Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 77 of 85
Found at i:26701957 original size:17 final size:19
Alignment explanation
Indices: 26701935--26701969 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
26701925 AAAGTGATCT
26701935 TGAATTG-GAAA-TGAAAG
1 TGAATTGTGAAATTGAAAG
26701952 TGAATTGTGAAATTGAAA
1 TGAATTGTGAAATTGAAA
26701970 TACCCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (19 bp):
TGAATTGTGAAATTGAAAG
Found at i:26702081 original size:23 final size:22
Alignment explanation
Indices: 26702055--26702140 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 22
26702045 ACTTTACCGA
* *
26702055 TCAGGCACTTTATGTGTTGTATT
1 TCAGGCAC-TCATGTGTCGTATT
* *
26702078 TCAGGCACATCCTGTGTTGTA-T
1 TCAGGCAC-TCATGTGTCGTATT
*
26702100 T-AGGCACCTCGTGTGTCG--TT
1 TCAGGCA-CTCATGTGTCGTATT
*
26702120 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTCATGTGTCGTAT
26702141 ACTGATCAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 11 0.22
21 18 0.35
22 4 0.08
23 18 0.35
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (22 bp):
TCAGGCACTCATGTGTCGTATT
Found at i:26702453 original size:18 final size:18
Alignment explanation
Indices: 26702432--26702469 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26702422 TGTTATTGTT
26702432 AATTAA-TGAAACTTTAAG
1 AATTAATTGAAA-TTTAAG
*
26702450 AATTAATTGATATTTAAG
1 AATTAATTGAAATTTAAG
26702468 AA
1 AA
26702470 ATTGGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
AATTAATTGAAATTTAAG
Found at i:26705661 original size:129 final size:132
Alignment explanation
Indices: 26705420--26705674 Score: 345
Period size: 129 Copynumber: 2.0 Consensus size: 132
26705410 TTTTAGAAAT
* * *
26705420 AAATGCCGCTATAGATCATGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATTGATCGG
1 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATAGATCAG
* * *
26705485 GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATTAGGACCTTTAGCGGCGCTTTTCCC
66 GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCC
26705550 AC
131 AC
* * * **
26705552 AAATGCCGCTATTGCTCAGGACCTTTAGCGGCGCTTTTCCCAC-AA-A-CGTCGCTATAGATCAG
1 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATAGATCAG
* * ** *
26705614 GACCTTTAGCGGTGTTTTTTCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTT
66 GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTT
26705675 GATTACAAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 65 0.61
130 1 0.01
131 2 0.02
132 39 0.36
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (132 bp):
AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTATTCCCACAAACACCACCGCTATAGATCAG
GACCTTTAGCGGCGATTACTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCCC
AC
Found at i:26705691 original size:43 final size:43
Alignment explanation
Indices: 26705424--26705674 Score: 297
Period size: 43 Copynumber: 5.8 Consensus size: 43
26705414 AGAAATAAAT
* *
26705424 GCCGCTATAGATCATGACCTTTAGCGGCGCTATTCCCACAAACACC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC-AA-A-C
* * * * *
26705470 ACCGCTATTGATCGGGACCTTTAGCGGCG-ATTACTCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTC-CCACAAAC
* *
26705513 GCCGCTATAGATTAGGACCTTTAGCGGCGCTTTTCCCACAAAT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
26705556 GCCGCTATTGCTCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
26705599 GTCGCTATAGATCAGGACCTTTAGCGGTGTTTTTTCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
26705642 GCCGCTATAGCTCAAGACCTTTAGCGACGCTTT
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTT
26705675 GATTACAAAC
Statistics
Matches: 173, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
43 136 0.79
44 4 0.02
45 4 0.02
46 29 0.17
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:26710483 original size:7 final size:7
Alignment explanation
Indices: 26710471--26710551 Score: 67
Period size: 7 Copynumber: 11.3 Consensus size: 7
26710461 ACTAGTTAAT
26710471 CTAAACC
1 CTAAACC
26710478 CTAAACC
1 CTAAACC
*
26710485 ATAAA-C
1 CTAAACC
*
26710491 CTAATCC
1 CTAAACC
26710498 CTAAAACC
1 CT-AAACC
26710506 CTAAAACC
1 CT-AAACC
*
26710514 ATAAA-C
1 CTAAACC
*
26710520 CTAATCC
1 CTAAACC
26710527 CTAAAACC
1 CT-AAACC
26710535 CTAAAACC
1 CT-AAACC
*
26710543 ATAAACC
1 CTAAACC
26710550 CT
1 CT
26710552 TAACACATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
6 8 0.13
7 26 0.43
8 26 0.43
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:26710491 original size:14 final size:14
Alignment explanation
Indices: 26710472--26710647 Score: 99
Period size: 14 Copynumber: 12.3 Consensus size: 14
26710462 CTAGTTAATC
26710472 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
26710486 TAAA-CCTAATCCC
1 TAAACCCTAAACCA
26710499 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
* *
26710515 TAAA-CCTAATCCC
1 TAAACCCTAAACCA
26710528 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
*
26710544 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
* *
26710559 T-AACCTTTAAACCT
1 TAAACC-CTAAACCA
* * *
26710573 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* *
26710587 TAAACCATAAATCA
1 TAAACCCTAAACCA
*
26710601 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
26710615 TAATCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
26710630 TAATCCATAAACCT
1 TAAACCCTAAACCA
26710644 TAAA
1 TAAA
26710648 ATGGTAACAC
Statistics
Matches: 124, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
13 16 0.13
14 56 0.45
15 42 0.34
16 10 0.08
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:26710509 original size:8 final size:8
Alignment explanation
Indices: 26710496--26710551 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
26710486 TAAACCTAAT
26710496 CCCTAAAA
1 CCCTAAAA
26710504 CCCTAAAA
1 CCCTAAAA
*
26710512 CCAT-AAA
1 CCCTAAAA
*
26710519 -CCT-AAT
1 CCCTAAAA
26710525 CCCTAAAA
1 CCCTAAAA
26710533 CCCTAAAA
1 CCCTAAAA
*
26710541 CCAT-AAA
1 CCCTAAAA
26710548 CCCT
1 CCCT
26710552 TAACACATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
6 4 0.10
7 12 0.30
8 24 0.60
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (8 bp):
CCCTAAAA
Found at i:26710518 original size:29 final size:29
Alignment explanation
Indices: 26710473--26710549 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
26710463 TAGTTAATCT
26710473 AAACCCT-AAACCATAAACCTAATCCCTA
1 AAACCCTAAAACCATAAACCTAATCCCTA
26710501 AAACCCTAAAACCATAAACCTAATCCCTA
1 AAACCCTAAAACCATAAACCTAATCCCTA
26710530 AAACCCTAAAACCATAAACC
1 AAACCCTAAAACCATAAACC
26710550 CTTAACACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.15
29 41 0.85
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (29 bp):
AAACCCTAAAACCATAAACCTAATCCCTA
Found at i:26710597 original size:7 final size:7
Alignment explanation
Indices: 26710587--26710647 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
26710577 CCCCAGCCTT
26710587 TAAACCA
1 TAAACCA
*
26710594 TAAATCA
1 TAAACCA
26710601 TAAACCA
1 TAAACCA
26710608 TAAACCA
1 TAAACCA
* *
26710615 TAATCCC
1 TAAACCA
26710622 TAAACCCA
1 TAAA-CCA
*
26710630 TAATCCA
1 TAAACCA
*
26710637 TAAACCT
1 TAAACCA
26710644 TAAA
1 TAAA
26710648 ATGGTAACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 39 0.89
8 5 0.11
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:26710632 original size:15 final size:15
Alignment explanation
Indices: 26710599--26710642 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
26710589 AACCATAAAT
*
26710599 CATAAACCATAAA-C
1 CATAATCCATAAACC
*
26710613 CATAATCCCTAAACC
1 CATAATCCATAAACC
26710628 CATAATCCATAAACC
1 CATAATCCATAAACC
26710643 TTAAAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:26710687 original size:14 final size:14
Alignment explanation
Indices: 26710668--26710701 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26710658 CTAAACCTAT
*
26710668 CTAAACCAAATACC
1 CTAAACCAAAAACC
*
26710682 CTAAACCAAAAATC
1 CTAAACCAAAAACC
26710696 CTAAAC
1 CTAAAC
26710702 TATAGTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACCAAAAACC
Found at i:26710825 original size:30 final size:29
Alignment explanation
Indices: 26710785--26710847 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
26710775 TATAAATTAA
*
26710785 AAAAATCAGTAATGTACCCAAAAAACTTT
1 AAAAACCAGTAATGTACCCAAAAAACTTT
26710814 CAAAAACCAGTAATGTACCCAAAAAACTTT
1 -AAAAACCAGTAATGTACCCAAAAAACTTT
26710844 AAAA
1 AAAA
26710848 TTATTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (29 bp):
AAAAACCAGTAATGTACCCAAAAAACTTT
Found at i:26710986 original size:40 final size:41
Alignment explanation
Indices: 26710937--26711113 Score: 200
Period size: 41 Copynumber: 4.3 Consensus size: 41
26710927 TGCTCTTCAG
** *
26710937 AAAACGCCGCTAAA-AATAGAGCATTAGCGGCGCTTTTCCA
1 AAAACGCCGCTAAACCCTAGAGCATTAGCGGCGCTTTCCCA
* * *
26710977 AAAATGCCGCTAAAGCCCT-GAGTATTAGCAGCGCTTTCCCA
1 AAAACGCCGCTAAA-CCCTAGAGCATTAGCGGCGCTTTCCCA
* *
26711018 AAAACTCTGCTAAAGCCCTA-AGCATTAGCGGCGCTTTCCCA
1 AAAACGCCGCTAAA-CCCTAGAGCATTAGCGGCGCTTTCCCA
* * *
26711059 AAAACGCCGCTAAAGCCCT-GAGCATTAGTGGCGCTTTCTCT
1 AAAACGCCGCTAAA-CCCTAGAGCATTAGCGGCGCTTTCCCA
26711100 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
26711114 TCCCCGAAAC
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 13 0.11
41 103 0.88
42 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAACCCTAGAGCATTAGCGGCGCTTTCCCA
Found at i:26711011 original size:41 final size:41
Alignment explanation
Indices: 26710955--26711113 Score: 228
Period size: 41 Copynumber: 3.9 Consensus size: 41
26710945 GCTAAAAATA
* *
26710955 GAGCATTAGCGGCGCTTTTCCAAAAATGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
* * * *
26710996 GAGTATTAGCAGCGCTTTCCCAAAAACTCTGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
*
26711037 AAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
* * *
26711078 GAGCATTAGTGGCGCTTTCTCTAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
26711114 TCCCCGAAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
Found at i:26711276 original size:42 final size:42
Alignment explanation
Indices: 26711220--26711299 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
26711210 TAAAGCGCCT
* ** *
26711220 CTAAAGCTTGATCTTTAGTGGCGTTTTTATCCAAACGCACCA
1 CTAAAGCTCGATCTTTAGCAGCATTTTTATCCAAACGCACCA
* *
26711262 CTAATGCTCGATCTTTAGCAGTATTTTTATCCAAACGC
1 CTAAAGCTCGATCTTTAGCAGCATTTTTATCCAAACGC
26711300 CGCTAAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (42 bp):
CTAAAGCTCGATCTTTAGCAGCATTTTTATCCAAACGCACCA
Found at i:26715949 original size:32 final size:32
Alignment explanation
Indices: 26715908--26716293 Score: 695
Period size: 32 Copynumber: 12.1 Consensus size: 32
26715898 TCTGATAATA
26715908 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26715940 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
** * * *
26715972 ACATG-GGATGTTTCTTGT-CTAGACATGGCCTT
