Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 151 of 195
Found at i:25356414 original size:34 final size:35
Alignment explanation
Indices: 25356320--25356433 Score: 107
Period size: 33 Copynumber: 3.5 Consensus size: 35
25356310 TTTAGTCTAG
* *
25356320 GTCATTTAATTTTTTAACTTACGGTTCAGTCTC-A
1 GTCAATTAATTTTTTAATTTACGGTTCAGTCTCGA
* * **
25356354 GTC-ATTTA-TTTTTAATCT-CAATTCAGT-TCGA
1 GTCAATTAATTTTTTAATTTACGGTTCAGTCTCGA
*
25356385 GTCAATTAATTTTTTGATTTACGGTTCAGTCTCGA
1 GTCAATTAATTTTTTAATTTACGGTTCAGTCTCGA
*
25356420 -TCACTT-ATTTTTTA
1 GTCAATTAATTTTTTA
25356434 CCTCAGTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
30 2 0.03
31 11 0.18
32 12 0.19
33 18 0.29
34 15 0.24
35 4 0.06
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (35 bp):
GTCAATTAATTTTTTAATTTACGGTTCAGTCTCGA
Found at i:25356456 original size:227 final size:230
Alignment explanation
Indices: 25356036--25356469 Score: 504
Period size: 227 Copynumber: 1.9 Consensus size: 230
25356026 AAGTCATTTA
*
25356036 ATTTTCTAACTTGTGGTTCAGTTCTGGTCACTTATTTTAGACCTTGGTTCAGTCCAAGTCATTTA
1 ATTTTCTAACTTGTGGTTCAGTTCTGGTCACTTATTTTAGACCTTGATTCAGTCCAAGTCATTTA
* * ** * * * *
25356101 ATTTTCTTACTTGCGGTTTAGTCTTTGTCACTTATTTTCAACCTCGATTCAGTCTAGGTTATTTA
66 ATTTTCTTACTTACGGTTCAGTCTCAGTCACTTATTTTCAACCTCAATTCAGTCGAGGTCAATTA
* * ** * * *
25356166 ATTTTCTAACTTACGATTCAGTTCTGCTCACTTATTTTCAACTTTGGTTCAGTCTAGGTCATTTA
131 ATTTTCTAACTTACGATTCAGTTCTGATCACTTATTTTCAACCTCAGTTCAATCCAAGTCATTTA
25356231 ATTTTTTAACTTACGGTTCAATACCGATCACCTTC
196 ATTTTTTAACTTACGGTTCAATACCGATCACCTTC
* * * * *
25356266 ATTTTC-AACTT-TGGTTTAGTT-TGGTCACTTATTTTCGA-CTTCGATTTAGTCTAGGTCATTT
1 ATTTTCTAACTTGTGGTTCAGTTCTGGTCACTTATTTTAGACCTT-GATTCAGTCCAAGTCATTT
* * *
25356327 AATTTT-TTAACTTACGGTTCAGTCTCAGTCATTTATTTTTAATCTCAATTCAGTTCGA-GTCAA
65 AATTTTCTT-ACTTACGGTTCAGTCTCAGTCACTTATTTTCAACCTCAATTCAG-TCGAGGTCAA
* * * * **
25356390 TTAATTTTTTGATTTACGGTTCAG-TCTCGATCACTTATTTTTTACCTCAGTTCAATCCAAGTCA
128 TTAATTTTCTAACTTACGATTCAGTTCT-GATCACTTATTTTCAACCTCAGTTCAATCCAAGTCA
*
25356454 TTTAATTTTTTGACTT
192 TTTAATTTTTTAACTT
25356470 GCGATTTAAT
Statistics
Matches: 169, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
226 8 0.05
227 138 0.82
228 12 0.07
229 5 0.03
230 6 0.04
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (230 bp):
ATTTTCTAACTTGTGGTTCAGTTCTGGTCACTTATTTTAGACCTTGATTCAGTCCAAGTCATTTA
ATTTTCTTACTTACGGTTCAGTCTCAGTCACTTATTTTCAACCTCAATTCAGTCGAGGTCAATTA
ATTTTCTAACTTACGATTCAGTTCTGATCACTTATTTTCAACCTCAGTTCAATCCAAGTCATTTA
ATTTTTTAACTTACGGTTCAATACCGATCACCTTC
Found at i:25356487 original size:34 final size:32
Alignment explanation
Indices: 25356426--25356527 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 32
25356416 TCGATCACTT
*
25356426 ATTTTTTACCTCAGTTCAATCCAAGTCATTTA
1 ATTTTTTACCTCAATTCAATCCAAGTCATTTA
* * * * *
25356458 ATTTTTTGACTTGCGATTTAATCCTAGTCATAT-
1 ATTTTTT-ACCT-CAATTCAATCCAAGTCATTTA
25356491 ATTTTTTACCTCAATTCAATCCAAGTCATTTA
1 ATTTTTTACCTCAATTCAATCCAAGTCATTTA
25356523 ATTTT
1 ATTTT
25356528 CTAAGTTATA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
31 16 0.29
32 15 0.27
33 10 0.18
34 15 0.27
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (32 bp):
ATTTTTTACCTCAATTCAATCCAAGTCATTTA
Found at i:25356595 original size:130 final size:130
Alignment explanation
Indices: 25356285--25356596 Score: 329
Period size: 130 Copynumber: 2.4 Consensus size: 130
25356275 TTTGGTTTAG
* * * * * * * * *
25356285 TTTGGTCACTTATTTTCGACTTCGATTTAGTCTAGGTCATTTAATTTTTTAACTTACGGTTCAGT
1 TTTGATCACTTATTTTCGACTTCGGTTCAATCCAAGTCATTTAATTTTTTGACTTACGATTCAAT
* * * * * * * * * *
25356350 CTCAGTCATTTATTTTTAATCTCAATTCAGTTCGAGTCAATTAATTTTTTGATTTACGGTTCAGT
66 CTCAGTCATATATTTTTAACCTCAATTCAATCCAAGTCAATTAATTTTCTAAGTTACAGTTCAAT
* * ** * * * *
25356415 CTCGATCACTTATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGACTTGCGATTTAAT
1 TTTGATCACTTATTTTCGACTTCGGTTCAATCCAAGTCATTTAATTTTTTGACTTACGATTCAAT
* * *
25356480 C-CTAGTCATATATTTTTTACCTCAATTCAATCCAAGTCATTTAATTTTCTAAGTTATAGTTCAA
66 CTC-AGTCATATATTTTTAACCTCAATTCAATCCAAGTCAATTAATTTTCTAAGTTACAGTTCAA
25356544 T
130 T
*
25356545 TTTGATCACTTATTTTCGACTTCGGTTCAATCCAAATCATTTAATTTTTTGA
1 TTTGATCACTTATTTTCGACTTCGGTTCAATCCAAGTCATTTAATTTTTTGA
25356597 ATTGTAGTTT
Statistics
Matches: 144, Mismatches: 37, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
129 1 0.01
130 143 0.99
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (130 bp):
TTTGATCACTTATTTTCGACTTCGGTTCAATCCAAGTCATTTAATTTTTTGACTTACGATTCAAT
CTCAGTCATATATTTTTAACCTCAATTCAATCCAAGTCAATTAATTTTCTAAGTTACAGTTCAAT
Found at i:25356618 original size:65 final size:65
Alignment explanation
Indices: 25356419--25356618 Score: 208
Period size: 65 Copynumber: 3.1 Consensus size: 65
25356409 TTCAGTCTCG
* * *
25356419 ATCACTTATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGACTTG-CGATTTAATCCT
1 ATCACTTATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGAATTGTAG-TTTAATCTT
25356483 A
65 A
* * * * * *
25356484 GTCA-TATATTTTTTACCTCAATTCAATCCAAGTCATTTAATTTTCT-AAGTTATAGTTCAATTT
1 ATCACT-TATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGAA-TTGTAGTTTAATCT
*
25356547 TG
64 TA
** * * * *
25356549 ATCACTTATTTTCGACTTCGGTTCAATCCAAATCATTTAATTTTTTGAATTGTAGTTTAGTCTTA
1 ATCACTTATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGAATTGTAGTTTAATCTTA
25356614 ATCAC
1 ATCAC
25356619 CTTCATTTGT
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
64 2 0.02
65 101 0.94
66 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (65 bp):
ATCACTTATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGAATTGTAGTTTAATCTTA
Found at i:25356657 original size:130 final size:130
Alignment explanation
Indices: 25356418--25356658 Score: 272
Period size: 130 Copynumber: 1.8 Consensus size: 130
25356408 GTTCAGTCTC
** * * *
25356418 GATCACTTATTTTTTACCTCAGTTCAATCCAAGTCATTTAATTTTTTGACTTGCGATTTAATCCT
1 GATCACTTATTTTCGACCTCAGTTCAATCCAAATCATTTAATTTTTTGAATTGAGATTTAATCCT
* * * * *
25356483 AGTCATATATTTTTTACCTCAATTCAATCCAAGTCATTTAATTTTCTAAGTTATAGTTCAATTTT
66 AATCATATATTTGTGACCTCAACTCAATCCAAGTCACTTAATTTTCTAAGTTATAGTTCAATTTT
* * * *
25356548 GATCACTTATTTTCGACTTCGGTTCAATCCAAATCATTTAATTTTTTGAATTGTAG-TTTAGTCT
1 GATCACTTATTTTCGACCTCAGTTCAATCCAAATCATTTAATTTTTTGAATTG-AGATTTAATCC
* * *
25356612 TAATCACCT-TCATTTGTGACCTTAACTCAATCCGA-TCACTTATTTTT
65 TAATCA--TAT-ATTTGTGACCTCAACTCAATCCAAGTCACTTAATTTT
25356659 TTTTATCTCA
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
130 58 0.64
131 12 0.13
132 20 0.22
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.46
Consensus pattern (130 bp):
GATCACTTATTTTCGACCTCAGTTCAATCCAAATCATTTAATTTTTTGAATTGAGATTTAATCCT
AATCATATATTTGTGACCTCAACTCAATCCAAGTCACTTAATTTTCTAAGTTATAGTTCAATTTT
Found at i:25357212 original size:15 final size:15
Alignment explanation
Indices: 25357193--25357249 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
25357183 GTTTGGGGCT
*
25357193 CAAATCAATTGGGCC
1 CAAATCAATTGGACC
* *
25357208 TAAATCAATTGAACC
1 CAAATCAATTGGACC
*
25357223 CAAACCAATTGGACC
1 CAAATCAATTGGACC
25357238 CAAATCAATTGG
1 CAAATCAATTGG
25357250 GCCCGGACTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.21
Consensus pattern (15 bp):
CAAATCAATTGGACC
Found at i:25357319 original size:15 final size:16
Alignment explanation
Indices: 25357301--25357332 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
25357291 TATATTTATT
25357301 TTATTTTATG-TTTTA
1 TTATTTTATGATTTTA
25357316 TTATTTTATGATTTTA
1 TTATTTTATGATTTTA
25357332 T
1 T
25357333 CTTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
TTATTTTATGATTTTA
Found at i:25357350 original size:11 final size:11
Alignment explanation
Indices: 25357326--25357363 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25357316 TTATTTTATG
**
25357326 ATTTTATCTTT
1 ATTTTATCCAT
25357337 ATTTTATCCAT
1 ATTTTATCCAT
25357348 A-TTTATCCAT
1 ATTTTATCCAT
25357358 ATTTTA
1 ATTTTA
25357364 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTTTATCCAT
Found at i:25357354 original size:21 final size:19
Alignment explanation
Indices: 25357316--25357363 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
25357306 TTATGTTTTA
* *
25357316 TTATTTTATGATTTTATCT
1 TTATTTTATCATTTTATCC
25357335 TTATTTTATCCATATTTATCC
1 TTATTTTAT-CAT-TTTATCC
*
25357356 ATATTTTA
1 TTATTTTA
25357364 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 13 0.54
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATTTTATCATTTTATCC
Found at i:25357473 original size:24 final size:22
Alignment explanation
Indices: 25357419--25357473 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
25357409 TTTTTATGGC
*
25357419 TTATTGTAAATTTTAATATTAT
1 TTATTTTAAATTTTAATATTAT
*
25357441 TTATCTTTAAATATTTTATATTATT
1 TTAT-TTTAAAT-TTTAATATTA-T
25357466 TTATTTTA
1 TTATTTTA
25357474 TCTCATTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.14
23 6 0.21
24 13 0.46
25 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTTTAAATTTTAATATTAT
Found at i:25357513 original size:7 final size:8
Alignment explanation
Indices: 25357495--25357530 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
25357485 TTTCTTTATC
*
25357495 AAAATTTA
1 AAAAATTA
25357503 AAAAATTA
1 AAAAATTA
25357511 AAAAATTA
1 AAAAATTA
25357519 AAAAATTA
1 AAAAATTA
25357527 AAAA
1 AAAA
25357531 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAATTA
Found at i:25358592 original size:32 final size:32
Alignment explanation
Indices: 25358556--25358619 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
