score: 339
Period size: 121 Copynumber: 1.9 Consensus size: 120
72360 TCCATTTCGC
* *
72370 GTTGCGATTTTCCTTTTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTTCATTTCGCGTTG
1 GTTGCGATTTTCCATTTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCGCGTTG
*
72435 CGATAGTTGAAAATCGCAATGCGATTTTCC-TTTTCGCATTGCGATAGTCCAGTGTT
66 CGATAGTTGAAAATCGCAATGCGATTTTCCATATTCG--TTGCGATAGTCCAGTGTT
* *
72491 GTTGCGATTTTTCATTTCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCGCGTTG
1 GTTGCGATTTTCCATTTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCGCGTTG
* **
72556 CGATAG-TGTACAAT-GTCGTTGCGATTTTCCATATTCGTTGCGATAGTC
66 CGATAGTTG-AAAATCG-CAATGCGATTTTCCATATTCGTTGCGATAGTC
72604 TACAGTAAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
120 14 0.14
121 83 0.81
122 5 0.05
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (120 bp):
GTTGCGATTTTCCATTTCGCATTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCGCGTTG
CGATAGTTGAAAATCGCAATGCGATTTTCCATATTCGTTGCGATAGTCCAGTGTT
Found at i:72700 original size:6 final size:6
Alignment explanation
Indices: 72689--72733 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
72679 GACACGTATT
* ** *
72689 ACCACG ACCACG AGCACG ACCATA ACCACG AGCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
72734 CGAGACGGCG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.36, C:0.44, G:0.18, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:73341 original size:21 final size:21
Alignment explanation
Indices: 73315--73354 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
73305 TTTTTAATTT
73315 ACTGTAGACTATCGCAACGAC
1 ACTGTAGACTATCGCAACGAC
73336 ACTGTAGACTATCGCAACG
1 ACTGTAGACTATCGCAACG
73355 CGAATTTGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (21 bp):
ACTGTAGACTATCGCAACGAC
Found at i:74262 original size:60 final size:60
Alignment explanation
Indices: 74138--74267 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 60
74128 AACATACTAA
* * * * * *
74138 ATAGTCGAGTGATCATTTTGAAACTTTTAATAGTTGAGGGACTCAACAAAGCAACATCTC
1 ATAGTCGGGGGATCATTTTGAAACTTTTAATAATCGAGGAACTCAACAAAGCAACACCTC
* * * * *
74198 ATAGTTGGGGGATCATTTTGTAACTTTTAATAATCGATGAACTCAACAAAGTATCACC-C
1 ATAGTCGGGGGATCATTTTGAAACTTTTAATAATCGAGGAACTCAACAAAGCAACACCTC
74257 TATAGTCGGGG
1 -ATAGTCGGGG
74268 CACTACTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 1 0.02
60 56 0.98
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (60 bp):
ATAGTCGGGGGATCATTTTGAAACTTTTAATAATCGAGGAACTCAACAAAGCAACACCTC
Found at i:75433 original size:31 final size:31
Alignment explanation
Indices: 75398--75473 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
75388 CAAAAAATAT
75398 GTTTTAGTCACTTACATTATCGATTTATTAA
1 GTTTTAGTCACTTACATTATCGATTTATTAA
75429 GTTTTAGTCACTTACATTATCGATTTATTAA
1 GTTTTAGTCACTTACATTATCGATTTATTAA
*
75460 GTTTTGGTCACTTA
1 GTTTTAGTCACTTA
75474 TGTTGTCGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (31 bp):
GTTTTAGTCACTTACATTATCGATTTATTAA
Found at i:83143 original size:20 final size:20
Alignment explanation
Indices: 83118--83160 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
83108 ATTTTTGCAG
83118 AAAGGAACGTGGAGAAGATT
1 AAAGGAACGTGGAGAAGATT
*
83138 AAAGGAACGTTGAGAAGATT
1 AAAGGAACGTGGAGAAGATT
83158 AAA
1 AAA
83161 ACGGATGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.30, T:0.16
Consensus pattern (20 bp):
AAAGGAACGTGGAGAAGATT
Found at i:83466 original size:99 final size:98
Alignment explanation
Indices: 83225--83513 Score: 347
Period size: 99 Copynumber: 2.9 Consensus size: 98
83215 TATCTAACCA
* * * * * *
83225 AAACTAAAAGCAAAGAAACATAGTAAGAATCATTGATAAAGACTTGAGAGGTCCTTAGTCTTTTT
1 AAACTAAAATCAAAGAAAGATAATAATAATAATTGATAAAGACTTGAGAGGTCCTTAGTC-TTTC
*
83290 TTATTATTATTTATACTTTTCAA---TTTTTTATT
65 TT-TTATTATTTATTCTTTTCAATTTTTTTTTATT
* *
83322 ACACTAAAATTAAAGAAAGATAATAATAATAATAATTGATAAAGACTTGAGAGGTCCTTAAGTCT
1 AAACTAAAATCAAAGAAAG---ATAATAATAATAATTGATAAAGACTTGAGAGGTCCTT-AGTCT
83387 TTCTTTCT-TTATTTATTCTTTTCAATTTTTTTTTATT
62 TTCTTT-TATTATTTATTCTTTTCAATTTTTTTTTATT
* * *
83424 AAACTAAAATCAAAGAAAGATAATAATAATAATTGATTAAGACTTGAGA-ATCCTTGGTCTTTCT
1 AAACTAAAATCAAAGAAAGATAATAATAATAATTGATAAAGACTTGAGAGGTCCTTAGTCTTTCT
*
83488 TTTCTTATTTATAT-TTTTCAATTTTT
66 TTTATTATTTAT-TCTTTTCAATTTTT
83514 GATGATAATT
Statistics
Matches: 168, Mismatches: 14, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
96 1 0.01
97 45 0.27
98 6 0.04
99 46 0.27
100 40 0.24
101 4 0.02
102 26 0.15
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (98 bp):
AAACTAAAATCAAAGAAAGATAATAATAATAATTGATAAAGACTTGAGAGGTCCTTAGTCTTTCT
TTTATTATTTATTCTTTTCAATTTTTTTTTATT
Found at i:93597 original size:28 final size:27
Alignment explanation
Indices: 93553--93631 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
93543 ATGAATGTAA
93553 ACACCA-TTTTCAAACATCAACACCCACC
1 ACACCATTTTTC-AACATCAA-ACCCACC
*
93581 ATC-TCATTTTTCAACATCAATACCCACC
1 A-CACCATTTTTCAACATCAA-ACCCACC
93609 ACACCATTTTTCAACA-CAAACCC
1 ACACCATTTTTCAACATCAAACCC
93632 CATCATCCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
26 4 0.09
27 4 0.09
28 31 0.69
29 6 0.13
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (27 bp):
ACACCATTTTTCAACATCAAACCCACC
Found at i:94549 original size:16 final size:15
Alignment explanation
Indices: 94520--94560 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
94510 TTTATGTTTA
94520 TTTTA-TATTTTTGT
1 TTTTATTATTTTTGT
94534 TTTTATTATCTTTTGT
1 TTTTATTAT-TTTTGT
*
94550 TTTAATTATTT
1 TTTTATTATTT
94561 CCCTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 14 0.58
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTATTATTTTTGT
Found at i:99749 original size:13 final size:14
Alignment explanation
Indices: 99725--99754 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
99715 TTTAGTAATT
99725 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
99739 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
99752 TTA
1 TTA
99755 CTCCCCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:101608 original size:46 final size:46
Alignment explanation
Indices: 101530--101634 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