1 ACATGCTAAAG--CCATGTCCTAGACATGGCCTT
26716004 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716036 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716068 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716100 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716132 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716164 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716196 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716228 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716260 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
1 ACATGCTAAAGCCATGTCCTAGACATGGCCTT
26716292 AC
1 AC
26716294 CTCTAACTTT
Statistics
Matches: 340, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
31 6 0.02
32 328 0.96
33 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (32 bp):
ACATGCTAAAGCCATGTCCTAGACATGGCCTT
Found at i:26723357 original size:50 final size:50
Alignment explanation
Indices: 26723283--26723468 Score: 174
Period size: 50 Copynumber: 3.6 Consensus size: 50
26723273 TCTTGTACTT
* * * * **
26723283 CCAATGCCATATCCCATATATGGTCTTACATGAGAGTTCTCATATTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATTGGTG
* * * * * * *
26723333 CCCATGCCATGTCTCAGACATGGTCTTATAGGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATTGGTG
*
26723383 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACTTCAATGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T---TGGTG
**
26723439 CCAATTCCATGTCCCAGACATGGTCTTACA
1 CCAACGCCATGTCCCAGACATGGTCTTACA
26723469 AGGGATCTCT
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 76 0.70
53 1 0.01
56 32 0.29
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATTGGTG
Found at i:26733125 original size:24 final size:24
Alignment explanation
Indices: 26733077--26733127 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
26733067 CGGTCAATTG
* * *
26733077 TACTTCTACATTTGCTGCTACGTC
1 TACTTCTACATCTACTACTACGTC
*
26733101 TACTTCTACATCTACTACTATGTC
1 TACTTCTACATCTACTACTACGTC
26733125 TAC
1 TAC
26733128 AACTAAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.29, G:0.08, T:0.41
Consensus pattern (24 bp):
TACTTCTACATCTACTACTACGTC
Found at i:26738170 original size:24 final size:24
Alignment explanation
Indices: 26738125--26738170 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
26738115 AACAAAATAA
**
26738125 AATAACATAAAGTGACTTGAAATT
1 AATAACATAAAGTGACGAGAAATT
* *
26738149 AATAACATTAAGTGCCGAGAAA
1 AATAACATAAAGTGACGAGAAA
26738171 ACTCTAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (24 bp):
AATAACATAAAGTGACGAGAAATT
Found at i:26740370 original size:2 final size:2
Alignment explanation
Indices: 26740363--26740398 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26740353 GAATATGTAT
26740363 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
26740399 ATATTAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26743401 original size:14 final size:16
Alignment explanation
Indices: 26743374--26743405 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
26743364 TCTAAAACTT
26743374 AAAAATGATCAAATTA
1 AAAAATGATCAAATTA
26743390 AAAAAT-AT-AAATTA
1 AAAAATGATCAAATTA
26743404 AA
1 AA
26743406 TTACTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAAATGATCAAATTA
Found at i:26746631 original size:10 final size:10
Alignment explanation
Indices: 26746602--26746631 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
26746592 ATTCATTATC
26746602 CTCAAAACCT
1 CTCAAAACCT
26746612 CTCAACAACCT
1 CTCAA-AACCT
26746623 CTCAAAACC
1 CTCAAAACC
26746632 CCTAAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (10 bp):
CTCAAAACCT
Found at i:26749089 original size:17 final size:17
Alignment explanation
Indices: 26749077--26749110 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26749067 AGAAATTATT
26749077 ATGGTAGAAAAATCTAA
1 ATGGTAGAAAAATCTAA
26749094 ATGGTAGAAAAATCTAA
1 ATGGTAGAAAAATCTAA
26749111 GTTCTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (17 bp):
ATGGTAGAAAAATCTAA
Found at i:26750326 original size:35 final size:34
Alignment explanation
Indices: 26750279--26750544 Score: 111
Period size: 35 Copynumber: 7.4 Consensus size: 34
26750269 GATTCGTTTG
* *
26750279 ACTAGTGCTGGGCACAAATCTCGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAAT-TCGTCGGTTTATCCA
* * * **
26750314 ACTAGAGTTGGGCTCACTAATTATTTCATCAGTTTATCTG
1 ACTAGAGCTGGG--CAC-AA--A-TTCGTCGGTTTATCCA
* * *
26750354 ACTAGTGCTAGGCACACATTCGTCGGTTTATCCA
1 ACTAGAGCTGGGCACAAATTCGTCGGTTTATCCA
* * * * *
26750388 ACTAGCGTTGGGCGCAAATATTGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAAT-TCGTCGGTTTATCCA
* *
26750423 ACTAGAGCTGGGCTCACTAATTATTTCATCGGTTTATCCG
1 ACTAGAGCTGGG--CAC-AA--A-TTCGTCGGTTTATCCA
** * * **
26750463 ACTAGCA-CTGGGTGCAACTTCCGTCAGTTTATCTG
1 ACTAG-AGCTGGGCACAAATT-CGTCGGTTTATCCA
* * * ** **
26750498 ACTAGTGTTGGGCACACATTTATCGGTTTATCTG
1 ACTAGAGCTGGGCACAAATTCGTCGGTTTATCCA
26750532 ACTAGAGCTGGGC
1 ACTAGAGCTGGGC
26750545 GTAAACTCAT
Statistics
Matches: 169, Mismatches: 46, Indels: 33
0.68 0.19 0.13
Matches are distributed among these distances:
34 50 0.30
35 58 0.34
37 8 0.05
38 8 0.05
40 42 0.25
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (34 bp):
ACTAGAGCTGGGCACAAATTCGTCGGTTTATCCA
Found at i:26750526 original size:109 final size:109
Alignment explanation
Indices: 26750277--26750544 Score: 317
Period size: 109 Copynumber: 2.5 Consensus size: 109
26750267 TCGATTCGTT
* * * *
26750277 TGACTAGTGCTGGGCACAAATCTCGTTGGTTTATCCAACTAGAGTTGGGCTCACTAATTATTTCA
1 TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
* ** *
26750342 TCAGTTTATCTGACTAGTGCTAGGCACACATTCGTCGGTTTATC
66 TCAGTTTATCCGACTAGCACTAGGCACACATTCGTCAGTTTATC
** * *
26750386 CAACTAGCGTTGGGCGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
1 TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
* *
26750451 TCGGTTTATCCGACTAGCACTGGGTGCA-AC-TTCCGTCAGTTTATC
66 TCAGTTTATCCGACTAGCACT-AG-GCACACATT-CGTCAGTTTATC
* * * **
26750496 TGACTAGTGTTGGGCACACAT-TTATCGGTTTATCTGACTAGAGCTGGGC
1 TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGC
26750545 GTAAACTCAT
Statistics
Matches: 133, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
109 100 0.75
110 30 0.23
111 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (109 bp):
TGACTAGTGTTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAATTATTTCA
TCAGTTTATCCGACTAGCACTAGGCACACATTCGTCAGTTTATC
Found at i:26755295 original size:31 final size:32
Alignment explanation
Indices: 26755246--26755308 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
26755236 TTGGAAGCTG
26755246 GCATCAGTGTAACCTTTTACACTTAACTCTTC
1 GCATCAGTGTAACCTTTTACACTTAACTCTTC
26755278 GCATCAGTGT-ACCTTTTACACTTAACTCTTC
1 GCATCAGTGTAACCTTTTACACTTAACTCTTC
26755309 CTCACCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (32 bp):
GCATCAGTGTAACCTTTTACACTTAACTCTTC
Found at i:26766176 original size:38 final size:38
Alignment explanation
Indices: 26766134--26766210 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
26766124 GGACAACATA
26766134 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
1 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
26766172 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
1 TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
26766210 T
1 T
26766211 TTGGAAAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (38 bp):
TAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTTT
Found at i:26767661 original size:33 final size:33
Alignment explanation
Indices: 26767619--26767686 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
26767609 AAAAGAAGTG
*
26767619 ATCAAATGGTTAGATGCAGGAATCATCTATCCT
1 ATCAAATGGTTAGATGCAGGAATAATCTATCCT
*
26767652 ATCAAATGGTTAGATGTAGGAATAATCTATCCT
1 ATCAAATGGTTAGATGCAGGAATAATCTATCCT
26767685 AT
1 AT
26767687 TTCAGATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (33 bp):
ATCAAATGGTTAGATGCAGGAATAATCTATCCT
Found at i:26771565 original size:33 final size:33
Alignment explanation
Indices: 26771523--26771588 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
26771513 AACTTGAATA
*
26771523 TATTATATTTTTTAAGACATAAAGTGGGCCATG
1 TATTATATTTTTTAAGACATAAAGAGGGCCATG
*
26771556 TATTATATTTTTTAAGACATAAAGAGGGTCATG
1 TATTATATTTTTTAAGACATAAAGAGGGCCATG
26771589 CATGATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (33 bp):
TATTATATTTTTTAAGACATAAAGAGGGCCATG
Found at i:26774526 original size:38 final size:37
Alignment explanation
Indices: 26774457--26774529 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
26774447 TTTTCATAAT
* *
26774457 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
26774494 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
26774530 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:26774560 original size:23 final size:22
Alignment explanation
Indices: 26774517--26774560 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
26774507 TTTCAAGTCA
26774517 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
26774540 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
26774561 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:26774690 original size:45 final size:45
Alignment explanation
Indices: 26774620--26774798 Score: 254
Period size: 45 Copynumber: 4.0 Consensus size: 45
26774610 AACAGATACA
* * * * **
26774620 CGGTGG-ATCTGCACACAGC-ACCACCTTTATAGTCAATGATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
26774663 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
*
26774708 CGGTGGAATCAGTACATAGCAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
* * *
26774753 CAGTGGAATCATCACATAGCAACCACCTTTATAATTAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
26774798 C
1 C
26774799 AATTTACCCG
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 6 0.05
44 11 0.09
45 106 0.86
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
Found at i:26779028 original size:38 final size:37
Alignment explanation
Indices: 26778959--26779031 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
26778949 TTTTCATAAT
* *
26778959 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
26778996 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
26779032 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:26779062 original size:23 final size:22
Alignment explanation
Indices: 26779019--26779062 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
26779009 TTTCAAGTCA
26779019 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
26779042 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
26779063 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:26779257 original size:44 final size:45
Alignment explanation
Indices: 26779148--26779308 Score: 236
Period size: 45 Copynumber: 3.6 Consensus size: 45
