Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 90 of 199
Found at i:31178221 original size:22 final size:22
Alignment explanation
Indices: 31178183--31178249 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
31178173 AACACGAAAA
31178183 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAATATTTT
31178206 TTTTTAAAACACGAAAT-TTTT
1 TTTTTAAAACACGAAATATTTT
*
31178227 TTTTTGAAAACAAGAAA-ATTTT
1 TTTTT-AAAACACGAAATATTTT
31178249 T
1 T
31178250 GAAACACTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 9 0.22
22 20 0.49
23 12 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTTTAAAACACGAAATATTTT
Found at i:31178389 original size:19 final size:19
Alignment explanation
Indices: 31178367--31178422 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
31178357 ATACGAGAAA
31178367 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
31178385 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
31178403 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
31178422 T
1 T
31178423 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:31178466 original size:18 final size:17
Alignment explanation
Indices: 31178417--31178467 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
31178407 TGAAAACGCG
31178417 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
31178434 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
31178452 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
31178468 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:31178986 original size:7 final size:7
Alignment explanation
Indices: 31178974--31179023 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
31178964 TTTTTCTTCT
31178974 TTTTTTC
1 TTTTTTC
31178981 TTTTTTC
1 TTTTTTC
31178988 TTTTTTCC
1 TTTTTT-C
31178996 TTTTTTC
1 TTTTTTC
31179003 TTTTTTC
1 TTTTTTC
31179010 TTTTTTC
1 TTTTTTC
31179017 TTCTTTT
1 TT-TTTT
31179024 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:31178990 original size:15 final size:15
Alignment explanation
Indices: 31178965--31179040 Score: 93
Period size: 14 Copynumber: 5.1 Consensus size: 15
31178955 TGAACCCCCT
31178965 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
31178981 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
31178996 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
31179010 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
31179026 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
31179040 T
1 T
31179041 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
14 20 0.37
15 20 0.37
16 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:31179002 original size:22 final size:22
Alignment explanation
Indices: 31178974--31179035 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
31178964 TTTTTCTTCT
31178974 TTTTTTCTTTTTT-CTTTTTTCC
1 TTTTTTCTTTTTTCCTTTTTT-C
31178996 TTTTTTCTTTTTT-CTTTTTTC
1 TTTTTTCTTTTTTCCTTTTTTC
* *
31179017 -TTCTT-TTTCTTCCTTTTTT
1 TTTTTTCTTTTTTCCTTTTTT
31179036 TTTCTGCTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.14
20 11 0.30
21 1 0.03
22 20 0.54
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTTTCCTTTTTTC
Found at i:31179036 original size:22 final size:22
Alignment explanation
Indices: 31178964--31179040 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 22
31178954 TTGAACCCCC
31178964 TTTTTCTTCTTTTT-TTCTTTT
1 TTTTTCTTCTTTTTCTTCTTTT
* *
31178985 TTCTTTTTTCCTTTTTTCTTTTTTCT
1 TT-TTTCTT-C-TTTTTCTTCTTT-T
31179011 TTTTTCTTCTTTTTCTTCCTTTT
1 TTTTTCTTCTTTTTCTT-CTTTT
31179034 TTTTTCT
1 TTTTTCT
31179041 GCTGGGCTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
21 2 0.04
22 5 0.11
23 17 0.37
24 9 0.20
25 10 0.22
26 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCTTCTTTT
Found at i:31179187 original size:12 final size:12
Alignment explanation
Indices: 31179170--31179194 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31179160 CTTTCCCTTC
31179170 TTTTTTTTGCTT
1 TTTTTTTTGCTT
31179182 TTTTTTTTGCTT
1 TTTTTTTTGCTT
31179194 T
1 T
31179195 GATTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:31179234 original size:18 final size:19
Alignment explanation
Indices: 31179172--31179236 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
31179162 TTCCCTTCTT
31179172 TTTTTTGCTTTTTTTTTTGC
1 TTTTTT-CTTTTTTTTTTGC
** **
31179192 TTTGAT-TTTTTTTTGGGC
1 TTTTTTCTTTTTTTTTTGC
*
31179210 TTGTTTCTTTTTTTTTTG-
1 TTTTTTCTTTTTTTTTTGC
31179228 TTTTTTCTT
1 TTTTTTCTT
31179237 GGGCTGCTGG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
18 21 0.62
19 9 0.26
20 4 0.12
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTTGC
Found at i:31179334 original size:3 final size:3