101520 CAGAACTCAT
*
101530 GGGGGTATCGATTCCC--T-AAAGGAGGGAATCGGTTCCCATTCAAA
1 GGGGGAATCGATTCCCATTCAAAGGAGGGAATCGGTTCCCATTC-AA
* *
101574 GGGGGAATCGGTTCCCATTCAAAGG-GGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGATTCCCATTCAAAGGAGGGAATCGGTTCCCATTCAA
*
101619 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
101635 TCTGCACTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 14 0.26
45 16 0.30
46 18 0.34
47 5 0.09
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (46 bp):
GGGGGAATCGATTCCCATTCAAAGGAGGGAATCGGTTCCCATTCAA
Found at i:101620 original size:22 final size:23
Alignment explanation
Indices: 101547--101634 Score: 133
Period size: 23 Copynumber: 3.8 Consensus size: 23
101537 TCGATTCCCT
101547 AAAGGAGGGAATCGGTTCCCATTC
1 AAAGG-GGGAATCGGTTCCCATTC
101571 AAAGGGGGAATCGGTTCCCATTC
1 AAAGGGGGAATCGGTTCCCATTC
*
101594 AAAGGGGGAATCGGTTCCCCTTC
1 AAAGGGGGAATCGGTTCCCATTC
* *
101617 -AAGGGGGTATCGATTCCC
1 AAAGGGGGAATCGGTTCCC
101635 TCTGCACTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 16 0.26
23 40 0.66
24 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.22
Consensus pattern (23 bp):
AAAGGGGGAATCGGTTCCCATTC
Found at i:105565 original size:117 final size:117
Alignment explanation
Indices: 105345--105566 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 117
105335 CTTTCAAATC
* *
105345 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCTTTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCTTTCTTCAACATTT
* *
105410 CATTTTGATTTTCAAAATCCATTTTCATTTCTAGAAGAAGTTTGTTTAATTT
66 CATTTTGATTTTCAAAATCCATTTTAATTTCTAAAAGAAGTTTGTTTAATTT
* * * *
105462 GAAAATTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCATTTC-TCAACAT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATC-TTTCTTCAACAT
* * **
105525 TTCATTTTGATTTTCCAAGTCTGTTTTAACTTTC-AAAAGAAG
64 TTCATTTTGATTTTCAAAATCCATTTTAA-TTTCTAAAAGAAG
105567 ATCATTTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
116 1 0.01
117 81 0.90
118 8 0.09
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCTTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAATTTCTAAAAGAAGTTTGTTTAATTT
Found at i:109108 original size:39 final size:39
Alignment explanation
Indices: 109045--109353 Score: 408
Period size: 39 Copynumber: 8.0 Consensus size: 39
109035 TTGTTTTTAA
* * *
109045 AGAATATTGTATCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
109084 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
109123 AGAAGATTTTATCTCGGTTGAGATAG--T-CCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
109159 AGAAGAGTTTGTCTCGTTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
109198 AGAAGATTTTATCTTGCTTGAGATAGTTTCTCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
109237 AGAAGATTTTATCTCGCTTGAGATAATTTTCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
109276 AGAATATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * * ** *
109315 ATAAGATCTTGTCTCTCTTGAGGCAGTTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
109354 GCCAATCTTT
Statistics
Matches: 238, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
36 31 0.13
37 1 0.00
38 1 0.00
39 205 0.86
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (39 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:109422 original size:37 final size:36
Alignment explanation
Indices: 109380--109459 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
109370 GTTTCCCTTG
* *
109380 AAACAAATTTTGTAT-TTCTTGAGACAATTTTTACTCA
1 AAACAAATTTTGTATCTT-TTGAGACAATTTCT-CACA
* * *
109417 AAACAAGTTTTGTCTCTTTTGAGACAGTTTCTCACA
1 AAACAAATTTTGTATCTTTTGAGACAATTTCTCACA
109453 AAACAAA
1 AAACAAA
109460 AGCCCGAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 9 0.25
37 25 0.69
38 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTATCTTTTGAGACAATTTCTCACA
Found at i:109683 original size:20 final size:19
Alignment explanation
Indices: 109623--109684 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
109613 TCTTGAAACA
109623 AGTTTTGTCTCTCTTGAGAC
1 AGTTTTGTCTCTC-TGAGAC
*
109643 AG--TT-TCTCT-TGAAAC
1 AGTTTTGTCTCTCTGAGAC
109658 AAAGTTTTGTCTCTCTAGAGAC
1 --AGTTTTGTCTCTCT-GAGAC
109680 AGTTT
1 AGTTT
109685 CCCTCGAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
15 5 0.15
17 7 0.21
18 2 0.06
19 2 0.06
20 12 0.36
21 1 0.03
22 4 0.12
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (19 bp):
AGTTTTGTCTCTCTGAGAC
Found at i:109697 original size:37 final size:36
Alignment explanation
Indices: 109536--109696 Score: 216
Period size: 36 Copynumber: 4.4 Consensus size: 36
109526 CTTTGAAAAT
*
109536 GTTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAGACC
1 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACA
* * *
109572 GTTTCCCTTGAAACAATTTTTATCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
* *
109608 TTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
* *
109644 GTTTCTCTTGAAACAAAGTTTTGTCTCTCTAGAGACA
1 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACA
*
109681 GTTTCCCTCGAAACAA
1 GTTTCCCTTGAAACAA
109697 ATCTCACTTG
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
35 2 0.02
36 76 0.68
37 33 0.30
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
Found at i:110272 original size:129 final size:131
Alignment explanation
Indices: 110037--110546 Score: 695
Period size: 129 Copynumber: 3.9 Consensus size: 131
110027 CAATTATTTG
* * * * *
110037 CTCGATTCTATCATAGAAGGAGGTAGATCAACACCAACATGTCGTTTGATTT-CATCACAGAAGG
1 CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGATTTCCATCACAGAAGG
* * *
110101 AGGTGGATTGACA-TTTGTTCGCTCAAATCCATCGCAGAAGGAGTTAGATCAACATCAACTTTTT
66 AGGTGGATCGACATTTTGTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTTTT
110165 A
131 A
* * * *
110166 CTCGTTTCTATCACAAAAGGAGGTAGATCAGCACCAACATTTCGTTTGA-TTCCATCACAGAAGG
1 CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGATTTCCATCACAGAAGG
* **
110230 AGGTGGATTGACA-TTTGTTTGCTCAAATCCATTTCAGAAGGAGTTGGATCAACATCAACTTTTT
66 AGGTGGATCGACATTTTGTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTTTT
110294 A
131 A
* *
110295 CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCACTCGATTTCCATCACAGAATG
1 CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGATTTCCATCACAGAAGG
* * * * *
110360 AGGTGGATCGACATTTTTATTTTTGATCGAATCCATTGCAGAAGGAGTTGGATCAACGTCAACTT
66 AGGTGGATCGACA--TTT-TGTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTT
*
110425 TTTG
128 TTTA
* * *
110429 CTCGTTTCTATCGCAGAAGGAGGTAGATCAGCACCAACATTTCGCTCAATTTCCATCACAGAAGG
1 CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGATTTCCATCACAGAAGG
*
110494 AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
66 AGGTGGATCGACA-TTTT-GTTT-GCTCAAATCCATCGCAGAAGGAGTTGGAT
110547 TAGCGTCGAC
Statistics
Matches: 343, Mismatches: 30, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
128 2 0.01
129 161 0.47
130 26 0.08
132 1 0.00
133 10 0.03
134 143 0.42
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (131 bp):
CTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGATTTCCATCACAGAAGG
AGGTGGATCGACATTTTGTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTTTT
A
Found at i:110314 original size:44 final size:44
Alignment explanation
Indices: 110128--110507 Score: 223
Period size: 44 Copynumber: 8.6 Consensus size: 44
110118 TTCGCTCAAA
* * *
110128 TCCATCGCAGAAGGAGTTAGATCAACATCAACTTTTTACTCGTT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTCGTT
* * * * * * *** * *
110172 TCTATCACAAAAGGAGGTAGATCAGCACCAACATTTCGTTTGAT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTCGTT
** * ***
110216 TCCATCACAGAAGGAGGTGGATTGACAT----TTGTTTGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTT-TTTACTCGTT
** *
110257 TCCATTTCAGAAGGAGTTGGATCAACATCAACTTTTTACTCGTT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTCGTT
* * * * *
110301 TCTATCACAGAAGGAGGTAGATCAACACCAACATTTCACTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTCG-TT
* * ** **
110346 TCCATCACAGAATGAGGTGGATCGACATTTTTA-TTTTTGA-TCGAA
1 TCCATCACAGAAGGAGGTGGATCAACA--TCAACTTTTT-ACTCGTT
** * * *
110391 TCCATTGCAGAAGGAGTTGGATCAACGTCAACTTTTTGCTCGTT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTCGTT
* * * * * * ** *
110435 TCTATCGCAGAAGGAGGTAGATCAGCACCAACATTTCGCTCAATT
1 TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTC-GTT
*
110480 TCCATCACAGAAGGAGGTGGATCGACAT
1 TCCATCACAGAAGGAGGTGGATCAACAT
110508 TTTTATTTTC
Statistics
Matches: 244, Mismatches: 80, Indels: 23
0.70 0.23 0.07
Matches are distributed among these distances:
40 1 0.00
41 28 0.11
43 2 0.01
44 133 0.55
45 72 0.30
46 6 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCATCACAGAAGGAGGTGGATCAACATCAACTTTTTACTCGTT
Found at i:110529 original size:45 final size:45
Alignment explanation
Indices: 110468--110603 Score: 164
Period size: 51 Copynumber: 2.9 Consensus size: 45
110458 AGCACCAACA
* * *
110468 TTTCGCTCAATTTCCATCACAGAAGGAGGTGGATCGACATTTTTAT
1 TTTCGCTCAA-ATCCATCGCAGAAGGAGTTGGATCGACATTTTTAT
110514 TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCGTCGACATTTTTAT
1 TTTCGCTCAAATCCATCGCAGAAGGAGTTGG---A---TCGACATTTTTAT
* *
110565 TTTCTCTCAAATCCATCGCAGAAGGAGTTGGATCAACAT
1 TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCGACAT
110604 CAACTTATAG
Statistics
Matches: 79, Mismatches: 5, Indels: 13
0.81 0.05 0.13
Matches are distributed among these distances:
45 24 0.30
46 10 0.13
48 2 0.03
51 43 0.54
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCGACATTTTTAT
Found at i:110561 original size:51 final size:51
Alignment explanation
Indices: 110501--110597 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
110491 AGGAGGTGGA
110501 TCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCG
1 TCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCG
*
110552 TCGACATTTTTATTTTCTCTCAAATCCATCGCAGAAGGAGTTGGAT
1 TCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
110598 CAACATCAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (51 bp):
TCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCG
Found at i:110580 original size:185 final size:184
Alignment explanation
Indices: 110367--110729 Score: 485
Period size: 185 Copynumber: 2.0 Consensus size: 184
110357 ATGAGGTGGA
* * * * *
110367 TCGACATTTTTATTTTTGATCGAATCCATTGCAGAAGGAGTTGGATCAACGTCAACTTTTTGCTC
1 TCGACATTTTTATTTTTGATCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTATAGCTC
* * * * *
110432 GTTTCTATCGCAGAAGGAGGTAGATCAGCACCAACATTTCGCTCAATTTCCATCACAGAAGGAGG
66 GATTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGCTCAA-TTCCATCACAGAAGGAGG
* * *
110497 TGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCG
130 TGGATAGACATTTATATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGATTAGCG
*
110552 TCGACATTTTTATTTTCT-CTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTATAGCT
1 TCGACATTTTTATTTT-TGATCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTATAGCT
* * *** * * *
110616 TGATTCTATCACAGAAAGAGGTAGATCAACATCGGTATCTCGTTCGATTCCATTACAGAAGGAGG
65 CGATTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGCTCAATTCCATCACAGAAGGAGG
* *
110681 TGGATAGACATTTATATTTTTGCTCAAATTCATCGCAGAAGAAGTTGGA
130 TGGATAGACATTTATATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGA
110730 ACAACGTCAA
Statistics
Matches: 153, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
184 61 0.40
185 91 0.59
186 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (184 bp):
TCGACATTTTTATTTTTGATCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTATAGCTC
GATTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGCTCAATTCCATCACAGAAGGAGGT
GGATAGACATTTATATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGATTAGCG
Found at i:110808 original size:134 final size:133
Alignment explanation
Indices: 110554--111160 Score: 772
Period size: 133 Copynumber: 4.6 Consensus size: 133
110544 GATTAGCGTC
* * * *
110554 GACATTTTTATTTTCT-CTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTATAGCTTG
1 GACATTTTTATTTT-TGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCG
* *** *
110618 ATTCTATCACAGAAAGAGGTAGATCAACATCGGTATCTCGTTCGATTCCATTACAGAAGGAGGTG
65 ATTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTG
110683 GATA
130 GATA
* * * * * * *
110687 GACATTTATATTTTTGCTCAAATTCATCGCAGAAGAAGTTGGAACAACGTCAACTTTTTTGCGCG
