Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 85 of 218
Found at i:24836486 original size:21 final size:21
Alignment explanation
Indices: 24836434--24836492 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
24836424 CTGCTTCTTG
* *
24836434 CGCTGCAACCTCTGCTTCTCT
1 CGCTGCAGCCTCTGCTTCCCT
24836455 CGCTGCAGCCTCTGCTTCCCT
1 CGCTGCAGCCTCTGCTTCCCT
*
24836476 CGTTGTC-GCCTCTGCTT
1 CGCTG-CAGCCTCTGCTT
24836493 TAAGTTTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.05, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CGCTGCAGCCTCTGCTTCCCT
Found at i:24838463 original size:39 final size:39
Alignment explanation
Indices: 24838409--24838487 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
24838399 ATCTTTTGAG
24838409 TAAAAAACTTGTTTGACTTGAGATGAGAATACATACGGA
1 TAAAAAACTTGTTTGACTTGAGATGAGAATACATACGGA
24838448 TAAAAAACTTGTTTGACTTGAGATGAGAATACATACGGA
1 TAAAAAACTTGTTTGACTTGAGATGAGAATACATACGGA
24838487 T
1 T
24838488 CATCTATCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (39 bp):
TAAAAAACTTGTTTGACTTGAGATGAGAATACATACGGA
Found at i:24842031 original size:9 final size:9
Alignment explanation
Indices: 24842014--24842314 Score: 247
Period size: 9 Copynumber: 34.3 Consensus size: 9
24842004 TATGTATTAA
*
24842014 GTAAATTAT
1 GTAAGTTAT
24842023 GTAAGTTAT
1 GTAAGTTAT
24842032 GTACA-TGTAT
1 GTA-AGT-TAT
24842042 GT-A-TTAT
1 GTAAGTTAT
24842049 GTAAGTTAT
1 GTAAGTTAT
*
24842058 GT-A-TTAA
1 GTAAGTTAT
*
24842065 GTAAGCTAT
1 GTAAGTTAT
*
24842074 GTAAGTTGT
1 GTAAGTTAT
24842083 GT-A-TTAT
1 GTAAGTTAT
24842090 GTAAGTTAT
1 GTAAGTTAT
24842099 GTAAGTTAT
1 GTAAGTTAT
** *
24842108 CAAAGTAAT
1 GTAAGTTAT
*
24842117 GTATGTTAT
1 GTAAGTTAT
24842126 GTAAG-T-T
1 GTAAGTTAT
24842133 GTAAGTTAT
1 GTAAGTTAT
*
24842142 -TATGTATTAT
1 GTAAG--TTAT
24842152 GTAAGTTAT
1 GTAAGTTAT
24842161 GTAAGTTAAAT
1 GTAAGTT--AT
*
24842172 -TTA-TTAT
1 GTAAGTTAT
*
24842179 GTAGGTTAT
1 GTAAGTTAT
*
24842188 GTAAGTTGT
1 GTAAGTTAT
*
24842197 GTAAGATAT
1 GTAAGTTAT
*
24842206 TTAAGTTAT
1 GTAAGTTAT
*
24842215 GTAAGTTTT
1 GTAAGTTAT
24842224 GT-A-TTAT
1 GTAAGTTAT
24842231 GTAAGTTAT
1 GTAAGTTAT
24842240 GTAAGTTAT
1 GTAAGTTAT
24842249 GTAAGTTAAAT
1 GTAAGTT--AT
24842260 GT-A-TTAT
1 GTAAGTTAT
*
24842267 GTAGGTTAT
1 GTAAGTTAT
*
24842276 GTAAGTTGT
1 GTAAGTTAT
*
24842285 GTAAGATAT
1 GTAAGTTAT
*
24842294 TTAAGTTAT
1 GTAAGTTAT
24842303 GTAAGTTAT
1 GTAAGTTAT
24842312 GTA
1 GTA
24842315 TACATAATTA
Statistics
Matches: 232, Mismatches: 37, Indels: 46
0.74 0.12 0.15
Matches are distributed among these distances:
7 32 0.14
8 15 0.06
9 163 0.70
10 13 0.06
11 9 0.04
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:24842034 original size:25 final size:25
Alignment explanation
Indices: 24842003--24842107 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
24841993 TAATATATAT
24842003 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
*
24842028 TTATGTACATGTATGT--ATTATGTAAG
1 TTATGT--AT-TAAGTAAATTATGTAAG
**
24842054 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
24842079 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
24842104 TTAT
1 TTAT
24842108 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.06
24 2 0.03
25 39 0.58
26 16 0.24
27 2 0.03
28 4 0.06
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:24842069 original size:16 final size:16
Alignment explanation
Indices: 24842003--24842076 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 16
24841993 TAATATATAT
*
24842003 TTATGTATTAAGTAAA
1 TTATGTATTAAGTAAG
*
24842019 TTATGTAAGTTATGTACA-
1 TTATGT-A-TTAAGTA-AG
*
24842037 TGTATGTATTATGTAAG
1 T-TATGTATTAAGTAAG
24842054 TTATGTATTAAGTAAG
1 TTATGTATTAAGTAAG
*
24842070 CTATGTA
1 TTATGTA
24842077 AGTTGTGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
16 27 0.54
17 9 0.18
18 8 0.16
19 6 0.12
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATGTATTAAGTAAG
Found at i:24842146 original size:19 final size:19
Alignment explanation
Indices: 24842122--24842160 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24842112 GTAATGTATG
24842122 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
24842141 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
24842160 T
1 T
24842161 GTAAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:24843872 original size:38 final size:37
Alignment explanation
Indices: 24843830--24843911 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 37
24843820 AGCAAACATT
*
24843830 TAAAACATA-ATTGCGGCGTTTACCAAAAAAAACGCCAC
1 TAAAACATACATTACGGCGTTTA--AAAAAAAACGCCAC
**
24843868 TAAAACATACCTATTACGGCGTTTAACGAAAAACGCCAC
1 TAAAACATA-C-ATTACGGCGTTTAAAAAAAAACGCCAC
24843907 TAAAA
1 TAAAA
24843912 ACGCAAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
38 9 0.24
39 17 0.45
41 12 0.32
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.20
Consensus pattern (37 bp):
TAAAACATACATTACGGCGTTTAAAAAAAAACGCCAC
Found at i:24844062 original size:114 final size:114
Alignment explanation
Indices: 24843808--24844102 Score: 297
Period size: 114 Copynumber: 2.6 Consensus size: 114
24843798 AAAGATAAAT
* * * * *
24843808 ACGACACCGTTTAGCAAACATTTAAAACATAATTGCGGCGTTTACCAAAAAAAACGCCACTAAAA
1 ACGACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATC--AAAAAACGCCACAAAAA
** **
24843873 CATACCTATTACGGCGTTTAACGAAAAACGCCACTAAAAACGCAAACAAAA
64 CATAAATATTACGGCGCATAACGAAAAACGCCACTAAAAACGCAAACAAAA
** * ** *
24843924 ACGATTGCATTTAGCGCAGACTTAAAACATAACTGCGGCGTTTATCATAAAAACGCCACAAAAAC
1 ACGACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATCA-AAAAACGCCACAAAAAC
* * * * ***
24843989 CTAAATTTTGCGGCGCATAA-GAAAAAATGCCACT-AAAACGCAATTTAAA
65 ATAAATATTACGGCGCATAACG-AAAAACGCCACTAAAAACGCAAACAAAA
* * * *
24844038 ACGACAGTGTTTAGCAAAGACTTAAAACATAATTGTGGCGTTTATGAAGAAACGCCACTAAAAAC
1 ACGACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATCAAAAAACGCCAC-AAAAAC
24844103 GGAAATTAAA
Statistics
Matches: 144, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
113 10 0.07
114 58 0.40
115 40 0.28
116 36 0.25
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (114 bp):
ACGACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATCAAAAAACGCCACAAAAACA
TAAATATTACGGCGCATAACGAAAAACGCCACTAAAAACGCAAACAAAA
Found at i:24844409 original size:103 final size:103
Alignment explanation
Indices: 24844262--24844474 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
24844252 TTACCATTAT
*
24844262 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATACGCCCTCTTAACCCATATACCCTATG
*
24844327 CCCGTATTAATCCCTAAACTCTAAGCTACTATCTAAAC
66 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
*
24844365 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATACGCCCTCTTAACCCATATACTCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATACGCCCTCTTAACCCATATACCCTATG
*
24844430 CCCGTATTAATCCTTAAACTCTAAGCTACTAGCTAAAC
66 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
24844468 CCTAAAC
1 CCTAAAC
24844475 AATAAACAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (103 bp):
CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATACGCCCTCTTAACCCATATACCCTATG
CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
Found at i:24844472 original size:7 final size:7
Alignment explanation
Indices: 24844462--24844663 Score: 56
Period size: 7 Copynumber: 29.0 Consensus size: 7
24844452 AAGCTACTAG
24844462 CTAAACC
1 CTAAACC
*
24844469 CTAAACA
1 CTAAACC
* *
24844476 ATAAACA
1 CTAAACC
* *
24844483 ATAAACA
1 CTAAACC
24844490 CTAAACC
1 CTAAACC
*
24844497 ATAAACC
1 CTAAACC
*
24844504 C-ACACC
1 CTAAACC
*
24844510 CTACACC
1 CTAAACC
24844517 CTAAACC
1 CTAAACC
* *
24844524 ATAAACA
1 CTAAACC
*
24844531 CTAAATC
1 CTAAACC
* *
24844538 ATAAACTG
1 CTAAAC-C
* *
24844546 C-ATACT
1 CTAAACC
*
24844552 TTAAACC
1 CTAAACC
*
24844559 ATAAA-C
1 CTAAACC
*
24844565 CTACACC
1 CTAAACC
*
24844572 CTAAATC
1 CTAAACC
* *
24844579 GTAAACA
1 CTAAACC
24844586 CTAAACC
1 CTAAACC
*
24844593 GTAAA-C
1 CTAAACC
*
24844599 CAATAACC
1 CTA-AACC
*
24844607 CTTAGACC
1 C-TAAACC
**
24844615 CT-AAGT
1 CTAAACC
*
24844621 CGATAA-C
1 CTA-AACC
24844628 CTAAACC
1 CTAAACC
*
24844635 TTTAAACC
1 -CTAAACC
24844643 CTAAACC
1 CTAAACC
24844650 CTAAACC
1 CTAAACC
*
24844657 TTAAACC
1 CTAAACC
24844664 TATAAAGCAC
Statistics
Matches: 138, Mismatches: 46, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
6 15 0.11
7 108 0.78
8 14 0.10
9 1 0.01
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:24844487 original size:21 final size:21
Alignment explanation
Indices: 24844463--24844502 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24844453 AGCTACTAGC
*
24844463 TAAACCCTAAACAATAAACAA
1 TAAACACTAAACAATAAACAA
*
24844484 TAAACACTAAACCATAAAC
1 TAAACACTAAACAATAAAC
24844503 CCACACCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAACACTAAACAATAAACAA
Found at i:24844502 original size:103 final size:103
Alignment explanation
Indices: 24844262--24844503 Score: 353
Period size: 103 Copynumber: 2.3 Consensus size: 103
24844252 TTACCATTAT
** * *
24844262 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACAATAAAATATAAAATCTAAACCCTAAACCATACGCCCTCTTAACCCATATACCCTATG
*
24844327 CCCGTATTAATCCCTAAACTCTAAGCTACTATCTAAAC
66 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
** * *
24844365 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATACGCCCTCTTAACCCATATACTCTATG
1 CCTAAACAATAAAATATAAAATCTAAACCCTAAACCATACGCCCTCTTAACCCATATACCCTATG
*
24844430 CCCGTATTAATCCTTAAACTCTAAGCTACTAGCTAAAC
66 CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
*
24844468 CCTAAACAATAAACA-ATAAACA-CTAAACCATAAACC
1 CCTAAACAATAAA-ATATAAA-ATCTAAACCCTAAACC
24844504 CACACCCTAC
Statistics
Matches: 129, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
103 127 0.98
104 2 0.02
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.25
Consensus pattern (103 bp):
CCTAAACAATAAAATATAAAATCTAAACCCTAAACCATACGCCCTCTTAACCCATATACCCTATG
CCCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAAC
Found at i:24844511 original size:41 final size:41
Alignment explanation
Indices: 24844466--24844543 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
24844456 TACTAGCTAA
24844466 ACCCTAAACAATAAACAATAAACACTAAACCATAAACCCAC
1 ACCCTAAACAATAAACAATAAACACTAAACCATAAACCCAC
* ** * *
24844507 ACCCTACACCCTAAACCATAAACACTAAATCATAAAC
1 ACCCTAAACAATAAACAATAAACACTAAACCATAAAC
24844544 TGCATACTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (41 bp):
ACCCTAAACAATAAACAATAAACACTAAACCATAAACCCAC
Found at i:24844540 original size:14 final size:14
Alignment explanation
Indices: 24844462--24844543 Score: 76
Period size: 14 Copynumber: 5.9 Consensus size: 14
24844452 AAGCTACTAG
*
24844462 CTAAACCCTAAACA
1 CTAAACCATAAACA
* *
24844476 ATAAACAATAAACA
1 CTAAACCATAAACA
24844490 CTAAACCATAAAC-
1 CTAAACCATAAACA
* * * * *
24844503 CCACACCCTACACC
1 CTAAACCATAAACA
24844517 CTAAACCATAAACA
1 CTAAACCATAAACA
*
24844531 CTAAATCATAAAC
1 CTAAACCATAAAC
24844544 TGCATACTTT
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
13 9 0.17
14 43 0.83
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACCATAAACA
Found at i:24844641 original size:43 final size:42
Alignment explanation
Indices: 24844550--24844649 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 42
24844540 AAACTGCATA
24844550 CTTTAAACCATAAACCTACACCCTAAATCGTAAACACTAAAC
1 CTTTAAACCATAAACCTACACCCTAAATCGTAAACACTAAAC
* * * *
24844592 C-GTAAACCAATAACCCTTAGACCCTAAGTCG-ATAAC-CTAAAC
1 CTTTAAACC-ATAAACC-TACACCCTAAATCGTA-AACACTAAAC
*
24844634 CTTTAAACCCTAAACC
1 CTTTAAACCATAAACC
24844650 CTAAACCTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
41 6 0.13
42 20 0.43
43 21 0.45
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.21
Consensus pattern (42 bp):
CTTTAAACCATAAACCTACACCCTAAATCGTAAACACTAAAC
Found at i:24844654 original size:14 final size:15
Alignment explanation
Indices: 24844627--24844692 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
24844617 AAGTCGATAA
*