25358546 ACACAATAGC
25358556 TTCCAGTTCAAACACAACAACAGCTTCCAGTT
1 TTCCAGTTCAAACACAACAACAGCTTCCAGTT
25358588 TTCCAGTTCAAACACAACAACAGCTTCCAGTT
1 TTCCAGTTCAAACACAACAACAGCTTCCAGTT
25358620 CAAACATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.09, T:0.25
Consensus pattern (32 bp):
TTCCAGTTCAAACACAACAACAGCTTCCAGTT
Found at i:25358631 original size:53 final size:53
Alignment explanation
Indices: 25358548--25358687 Score: 235
Period size: 53 Copynumber: 2.6 Consensus size: 53
25358538 CAGTTCAAAC
* *
25358548 ACAATAGCTTCCAGTTCAAACACAACAACAGCTTCCAGTTTTCCAGTTCAAACACA
1 ACAACAGCTTCCAGTTC-AA-AC-ATAACAGCTTCCAGTTTTCCAGTTCAAACACA
25358604 ACAACAGCTTCCAGTTCAAACATAACAGCTTCCAGTTTTCCAGTTCAAACACA
1 ACAACAGCTTCCAGTTCAAACATAACAGCTTCCAGTTTTCCAGTTCAAACACA
25358657 ACAACAGCTTCCAGTTCAAACATAACAGCTT
1 ACAACAGCTTCCAGTTCAAACATAACAGCTT
25358688 TCAATTCAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
53 62 0.76
54 2 0.02
55 2 0.02
56 16 0.20
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.24
Consensus pattern (53 bp):
ACAACAGCTTCCAGTTCAAACATAACAGCTTCCAGTTTTCCAGTTCAAACACA
Found at i:25358632 original size:21 final size:24
Alignment explanation
Indices: 25358588--25358767 Score: 141
Period size: 21 Copynumber: 7.8 Consensus size: 24
25358578 GCTTCCAGTT
25358588 TTCCAGTTCAAACACAACAACAGC
1 TTCCAGTTCAAACACAACAACAGC
* * *
25358612 TTCCAGTTCAAACATAACAGCTTCCAGTT
1 TTCCAGTTCAAACACAACA----ACAG-C
25358641 TTCCAGTTCAAACACAACAACAGC
1 TTCCAGTTCAAACACAACAACAGC
*
25358665 TTCCAGTTC-AA-AC-ATAACAGC
1 TTCCAGTTCAAACACAACAACAGC
* *
25358686 TTTCAATTC-AA-ACAA-AACAGC
1 TTCCAGTTCAAACACAACAACAGC
*
25358707 TTTCAGTTC-AA-AC-ACAACAGC
1 TTCCAGTTCAAACACAACAACAGC
*
25358728 TTCCAATTC-AA-AC-ACAACAGC
1 TTCCAGTTCAAACACAACAACAGC
* *
25358749 TTCCAGCTCAATCACAACA
1 TTCCAGTTCAAACACAACA
25358768 GCTTTCAACT
Statistics
Matches: 131, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.01
21 68 0.52
22 4 0.03
23 4 0.03
24 30 0.23
25 3 0.02
28 3 0.02
29 18 0.14
ACGTcount: A:0.39, C:0.31, G:0.08, T:0.22
Consensus pattern (24 bp):
TTCCAGTTCAAACACAACAACAGC
Found at i:25358672 original size:32 final size:29
Alignment explanation
Indices: 25358556--25358659 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
25358546 ACACAATAGC
25358556 TTCCAGTTCAAACACAACAACAGCTTCCAGTT
1 TTCCAGTTC-AA-AC-ACAACAGCTTCCAGTT
* *
25358588 TTCCAGTTCAAACACAACA----ACAG-C
1 TTCCAGTTCAAACACAACAGCTTCCAGTT
*
25358612 TTCCAGTTCAAACATAACAGCTTCCAGTT
1 TTCCAGTTCAAACACAACAGCTTCCAGTT
25358641 TTCCAGTTCAAACACAACA
1 TTCCAGTTCAAACACAACA
25358660 ACAGCTTCCA
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
24 18 0.30
25 3 0.05
28 3 0.05
29 24 0.39
30 2 0.03
31 2 0.03
32 9 0.15
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.24
Consensus pattern (29 bp):
TTCCAGTTCAAACACAACAGCTTCCAGTT
Found at i:25358714 original size:42 final size:42
Alignment explanation
Indices: 25358654--25358781 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 42
25358644 CAGTTCAAAC
*
25358654 ACAACAACAGCTTCCAGTTCAAACATAACAGCTTTCAATTCAA
1 ACAA-AACAGCTTCCAGTTCAAACACAACAGCTTTCAATTCAA
* *
25358697 ACAAAACAGCTTTCAGTTCAAACACAACAGCTTCCAATTCAA
1 ACAAAACAGCTTCCAGTTCAAACACAACAGCTTTCAATTCAA
* * * *
25358739 ACACAACAGCTTCCAGCTCAATCACAACAGCTTTCAACTCAA
1 ACAAAACAGCTTCCAGTTCAAACACAACAGCTTTCAATTCAA
25358781 A
1 A
25358782 AAATGTTGTC
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 72 0.95
43 4 0.05
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.21
Consensus pattern (42 bp):
ACAAAACAGCTTCCAGTTCAAACACAACAGCTTTCAATTCAA
Found at i:25358768 original size:21 final size:21
Alignment explanation
Indices: 25358657--25358781 Score: 151
Period size: 21 Copynumber: 6.0 Consensus size: 21
25358647 TTCAAACACA
*
25358657 ACAACAGCTTCCAGTTCAAAC
1 ACAACAGCTTCCAATTCAAAC
* *
25358678 ATAACAGCTTTCAATTCAAAC
1 ACAACAGCTTCCAATTCAAAC
* * *
25358699 AAAACAGCTTTCAGTTCAAAC
1 ACAACAGCTTCCAATTCAAAC
25358720 ACAACAGCTTCCAATTCAAAC
1 ACAACAGCTTCCAATTCAAAC
** *
25358741 ACAACAGCTTCCAGCTCAATC
1 ACAACAGCTTCCAATTCAAAC
* *
25358762 ACAACAGCTTTCAACTCAAA
1 ACAACAGCTTCCAATTCAAA
25358782 AAATGTTGTC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 90 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (21 bp):
ACAACAGCTTCCAATTCAAAC
Found at i:25358781 original size:63 final size:63
Alignment explanation
Indices: 25358657--25358781 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
25358647 TTCAAACACA
* * * * **
25358657 ACAACAGCTTCCAGTTCAAACATAACAGCTTTCAATTCAAACAAAACAGCTTTCAGTTCAAAC
1 ACAACAGCTTCCAATTCAAACACAACAGCTTCCAACTCAAACAAAACAGCTTTCAACTCAAAC
* * *
25358720 ACAACAGCTTCCAATTCAAACACAACAGCTTCCAGCTCAATCACAACAGCTTTCAACTCAAA
1 ACAACAGCTTCCAATTCAAACACAACAGCTTCCAACTCAAACAAAACAGCTTTCAACTCAAA
25358782 AAATGTTGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (63 bp):
ACAACAGCTTCCAATTCAAACACAACAGCTTCCAACTCAAACAAAACAGCTTTCAACTCAAAC
Found at i:25359452 original size:17 final size:15
Alignment explanation
Indices: 25359407--25359453 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
25359397 ATGAAATAAT
25359407 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
25359420 ATAATATATAACAAC
1 AAAATATATAACAAC
25359435 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
25359452 AA
1 AA
25359454 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:25363241 original size:17 final size:17
Alignment explanation
Indices: 25363205--25363386 Score: 135
Period size: 17 Copynumber: 10.7 Consensus size: 17
25363195 AAACCTCTCC
*
25363205 CATGGTTTGC-A-AGCA
1 CATGGTTTGCAACAGAA
25363220 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
*
25363237 CATGGTTT-CGAACAGCA
1 CATGGTTTGC-AACAGAA
25363254 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
* * *
25363271 CATGGTTTCGAAAATAGCA
1 CATGGTTT-G-CAACAGAA
*
25363290 CAT-G---GCAACAGAT
1 CATGGTTTGCAACAGAA
* * *
25363303 CATGGTTTCGAAAATAGCA
1 CATGGTTT-G-CAACAGAA
25363322 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
* *
25363339 CATGGTTTCGAAAACAGCA
1 CATGGTTT-G-CAACAGAA
* *
25363358 CATGGTTTGTAACAAAA
1 CATGGTTTGCAACAGAA
25363375 CATGGTTTGCAA
1 CATGGTTTGCAA
25363387 GTTGCAACAT
Statistics
Matches: 130, Mismatches: 23, Indels: 26
0.73 0.13 0.15
Matches are distributed among these distances:
13 7 0.05
14 2 0.02
15 10 0.08
16 2 0.02
17 68 0.52
18 7 0.05
19 34 0.26
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (17 bp):
CATGGTTTGCAACAGAA
Found at i:25363343 original size:36 final size:36
Alignment explanation
Indices: 25363216--25363382 Score: 247
Period size: 36 Copynumber: 4.8 Consensus size: 36
25363206 ATGGTTTGCA
25363216 AGCACATGGTTTGCAACAGAACATGGTTTCG--AAC
1 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
*
25363250 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAT
1 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
* *
25363286 AGCACAT-G---GCAACAGATCATGGTTTCGAAAAT
1 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
25363318 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
1 AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
* *
25363354 AGCACATGGTTTGTAACAAAACATGGTTT
1 AGCACATGGTTTGCAACAGAACATGGTTT
25363383 GCAAGTTGCA
Statistics
Matches: 121, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
32 30 0.25
33 1 0.01
34 31 0.26
35 1 0.01
36 58 0.48
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (36 bp):
AGCACATGGTTTGCAACAGAACATGGTTTCGAAAAC
Found at i:25363344 original size:68 final size:66
Alignment explanation
Indices: 25363228--25363362 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 66
25363218 CACATGGTTT
*
25363228 GCAACAGAACATGGTTTCGAACAGCACATGGTTTGCAACAGAACATGGTTTCGAAAATAGCACAT
1 GCAACAGAACATGGTTTCGAACAGCACATGGTTTGCAACAGAACATGGTTTCGAAAACAGCACAT
25363293 G
66 G
* *
25363294 GCAACAGATCATGGTTTCGAAAATAGCACATGGTTTGCAACAGAACATGGTTTCGAAAACAGCAC
1 GCAACAGAACATGGTTTCG--AACAGCACATGGTTTGCAACAGAACATGGTTTCGAAAACAGCAC
25363359 ATG
64 ATG
25363362 G
1 G
25363363 TTTGTAACAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 18 0.28
68 46 0.72
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (66 bp):
GCAACAGAACATGGTTTCGAACAGCACATGGTTTGCAACAGAACATGGTTTCGAAAACAGCACAT
G
Found at i:25363985 original size:37 final size:37
Alignment explanation
Indices: 25363902--25363987 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
25363892 GGTTTCATAT
* **
25363902 AAACCCGACCCCGACCCGAAACTGATTTTTCAAAAATT
1 AAACCCGA-CCCGACCCGAAACCGATTTTTCAAAAAAA
*
25363940 AAATCCGACCCGACCCGAAACCCG-TTTTT-AAAGAAAA
1 AAACCCGACCCGACCCGAAA-CCGATTTTTCAAA-AAAA
25363977 AAACCCGACCC
1 AAACCCGACCC
25363988 TAAATTATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 3 0.07
37 29 0.71
38 9 0.22
ACGTcount: A:0.38, C:0.34, G:0.12, T:0.16
Consensus pattern (37 bp):
AAACCCGACCCGACCCGAAACCGATTTTTCAAAAAAA
Found at i:25364519 original size:13 final size:14
Alignment explanation
Indices: 25364490--25364519 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25364480 ACTATTGGAG
25364490 AATTTTATAACAAA
1 AATTTTATAACAAA
25364504 AATTTTATAA-AAA
1 AATTTTATAACAAA
25364517 AAT
1 AAT
25364520 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTTATAACAAA
Found at i:25366047 original size:19 final size:20
Alignment explanation
Indices: 25366015--25366052 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25366005 ATGAAGTACA
25366015 CATTTTTCAAGCTA-AAATT
1 CATTTTTCAAGCTACAAATT
* *
25366034 CATTTTTTATGCTACAAAT
1 CATTTTTCAAGCTACAAAT
25366053 ATATCTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (20 bp):