1 GACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAAC-TTTTAGCTCG
* * *
110752 GTTCTATCACAGAAAGAGGTAGATCAGCACCAACATCTCATTCGATTCCATCACAGAAGGAGGTG
65 ATTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTG
110817 GATCA
130 GAT-A
* * * * *
110822 -ATATTTTTA-TTTCGCTCAAATCTATCGCAGAAGGAGTTAGATCAGCGTCAACTTTTAGCTTGA
1 GACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGA
* * * ** *
110885 TTCTATTATAGAAAGAGGTAGATCATCACCAGTATCTCGTTCGATTCCATCACAAAAGGAGGTGG
66 TTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
*
110950 ATT
131 ATA
* * * *
110953 GACATTTTTATATTTGGTCAAATCCATCGCAAAAGGAGTTGGATAAGCGTCAACTTTTAGCTCGA
1 GACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGA
* * * *
111018 TTCTATCACAGAATGAGGTAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGGTG
66 TTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTTCGA-TTCCATCACAGAAGGAGGTG
*
111083 GATC
130 GATA
* *
111087 GATATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGA
1 GACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGA
111152 TTC-ATCACA
66 TTCTATCACA
111161 TATGGAGTTG
Statistics
Matches: 404, Mismatches: 64, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
132 76 0.19
133 170 0.42
134 157 0.39
135 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (133 bp):
GACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGA
TTCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
ATA
Found at i:110883 original size:266 final size:267
Alignment explanation
Indices: 110557--111160 Score: 856
Period size: 266 Copynumber: 2.3 Consensus size: 267
110547 TAGCGTCGAC
* * * *
110557 ATTTTTATTTTCTCTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAACTTATAGCTTGATTC
1 ATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTC
* * * *
110622 TATCACAGAAAGAGGTAGATCAACATCGGTATCTCGTTCGATTCCATTACAGAAGGAGGTGGATA
66 TATCACAGAAAGAGGTAGATCAACACCAGTATCTCGTTCGATTCCATCACAAAAGGAGGTGGATA
* * * *
110687 GACATTTATATTTTTGCTCAAATTCATCGCAGAAGAAGTTGGA-ACAACGTCAACTTTTTTGCGC
131 GACATTTATATATTTGCTCAAATCCATCGCAAAAGAAGTTGGATA-AACGTCAAC-TTTTAGCGC
* * *
110751 GGTTCTATCACAGAAAGAGGTAGATCAGCACCAACATCTCATTCGA-TTCCATCACAGAAGGAGG
194 GATTCTATCACAGAAAGAGGTAGATCAACACCAACATATCATTCGATTTCCATCACAGAAGGAGG
110815 TGGATCAAT
259 TGGATCAAT
* *
110824 ATTTTTA-TTTCGCTCAAATCTATCGCAGAAGGAGTTAGATCAGCGTCAACTTTTAGCTTGATTC
1 ATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTC
* * * *
110888 TATTATAGAAAGAGGTAGATCATCACCAGTATCTCGTTCGATTCCATCACAAAAGGAGGTGGATT
66 TATCACAGAAAGAGGTAGATCAACACCAGTATCTCGTTCGATTCCATCACAAAAGGAGGTGGATA
* * * * *
110953 GACATTTTTATATTTGGTCAAATCCATCGCAAAAGGAGTTGGATAAGCGTCAACTTTTAGCTCGA
131 GACATTTATATATTTGCTCAAATCCATCGCAAAAGAAGTTGGATAAACGTCAACTTTTAGCGCGA
* * * *
111018 TTCTATCACAGAATGAGGTAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGGTG
196 TTCTATCACAGAAAGAGGTAGATCAACACCAACATATCATTCGATTTCCATCACAGAAGGAGGTG
*
111083 GATCGAT
261 GATCAAT
* * *
111090 ATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTC
1 ATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTC
111155 -ATCACA
66 TATCACA
111161 TATGGAGTTG
Statistics
Matches: 296, Mismatches: 38, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
265 46 0.16
266 190 0.64
267 60 0.20
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (267 bp):
ATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTC
TATCACAGAAAGAGGTAGATCAACACCAGTATCTCGTTCGATTCCATCACAAAAGGAGGTGGATA
GACATTTATATATTTGCTCAAATCCATCGCAAAAGAAGTTGGATAAACGTCAACTTTTAGCGCGA
TTCTATCACAGAAAGAGGTAGATCAACACCAACATATCATTCGATTTCCATCACAGAAGGAGGTG
GATCAAT
Found at i:111518 original size:28 final size:29
Alignment explanation
Indices: 111457--111540 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 29
111447 TGCTGTAAAT
111457 ACCA-TTTTCAAACATCAACACCCACCATC
1 ACCATTTTTC-AACATCAACACCCACCATC
* *
111486 -TCATTTTTCAACATCAATACCCACCA-C
1 ACCATTTTTCAACATCAACACCCACCATC
* *
111513 ACCATTTTTCAACACCAAC-CCCATCATC
1 ACCATTTTTCAACATCAACACCCACCATC
111541 CCTTATTCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.15
28 34 0.74
29 5 0.11
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (29 bp):
ACCATTTTTCAACATCAACACCCACCATC
Found at i:112360 original size:49 final size:46
Alignment explanation
Indices: 112257--112360 Score: 104
Period size: 49 Copynumber: 2.2 Consensus size: 46
112247 GTTGATGTTG
*
112257 TTTTA-TTTTAATTTAGTCACTGTTAATTTCTGATTTAGCTTATTA
1 TTTTATTTTTAATTTAGTCACTGTTAATTTCTGATTTAGCTTATAA
* * * *
112302 TTTTAATTTTTACATTTTGGTCACTTTTTATTTCTTATTTAG-TTACTAA
1 TTTT-ATTTTTA-A-TTTAGTCACTGTTAATTTCTGATTTAGCTTA-TAA
112351 CTTTTATTTT
1 -TTTTATTTT
112361 CTTATATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
45 4 0.08
46 1 0.02
47 5 0.10
48 4 0.08
49 30 0.62
50 4 0.08
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.62
Consensus pattern (46 bp):
TTTTATTTTTAATTTAGTCACTGTTAATTTCTGATTTAGCTTATAA
Found at i:112424 original size:16 final size:15
Alignment explanation
Indices: 112405--112441 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
112395 CAATTAGGTC
*
112405 TTTATTTTATGTTTAT
1 TTTATTTTATATTT-T
112421 TTTATTTTATATTTT
1 TTTATTTTATATTTT
112436 TTTATT
1 TTTATT
112442 ATCTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTATTTTATATTTT
Found at i:114129 original size:12 final size:13
Alignment explanation
Indices: 114097--114137 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 13
114087 CTCCTTTAAG
114097 ATTTTTTTGAAATAT
1 ATTTTTTTG-AA-AT
114112 ATATTTTTTGAAAT
1 AT-TTTTTTGAAAT
114126 ATTTTTTTGAAA
1 ATTTTTTTGAAA
114138 CTTATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 4 0.16
16 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
ATTTTTTTGAAAT
Found at i:115411 original size:21 final size:21
Alignment explanation
Indices: 115310--115414 Score: 104
Period size: 21 Copynumber: 4.9 Consensus size: 21
115300 AGCGAACTTG
* * *
115310 TCTTCATGTTAATATTATATC
1 TCTTCATGTTAACATCACATC
* *
115331 TCTTTATGTTAACATTACACAAC
1 TCTTCATGTTAACA-T-CACATC
* *
115354 TGTTCATGTTAACAGT-ATATC
1 TCTTCATGTTAACA-TCACATC
115375 TCTTCATGTTAACATCACATC