26779138 TGATGGATCG
* * *
26779148 GCACACAGC-ACCACCGTTATAGTCAATGGTACCCAGTGGAATCA
1 GCACATAGCAACCACCGTTATAATCAATGGTACCCGGTGGAATCA
* *
26779192 GCACATAGCAAGCACCTTTATAATCAATGGTACCCGGTGGAATCA
1 GCACATAGCAACCACCGTTATAATCAATGGTACCCGGTGGAATCA
*
26779237 G-ACATAGCAACCACCTTTATAATCAATGGTACCCGGTGGAATCA
1 GCACATAGCAACCACCGTTATAATCAATGGTACCCGGTGGAATCA
* *
26779281 GCACATAACAACCACCGTTACAATCAAT
1 GCACATAGCAACCACCGTTATAATCAAT
26779309 TATACTCGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
44 51 0.48
45 55 0.52
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.20
Consensus pattern (45 bp):
GCACATAGCAACCACCGTTATAATCAATGGTACCCGGTGGAATCA
Found at i:26782230 original size:26 final size:27
Alignment explanation
Indices: 26782201--26782273 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
26782191 TAACGCATCG
26782201 AAGCTACCAGTAACAGTA-ATGCAGCA
1 AAGCTACCAGTAACAGTATATGCAGCA
**
26782227 AAGCTACCAGTAACAGTATATGTGGCA
1 AAGCTACCAGTAACAGTATATGCAGCA
* *
26782254 TAGCCACCAGT-ACAGTATAT
1 AAGCTACCAGTAACAGTATAT
26782274 TTCCCCTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 27 0.64
27 15 0.36
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (27 bp):
AAGCTACCAGTAACAGTATATGCAGCA
Found at i:26782466 original size:27 final size:26
Alignment explanation
Indices: 26782435--26782788 Score: 128
Period size: 27 Copynumber: 13.1 Consensus size: 26
26782425 GGGTATAACG
26782435 GTCATTTTACCCTATAGGGGTATTTC-
1 GTCATTTTACCCT-TAGGGGTATTTCA
* *
26782461 GATCATTTTATCCTTCGGGGGTATTTCA
1 G-TCATTTTACCCTT-AGGGGTATTTCA
* *
26782489 GTTATTTTACCCTTTGAGGGTATTTCA
1 GTCATTTTACCCTTAG-GGGTATTTCA
* *
26782516 GTAATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTAG-GGGTATTTCA
* ** * * **
26782543 GTTAACTAACCAATCCGAGGGT-TTTC-
1 GTCATTTTACC-CTTAG-GGGTATTTCA
* * * **
26782569 GATAATTTTACCCTTCAAGAGTATTTTG
1 G-TCATTTTACCCTT-AGGGGTATTTCA
*
26782597 GT-AGTTTTACCCTTTGAGGGTATTTCA
1 GTCA-TTTTACCCTTAG-GGGTATTTCA
* * *
26782624 GTTATTTTGCCCTTCGAGGGTATTTC-
1 GTCATTTTACCCTTAG-GGGTATTTCA
*
26782650 GATCATTTTACCCTTTTA-GGGTATTTCG
1 G-TCATTTTACCC--TTAGGGGTATTTCA
* * *
26782678 GTAATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTAG-GGGTATTTCA
* * * * * **
26782705 GTAACTTAACCATTCGAGGGTATTTTG
1 GTCATTTTACCCTTAG-GGGTATTTCA
* *
26782732 GT-AGTTTTACCCTTTGAGGGTATTTTA
1 GTCA-TTTTACCCTTAG-GGGTATTTCA
* * * *
26782759 ATAATTTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCTTAG-GGGTATTTCA
26782786 GTC
1 GTC
26782789 CCATTATGGC
Statistics
Matches: 260, Mismatches: 48, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
25 2 0.01
26 11 0.04
27 232 0.89
28 13 0.05
29 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTAGGGGTATTTCA
Found at i:26782577 original size:81 final size:81
Alignment explanation
Indices: 26782474--26782783 Score: 356
Period size: 81 Copynumber: 3.8 Consensus size: 81
26782464 CATTTTATCC
* *
26782474 TTCGGGGGTATTTC-AGTTATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTA
1 TTCGAGGGTATTTCGA-TAATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTA
26782538 TTTCAGTTAACTAACCAA
65 TTTCAGTTAACTAACC-A
* ** * ** * *
26782556 TCCGAGGGT-TTTCGATAATTTTACCCTTCAAGAGTATTTTGGTAGTTTTACCCTTTGAGGGTAT
1 TTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTAT
** ** *
26782620 TTCAGTTATTTTGCCC
66 TTCAGTTAACTAACCA
* * *
26782636 TTCGAGGGTATTTCGATCATTTTACCCTTTTAGGGTATTTCGGTAATTTTACCCTTCGAGGGTAT
1 TTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTAT
*
26782701 TTC-GGTAACTTAACCA
66 TTCAGTTAAC-TAACCA
* * * * *
26782717 TTCGAGGGTATTTTGGTAGTTTTACCCTTTGAGGGTATTTTAATAATTTTACCCTTCGAGGGTAT
1 TTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTAT
26782782 TT
66 TT
26782784 TAGTCCCATT
Statistics
Matches: 188, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
80 11 0.06
81 169 0.90
82 8 0.04
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (81 bp):
TTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTAT
TTCAGTTAACTAACCA
Found at i:26782784 original size:54 final size:54
Alignment explanation
Indices: 26782438--26782783 Score: 313
Period size: 54 Copynumber: 6.4 Consensus size: 54
26782428 TATAACGGTC
* * * * * *
26782438 ATTTTACCCTATAG-GGGTATTTCGATCATTTTATCCTTCGGGGGTATTTC-AGTT
1 ATTTTACCCT-TCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGA-TA
* * *
26782492 ATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCAGTTA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTC-GATA
* * * * * * * * *
26782547 A-CTAACCAATCCGAGGGT-TTTCGATAATTTTACCCTTCAAGAGTATTTTGGTA
1 ATTTTACC-CTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATA
* * * * * *
26782600 GTTTTACCCTTTGAGGGTATTTCAGTTATTTTGCCCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATA
** *
26782654 ATTTTACCCTTTTAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATA
* * * * * * **
26782708 ACTTAACCATTCGAGGGTATTTTGGTAGTTTTACCCTTTGAGGGTATTTTAATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATA
26782762 ATTTTACCCTTCGAGGGTATTT
1 ATTTTACCCTTCGAGGGTATTT
26782784 TAGTCCCATT
Statistics
Matches: 231, Mismatches: 55, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
53 12 0.05
54 210 0.91
55 9 0.04
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATA
Found at i:26790866 original size:10 final size:10
Alignment explanation
Indices: 26790824--26790875 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
26790814 AAATCTGAAG
26790824 AAATTAAATAA
1 AAATTAAAT-A
*
26790835 AAATT-TATGA
1 AAATTAAAT-A
*
26790845 AAATTTATATA
1 AAA-TTAAATA
26790856 AAATTAAATA
1 AAATTAAATA
26790866 AAATTAAATA
1 AAATTAAATA
26790876 TGTTAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 22 0.61
11 11 0.31
12 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTAAATA
Found at i:26790876 original size:22 final size:22
Alignment explanation
Indices: 26790824--26790876 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
26790814 AAATCTGAAG
*
26790824 AAATTAAATA-AAAATTTATGA
1 AAATTAAATATAAAATTAATGA
*
26790845 AAATT-TATATAAAATTAAAT-A
1 AAATTAAATATAAAATT-AATGA
26790866 AAATTAAATAT
1 AAATTAAATAT
26790877 GTTAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTAAATATAAAATTAATGA
Found at i:26794680 original size:40 final size:40
Alignment explanation
Indices: 26794630--26794705 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
26794620 GTTTGGATGA
* *
26794630 AAAACGCCGCTAAAGATCGAGCATTAGTGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATAGAGCATTAGCGGCGCTTTTTGG
*
26794670 AAAACGCCGCTAAAGATAGAGCTTTAGCGGCGCTTT
1 AAAACGCCGCTAAAGATAGAGCATTAGCGGCGCTTT
26794706 ACAGAAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATAGAGCATTAGCGGCGCTTTTTGG
Found at i:26794861 original size:39 final size:39
Alignment explanation
Indices: 26794804--26795032 Score: 161
Period size: 41 Copynumber: 5.9 Consensus size: 39
26794794 TTCCGGGGAT
* * *
26794804 TTAGCGGCGTTTTAGAGAAAGTGCCGCTAATGCTCAGGG
1 TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGG
* *
26794843 TTAGCGGCATTTTTGAGAAAGCGCCGGTAATGCTCAGGACT
1 TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGG--G
* *
26794884 TTAGCGGCATTTTT-AGGAAAGCACCGGTAATGCTCAGGG
1 TTAGCGGCATTTTTGA-GAAAGCGCCGCTAATGCTCAGGG
* *
26794923 CTTTAGCGGCGTTTTCTGA-AGAGCGCCGCTAATG--C----
1 --TTAGCGGCATTTT-TGAGAAAGCGCCGCTAATGCTCAGGG
* * * *
26794958 TTAGCGGCGTTTTTGGGAAAGCACCGGTAATGCTCAGGG
1 TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGG
* * * *
26794997 CTTTAGCGGCGTATTCTGA-AGAGCGCCGCAAATGCT
1 --TTAGCGGCAT-TTTTGAGAAAGCGCCGCTAATGCT
26795033 TAGGAATTTA
Statistics
Matches: 152, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
32 2 0.01
33 25 0.16
35 1 0.01
39 35 0.23
40 1 0.01
41 82 0.54
42 5 0.03
43 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (39 bp):
TTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGG
Found at i:26794904 original size:41 final size:39
Alignment explanation
Indices: 26794803--26795006 Score: 174
Period size: 41 Copynumber: 5.2 Consensus size: 39
26794793 GTTCCGGGGA
* * * *
26794803 TTTAGCGGCGTTTTAGAGAAAGTGCCGCTAATGCTCAGG-
1 TTTAGCGGCATTTTTG-GAAAGCGCCGGTAATGCTCAGGC
*
26794842 GTTAGCGGCATTTTTGAGAAAGCGCCGGTAATGCTCAGGAC
1 TTTAGCGGCATTTTTG-GAAAGCGCCGGTAATGCTCAGG-C
*
26794883 TTTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGC
1 TTTAGCGGCATTTTT-GGAAAGCGCCGGTAATGCTCA-GGC
* *
26794924 TTTAGCGGCGTTTTCT-GAAGAGCGCCGCTAA---T---GC
1 TTTAGCGGCATTTT-TGGAA-AGCGCCGGTAATGCTCAGGC
* *
26794958 -TTAGCGGCGTTTTTGGGAAAGCACCGGTAATGCTCAGGGC
1 TTTAGCGGCATTTTT-GGAAAGCGCCGGTAATGCTCA-GGC
26794998 TTTAGCGGC
1 TTTAGCGGC
26795007 GTATTCTGAA
Statistics
Matches: 137, Mismatches: 12, Indels: 30
0.77 0.07 0.17
Matches are distributed among these distances:
32 1 0.01
33 22 0.16
34 5 0.04
36 1 0.01
38 1 0.01
39 34 0.25
40 5 0.04
41 64 0.47
42 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (39 bp):
TTTAGCGGCATTTTTGGAAAGCGCCGGTAATGCTCAGGC
Found at i:26794977 original size:74 final size:74
Alignment explanation
Indices: 26794884--26795035 Score: 268
Period size: 74 Copynumber: 2.1 Consensus size: 74
26794874 GCTCAGGACT
*
26794884 TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTTTTCTGAAGAGCGC
1 TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
*
26794949 CGCTAATGC
66 CGCAAATGC
* *
26794958 TTAGCGGCGTTTTTGGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
1 TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
26795023 CGCAAATGC
66 CGCAAATGC
26795032 TTAG
1 TTAG
26795036 GAATTTAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (74 bp):
TTAGCGGCATTTTTAGGAAAGCACCGGTAATGCTCAGGGCTTTAGCGGCGTATTCTGAAGAGCGC
CGCAAATGC
Found at i:26794989 original size:33 final size:33
Alignment explanation
Indices: 26794925--26794991 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
26794915 GCTCAGGGCT
*
26794925 TTAGCGGCGTTTTCTGAAGAGCGCCGCTAATGC
1 TTAGCGGCGTTTTCTGAAGAGCACCGCTAATGC
*
26794958 TTAGCGGCGTTTT-TGGGAA-AGCACCGGTAATGC
1 TTAGCGGCGTTTTCT--GAAGAGCACCGCTAATGC
26794991 T
1 T
26794992 CAGGGCTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.03
33 26 0.87
34 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (33 bp):
TTAGCGGCGTTTTCTGAAGAGCACCGCTAATGC
Found at i:26795309 original size:75 final size:74
Alignment explanation
Indices: 26795219--26795401 Score: 305
Period size: 75 Copynumber: 2.4 Consensus size: 74
26795209 TATCACTATA
*
26795219 GTTTAGGGTTTTTGGTTTAGGATATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
1 GTTTAGGGTTATTGGTTTAGG-TATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
26795284 TGGATTATGG
65 TGGATTATGG
26795294 GTTTAGGGTTATTGGTTTAGGGTATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
1 GTTTAGGGTTATTGGTTTA-GGTATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTA
26795359 TGGATTATGG
65 TGGATTATGG
*
26795369 GTTTAGGGATTA-TGGTTTATGGTTTATGGTTTA
1 GTTTAGGG-TTATTGGTTTA-GGTATATGGTTTA
26795402 TGGTTTAAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
75 98 0.95
76 5 0.05
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (74 bp):
GTTTAGGGTTATTGGTTTAGGTATATGGTTTAGATAGGTTTAGGTGTTACCATTTTAAGGTTTAT
GGATTATGG
Found at i:26795366 original size:7 final size:7
Alignment explanation
Indices: 26795348--26795494 Score: 84
Period size: 7 Copynumber: 20.6 Consensus size: 7
26795338 GTGTTACCAT
*
26795348 TTTAAGG
1 TTTATGG
26795355 TTTATGG
1 TTTATGG
*
26795362 ATTATGGG
1 TTTAT-GG
*
26795370 TTTAGGG
1 TTTATGG
*
26795377 ATTATGG
1 TTTATGG
26795384 TTTATGG
1 TTTATGG
26795391 TTTATGG
1 TTTATGG
26795398 TTTATGG
1 TTTATGG
*
26795405 TTTAAAGG
1 TTT-ATGG
**
26795413 -TTGGGG
1 TTTATGG
*
26795419 TTTAAGG
1 TTTATGG
*
26795426 TTTAGAGG
1 TTTA-TGG
26795434 TTATAT-G
1 TT-TATGG
* *
26795441 TTAAGGG
1 TTTATGG
26795448 TTTATGG
1 TTTATGG
*
26795455 TTTTAGGG
1 -TTTATGG
*
26795463 TTTTAAGG
1 -TTTATGG
*
26795471 ATTA-GG
1 TTTATGG
26795477 TTTATGG
1 TTTATGG
*
26795484 TTTAGGG
1 TTTATGG
26795491 TTTA
1 TTTA
26795495 GATTAATTAG
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 8 0.07
7 74 0.67
8 26 0.24
9 2 0.02
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:26795405 original size:14 final size:14
Alignment explanation
Indices: 26795219--26795494 Score: 123
Period size: 14 Copynumber: 18.9 Consensus size: 14
26795209 TATCACTATA
*
26795219 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
* *
26795233 GTTTAGGATATATG
1 GTTTAGGGTTTATG
26795247 GTTTAGATAGGTTTA-G
1 GTTTAG---GGTTTATG
*** *
26795263 GTGTTACCATTTTAAG
1 GT-TTA-GGGTTTATG
* *
26795279 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
26795294 GTTTAGGG-TTATTG
1 GTTTAGGGTTTA-TG
*
26795308 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
26795322 GTTTAGATAGGTTTA-G
1 GTTTAG---GGTTTATG
*** *
26795338 GTGTTACCATTTTAAG
1 GT-TTA-GGGTTTATG
* *
26795354 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
*
26795369 GTTTAGGGATTATG
1 GTTTAGGGTTTATG
*
26795383 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
* *
26795397 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* *
26795412 G-TTGGGGTTTAAG
1 GTTTAGGGTTTATG
26795425 GTTTAGAGGTTATAT-
1 GTTTAG-GGTT-TATG
*
26795440 GTTAAGGGTTTATG
1 GTTTAGGGTTTATG
*
26795454 GTTTTAGGGTTTTAAG
1 G-TTTAGGG-TTTATG
*
26795470 GATTA-GGTTTATG
1 GTTTAGGGTTTATG
26795483 GTTTAGGGTTTA
1 GTTTAGGGTTTA
26795495 GATTAATTAG
Statistics
Matches: 200, Mismatches: 38, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
13 16 0.08
14 90 0.45
15 59 0.29
16 20 0.10
17 15 0.08
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:26795414 original size:29 final size:29
Alignment explanation
Indices: 26795351--26795494 Score: 116
Period size: 29 Copynumber: 5.0 Consensus size: 29
26795341 TTACCATTTT
* * *
26795351 AAGGTTTATGGATTATGGGTTTAGGGATT-
1 AAGGTTTAGGGTTTAT-GGTTTAGGGTTTA
* * *
26795380 ATGGTTTATGGTTTATGGTTTATGGTTTA
1 AAGGTTTAGGGTTTATGGTTTAGGGTTTA
* *
26795409 AAGG-TTGGGGTTTAAGGTTTAGAGG-TTA
1 AAGGTTTAGGGTTTATGGTTTAG-GGTTTA
* * * *
26795437 TATGTTAAGGGTTTATGGTTTTAGGGTTTT
1 AAGGTTTAGGGTTTATGG-TTTAGGGTTTA
*
26795467 AAGGATTA-GGTTTATGGTTTAGGGTTTA
1 AAGGTTTAGGGTTTATGGTTTAGGGTTTA
26795495 GATTAATTAG
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
28 39 0.43
29 40 0.44
30 11 0.12
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (29 bp):
AAGGTTTAGGGTTTATGGTTTAGGGTTTA
Found at i:26809608 original size:12 final size:12
Alignment explanation
Indices: 26809593--26809620 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26809583 GCACACGCCA
26809593 GTGTGCTAGGCC
1 GTGTGCTAGGCC
26809605 GTGTGCTAGGCC
1 GTGTGCTAGGCC
26809617 GTGT
1 GTGT
26809621 AACAACCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:26810706 original size:30 final size:30
Alignment explanation
Indices: 26810670--26810745 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
26810660 TGGTTGACAC
* * *
26810670 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAAGCT
* *
26810700 ATCCCTTTTCACAGTTCGACAACCGAAGCT
1 ATCCCTTTTCATAATTCGACAACCGAAGCT
26810730 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
26810746 TGATGGTCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCGAAGCT
Found at i:26810764 original size:30 final size:30
Alignment explanation
Indices: 26810730--26810925 Score: 130
Period size: 30 Copynumber: 6.5 Consensus size: 30
26810720 AACCGAAGCT
26810730 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* ** *
26810760 ATCCCTTTTTATTGTTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * *
26810790 ATCCCTTTACATAATTTGATAGTCG-AAGCT
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * * * *
26810820 GTCCCTTTTCATAGA-TCGATGGTTGAACCCCC
1 ATCCCTTTTCATA-ATTTGATGGTCG--TCACC
* * * **
26810852 ATCCCTTTTTATAGTTTAATGGTTATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
26810882 ATCCCTTTTCAT--TGCTAATGGTCGTCACC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCACC
*
26810911 ATCTCTTTTCATAAT
1 ATCCCTTTTCATAAT
26810926 CGATAGCTGA
Statistics
Matches: 124, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
28 1 0.01
29 24 0.19
30 78 0.63
31 2 0.02
32 19 0.15
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:26810794 original size:60 final size:59
Alignment explanation
Indices: 26810730--26810925 Score: 160
Period size: 60 Copynumber: 3.3 Consensus size: 59
26810720 AACCGAAGCT
*
26810730 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTTATTGTTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTG-TTGATGGTCATCACC
* * * ** * * * * *
26810790 ATCCCTTTACATAATTTGATAGTCG-AAGCTGTCCCTTTTCATAGATCGATGGTTGAACCCCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATTG-TTGATGG-T-CATCACC
* * * ** * * *
26810852 ATCCCTTTTTATAGTTTAATGGTTATCACCATCCCTTTTCATTGCTAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCATCACC
*
26810911 ATCTCTTTTCATAAT
1 ATCCCTTTTCATAAT
26810926 CGATAGCTGA
Statistics
Matches: 99, Mismatches: 33, Indels: 9
0.70 0.23 0.06
Matches are distributed among these distances:
59 16 0.16
60 42 0.42
61 5 0.05
62 35 0.35
63 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (59 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCATCACC
Found at i:26810900 original size:29 final size:30
Alignment explanation
Indices: 26810850--26810923 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
26810840 GGTTGAACCC
* * *
26810850 CCATCCCTTTTTATAGTTTAATGGTTATCA
1 CCATCCCTTTTCATAGTCTAATGGTCATCA
* *
26810880 CCATCCCTTTTCATTG-CTAATGGTCGTCA
1 CCATCCCTTTTCATAGTCTAATGGTCATCA
*
26810909 CCATCTCTTTTCATA
1 CCATCCCTTTTCATA
26810924 ATCGATAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTCTAATGGTCATCA
Found at i:26827768 original size:50 final size:50
Alignment explanation
Indices: 26827710--26827953 Score: 240
Period size: 50 Copynumber: 4.9 Consensus size: 50
26827700 TATTGAGGTT
* *
26827710 ATGAGAGGTCCTACGTAAGACCATATCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
* * *
26827760 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
* * * * * * *
26827810 ATGAGATGTCCCCCGTAAGACCATGTCTGGTACATGGCATGGGAACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
*** * * *
26827860 ATGAGAACACCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCG-AG
* * ** * * *
26827909 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCA
26827954 TGTTATTATC
Statistics
Matches: 165, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 126 0.76
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGGCATTGGCACCGAG
Found at i:26828179 original size:20 final size:20
Alignment explanation
Indices: 26828154--26828202 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
26828144 TGAGTTATTT
26828154 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
26828174 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
26828194 AAG-AAGCAA
1 AAGTAAGCAA
26828203 AGACATGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:26831122 original size:13 final size:14
Alignment explanation
Indices: 26831104--26831132 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26831094 CCTCTTTCCC
26831104 TATATCTATTT-TT
1 TATATCTATTTCTT
26831117 TATATCTATTTCTT
1 TATATCTATTTCTT
26831131 TA
1 TA
26831133 ACCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (14 bp):
TATATCTATTTCTT
Found at i:26835791 original size:12 final size:12
Alignment explanation
Indices: 26835774--26835799 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26835764 AGCCGTTCAC
26835774 GGCCTAGCACAT
1 GGCCTAGCACAT
26835786 GGCCTAGCACAT
1 GGCCTAGCACAT
26835798 GG
1 GG
26835800 GCATGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:26840100 original size:27 final size:27
Alignment explanation
Indices: 26840070--26840129 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
26840060 CAACTCCTAC
26840070 GGGTATAACAGACATTTTACCCTTCGG
1 GGGTATAACAGACATTTTACCCTTCGG
*** * *
26840097 GGGTATTTTAGTCATTTTACCCTTTGG
1 GGGTATAACAGACATTTTACCCTTCGG
26840124 GGGTAT
1 GGGTAT
26840130 TTCGGTCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (27 bp):
GGGTATAACAGACATTTTACCCTTCGG
Found at i:26840428 original size:27 final size:27
Alignment explanation
Indices: 26840082--26840437 Score: 324
Period size: 27 Copynumber: 13.2 Consensus size: 27
26840072 GTATAACAGA
* **
26840082 CATTTTACCCTTCGGGGGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* *
26840109 CATTTTACCCTTTGGGGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
** * **
26840136 CATTTTATTCTTC-AGTAGTATTTTAGT
1 CATTTTACCCTTCGAG-GGTATTTCGGT
* * *
26840163 CATTTTACCCGTCGGGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * **
26840190 CATTTTACCCTTTGAGCGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
*
26840217 CATTTTACCCTTCGAAGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* *
26840244 TATTTTACCCTTCGAGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * *
26840271 CATTTTACCTTTTG-GGGTATTTCGAT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * *
26840297 CATTTTACCCTTCGAAGGTATTACGAT
1 CATTTTACCCTTCGAGGGTATTTCGGT
* * **
26840324 CATTTTACCATTCGAAGGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGT
** * *
26840351 TGTTTTACCCTT-TACGGGTATTTCGAT
1 CATTTTACCCTTCGA-GGGTATTTCGGT
*
26840378 CATTTTACCCTT-TAGGGGTATTTCGGT
1 CATTTTACCCTTCGA-GGGTATTTCGGT
* *
26840405 TATTTTACCCTTCGAGGGTATTTCGAT
1 CATTTTACCCTTCGAGGGTATTTCGGT
26840432 CATTTT
1 CATTTT
26840438 TTAGGCCTAT
Statistics
Matches: 265, Mismatches: 59, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
26 24 0.09
27 239 0.90
28 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.46
Consensus pattern (27 bp):
CATTTTACCCTTCGAGGGTATTTCGGT