24844627 CCTAAACCTTTAAAC
1 CCTAAACCTCTAAAC
24844642 CCTAAACC-CTAAAC
1 CCTAAACCTCTAAAC
* *
24844656 CTTAAACCTATAAAGC
1 CCTAAACCTCTAAA-C
* *
24844672 AC-AAACCCCTAAAC
1 CCTAAACCTCTAAAC
24844686 TCCTAAA
1 -CCTAAA
24844693 TCATAAACTC
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
14 13 0.33
15 22 0.56
16 4 0.10
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.20
Consensus pattern (15 bp):
CCTAAACCTCTAAAC
Found at i:24844669 original size:22 final size:22
Alignment explanation
Indices: 24844627--24844669 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24844617 AAGTCGATAA
*
24844627 CCTAAACCTTTAAACCCTAAAC
1 CCTAAACCTTTAAACCATAAAC
24844649 CCTAAACC-TTAAACCTATAAA
1 CCTAAACCTTTAAACC-ATAAA
24844670 GCACAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (22 bp):
CCTAAACCTTTAAACCATAAAC
Found at i:24844768 original size:22 final size:22
Alignment explanation
Indices: 24844712--24844778 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
24844702 CTTGATTAAA
*
24844712 CCCTAAACCATAAG-CCACTAAC
1 CCCTAAACCCTAAGCCCA-TAAC
* * *
24844734 CCATAGACTCTAAGCCCATAAC
1 CCCTAAACCCTAAGCCCATAAC
24844756 CCCTAAACCCTAAGCTCC-TAAC
1 CCCTAAACCCTAAGC-CCATAAC
24844778 C
1 C
24844779 TTTACACACT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 31 0.86
23 5 0.14
ACGTcount: A:0.36, C:0.42, G:0.06, T:0.16
Consensus pattern (22 bp):
CCCTAAACCCTAAGCCCATAAC
Found at i:24845186 original size:114 final size:114
Alignment explanation
Indices: 24844984--24845321 Score: 471
Period size: 114 Copynumber: 3.0 Consensus size: 114
24844974 TTACAACTAT
* *
24844984 TTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACAGCGTCA
1 TTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAT-CCCAAAAGCTCAGAAAACGGCGTCG
*
24845049 TTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAATGCCGCTAAAAAGCC
65 TTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAAGCC
* ** * *
24845099 TTGAGCATTAGAGGCGCTTTCTTAAAAACGTGGCTAAATCACTAAAGCTCAGAAAACGGCGTCGT
1 TTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCAAAAGCTCAGAAAACGGCGTCGT
* * *
24845164 TGGGCTTAAGTTTTTTGCGGCGCTTTCACAAAAACGTCGCT-AAAAGCC
66 TGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAAGCC
* * *
24845212 CTAAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGT
1 TTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCAAAAGCTCAGAAAACGGCGTCGT
** * * * *
24845277 CAGGCTTAGGTTTTTTTGCGGCACTTTATTAAAAACGCCACTAAA
66 TGGGCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
24845322 TCCCCAAAGC
Statistics
Matches: 194, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
113 72 0.37
114 84 0.43
115 38 0.20
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (114 bp):
TTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCAAAAGCTCAGAAAACGGCGTCGT
TGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAAGCC
Found at i:24845313 original size:72 final size:72
Alignment explanation
Indices: 24845222--24845393 Score: 281
Period size: 72 Copynumber: 2.4 Consensus size: 72
24845212 CTAAGCATTA
24845222 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCAGGCTTAGG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCAGGCTTAGG
24845287 TTTTTTT
66 TTTTTTT
* * * **
24845294 GCGGCACTTTATTAAAAACGCCACTAAATCCCCAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCAGGCTTAGG
24845359 TTTTTTT
66 TTTTTTT
* *
24845366 GCGGCGCTTTCTCAAAAATGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
24845394 GCCCTGAGCA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 90 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (72 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCAGGCTTAGG
TTTTTTT
Found at i:24845497 original size:186 final size:185
Alignment explanation
Indices: 24845111--24845698 Score: 829
Period size: 186 Copynumber: 3.2 Consensus size: 185
24845101 GAGCATTAGA
** * *
24845111 GGCGCTTTCTTAAAAACGTGGCTAAATCACTAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCTAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
* * *
24845176 TTTTGCGGCGCTTTCACAAAAACGTCGCTAAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
66 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* **
24845241 GCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCAGGCTTAGGTTTTTTTGC
131 GCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGC
* * * *
24845296 GGCACTTTATTAAAAACGCCACTAAATCCCCAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCTAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-T
* * * *
24845361 TTTTTGCGGCGCTTTCTCAAAAATGCCGCT-AAAGCCCTGAGCATTAGTGGTGCTCTCTTAAAAA
65 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
* * * *
24845425 CGCCGCCAAATCCCCGAAATCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGT
130 CGCCGCTAAATCCCC-AAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGC
* * * * *
24845482 GGCGCTTTTTTAAAAACGCTGCTAAATCTCCTAAAGCTCCGAAACCGGCTTCGTTGGGCTTAGG-
1 GGCGCTTTCTTAAAAACGCCGCTAAATC-CCTAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* *
24845546 TTTTTGCGGCGCTTTCTCAAAAACGCCACTAAAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
65 TTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAA
*
24845611 ATGCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGC
129 ACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGC
* * *
24845668 GGCGCTTTCTCAAAAACGCTGCTAAAGCCCT
1 GGCGCTTTCTTAAAAACGCCGCTAAATCCCT
24845699 GAGCATTAGT
Statistics
Matches: 354, Mismatches: 44, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
185 130 0.37
186 150 0.42
187 74 0.21
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (185 bp):
GGCGCTTTCTTAAAAACGCCGCTAAATCCCTAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
GCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGC
Found at i:24845541 original size:73 final size:71
Alignment explanation
Indices: 24845416--24845572 Score: 188
Period size: 73 Copynumber: 2.2 Consensus size: 71
24845406 AGTGGTGCTC
*
24845416 TCTTAAAAACGCCGCCAAATCCCCGAAATCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTG
1 TCTTAAAAACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGG--TTTTTG
*
24845481 TGGCGCTT
64 CGGCGCTT
* * * * * * * * *
24845489 TTTTAAAAACGCTGCTAAATCTCCTAAAGCTCCGAAACCGGCTTCGTTGGGCTTAGGTTTTTGCG
1 TCTTAAAAACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTGCG
24845554 GCGCTT
66 GCGCTT
*
24845560 TCTCAAAAACGCC
1 TCTTAAAAACGCC
24845573 ACTAAAAAGC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
71 23 0.33
73 47 0.67
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (71 bp):
TCTTAAAAACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTGCG
GCGCTT
Found at i:24845606 original size:300 final size:300
Alignment explanation
Indices: 24845294--24845862 Score: 967
Period size: 300 Copynumber: 1.9 Consensus size: 300
24845284 AGGTTTTTTT
*
24845294 GCGGCACTTTATTAAAAACGCCACTAAATCCCCAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG
1 GCGGCACTTTATTAAAAACGCCACTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
* *
24845359 TTTTTTTGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTAGTGGTGCTCTCTTAAAA
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTCTCTTAAAA
* *
24845424 ACGCCGCCAAATCCCCGAAATCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGCGCTT
131 ACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGCACTT
* * * * *
24845489 TTTTAAAAACGCTGCTAAATCTCCTAAAGCTCCGAAACCGGCTTCGTTGGGCTTAGGTTTTTGCG
196 TCTTAAAAACGCCGCTAAATCTCCGAAAGCTCCGAAAACGGCATCGTTGGGCTTAGGTTTTTGCG
24845554 GCGCTTTCTCAAAAACGCCACTAAAAAGCCCTGAGCATTA
261 GCGCTTTCTCAAAAACGCCACTAAAAAGCCCTGAGCATTA
* * *
24845594 GCGGCGCTTTATTAAAAATGCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
1 GCGGCACTTTATTAAAAACGCCACTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
*
24845659 TTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTGAGCATTAGTGGCGCTCTCTTAAAA
66 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTCTCTTAAAA
* * *
24845724 ACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGTGGCACTT
131 ACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGCACTT
*
24845789 TCTTAAAAATGCCGCTAAATCTCCGAAAGCTCCGAAAACGGCATCGTTGGGCTTAGGTTTTTGCG
196 TCTTAAAAACGCCGCTAAATCTCCGAAAGCTCCGAAAACGGCATCGTTGGGCTTAGGTTTTTGCG
*
24845854 GGGCTTTCT
261 GCGCTTTCT
24845863 GGAAAACATC
Statistics
Matches: 250, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
300 250 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (300 bp):
GCGGCACTTTATTAAAAACGCCACTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTCTCTTAAAA
ACGCCGCCAAATCCCCGAAAGCTCAGAAAACAGCATCGTTGGGCTTAGGTTTTTTTGTGGCACTT
TCTTAAAAACGCCGCTAAATCTCCGAAAGCTCCGAAAACGGCATCGTTGGGCTTAGGTTTTTGCG
GCGCTTTCTCAAAAACGCCACTAAAAAGCCCTGAGCATTA
Found at i:24845695 original size:113 final size:113
Alignment explanation
Indices: 24845482--24845807 Score: 449
Period size: 114 Copynumber: 2.9 Consensus size: 113
24845472 GTTTTTTTGT
* * * * * *
24845482 GGCGCTTTTTTAAAAACGCTGCTAAATCTCCTAAAGCTCCGAAACCGGCTTCGTTGGGCTTAGG-
1 GGCGCTTTATTAAAAACGCCGCTAAATC-CCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGT
*
24845546 -TTTTTGCGGCGCTTTCTCAAAAACGCCACTAAAAAGCCCTGAGCATTAGC
65 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCT--AAAGCCCTGAGCATTAGC
*
24845596 GGCGCTTTATTAAAAATGCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTT
1 GGCGCTTTATTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTT
* *
24845661 TTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTGAGCATTAGT
66 TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * *
24845709 GGCGCTCTCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGT
1 GGCGCTTTATTAAAAACGCCGCTAAATCCCC-AAAGCTCAGAAAACGGCATCGTTGGGCTTAGGT
* * * *
24845774 TTTTTTGTGGCACTTTCTTAAAAATGCCGCTAAA
65 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
24845808 TCTCCGAAAG
Statistics
Matches: 190, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
113 75 0.39
114 87 0.46
115 28 0.15
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (113 bp):
GGCGCTTTATTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTT
TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
Found at i:24845805 original size:73 final size:73
Alignment explanation
Indices: 24845707--24845850 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 73
24845697 CTGAGCATTA
* *
24845707 GTGGCGCTCTCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GTGGCACTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
24845772 GTTTTTTT
66 GTTTTTTT
* * * *
24845780 GTGGCACTTTCTTAAAAATGCCGCTAAATCTCCGAAAGCTCCGAAAACGGCATCGTTGGGCTTAG
1 GTGGCACTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
24845845 GTTTTT
66 GTTTTT
24845851 GCGGGGCTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (73 bp):
GTGGCACTCTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
GTTTTTTT
Found at i:24849580 original size:18 final size:18
Alignment explanation
Indices: 24849539--24849580 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24849529 CCTATATCCA
* *
24849539 CCTCTACCTCTACCTGTT
1 CCTCTTCCTCTACCTCTT
*
24849557 CCTCTTCCTCTGCCTCTT
1 CCTCTTCCTCTACCTCTT
24849575 CCTCTT
1 CCTCTT
24849581 GCACCAAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.48, G:0.05, T:0.43
Consensus pattern (18 bp):
CCTCTTCCTCTACCTCTT
Found at i:24855124 original size:20 final size:20
Alignment explanation
Indices: 24855099--24855140 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24855089 AGGCTAAAAG
24855099 TAGAAAAATAAGCAAGACCA
1 TAGAAAAATAAGCAAGACCA
24855119 TAGAAAAATAAGCAAGACCA
1 TAGAAAAATAAGCAAGACCA
24855139 TA
1 TA
24855141 AACTTGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.12
Consensus pattern (20 bp):
TAGAAAAATAAGCAAGACCA
Found at i:24860257 original size:16 final size:16
Alignment explanation
Indices: 24860236--24860266 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24860226 TCCCTCCTTA
24860236 TATTAATGTATTTTTG
1 TATTAATGTATTTTTG
24860252 TATTAATGTATTTTT