Alignment explanation
Indices: 31179328--31179373 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
31179318 TTTTCTTTCT
*
31179328 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
31179374 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:31179357 original size:10 final size:10
Alignment explanation
Indices: 31179342--31179370 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
31179332 TCTTCCTCTT
31179342 TTCTTCTTCC
1 TTCTTCTTCC
31179352 TTCTTCTTCC
1 TTCTTCTTCC
31179362 TTCTTCTTC
1 TTCTTCTTC
31179371 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:31179358 original size:13 final size:13
Alignment explanation
Indices: 31179328--31179373 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
31179318 TTTTCTTTCT
31179328 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
31179340 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
31179352 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
31179365 TTCTTCTTC
1 TTCTTCTTC
31179374 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:31179464 original size:10 final size:10
Alignment explanation
Indices: 31179429--31179478 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
31179419 ACGCCGGTAC
31179429 TCTT-TCTTT
1 TCTTCTCTTT
* *
31179438 TCTTCTCCTC
1 TCTTCTCTTT
31179448 T-TTCTCTTT
1 TCTTCTCTTT
31179457 TCTTCTCTTT
1 TCTTCTCTTT
*
31179467 TCTTCTTTTT
1 TCTTCTCTTT
31179477 TC
1 TC
31179479 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:31179476 original size:19 final size:19
Alignment explanation
Indices: 31179433--31179475 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
31179423 CGGTACTCTT
31179433 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
31179452 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
31179469 TTCTTTT
1 -TCTTTT
31179476 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:31179755 original size:29 final size:29
Alignment explanation
Indices: 31179722--31179838 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
31179712 TGTAATTTTT
*
31179722 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
31179751 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
31179781 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
31179810 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
31179839 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:31179777 original size:30 final size:30
Alignment explanation
Indices: 31179737--31179838 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
31179727 ATTTAGGATT
*
31179737 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
31179767 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
31179797 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
31179827 AAAATGCAATTT
1 AAAATGAAATTT
31179839 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:31179859 original size:14 final size:15
Alignment explanation
Indices: 31179834--31179868 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
31179824 GTCAAAATGC
31179834 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
31179849 AATTTTT-TTTTTTA
1 AATTTTTATTTTTAA
31179863 AATTTT
1 AATTTT
31179869 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:31186433 original size:35 final size:35
Alignment explanation
Indices: 31186367--31186434 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
31186357 GTTATATTTT
* * *
31186367 ATTATTAAAATAATAAAATTTTAAATTTTAAAAAA
1 ATTATAAAAATAATAAAATTTAAAATATTAAAAAA
*
31186402 ATTATAAAAAT-ATAGAATATTAAAATATTAAAA
1 ATTATAAAAATAATAAAAT-TTAAAATATTAAAA
31186435 TTGCATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 6 0.21
35 22 0.79
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (35 bp):
ATTATAAAAATAATAAAATTTAAAATATTAAAAAA
Found at i:31202429 original size:22 final size:22
Alignment explanation
Indices: 31202403--31202448 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
31202393 TTGGGTTTTG
*
31202403 TTTGAAGAGAAAAATATTGGGT
1 TTTGAAGAGAAAAATAATGGGT
* *
31202425 TTTGATGAGAAAATTAATGGGT
1 TTTGAAGAGAAAAATAATGGGT
31202447 TT
1 TT
31202449 GGAGGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (22 bp):
TTTGAAGAGAAAAATAATGGGT
Found at i:31207377 original size:16 final size:16
Alignment explanation
Indices: 31207356--31207386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31207346 TGGAAAAGTC
*
31207356 ATATATTTGTATGTAT
1 ATATATTTGCATGTAT
31207372 ATATATTTGCATGTA
1 ATATATTTGCATGTA
31207387 CAAGGAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (16 bp):
ATATATTTGCATGTAT
Found at i:31217370 original size:50 final size:50
Alignment explanation
Indices: 31217310--31217417 Score: 198