Found at i:26847433 original size:26 final size:26
Alignment explanation
Indices: 26847404--26847480 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
26847394 ATACCAATAT
* *
26847404 TGCAACAAAGCTGCCAGTAATAGTGA
1 TGCAACAAAGCTGCCAGTAACAGTAA
*
26847430 TGCAGCAAAGCTGCCAGTAACAGTAA
1 TGCAACAAAGCTGCCAGTAACAGTAA
* * *
26847456 CGCATCAAAGCTGTCAGTAACAGTA
1 TGCAACAAAGCTGCCAGTAACAGTA
26847481 TATGTGGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
TGCAACAAAGCTGCCAGTAACAGTAA
Found at i:26847668 original size:27 final size:28
Alignment explanation
Indices: 26847638--26847957 Score: 283
Period size: 27 Copynumber: 11.9 Consensus size: 28
26847628 CATTTCAAGT
*
26847638 TTTAG-GGGTATTTCGGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* *
26847665 TTTA-AGGGTATTTCGGTCATTTTATCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* *
26847692 TTCAG-GGGTATTTCAATCATTTTA-CC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* * *
26847718 TTTCGAGGGTATTTTAGTTATTTTA-CC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* * * *
26847745 ATTCGAGGCTATTTC-GATCATTTTAGCC
1 TTTAGAGGGTATTTCAG-TCATTTTACCC
* *
26847773 -TTCGAGAGTATTTCAGTCATTTT-CCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* ** *
26847799 -TTCGAGTTTATTTCGGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
* * * *
26847826 TTCA-TGGGTATTTCGGTCATTTTACCT
1 TTTAGAGGGTATTTCAGTCATTTTACCC
*
26847853 TTTAG-GGGTATTTTAGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
*
26847880 TTCA-AGGGTATTTC-GATCATTTTACCC
1 TTTAGAGGGTATTTCAG-TCATTTTACCC
*
26847907 -TTCGAGGGTATTTCAGTCATTTTACCC
1 TTTAGAGGGTATTTCAGTCATTTTACCC
*
26847934 TTT-GAGTGTATTTCAGTCATTTTA
1 TTTAGAGGGTATTTCAGTCATTTTA
26847958 GACCCAATAC
Statistics
Matches: 245, Mismatches: 34, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
26 30 0.12
27 208 0.85
28 7 0.03
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (28 bp):
TTTAGAGGGTATTTCAGTCATTTTACCC
Found at i:26847712 original size:54 final size:53
Alignment explanation
Indices: 26847643--26847957 Score: 330
Period size: 54 Copynumber: 5.9 Consensus size: 53
26847633 CAAGTTTTAG
* * *
26847643 GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCGGTCATTTTATCCTTC-A
1 GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA-CCTTCGA
* * * * *
26847696 GGGGTATTTCAATCATTTTACCTTTCGAGGGTATTTTAGTTATTTTACCATTCGA
1 -GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACC-TTCGA
* * * * *
26847751 GGCTATTTC-GATCATTTTAGCCTTCGAGAGTATTTCAGTCATTTTCCCTTCGA
1 GGGTATTTCAG-TCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTCGA
** * * * **
26847804 GTTTATTTCGGTCATTTTACCCTTCATGGGTATTTCGGTCATTTTACCTTTTA
1 GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTCGA
*
26847857 GGGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTC-GATCATTTTACCCTTCGA
1 -GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAG-TCATTTTA-CCTTCGA
** *
26847912 GGGTATTTCAGTCATTTTACCCTTTGAGTGTATTTCAGTCATTTTA
1 GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
26847958 GACCCAATAC
Statistics
Matches: 216, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
53 49 0.23
54 160 0.74
55 7 0.03
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.45
Consensus pattern (53 bp):
GGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTCGA
Found at i:26847913 original size:161 final size:161
Alignment explanation
Indices: 26847646--26847956 Score: 448
Period size: 161 Copynumber: 1.9 Consensus size: 161
26847636 GTTTTAGGGG
*
26847646 TATTTCGGTCATTTTACCCTTTAAGGGTATTTCGGTCATTTTATCCTTCAGGGGTATTTCAATCA
1 TATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTATCCTTCAGGGGTATTTCAATCA
* * * * *
26847711 TTTTACCTTTCGAGGGTATTTTAGTTATTTTACCATTCGAGGCTATTTC-GATCATTTTAGCCTT
66 TTTTACCCTTCAAGGGTATTTGAGTCATTTTACCATTCGAGGCTATTTCAG-TCATTTTACCCTT
26847775 CGAGAGTATTTCAGTCATTTTCCCTTCGAGTT
130 CGAGAGTATTTCAGTCATTTTCCCTTCGAGTT
* * * *
26847807 TATTTCGGTCATTTTACCCTTCATGGGTATTTCGGTCATTTTA-CCTTTTAGGGGTATTTTAGTC
1 TATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTATCC-TTCAGGGGTATTTCAATC
* *
26847871 ATTTTACCCTTCAAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCT
65 ATTTTACCCTTCAAGGGTATTT-GAGTCATTTTACCATTCGAGGCTATTTCAGTCATTTTACCCT
* *
26847935 TTGAGTGTATTTCAGTCATTTT
129 TCGAGAGTATTTCAGTCATTTT
26847957 AGACCCAATA
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
160 2 0.02
161 129 0.97
162 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (161 bp):
TATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTATCCTTCAGGGGTATTTCAATCA
TTTTACCCTTCAAGGGTATTTGAGTCATTTTACCATTCGAGGCTATTTCAGTCATTTTACCCTTC
GAGAGTATTTCAGTCATTTTCCCTTCGAGTT
Found at i:26851551 original size:16 final size:16
Alignment explanation
Indices: 26851530--26851572 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
26851520 ACATTGGAGC
26851530 ATTTGACGTGATGAGG
1 ATTTGACGTGATGAGG
* *
26851546 ATTTGACATGATGAGT
1 ATTTGACGTGATGAGG
26851562 ATTTGACGTGA
1 ATTTGACGTGA
26851573 ACAATCATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (16 bp):
ATTTGACGTGATGAGG
Found at i:26853882 original size:36 final size:36
Alignment explanation
Indices: 26853831--26853911 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
26853821 TTTCATCAAT
26853831 AAAATAATTCTCATAGTATAGAGCATTATAAAAGTAA
1 AAAATAA-TCTCATAGTATAGAGCATTATAAAAGTAA
* * *
26853868 AAAATAATCTCATAGTATGGAGCATTATAAATGTCA
1 AAAATAATCTCATAGTATAGAGCATTATAAAAGTAA
26853904 AAAATAAT
1 AAAATAAT
26853912 TCAAGGGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 34 0.83
37 7 0.17
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (36 bp):
AAAATAATCTCATAGTATAGAGCATTATAAAAGTAA
Found at i:26860091 original size:74 final size:74
Alignment explanation
Indices: 26859970--26860119 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
26859960 ATCTTGTAAT
26859970 AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
1 AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
26860035 CGGTGATTA
66 CGGTGATTA
* *
26860044 AACCCCTTTCCTTGGGTTGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
1 AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
26860109 CGGTGATTA
66 CGGTGATTA
26860118 AA
1 AA
26860120 GAAGGAAAGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (74 bp):
AACCCCTATCCTTGGGATGACATCCTTATTTGCTTGGGCTAAGACATTAACATGCTGGCAAAGTA
CGGTGATTA
Found at i:26874329 original size:29 final size:29
Alignment explanation
Indices: 26874255--26874453 Score: 258
Period size: 29 Copynumber: 6.8 Consensus size: 29
26874245 CTGTGCTAAA
* * *
26874255 CGATGGTCAAAACCATCCTTTTTCTTTAATT
1 CGATGGTCGAAACCATCCCTTTTC-AT-ATT
26874286 -GATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
26874314 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
26874343 CAATGGTCGAAGCCACCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
26874372 CGATGGTTGACACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
26874401 CGATGGTCGTTACCA-CCTCTTTTCATATT
1 CGATGGTCGAAACCATCC-CTTTTCATATT
26874430 CGATGGTCGAAACCATCCCTTTTC
1 CGATGGTCGAAACCATCCCTTTTC
26874454 TTTAATCGAT
Statistics
Matches: 149, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.03
29 121 0.81
30 23 0.15
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:26880270 original size:29 final size:29
Alignment explanation
Indices: 26880237--26880326 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
26880227 TTTATCATTC
*
26880237 TTCATATTCGATTGTTGATACCATCCCTT
1 TTCATATTCGATGGTTGATACCATCCCTT
* *
26880266 TTCATATTCGATGGTCG-TCACCATCCTTT
1 TTCATATTCGATGGTTGAT-ACCATCCCTT
*
26880295 TTCATATTCGATGGTTGAAACCATCCCTT
1 TTCATATTCGATGGTTGATACCATCCCTT
26880324 TTC
1 TTC
26880327 TTTAATCGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.02
29 52 0.98
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (29 bp):
TTCATATTCGATGGTTGATACCATCCCTT
Found at i:26881695 original size:8 final size:8
Alignment explanation
Indices: 26881682--26881706 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26881672 AAGAGTAAAT
26881682 TTTTATTA
1 TTTTATTA
26881690 TTTTATTA
1 TTTTATTA
26881698 TTTTATTA
1 TTTTATTA
26881706 T
1 T
26881707 CATTGGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:26886296 original size:7 final size:7
Alignment explanation
Indices: 26886278--26886314 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
26886268 CTGCTCTTTC
26886278 CTTTTAT
1 CTTTTAT
26886285 C-TTTAT
1 CTTTTAT
26886291 CTTTTAT
1 CTTTTAT
26886298 CTTTTAT
1 CTTTTAT
26886305 CTTTT-T
1 CTTTTAT
26886311 CTTT
1 CTTT
26886315 GTTTTGACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (7 bp):
CTTTTAT
Found at i:26886296 original size:13 final size:13
Alignment explanation
Indices: 26886278--26886314 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
26886268 CTGCTCTTTC
26886278 CTTTTATCTTTAT
1 CTTTTATCTTTAT
26886291 CTTTTATCTTTTAT
1 CTTTTATC-TTTAT
26886305 CTTTT-TCTTT
1 CTTTTATCTTT
26886315 GTTTTGACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.13
13 10 0.43
14 10 0.43
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTATCTTTAT
Found at i:26887464 original size:28 final size:28
Alignment explanation
Indices: 26887420--26887490 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
26887410 AAACTGATAT
26887420 TGTATTGGG-TAAGGCCCACT-TTGTTAC
1 TGTATTGGGCTAAGGCCCA-TATTGTTAC
*
26887447 TGTACTGGGCTAAGGCCCATATTGTTAC
1 TGTATTGGGCTAAGGCCCATATTGTTAC
26887475 TGTATTGGGCTAAGGC
1 TGTATTGGGCTAAGGC
26887491 GCACACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.22
28 31 0.77
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCATATTGTTAC
Found at i:26894223 original size:12 final size:13
Alignment explanation
Indices: 26894208--26894240 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
26894198 AAATAAAATC
26894208 ATAAATAATT-AA
1 ATAAATAATTAAA
*
26894220 ATAATTAATTAAA
1 ATAAATAATTAAA
26894233 ATAAATAA
1 ATAAATAA
26894241 ATCAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAATAATTAAA
Found at i:26898840 original size:20 final size:20
Alignment explanation
Indices: 26898789--26898903 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
26898779 CATAATAGGA
* * *
26898789 GCACTGAAGTGTAGACAGGG
1 GCACCGAAGTGCAAACAGGG
*
26898809 GCA-CAAATGTGCAAACAGGG
1 GCACCGAA-GTGCAAACAGGG
* *
26898829 GCACCGTAGTGCGAACAGGG
1 GCACCGAAGTGCAAACAGGG
* ** * *
26898849 ACACTAAAGTGTATACAGGG
1 GCACCGAAGTGCAAACAGGG
*
26898869 GTACCGAAGTGCAAACAGGG
1 GCACCGAAGTGCAAACAGGG
26898889 GCACCGAAGTGCAAA
1 GCACCGAAGTGCAAA
26898904 TCTCATACAA
Statistics
Matches: 72, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
19 2 0.03
20 68 0.94
21 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.12
Consensus pattern (20 bp):
GCACCGAAGTGCAAACAGGG
Found at i:26899684 original size:28 final size:29
Alignment explanation