CATTTTTCAAGCTACAAATT
Found at i:25366476 original size:9 final size:9
Alignment explanation
Indices: 25366462--25366486 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25366452 GCCGTGCACA
25366462 GCACCATTG
1 GCACCATTG
25366471 GCACCATTG
1 GCACCATTG
25366480 GCACCAT
1 GCACCAT
25366487 CCACCTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (9 bp):
GCACCATTG
Found at i:25368264 original size:3 final size:3
Alignment explanation
Indices: 25368256--25368313 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
25368246 ACAATAAATG
25368256 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25368304 ATA ATA ATA A
1 ATA ATA ATA A
25368314 ATTAAACTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25369383 original size:26 final size:24
Alignment explanation
Indices: 25369349--25369398 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
25369339 CTTTCAACAA
*
25369349 AAAACCGATGAATACATATATATATT
1 AAAACCGAT-AATA-AAATATATATT
*
25369375 AAAATCGATAATAAAATATATATT
1 AAAACCGATAATAAAATATATATT
25369399 TTTATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAACCGATAATAAAATATATATT
Found at i:25370169 original size:19 final size:20
Alignment explanation
Indices: 25370138--25370184 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
25370128 TTATCTAATT
25370138 AAAAAAATCAAAAACT-TAAA
1 AAAAAAATCAAAAA-TGTAAA
25370158 AAAAAAAT-AAAAATGGTAAA
1 AAAAAAATCAAAAAT-GTAAA
25370178 AAAAAAA
1 AAAAAAA
25370185 AGGAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 5 0.20
20 19 0.76
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (20 bp):
AAAAAAATCAAAAATGTAAA
Found at i:25370524 original size:17 final size:18
Alignment explanation
Indices: 25370502--25370542 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
25370492 ACCCCACATT
25370502 TAAAAAATGTTAAA-ATA
1 TAAAAAATGTTAAATATA
* *
25370519 TAAAAATTGTTAAATATT
1 TAAAAAATGTTAAATATA
25370537 TAAAAA
1 TAAAAA
25370543 TATATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
TAAAAAATGTTAAATATA
Found at i:25371051 original size:10 final size:10
Alignment explanation
Indices: 25371022--25371072 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
25371012 TTTCACCTTA
25371022 AAAAAT-TTT
1 AAAAATATTT
* *
25371031 AAAATTTTTT
1 AAAAATATTT
25371041 AAAAATATTT
1 AAAAATATTT
*
25371051 ATTAAATA-TT
1 A-AAAATATTT
25371061 AAAAATATTT
1 AAAAATATTT
25371071 AA
1 AA
25371073 TAAACAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 10 0.29
10 19 0.56
11 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AAAAATATTT
Found at i:25371076 original size:20 final size:20
Alignment explanation
Indices: 25371039--25371076 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25371029 TTAAAATTTT
*
25371039 TTAAAAATATTTATTAAATA
1 TTAAAAATATTTAATAAATA
25371059 TTAAAAATATTTAATAAA
1 TTAAAAATATTTAATAAA
25371077 CAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAAATATTTAATAAATA
Found at i:25371084 original size:21 final size:20
Alignment explanation
Indices: 25371040--25371085 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25371030 TAAAATTTTT
* * *
25371040 TAAAAATATTTATTAAATAT
1 TAAAAATATTTAATAAAAAA
25371060 TAAAAATATTTAATAAACAAA
1 TAAAAATATTTAATAAA-AAA
25371081 TAAAA
1 TAAAA
25371086 TAATAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATATTTAATAAAAAA
Found at i:25371648 original size:35 final size:34
Alignment explanation
Indices: 25371589--25371667 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 34
25371579 ATAATTAAAA
* *
25371589 ATTATATATTTTTTACTTTATTAGTTTAGGTTTT
1 ATTATATTTTTTTTACTTTATTAGTTTAGGCTTT
* *
25371623 ATTATATTTTTTTTGGCTTTTTTAGTTTAGGCTTT
1 ATTATATTTTTTTT-ACTTTATTAGTTTAGGCTTT
25371658 ATTATATTTT
1 ATTATATTTT
25371668 CTATTTGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 13 0.32
35 27 0.68
ACGTcount: A:0.20, C:0.04, G:0.10, T:0.66
Consensus pattern (34 bp):
ATTATATTTTTTTTACTTTATTAGTTTAGGCTTT
Found at i:25371737 original size:21 final size:22
Alignment explanation
Indices: 25371711--25371757 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
25371701 TAGTTTAGGT
25371711 TTTATTATATTT-CTA-TTTGAC
1 TTTATTATATTTACTACTTT-AC
25371732 TTTATTATATTTACTACTTTAC
1 TTTATTATATTTACTACTTTAC
25371754 TTTA
1 TTTA
25371758 AAGTTGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 12 0.50
22 9 0.38
23 3 0.12
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATTATATTTACTACTTTAC
Found at i:25383010 original size:24 final size:24
Alignment explanation
Indices: 25382956--25383011 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
25382946 CATGAGGATG
*
25382956 GTCAAATAATATACATACTTTTCA
1 GTCAAAAAATATACATACTTTTCA
* *
25382980 ATAAAAAAATATACATACTTTGT-A
1 GTCAAAAAATATACATACTTT-TCA
25383004 GTCAAAAA
1 GTCAAAAA
25383012 GTGCTATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.32
Consensus pattern (24 bp):
GTCAAAAAATATACATACTTTTCA
Found at i:25383895 original size:3 final size:3
Alignment explanation
Indices: 25383887--25383925 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
25383877 CAATTTTTTA
25383887 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25383926 TAATATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25383959 original size:14 final size:13
Alignment explanation
Indices: 25383932--25383969 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
25383922 TATTTAATAT
25383932 TTTTTTTCTT-TC
1 TTTTTTTCTTCTC
25383944 TTTTTCTTCTTCTC
1 TTTTT-TTCTTCTC
25383958 TTTCTTTTCTTC
1 TTT-TTTTCTTC
25383970 CCGTTTCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 11 0.48
15 2 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTCTTCTC
Found at i:25385571 original size:12 final size:12
Alignment explanation
Indices: 25385549--25385577 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25385539 TAATTAAAAT
25385549 TAAAA-AATTAA
1 TAAAATAATTAA
25385560 TAAAATAATTAA
1 TAAAATAATTAA
25385572 TAAAAT
1 TAAAAT
25385578 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:25385878 original size:196 final size:194
Alignment explanation
Indices: 25385632--25386022 Score: 599
Period size: 196 Copynumber: 2.0 Consensus size: 194
25385622 GCATGGCATG
*
25385632 CATGACATAATTTCTTACAAAAAGTAAATTTAGACCTCCAAAGATGAGATTCTAAAAGTATTCCG
1 CATGACAT-ATTTCTTACAAAAAGTAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCG
* * * *
25385697 AGTAGAGATGCTTTAAGAAATCTTTAGGTGAAAAATAGTTCTTTTAATGTTACCAATGTACTGAA
65 AGTAGAGATGCTTTAAGAAATCTTCAGGTGAAAAAGAGTTCTTTTAATGTTACAAACGTACTGAA
* * *
25385762 ACATTTTAAGAATTATTTTAATAAAAAGGTTTTAATTTATTTTTTTTAAGAATAAATATTTTTTT
130 ACATTTTAAGAATTATTTCAATAAAAA-GTTTTAATTTATTTTTCTCAAGAAT-AAT-TTTTTTT
25385827 TAA
192 TAA
25385830 CATGACAT-TTTCTTACGAAAAA-TAAATTCGAG-CCTCCAAAGATGAGATTCTAAAAGTATTCC
1 CATGACATATTTCTTAC-AAAAAGTAAATT-GAGACCTCCAAAGATGAGATTCTAAAAGTATTCC
* *
25385892 GAGTAGAGATGCTTTAAGAAATCTTCAGGTGAGAAAGAGTTCTTTTAATGTTACAAACGTACTGG
64 GAGTAGAGATGCTTTAAGAAATCTTCAGGTGAAAAAGAGTTCTTTTAATGTTACAAACGTACTGA
* *
25385957 AACATTTTAAGAATTATTTCAATAAAAAGTTTTGATTTATTTTTCTCGAGAATAATTTTTTTTTA
129 AACATTTTAAGAATTATTTCAATAAAAAGTTTTAATTTATTTTTCTCAAGAATAATTTTTTTTTA
25386022 A
194 A
25386023 TAAATAAAAA
Statistics
Matches: 179, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
193 10 0.06
194 3 0.02
195 21 0.12
196 130 0.73
197 7 0.04
198 8 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (194 bp):
CATGACATATTTCTTACAAAAAGTAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGA
GTAGAGATGCTTTAAGAAATCTTCAGGTGAAAAAGAGTTCTTTTAATGTTACAAACGTACTGAAA
CATTTTAAGAATTATTTCAATAAAAAGTTTTAATTTATTTTTCTCAAGAATAATTTTTTTTTAA
Found at i:25391943 original size:48 final size:48
Alignment explanation
Indices: 25391872--25392061 Score: 264
Period size: 48 Copynumber: 4.0 Consensus size: 48
25391862 AATTTGAAAA
* *
25391872 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTC
1 CAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC
25391920 CAAGATGA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC
1 C-AGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC
* *
25391968 CAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTT-
1 CAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-AGCTTTTC
*
25392016 C--ATGA-AATTTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCTTTT
1 CAGATGAGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
25392062 AAACTTTCAA
Statistics
Matches: 130, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
45 2 0.02
46 38 0.29
47 6 0.05
48 72 0.55
49 12 0.09
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (48 bp):
CAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC
Found at i:25393377 original size:15 final size:15
Alignment explanation
Indices: 25393327--25393377 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
25393317 AAATATTTTT
*
25393327 TTTATTTTTTTTAAAA
1 TTTA-TTTTTTTAATA
*
25393343 TTT-TTTTTTTTATA
1 TTTATTTTTTTAATA
*
25393357 TATTATTTTATTAATA
1 T-TTATTTTTTTAATA
25393373 TTTAT
1 TTTAT
25393378 GTATGTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
16 13 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTTTTTAATA
Found at i:25393906 original size:18 final size:17
Alignment explanation
Indices: 25393880--25393913 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25393870 TTTTTTCTTC
*
25393880 AAAATATTAATTAAAATT
1 AAAAAATTAA-TAAAATT
25393898 AAAAAATTAATAAAAT
1 AAAAAATTAATAAAAT
25393914 AATTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAAATTAATAAAATT
Found at i:25393919 original size:12 final size:12