Period size: 50 Copynumber: 2.2 Consensus size: 50
31217300 TCATGAATTT
*
31217310 TATATTTAAGATTTATTTAATTTCATTATTTGATATTTGCAAATATTATA
1 TATATATAAGATTTATTTAATTTCATTATTTGATATTTGCAAATATTATA
*
31217360 TATATATAAGATTTATTTAATTTCATTATTTGATATTTGTAAATATTATA
1 TATATATAAGATTTATTTAATTTCATTATTTGATATTTGCAAATATTATA
31217410 TATATATA
1 TATATATA
31217418 TATATAAAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (50 bp):
TATATATAAGATTTATTTAATTTCATTATTTGATATTTGCAAATATTATA
Found at i:31240206 original size:13 final size:13
Alignment explanation
Indices: 31240188--31240213 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31240178 TGTTTCATTT
31240188 ATGTGAAAATAGA
1 ATGTGAAAATAGA
31240201 ATGTGAAAATAGA
1 ATGTGAAAATAGA
31240214 CTCATTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
ATGTGAAAATAGA
Found at i:31240353 original size:8 final size:8
Alignment explanation
Indices: 31240342--31240366 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31240332 TCTTTCATAA
31240342 TTTCACTT
1 TTTCACTT
31240350 TTTCACTT
1 TTTCACTT
31240358 TTTCACTT
1 TTTCACTT
31240366 T
1 T
31240367 CAATCACAAT
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:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTCACTT
Found at i:31240616 original size:51 final size:50
Alignment explanation
Indices: 31240544--31240739 Score: 214
Period size: 51 Copynumber: 3.9 Consensus size: 50
31240534 CAATGATGTT
* * *
31240544 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
31240595 CGATACACGTAGTAGCTTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
31240646 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* * *
31240696 TGGTACACGTAGTAGCCTGCACATAGTACTATACACATGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
31240740 TACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 75 0.64
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:31248796 original size:41 final size:41
Alignment explanation
Indices: 31248719--31248804 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
31248709 CCGAAATGTA
* * *
31248719 TCACCGGCATTAAGCCTGCTAGACGTATAGTTTGAATAATT
1 TCACCGGCATCAAGCCTGCTAGACATATAGTCTGAATAATT
*
31248760 TCACCGGCATCAAGCCTGCTAGACAT-TGAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACATAT-AGTCTGAATAATT
31248801 TCAC
1 TCAC
31248805 TGACAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACATATAGTCTGAATAATT
Found at i:31254764 original size:43 final size:43
Alignment explanation
Indices: 31254655--31254783 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
31254645 GGCTCGTACA
* *
31254655 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
* *
31254698 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGTAAACACAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATATCG
* * *
31254741 ATGCCAACGTCCCAAACGTGGTCTTACAGGAAAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
31254784 GAAATCCTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 3 0.04
43 67 0.92
44 3 0.04
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:31256282 original size:28 final size:26
Alignment explanation
Indices: 31256233--31256285 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
31256223 TGAGAAATTT
31256233 AATTTTTTTTCTTTTATGTTCTTTTA
1 AATTTTTTTTCTTTTATGTTCTTTTA
* *
31256259 AATTTCTTTTTTTTTCTATTTTCTTTT
1 AATTT-TTTTTCTTT-TATGTTCTTTT
31256286 GCTTTTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 10 0.43
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.75
Consensus pattern (26 bp):
AATTTTTTTTCTTTTATGTTCTTTTA
Found at i:31259087 original size:41 final size:40
Alignment explanation
Indices: 31259042--31259157 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 40
31259032 TTGTATAAAA
*
31259042 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTGA-TACATTT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATTA-A-TT
* * * *
31259083 CACCGACACAAAGCCTGCTAGACATAAAGTCTGAATTAATT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTG-ATTAATT
* * *
31259124 CATCGGCATCAAGCCTGCTAGGCATTAAGCCTGA
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGA
31259158 AAATCTCAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
40 1 0.02
41 56 0.92
42 2 0.03
43 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (40 bp):
CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATTAATT
Found at i:31259327 original size:64 final size:67
Alignment explanation
Indices: 31259203--31259355 Score: 197
Period size: 64 Copynumber: 2.3 Consensus size: 67
31259193 TACAACATTA
* * *
31259203 AAATTCAGTTCAAAGAA-TTTGTAACCTATATTCGAACCATACACATATGTATGTAAAATTCATA