Indices: 26899653--26899708 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
26899643 TACTTATAAA
26899653 TAACAACTAATACTT-CAAA-TTCATCATT
1 TAACAACTAA-ACTTACAAAGTTCATCATT
*
26899681 TAACATCTAAACTTACAAAGGTTCATCA
1 TAACAACTAAACTTACAAA-GTTCATCA
26899709 AAGGCAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 13 0.54
30 7 0.29
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (29 bp):
TAACAACTAAACTTACAAAGTTCATCATT
Found at i:26903735 original size:18 final size:19
Alignment explanation
Indices: 26903712--26903771 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
26903702 TTTAGGTTTC
26903712 TATTTTA-TTTATTTTTAT
1 TATTTTACTTTATTTTTAT
* * *
26903730 TATTTTAGTCGT-TTTTTCT
1 TATTTTACT-TTATTTTTAT
26903749 T-TTTTACTTTTATTTTTAT
1 TATTTTAC-TTTATTTTTAT
26903768 TATT
1 TATT
26903772 AGTTGTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
18 13 0.41
19 16 0.50
20 3 0.09
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (19 bp):
TATTTTACTTTATTTTTAT
Found at i:26906994 original size:25 final size:25
Alignment explanation
Indices: 26906958--26907011 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
26906948 TACCGATTTT
26906958 AGCTCGTATGAGCTTACCGATACTC
1 AGCTCGTATGAGCTTACCGATACTC
* *
26906983 AGCTCGCT-TGAGCTTACCGTTATTC
1 AGCTCG-TATGAGCTTACCGATACTC
26907008 AGCT
1 AGCT
26907012 TGAAGGTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATACTC
Found at i:26912415 original size:94 final size:94
Alignment explanation
Indices: 26912182--26912678 Score: 556
Period size: 94 Copynumber: 5.3 Consensus size: 94
26912172 ATTCCGTTGT
* * * * *
26912182 AACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAATTTCAGGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* ** * * ** *
26912247 GCTATTGT---TTTGATCTATTCTGA-TGT
66 ACTATTGTAGCTTCAATCCA-ACCCACTGC
* * * * * * * *
26912273 AACTTCAGGGATATACGATTTATAACTTCATCTTTCTCTACTACAACTTCAGGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* *
26912338 ACTATTGTAGCTTCATTCCAACCCATTGC
66 ACTATTGTAGCTTCAATCCAACCCACTGC
*
26912367 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
** * *
26912432 GTTATGGTAGCTTCAATCCGACCCACTGC
66 ACTATTGTAGCTTCAATCCAACCCACTGC
* * *
26912461 AACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGAAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* * * *
26912526 ACCATTGTA-ATTTATTTCCAACCCACTGC
66 ACTATTGTAGCTTCA-ATCCAACCCACTGC
* *
26912555 AACTTCAGGGGTATAGGATTTGTAGCTTCATCCTT-CTCCACTGTAACTTTAAGGAGATAAGATT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCAT-CTTGCTCCACTGCAACTTCAAGGAGATAAGATT
* *
26912619 CACTACTGTAGCTTCAATCCGACCCACTGC
65 CACTATTGTAGCTTCAATCCAACCCACTGC
* *
26912649 AACTTCAAGGGTATAGGAATTGTAGCTTCA
1 AACTTCAGGGGTATAGGATTTGTAGCTTCA
26912679 CTGATATGTT
Statistics
Matches: 342, Mismatches: 57, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
91 64 0.19
93 5 0.01
94 267 0.78
95 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (94 bp):
AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
ACTATTGTAGCTTCAATCCAACCCACTGC
Found at i:26912510 original size:44 final size:44
Alignment explanation
Indices: 26912364--26912511 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
26912354 TCCAACCCAT
* *
26912364 TGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCAC
1 TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
* *
26912408 TGCAACTTCAAGGAGATAAGATTC-G-TTATGGTAGCTTCAATC-CGAC-CCAC
1 TGCAACTTC-AGG-GGT---A-TCGGATT-T-GTAGCTTC-ATCTTG-CTCCAC
26912458 TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
1 TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
*
26912502 TACAACTTCA
1 TGCAACTTCA
26912512 AGAAGATAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
43 4 0.05
44 32 0.39
45 6 0.07
46 4 0.05
48 4 0.05
49 6 0.07
50 23 0.28
51 4 0.05
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (44 bp):
TGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCTCCAC
Found at i:26912550 original size:188 final size:187
Alignment explanation
Indices: 26912182--26912678 Score: 612
Period size: 188 Copynumber: 2.7 Consensus size: 187
26912172 ATTCCGTTGT
* * * *
26912182 AACTTTAGGGATATAAGATTTGTAGCTTCATCTTGCTCCACTGCAATTTCAGGGAGATAAGATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
* ** * ** * * * *
26912247 GCTAT-T-GTTTTGAT-CTATTCTGA-TGTAACTTCAGGGATATAC-GATTTATAACTTCATCTT
66 GCTATGTAGCTTCAATCCGA--CCCACTGCAACTTCAGGGGTAT-CGGATTTGTAGCTTCATCTT
* * * * * * *
26912307 TCTCTACTACAACTTCAGGGAGATAAGATTCACTATTGTAGCTTCATTCCAACCCATTGC
128 GCTCCACTACAACTTCAAGAAGATAAGATTCACCATTGTAGATTCATTCCAACCCACTGC
26912367 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
1 AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
*
26912432 GTTATGGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGC
66 GCTAT-GTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGC
*
26912497 TCCACTACAACTTCAAGAAGATAAGATTCACCATTGTA-ATTTATTTCCAACCCACTGC
130 TCCACTACAACTTCAAGAAGATAAGATTCACCATTGTAGATTCA-TTCCAACCCACTGC
* * *
26912555 AACTTCAGGGGTATAGGATTTGTAGCTTCATCCTT-CTCCACTGTAACTTTAAGGAGATAAGATT
1 AACTTTAGGGGTATAGGATTTGTAGCTTCAT-CTTGCTCCACTGCAACTTCAAGGAGATAAGATT
* * * *
26912619 CACTACTGTAGCTTCAATCCGACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCA
65 CGCTA-TGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCA
26912679 CTGATATGTT
Statistics
Matches: 272, Mismatches: 31, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
185 65 0.24
187 7 0.03
188 194 0.71
189 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (187 bp):
AACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTC
GCTATGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATCGGATTTGTAGCTTCATCTTGCT
CCACTACAACTTCAAGAAGATAAGATTCACCATTGTAGATTCATTCCAACCCACTGC
Found at i:26930871 original size:19 final size:19
Alignment explanation
Indices: 26930839--26930894 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
26930829 TGGATTATTA
26930839 TAATT-ATAATTTATAAAAT
1 TAATTAATAA-TTATAAAAT
* *
26930858 TAATTTAA-AATTATATATT
1 TAA-TTAATAATTATAAAAT
26930877 TAATTAATAATATATAAA
1 TAATTAATAAT-TATAAA
26930895 TTGTTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.13
19 16 0.53
20 9 0.30
21 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATTAATAATTATAAAAT
Found at i:26936671 original size:31 final size:31
Alignment explanation
Indices: 26936618--26936712 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 31
26936608 GACCACCACA
* * *
26936618 TGTTTACTATCCTAACAGACTATCTGTTTTG
1 TGTTCACTATCCCAACAGACTATTTGTTTTG
* * * *
26936649 TGTTCACTGTCCCAGCAGACTATTTGTTCTA
1 TGTTCACTATCCCAACAGACTATTTGTTTTG
* *
26936680 TGTTTACTATCCCAACAAACTATTTGTTTTG
1 TGTTCACTATCCCAACAGACTATTTGTTTTG
26936711 TG
1 TG
26936713 GATGCCATGG
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (31 bp):
TGTTCACTATCCCAACAGACTATTTGTTTTG
Found at i:26938747 original size:27 final size:27
Alignment explanation
Indices: 26938716--26938788 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
26938706 ACAAGTTAGT
**
26938716 AAAGAAAAGCCTTTGTGGTGTAATATG
1 AAAGAAAAGCCTTTGTGGCATAATATG
*
26938743 AAAGAAAATCCTTTGTGGCATAATATG
1 AAAGAAAAGCCTTTGTGGCATAATATG
* * *
26938770 AAAGGAATGCCTTTATGGC
1 AAAGAAAAGCCTTTGTGGC
26938789 GAACTCTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAGAAAAGCCTTTGTGGCATAATATG
Found at i:26947783 original size:63 final size:63
Alignment explanation
Indices: 26947684--26947805 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
26947674 GTTGATGGGA
*
26947684 ACCTCTTTCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAACGGGC
1 ACCTCTTCCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAACGGGC
* * * *
26947747 ACCTCTTCCTCATCATCGTCGGTATCTAACTTTGTGATTTTATCAATCAGTTGATGAAC
1 ACCTCTTCCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAAC
26947806 TACACGTTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (63 bp):
ACCTCTTCCTCATCATCGTCGATATCAAACTTTGTGATTTTATCAAGCAATTGATGAACGGGC
Found at i:26948393 original size:113 final size:113
Alignment explanation
Indices: 26948191--26948417 Score: 409
Period size: 113 Copynumber: 2.0 Consensus size: 113
26948181 TTCTACAACT
*
26948191 TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGGGGGGGCAACAGAAGTAGTCCTAGGAGG
1 TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
26948256 AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
66 AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
* *
26948304 TCAATTATTCACTGCTCAAACTCAGTATGAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
1 TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
* *
26948369 AGAAGATGGAGGTGTGCTAGTTTGCCTTGGCATTTCCTTGCTAACCAC
66 AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
26948417 T
1 T
26948418 TTCTGTGCAA
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (113 bp):
TCAATCATTCACTGCTCAAACTCAGTATAAGAAGTCGAGGGGGCAACAGAAGTAGTCCTAGGAGG
AGAAGATGGAGGTGTGCCAATTTGCCTTGGCATTTCCTTGCTAACCAC
Found at i:26956507 original size:12 final size:12
Alignment explanation
Indices: 26956482--26956520 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26956472 ACTCACTTCT
* *
26956482 TTACTTACTCAC
1 TTACTTGCTTAC
*
26956494 TTACTTGTTTAC
1 TTACTTGCTTAC
26956506 TTACTTGCTTAC
1 TTACTTGCTTAC
26956518 TTA
1 TTA
26956521 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:26956845 original size:50 final size:50
Alignment explanation
Indices: 26956771--26957009 Score: 253
Period size: 50 Copynumber: 4.7 Consensus size: 50
26956761 TTCTGTACTA
* * * * ** *
26956771 CCAATGCCATATTCTAGATATGGTCTTACATGGGAATTCCCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * **
26956821 CCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
26956871 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * * *
26956921 CGAATGCTATGTCCCAGGCATGGTCTTACATGGAACCTCTCATAATTTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
26956977 CCAATGCCATGTCCCAGACATGGTCTTACATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
26957010 CATCTCATTC
Statistics
Matches: 154, Mismatches: 29, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
50 119 0.77
53 2 0.01
56 33 0.21
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:26959804 original size:25 final size:25
Alignment explanation
Indices: 26959735--26959806 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
26959725 TATTGATACA
* * *
26959735 CAGCTCGCACGAGCTTACCATTATT
1 CAGCTCGAAGGAGCTTACCGTTATT
* * *
26959760 TAGCTCGGAGTAGCTTACCGTTATT
1 CAGCTCGAAGGAGCTTACCGTTATT
26959785 CAGCTCGAAGGAGCTTACCGTT
1 CAGCTCGAAGGAGCTTACCGTT
26959807 TACAGATTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (25 bp):
CAGCTCGAAGGAGCTTACCGTTATT
Found at i:26961550 original size:49 final size:50
Alignment explanation
Indices: 26961481--26961579 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 50