Alignment explanation
Indices: 25393897--25393925 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25393887 TAATTAAAAT
25393897 TAAAA-AATTAA
1 TAAAATAATTAA
25393908 TAAAATAATTAA
1 TAAAATAATTAA
25393920 TAAAAT
1 TAAAAT
25393926 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:25407124 original size:17 final size:17
Alignment explanation
Indices: 25407102--25407134 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25407092 GGATTGTTGG
25407102 GTTATGGCTT-AGGTAGA
1 GTTATGG-TTGAGGTAGA
25407119 GTTATGGTTGAGGTAG
1 GTTATGGTTGAGGTAG
25407135 TGATGATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.21, C:0.03, G:0.39, T:0.36
Consensus pattern (17 bp):
GTTATGGTTGAGGTAGA
Found at i:25415242 original size:61 final size:61
Alignment explanation
Indices: 25415147--25415269 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
25415137 GGCAGTTTTT
25415147 CAACCATTAGGCACCTACTTTGGAAAGTGTCGTTCCTTGGAGGGCAACGAAGCCTTCAAAG
1 CAACCATTAGGCACCTACTTTGGAAAGTGTCGTTCCTTGGAGGGCAACGAAGCCTTCAAAG
*
25415208 CAACCATTAGGCACCTACTTTGGAAAGTGTCGTTCCTTGGAGGGCAACGATGCCTTCAAAG
1 CAACCATTAGGCACCTACTTTGGAAAGTGTCGTTCCTTGGAGGGCAACGAAGCCTTCAAAG
25415269 C
1 C
25415270 CTTGAATAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (61 bp):
CAACCATTAGGCACCTACTTTGGAAAGTGTCGTTCCTTGGAGGGCAACGAAGCCTTCAAAG
Found at i:25415879 original size:41 final size:41
Alignment explanation
Indices: 25415834--25415917 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
25415824 GAAAAAGAAG
25415834 TAAGAGAGTTATAGAATTTTATTAGGTAAATATCCTATATC
1 TAAGAGAGTTATAGAATTTTATTAGGTAAATATCCTATATC
* *
25415875 TAAGAGAGTTATAGGATTTTATTAGGTAGATATCCTATATC
1 TAAGAGAGTTATAGAATTTTATTAGGTAAATATCCTATATC
25415916 TA
1 TA
25415918 GTTGAGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (41 bp):
TAAGAGAGTTATAGAATTTTATTAGGTAAATATCCTATATC
Found at i:25418000 original size:32 final size:29
Alignment explanation
Indices: 25417964--25418032 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 29
25417954 CACAATAAAT
* *
25417964 TATAACATGCAAAATAGATTATGCAAATATCA
1 TATAACATGCAAAA-ACATTAT--AAAAATCA
*
25417996 TATAATCATGCCAAAACATTATAAAAATCA
1 TATAA-CATGCAAAAACATTATAAAAATCA
25418026 TATAACA
1 TATAACA
25418033 AATCATGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 12 0.36
32 11 0.33
33 8 0.24
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (29 bp):
TATAACATGCAAAAACATTATAAAAATCA
Found at i:25420287 original size:3 final size:3
Alignment explanation
Indices: 25420264--25420352 Score: 84
Period size: 3 Copynumber: 32.0 Consensus size: 3
25420254 AAAAAAAAGG
*
25420264 AAT AA- AAT AA- AAT AA- AAT AAT AAT AAT AAT AGT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
25420308 AAC AAT AAT AAT AAT -GT AAT AAT -AT AAT -AT AAA AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25420353 CGGTTCAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 13 0.19
3 56 0.81
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:25420300 original size:23 final size:23
Alignment explanation
Indices: 25420264--25420345 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
25420254 AAAAAAAAGG
25420264 AATAA-AATAA-AATAAAATAAT
1 AATAATAATAATAATAAAATAAT
* *
25420285 AATAATAATAGTAATAATATAAT
1 AATAATAATAATAATAAAATAAT
* **
25420308 AACAATAATAATAATGTAATAAT
1 AATAATAATAATAATAAAATAAT
*
25420331 -ATAAT-ATAAAAATAA
1 AATAATAATAATAATAA
25420346 TACTAATCGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
21 12 0.25
22 8 0.17
23 28 0.58
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (23 bp):
AATAATAATAATAATAAAATAAT
Found at i:25420308 original size:20 final size:20
Alignment explanation
Indices: 25420265--25420352 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
25420255 AAAAAAAGGA
25420265 ATAA-AATAA-AATAA-AAT
1 ATAATAATAATAATAATAAT
*
25420282 AATAATAATAATAGTAATAAT
1 -ATAATAATAATAATAATAAT
*
25420303 ATAATAACAATAATAATAAT
1 ATAATAATAATAATAATAAT
*
25420323 GTAATAAT-ATAAT-ATAA-
1 ATAATAATAATAATAATAAT
*
25420340 A-AATAATACTAAT
1 ATAATAATAATAAT
25420353 CGGTTCAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.10
17 4 0.07
18 8 0.14
19 10 0.17
20 28 0.47
21 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:25422142 original size:26 final size:24
Alignment explanation
Indices: 25422113--25422175 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
25422103 TTCCTTTTTC
*
25422113 TTTTTTTTTTTGTTCTTTTTTCTTGT
1 TTTTTTTTTTTGTTC-ATTTT-TTGT
*
25422139 TTTTATTTTTTGTTCATTTTTTGT
1 TTTTTTTTTTTGTTCATTTTTTGT
25422163 TTTGTTTTTTTTG
1 TTT-TTTTTTTTG
25422176 CACACCCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.21
25 12 0.36
26 14 0.42
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.83
Consensus pattern (24 bp):
TTTTTTTTTTTGTTCATTTTTTGT
Found at i:25426197 original size:20 final size:21
Alignment explanation
Indices: 25426148--25426202 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
25426138 CAAAATGTTT
* *
25426148 AATAAATAATAAACTACTTAA
1 AATAAATAAAAAACTACGTAA
25426169 AAGTAAATAAAAAACTA-GTAA
1 AA-TAAATAAAAAACTACGTAA
25426190 AATAAATAAAAAA
1 AATAAATAAAAAA
25426203 TAAAATCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 11 0.35
21 7 0.23
22 13 0.42
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.22
Consensus pattern (21 bp):
AATAAATAAAAAACTACGTAA
Found at i:25426761 original size:19 final size:20
Alignment explanation
Indices: 25426726--25426764 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
25426716 TAAACACTAA
*
25426726 GTTCTTTTACCAAATCCACC
1 GTTCTTTTACAAAATCCACC
25426746 GTTCTTTT-CAAAATCCACC
1 GTTCTTTTACAAAATCCACC
25426765 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (20 bp):
GTTCTTTTACAAAATCCACC
Found at i:25427143 original size:3 final size:3
Alignment explanation
Indices: 25427135--25427182 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
25427125 TAGAAGTAAC
25427135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25427183 CGGTTCAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25427371 original size:7 final size:7
Alignment explanation
Indices: 25427359--25427391 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
25427349 CACAATTAAA
25427359 AAAAAAT
1 AAAAAAT
25427366 AAAAAAT
1 AAAAAAT
25427373 AAAAAAT
1 AAAAAAT
*
25427380 AGAAAAT
1 AAAAAAT
25427387 AAAAA
1 AAAAA
25427392 GCAAAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:25427376 original size:6 final size:6
Alignment explanation
Indices: 25427356--25427421 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
25427346 AACCACAATT
** *
25427356 AAAA-A AAAATAA AAAATAA AAAATA GAAAATA AAAAGC AAAATC AAAATA
1 AAAATA AAAAT-A AAAAT-A AAAATA -AAAATA AAAATA AAAATA AAAATA
* *
25427406 AAAATC AAATTA AAAA
1 AAAATA AAAATA AAAA
25427422 ATCAAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
5 4 0.08
6 27 0.54
7 19 0.38
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:25427376 original size:12 final size:13
Alignment explanation
Indices: 25427361--25427432 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 13
25427351 CAATTAAAAA
*
25427361 AAAATAAAAAATAA
1 AAAATAAAAAAT-C
*
25427375 AAAATAGAAAAT-
1 AAAATAAAAAATC
*
25427387 AAAA-AGCAAAATC
1 AAAATA-AAAAATC
25427400 AAAAT-AAAAATC
1 AAAATAAAAAATC
*
25427412 AAATTAAAAAATC
1 AAAATAAAAAATC
25427425 AAAA-AAAA
1 AAAATAAAA
25427433 GGAAAAAGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
11 1 0.02
12 23 0.47
13 14 0.29
14 11 0.22
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAATAAAAAATC
Found at i:25428465 original size:13 final size:12
Alignment explanation
Indices: 25428440--25428477 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
25428430 ATAAAAAAGT
25428440 AATAAAATAAAA
1 AATAAAATAAAA
25428452 AATAAAACTAAAA
1 AATAAAA-TAAAA
25428465 AATACAAATAAAA
1 AATA-AAATAAAA
25428478 TTTTTGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 14 0.58
14 3 0.12
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:25429940 original size:5 final size:5
Alignment explanation
Indices: 25429925--25429984 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
25429915 ACTTTGAGTC
* * * *
25429925 TTTATT TTTAT TTTAT TTTAT TTTAT TTATTT TTTAT TTTCT ATTAT TTTCT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TT-TAT TTTAT TTTAT TTTAT TTTAT
*
25429977 ATTAT TTT
1 TTTAT TTT
25429985 TCATTTTTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
5 35 0.81
6 8 0.19
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:25429949 original size:21 final size:21
Alignment explanation
Indices: 25429925--25429979 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
25429915 ACTTTGAGTC
25429925 TTTATTTTTATTTTATTTTAT
1 TTTATTTTTATTTTATTTTAT
*
25429946 TTTATTTATT-TTTTATTTTCT
1 TTTATTT-TTATTTTATTTTAT
*
25429967 ATTATTTTCTATT
1 TTTATTTT-TATT
25429980 ATTTTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATTTTATTTTAT
Found at i:25433466 original size:8 final size:8
Alignment explanation
Indices: 25433453--25433488 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
25433443 TGTATATGCA
25433453 AAAGAATG
1 AAAGAATG
25433461 AAAGAATG
1 AAAGAATG
25433469 AAAGAAT-
1 AAAGAATG
*
25433476 AAAGATTG
1 AAAGAATG
25433484 AAAGA
1 AAAGA
25433489 GGAAATGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (8 bp):
AAAGAATG
Found at i:25433485 original size:15 final size:16
Alignment explanation
Indices: 25433453--25433488 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
25433443 TGTATATGCA
25433453 AAAGAATGAAAGAATG
1 AAAGAATGAAAGAATG
*