1 TCTTCATGTTAACATCACATC
*
115396 TCTTTATGTTAACATCACA
1 TCTTCATGTTAACATCACA
115415 CATCATATTC
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.01
21 50 0.74
22 1 0.01
23 16 0.24
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (21 bp):
TCTTCATGTTAACATCACATC
Found at i:119215 original size:10 final size:9
Alignment explanation
Indices: 119158--119215 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
119148 CTTTCTAACC
*
119158 ATATAAGAT
1 ATATAATAT
119167 ATAT-ATAT
1 ATATAATAT
*
119175 CTTATAATAGT
1 -ATATAATA-T
*
119186 ATAAAATAT
1 ATATAATAT
119195 -TATAATAT
1 ATATAATAT
119203 ATATAATAT
1 ATATAATAT
119212 -TATA
1 ATATA
119216 GAGTAGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
8 14 0.35
9 16 0.40
10 9 0.22
11 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (9 bp):
ATATAATAT
Found at i:122061 original size:21 final size:22
Alignment explanation
Indices: 122028--122074 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
122018 CTAATTAGTT
122028 AAATAATCTGATTAAT-AAGATTA
1 AAATAATCTGATT-ATCAA-ATTA
122051 AAAT-ATC-GATTATCAAATTA
1 AAATAATCTGATTATCAAATTA
122071 AAAT
1 AAAT
122075 CACTGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 10 0.43
21 6 0.26
22 3 0.13
23 4 0.17
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (22 bp):
AAATAATCTGATTATCAAATTA
Found at i:123366 original size:229 final size:227
Alignment explanation
Indices: 122956--123404 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
122946 GTAAATTATC
* * *
122956 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
123021 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
123086 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
123151 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
123184 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
123249 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
123314 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
123379 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
123405 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 170 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:123660 original size:20 final size:19
Alignment explanation
Indices: 123637--123683 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
123627 CGATATAACA
*
123637 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
123657 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
123677 GGTAAAA
1 GGTAAAA
123684 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:126045 original size:33 final size:33
Alignment explanation
Indices: 126003--126068 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
125993 AAATAGATGG
*
126003 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
126036 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
126069 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:128296 original size:23 final size:23
Alignment explanation
Indices: 128265--128327 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
128255 ATAGGTAAAC
*
128265 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
128288 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
128311 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
128328 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:128335 original size:23 final size:23
Alignment explanation
Indices: 128265--128337 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
128255 ATAGGTAAAC
* * **
128265 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
128288 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
128311 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
128334 ATAT
1 ATAT
128338 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:138479 original size:23 final size:23
Alignment explanation
Indices: 138453--138500 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
138443 ATAAAGTACA
*
138453 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
138476 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
138499 AT
1 AT
138501 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:139366 original size:23 final size:23
Alignment explanation
Indices: 139340--139402 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
139330 ATATAACCAC
139340 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
139363 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
139386 TACCTATTACATCATAT
1 TACCTATTACATTATAT
139403 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:142554 original size:183 final size:183
Alignment explanation
Indices: 142245--143177 Score: 1683
Period size: 183 Copynumber: 5.1 Consensus size: 183
142235 TACTTAAAAT
142245 TACCGACACAATATTA-AAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTA
1 TACCGACACAATATTAGAAA-GTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTA
142309 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAAT
64 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAAT
*
142374 GTCGACACTTTTTTAAATGGTATCGACGCATTTTTCTTCCAATCTGGACATAAAG
129 GTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
142429 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
142494 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
142559 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
142612 TACCAACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
142677 TTTATACCGGTTATATTACAAAATTATTTATTACATTATAAATCTGGGTTCTGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
142742 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
142795 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
142860 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
142925 TGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
142978 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
143043 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAA
* *
143108 --TCGACACTTTTTTAATTGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
**
143162 TACATACACAATATTA
1 TACCGACACAATATTA
143178 AAAAATGTGA
Statistics
Matches: 727, Mismatches: 18, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
183 622 0.86
184 98 0.13
185 3 0.00