26961471 TACATCTATT
26961481 TGTATCAGAGCTACAGTTTAGTCGATTCTCAGACTGAATGTAGTGTGTTC
1 TGTATCAGAGCTACAGTTTAGTCGATTCTCAGACTGAATGTAGTGTGTTC
26961531 TGTATCAGAG-TACAGTTTAGTCGATTCTCAGACTGAATGTAGTGTGTTC
1 TGTATCAGAGCTACAGTTTAGTCGATTCTCAGACTGAATGTAGTGTGTTC
26961580 AAGTCTAGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 39 0.80
50 10 0.20
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (50 bp):
TGTATCAGAGCTACAGTTTAGTCGATTCTCAGACTGAATGTAGTGTGTTC
Found at i:26971112 original size:14 final size:14
Alignment explanation
Indices: 26971093--26971120 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26971083 CAGGGTGTAA
26971093 ACAACATCCAAATT
1 ACAACATCCAAATT
26971107 ACAACATCCAAATT
1 ACAACATCCAAATT
26971121 TTAGCTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ACAACATCCAAATT
Found at i:26975420 original size:25 final size:27
Alignment explanation
Indices: 26975369--26975420 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
26975359 TTGCAGAAAT
*
26975369 TTTTCTTTGTTTGTTATTATTTTTTAA
1 TTTTCTTTGTTTGTTATTATTTGTTAA
*
26975396 TTTTCTTT-TTTTTTA-TATTTGTTAA
1 TTTTCTTTGTTTGTTATTATTTGTTAA
26975421 CCAAAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (27 bp):
TTTTCTTTGTTTGTTATTATTTGTTAA
Found at i:26979343 original size:23 final size:22
Alignment explanation
Indices: 26979292--26979344 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
26979282 CTTGAAAAGA
**
26979292 ATATAAAAAATAAAAAATTAAT
1 ATATAAAAAATAAAAAAAAAAT
26979314 -TGAATAAAAAATAAAAATAAAAAT
1 AT--ATAAAAAATAAAAA-AAAAAT
26979338 ATATAAA
1 ATATAAA
26979345 CCAAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
21 1 0.04
23 19 0.76
24 4 0.16
25 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
ATATAAAAAATAAAAAAAAAAT
Found at i:26979595 original size:19 final size:17
Alignment explanation
Indices: 26979571--26979610 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
26979561 ATGTTAAATT
26979571 AAATTAATTAACTAAATGC
1 AAATTAA-T-ACTAAATGC
*
26979590 AAATTAATCCTAAATGC
1 AAATTAATACTAAATGC
26979607 AAAT
1 AAAT
26979611 AAGATGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 1 0.05
19 7 0.35
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (17 bp):
AAATTAATACTAAATGC
Found at i:27004597 original size:28 final size:28
Alignment explanation
Indices: 27004557--27004641 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
27004547 TAGTATCAAT
*
27004557 ACAGTGTGGGCCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
27004585 ACAGTGTGGGCCTTAGCCCAATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* * **
27004613 ATAATGTGGGCCTTAGCCCGGTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
27004641 A
1 A
27004642 ACAATACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:27005059 original size:27 final size:27
Alignment explanation
Indices: 27005021--27005440 Score: 373
Period size: 27 Copynumber: 15.6 Consensus size: 27
27005011 TACCCTATGG
* *
27005021 GGTATTTCGGTCATTTTACCCTTCAGA
1 GGTATTTTGGTAATTTTACCCTTCAGA
*
27005048 GGTATTTTGGTCATTTTACCCTTC-GAA
1 GGTATTTTGGTAATTTTACCCTTCAG-A
* *
27005075 GGTA-TTTGGTTATATTACCCTTC-GA
1 GGTATTTTGGTAATTTTACCCTTCAGA
*
27005100 GGGTATTTTGGTCATTTTACCCTTTCAG-
1 -GGTATTTTGGTAATTTTACCC-TTCAGA
*
27005128 GGTATTTCGGTAATTTTACCCTTCA-A
1 GGTATTTTGGTAATTTTACCCTTCAGA
* *
27005154 GGGTATTTTGGTAATTTTACCAATTGAG-
1 -GGTATTTTGGTAATTTTACC-CTTCAGA
*
27005182 GGTATTTTGGTAATTTTACCCTAT-AGG
1 GGTATTTTGGTAATTTTACCCT-TCAGA
*
27005209 GGTATTTTGGTAATTTTACCCTTCAAA
1 GGTATTTTGGTAATTTTACCCTTCAGA
* *
27005236 GGTATTTTAGTAAATTTACCCTTC-GA
1 GGTATTTTGGTAATTTTACCCTTCAGA
* * *
27005262 GGGTATTTCGATAATTTTACCCTTTA-A
1 -GGTATTTTGGTAATTTTACCCTTCAGA
* *
27005289 GAGTATTTTGGTAATTTTACCCTAT-GGG
1 G-GTATTTTGGTAATTTTACCCT-TCAGA
*
27005317 GGTATTTTGATAATTTTACCCTTCA-A
1 GGTATTTTGGTAATTTTACCCTTCAGA
**
27005343 GGGTATTTCAGTAATTTTACCCTTCA-A
1 -GGTATTTTGGTAATTTTACCCTTCAGA
** ** *
27005370 GGGTATTTTGGT-ATTTTTTCCTAAAGG
1 -GGTATTTTGGTAATTTTACCCTTCAGA
*
27005397 GGTATTTCGGTAATTTTACCCTTC-GA
1 GGTATTTTGGTAATTTTACCCTTCAGA
**
27005423 GGGTATTTCAGTAATTTT
1 -GGTATTTTGGTAATTTT
27005441 TTCTAACCCG
Statistics
Matches: 326, Mismatches: 45, Indels: 44
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.00
26 54 0.17
27 262 0.80
28 8 0.02
29 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACCCTTCAGA
Found at i:27005171 original size:54 final size:53
Alignment explanation
Indices: 27005007--27005440 Score: 448
Period size: 54 Copynumber: 8.1 Consensus size: 53
27004997 TATATCAGTC
* * *
27005007 ATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTTC-AGAGGTATTTTGGTC
1 ATTTTACCCT-TCAGGGTATTTCGGTAATTTTACCCTTCGAG-GGTATTTTGGTA
* * * *
27005060 ATTTTACCCTTCGAAGGTATTT-GGTTATATTACCCTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTC-AGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
*
27005113 ATTTTACCCTTTCAGGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTTGGTA
1 ATTTTACCC-TTCAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
* * * *
27005167 ATTTTACCAATTGAGGGTATTTTGGTAATTTTACCCTATAG-GGGTATTTTGGTA
1 ATTTTACC-CTTCAGGGTATTTCGGTAATTTTACCCT-TCGAGGGTATTTTGGTA
* ** * * *
27005221 ATTTTACCCTTCAAAGGTATTTTAGTAAATTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTC-AGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
* * * * *
27005275 ATTTTACCCTTTAAGAGTATTTTGGTAATTTTACCCTAT-GGGGGTATTTTGATA
1 ATTTTACCC-TTCAGGGTATTTCGGTAATTTTACCCT-TCGAGGGTATTTTGGTA
* *
27005329 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTCAAGGGTATTTTGGT-
1 ATTTTACCCTTC-AGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
** ** **
27005382 ATTTTTTCCTAAAGGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCA-GGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
27005436 ATTTT
1 ATTTT
27005441 TTCTAACCCG
Statistics
Matches: 322, Mismatches: 44, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 103 0.32
54 213 0.66
55 4 0.01
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTCAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:27005191 original size:81 final size:81
Alignment explanation
Indices: 27005007--27005440 Score: 485
Period size: 81 Copynumber: 5.4 Consensus size: 81
27004997 TATATCAGTC
* *
27005007 ATTTTACCCTAT-G-GGGTATTTCGGTCATTTTACCC-TTCAGAGGTATTTTGGTCATTTTACCC
1 ATTTTACCCT-TCGAGGGTATTTCGGTAATTTTACCCTTTCAG-GGTATTTTGGTAATTTTACCC
*
27005069 TTCGAA-GGTA-TTTGGTT
64 TTC-AAGGGTATTTTGGTA
* * * *
27005086 ATATTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTTCAGGGTATTTCGGTAATTTTACCCTT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTCAGGGTATTTTGGTAATTTTACCCTT
27005151 CAAGGGTATTTTGGTA
66 CAAGGGTATTTTGGTA
* * *
27005167 ATTTTACCAATT-GAGGGTATTTTGGTAATTTTACCCTAT-AGGGGTATTTTGGTAATTTTACCC
1 ATTTTACC-CTTCGAGGGTATTTCGGTAATTTTACCCTTTCA-GGGTATTTTGGTAATTTTACCC
* *
27005230 TTCAAAGGTATTTTAGTA
64 TTCAAGGGTATTTTGGTA
* * * *
27005248 AATTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTAAGAGTATTTTGGTAATTTTACCCTA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTCAGGGTATTTTGGTAATTTTACCCT-
** *
27005313 T-GGGGGTATTTTGATA
65 TCAAGGGTATTTTGGTA
* * **
27005329 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCC-TTCAAGGGTATTTTGGT-ATTTTTTCC-
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTC-AGGGTATTTTGGTAATTTTACCCT
* *
27005391 TAAAGGGGTATTTCGGTA
65 TCAA-GGGTATTTTGGTA
*
27005409 ATTTTACCCTTCGAGGGTATTTCAGTAATTTT
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTT
27005441 TTCTAACCCG
Statistics
Matches: 306, Mismatches: 36, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.01
79 12 0.04
80 101 0.33
81 187 0.61
82 4 0.01
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTTCAGGGTATTTTGGTAATTTTACCCTT
CAAGGGTATTTTGGTA
Found at i:27008033 original size:18 final size:18
Alignment explanation
Indices: 27008010--27008047 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
27008000 AAAAAATACT
27008010 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
27008028 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
27008047 T
1 T
27008048 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:27012930 original size:24 final size:25
Alignment explanation
Indices: 27012879--27012935 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
27012869 AAAAATTTGA
27012879 AATTAT-AATTTTTAAAAATGAAAG
1 AATTATGAATTTTTAAAAATGAAAG
*
27012903 AATTATGATATTTTT-AAAAT-AAAT
1 AATTATGA-ATTTTTAAAAATGAAAG
27012927 AATTATGAA
1 AATTATGAA
27012936 AAAAATCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 6 0.20
26 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (25 bp):
AATTATGAATTTTTAAAAATGAAAG
Found at i:27020649 original size:24 final size:25
Alignment explanation
Indices: 27020599--27020649 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
27020589 ATGTGCATTT
*
27020599 AAAAATAGTATACAATAATGTTAAA
1 AAAAATAGTATACAATAATGTAAAA
* *
27020624 AAAAATA-TATACACTAAT-TAATA
1 AAAAATAGTATACAATAATGTAAAA
27020647 AAA
1 AAA
27020650 TGTAAGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAATAGTATACAATAATGTAAAA
Found at i:27034279 original size:50 final size:51
Alignment explanation
Indices: 27034208--27034343 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 51
27034198 AGTGAATGTG
* * *
27034208 ATGGTCACGTGTGTAGTACTATATGTAGGCCACTACGTGTACCAGAATGAT-
1 ATGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACC-GAATGATA
* * *
27034259 A-GGTCGA-ATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTA
1 ATGGTC-ACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGAATGATA
27034309 ATGGTCACATGTGTAGTACTATATGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATATGCAGGCTACTA
27034344 TGTGAACAGG
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
49 6 0.08
50 36 0.49
51 32 0.43
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGAATGATA
Found at i:27034407 original size:45 final size:45
Alignment explanation
Indices: 27034352--27034442 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
27034342 TATGTGAACA
* * *
27034352 GGACACCATTGATTAGTAAGGTGGTTGCTGTGTGCTGATTCCACC
1 GGACACCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
*
27034397 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 GGACACCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
27034442 G
1 G
27034443 AGTATCTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (45 bp):
GGACACCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
Found at i:27036026 original size:18 final size:19
Alignment explanation
Indices: 27035985--27036026 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
27035975 ATTGTGGTAT
* *
27035985 TGAAATTTATATTGGATTG
1 TGAAATTGATATTGGATCG
*
27036004 AGAAATTGA-ATTGGATCG
1 TGAAATTGATATTGGATCG
27036022 TGAAA
1 TGAAA