25433469 AAAGAAT-AAAGATTG
1 AAAGAATGAAAGAATG
25433484 AAAGA
1 AAAGA
25433489 GGAAATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (16 bp):
AAAGAATGAAAGAATG
Found at i:25439212 original size:10 final size:10
Alignment explanation
Indices: 25439197--25439241 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
25439187 TAGTACAAAA
25439197 TATTATATTG
1 TATTATATTG
*
25439207 TATTATATTA
1 TATTATATTG
**
25439217 TATTAT-TAC
1 TATTATATTG
25439226 TATTATATTG
1 TATTATATTG
25439236 TATTAT
1 TATTAT
25439242 TATTATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (10 bp):
TATTATATTG
Found at i:25439231 original size:19 final size:20
Alignment explanation
Indices: 25439207--25439287 Score: 96
Period size: 19 Copynumber: 4.0 Consensus size: 20
25439197 TATTATATTG
*
25439207 TATTA-TATTATATTATTAC
1 TATTATTATTATATTATTAT
*
25439226 TATTA-TATTGTATTATTAT
1 TATTATTATTATATTATTAT
25439245 TATTATTATT-TATTTATTATT
1 TATTATTATTATA-TTATTA-T
25439266 TATTATTATTATTATTATTAT
1 TATTATTATTA-TATTATTAT
25439287 T
1 T
25439288 TCTTTCCTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
19 24 0.44
20 10 0.18
21 13 0.24
22 6 0.11
23 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (20 bp):
TATTATTATTATATTATTAT
Found at i:25439242 original size:3 final size:3
Alignment explanation
Indices: 25439207--25439287 Score: 89
Period size: 3 Copynumber: 27.3 Consensus size: 3
25439197 TATTATATTG
* *
25439207 TAT TA- TAT TA- TAT TAT TAC TAT TA- TAT T-G TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25439251 TATT TATT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TA-T TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
25439288 TCTTTCCTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
2 7 0.10
3 51 0.75
4 10 0.15
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25439263 original size:33 final size:34
Alignment explanation
Indices: 25439207--25439288 Score: 107
Period size: 33 Copynumber: 2.4 Consensus size: 34
25439197 TATTATATTG
25439207 TATTA-TATTATATTATTACTATTATATT-GTATTAT
1 TATTATTATTAT-TTATTA-TATTAT-TTAGTATTAT
*
25439242 TATTATTATTATTTATT-TATTATTTATTATTAT
1 TATTATTATTATTTATTATATTATTTAGTATTAT
25439275 TATTATTATTATTT
1 TATTATTATTATTT
25439289 CTTTCCTTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
32 2 0.05
33 26 0.59
35 10 0.23
36 6 0.14
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (34 bp):
TATTATTATTATTTATTATATTATTTAGTATTAT
Found at i:25444495 original size:10 final size:10
Alignment explanation
Indices: 25444480--25444520 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
25444470 AATTTTCTTG
25444480 AAAATAAAAA
1 AAAATAAAAA
25444490 AAAAT--AAA
1 AAAATAAAAA
25444498 AAAATAAAAA
1 AAAATAAAAA
* *
25444508 AAGAGAAAAA
1 AAAATAAAAA
25444518 AAA
1 AAA
25444521 GTGAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:25444503 original size:18 final size:18
Alignment explanation
Indices: 25444480--25444519 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25444470 AATTTTCTTG
*
25444480 AAAATAAAAAAAAATAAA
1 AAAATAAAAAAAAAGAAA
*
25444498 AAAATAAAAAAAGAGAAA
1 AAAATAAAAAAAAAGAAA
25444516 AAAA
1 AAAA
25444520 AGTGAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAATAAAAAAAAAGAAA
Found at i:25445562 original size:24 final size:24
Alignment explanation
Indices: 25445530--25445586 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
25445520 TTGTATCTAT
*
25445530 ATTTGCATCCTAGATAGGATATGC
1 ATTTGCATCCTAGATAGGAGATGC
25445554 ATTTGCATCCTAGATAGGAGATGC
1 ATTTGCATCCTAGATAGGAGATGC
25445578 ATTTGCATC
1 ATTTGCATC
25445587 AATGCATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (24 bp):
ATTTGCATCCTAGATAGGAGATGC
Found at i:25445897 original size:55 final size:54
Alignment explanation
Indices: 25445710--25445966 Score: 140
Period size: 55 Copynumber: 4.7 Consensus size: 54
25445700 GATTTCATCT
* * * ** * * ** *
25445710 TGGTCATCCAATCTTAGCTTAGTTCATATTGTTTTTTAGACTTGTAGTTTCATCT
1 TGGTCATCCAATCTTGGCTTAGTCCAGATCATTTTCT-GACTTATAGTTTTGTCC
* * * * * ***
25445765 TGGTCATCCAATCTTGG-TTCAATCCATATCATTTTCCTGACTCATGGCTCAATCC
1 TGGTCATCCAATCTTGGCTT-AGTCCAGATCATTTT-CTGACTTATAGTTTTGTCC
* * ** * * *
25445820 TAGTTATCTGATCTCGGTTTAGTCCAGATCATTTTCTAGACTTATGGTTTCT-TCC
1 TGGTCATCCAATCTTGGCTTAGTCCAGATCATTTTCT-GACTTATAGTTT-TGTCC
** * ** * *
25445875 TGGTCATCTGATTTTGGCTTAGTTTAGATCATTTTTCTTACTTGTAGTTTTGTCC
1 TGGTCATCCAATCTTGGCTTAGTCCAGATCA-TTTTCTGACTTATAGTTTTGTCC
* *
25445930 TGGTCATCCAATCTTGGCTCAGCCCAGATCATTTTCT
1 TGGTCATCCAATCTTGGCTTAGTCCAGATCATTTTCT
25445967 TGAATTGTGG
Statistics
Matches: 154, Mismatches: 41, Indels: 15
0.73 0.20 0.07
Matches are distributed among these distances:
54 11 0.07
55 134 0.87
56 9 0.06
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (54 bp):
TGGTCATCCAATCTTGGCTTAGTCCAGATCATTTTCTGACTTATAGTTTTGTCC
Found at i:25445980 original size:55 final size:55
Alignment explanation
Indices: 25445843--25445983 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 55
25445833 TCGGTTTAGT
* * ** * * *
25445843 CCAGATCATTTTCTAGACTTATGGTTTCT-TCCTGGTCATCTGATTTTGGCTTAGT
1 CCAGATCATTTTCTTGACTTGTGGTTT-TGTCCTGGTCATCCAATCTTGGCTCAGC
** *
25445898 TTAGATCATTTTTCTT-ACTTGTAGTTTTGTCCTGGTCATCCAATCTTGGCTCAGC
1 CCAGATCA-TTTTCTTGACTTGTGGTTTTGTCCTGGTCATCCAATCTTGGCTCAGC
*
25445953 CCAGATCATTTTCTTGAATTGTGGTTTTGTC
1 CCAGATCATTTTCTTGACTTGTGGTTTTGTC
25445984 TAGATCATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
54 8 0.12
55 55 0.80
56 6 0.09
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (55 bp):
CCAGATCATTTTCTTGACTTGTGGTTTTGTCCTGGTCATCCAATCTTGGCTCAGC
Found at i:25446050 original size:55 final size:55
Alignment explanation
Indices: 25445985--25446113 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
25445975 GGTTTTGTCT
* *
25445985 AGATCATTTTCTAAACTTGCAG-TTACATCTCGATCATCCAATCTTTGCTCAGTCC
1 AGATCATTTTCTAAACTTGCAGCTCA-ATCTCGATCATCCAATCTTGGCTCAGTCC
** *** * *
25446040 AGATCATTTTCTTGACTCATAGCTCAATCTTGATCATCCAATCTTGGTTCAGTCC
1 AGATCATTTTCTAAACTTGCAGCTCAATCTCGATCATCCAATCTTGGCTCAGTCC
* *
25446095 AAATCATTTTCCAAACTTG
1 AGATCATTTTCTAAACTTG
25446114 TGGTTCTATC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
55 56 0.97
56 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (55 bp):
AGATCATTTTCTAAACTTGCAGCTCAATCTCGATCATCCAATCTTGGCTCAGTCC
Found at i:25446631 original size:3 final size:3
Alignment explanation
Indices: 25446611--25446652 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
25446601 TATTATATTG
*
25446611 TAT TA- TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25446653 TTCTTTCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:25447461 original size:18 final size:18
Alignment explanation
Indices: 25447438--25447472 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25447428 GTTTTCCTTT
*
25447438 TTTTTGTTTTAATTTTAA
1 TTTTTGATTTAATTTTAA
25447456 TTTTTGATTTAATTTTA
1 TTTTTGATTTAATTTTA
25447473 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTGATTTAATTTTAA
Found at i:25447506 original size:19 final size:19
Alignment explanation
Indices: 25447482--25447524 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
25447472 ATTTATTTTA
* * *
25447482 TATTTTTTGTTTTTTGTTT
1 TATTTTTAGCTTTTTATTT
25447501 TATTTTTAGCTTTTTATTT
1 TATTTTTAGCTTTTTATTT
25447520 TATTT
1 TATTT
25447525 ATCGATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (19 bp):
TATTTTTAGCTTTTTATTT
Found at i:25449694 original size:21 final size:22
Alignment explanation
Indices: 25449652--25449695 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25449642 ATCATACCAA
*
25449652 AAATCATGCATACAATAATATT
1 AAATCATGCAAACAATAATATT
*
25449674 AAATCATGCAAATAA-AATATT
1 AAATCATGCAAACAATAATATT
25449695 A
1 A
25449696 GGTAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (22 bp):
AAATCATGCAAACAATAATATT
Found at i:25449908 original size:8 final size:7
Alignment explanation
Indices: 25449883--25449967 Score: 50
Period size: 7 Copynumber: 11.7 Consensus size: 7
25449873 AATCACAATT
25449883 AAAAATA
1 AAAAATA
*
25449890 ATAAATCA
1 AAAAAT-A
25449898 AAAAATA
1 AAAAATA
25449905 AAAAATCA
1 AAAAAT-A
25449913 AAAAA-A
1 AAAAATA
*
25449919 TAAAATCA
1 AAAAAT-A
*
25449927 AAATCAAGA
1 AAA--AATA
*
25449936 TCAAAAT-
1 -AAAAATA
25449943 AAAAAT-
1 AAAAATA
25449949 AAAAATA
1 AAAAATA
*
25449956 AAAAGTA
1 AAAAATA
25449963 AAAAA
1 AAAAA
25449968 CCTGTATTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
6 16 0.27
7 22 0.37
8 17 0.28
9 1 0.02
10 4 0.07
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:25449916 original size:16 final size:15
Alignment explanation
Indices: 25449883--25449929 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
25449873 AATCACAATT
*
25449883 AAAAATAATAAATCA
1 AAAAATAAAAAATCA
25449898 AAAAATAAAAAATCA
1 AAAAATAAAAAATCA
*
25449913 AAAAA-ATAAAATCA
1 AAAAATAAAAAATCA
25449927 AAA
1 AAA
25449930 TCAAGATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAAATCA
Found at i:25449959 original size:6 final size:6
Alignment explanation
Indices: 25449882--25449966 Score: 62
Period size: 6 Copynumber: 13.0 Consensus size: 6
25449872 CAATCACAAT
* *
25449882 TAAAAA TAATAAA TCAAAAAA TAAAAAA TCAAAAA AATAAAA TCAAAA
1 TAAAAA TAA-AAA T--AAAAA T-AAAAA T-AAAAA TA-AAAA TAAAAA
* * *
25449930 TCAAGA TCAAAA TAAAAA TAAAAA TAAAAA GTAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA -TAAAAA
25449967 ACCTGTATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
6 35 0.52
7 26 0.39
8 4 0.06
9 2 0.03
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:25450975 original size:7 final size:6