186 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:144350 original size:24 final size:24
Alignment explanation
Indices: 144313--144365 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
144303 CCGTTCTATC
144313 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
144337 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
144361 TATTT
1 TATTT
144366 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:144527 original size:17 final size:18
Alignment explanation
Indices: 144505--144547 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
144495 ATATATCCGG
144505 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
144522 TATCATTTCGATACCGGTTT
1 TATCATTT--ATACCGGTTT
144542 TATCAT
1 TATCAT
144548 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
20 15 0.65
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:144714 original size:161 final size:162
Alignment explanation
Indices: 144533--144870 Score: 525
Period size: 161 Copynumber: 2.1 Consensus size: 162
144523 ATCATTTCGA
* * *
144533 TACCGGTTTTATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCG
1 TACCGGTTTTATCATATTTTTACATGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* *
144598 ACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAG
66 ACACATTATAGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* * *
144662 TATCGACACTTTCAATATATCCGGTAACGTTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
*
144694 TACCGGTTTTATCATATTTTTACATGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCG
1 TACCGGTTTTATCATATTTTTACATGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* ** *
144759 ACACTTTATAGGATTTAAAACTGATTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAG
66 ACACATTATAGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* * *
144824 TACCGACACTTTAAATGTATTCGGTAGCGCTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
144856 TACCGGTTTTATCAT
1 TACCGGTTTTATCAT
144871 TTCTATATCG
Statistics
Matches: 160, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
161 114 0.71
162 46 0.29
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (162 bp):
TACCGGTTTTATCATATTTTTACATGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
ACACATTATAGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
TACCGACACTTTAAATATATCCGGTAACGCTT
Found at i:145451 original size:229 final size:229
Alignment explanation
Indices: 144996--145491 Score: 922
Period size: 230 Copynumber: 2.2 Consensus size: 229
144986 ACCTACTTTT
144996 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
145061 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
145126 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
145191 CAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCCACAGTGAA
*
145225 ATAAGTATGGACACTTTTATAAAAATTATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
145290 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 A-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAA
145355 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
130 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
145420 CCAAAGATAATAATAAATATATTTT-CACAGTGAA
195 CCAAAGATAATAATAAATATATTTTCCACAGTGAA
* *
145454 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
145492 ACAATATAAC
Statistics
Matches: 259, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
229 109 0.42
230 150 0.58
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCCACAGTGAA
Found at i:147831 original size:18 final size:18
Alignment explanation
Indices: 147808--147842 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
147798 AATTAAAGGG
147808 AAAAATAATAAA-AAAATA
1 AAAAATAA-AAACAAAATA
147826 AAAAATAAAAACAAAAT
1 AAAAATAAAAACAAAAT
147843 CTGAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAACAAAATA
Found at i:147835 original size:24 final size:24
Alignment explanation
Indices: 147783--147836 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
147773 AATGTTAGAT
* * **
147783 TAAAAATAATAAATAAATTAAAGG
1 TAAAAATAATAAAAAAATAAAAAA
*
147807 GAAAAATAATAAAAAAATAAAAAA
1 TAAAAATAATAAAAAAATAAAAAA
147831 TAAAAA
1 TAAAAA
147837 CAAAATCTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
TAAAAATAATAAAAAAATAAAAAA
Found at i:148284 original size:34 final size:33
Alignment explanation
Indices: 148208--148287 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 33
148198 GTGGTAAGAA
* * *
148208 ATTTATTTTTATGTTAGTATTTTTTTAAATAGTT
1 ATTT-TTTTTATATTAATATTTTTGTAAATAGTT
148242 ATTATTTTTTATATTAATATATTTATGTAAATA-TT
1 ATT-TTTTTTATATTAATAT-TTT-TGTAAATAGTT
148277 ATTTTTTTTAT
1 ATTTTTTTTAT
148288 TAAAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 24 0.60
35 9 0.22
36 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (33 bp):
ATTTTTTTTATATTAATATTTTTGTAAATAGTT
Found at i:148307 original size:31 final size:32
Alignment explanation
Indices: 148241--148315 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
148231 TTTAAATAGT
* *
148241 TATTATTTTTTATATTAATATATTTATGTAAA
1 TATTATTTTTTATATTAAAATATATATGTAAA
* * *
148273 TATTATTTTTTTTATTAAAATA-ATATTTATA
1 TATTATTTTTTATATTAAAATATATATGTAAA
148304 TATTATTTTTTA
1 TATTATTTTTTA
148316 GAATTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 17 0.46
32 20 0.54
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (32 bp):
TATTATTTTTTATATTAAAATATATATGTAAA
Found at i:148992 original size:126 final size:126
Alignment explanation
Indices: 148767--149038 Score: 535
Period size: 126 Copynumber: 2.2 Consensus size: 126
148757 ATGCATCTGG
148767 GCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACACGAATGA
1 GCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACACGAATGA
*
148832 CATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGTGCGCCCCCGGGAACGC
66 CATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGC
148893 GCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACACGAATGA
1 GCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACACGAATGA
148958 CATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGC
66 CATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGC
149019 GCCTTCATGTGAATAGTGAA