1 TATTAATGTATTTTT
24860267 TTTAGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (16 bp):
TATTAATGTATTTTTG
Found at i:24860833 original size:3 final size:3
Alignment explanation
Indices: 24860827--24860864 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
24860817 TCTTAACATA
24860827 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24860865 GAACAAGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24861074 original size:3 final size:3
Alignment explanation
Indices: 24861047--24861104 Score: 66
Period size: 3 Copynumber: 18.7 Consensus size: 3
24861037 GTGCAATTTG
24861047 TAA TAA -AA TACA TAAA TAGA TAA TAA TAA TAGA TAA -AA TAA TAA TAA
1 TAA TAA TAA TA-A T-AA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA
24861094 TAA TAA TAA TA
1 TAA TAA TAA TA
24861105 GTAGTAGTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.08
3 34 0.69
4 10 0.20
5 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:24862856 original size:44 final size:43
Alignment explanation
Indices: 24862803--24863734 Score: 164
Period size: 44 Copynumber: 20.3 Consensus size: 43
24862793 CTTTAAGGAA
24862803 ATAAGATTTGTAGCTTTAATTTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* *
24862847 ATGAA-ATTTG-ACTTTAATCTT-TTCCACTGCTACTTCAGGGAG
1 AT-AAGATTTGTACTTTAAT-TTGCTCCACTGCAACTTCAGGGAG
* * * * * **
24862889 ATAAGATTCGTAACTTCAATATGCTCAACTGTAACTTCAGAAAG
1 ATAAGATTTGT-ACTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * *
24862933 ATAAGATTAGT--TTTCCAATCTGCTCTACTGCAACTTC-GAAGAG
1 ATAAGATTTGTACTTT--AATTTGCTCCACTGCAACTTCAG-GGAG
* * * * *
24862976 ATGAGATTCGCCATAATGACTTCAA--TCCATCCTACTGCAACTTAAGGG-G
1 ATAAGATT-----T-GT-ACTTTAATTTGC-TCC-ACTGCAACTTCAGGGAG
* * * * * * *
24863025 TATAGGATTTGTGATTTGTAACTTTAAACTATTCCACTACAACTTCAAGAAA
1 -ATAAGATTTGT-ACTT-TAA-TTT--GC---TCCACTGCAACTTCAGGGAG
*** * ** ***
24863077 ATAAGATTCACATCTTCAACCTGCTCCACTATGACTTCAGGGAG
1 ATAAGATTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * *
24863121 ATAAAATTTGTAGCTTTAATTTGCTCCACTGCCACTTTAGGGAG
1 ATAAGATTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* *
24863165 ATAAGATTTGCCACGATGACTTTAATCTG-TCCCACTGTAACTTCAGGG-G
1 ATAAGATTT-----G-T-ACTTTAATTTGCT-CCACTGCAACTTCAGGGAG
* * ** * * *
24863214 TATAGGATTTATGTTTGTAGCTTTAATCTATTCCACTGTATCTTCAGGGAA
1 -ATA--A--GA--TTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * * *
24863265 ATAAGATTCGCTATCTTCAATTTGCTCCACTGCATCTTTAAGGAG
1 ATAAGATTTG-TA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * ** *
24863310 ATAAAATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAACTTCAAAGAA
1 AT--AA---G--ATTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * *
24863361 ATAAGATTCGCTA-TATTCAATCTGCTCTACTGCAATTTCAGGGAG
1 ATAAGATTTG-TACT-TT-AATTTGCTCCACTGCAACTTCAGGGAG
* * * * * * **
24863406 ATAAGACTTATAGTTTTAATATGCTCTACTGCAATTTCAGAAAG
1 ATAAGATTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * * * *
24863450 ATAAGATTTGTTATCTTCAATCTACTCCATTGCATCTTTAGGGAG
1 ATAAGATTTG-TA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * *
24863495 ATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCAGTGCAACTTCAGGGAA
1 ATAAGA----T---TTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * * * **
24863546 ATAAGATTCGCTA-TATTCAATCTGCTCCAATACAAATTTTGGGAG
1 ATAAGATTTG-TACT-TT-AATTTGCTCCACTGCAACTTCAGGGAG
* * * * * *
24863591 ATAAGATTTATAGCTTTGATCTGCTCTACTACAACTTCAGAGAG
1 ATAAGATTTGTA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * * *
24863635 ATAAGATTTGCTATCTTCAATCTACTCCGCTGCAACTTTAGGGAG
1 ATAAGATTTG-TA-CTTTAATTTGCTCCACTGCAACTTCAGGGAG
* * * * * *
24863680 ATAAAATTTGTGACTTCAATCT-CTTCCATTGCCATTTCAGGGAG
1 ATAAGATTTGT-ACTTTAATTTGC-TCCACTGCAACTTCAGGGAG
*
24863724 ATAAGTTTTGT
1 ATAAGATTTGT
24863735 CACGGTGACC
Statistics
Matches: 645, Mismatches: 164, Indels: 158
0.67 0.17 0.16
Matches are distributed among these distances:
41 4 0.01
42 33 0.05
43 35 0.05
44 210 0.33
45 158 0.24
46 4 0.01
47 4 0.01
48 4 0.01
49 12 0.02
50 80 0.12
51 85 0.13
52 12 0.02
54 1 0.00
56 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (43 bp):
ATAAGATTTGTACTTTAATTTGCTCCACTGCAACTTCAGGGAG
Found at i:24863283 original size:189 final size:189
Alignment explanation
Indices: 24862973--24863321 Score: 443
Period size: 189 Copynumber: 1.8 Consensus size: 189
24862963 CAACTTCGAA
* * * *
24862973 GAGATGAGATTCGCCATAATGACTTCAATCCATCCTACTGCAACTTAAGGGGTATAGGATTTGTG
1 GAGATAAGATTCGCCACAATGACTTCAATCCATCCCACTGCAACTTAAGGGGTATAGGATTTATG
24863038 ATTTGTAACTTTAAACTATTCCACTACAACTTCAAGAAAATAAGATTCACATCTTCAACCTGCTC
66 ATTTGTAACTTTAAACTATTCCACTACAACTTCAAGAAAATAAGATTCACATCTTCAACCTGCTC
*
24863103 CACT--ATGACTTCAGGGAGATAAAATTTGTAGCTTTAATTTGCTCCACTGCCACTTTAGG
131 CACTGCAT--CTTCAAGGAGATAAAATTTGTAGCTTTAATTTGCTCCACTGCCACTTTAGG
* * * ** * *
24863162 GAGATAAGATTTGCCACGATGACTTTAATCTGTCCCACTGTAACTTCAGGGGTATAGGATTTATG
1 GAGATAAGATTCGCCACAATGACTTCAATCCATCCCACTGCAACTTAAGGGGTATAGGATTTATG
* * ** * * * * **
24863227 -TTTGTAGCTTTAATCTATTCCACTGTATCTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCT
66 ATTTGTAACTTTAAACTATTCCACTACAACTTCAAGAAAATAAGATTCAC-ATCTTCAACCTGCT
*
24863291 CCACTGCATCTTTAAGGAGATAAAATTTGTA
130 CCACTGCATCTTCAAGGAGATAAAATTTGTA
24863322 ACTTGTAGCT
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
188 41 0.31
189 91 0.68
191 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (189 bp):
GAGATAAGATTCGCCACAATGACTTCAATCCATCCCACTGCAACTTAAGGGGTATAGGATTTATG
ATTTGTAACTTTAAACTATTCCACTACAACTTCAAGAAAATAAGATTCACATCTTCAACCTGCTC
CACTGCATCTTCAAGGAGATAAAATTTGTAGCTTTAATTTGCTCCACTGCCACTTTAGG
Found at i:24863346 original size:96 final size:96
Alignment explanation
Indices: 24863228--24863695 Score: 419
Period size: 96 Copynumber: 5.0 Consensus size: 96
24863218 GGATTTATGT
* * * * *
24863228 TTGTAGCTTTAATCTATTCCACTGTATCTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
*
24863293 ACTGCATCTTTAAGGAGATAAAATTTGTAAC
66 ACTGCATCTTTAGGGAGATAAAATTTGTAAC
* ** *
24863324 TTGTAGCTTTAATTTGTTCCACTGCAACTTCAAAGAAATAAGATTCGCTATATTCAATCTGCTCT
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
*
24863389 ACTGCAAT-TTCAGGGAGAT--AA---G--AC
66 ACTGC-ATCTTTAGGGAGATAAAATTTGTAAC
* * * * * * * * * * *
24863413 TTATAGTTTTAATATGCTCTACTGCAATTTCA-GAAAGATAAGATTTGTTATCTTCAATCTACTC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCGCTATATTCAATCTGCTC
* *
24863477 CATTGCATCTTTAGGGAGATAAGATTTGTAAC
65 CACTGCATCTTTAGGGAGATAAAATTTGTAAC
*
24863509 TTGTAGCTTTAATCTGTTCCAGTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
* * ** * *
24863574 AATACAAATTTTGGGAGATAAGA-TT-T-A-
66 ACTGCATCTTTAGGGAGATAAAATTTGTAAC
* * * * * * * * *
24863601 ---TAGCTTTGATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
* * *
24863663 GCTGCAACTTTAGGGAGATAAAATTTGTGAC
66 ACTGCATCTTTAGGGAGATAAAATTTGTAAC
24863694 TT
1 TT
24863696 CAATCTCTTC
Statistics
Matches: 295, Mismatches: 60, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
88 4 0.01
89 134 0.45
90 2 0.01
91 3 0.01
92 1 0.00
93 1 0.00
94 4 0.01
95 2 0.01
96 139 0.47
97 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (96 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCC
ACTGCATCTTTAGGGAGATAAAATTTGTAAC
Found at i:24863410 original size:45 final size:45
Alignment explanation
Indices: 24863256--24863728 Score: 180
Period size: 45 Copynumber: 10.3 Consensus size: 45
24863246 CCACTGTATC
* * *
24863256 TTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCACTGC-AT
1 TTCAGGGAGATAAGATTCGCTATATTCAATCTGCTCCACTGCAAT
* * * * * * * * *
24863300 CTTTAAGGAGATAAAATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAAC
1 -TTCAGGGAGATAAGATTCG---C-TATA--TTCAATCTGCTCCACTGCAAT
** * *
24863352 TTCAAAGAAATAAGATTCGCTATATTCAATCTGCTCTACTGCAAT
1 TTCAGGGAGATAAGATTCGCTATATTCAATCTGCTCCACTGCAAT
* * * *
24863397 TTCAGGGAGATAAGA--C-TTATAGTTTTAATATGCTCTACTGCAAT
1 TTCAGGGAGATAAGATTCGCTATA--TTCAATCTGCTCCACTGCAAT
** * * * * *
24863441 TTCAGAAAGATAAGATTTGTTATCTTCAATCTACTCCATTGC-AT
1 TTCAGGGAGATAAGATTCGCTATATTCAATCTGCTCCACTGCAAT
* * * * * * *
24863485 CTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCAGTGCAAC
1 -TTCAGGGAGATAAGATTCG---C-TATA--TTCAATCTGCTCCACTGCAAT
* * *
24863537 TTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCCAATACAAAT
1 TTCAGGGAGATAAGATTCGCTATATTCAATCTGCTCCACTGC-AAT
* ** * * *
24863583 TT-TGGGAGATAAGATT---TATAGCTTTGATCTGCTCTACTACAAC
1 TTCAGGGAGATAAGATTCGCTATA--TTCAATCTGCTCCACTGCAAT
* * * * *
24863626 TTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCGCTGCAACT
1 TTCAGGGAGATAAGATTCGCTATATTCAATCTGCTCCACTGCAA-T
* * * * *
24863672 TT-AGGGAGATAAAATTTG-TGA-CTTCAATCT-CTTCCATTGCCAT
1 TTCAGGGAGATAAGATTCGCT-ATATTCAATCTGC-TCCACTGCAAT
24863715 TTCAGGGAGATAAG
1 TTCAGGGAGATAAG
24863729 TTTTGTCACG
Statistics
Matches: 318, Mismatches: 79, Indels: 63
0.69 0.17 0.14
Matches are distributed among these distances:
42 8 0.03
43 9 0.03
44 87 0.27
45 126 0.40
46 6 0.02
47 13 0.04
48 3 0.01
49 4 0.01
51 60 0.19
52 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (45 bp):
TTCAGGGAGATAAGATTCGCTATATTCAATCTGCTCCACTGCAAT
Found at i:24863493 original size:89 final size:89
Alignment explanation
Indices: 24863322--24863683 Score: 316
Period size: 89 Copynumber: 4.0 Consensus size: 89
24863312 AAAATTTGTA
* * * * * * * *
24863322 ACTTGTAGCTTTAATTTGTTCCACTGCAACTTCA-AAGAAATAAGATTCGCTATATTCAATCTGC
1 ACTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAA-AGATAAGATTTGCTATCTTCAATCTAC
* *
24863386 TCTACTGCAA-TTTCAGGGAGATAAG
65 TCCAATGCAACTTT-AGGGAGATAAG
* * * *
24863411 ACTTATAGTTTTAATATGCTCTACTGCAATTTCAGAAAGATAAGATTTGTTATCTTCAATCTACT
1 ACTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTACT
* *
24863476 CCATTGCATCTTTAGGGAGATAAGATTTG
66 CCAATGCAACTTTAGGGAGAT-A-A---G
* * * * * * *
24863505 TAACTTGTAGCTTTAATCTGTTCCAGTGCAACTTCAGGGAA-ATAAGATTCGCTATATTCAATCT
1 --ACTTATAGCTTTAATCTGCTCTACTGCAACTTCA-GAAAGATAAGATTTGCTATCTTCAATCT
* * * *
24863569 GCTCCAATACAAATTTTGGGAGATAAG
63 ACTCCAATGCAACTTTAGGGAGATAAG
* * * *
24863596 ATTTATAGCTTTGATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACT
1 ACTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTACT
**
24863661 CCGCTGCAACTTTAGGGAGATAA
66 CCAATGCAACTTTAGGGAGATAA
24863684 AATTTGTGAC
Statistics
Matches: 214, Mismatches: 48, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
88 2 0.01
89 133 0.62
90 6 0.03
91 2 0.01
94 2 0.01
95 1 0.00
96 65 0.30
97 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (89 bp):
ACTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAAAGATAAGATTTGCTATCTTCAATCTACT
CCAATGCAACTTTAGGGAGATAAG
Found at i:24863497 original size:185 final size:185
Alignment explanation
Indices: 24863265--24863695 Score: 621
Period size: 185 Copynumber: 2.3 Consensus size: 185
24863255 CTTCAGGGAA
* * * *
24863265 ATAAGATTCGCTATCTTCAATTTGCTCCACTGCATCTTTAAGGAGATAAAATTTGTAACTTGTAG
1 ATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTTAGGGAGATAAAATTTGTAACTTGTAG
* * * *
24863330 CTTTAATTTGTTCCACTGCAACTTCAAAGAAATAAGATTCGCTATATTCAATCTGCTCTACTGC-
66 CTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATTCGCTATATTCAATCTGCTCCAATACA
* * *
24863394 AATTTCAGGGAGATAAGACTTATAGTTTTAATATGCTCTACTGCAATTTCAGAAAG
131 AATTT-AGGGAGATAAGACTTATAGCTTTAATATGCTCTACTACAACTTCAGAAAG
* * *
24863450 ATAAGATTTGTTATCTTCAATCTACTCCATTGCATCTTTAGGGAGATAAGATTTGTAACTTGTAG
1 ATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTTAGGGAGATAAAATTTGTAACTTGTAG
* **
24863515 CTTTAATCTGTTCCAGTGCAACTTCAGGGAAATAAGATTCGCTATATTCAATCTGCTCCAATACA
66 CTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATTCGCTATATTCAATCTGCTCCAATACA
* * * * *
24863580 AATTTTGGGAGATAAGATTTATAGCTTTGATCTGCTCTACTACAACTTCAGAGAG
131 AATTTAGGGAGATAAGACTTATAGCTTTAATATGCTCTACTACAACTTCAGAAAG
* * *
24863635 ATAAGATTTGCTATCTTCAATCTACTCCGCTGCAACTTTAGGGAGATAAAATTTGTGACTT
1 ATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTTAGGGAGATAAAATTTGTAACTT
24863696 CAATCTCTTC
Statistics