1 AAATTCAGCTC-AAGAACTTTATAACCTATATTCGAA-CATACACATATGTATATAAAATTCATA
31259267 AATT
64 AATT
* * *
31259271 AAATTCAGCTCAAGAACTTTATAACCTATATTTG-A-AT-CACATATGTATATAAAATTCGTACA
1 AAATTCAGCTCAAGAACTTTATAACCTATATTCGAACATACACATATGTATATAAAATTCATAAA
31259333 TT
66 TT
*
31259335 AATTTCAGCTCAAGAACTTTA
1 AAATTCAGCTCAAGAACTTTA
31259356 AAATATATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
64 44 0.57
65 2 0.03
67 6 0.08
68 25 0.32
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (67 bp):
AAATTCAGCTCAAGAACTTTATAACCTATATTCGAACATACACATATGTATATAAAATTCATAAA
TT
Found at i:31259503 original size:60 final size:60
Alignment explanation
Indices: 31259384--31259508 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
31259374 ACCGTATGTG
* * * **
31259384 TATATATATATTTCATAATATTAAGTTCAACTCAAAGAACTTGTATCATACATTCAACTA
1 TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAACTA
* *
31259444 TATATATATAATTCATAACT-TTAAATTCAACTC-ATGAAATTAAATCTTACATTCGAACTA
1 TATATATATAATTCATAA-TATTAAATTCAACTCAAAGAAATTAAATCATACATTC-AACTA
*
31259504 CATAT
1 TATAT
31259509 CCATGTAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 16 0.29
60 38 0.69
61 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (60 bp):
TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAACTA
Found at i:31264953 original size:21 final size:22
Alignment explanation
Indices: 31264919--31264960 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
31264909 AAAATATAAA
*
31264919 TATAAATAATATAA-TTAAGAT
1 TATAAATAACATAATTTAAGAT
*
31264940 TATAAATAGCATAATTTAAGA
1 TATAAATAACATAATTTAAGA
31264961 GGAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
TATAAATAACATAATTTAAGAT
Found at i:31273345 original size:6 final size:6
Alignment explanation
Indices: 31273334--31273385 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
31273324 CCATTTCTAC
31273334 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
31273382 CAAA
1 CAAA
31273386 CTTATGTACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.15
Consensus pattern (6 bp):
CAAAAT
Found at i:31277074 original size:21 final size:20
Alignment explanation
Indices: 31277027--31277079 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
31277017 ACCATTGTTT
*
31277027 CTAATCTCACTGCTACAATA
1 CTAATCTCACCGCTACAATA
* *
31277047 TTCAATCTCACCGCTACAGTAA
1 CT-AATCTCACCGCTACAAT-A
31277069 CTAATCTCACC
1 CTAATCTCACC
31277080 ACCACCACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.32, C:0.34, G:0.06, T:0.28
Consensus pattern (20 bp):
CTAATCTCACCGCTACAATA
Found at i:31278218 original size:21 final size:21
Alignment explanation
Indices: 31278185--31278230 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
31278175 ATAAACTAAT
*
31278185 AAAATATAAAATT-TATTTTA
1 AAAATATAAAATTAAATTTTA
*
31278205 AAAAGTATATAATTAAATTTTA
1 AAAA-TATAAAATTAAATTTTA
31278227 AAAA
1 AAAA
31278231 AAGAGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATATAAAATTAAATTTTA
Found at i:31284805 original size:103 final size:103
Alignment explanation
Indices: 31284626--31284831 Score: 349
Period size: 103 Copynumber: 2.0 Consensus size: 103
31284616 TATCTATAGA
* * *
31284626 TATATAAAGAAGGGTAAATTATAAAAGTAGTCACTTTTGTTTGCTTCAGATTACATTTTAGTTAT
1 TATATAAAGAAGGGTAAATTATAAAAATAGTCACTTTTGTTTGCCTCAGATTACATTTTAGTCAT
*
31284691 TTATGCTTGAAATGTTATATTTTAGTTACTTACGTTAT
66 TTATGCTTGAAATGTTATATTTTAGTCACTTACGTTAT
31284729 TATATAAAGAAGGGTAAATTATAAAAATAGTCACTTTTGTTTGCCTCAGATTACATTTTAGTCAT
1 TATATAAAGAAGGGTAAATTATAAAAATAGTCACTTTTGTTTGCCTCAGATTACATTTTAGTCAT
* * *
31284794 TTATGTTTGAAATGTTATGTTTTAGTCACTTATGTTAT
66 TTATGCTTGAAATGTTATATTTTAGTCACTTACGTTAT
31284832 CGTTTTATTA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (103 bp):
TATATAAAGAAGGGTAAATTATAAAAATAGTCACTTTTGTTTGCCTCAGATTACATTTTAGTCAT
TTATGCTTGAAATGTTATATTTTAGTCACTTACGTTAT
Found at i:31285848 original size:3 final size:3
Alignment explanation
Indices: 31285822--31285864 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
31285812 AAAACGACTG
* * *
31285822 AGA AGG AGA AGG AGA AGG AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
31285865 ATGGACGCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:31287288 original size:2 final size:2
Alignment explanation
Indices: 31287281--31287305 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31287271 TTTATTTGGT
31287281 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31287306 TAAAATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31288484 original size:14 final size:14
Alignment explanation
Indices: 31288465--31288494 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31288455 AAATTAAATT