1 GCCTTCATGTGAATAGTGAA
149039 CCGATTATAG
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 145 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (126 bp):
GCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACACGAATGA
CATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAACGC
Found at i:149119 original size:8 final size:8
Alignment explanation
Indices: 149106--149146 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
149096 TCACAATCTT
149106 TCAAATTC
1 TCAAATTC
149114 TCAAATTC
1 TCAAATTC
* *
149122 CCAAACTC
1 TCAAATTC
149130 T-AAATTC
1 TCAAATTC
149137 TCAAATTC
1 TCAAATTC
149145 TC
1 TC
149147 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:152173 original size:12 final size:13
Alignment explanation
Indices: 152140--152177 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
152130 AAATACATAA
152140 ATATATTTAATAT
1 ATATATTTAATAT
*
152153 ATTTATTTAATAT
1 ATATATTTAATAT
152166 A-ATATTTAATAT
1 ATATATTTAATAT
152178 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:154157 original size:19 final size:19
Alignment explanation
Indices: 154124--154179 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
154114 GGCCTTGCAA
*
154124 AATAATTAAAAAATATTAAT
1 AATAA-TAAATAATATTAAT
* *
154144 ACTAATAAATAATAATAAT
1 AATAATAAATAATATTAAT
154163 AATAATAAAATAATATT
1 AATAAT-AAATAATATT
154180 TTTTTAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATAAATAATATTAAT
Found at i:154159 original size:3 final size:3
Alignment explanation
Indices: 154135--154177 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
154125 ATAATTAAAA
* *
154135 AAT ATT AAT ACT AAT AAAT AAT AAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A
154178 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:154159 original size:16 final size:16
Alignment explanation
Indices: 154124--154177 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
154114 GGCCTTGCAA
* *
154124 AATAATTAAAAAATATT
1 AATAA-TAATAAATAAT
*
154141 AATACTAATAAATAAT
1 AATAATAATAAATAAT
154157 AATAATAAT-AATAA-
1 AATAATAATAAATAAT
154171 AATAATA
1 AATAATA
154178 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 17 0.52
17 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:155705 original size:46 final size:47
Alignment explanation
Indices: 155638--155764 Score: 206
Period size: 47 Copynumber: 2.8 Consensus size: 47
155628 ATAAAATCTT
*
155638 TTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTA-CCAAATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCAAATAC
*
155682 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCAAATAC
*
155729 TTGCCATTTAAATTCCATAAGCTCGTAAGCTTATTT
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTT
155765 GCATGCTTAC
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
44 9 0.12
46 26 0.34
47 42 0.55
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (47 bp):
TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCAAATAC
Found at i:163051 original size:35 final size:35
Alignment explanation
Indices: 163000--163070 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
162990 GTTAAAAACT
*
163000 ATATTAATATACTAAATTAAAAGCA-GAGCCCATAA
1 ATATTAATAAACTAAATTAAAAGCATG-GCCCATAA
*
163035 ATATTAATAAATTAAATTAAAAGCATGGCCCATAA
1 ATATTAATAAACTAAATTAAAAGCATGGCCCATAA
163070 A
1 A
163071 CTTATTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGCATGGCCCATAA
Found at i:163681 original size:12 final size:12
Alignment explanation
Indices: 163649--163688 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
163639 TTCAAAGAAA
163649 TTAAAA-TTA-T
1 TTAAAATTTATT
*
163659 TT-AAATCTATT
1 TTAAAATTTATT
163670 TTAAAATTTATT
1 TTAAAATTTATT
163682 TTAAAAT
1 TTAAAAT
163689 ATGGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 3 0.12
10 4 0.16
11 3 0.12
12 15 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAAATTTATT
Found at i:163700 original size:22 final size:22
Alignment explanation
Indices: 163675--163973 Score: 424
Period size: 22 Copynumber: 13.6 Consensus size: 22
163665 CTATTTTAAA
163675 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
163697 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
163719 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
163740 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
* ***
163763 ATTTATTTTAAAATATGAAAAAA
1 ATTTATTTTAAAATATG-GATTG
*
163786 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
163808 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
163830 ATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATATGGATTG
*
163852 ATTTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
163874 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
**
163896 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
*
163917 ATTTTATTTT-AAACATGGATTG
1 A-TTTATTTTAAAATATGGATTG
*
163939 ATTTATTTTAAAATATGTATTG
1 ATTTATTTTAAAATATGGATTG
163961 ATTTATTTTAAAA
1 ATTTATTTTAAAA
163974 AAATTTATTA
Statistics
Matches: 244, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
21 18 0.07
22 208 0.85
23 18 0.07
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:164055 original size:31 final size:31
Alignment explanation
Indices: 163998--164056 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
163988 AGTTGTATGG
* *
163998 ATTATTTAAATTTCATTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
164029 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
164057 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:165189 original size:93 final size:93
Alignment explanation
Indices: 165004--165281 Score: 342
Period size: 93 Copynumber: 3.0 Consensus size: 93
164994 TATCTGAGCC
* * * * * *
165004 TAAACTAAAAGCAAAGAAACATAGTAAGAATCATTGATAAATATTTGAGAGGTCCTTAGTCTTTT
1 TAAACTAAAATCAAAG-AA-ATA-TAATAATAATTGATAAATACTTGAGAGATCCTTAGTCTTTC
*
165069 TTTTTATTATTTATACTTTTCAA-TTTTTGAT
63 TTTCT-TTATTTATACTTTTCAATTTTTTGAT
*
165100 TAAACTAAAATTAAAGAAATATAATAATAATTGATAAATACTTGAGAGATCCTTAGTCTTTCTTT
1 TAAACTAAAATCAAAGAAATATAATAATAATTGATAAATACTTGAGAGATCCTTAGTCTTTCTTT
*
165165 CTTTATTTATACTTTTCAATTTTTTTAT
66 CTTTATTTATACTTTTCAATTTTTTGAT
* * * * * * * *