Matches: 217, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
185 212 0.98
186 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (185 bp):
ATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTTAGGGAGATAAAATTTGTAACTTGTAG
CTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATTCGCTATATTCAATCTGCTCCAATACA
AATTTAGGGAGATAAGACTTATAGCTTTAATATGCTCTACTACAACTTCAGAAAG
Found at i:24870425 original size:3 final size:3
Alignment explanation
Indices: 24870417--24870515 Score: 110
Period size: 3 Copynumber: 32.7 Consensus size: 3
24870407 TAACAATTTG
** * * * *
24870417 ATA ATA ATA ATA ATA ATA GCA ATA ATTA TTA ATC ATC ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
24870463 A-C ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24870508 ATA ATA AT
1 ATA ATA AT
24870516 GAGGGTGACA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.01
3 76 0.94
4 4 0.05
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:24870607 original size:16 final size:16
Alignment explanation
Indices: 24870586--24870616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24870576 GGACAAGGAA
24870586 ATAAATAAATAAATAC
1 ATAAATAAATAAATAC
*
24870602 ATAAATAATTAAATA
1 ATAAATAAATAAATA
24870617 TAGAGGAAAA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATAAATAAATAC
Found at i:24870719 original size:21 final size:20
Alignment explanation
Indices: 24870684--24870729 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
24870674 GTGCAATTTG
24870684 TAATAAAATACAT-AAATAGA
1 TAATAAAATACATAAAATA-A
*
24870704 TAATAATAATAGATAAAATAA
1 TAATAA-AATACATAAAATAA
24870725 TAATA
1 TAATA
24870730 GTAAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
TAATAAAATACATAAAATAA
Found at i:24870723 original size:15 final size:15
Alignment explanation
Indices: 24870686--24870730 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
24870676 GCAATTTGTA
24870686 ATAAAATACATAAATAG
1 ATAAAATA-AT-AATAG
24870703 AT--AATAATAATAG
1 ATAAAATAATAATAG
24870716 ATAAAATAATAATAG
1 ATAAAATAATAATAG
24870731 TAAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.27
14 2 0.08
15 15 0.58
17 2 0.08
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (15 bp):
ATAAAATAATAATAG
Found at i:24877544 original size:23 final size:25
Alignment explanation
Indices: 24877511--24877556 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
24877501 ATGATTTTAA
24877511 AAAATACTCAT-ATTTA-TATAATT
1 AAAATACTCATAATTTACTATAATT
*
24877534 AAAATATTCATAATTTACTATAA
1 AAAATACTCATAATTTACTATAA
24877557 AAAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 5 0.25
25 5 0.25
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATACTCATAATTTACTATAATT
Found at i:24877560 original size:23 final size:21
Alignment explanation
Indices: 24877508--24877561 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
24877498 AGCATGATTT
24877508 TAAAAAATACTCATATTTATA
1 TAAAAAATACTCATATTTATA
*
24877529 TAATTAAAATATTCATAATTTACTA
1 TAA--AAAATACTCAT-ATTTA-TA
24877554 TAAAAAAT
1 TAAAAAAT
24877562 TTATTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.11
23 15 0.54
24 5 0.18
25 5 0.18
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAAATACTCATATTTATA
Found at i:24877714 original size:33 final size:33
Alignment explanation
Indices: 24877681--24877741 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
24877671 GTAAAATTTA
24877681 TTATTAAAAT--TAAATTAAA-TATTAAATAAT
1 TTATTAAAATAATAAATTAAATTATTAAATAAT
*
24877711 TTATTAAAATAATAGATTAAATTATTAAATA
1 TTATTAAAATAATAAATTAAATTATTAAATA
24877742 TAAATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
32 8 0.30
33 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (33 bp):
TTATTAAAATAATAAATTAAATTATTAAATAAT
Found at i:24877744 original size:22 final size:21
Alignment explanation
Indices: 24877711--24877754 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
24877701 ATTAAATAAT
24877711 TTATTAAAAT-AATAGATTAAA
1 TTATTAAAATAAATA-ATTAAA
24877732 TTATTAAATATAAATAATTAAA
1 TTATTAAA-ATAAATAATTAAA
24877754 T
1 T
24877755 ATGTATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTAAAATAAATAATTAAA
Found at i:24879858 original size:3 final size:3
Alignment explanation
Indices: 24879852--24879915 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
24879842 AAAAGAAAAA
* * * *
24879852 AAG AAG AAG AAG AAG -AG GAG GAG GAG GAG AAG AAG AAG AAG AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
24879898 AA- AAA AAG AAG GAG AAG A
1 AAG AAG AAG AAG AAG AAG A
24879916 GACAAGTTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24885302 original size:39 final size:39
Alignment explanation
Indices: 24885259--24885389 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 39
24885249 TTTAAGCATG
* * *
24885259 TATCACATTACACATATAAACACATAACATTCAAGTATA
1 TATCACAATACTCATATAATCACATAACATTCAAGTATA
* *
24885298 TATCACAATACTCATATAATCACATAAGATTTAA-TCATA
1 TATCACAATACTCATATAATCACATAACATTCAAGT-ATA
* *
24885337 TATCACAATATTCATATAATCACATAACATTCAAGCATA
1 TATCACAATACTCATATAATCACATAACATTCAAGTATA
*
24885376 TATCAAAATACTCA
1 TATCACAATACTCA
24885390 AAAACATGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 78 0.99
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (39 bp):
TATCACAATACTCATATAATCACATAACATTCAAGTATA
Found at i:24888991 original size:15 final size:15
Alignment explanation
Indices: 24888973--24889012 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
24888963 AACCCTAATC
24888973 CTATTAGACACATCA
1 CTATTAGACACATCA
*
24888988 CTATCAGACACATCA
1 CTATTAGACACATCA
**
24889003 AAATTAGACA
1 CTATTAGACA
24889013 TTTATTCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (15 bp):
CTATTAGACACATCA
Found at i:24889471 original size:14 final size:14
Alignment explanation
Indices: 24889422--24889465 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24889412 TGCAAATGGC
* *
24889422 AAACATATTTGAAC
1 AAACATATTTAAAT
*
24889436 ACACAATATTTAAAT
1 AAAC-ATATTTAAAT
24889451 AAACATATTTAAAT
1 AAACATATTTAAAT
24889465 A
1 A
24889466 CTCATAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (14 bp):
AAACATATTTAAAT
Found at i:24894135 original size:37 final size:37
Alignment explanation
Indices: 24894094--24894169 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
24894084 TTATTACGAA
* * * *
24894094 GTCTTACCCGGATATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24894131 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24894168 GT
1 GT
24894170 GTTTAGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24894369 original size:47 final size:47
Alignment explanation
Indices: 24894291--24894752 Score: 719
Period size: 47 Copynumber: 9.7 Consensus size: 47
24894281 CCCTTCGGGA
* * * * * *
24894291 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24894338 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24894385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24894432 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24894479 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24894526 CGTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24894573 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24894620 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24894669 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24894718 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
24894753 AGAATCCTAA
Statistics
Matches: 387, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 292 0.75
49 94 0.24
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24899101 original size:40 final size:40
Alignment explanation
Indices: 24898710--24899092 Score: 597
Period size: 40 Copynumber: 9.6 Consensus size: 40
24898700 CCAGCATGAT
* * * * * * *
24898710 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*** *
24898750 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
*
24898790 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
24898830 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
24898870 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
24898910 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
24898950 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
24898990 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
24899030 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
24899070 TGCTCTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGTCCGGA
24899093 CATTTCACTC
Statistics
Matches: 321, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 319 0.99
41 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:24900356 original size:37 final size:37
Alignment explanation
Indices: 24900315--24900393 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
24900305 TTATTACGAA
* * *
24900315 GTCTTACCCGGATATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
24900352 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
24900389 GTCTT
1 GTCTT
24900394 TAAAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:24900589 original size:47 final size:47
Alignment explanation
Indices: 24900511--24900972 Score: 737
Period size: 47 Copynumber: 9.7 Consensus size: 47
24900501 GCCCTTCGGA
* * * * * *
24900511 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24900558 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24900605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24900652 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24900699 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24900746 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24900793 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24900840 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24900889 CTTATCACATATATATACACTTTCACATTCATCACATCGGACATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24900938 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
24900973 AGAATCCTAA
Statistics
Matches: 392, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 297 0.76
49 94 0.24
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24908574 original size:48 final size:48
Alignment explanation
Indices: 24908503--24908601 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
24908493 GTTATAATTG
24908503 TAATATTGTGATAAGAAAGACAAAGGGAGAACAAAATGATAGTTTTAT
1 TAATATTGTGATAAGAAAGACAAAGGGAGAACAAAATGATAGTTTTAT
*
24908551 TAATATTGTGATAAGAAAGACAAATGGAGAACAAAATGATAGTTTTAT
1 TAATATTGTGATAAGAAAGACAAAGGGAGAACAAAATGATAGTTTTAT
24908599 TAA
1 TAA
24908602 AAAGATTGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.28
Consensus pattern (48 bp):
TAATATTGTGATAAGAAAGACAAAGGGAGAACAAAATGATAGTTTTAT
Found at i:24909926 original size:26 final size:26
Alignment explanation
Indices: 24909881--24909953 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
24909871 CTCTCACCCC
* *
24909881 AATTTTAACCCT-ATAAAATTTTGAT
1 AATTTTACCCCTGGTAAAATTTTGAT
24909906 AATTTTACCTCC-GGTAAAATTTTGAT
1 AATTTTACC-CCTGGTAAAATTTTGAT
*
24909932 GATTTTACCCCTGGTAAAATTT
1 AATTTTACCCCTGGTAAAATTT
24909954 CGAGAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 10 0.24
26 32 0.76
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTTTACCCCTGGTAAAATTTTGAT
Found at i:24910134 original size:6 final size:6
Alignment explanation
Indices: 24910097--24910121 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24910087 GGATTGCAAG
24910097 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
24910122 CCATTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:24912719 original size:28 final size:26
Alignment explanation
Indices: 24912670--24912754 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
24912660 CGAAATTTGG
** *
24912670 CATTAGAGAGTCCTGGTAGACTTCCA
1 CATTAGATCGTCCTGATAGACTTCCA
*
24912696 CAGTTAAGATCGTCCTGATGGACTTCCA
1 CA-TT-AGATCGTCCTGATAGACTTCCA
* * *
24912724 CATTAGATCGTCATGACAGAATTCCA
1 CATTAGATCGTCCTGATAGACTTCCA
24912750 CATTA
1 CATTA
24912755 AGGGTAATGC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 25 0.51
27 4 0.08