Alignment explanation
Indices: 25450941--25450999 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
25450931 CTTTTTGGCT
* * * *
25450941 AAATAA ACA-AA AAAT-A AAAT-A AAATAA AAATTA AACTAA AAATAC
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
25450986 AAATAC AAATAA AA
1 AAATAA AAATAA AA
25451000 TTTTAGGCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 14 0.33
6 29 0.67
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:25450975 original size:12 final size:11
Alignment explanation
Indices: 25450941--25451000 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 11
25450931 CTTTTTGGCT
25450941 AAATAAACAA-A
1 AAATAAA-AATA
25450952 AAAT-AAAATA
1 AAATAAAAATA
25450962 AAATAAAAATTA
1 AAATAAAAA-TA
*
25450974 AACTAAAAATA
1 AAATAAAAATA
*
25450985 CAAATACAAATA
1 -AAATAAAAATA
25450997 AAAT
1 AAAT
25451001 TTTAGGCTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.05
10 7 0.17
11 14 0.33
12 19 0.45
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:25452668 original size:9 final size:10
Alignment explanation
Indices: 25452645--25452679 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
25452635 ATGAAAAAAT
25452645 TTTTTTCTTA
1 TTTTTTCTTA
25452655 TTTTTTCTTA
1 TTTTTTCTTA
*
25452665 TTTTTGTATTA
1 TTTTT-TCTTA
25452676 TTTT
1 TTTT
25452680 ATAAGGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTTTCTTA
Found at i:25452862 original size:20 final size:21
Alignment explanation
Indices: 25452821--25452867 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
25452811 AAACATTAAT
25452821 AATAAAATTTAAAATAATAAA
1 AATAAAATTTAAAATAATAAA
*
25452842 AATAATATTT-AAAT-ATAAA
1 AATAAAATTTAAAATAATAAA
*
25452861 AAGAAAA
1 AATAAAA
25452868 CTAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 10 0.43
20 4 0.17
21 9 0.39
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAAAATTTAAAATAATAAA
Found at i:25453579 original size:20 final size:21
Alignment explanation
Indices: 25453538--25453580 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25453528 TTTTAATAGA
*
25453538 GTTTTTTTGAATTGTTTGTTT
1 GTTTTTTAGAATTGTTTGTTT
25453559 GTTTTTTAGCAATT-TTT-TTT
1 GTTTTTTAG-AATTGTTTGTTT
25453579 GT
1 GT
25453581 AGAAGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.12, C:0.02, G:0.16, T:0.70
Consensus pattern (21 bp):
GTTTTTTAGAATTGTTTGTTT
Found at i:25453838 original size:21 final size:21
Alignment explanation
Indices: 25453809--25453857 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
25453799 GAAAAGAGAA
*
25453809 AAAAAAAAATAAATAAAAAAG
1 AAAATAAAATAAATAAAAAAG
*
25453830 AAAATAAAATAAATAAAAATG
1 AAAATAAAATAAATAAAAAAG
*
25453851 ATAATAA
1 AAAATAA
25453858 TAAAATAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAATAAAATAAATAAAAAAG
Found at i:25454020 original size:48 final size:46
Alignment explanation
Indices: 25453964--25454095 Score: 126
Period size: 47 Copynumber: 2.8 Consensus size: 46
25453954 TTTTAAATTT
*
25453964 AAAAGCTCCTCTAA-TAAGAAGCTT-AATAACTTTAAAAATTCATCTTGA
1 AAAAGCTCCTCTAAGT-AG-AGCTTCAACAACTTT-AAAATTCAT-TTGA
* *
25454012 AAAAGCTCCTCTAAGTAGAGGTTCAACAACTTTAAAATTCATTTTA
1 AAAAGCTCCTCTAAGTAGAGCTTCAACAACTTTAAAATTCATTTGA
* * * *
25454058 AAAAGGCTCATCTAAGCAAAGGC-TCAACAATTTTAAAA
1 AAAA-GCTCCTCTAAGTAGA-GCTTCAACAACTTTAAAA
25454096 AATTTATCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 7 0.10
47 39 0.54
48 25 0.35
49 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (46 bp):
AAAAGCTCCTCTAAGTAGAGCTTCAACAACTTTAAAATTCATTTGA
Found at i:25454179 original size:49 final size:50
Alignment explanation
Indices: 25453964--25454200 Score: 229
Period size: 49 Copynumber: 4.8 Consensus size: 50
25453954 TTTTAAATTT
** * * *
25453964 AAAA-GCTCCTCTAATAAGAAGCTTAATAACTTT-AAAAATTCATCTTGA
1 AAAAGGCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAAATTCATCTTTA
* * *
25454012 AAAA-GCTCCTCTAAGTAGAGGTTCAACAACTTT--AAAATTCAT-TTTA
1 AAAAGGCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAAATTCATCTTTA
* * * *
25454058 AAAAGGCTCATCTAAGCA-AAGGCTCAACAATTTTAAAAAATTTATCTTGAAAAAA
1 AAAAGGCTCCTCTAAGCAGAA-GCTCAACAACTTTAAAAAATTCATCTT-----TA
*
25454113 AAAAGGCACCTCTAAGCAGAAGCTCAACAACTTTAAAAAATT-ATCTTTA
1 AAAAGGCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAAATTCATCTTTA
* *
25454162 AAAAGGCTTCTCTAAGCAGAGGCTCAACAACTTTAAAAA
1 AAAAGGCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAA
25454201 TTTTAAACAA
Statistics
Matches: 157, Mismatches: 21, Indels: 21
0.79 0.11 0.11
Matches are distributed among these distances:
46 8 0.05
47 31 0.20
48 27 0.17
49 45 0.29
50 2 0.01
54 5 0.03
55 37 0.24
56 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (50 bp):
AAAAGGCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAAATTCATCTTTA
Found at i:25454197 original size:104 final size:101
Alignment explanation
Indices: 25454011--25454205 Score: 268
Period size: 104 Copynumber: 1.9 Consensus size: 101
25454001 ATTCATCTTG
* * * *
25454011 AAAAAGCTCCTCTAAGTAGAGGTTCAACAACTTTAAAATTCATTTTAAAAAGGCTCATCTAAGCA
1 AAAAAGCACCTCTAAGCAGAAGCTCAACAACTTTAAAATTCATTTTAAAAAGGCTCATCTAAGCA
*
25454076 AAGGCTCAACAATTTTAAAAAATTTATCTTGAAAAA
66 AAGGCTCAACAACTTTAAAAAATTTATCTTGAAAAA
25454112 AAAAAGGCACCTCTAAGCAGAAGCTCAACAACTTTAAAAAATT-ATCTTTAAAAAGGCTTC-TCT
1 AAAAA-GCACCTCTAAGCAGAAGCTCAACAACTTT--AAAATTCAT-TTTAAAAAGGC-TCATCT
* *
25454175 AAGCAGAGGCTCAACAACTTTAAAAATTTTA
61 AAGCAAAGGCTCAACAACTTTAAAAAATTTA
25454206 AACAACTTTA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
101 5 0.06
102 25 0.30
103 2 0.02
104 48 0.59
105 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (101 bp):
AAAAAGCACCTCTAAGCAGAAGCTCAACAACTTTAAAATTCATTTTAAAAAGGCTCATCTAAGCA
AAGGCTCAACAACTTTAAAAAATTTATCTTGAAAAA
Found at i:25454211 original size:19 final size:19
Alignment explanation
Indices: 25454187--25454224 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25454177 GCAGAGGCTC
25454187 AACAACTTTAAAAATTTTA
1 AACAACTTTAAAAATTTTA
25454206 AACAACTTTAAAAATTTTA
1 AACAACTTTAAAAATTTTA
25454225 TCTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
AACAACTTTAAAAATTTTA
Found at i:25454215 original size:68 final size:68
Alignment explanation
Indices: 25454138--25454266 Score: 172
Period size: 68 Copynumber: 1.9 Consensus size: 68
25454128 GCAGAAGCTC
* * *
25454138 AACAACTTTAAAAA-ATTATCTTTAAAAAGGCT-TCTCTAAGCAGAGGCTCAACAACTTTAAAAA
1 AACAACTTTAAAAATATTATC-TTAAAAAAGCTCT-TCTAAGCAAACGCTCAACAACTTTAAAAA
25454201 TTTTA
64 TTTTA
* * *
25454206 AACAACTTTAAAAATTTTATCTTAAAAAAGCTCTTCTAAGCAAACGCTCAATAAGTTTAAA
1 AACAACTTTAAAAATATTATCTTAAAAAAGCTCTTCTAAGCAAACGCTCAACAACTTTAAA
25454267 TTGAACCGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 47 0.89
69 6 0.11
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (68 bp):
AACAACTTTAAAAATATTATCTTAAAAAAGCTCTTCTAAGCAAACGCTCAACAACTTTAAAAATT
TTA
Found at i:25454535 original size:99 final size:99
Alignment explanation
Indices: 25454348--25454551 Score: 241
Period size: 99 Copynumber: 2.1 Consensus size: 99
25454338 AATGACTTTA
* *
25454348 GATATCGCCACCAAAGAAAACTCGAATATCACCATTGAAAAAATGCAATTCAAGCTTTAACACTT
1 GATATCGCCACCAAAGAAAACTCGAATATCACCATCGAAAAAATGCAATTCAAGCTTTAACACTC
* * * *
25454413 AGATATCACCATCGAGAATATGCAAATATCTTCG
66 AGATATCACCACCAAAAAGATGCAAATATCTTCG
* * * ** *
25454447 GATATTGCCACCGAAA-AAAACTCGAATATCACCATCGAGAAAATGCAATTTAATTTTTTACACT
1 GATATCGCCACC-AAAGAAAACTCGAATATCACCATCGAAAAAATGCAATTCAAGCTTTAACACT
* * *
25454511 CGGATGTCACCACCAAAAAGATGCAAATGA-CTTTG
65 CAGATATCACCACCAAAAAGATGCAAAT-ATCTTCG
25454546 GATATC
1 GATATC
25454552 ACCATTGAAG
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
99 83 0.95
100 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (99 bp):
GATATCGCCACCAAAGAAAACTCGAATATCACCATCGAAAAAATGCAATTCAAGCTTTAACACTC
AGATATCACCACCAAAAAGATGCAAATATCTTCG
Found at i:25454599 original size:76 final size:75
Alignment explanation
Indices: 25454472--25454636 Score: 206
Period size: 76 Copynumber: 2.2 Consensus size: 75
25454462 AAAAACTCGA
* *** * *
25454472 ATATCACCATCG-AGAAAATGCAATTTAATTTTTTACACTCGGATGTCACCACCAAAAAGATGCA
1 ATATCACCATCGAAGAAAATGCAATTCAAACCTTGACACTCGGATATCACCACCAAAAAGATGCA
*
25454536 AATGACTTTGG
66 AAT-ACTTCGG
* * * * *
25454547 ATATCACCATTGAAGAAAATGCAATTCAAACCTTGACACTCGGGTATTACCACCGAGAAGATGCA
1 ATATCACCATCGAAGAAAATGCAATTCAAACCTTGACACTCGGATATCACCACCAAAAAGATGCA
25454612 AATACTTCGG
66 AATACTTCGG
25454622 ATATCACCATCGAAG
1 ATATCACCATCGAAG
25454637 GAAACTCGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
75 31 0.41
76 45 0.59
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (75 bp):
ATATCACCATCGAAGAAAATGCAATTCAAACCTTGACACTCGGATATCACCACCAAAAAGATGCA
AATACTTCGG
Found at i:25454845 original size:75 final size:75
Alignment explanation
Indices: 25454640--25454886 Score: 298
Period size: 75 Copynumber: 3.3 Consensus size: 75
25454630 ATCGAAGGAA
* * * * * *
25454640 ACTCGAATATCACCATCGAGAATATACAAATGACCTCAGATATCGCCACCGAGAAAATGCACTTT
1 ACTCGGATATCACCATCGAGAATATACAAATGACTTCGGATATCGCCACCGAAAAAATGCAATTC
*
25454705 AAACCTTGAC
66 AAACATTGAC
* * * * * *
25454715 ACTCGGATGTCACCA-CTGAGAATATACAAATAACTTCGGATATCACCACTGAAAAAACGTAATT
1 ACTCGGATATCACCATC-GAGAATATACAAATGACTTCGGATATCGCCACCGAAAAAATGCAATT
* * *
25454779 CAAGCTTTAAC
65 CAAACATTGAC
* * *
25454790 ACTCAGATATCACCATCGAGAATATACAAATGACTTCGGATATCGCCACCAAAAAAATACAATTC
1 ACTCGGATATCACCATCGAGAATATACAAATGACTTCGGATATCGCCACCGAAAAAATGCAATTC
*
25454855 AAACATCGAC
66 AAACATTGAC
25454865 ACTCGGATATCACCATCGAGAA
1 ACTCGGATATCACCATCGAGAA