165193 TAAATTAAAATCAAAGAAAGATAATAATAATTGATTAAGAGTGGAGAAATCCTTAGTGTTTCTTT
1 TAAACTAAAATCAAAGAAATATAATAATAATTGATAAATACTTGAGAGATCCTTAGTCTTTCTTT
* *
165258 CCTTATTTATATTTTTCAATTTTT
66 CTTTATTTATACTTTTCAATTTTT
165282 GATGATAATT
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
92 17 0.11
93 125 0.78
94 3 0.02
95 2 0.01
96 14 0.09
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (93 bp):
TAAACTAAAATCAAAGAAATATAATAATAATTGATAAATACTTGAGAGATCCTTAGTCTTTCTTT
CTTTATTTATACTTTTCAATTTTTTGAT
Found at i:166115 original size:2 final size:2
Alignment explanation
Indices: 166110--166136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
166100 GTCAAAAAAT
166110 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
166137 GGTAAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:166136 original size:48 final size:48
Alignment explanation
Indices: 166065--166159 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
166055 ATATGAAGAA
*
166065 ATATATATATATATATATATATATGGTTAGAGAAAGTCAAAAAATTAT
1 ATATATATATATATATATATATATGGTAAGAGAAAGTCAAAAAATTAT
*
166113 ATATATATATATATATATATATATGGTAAGAGAAAGTCAAAATATTA
1 ATATATATATATATATATATATATGGTAAGAGAAAGTCAAAAAATTA
166160 AAATAAAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.37
Consensus pattern (48 bp):
ATATATATATATATATATATATATGGTAAGAGAAAGTCAAAAAATTAT
Found at i:167053 original size:27 final size:27
Alignment explanation
Indices: 167000--167052 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
166990 TTGATATATC
*
167000 TATTATATTGATTAAAATATATATTTT
1 TATTATAATGATTAAAATATATATTTT
*
167027 TATTATAAT-ATTATAAT-TATATTTT
1 TATTATAATGATTAAAATATATATTTT
167052 T
1 T
167053 TGTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 7 0.29
27 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTATAATGATTAAAATATATATTTT
Found at i:167061 original size:25 final size:26
Alignment explanation
Indices: 167010--167061 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
167000 TATTATATTG
*
167010 ATTAAAATATATATTTTTATTATAAT
1 ATTAAAATATATATTTTTATTAAAAT
*
167036 ATTATAAT-TATATTTTT-TGTAAAAT
1 ATTAAAATATATATTTTTAT-TAAAAT
167061 A
1 A
167062 AGTAATTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTAAAATATATATTTTTATTAAAAT
Found at i:179548 original size:2 final size:2
Alignment explanation
Indices: 179541--179567 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
179531 TGTATAGAGT
179541 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
179568 GAGATGCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:180139 original size:16 final size:16
Alignment explanation
Indices: 180102--180132 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
180092 ATCAGAAAAC
180102 TATCTCTTGAAAATTA
1 TATCTCTTGAAAATTA
*
180118 TTTCTCTTGAAAATT
1 TATCTCTTGAAAATT
180133 TAATCTCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (16 bp):
TATCTCTTGAAAATTA
Found at i:181689 original size:16 final size:16
Alignment explanation
Indices: 181655--181686 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
181645 TAATTTATAA
181655 TTATACGTTTAATATT
1 TTATACGTTTAATATT
181671 TTATA-GTTTAAT-TT
1 TTATACGTTTAATATT
181685 TT
1 TT
181687 TTAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 7 0.44
16 5 0.31
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (16 bp):
TTATACGTTTAATATT
Found at i:181855 original size:21 final size:21
Alignment explanation
Indices: 181831--181888 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
181821 AACGAACTTG
* *
181831 TCTTCATGTTAATATTATATC
1 TCTTCATGTTAACATCATATC
* *
181852 TCTTTATATTAACATCATATC
1 TCTTCATGTTAACATCATATC
181873 TCTTCATGTTAACATC
1 TCTTCATGTTAACATC
181889 GTCTTCATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.48
Consensus pattern (21 bp):
TCTTCATGTTAACATCATATC
Found at i:183540 original size:29 final size:30
Alignment explanation
Indices: 183497--183572 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
183487 GACCTGACCC
*
183497 GGTGATATTTCGGTAATTATTTTT-AAAAT
1 GGTGATATTTTGGTAATTATTTTTAAAAAT
183526 GGTGATATTTTGGTAATTATTTTTAAAAAT
1 GGTGATATTTTGGTAATTATTTTTAAAAAT
* * *
183556 AGTGCTATTTTCGTAAT
1 GGTGATATTTTGGTAAT
183573 AATTGTTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 23 0.55
30 19 0.45
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (30 bp):
GGTGATATTTTGGTAATTATTTTTAAAAAT
Found at i:184657 original size:25 final size:25
Alignment explanation
Indices: 184605--184657 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
184595 AGGGTAACTC
*
184605 TTTTATGAGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
184630 TTTTATGAGATTTACTGTACTATGA
1 TTTTATGAGATTTACTGCACTATAA
184655 TTT
1 TTT
184658 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:190870 original size:29 final size:29
Alignment explanation
Indices: 190825--190899 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
190815 GACCCGACCC
* *
190825 GGTGATATTTTGATAATTATTTTTAAAAT
1 GGTGATATTTTGGTAATTATTTTAAAAAT
190854 GGTGATATTTTGGTAATTATTTTAAAAAT
1 GGTGATATTTTGGTAATTATTTTAAAAAT
* * *
190883 AGTGCTATTTTCGTAAT
1 GGTGATATTTTGGTAAT
190900 AATTGTTGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTAAAAAT
Found at i:193793 original size:8 final size:8
Alignment explanation
Indices: 193780--193819 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
193770 TATATATATC
193780 TTATAATA
1 TTATAATA
193788 TTATAAAATA
1 TTAT--AATA
193798 TTATAATA
1 TTATAATA
193806 TTTATAATA
1 -TTATAATA
193815 TTATA
1 TTATA
193820 GAGTAGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 13 0.45
9 8 0.28
10 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTATAATA
Found at i:193812 original size:9 final size:9
Alignment explanation
Indices: 193770--193816 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
193760 CCATATAAGA
193770 TATATATATCT
1 TATA-ATAT-T
193781 TATAATA-T
1 TATAATATT
*
193789 TATAAAATAT
1 TATAATAT-T
193799 TATAATATT
1 TATAATATT
193808 TATAATATT
1 TATAATATT
193817 ATAGAGTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.22
9 10 0.31
10 11 0.34
11 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (9 bp):
TATAATATT
Done.