28 20 0.41
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (26 bp):
CATTAGATCGTCCTGATAGACTTCCA
Found at i:24919875 original size:17 final size:17
Alignment explanation
Indices: 24919834--24919877 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
24919824 TTTATATCTA
*
24919834 TATACATTTTCTATTTT
1 TATATATTTTCTATTTT
*
24919851 TATTTATTTTCTTATTTT
1 TATATATTTTC-TATTTT
24919869 T-TATATTTT
1 TATATATTTT
24919878 TTCAAACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (17 bp):
TATATATTTTCTATTTT
Found at i:24921761 original size:33 final size:30
Alignment explanation
Indices: 24921716--24921818 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 30
24921706 AGTAATAGTC
* *
24921716 TGGGCCTGAGCCCTATTCAGTAGCAGTACAGTG
1 TGGGCCTTAGCCCAATTCAGTAGCAGT---GTG
24921749 TGGGCCTTAGCCCAATAT-AGTAGCAGTGTG
1 TGGGCCTTAGCCCAAT-TCAGTAGCAGTGTG
* * *
24921779 TGGGCCTTAGCCCAATACAGTAACA--GAG
1 TGGGCCTTAGCCCAATTCAGTAGCAGTGTG
24921807 TGGGCCTTAGCC
1 TGGGCCTTAGCC
24921819 GAATATAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.22
30 25 0.40
33 23 0.37
34 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (30 bp):
TGGGCCTTAGCCCAATTCAGTAGCAGTGTG
Found at i:24921782 original size:30 final size:30
Alignment explanation
Indices: 24921746--24921833 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
24921736 TAGCAGTACA
*
24921746 GTGTGGGCCTTAGCCCAATATAGTAGCAGT
1 GTGTGGGCCTTAGCCCAATATAGTAACAGT
*
24921776 GTGTGGGCCTTAGCCCAATACAGTAACA--
1 GTGTGGGCCTTAGCCCAATATAGTAACAGT
* *
24921804 GAGTGGGCCTTAGCCGAATATAGTAACAGT
1 GTGTGGGCCTTAGCCCAATATAGTAACAGT
24921834 ACAATGCAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 25 0.49
30 26 0.51
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATATAGTAACAGT
Found at i:24921818 original size:28 final size:28
Alignment explanation
Indices: 24921739--24921833 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
24921729 TATTCAGTAG
24921739 CAGT-ACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
24921766 TAGTAGCAGTGTGTGGGCCTTAGCCCAATA
1 CAGTAACA--GTGTGGGCCTTAGCCCAATA
* *
24921796 CAGTAACAGAGTGGGCCTTAGCCGAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
24921824 TAGTAACAGT
1 CAGTAACAGT
24921834 ACAATGCAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.05
28 28 0.49
30 26 0.46
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:24922003 original size:26 final size:26
Alignment explanation
Indices: 24921934--24922010 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
24921924 CCAATACACC
*
24921934 AATATCGCAACAAAGCTGCCAGTAAT
1 AATAACGCAACAAAGCTGCCAGTAAT
* * * *
24921960 AATGATGCAGCAACGCTGCCAGTAAT
1 AATAACGCAACAAAGCTGCCAGTAAT
* *
24921986 AGTAACGCAACAAAGCTGCAAGTAA
1 AATAACGCAACAAAGCTGCCAGTAA
24922011 CAGTGTATGT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (26 bp):
AATAACGCAACAAAGCTGCCAGTAAT
Found at i:24922221 original size:27 final size:27
Alignment explanation
Indices: 24922191--24922574 Score: 466
Period size: 27 Copynumber: 14.2 Consensus size: 27
24922181 TATAATAGTT
* * *
24922191 ATTTTACGCTTCGGGGGTATTTCGGCC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
** *
24922218 ATTTTACCCTTCGAGGGTATTTCAATT
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* **
24922245 ATTTTACCCTTCAAGGGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
24922272 ATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
24922299 ATTTTACCCTT-TAGGGGTATTTCGGTC
1 ATTTTACCCTTCGA-GGGTATTTCGGTC
* *
24922326 ATTTTACCTTTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* ** *
24922353 ATTTTACCTTTTAAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
24922380 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
24922407 ATTTTACCGTTCG-GGAGTATTTCGTTC
1 ATTTTACCCTTCGAGG-GTATTTCGGTC
* *
24922434 ATTTTACCCTTTGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
24922461 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
*
24922488 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* *
24922515 ATTTTACCTTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
* * *
24922542 ATTTCACCCTTCGGGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTC
24922569 ATTTTA
1 ATTTTA
24922575 GACCCATTCC
Statistics
Matches: 311, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 305 0.98
28 3 0.01
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTC
Found at i:24927084 original size:53 final size:53
Alignment explanation
Indices: 24926994--24927218 Score: 202
Period size: 53 Copynumber: 4.2 Consensus size: 53
24926984 TTTCATCTCC
** * * *
24926994 TAGGGGTATAACGATAATTTTACCCT-TCGAGGGTATTTTGGTAATTTTACCTTT
1 TAGGGGTATTTCGGTAA-TTTACCCTAT-GAGGGTATTTTGGTAATTCTACCTTA
* * * * *
24927048 TAGGGGTATTTTGGTAATTTTCCCT-TCGAGGGTATTTCGGTCATTCTACCCTA
1 TAGGGGTATTTCGGTAATTTACCCTAT-GAGGGTATTTTGGTAATTCTACCTTA
* * * * * *
24927101 TGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTTAGTTATTCTACCTTA
1 TAGGGGTATTTCGGTAATT-TACCCTATGAGGGTATTTTGGTAATTCTACCTTA
* * ** *
24927155 TAGAGGTATTTCGGTCATTTACCCTATGAGGGTATTTTGGTCTTTCTACCCTA
1 TAGGGGTATTTCGGTAATTTACCCTATGAGGGTATTTTGGTAATTCTACCTTA
*
24927208 CAGGGGTATTT
1 TAGGGGTATTT
24927219 TAGTGCAGAT
Statistics
Matches: 139, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 83 0.60
54 55 0.40
55 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (53 bp):
TAGGGGTATTTCGGTAATTTACCCTATGAGGGTATTTTGGTAATTCTACCTTA
Found at i:24927138 original size:80 final size:80
Alignment explanation
Indices: 24927049--24927222 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 80
24927039 TTTACCTTTT
* * * * *
24927049 AGGGGTATTTTGGTAATTTTCCCTTCGAG-GGTATTTCGGTCATTCTACCCTATGGGGGTATTTC
1 AGGGGTATTTTAGTAATTCTACCTTAGAGAGGTATTTCGGTCATT-TACCCTATGAGGGTATTTC
*
24927113 GATCATTCTACCCTAT
65 GATCATTCTACCCTAC
* * * *
24927129 GGGGGTATTTTAGTTATTCTACCTTATAGAGGTATTTCGGTCATTTACCCTATGAGGGTATTTTG
1 AGGGGTATTTTAGTAATTCTACCTTAGAGAGGTATTTCGGTCATTTACCCTATGAGGGTATTTCG
* *
24927194 GTCTTTCTACCCTAC
66 ATCATTCTACCCTAC
24927209 AGGGGTATTTTAGT
1 AGGGGTATTTTAGT
24927223 GCAGATACAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 65 0.81
81 15 0.19
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTAGTAATTCTACCTTAGAGAGGTATTTCGGTCATTTACCCTATGAGGGTATTTCG
ATCATTCTACCCTAC
Found at i:24927186 original size:107 final size:107
Alignment explanation
Indices: 24927024--24927218 Score: 266
Period size: 107 Copynumber: 1.8 Consensus size: 107
24927014 TACCCTTCGA
* * * * * *
24927024 GGGTATTTTGGTAATTTTACCTTTTAGGGGTATTTTGGTAATTTTCCCTTCGAGGGTATTTCGGT
1 GGGTATTTTAGTAATTCTACCTTATAGAGGTATTTCGGTAATTTACCCTTCGAGGGTATTTCGGT
**
24927089 CATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGG
66 CATTCTACCCTACAGGGGTATTTCGATCATTCTACCCTATGG
* * *
24927131 GGGTATTTTAGTTATTCTACCTTATAGAGGTATTTCGGTCATTTACCCTAT-GAGGGTATTTTGG
1 GGGTATTTTAGTAATTCTACCTTATAGAGGTATTTCGGTAATTTACCCT-TCGAGGGTATTTCGG
*
24927195 TCTTTCTACCCTACAGGGGTATTT
65 TCATTCTACCCTACAGGGGTATTT
24927219 TAGTGCAGAT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
107 74 0.99
108 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (107 bp):
GGGTATTTTAGTAATTCTACCTTATAGAGGTATTTCGGTAATTTACCCTTCGAGGGTATTTCGGT
CATTCTACCCTACAGGGGTATTTCGATCATTCTACCCTATGG
Found at i:24927219 original size:27 final size:27
Alignment explanation
Indices: 24927024--24927218 Score: 164
Period size: 27 Copynumber: 7.3 Consensus size: 27
24927014 TACCCTTCGA
* * * * *
24927024 GGGTATTTTGGTAATTTTACCTTTTAG
1 GGGTATTTCGGTCATTCTACCCTATAG
* * * *
24927051 GGGTATTTTGGTAATT-TTCCCT-TCG
1 GGGTATTTCGGTCATTCTACCCTATAG
*
24927076 AGGGTATTTCGGTCATTCTACCCTATGG
1 -GGGTATTTCGGTCATTCTACCCTATAG
* *
24927104 GGGTATTTCGATCATTCTACCCTATGG
1 GGGTATTTCGGTCATTCTACCCTATAG
** * *
24927131 GGGTATTTTAGTTATTCTACCTTATAG
1 GGGTATTTCGGTCATTCTACCCTATAG
*
24927158 AGGTATTTCGGTCATT-TACCCTAT-G
1 GGGTATTTCGGTCATTCTACCCTATAG
* * *
24927183 AGGGTATTTTGGTCTTTCTACCCTACAG
1 -GGGTATTTCGGTCATTCTACCCTATAG
24927211 GGGTATTT
1 GGGTATTT
24927219 TAGTGCAGAT
Statistics
Matches: 139, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.02
26 38 0.27
27 95 0.68
28 3 0.02
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTCATTCTACCCTATAG
Found at i:24933059 original size:17 final size:17
Alignment explanation
Indices: 24933037--24933071 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24933027 TGCACTAACC
*
24933037 TAAAAATGTAATGAAAA
1 TAAAAATGGAATGAAAA
24933054 TAAAAATGGAATGAAAA
1 TAAAAATGGAATGAAAA
24933071 T
1 T
24933072 GTATACTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (17 bp):
TAAAAATGGAATGAAAA
Found at i:24939005 original size:21 final size:21
Alignment explanation
Indices: 24938966--24939005 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24938956 TACATCAAAT
**
24938966 TTTGATGTGGATGTGTCTGGC
1 TTTGATGTGGATGCATCTGGC
*
24938987 TTTGTTGTGGATGCATCTG
1 TTTGATGTGGATGCATCTG
24939006 AGTGTGCGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.10, G:0.35, T:0.45
Consensus pattern (21 bp):
TTTGATGTGGATGCATCTGGC
Found at i:24942729 original size:22 final size:22
Alignment explanation
Indices: 24942704--24942746 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24942694 TAAAATTTGG
* *
24942704 GCCCACATGGCCTACTTGGCCA
1 GCCCACATGGCCCACATGGCCA
*
24942726 GCCCATATGGCCCACATGGCC
1 GCCCACATGGCCCACATGGCC
24942747 GGATAGATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.42, G:0.23, T:0.16
Consensus pattern (22 bp):
GCCCACATGGCCCACATGGCCA
Found at i:24944646 original size:21 final size:20
Alignment explanation
Indices: 24944620--24944669 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
24944610 GTTTGTGTAA
24944620 TTAAATTGTACACT-ATATGTT
1 TTAAATTGTA-A-TGATATGTT
24944641 TTAAATTG-AATGATATGTT
1 TTAAATTGTAATGATATGTT
24944660 TGTAAATTGT
1 T-TAAATTGT
24944670 GTAATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 8 0.31
21 8 0.31
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (20 bp):
TTAAATTGTAATGATATGTT
Found at i:24944872 original size:24 final size:25
Alignment explanation
Indices: 24944835--24944901 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
24944825 TCTTGTTATT
* * *
24944835 TAGCTCAGAGGAGCTTACCAATT-A
1 TAGCTCATATGAGCATACCAATTCA
* *
24944859 TAGCTCGTATGAGCATACCGATTCA
1 TAGCTCATATGAGCATACCAATTCA
*
24944884 TAGCTTATATGAGCATAC
1 TAGCTCATATGAGCATAC
24944902 ATGTATTGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (25 bp):
TAGCTCATATGAGCATACCAATTCA
Found at i:24952947 original size:26 final size:26
Alignment explanation
Indices: 24952902--24952954 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
24952892 TAATAGTTTT
24952902 AGAATATCATAACATATATCAATTTC
1 AGAATATCATAACATATATCAATTTC
* * *
24952928 AGAATATCATAGCATGTATCAGTTTC
1 AGAATATCATAACATATATCAATTTC
24952954 A
1 A
24952955 AAACATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (26 bp):
AGAATATCATAACATATATCAATTTC
Found at i:24959045 original size:102 final size:102
Alignment explanation
Indices: 24958856--24959053 Score: 283
Period size: 102 Copynumber: 1.9 Consensus size: 102
24958846 TGACAAAATC
* **
24958856 TCAATACCAAACTCAACCTCCCTATCTGAAGGCATAACCAGCAACTTCTCGGGAAAAACATTTGA
1 TCAATACCAAACTCAACCTCCCTATCTGAAGCCATAACCAGCAACTTCTCGGGAAAAACATTCAA
*
24958921 AAATTCTCTAATTGTCAAAATATCCACAACAAAAGAT
66 AAATTCTCAAATTGTCAAAATATCCACAACAAAAGAT
*
24958958 TCAATACCAAACTCAACCTCCCTAAT-TGAAGCCA-ACCCCAGCAACTTCTCGGGAAAAACATTC
1 TCAATACCAAACTCAACCTCCCT-ATCTGAAGCCATA-ACCAGCAACTTCTCGGGAAAAACATTC
* * * *
24959021 AAAAATTCTCAAATTTTTAGAATATCCCCAACA
64 AAAAATTCTCAAATTGTCAAAATATCCACAACA
24959054 GAAAAGTCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 1 0.01
102 82 0.96
103 2 0.02
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (102 bp):
TCAATACCAAACTCAACCTCCCTATCTGAAGCCATAACCAGCAACTTCTCGGGAAAAACATTCAA
AAATTCTCAAATTGTCAAAATATCCACAACAAAAGAT
Found at i:24962183 original size:29 final size:29
Alignment explanation
Indices: 24962150--24962265 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