27036027 ATGAGAATCG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (19 bp):
TGAAATTGATATTGGATCG
Found at i:27039660 original size:66 final size:66
Alignment explanation
Indices: 27039584--27039709 Score: 146
Period size: 68 Copynumber: 1.9 Consensus size: 66
27039574 TCTTCATTAC
* * * * *
27039584 TTTCAATAAAAAGTTAATTTTAATCTCACA-ACTAGAGAATACTCTCATAGCTCACTTCATCACC
1 TTTCAATAAAAAGATAA-TTTAACCCCACATAATAGAAAATACTCTCATAGCTCACTTCATCACC
27039648 TT
65 TT
* * *
27039650 TTTCATTAAAATGATAATTTAACCCCACATTGAATAGAAAATACTCTTATAGCTCACTTC
1 TTTCAATAAAAAGATAATTTAACCCCACA-T-AATAGAAAATACTCTCATAGCTCACTTC
27039710 TTCATTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 10 0.20
66 14 0.29
68 25 0.51
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (66 bp):
TTTCAATAAAAAGATAATTTAACCCCACATAATAGAAAATACTCTCATAGCTCACTTCATCACCT
T
Found at i:27039871 original size:69 final size:69
Alignment explanation
Indices: 27039744--27039907 Score: 167
Period size: 69 Copynumber: 2.4 Consensus size: 69
27039734 ATAAGTATCA
* * * *
27039744 ATTTCTTCAT--TGTTTCTATTAAAAAAGTTAATTTGAATCTCATATTAAATAGAGAATACTCTC
1 ATTTCTTCATCAT-TTTC-ATT-AAAAAGCTAATTTGAATCACACATTAAATAGAGAATACTCCC
27039807 ATAGCTC
63 ATAGCTC
* *
27039814 ATTTCTTCATCATTTTCATTAAAAAGCTAATTTTAATCACACATTGAATA-AGGAATACTCCCAT
1 ATTTCTTCATCATTTTCATTAAAAAGCTAATTTGAATCACACATTAAATAGA-GAATACTCCCAT
*
27039878 AGGTC
65 AGCTC
*
27039883 ACTTTC-TCA-CTATTTACATTAAAAA
1 A-TTTCTTCATC-ATTTTCATTAAAAA
27039908 TAATTTAATC
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
68 2 0.02
69 57 0.70
70 17 0.21
71 4 0.05
72 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (69 bp):
ATTTCTTCATCATTTTCATTAAAAAGCTAATTTGAATCACACATTAAATAGAGAATACTCCCATA
GCTC
Found at i:27040094 original size:94 final size:94
Alignment explanation
Indices: 27039927--27040412 Score: 366
Period size: 94 Copynumber: 5.2 Consensus size: 94
27039917 CCCTTACAAT
* * * * * * * *
27039927 GTTAATTTTAATCCCATATTGGCTTGTGAACACTATCAT-GCTTACACTTACCTTGTAAATAAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* *
27039991 GATAGTTTCTTTAATATTTTCATTAAAAA
66 GACAATTTCTTTAATATTTTCATTAAAAA
* * ** *
27040020 GTTAATTTTAATCCCTCTTTGACCGGAGAACACTC-CTATATCTCACATTTACCTTATAAATAAG
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTC-ATAGCTCACATTTACCTTATAAATAAG
*
27040084 TGACAATTTC-TTCATCATTTTCATTAAAAA
65 TGACAATTTCTTTAAT-ATTTTCATTAAAAA
* * * * * ** *
27040114 GTTTATTTTAATCCTACATTGACTAGACAATACTCCCATAGC-C-CATTT--CTTCACTATTTTC
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTT-A-TA-AATA
* * * ** * * * *
27040175 ATTAAAAATTAATTT--TA-ATCCCTTAATAA
63 AGTGACAATTTCTTTAATATTTTCATTAAAAA
* * * * * * *
27040204 GTTAATTTTAATCTCACATTGGCTAGAGAATACTCTCAT-GCTTACACTTACCCTATAAATTAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* ** *
27040268 GTCAATTTCTTTACCATTTTCATTGAAAA
66 GACAATTTCTTTAATATTTTCATTAAAAA
* * * * *
27040297 GTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTTACATTTACCTTGTAAATAAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* *
27040362 GACAATTTC-TTCATCATTTTCATTAAAAG
66 GACAATTTCTTTAAT-ATTTTCATTAAAAA
*
27040391 GTTAATTTTAATCCCATATTGA
1 GTTAATTTTAATCCCACATTGA
27040413 ATAGGGAATA
Statistics
Matches: 299, Mismatches: 77, Indels: 33
0.73 0.19 0.08
Matches are distributed among these distances:
89 2 0.01
90 54 0.18
91 8 0.03
92 11 0.04
93 87 0.29
94 136 0.45
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (94 bp):
GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
GACAATTTCTTTAATATTTTCATTAAAAA
Found at i:27040306 original size:277 final size:274
Alignment explanation
Indices: 27039814--27040415 Score: 800
Period size: 277 Copynumber: 2.2 Consensus size: 274
27039804 CTCATAGCTC
* *
27039814 ATTTCTTCATCATTTTCATTAAAAAGCTAATTTTAATCACACATTGAATAAGGAATACTCCCATA
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATC-CACATTGAATAAGCAATACTCCCATA
** * *
27039879 GGTCACTTTCTCACTATTTACATTAAAAATAATTTAATCCCTTACAATGTTAATTTTAATCCCAT
65 GCCCACTTTCTCACTATTTACATTAAAAATAATTTAATCCCTTACAAAGTTAATTTTAATCCCAC
* * * * * *
27039944 ATTGGCTTGTGAACACTATCATGCTTACACTTACCTTGTAAATAAGTGATAGTTTCTTTAATATT
130 ATTGGCTAGAGAACACTATCATGCTTACACTTACCCTATAAATAAGTGATAATTTCTTTAACATT
* * ** *
27040009 TTCATTAAAAAGTTAATTTTAATCCCTCTTTGACCGGAGAACACTC-CTATATCTCACATTTACC
195 TTCATTAAAAAGTTAATTTTAATCCCACATTGACCAAAAAACACTCTC-ATATCTCACATTTACC
27040073 TTATAAATAAGTGACA
259 TTATAAATAAGTGACA
* *
27040089 ATTTCTTCATCATTTTCATTAAAAAGTTTATTTTAATCCTACATTGACT-AGACAATACTCCCAT
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCC-ACATTGAATAAG-CAATACTCCCAT
*
27040153 AGCCCA-TTTCTTCACTATTTTCATTAAAAATTAATTTTAATCCCTTA-ATAAGTTAATTTTAAT
64 AGCCCACTTTC-TCACTATTTACATTAAAAA-TAA-TTTAATCCCTTACA-AAGTTAATTTTAAT
* * * *
27040216 CTCACATTGGCTAGAGAATACTCTCATGCTTACACTTACCCTATAAATTAGTG-TCAATTTCTTT
125 CCCACATTGGCTAGAGAACACTATCATGCTTACACTTACCCTATAAATAAGTGAT-AATTTCTTT
* * * *
27040280 ACCATTTTCATTGAAAAGTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTTACAT
189 AACATTTTCATTAAAAAGTTAATTTTAATCCCACATTGACCAAAAAACACTCTCATATCTCACAT
*
27040345 TTACCTTGTAAATAAGTGACA
254 TTACCTTATAAATAAGTGACA
* *
27040366 ATTTCTTCATCATTTTCATTAAAAGGTTAATTTTAATCCCATATTGAATA
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAAT-CCACATTGAATA
27040416 GGGAATAAAG
Statistics
Matches: 284, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
274 7 0.02
275 77 0.27
276 5 0.02
277 192 0.68
278 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (274 bp):
ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCCACATTGAATAAGCAATACTCCCATAG
CCCACTTTCTCACTATTTACATTAAAAATAATTTAATCCCTTACAAAGTTAATTTTAATCCCACA
TTGGCTAGAGAACACTATCATGCTTACACTTACCCTATAAATAAGTGATAATTTCTTTAACATTT
TCATTAAAAAGTTAATTTTAATCCCACATTGACCAAAAAACACTCTCATATCTCACATTTACCTT
ATAAATAAGTGACA
Found at i:27041137 original size:21 final size:21
Alignment explanation
Indices: 27041111--27041156 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
27041101 TCTTAGGTCT
*
27041111 AGTCTGATATACTATCGTTCC
1 AGTCTGATATACTATAGTTCC
*
27041132 AGTCTGATGTACTATAGTTCC
1 AGTCTGATATACTATAGTTCC
27041153 AGTC
1 AGTC
27041157 AGTCACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (21 bp):
AGTCTGATATACTATAGTTCC
Found at i:27046215 original size:22 final size:22
Alignment explanation
Indices: 27046190--27046231 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27046180 CTGCCACATG
27046190 AATTAAATTAATTATTAAATTA
1 AATTAAATTAATTATTAAATTA
* * *
27046212 AATTAATTTGATTGTTAAAT
1 AATTAAATTAATTATTAAAT
27046232 ATTAAATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
AATTAAATTAATTATTAAATTA
Found at i:27050492 original size:24 final size:24
Alignment explanation
Indices: 27050464--27050512 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27050454 AAATTAAAAG
27050464 TAATCTAATTTGGGTAAGAATTAT
1 TAATCTAATTTGGGTAAGAATTAT
*
27050488 TAATCTAATTTGGGTAAGACTTAT
1 TAATCTAATTTGGGTAAGAATTAT
27050512 T
1 T
27050513 GAGCTTCCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (24 bp):
TAATCTAATTTGGGTAAGAATTAT
Found at i:27051157 original size:23 final size:23
Alignment explanation
Indices: 27051127--27051171 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
27051117 TAAATCCCAC
27051127 ATCACTTCTTATCACGATATTAA
1 ATCACTTCTTATCACGATATTAA
*
27051150 ATCACTTCTTATCACTATATTA
1 ATCACTTCTTATCACGATATTA
27051172 GACCTTACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.42
Consensus pattern (23 bp):
ATCACTTCTTATCACGATATTAA
Found at i:27064740 original size:23 final size:22
Alignment explanation
Indices: 27064687--27064745 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
27064677 TAAATATTAG
*
27064687 TTTATTAATATTTTAATTTGAT
1 TTTATTAATATATTAATTTGAT
* *
27064709 TTTTTTAATGATATT-ATTTTAT
1 TTTATTAAT-ATATTAATTTGAT
*
27064731 TGTTATTAATTTATT
1 T-TTATTAATATATT
27064746 TAGTATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTATTAATATATTAATTTGAT
Found at i:27069837 original size:31 final size:31
Alignment explanation
Indices: 27069802--27069889 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
27069792 CGCCAATCCA
* *
27069802 ATAAGTTCTATTTTGTGAACTGTGTTTGCAT
1 ATAAGTTCTATTTGGTGAACTATGTTTGCAT
* *
27069833 ATAAGTTGTGTTTGGTGAACTATGTTTGCAT
1 ATAAGTTCTATTTGGTGAACTATGTTTGCAT
* * * *
27069864 ATAAGCTGTGTTTGGTAAACTATGTT
1 ATAAGTTCTATTTGGTGAACTATGTT
27069890 CGCAAGTCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (31 bp):
ATAAGTTCTATTTGGTGAACTATGTTTGCAT
Found at i:27069877 original size:17 final size:17
Alignment explanation
Indices: 27069821--27069877 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
27069811 ATTTTGTGAA
27069821 CTGTGTTTGCATATAAG
1 CTGTGTTTGCATATAAG
* * *
27069838 TTGTGTTTG-GT-GAA-
1 CTGTGTTTGCATATAAG
*
27069852 CTATGTTTGCATATAAG
1 CTGTGTTTGCATATAAG
27069869 CTGTGTTTG
1 CTGTGTTTG
27069878 GTAAACTATG
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
14 7 0.24
15 3 0.10
16 3 0.10
17 16 0.55
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (17 bp):
CTGTGTTTGCATATAAG
Found at i:27079630 original size:24 final size:24
Alignment explanation
Indices: 27079603--27079669 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
27079593 TCATTTAACA
27079603 TAGAACACACTTACCTCATTCAAG
1 TAGAACACACTTACCTCATTCAAG
* *
27079627 TAGACCACAC--ATCTCATTCAAG
1 TAGAACACACTTACCTCATTCAAG
*
27079649 TAGCAACTCA-TATACCTCATT
1 TAG-AACACACT-TACCTCATT
27079670 TGTCATCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 14 0.41
23 4 0.12
24 9 0.26
25 7 0.21
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.27
Consensus pattern (24 bp):
TAGAACACACTTACCTCATTCAAG
Found at i:27083396 original size:17 final size:17
Alignment explanation
Indices: 27083333--27083396 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
27083323 ATGGGAAAAC
*
27083333 GTACCAAAATCCAGGAT
1 GTACCAACATCCAGGAT
*
27083350 GTACCAACATCTGCATCAAGAT
1 GTACCAACA--T-C--CAGGAT
27083372 GTACCAACATCCAGGAT
1 GTACCAACATCCAGGAT
27083389 GTACCAAC
1 GTACCAAC
27083397 TATAGTGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 21 0.54
19 2 0.05
20 2 0.05
22 14 0.36
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (17 bp):
GTACCAACATCCAGGAT
Found at i:27089305 original size:40 final size:40
Alignment explanation
Indices: 27089256--27089356 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
27089246 ACTGAGCTTC
* * *
27089256 TTCAATAGATTCATTAGGTATGGCTCAAAAGCACATACGT
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACAT
** *
27089296 TTCAGTAGATTCAGTAGGTATGGCTTGAAAGCGCATACAT
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACAT
*
27089336 TTCAGTAGATCCAGTAGGTAT
1 TTCAGTAGATTCAGTAGGTAT
27089357 CGCTAGTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (40 bp):
TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACAT
Done.