25454887 GAAGTAATTC
Statistics
Matches: 141, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
74 1 0.01
75 139 0.99
76 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.21
Consensus pattern (75 bp):
ACTCGGATATCACCATCGAGAATATACAAATGACTTCGGATATCGCCACCGAAAAAATGCAATTC
AAACATTGAC
Found at i:25454909 original size:42 final size:41
Alignment explanation
Indices: 25454863--25455504 Score: 441
Period size: 42 Copynumber: 15.8 Consensus size: 41
25454853 TCAAACATCG
* * *
25454863 ACACTCGGATATCACCATCGAGAAGAAGTAATTCAAATCTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAAT-TTA
* * * * * *
25454905 ACACTTAAATACCACTATCGAG-A-AT---ATGCAAA--TG
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAATTTA
* * * * *
25454939 AC-CTCAGATATCACCACCGAGAAAATGTAATTTAAATGTTG
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAAT-TTA
* * * * * * * *
25454980 ACACTTAAATATCACCACCAAGAATATGCAA-ACGACTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAATTTA
* * *
25455020 ACACTCGGATATCACCATCGAGGAGATGCAATTCAAGCTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAA-ATTTA
* * *
25455062 TCACTCATATATCACCA-CTGAAAAGATGCAATTCAAACTTTA
1 ACACTCAGATATCACCATC-GAGAAGATGCAATTCAAA-TTTA
* * * * *
25455104 ATACTCGGATATCACCATCGAGAAGATGCAAAT-GACTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAATTTA
* * * *
25455144 ACACTTAGATATCACTATCGAGGAGATGCAATTCAAGCTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAA-ATTTA
* * * *
25455186 TCACTCAAATATCACCATTGAAAAGATGCAATTCAAACTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAA-TTTA
* * * * * * *
25455228 ATACTCAAATATCACCATTGAAAAGATGCAAAT-GACTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAATTTA
* * * * *
25455268 ATACTCAGATATCACCACCGAGAAGATGCAAAT-GACTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAATTTA
* * *
25455308 ACACTCAGATATCATCATCGAAAAGATGTAATTCAAATTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAA-TTTA
* * * *
25455350 ACACTC-GAATATCACCATCGAAAAGATGCAAAT-GACTTTA
1 ACACTCAG-ATATCACCATCGAGAAGATGCAATTCAAATTTA
* * *
25455390 ACACTCAGATATCACCACCGAGGAGATGCAATTCAAGTTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAA-ATTTA
* * * *
25455432 TCCCTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTA
1 ACACTCAGATATCACCATCGAGAAGATGCAATTCAAA-TTTA
* * * *
25455474 ACACTCAAATATCACCACCAAGAATATGCAA
1 ACACTCAGATATCACCATCGAGAAGATGCAA
25455505 ATGATTTTGG
Statistics
Matches: 470, Mismatches: 106, Indels: 48
0.75 0.17 0.08
Matches are distributed among these distances:
33 14 0.03
34 4 0.01
35 2 0.00
37 6 0.01
38 5 0.01
40 156 0.33
41 18 0.04
42 264 0.56
43 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.25
Consensus pattern (41 bp):
ACACTCAGATATCACCATCGAGAAGATGCAATTCAAATTTA
Found at i:25454949 original size:75 final size:75
Alignment explanation
Indices: 25454870--25455011 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
25454860 TCGACACTCG
* * * *
25454870 GATATCACCATCGAGAAGAA-GTAATTCAAATCTTAACACTTAAATACCACTATCGAGAATATGC
1 GATATCACCACCGAGAA-AATGTAATTCAAATCTTAACACTTAAATACCACCACCAAGAATATGC
25454934 AAATGACCTCA
65 AAATGACCTCA
* * * *
25454945 GATATCACCACCGAGAAAATGTAATTTAAATGTTGACACTTAAATATCACCACCAAGAATATGCA
1 GATATCACCACCGAGAAAATGTAATTCAAATCTTAACACTTAAATACCACCACCAAGAATATGCA
25455010 AA
66 AA
25455012 CGACTTTAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 2 0.03
75 56 0.97
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (75 bp):
GATATCACCACCGAGAAAATGTAATTCAAATCTTAACACTTAAATACCACCACCAAGAATATGCA
AATGACCTCA
Found at i:25455091 original size:82 final size:81
Alignment explanation
Indices: 25455014--25455491 Score: 451
Period size: 82 Copynumber: 5.8 Consensus size: 81
25455004 TATGCAAACG
* ** * * *
25455014 ACTTTAACACTCGGATATCACCATCGAGGAGATGCAATTCAAGCTTTATCACTCATATATCACCA
1 ACTTTAACACTCAGATATCACCATCGAAAAGATGCAAAT-AA-CTTTAACACTCAGATATCACCA
25455079 CTGAAAAGATGCAATTCAA
64 CTGAAAAGATGCAATTC-A
* * * * * *
25455098 ACTTTAATACTCGGATATCACCATCGAGAAGATGCAAATGACTTTAACACTTAGATATCACTA-T
1 ACTTTAACACTCAGATATCACCATCGAAAAGATGCAAATAACTTTAACACTCAGATATCACCACT
**
25455162 CGAGGAGATGCAATTCA
66 -GAAAAGATGCAATTCA
* * * * * *
25455179 AGCTTTATCACTCAAATATCACCATTGAAAAGATGCAATTCAAACTTTAATACTCAAATATCACC
1 A-CTTTAACACTCAGATATCACCATCGAAAAGATGCAAAT--AACTTTAACACTCAGATATCACC
* * *
25455244 ATTGAAAAGATGCAAAT-G
63 ACTGAAAAGATGCAATTCA
* * * * *
25455262 ACTTTAATACTCAGATATCACCACCGAGAAGATGCAAATGACTTTAACACTCAGATATCATCA-T
1 ACTTTAACACTCAGATATCACCATCGAAAAGATGCAAATAACTTTAACACTCAGATATCACCACT
*
25455326 CGAAAAGATGTAATTCAA
66 -GAAAAGATGCAATTC-A
* *
25455344 ATTTTAACACTC-GAATATCACCATCGAAAAGATGCAAATGACTTTAACACTCAGATATCACCAC
1 ACTTTAACACTCAG-ATATCACCATCGAAAAGATGCAAATAACTTTAACACTCAGATATCACCAC
* **
25455408 CGAGGAGATGCAATTCA
65 TGAAAAGATGCAATTCA
* * * * * *
25455425 AGTTTTATCCCTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACC
1 A-CTTTAACACTCAGATATCACCATCGAAAAGATGCAAAT--AACTTTAACACTCAGATATCACC
25455490 AC
63 AC
25455492 CAAGAATATG
Statistics
Matches: 325, Mismatches: 55, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.00
80 32 0.10
81 6 0.02
82 193 0.59
83 3 0.01
84 89 0.27
85 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (81 bp):
ACTTTAACACTCAGATATCACCATCGAAAAGATGCAAATAACTTTAACACTCAGATATCACCACT
GAAAAGATGCAATTCA
Found at i:25455166 original size:124 final size:124
Alignment explanation
Indices: 25454941--25455508 Score: 730
Period size: 124 Copynumber: 4.6 Consensus size: 124
25454931 TGCAAATGAC
** * * * * * *
25454941 CTCAGATATCACCACCGAGAAA-ATGTAATTTAAA-TGTTGACACTTAAATATCACCACCAAGAA
1 CTCAGATATCACCATTGA-AAAGATGCAATTCAAACT-TTAACACTCAAATATCACCATCGAGAA
* * * *
25455004 TATGCAAACGACTTTAACACTCGGATATCACCATCGAGGAGATGCAATTCAAGCTTTATCA
64 GATGCAAATGACTTTAACACTCAGATATCACCACCGAGGAGATGCAATTCAAGCTTTATCA
* * * **
25455065 CTCATATATCACCACTGAAAAGATGCAATTCAAACTTTAATACTCGGATATCACCATCGAGAAGA
1 CTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACCATCGAGAAGA
* * *
25455130 TGCAAATGACTTTAACACTTAGATATCACTATCGAGGAGATGCAATTCAAGCTTTATCA
66 TGCAAATGACTTTAACACTCAGATATCACCACCGAGGAGATGCAATTCAAGCTTTATCA
* * * *
25455189 CTCAAATATCACCATTGAAAAGATGCAATTCAAACTTTAATACTCAAATATCACCATTGAAAAGA
1 CTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACCATCGAGAAGA
* * * * *
25455254 TGCAAATGACTTTAATACTCAGATATCACCACCGAGAAGATGCAAAT-GA-CTTTAACA
66 TGCAAATGACTTTAACACTCAGATATCACCACCGAGGAGATGCAATTCAAGCTTTATCA
* * * * * *
25455311 CTCAGATATCATCATCGAAAAGATGTAATTCAAATTTTAACACTCGAATATCACCATCGAAAAGA
1 CTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACCATCGAGAAGA
* *
25455376 TGCAAATGACTTTAACACTCAGATATCACCACCGAGGAGATGCAATTCAAGTTTTATCC
66 TGCAAATGACTTTAACACTCAGATATCACCACCGAGGAGATGCAATTCAAGCTTTATCA
* * *
25455435 CTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACCACCAAGAATA
1 CTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACCATCGAGAAGA
25455500 TGCAAATGA
66 TGCAAATGA
25455509 TTTTGGATAT
Statistics
Matches: 386, Mismatches: 54, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
122 108 0.28
123 5 0.01
124 272 0.70
125 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (124 bp):
CTCAGATATCACCATTGAAAAGATGCAATTCAAACTTTAACACTCAAATATCACCATCGAGAAGA
TGCAAATGACTTTAACACTCAGATATCACCACCGAGGAGATGCAATTCAAGCTTTATCA
Found at i:25455680 original size:42 final size:43
Alignment explanation
Indices: 25455634--25455725 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
25455624 AATGTCATAA
*
25455634 ATATCACCATC-ACAAAAATG-AAA-TTCATACTTTAATACTCAG
1 ATATCACCATCGACAAAAATGTAAACTT-AAACTTTAA-ACTCAG
*
25455676 ATATCACCATCGAGAAAAATGTAAACTTAAACTTTAAACTCAG
1 ATATCACCATCGACAAAAATGTAAACTTAAACTTTAAACTCAG
25455719 ATATCAC
1 ATATCAC
25455726 TACCAAGTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
42 11 0.24
43 21 0.47
44 11 0.24
45 2 0.04
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.27
Consensus pattern (43 bp):
ATATCACCATCGACAAAAATGTAAACTTAAACTTTAAACTCAG
Found at i:25456043 original size:35 final size:35
Alignment explanation
Indices: 25455959--25456091 Score: 180
Period size: 35 Copynumber: 3.8 Consensus size: 35
25455949 AAGGCAAATG
25455959 AAATGCAAATGTCTTTTCTT-AAATGATGCT-TATA
1 AAATGCAAATGTCTTTTCTTAAAATGATG-TATATA
* *
25455993 AGATGCAAATGTCTTTTCTTAAAATGATGTACATA
1 AAATGCAAATGTCTTTTCTTAAAATGATGTATATA
* * * *
25456028 AAATGAAAATTTCTTTTCTTAAAATGATGCATATG
1 AAATGCAAATGTCTTTTCTTAAAATGATGTATATA
*
25456063 AAATGCAAGTGTCTTTTCTTAAAATGATG
1 AAATGCAAATGTCTTTTCTTAAAATGATG
25456092 AAAATGTATT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
34 20 0.23
35 66 0.77
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (35 bp):
AAATGCAAATGTCTTTTCTTAAAATGATGTATATA
Found at i:25456076 original size:70 final size:69
Alignment explanation
Indices: 25455959--25456091 Score: 205
Period size: 70 Copynumber: 1.9 Consensus size: 69
25455949 AAGGCAAATG
* *
25455959 AAATGCAAATGTCTTTTCTTAAATGATGCTTATAAGATGCAAATGTCTTTTCTTAAAATGATGTA
1 AAATGAAAATGTCTTTTCTTAAATGATGCATATAAGATGCAAATGTCTTTTCTTAAAATGATGTA
25456024 CATA
66 CATA
* *
25456028 AAATGAAAATTTCTTTTCTTAAAATGATGCATATGAA-ATGCAAGTGTCTTTTCTTAAAATGATG
1 AAATGAAAATGTCTTTTCTT-AAATGATGCATAT-AAGATGCAAATGTCTTTTCTTAAAATGATG
25456092 AAAATGTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 18 0.31
70 38 0.66
71 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (69 bp):
AAATGAAAATGTCTTTTCTTAAATGATGCATATAAGATGCAAATGTCTTTTCTTAAAATGATGTA
CATA
Found at i:25456146 original size:59 final size:59
Alignment explanation
Indices: 25456030--25456146 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 59