24962140 TAGCACACGA
* *
24962150 TCTCACACACGCCTGTGTGGCCTACATGG
1 TCTCACACATGCCCGTGTGGCCTACATGG
** * *
24962179 TCTCACACATGTTCGTGTAGCCCACATGG
1 TCTCACACATGCCCGTGTGGCCTACATGG
*
24962208 TCTCACACATGCCCGTATGGTCC-ACATGG
1 TCTCACACATGCCCGTGTGG-CCTACATGG
24962237 TCTCACACATGCCCGTGTGGCCTACATGG
1 TCTCACACATGCCCGTGTGGCCTACATGG
24962266 CCCAATTAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
28 2 0.03
29 70 0.95
30 2 0.03
ACGTcount: A:0.19, C:0.34, G:0.22, T:0.25
Consensus pattern (29 bp):
TCTCACACATGCCCGTGTGGCCTACATGG
Found at i:24963554 original size:30 final size:30
Alignment explanation
Indices: 24963517--24963601 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
24963507 TAACCTCGAT
24963517 ATAATGTCAGCTTGTGTGAGCAACTCT-AC
1 ATAATGTCAGCTTGTGTGAGCAACTCTGAC
* * *
24963546 GGTAATGTCAGGTTGTGTGAGCAACCCTGAC
1 -ATAATGTCAGCTTGTGTGAGCAACTCTGAC
* * *
24963577 ATACTATCAGCTTGTGTGAGTAACT
1 ATAATGTCAGCTTGTGTGAGCAACT
24963602 TATTCCCGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (30 bp):
ATAATGTCAGCTTGTGTGAGCAACTCTGAC
Found at i:24971009 original size:13 final size:14
Alignment explanation
Indices: 24970973--24971009 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
24970963 TTCATTTAAT
24970973 TAATATTTTTTACA
1 TAATATTTTTTACA
*
24970987 -AATATATTTTACA
1 TAATATTTTTTACA
24971000 TAAT-TTTTTT
1 TAATATTTTTT
24971010 CATTCGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATATTTTTTACA
Found at i:24979059 original size:20 final size:20
Alignment explanation
Indices: 24979034--24979073 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24979024 AATACAAGGT
24979034 AAGGATACTGATTCTAAATC
1 AAGGATACTGATTCTAAATC
24979054 AAGGATACTGATTCTAAATC
1 AAGGATACTGATTCTAAATC
24979074 TTCAGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGGATACTGATTCTAAATC
Found at i:24981254 original size:50 final size:51
Alignment explanation
Indices: 24981179--24981279 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 51
24981169 CTCTAGAACC
* *
24981179 ATAAACATGAGAAAATGCCAGTGTGGC-TATATGTGGAATGACTATGATCA
1 ATAAACAAGAGAAAATGCCAGTGTGGCATATATGTAGAATGACTATGATCA
24981229 ATAAACAAGAGAAAATGCCAGTGTGGCATATATGTAGAATGACTATGATCA
1 ATAAACAAGAGAAAATGCCAGTGTGGCATATATGTAGAATGACTATGATCA
24981280 TGATACATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 26 0.54
51 22 0.46
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (51 bp):
ATAAACAAGAGAAAATGCCAGTGTGGCATATATGTAGAATGACTATGATCA
Found at i:24981508 original size:49 final size:50
Alignment explanation
Indices: 24981405--24981631 Score: 237
Period size: 49 Copynumber: 4.6 Consensus size: 50
24981395 CAAACACGAC
* * * *
24981405 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAACCCTCTGTGGCGC
1 ATTATTTAGGAAGCCTTTGTGGCTAATCTTTTAAAAAGCCTCTGTGGCGT
* * * * *
24981455 ATTATTTGGGAAGCCTTTGCGGCTAAT-GTTTGAAAAGCCTCTGTGGTGT
1 ATTATTTAGGAAGCCTTTGTGGCTAATCTTTTAAAAAGCCTCTGTGGCGT
* * * * * * *
24981504 ATTATCTGGGAAGCCTTTGTTGTTAATCTTTTAAAAAGACTTTGTGGTGCT
1 ATTATTTAGGAAGCCTTTGTGGCTAATCTTTTAAAAAGCCTCTGTGGCG-T
* *
24981555 -TT-TTCTAGGAAACATTTGTGGCTAATC-TTTAAAAAGCCTCTGTGGCGT
1 ATTATT-TAGGAAGCCTTTGTGGCTAATCTTTTAAAAAGCCTCTGTGGCGT
*
24981603 ATTATTTAGGAAGCCTTTTTGGCTAATCT
1 ATTATTTAGGAAGCCTTTGTGGCTAATCT
24981632 CCTTAAAATC
Statistics
Matches: 144, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 80 0.56
50 62 0.43
51 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (50 bp):
ATTATTTAGGAAGCCTTTGTGGCTAATCTTTTAAAAAGCCTCTGTGGCGT
Found at i:24981578 original size:99 final size:99
Alignment explanation
Indices: 24981405--24981631 Score: 276
Period size: 99 Copynumber: 2.3 Consensus size: 99
24981395 CAAACACGAC
* * * * *
24981405 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTGAAAACCCTCTGTGGCGCATTATTTGGGAAGCC
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTAAAAACACTCTGTGGCGCATTATTTAGGAAACA
* * *
24981470 TTTGCGGCTAATGTTTGAAAAGCCTCTGTGGTGT
66 TTTGCGGCTAATCTTTAAAAAGCCTCTGTGGCGT
* * * * * * *
24981504 ATTATCTGGGAAGCCTTTGTTGTTAATCTTTTAAAAAGACTTTGTGGTGC-TTTTTCTAGGAAAC
1 ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTAAAAACACTCTGTGGCGCATTATT-TAGGAAAC
*
24981568 ATTTGTGGCTAATCTTTAAAAAGCCTCTGTGGCGT
65 ATTTGCGGCTAATCTTTAAAAAGCCTCTGTGGCGT
* *
24981603 ATTATTTAGGAAGCCTTTTTGGCTAATCT
1 ATTATCTAGGAAGCCTTTGTGGCTAATCT
24981632 CCTTAAAATC
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 4 0.04
99 102 0.96
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (99 bp):
ATTATCTAGGAAGCCTTTGTGGCTAATCTTTTAAAAACACTCTGTGGCGCATTATTTAGGAAACA
TTTGCGGCTAATCTTTAAAAAGCCTCTGTGGCGT
Found at i:24988040 original size:20 final size:20
Alignment explanation
Indices: 24988017--24988065 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
24988007 ATTGCTTCAA
24988017 GTATCGATATACGACTTGAT
1 GTATCGATATACGACTTGAT
* * *
24988037 GTATCGATATATGATTTTAT
1 GTATCGATATACGACTTGAT
24988057 GTATCGATA
1 GTATCGATA
24988066 CATTTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (20 bp):
GTATCGATATACGACTTGAT
Found at i:24988330 original size:13 final size:14
Alignment explanation
Indices: 24988312--24988341 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24988302 TAATATATTT
24988312 TTATTTTAAATA-A
1 TTATTTTAAATAGA
24988325 TTATTTTAAATAGA
1 TTATTTTAAATAGA
24988339 TTA
1 TTA
24988342 GTCGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTATTTTAAATAGA
Found at i:24989868 original size:24 final size:22
Alignment explanation
Indices: 24989829--24989885 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
24989819 CGAGGATATA
24989829 CAATCTT--AGATATGATATATG
1 CAATCTTAAAGATATGAT-TATG
*
24989850 CAATCTTAGAAGATATGATTTTG
1 CAATCTTA-AAGATATGATTATG
*
24989873 TAATCTTAAAGAT
1 CAATCTTAAAGAT
24989886 TTAATTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 7 0.23
22 5 0.16
23 10 0.32
24 9 0.29
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
CAATCTTAAAGATATGATTATG
Found at i:24989895 original size:21 final size:23
Alignment explanation
Indices: 24989836--24989895 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
24989826 ATACAATCTT
* *
24989836 AGATATGATATATGCAATCTTAGA
1 AGATATGA-ATTTGTAATCTTAGA
*
24989860 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
24989882 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
24989896 GATACCCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 10 0.32
24 8 0.26
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:24990080 original size:19 final size:21
Alignment explanation
Indices: 24990056--24990094 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24990046 ACTGTTTTCT
*
24990056 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
24990075 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
24990095 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:24990335 original size:3 final size:3
Alignment explanation
Indices: 24990315--24990357 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
24990305 ATTAATTTTG
* *
24990315 TTA TTT TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
24990358 ACCTACATAT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:24990618 original size:10 final size:10
Alignment explanation
Indices: 24990605--24990752 Score: 76
Period size: 12 Copynumber: 14.4 Consensus size: 10
24990595 TTTTACATAC
24990605 TTTTTT-AAT
1 TTTTTTAAAT
24990614 TTTTTTAAA-
1 TTTTTTAAAT
*
24990623 -TTTTAAAAT
1 TTTTTTAAAT
24990632 ATTTTTTAAAT
1 -TTTTTTAAAT
24990643 ACTTTTTTAAAT
1 --TTTTTTAAAT
*
24990655 TTTTTTTAA-
1 TTTTTTAAAT
*
24990664 -TTTTAAAAT
1 TTTTTTAAAT
*
24990673 ATTTTTAAAAT
1 -TTTTTTAAAT
*
24990684 ACTTTTTTAATT
1 --TTTTTTAAAT
*
24990696 TTTTTTTAA-
1 TTTTTTAAAT
*
24990705 -TTTTAAAAT
1 TTTTTTAAAT
*
24990714 ATTTTTAAAAT
1 -TTTTTTAAAT
24990725 ACTTTTTTAAAT
1 --TTTTTTAAAT
24990737 ACTTTTTTAAAT
1 --TTTTTTAAAT
24990749 TTTT
1 TTTT
24990753 AAAAAATTTT
Statistics
Matches: 111, Mismatches: 15, Indels: 25
0.74 0.10 0.17
Matches are distributed among these distances:
8 19 0.17
9 6 0.05
10 21 0.19
11 26 0.23
12 39 0.35
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:24990637 original size:11 final size:11
Alignment explanation
Indices: 24990623--24990768 Score: 80
Period size: 11 Copynumber: 13.9 Consensus size: 11
24990613 TTTTTTTAAA
24990623 TTTTAAAATAT
1 TTTTAAAATAT
*
24990634 TTTTTAAATACT
1 TTTTAAAATA-T
*
24990646 TTTTTAAAT-T
1 TTTTAAAATAT
* *
24990656 TTTT---TTAA
1 TTTTAAAATAT
24990664 TTTTAAAATAT
1 TTTTAAAATAT
24990675 TTTTAAAATACT
1 TTTTAAAATA-T
*
24990687 TTTT-TAAT-T
1 TTTTAAAATAT
** *
24990696 TTTT--TTTAA
1 TTTTAAAATAT
24990705 TTTTAAAATAT
1 TTTTAAAATAT
24990716 TTTTAAAATACT
1 TTTTAAAATA-T
*
24990728 TTTTTAAATACT
1 TTTTAAAATA-T
*
24990740 TTTT-TAA-AT
1 TTTTAAAATAT
*
24990749 TTTTAAAA-AA
1 TTTTAAAATAT
24990759 TTTTAAAATA
1 TTTTAAAATA
24990769 AAAATGGGCC
Statistics
Matches: 107, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
7 1 0.01
8 5 0.05
9 14 0.13
10 17 0.16
11 39 0.36
12 31 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24990638 original size:41 final size:41
Alignment explanation
Indices: 24990573--24990768 Score: 281
Period size: 41 Copynumber: 4.8 Consensus size: 41
24990563 AAATATATTT
* *
24990573 ATTTTTTT-AATTTTAAAATATTTTTTACATACTTTTTT-A
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
24990612 ATTTTTTTAAATTTTAAAATATTTTTTAAATACTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
24990653 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
* *
24990694 TTTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
24990735 ATACTTTTTTAAATTTTTAAAA-AATTTTAAAATA
1 AT--TTTTTTAAA-TTTTAAAATATTTTTAAAATA
24990769 AAAATGGGCC
Statistics
Matches: 145, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
39 8 0.06
40 29 0.20
41 81 0.56
43 19 0.13
44 8 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (41 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:24990640 original size:12 final size:11
Alignment explanation
Indices: 24990583--24990752 Score: 107
Period size: 11 Copynumber: 16.3 Consensus size: 11
24990573 ATTTTTTTAA
*
24990583 TTTTAAAATAT
1 TTTTTAAATAT
*
24990594 TTTTTACATACT
1 TTTTTAAATA-T
24990606 TTTTT-AAT-T
1 TTTTTAAATAT
24990615 TTTTT-AA-A-
1 TTTTTAAATAT
*
24990623 TTTTAAAATAT
1 TTTTTAAATAT
24990634 TTTTTAAATACT
1 TTTTTAAATA-T
24990646 TTTTTAAAT-T
1 TTTTTAAATAT
*
24990656 TTTTT---TAA
1 TTTTTAAATAT
*
24990664 TTTTAAAATAT
1 TTTTTAAATAT
*
24990675 TTTTAAAATACT
1 TTTTTAAATA-T
24990687 TTTTT-AAT-T
1 TTTTTAAATAT
* *
24990696 TTTTT--TTAA
1 TTTTTAAATAT
*
24990705 TTTTAAAATAT
1 TTTTTAAATAT
*
24990716 TTTTAAAATACT
1 TTTTTAAATA-T
24990728 TTTTTAAATACT
1 TTTTTAAATA-T
24990740 TTTTTAAAT-T
1 TTTTTAAATAT
24990750 TTT
1 TTT
24990753 AAAAAATTTT
Statistics
Matches: 129, Mismatches: 15, Indels: 31
0.74 0.09 0.18
Matches are distributed among these distances:
7 1 0.01
8 9 0.07
9 20 0.16
10 11 0.09
11 46 0.36
12 42 0.33
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTTAAATAT
Found at i:24990669 original size:17 final size:17
Alignment explanation
Indices: 24990647--24990680 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24990637 TTAAATACTT
* *
24990647 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
24990664 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
24990681 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:24990673 original size:30 final size:30
Alignment explanation
Indices: 24990634--24990697 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
24990624 TTTAAAATAT
* * *
24990634 TTTTTAAATACTTTTTTAAAT-TTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
24990664 TTTTAAAATATTTTTAAAATACTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAA
24990694 TTTT
1 TTTT
24990698 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:24990731 original size:30 final size:30
Alignment explanation
Indices: 24990675--24990734 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24990665 TTTAAAATAT
* **
24990675 TTTTAAAATACTTTTTTAATTTTTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTTTAA
24990705 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTT-AAATACTTTTTTAA
24990735 ATACTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAATACTTTTTTAA
Found at i:24992735 original size:15 final size:16
Alignment explanation
Indices: 24992715--24992747 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24992705 CATTTTTTGT
24992715 TTCGA-TTATAATTAC
1 TTCGATTTATAATTAC
*
24992730 TTCGATTTGTAATTAC
1 TTCGATTTATAATTAC
24992746 TT
1 TT
24992748 TATTGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (16 bp):
TTCGATTTATAATTAC
Found at i:24995065 original size:9 final size:9
Alignment explanation
Indices: 24994987--24995065 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
24994977 TTATTTTTTA
24994987 AAAAATT-T
1 AAAAATTAT
24994995 AAAAATTCA-
1 AAAAATT-AT
24995004 AAAAAGTTAAT
1 AAAAA-TT-AT
24995015 AAAAATTATTT
1 AAAAATTA--T
*
24995026 TAAAA-T-T
1 AAAAATTAT
24995033 AAAAATTAT
1 AAAAATTAT
*
24995042 TAAAATGTAT
1 AAAAAT-TAT
24995052 AAAAATTAT
1 AAAAATTAT
24995061 AAAAA
1 AAAAA
24995066 AATTAATTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.09
8 8 0.14
9 20 0.35
10 14 0.25
11 10 0.18
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24996879 original size:124 final size:126
Alignment explanation
Indices: 24996671--24996990 Score: 439
Period size: 124 Copynumber: 2.5 Consensus size: 126
24996661 TAAGATAAAA
* * * * * * *
24996671 TCAAAGCAGGATGATTTATCAGAAGGATTTTTGAAGTTGCGCCCACGTGTACGCGCTTTTGCTAC
1 TCAAA-CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
* * *
24996736 AATAAGTCCTTGAAAAATAATTTCGAGTTGA-GTTTCTGAGAAAATAGT-TTAAAAAACGCT
65 AGTAGGTCCTTGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCT
24996796 TCAAACAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
1 TCAAACAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
* *
24996861 GTAGGTCC-TGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAAACGCT
66 GTAGGTCCTTG-AAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCT
* * * * **
24996922 GCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCTCGCCCACGTGGACATGCTTTTGCTACA
1 TCAAACAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
24996987 GTAG
66 GTAG
24996991 CATGTTTGGG
Statistics
Matches: 174, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
123 2 0.01
124 78 0.45
125 20 0.11
126 74 0.43
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (126 bp):
TCAAACAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
GTAGGTCCTTGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCT
Found at i:25000209 original size:25 final size:21
Alignment explanation
Indices: 25000159--25000306 Score: 117
Period size: 21 Copynumber: 7.0 Consensus size: 21
25000149 TATCAAATTA
25000159 TATTTAAGTTAAGGGTTAGGG
1 TATTTAAGTTAAGGGTTAGGG
*
25000180 T-TTTAAGTTAAGTGTTAGGG
1 TATTTAAGTTAAGGGTTAGGG
* * *
25000200 T-TTTTATTTAAGGGTT-GCG
1 TATTTAAGTTAAGGGTTAGGG
* **
25000219 -ATTTTAAAGTTATGGGTTACAG
1 TA-TTT-AAGTTAAGGGTTAGGG
*
25000241 TTTTTAAGTTAAGGGTTTAGGG
1 TATTTAAGTTAAGGG-TTAGGG
* *
25000263 T-TTAAAAGTTAATGGTTAGGG
1 TATT-TAAGTTAAGGGTTAGGG
*
25000284 TTTTTAAGTTAAGGGTTTAGGG
1 TATTTAAGTTAAGGG-TTAGGG
25000306 T
1 T
25000307 TTAGGGTTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.02
20 34 0.34
21 37 0.37
22 27 0.27
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (21 bp):
TATTTAAGTTAAGGGTTAGGG
Found at i:25000265 original size:22 final size:22
Alignment explanation
Indices: 25000161--25000971 Score: 435
Period size: 22 Copynumber: 36.0 Consensus size: 22
25000151 TCAAATTATA
25000161 TTTAAGTTAAGGG-TTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000181 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25000202 TTT-ATTTAAGGG-TT-GCGATT
1 TTTAAGTTAAGGGTTTAG-GGTT
* * **
25000222 TTAAAGTTATGGG-TTACAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25000243 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
** *
25000265 TAAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25000286 TTTAAGTTAAGGGTTTAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGG--T----T
*
25000314 TTTAAGTTAAGGGTTTATGGTTTAGGGT
1 TTTAAGTTAAGGGTTTA--G----GGTT
* * *
25000342 TTTAAGGTTTTAAGGTTTAAGGTT
1 TTTAA-G-TTAAGGGTTTAGGGTT
* * * ***
25000366 TTTAATTTAAAGGTATACTATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000388 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25000410 TTAAAATTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* ***
25000431 TTTAATTTAAGGG-TTACATTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000452 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25000474 TTAAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000496 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25000518 TTTAAGTTAAAGGTTTTAAGG--
1 TTTAAGTT-AAGGGTTTAGGGTT
***** *
25000539 TTTAAGCTTTTTAATTTAAAGGTT
1 TTTAAG-TTAAGGGTTT-AGGGTT
* * *
25000563 TACGGTT--TTTAAGTTAAGGGTTTAGGATT
1 T----TTAAGTTAAG----GGT-TTAGGGTT
*
25000592 TTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
25000613 TTTGATTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * * *
25000635 TTATGATTTTACGGTTTAAAGGTT
1 TT-TAAGTTAAGGGTTT-AGGGTT
**
25000659 TATGGT-TTTTAAGTTATGGTTTAGGGTT
1 T-T--TAAGTTAAG----GGTTTAGGGTT
25000687 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000709 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25000730 TTTAATTTATA-GATTTAGGG-T
1 TTTAAGTTA-AGGGTTTAGGGTT
* **
25000751 TTTAAGGTTTTAGGGTTTAAAGTT
1 TTTAA-G-TTAAGGGTTTAGGGTT
* *
25000775 TTTAATTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000797 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000819 TTTAAGTTAAGGGTTT-TGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000840 TTTAAGGTTTTAA-GGTTTAAGGTT
1 TTTAA-G--TTAAGGGTTTAGGGTT
* **
25000864 TTTAATTTAAGGGTTTAAAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000886 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000908 TTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
25000929 TTTAAGTTAAGAGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
25000951 TTTAAGTTTAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
25000972 AGGGTTTTTA
Statistics
Matches: 618, Mismatches: 114, Indels: 117
0.73 0.13 0.14
Matches are distributed among these distances:
19 1 0.00
20 32 0.05
21 167 0.27
22 267 0.43
23 36 0.06
24 36 0.06
25 10 0.02
26 6 0.01
27 6 0.01
28 32 0.05
29 11 0.02
30 12 0.02
34 2 0.00
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:25000283 original size:28 final size:27
Alignment explanation
Indices: 25000252--25000343 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 27
25000242 TTTTAAGTTA
*
25000252 AGGGTTTAGGGTTTAAAAGTTAATGG-TT
1 AGGGTTTAGGGTTT--AAGTTAAGGGTTT
25000280 AGGGTTT-----TTAAGTTAAGGGTTT
1 AGGGTTTAGGGTTTAAGTTAAGGGTTT
25000302 AGGGTTTAGGGTTTTAAGTTAAGGGTTT
1 AGGGTTTAGGG-TTTAAGTTAAGGGTTT
*
25000330 ATGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
25000344 TAAGGTTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
21 9 0.16
22 9 0.16
23 2 0.04
27 3 0.05
28 32 0.58
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (27 bp):
AGGGTTTAGGGTTTAAGTTAAGGGTTT
Found at i:25000287 original size:43 final size:44
Alignment explanation
Indices: 25000161--25000965 Score: 509
Period size: 43 Copynumber: 17.8 Consensus size: 44
25000151 TCAAATTATA
* *
25000161 TTTAAGTTAAGGG-TTAGGG-TTTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
25000202 TTT-ATTTAAGGG-TT-GCGATTTTAAAGTTATGGG-TTACA-GTT
1 TTTAAGTTAAGGGTTTAG-GGTTTTTAAGTTAAGGGTTTA-AGGTT
** * *
25000243 TTTAAGTTAAGGGTTTAGGGTTTAAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
*
25000286 TTTAAGTTAAGGGTTTAGGGTTTAGGGTTTTAAGTTAAGGGTTTATGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGG--T----TTTTAAGTTAAGGGTTTA------AGGTT
* * * * ***
25000342 TTTAAGGTTTTAA-GGTTTAAGGTTTTTAATTTAAAGGTATACTATT
1 TTTAA-G--TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
25000388 TTTAAGTTAAGGGTTTAAGGTTTTAAAATTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* ***
25000431 TTTAATTTAAGGG-TTACATTTTTTAAGTTAAGGGTTT-AGGATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TT
* * * *
25000474 TTAAAGTTAAGGGTTTAGGATTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
25000518 TTTAAGTTAAAGGTTTTAAGGTTTAAGCTTTTTAATTTAAAGGTTTACGGTT
1 TTTAAGTT-AAGGGTTT-AGG-----G-TTTTTAAGTTAAGGGTTTAAGGTT
* * *
25000570 TTTAAGTTAAGGGTTTAGGATTTTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * * *
25000613 TTTGATTTAAGGGTTTAAGGTTTTATGATTTTACGGTTTAAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTT-T-A----A--G-TTAAGGGTTTAAGGTT
* *
25000666 TTTAAGTT-ATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * *
25000709 TTTAAGTTAAGGG-TTAAGGTTTTTAATTTATA-GATTT-AGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTA-AGGGTTTAAGGTT
* ** * * *
25000751 TTTAAGGTTTTAGGGTTTAAAGTTTTTAATTTAATGGTTTAGGGTT
1 TTTAA-G-TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* *
25000797 TTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTT-TGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * *
25000840 TTTAAGGTTTTAA-GGTTTAAGGTTTTTAATTTAAGGGTTTAAAGTT
1 TTTAA-G--TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * *
25000886 TTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
* * *
25000929 TTTAAGTTAAGAGTTTAAGGTTTTTAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT
25000966 AGGGTTAGGG
Statistics
Matches: 603, Mismatches: 102, Indels: 115
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.00
40 11 0.02
41 23 0.04
42 34 0.06
43 196 0.33
44 126 0.21
45 58 0.10
46 30 0.05
49 12 0.02
50 7 0.01
51 9 0.01
52 61 0.10
53 13 0.02
56 9 0.01
57 1 0.00
58 8 0.01
59 4 0.01
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (44 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
Found at i:25000307 original size:7 final size:7
Alignment explanation
Indices: 25000295--25000366 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
25000285 TTTTAAGTTA
25000295 AGGGTTT
1 AGGGTTT
25000302 AGGGTTT
1 AGGGTTT
25000309 AGGGTTTT
1 AGGG-TTT
* *
25000317 A-AGTTA
1 AGGGTTT
25000323 AGGGTTT
1 AGGGTTT
*
25000330 ATGGTTT
1 AGGGTTT
25000337 AGGGTTTT
1 AGGG-TTT
*
25000345 AAGGTTTT
1 -AGGGTTT
*
25000353 AAGGTTT
1 AGGGTTT
*
25000360 AAGGTTT
1 AGGGTTT
25000367 TTAATTTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
6 3 0.06
7 36 0.69
8 10 0.19
9 3 0.06
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
AGGGTTT
Found at i:25000344 original size:28 final size:28
Alignment explanation
Indices: 25000274--25000347 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 28
25000264 TTAAAAGTTA
25000274 ATGG-TTAGGGTTTTTAAGTTAAGGGTTT
1 ATGGTTTAGGG-TTTTAAGTTAAGGGTTT
*
25000302 AGGGTTTAGGGTTTTAAGTTAAGGGTTT
1 ATGGTTTAGGGTTTTAAGTTAAGGGTTT
25000330 ATGGTTTAGGGTTTTAAG
1 ATGGTTTAGGGTTTTAAG
25000348 GTTTTAAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 37 0.86
29 6 0.14
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.45
Consensus pattern (28 bp):
ATGGTTTAGGGTTTTAAGTTAAGGGTTT
Found at i:25000350 original size:8 final size:8
Alignment explanation
Indices: 25000292--25000367 Score: 56
Period size: 8 Copynumber: 10.2 Consensus size: 8
25000282 GGTTTTTAAG
*
25000292 TTAAGGGT
1 TTAAGGTT
*
25000300 TT-AGGGT
1 TTAAGGTT
*
25000307 TTAGGGTT
1 TTAAGGTT
25000315 TTAA-G--
1 TTAAGGTT
*
25000320 TTAAGGGT
1 TTAAGGTT
*
25000328 TTATGG-T
1 TTAAGGTT
*
25000335 TTAGGGTT
1 TTAAGGTT
25000343 TTAAGGTT
1 TTAAGGTT
25000351 TTAAGG-T
1 TTAAGGTT
25000358 TTAAGGTT
1 TTAAGGTT
25000366 TT
1 TT
25000368 TAATTTAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.07
6 1 0.02
7 21 0.38
8 30 0.54
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (8 bp):
TTAAGGTT
Found at i:25000350 original size:15 final size:14
Alignment explanation
Indices: 25000286--25000366 Score: 76