25456020 TGTACATAAA
* * * * * * **
25456030 ATGAAAATTTCTTTTCTTAAAATGATGCATATGAAATGCAAGTGTCTTTTCTTAAAATG
1 ATGAAAATGTATTTCCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAATG
25456089 ATGAAAATGTATTTCCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAAT
1 ATGAAAATGTATTTCCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAAT
25456147 ACCAATGTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (59 bp):
ATGAAAATGTATTTCCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAATG
Found at i:25456404 original size:21 final size:22
Alignment explanation
Indices: 25456360--25456404 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
25456350 TCCTTGCTGC
* * *
25456360 TCATTTTTCACCAATTTTGCTT
1 TCATTCTTCACCAATTTGGATT
25456382 TCATTCTTCA-CAATTTGGATT
1 TCATTCTTCACCAATTTGGATT
25456403 TC
1 TC
25456405 TCGACTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.20, C:0.22, G:0.07, T:0.51
Consensus pattern (22 bp):
TCATTCTTCACCAATTTGGATT
Found at i:25462488 original size:21 final size:21
Alignment explanation
Indices: 25462464--25462507 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
25462454 AAATATTAAT
25462464 AATAAAATTT-AAAATAACAAA
1 AATAAAATTTAAAAATAA-AAA
*
25462485 AATAATATTTAAAAATAAAAA
1 AATAAAATTTAAAAATAAAAA
25462506 AA
1 AA
25462508 CTCAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAAATTTAAAAATAAAAA
Found at i:25463400 original size:6 final size:6
Alignment explanation
Indices: 25463384--25463451 Score: 58
Period size: 5 Copynumber: 11.8 Consensus size: 6
25463374 AGCCACTACC
*
25463384 AGAAAA A-AAAA AG-AAA A-AAAA AG-AAA AGGAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
25463428 A-ATAGAA AGAAAA A-AAAA TAGAAA
1 AGA-A-AA AGAAAA AGAAAA -AGAAA
25463452 GAAATAAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 17
0.74 0.01 0.24
Matches are distributed among these distances:
5 23 0.44
6 21 0.40
7 7 0.13
8 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:25463410 original size:16 final size:16
Alignment explanation
Indices: 25463387--25463475 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 16
25463377 CACTACCAGA
25463387 AAAAAAAAAGAAAAA-
1 AAAAAAAAAGAAAAAG
* *
25463402 AAAAGAAAAGGAAAAG
1 AAAAAAAAAGAAAAAG
*
25463418 AAAAAGAAAAAATAGAAAG
1 AAAAA-AAAAGA-A-AAAG
* *
25463437 AAAAAAAAATAGAAAG
1 AAAAAAAAAGAAAAAG
25463453 AAATAAATAAATGAAAAAAG
1 AAA-AAA-AAA-G-AAAAAG
25463473 AAA
1 AAA
25463476 TAAATAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
15 13 0.23
16 11 0.19
17 7 0.12
18 9 0.16
19 9 0.16
20 8 0.14
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:25463421 original size:19 final size:18
Alignment explanation
Indices: 25463386--25463445 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
25463376 CCACTACCAG
25463386 AAAAAAAAA-AGAAA-AA
1 AAAAAAAAAGAGAAAGAA
*
25463402 AAAAGAAAAG-GAAAAGAA
1 AAAAAAAAAGAG-AAAGAA
*
25463420 AAAGAAAAAATAGAAAGAA
1 AAA-AAAAAAGAGAAAGAA
25463439 AAAAAAA
1 AAAAAAA
25463446 TAGAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 9 0.25
17 3 0.08
18 9 0.25
19 14 0.39
20 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGAGAAAGAA
Found at i:25463475 original size:40 final size:38
Alignment explanation
Indices: 25463384--25463490 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 38
25463374 AGCCACTACC
* *
25463384 AGAAAAAAAAAAGAAAAAAAAAGAAAAGGAAAAGAAAA
1 AGAAAAAAGAAAGAAAAAAAAATAAAAGGAAAAGAAAA
25463422 AGAAAAAATAGAAAGAAAAAAAAATAGAAA-GAAATA-AATAA
1 AG-AAAAA-AGAAAGAAAAAAAAATA-AAAGGAAA-AGAA-AA
* *
25463463 ATGAAAAAAGAAATAAATAAAAATAAAA
1 A-GAAAAAAGAAAGAAAAAAAAATAAAA
25463491 ATAATAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
38 2 0.03
39 8 0.14
40 36 0.61
41 12 0.20
42 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (38 bp):
AGAAAAAAGAAAGAAAAAAAAATAAAAGGAAAAGAAAA
Found at i:25463478 original size:16 final size:16
Alignment explanation
Indices: 25463384--25463485 Score: 74
Period size: 16 Copynumber: 6.4 Consensus size: 16
25463374 AGCCACTACC
25463384 AGAAAAAA-AAAAGAA-
1 AGAAAAAAGAAAA-AAT
*
25463399 A-AAAAAAGAAAAGGAAA
1 AGAAAAAAGAAAA--AAT
25463416 AG-AAAAAGAAAAAAT
1 AGAAAAAAGAAAAAAT
25463431 AGAAAGAAA-AAAAAAT
1 AGAAA-AAAGAAAAAAT
*
25463447 AGAAAGAAATAAATAAAT
1 AGAAA-AAAGAAA-AAAT
25463465 -GAAAAAAGAAATAAAT
1 AGAAAAAAGAAA-AAAT
25463481 A-AAAA
1 AGAAAA
25463486 TAAAAATAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
14 6 0.08
15 9 0.12
16 36 0.47
17 21 0.28
18 4 0.05
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AGAAAAAAGAAAAAAT
Found at i:25463490 original size:20 final size:20
Alignment explanation
Indices: 25463426--25463491 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
25463416 AGAAAAAGAA
* *
25463426 AAAATAGAAAGAAAAAAAAAT
1 AAAA-AGAAATAAATAAAAAT
* *
25463447 AGAAAGAAATAAATAAATGA-
1 AAAAAGAAATAAATAAA-AAT
25463467 AAAAAGAAATAAATAAAAAT
1 AAAAAGAAATAAATAAAAAT
25463487 AAAAA
1 AAAAA
25463492 TAATAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 32 0.86
21 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAAAGAAATAAATAAAAAT
Found at i:25463492 original size:16 final size:15
Alignment explanation
Indices: 25463386--25463499 Score: 67
Period size: 16 Copynumber: 7.3 Consensus size: 15
25463376 CCACTACCAG
*
25463386 AAAAAAAAAAGAAA-
1 AAAAAAAAAATAAAT
*
25463400 AAAAAAGAAAAGGAAA-
1 AAAAAA-AAAA-TAAAT
*
25463416 AGAAAAAGAAA-AAAT
1 A-AAAAAAAAATAAAT
25463431 AGAAAGAAAAAA-AAAT
1 A-AAA-AAAAAATAAAT
25463447 AGAAAGAAATAAATAAAT
1 A-AAA-AAA-AAATAAAT
*
25463465 GAAAAAAGAAATAAAT
1 -AAAAAAAAAATAAAT
25463481 AAAAATAAAAAT-AAT
1 AAAAA-AAAAATAAAT
25463496 AAAA
1 AAAA
25463500 TGGTGTCTAC
Statistics
Matches: 87, Mismatches: 4, Indels: 17
0.81 0.04 0.16
Matches are distributed among these distances:
14 9 0.10
15 21 0.24
16 39 0.45
17 10 0.11
18 7 0.08
19 1 0.01
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAATAAAT
Found at i:25464111 original size:17 final size:16
Alignment explanation
Indices: 25464091--25464138 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
25464081 AATAATATTA
*
25464091 TTAAAATATTAAAATTT
1 TTAAAATTTTAAAA-TT
25464108 TTAAAATTTTTAAAATT
1 TTAAAA-TTTTAAAATT
25464125 TTAAAATTTTAAAA
1 TTAAAATTTTAAAA
25464139 CTAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 8 0.28
17 14 0.48
18 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATTTTAAAATT
Found at i:25464113 original size:9 final size:8
Alignment explanation
Indices: 25464091--25464138 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
25464081 AATAATATTA
*
25464091 TTAAAATA
1 TTAAAATT
25464099 TTAAAATTT
1 TTAAAA-TT
25464108 TTAAAATTT
1 TTAAAA-TT
25464117 TTAAAATT
1 TTAAAATT
25464125 TTAAAATT
1 TTAAAATT
25464133 TTAAAA
1 TTAAAA
25464139 CTAATAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
8 22 0.58
9 16 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTAAAATT
Found at i:25464620 original size:3 final size:3
Alignment explanation
Indices: 25464612--25464662 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
25464602 AAGGGATTGA
25464612 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25464660 AAT
1 AAT
25464663 TTGAGTAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25464818 original size:16 final size:16
Alignment explanation
Indices: 25464797--25464830 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
25464787 AGAATTATTA
25464797 AATAATAAAAATAAAT
1 AATAATAAAAATAAAT
*
25464813 AATAATAAAAGTAAAT
1 AATAATAAAAATAAAT
25464829 AA
1 AA
25464831 ATAACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAATAAAAATAAAT
Found at i:25464848 original size:20 final size:20
Alignment explanation
Indices: 25464797--25464848 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
25464787 AGAATTATTA
*
25464797 AATAATAA-AAATAAATAAT
1 AATAATAAGAAATAAATAAC
25464816 AATAA-AAGTAAATAAATAAC
1 AATAATAAG-AAATAAATAAC
25464836 AATAATAAGAAAT
1 AATAATAAGAAAT
25464849 TTTTAATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 19 0.66
21 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
AATAATAAGAAATAAATAAC
Found at i:25470059 original size:19 final size:20
Alignment explanation
Indices: 25470029--25470068 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
25470019 ATATATATGA
25470029 AAAATATTATTATTACATAT
1 AAAATATTATTATTACATAT
25470049 AAAAT-TTATTATTACATAT
1 AAAATATTATTATTACATAT
25470068 A
1 A
25470069 TTATTTGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATATTATTATTACATAT
Found at i:25473809 original size:4 final size:4
Alignment explanation
Indices: 25473792--25473838 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
25473782 AGACAATTTT
* * * *
25473792 TTTC TTTT TTTC TTTC TTTC TTTC TTTG TTTC TTTC TCTC TGTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
25473839 ATGTAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:25474551 original size:62 final size:63
Alignment explanation
Indices: 25474480--25474598 Score: 204
Period size: 63 Copynumber: 1.9 Consensus size: 63
25474470 GTCTTTATAT
25474480 CCATGACTTGATTTTG-GCACAATGGATGGTCCAAACTTTCTATTGCTTATTCATACTTCTAC
1 CCATGACTTGATTTTGTGCACAATGGATGGTCCAAACTTTCTATTGCTTATTCATACTTCTAC
* * *
25474542 CCATGACTTGATTTTGTGCTCAATGGATGGTCCAAACTTTGTTTTGCTTATTCATAC
1 CCATGACTTGATTTTGTGCACAATGGATGGTCCAAACTTTCTATTGCTTATTCATAC
25474599 ACTGTTCCTG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 16 0.30
63 37 0.70
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (63 bp):
CCATGACTTGATTTTGTGCACAATGGATGGTCCAAACTTTCTATTGCTTATTCATACTTCTAC
Done.