Period size: 14 Copynumber: 5.7 Consensus size: 14
25000276 GGTTAGGGTT
*
25000286 TTTAA-GTTAAGGG
1 TTTAAGGTTTAGGG
*
25000299 TTTAGGGTTTAGGG
1 TTTAAGGTTTAGGG
*
25000313 TTTTAA-GTTAAGGG
1 -TTTAAGGTTTAGGG
*
25000327 TTTATGGTTTAGGG
1 TTTAAGGTTTAGGG
*
25000341 TTTTAAGGTTTTAAGG
1 -TTTAAGG-TTTAGGG
25000357 TTTAAGGTTT
1 TTTAAGGTTT
25000367 TTAATTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
13 8 0.15
14 24 0.44
15 17 0.31
16 6 0.11
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:25000367 original size:15 final size:15
Alignment explanation
Indices: 25000292--25000366 Score: 70
Period size: 15 Copynumber: 5.1 Consensus size: 15
25000282 GGTTTTTAAG
*
25000292 TTAAGGGTTTAGGGT
1 TTAAGGGTTTAAGGT
25000307 TT-AGGGTTTTAA-G-
1 TTAAGGG-TTTAAGGT
*
25000320 TTAAGGGTTTATGGT
1 TTAAGGGTTTAAGGT
25000335 TT-AGGGTTTTAAGGTT
1 TTAAGGG-TTTAAGG-T
25000351 TTAA-GGTTTAAGGT
1 TTAAGGGTTTAAGGT
25000365 TT
1 TT
25000367 TTAATTTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
13 6 0.12
14 17 0.34
15 21 0.42
16 5 0.10
17 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (15 bp):
TTAAGGGTTTAAGGT
Found at i:25000534 original size:15 final size:15
Alignment explanation
Indices: 25000514--25000563 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
25000504 AAGGGTTTAG
25000514 GGTTTTTAAGTTAAA
1 GGTTTTTAAGTTAAA
*
25000529 GG-TTTTAAGGTTTAA
1 GGTTTTTAA-GTTAAA
* *
25000544 GCTTTTTAATTTAAA
1 GGTTTTTAAGTTAAA
25000559 GGTTT
1 GGTTT
25000564 ACGGTTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (15 bp):
GGTTTTTAAGTTAAA
Found at i:25000537 original size:117 final size:115
Alignment explanation
Indices: 25000416--25000971 Score: 520
Period size: 117 Copynumber: 4.9 Consensus size: 115
25000406 GGTTTTAAAA
* * ** * *
25000416 TTAAGGGTTAGGGTTTTTAATTTAAGGGTTACATTTTTTAAGTTAAGGGTTTAGGATTTTAAAGT
1 TTAAGGGTTAAGGTTTTTAATTTAAGGTTTACGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGT
* *
25000481 TAAGGGTTTAGGATTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTT
66 TAAGGGTTTAGG-TTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGTT
* * *
25000533 TTAAGGTTTAAGCTTTTTAATTTAAAGGTTTACGGTTTTTAAGTTAAGGGTTTAGGATTTTTAAG
1 TTAAGGGTTAAGGTTTTTAATTT-AAGGTTTACGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAG
* * * * * *
25000598 TTAAGAG-TTAGGGTTTTTGATTTAAGGGTTTAAGGTTTTATGATTTTACGGTT
65 TTAAGGGTTTA-GGTTTTTAAGTTAAGGGTTTAGGGTTTT-T-AATTTAAGGTT
* * * * * *
25000651 TAAAGGTTTATGGTTTTTAAGTTATGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGT
1 TTAAGGGTTAAGGTTTTTAATTTAAGGTTTACGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGT
* * *
25000716 TAAGGGTTAAGGTTTTTAATTTATA-GATTTAGGG----T--TTTAAGGTT
66 TAAGGGTTTAGGTTTTTAAGTTA-AGGGTTTAGGGTTTTTAATTTAAGGTT
* * *
25000760 TT-AGGGTTTAAAGTTTTTAATTTAATGGTTTAGGGTTTTTAAGTTAAGAGTTTAGGGTTTTTAA
1 TTAAGGG-TTAAGGTTTTTAATTTAA-GGTTTACGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA
* * *
25000824 GTTAAGGGTTTTGGTTTTTAAGGTTTTAA-GGTTTAAGGTTTTTAATTTAAGGGT
64 GTTAAGGGTTTAGGTTTTTAA-G--TTAAGGGTTTAGGGTTTTTAATTTAAGGTT
* * *
25000878 TT-A-----AA-GTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGAG-TTAGGGTTTTTAAG
1 TTAAGGGTTAAGGTTTTTAATTTAA-GGTTTACGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAG
* *
25000935 TTAAGAGTTTAAGGTTTTTAAGTTTAGGG-TTAGGGTT
65 TTAAGGGTTT-AGGTTTTTAAGTTAAGGGTTTAGGGTT
25000972 AGGGTTTTTA
Statistics
Matches: 372, Mismatches: 48, Indels: 47
0.80 0.10 0.10
Matches are distributed among these distances:
108 13 0.03
109 25 0.07
110 80 0.22
111 44 0.12
112 11 0.03
113 3 0.01
116 1 0.00
117 108 0.29
118 86 0.23
119 1 0.00
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (115 bp):
TTAAGGGTTAAGGTTTTTAATTTAAGGTTTACGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGT
TAAGGGTTTAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGTT
Found at i:25000550 original size:30 final size:31
Alignment explanation
Indices: 25000502--25000563 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
25000492 GATTTTAAAG
* *
25000502 TTAAGGGTTTAGGGTTTTTAAGTTAAAGGTT
1 TTAAGGGTTTAAGCTTTTTAAGTTAAAGGTT
*
25000533 TTAA-GGTTTAAGCTTTTTAATTTAAAGGTT
1 TTAAGGGTTTAAGCTTTTTAAGTTAAAGGTT
25000563 T
1 T
25000564 ACGGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (31 bp):
TTAAGGGTTTAAGCTTTTTAAGTTAAAGGTT
Found at i:25000577 original size:96 final size:92
Alignment explanation
Indices: 25000436--25000971 Score: 397
Period size: 96 Copynumber: 5.9 Consensus size: 92
25000426 GGGTTTTTAA
* * * * * *
25000436 TTTAAGGGTTACATTTTTTAAGTTAAGGGTTTAGGATTTTAAAGTTAAGGGTTTAGGATTTTAAA
1 TTTAAGGTTTA-AGTTTTTAATTTAAAGGTTTAGG-TTTTTAAGTTAAGGGTTTAGGATTTTTAA
25000501 GTTAAGGGTTTAGGGTTTTTAAGTTAAAGG
64 GTTAAGGGTTTAGGGTTTTTAAGTT-AAGG
25000531 TTTTAAGGTTTAAGCTTTTTAATTTAAAGGTTTACGGTTTTTAAGTTAAGGGTTTAGGATTTTTA
1 -TTTAAGGTTTAAG-TTTTTAATTTAAAGGTTTA-GGTTTTTAAGTTAAGGGTTTAGGATTTTTA
* * *
25000596 AGTTAAGAG-TTAGGGTTTTTGATTTAAGGG
63 AGTTAAGGGTTTAGGGTTTTTAAGTTAA-GG
* * * * *
25000626 TTTAAGGTTTTATGATTTTACGGTTTAAAGGTTTATGGTTTTTAAGTT-ATGGTTTAGGGTTTTT
1 TTTAAGG-TTTAAGTTTTTA--ATTTAAAGGTTTA-GGTTTTTAAGTTAAGGGTTTAGGATTTTT
25000690 AAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
62 AAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * * * * *
25000721 GTTAA-G-----GTTTTTAATTTATAGATTTAGGGTTTTAAGGTTTTAGGGTTTA-AAGTTTTTA
1 TTTAAGGTTTAAGTTTTTAATTTAAAGGTTTAGGTTTTTAA-G-TTAAGGGTTTAGGA-TTTTTA
* *
25000779 ATTTAATGGTTTAGGGTTTTTAAGTTAAGAG
63 AGTTAAGGGTTTAGGGTTTTTAAGTTAAG-G
* * *
25000810 TTT-AGG-----GTTTTTAAGTTAAGGGTTTTGGTTTTTAAGGTTTTAA-GGTTTAAGG-TTTTT
1 TTTAAGGTTTAAGTTTTTAATTTAAAGGTTTAGGTTTTTAA-G--TTAAGGGTTT-AGGATTTTT
* **
25000867 AATTTAAGGGTTTAAAGTTTTTAAGTTAA-G
62 AAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* *
25000897 -----GGTTTAAGGTTTTTAAGTT-AAGAG-TTAGGGTTTTTAAGTTAAGAGTTTAAGG-TTTTT
1 TTTAAGGTTTAA-GTTTTTAATTTAAAG-GTTTA-GGTTTTTAAGTTAAGGGTTT-AGGATTTTT
*
25000954 AAGTTTAGGG-TTAGGGTT
62 AAGTTAAGGGTTTAGGGTT
25000972 AGGGTTTTTA
Statistics
Matches: 367, Mismatches: 48, Indels: 60
0.77 0.10 0.13
Matches are distributed among these distances:
83 2 0.01
85 8 0.02
86 21 0.06
87 24 0.07
88 52 0.14
89 86 0.23
90 5 0.01
94 15 0.04
95 51 0.14
96 101 0.28
97 2 0.01
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.48
Consensus pattern (92 bp):
TTTAAGGTTTAAGTTTTTAATTTAAAGGTTTAGGTTTTTAAGTTAAGGGTTTAGGATTTTTAAGT
TAAGGGTTTAGGGTTTTTAAGTTAAGG
Found at i:25000762 original size:16 final size:16
Alignment explanation
Indices: 25000743--25000778 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25000733 AATTTATAGA
*
25000743 TTTAGGGTTTTAAGGT
1 TTTAGGGTTTAAAGGT
*
25000759 TTTAGGGTTTAAAGTT
1 TTTAGGGTTTAAAGGT
25000775 TTTA
1 TTTA
25000779 ATTTAATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (16 bp):
TTTAGGGTTTAAAGGT
Found at i:25000775 original size:15 final size:16
Alignment explanation
Indices: 25000743--25000776 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
25000733 AATTTATAGA
*
25000743 TTTAGGGTTTTAAGGT
1 TTTAGGGTTTTAAAGT
25000759 TTTAGGG-TTTAAAGT
1 TTTAGGGTTTTAAAGT
25000774 TTT
1 TTT
25000777 TAATTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (16 bp):
TTTAGGGTTTTAAAGT
Found at i:25000845 original size:89 final size:86
Alignment explanation
Indices: 25000533--25000971 Score: 386
Period size: 89 Copynumber: 4.9 Consensus size: 86
25000523 GTTAAAGGTT
* * * * *
25000533 TTAAGGTTTAAGCTTTTTAATTTAAAGGTTTACGGTTTTTAAGTTAAGGGTTT-AGGATTTTTAA
1 TTAAGGTTTAAGGTTTTTAAGTTAAGGGTTT-TGGTTTTTAAGTTTAGGGTTTAAGG-TTTTTAA
* * * *
25000597 GTTAAGAG-TTAGGGTTTTTGAT
64 TTTAAGGGTTTAGGGTTTTTAAG
* * *
25000619 TTAAGGGTTTAAGGTTTTATGATTTTACGGTTTAAAGGTTTATGGTTTTTAAG-TTATGGTTTAG
1 TTAA-GGTTTAAGGTTTT-T-A----A--G-TTAAGGGTTT-TGGTTTTTAAGTTTAGGGTTTAA
*
25000683 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAG
55 GGTTTTTAATTTAAGGGTTTAGGGTTTTTAAG
* * * * * *
25000715 TTAAGGGTTAAGGTTTTTAATTTATA-GATTTAGGGTTTTAAGGTTTTAGGGTTTAAAGTTTTTA
1 TTAAGGTTTAAGGTTTTTAAGTTA-AGGGTTTTGGTTTTTAA-G-TTTAGGGTTTAAGGTTTTTA
*
25000779 ATTTAATGGTTTAGGGTTTTTAAG
63 ATTTAAGGGTTTAGGGTTTTTAAG
* *
25000803 TTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTTTGGTTTTTAAGGTTTTAAGGTTTAAGGTTTTTA
1 TTAAG-GTTTAAGGTTTTTAAGTTAAGGGTTTTGGTTTTTAA-G-TTTAGGGTTTAAGGTTTTTA
**
25000868 ATTTAAGGGTTTAAAGTTTTTAAG
63 ATTTAAGGGTTTAGGGTTTTTAAG
* ** * *
25000892 TTAAGGGTTTAAGGTTTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGAGTTTAAGGTTTTTAAG
1 TTAA-GGTTTAAGGTTTTTAAGTTAAGGGTTTTGGTTTTTAAGTTTAGGGTTTAAGGTTTTTAA-
25000957 TTT-AGGG-TTAGGGTT
64 TTTAAGGGTTTAGGGTT
25000972 AGGGTTTTTA
Statistics
Matches: 294, Mismatches: 39, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
85 8 0.03
86 18 0.06
87 35 0.12
88 49 0.17
89 108 0.37
90 1 0.00
93 2 0.01
94 1 0.00
95 33 0.11
96 39 0.13
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.48
Consensus pattern (86 bp):
TTAAGGTTTAAGGTTTTTAAGTTAAGGGTTTTGGTTTTTAAGTTTAGGGTTTAAGGTTTTTAATT
TAAGGGTTTAGGGTTTTTAAG
Found at i:25001281 original size:21 final size:21
Alignment explanation
Indices: 25001243--25001283 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25001233 TTATCCAGCT
*
25001243 TCCGGCGGCGGTTGTGGTTCC
1 TCCGGCGGCGATTGTGGTTCC
* *
25001264 TCCGGCGGTGATTTTGGTTC
1 TCCGGCGGCGATTGTGGTTC
25001284 TTCCAATAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.24, G:0.39, T:0.34
Consensus pattern (21 bp):
TCCGGCGGCGATTGTGGTTCC
Found at i:25001570 original size:18 final size:18
Alignment explanation
Indices: 25001544--25001586 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25001534 AACTCGAAAA
* *
25001544 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
25001562 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
25001580 AGGAAAC
1 AGGAAAC
25001587 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:25002465 original size:20 final size:20
Alignment explanation
Indices: 25002428--25002465 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25002418 TTTATTTTTA
*
25002428 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
25002448 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
25002466 TATCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:25003416 original size:22 final size:23
Alignment explanation
Indices: 25003391--25003450 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
25003381 TTAATTATGG
25003391 ATTTGAGAGAAAATTG-GAAGG-A
1 ATTTGAGAGAAAATTGAG-AGGAA
*
25003413 ATTTGAGAGTAAATTGAGAGGAA
1 ATTTGAGAGAAAATTGAGAGGAA
*
25003436 ATTTGAAAGAAAATT
1 ATTTGAGAGAAAATT
25003451 AGTTTGTGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (23 bp):
ATTTGAGAGAAAATTGAGAGGAA
Found at i:25003449 original size:12 final size:12
Alignment explanation
Indices: 25003391--25003450 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
25003381 TTAATTATGG
25003391 ATTTGAGAGAAA
1 ATTTGAGAGAAA
* *
25003403 ATTGGA-AG-GA
1 ATTTGAGAGAAA
*
25003413 ATTTGAGAGTAA
1 ATTTGAGAGAAA
*
25003425 A-TTGAGAGGAA
1 ATTTGAGAGAAA
*
25003436 ATTTGAAAGAAA
1 ATTTGAGAGAAA
25003448 ATT
1 ATT
25003451 AGTTTGTGGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 6 0.16
11 14 0.37
12 18 0.47
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
ATTTGAGAGAAA
Found at i:25007746 original size:13 final size:13
Alignment explanation
Indices: 25007728--25007752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25007718 CTGAAACGAG
25007728 TTAGGGATTTCAC
1 TTAGGGATTTCAC
25007741 TTAGGGATTTCA
1 TTAGGGATTTCA
25007753 GATCAGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (13 bp):
TTAGGGATTTCAC
Found at i:25008692 original size:7 final size:7
Alignment explanation
Indices: 25008680--25008711 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
25008670 CATTAGACTT
25008680 TAAACCC
1 TAAACCC
25008687 TAAACCC
1 TAAACCC
25008694 TAAACCC
1 TAAACCC
*
25008701 TTAACCC
1 TAAACCC
25008708 TAAA
1 TAAA
25008712 TTGACTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Done.