31288465 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
31288479 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
31288493 TT
1 TT
31288495 ATTTGAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:31288673 original size:19 final size:19
Alignment explanation
Indices: 31288651--31288702 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
31288641 AAAAATTACA
31288651 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAA-TTTC
*
31288670 AAAATTTCAAAATAATTTC
1 AAAAATTCAAAATAATTTC
*
31288689 TAAAATTCAAAATA
1 AAAAATTCAAAATA
31288703 TCTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTC
Found at i:31288681 original size:20 final size:20
Alignment explanation
Indices: 31288658--31288721 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
31288648 ACAAAAAATT
31288658 AAAATAATTTTCAAAATTTC
1 AAAATAATTTTCAAAATTTC
31288678 AAAATAA-TTTCTAAAA-TTC
1 AAAATAATTTTC-AAAATTTC
* *
31288697 AAAAT-ATCTATAAAAATTTC
1 AAAATAAT-TTTCAAAATTTC
31288717 AAAAT
1 AAAAT
31288722 TTATATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.42
20 21 0.55
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAATTTTCAAAATTTC
Found at i:31288697 original size:27 final size:27
Alignment explanation
Indices: 31288667--31288722 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
31288657 TAAAATAATT
*
31288667 TTCAAAATTTC-A-AAATAATTTCTAAAA
1 TTCAAAATATCTATAAA-AATTTC-AAAA
31288694 TTCAAAATATCTATAAAAATTTCAAAA
1 TTCAAAATATCTATAAAAATTTCAAAA
31288721 TT
1 TT
31288723 TATATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 16 0.62
28 7 0.27
29 3 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (27 bp):
TTCAAAATATCTATAAAAATTTCAAAA
Found at i:31288782 original size:19 final size:19
Alignment explanation
Indices: 31288732--31288784 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
31288722 TTATATTTAA
31288732 AAAAAATTATAAA-AAATCT
1 AAAAAATTA-AAAGAAATCT
31288751 ACAAAAATATAAAAGAAAGT-T
1 A-AAAAAT-TAAAAGAAA-TCT
31288772 AAAAAATTAAAAG
1 AAAAAATTAAAAG
31288785 TTTTCTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 7 0.23
22 1 0.03
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.21
Consensus pattern (19 bp):
AAAAAATTAAAAGAAATCT
Found at i:31292455 original size:19 final size:19
Alignment explanation
Indices: 31292431--31292470 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
31292421 TTATTAACAC
31292431 ACTGAAGGCACCGTTCATT
1 ACTGAAGGCACCGTTCATT
31292450 ACTGAAGGCACCGTTCATT
1 ACTGAAGGCACCGTTCATT
31292469 AC
1 AC
31292471 GCATATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (19 bp):
ACTGAAGGCACCGTTCATT
Found at i:31294274 original size:7 final size:7
Alignment explanation
Indices: 31294248--31294288 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
31294238 AAGTGATGTG
31294248 GAAAAAT
1 GAAAAAT
31294255 GAAAAGAT
1 GAAAA-AT
31294263 G-AAAAT
1 GAAAAAT
31294269 GAAAAAT
1 GAAAAAT
31294276 GAAAAAT
1 GAAAAAT
31294283 GAAAAA
1 GAAAAA
31294289 ATAAAATGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 3 0.09
7 26 0.81
8 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (7 bp):
GAAAAAT
Found at i:31294294 original size:14 final size:14
Alignment explanation
Indices: 31294249--31294294 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
31294239 AGTGATGTGG
*
31294249 AAAAATGAAAAGAT
1 AAAAATGAAAAAAT
*
31294263 GAAAATG-AAAAAT
1 AAAAATGAAAAAAT
31294276 GAAAAATGAAAAAAT
1 -AAAAATGAAAAAAT
31294291 AAAA
1 AAAA
31294295 TGGAGAGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.19
14 16 0.59
15 6 0.22
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:31294294 original size:20 final size:21
Alignment explanation
Indices: 31294249--31294296 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
31294239 AGTGATGTGG
*
31294249 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATGAAAATA
31294270 AAAAATGAAAA-ATGAAAA-A
1 AAAAATGAAAAGATGAAAATA
31294289 ATAAAATG
1 A-AAAATG
31294297 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.52
21 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAGATGAAAATA
Found at i:31294294 original size:21 final size:21
Alignment explanation
Indices: 31294248--31294287 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31294238 AAGTGATGTG
31294248 GAAAAATGAAAAGATGAAAAT
1 GAAAAATGAAAAGATGAAAAT
31294269 GAAAAATGAAAA-ATGAAAA
1 GAAAAATGAAAAGATGAAAA
31294288 AATAAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
GAAAAATGAAAAGATGAAAAT
Found at i:31295673 original size:44 final size:45
Alignment explanation
Indices: 31295518--31296197 Score: 245
Period size: 44 Copynumber: 15.5 Consensus size: 45
31295508 ACAGCGAAGC
* * * *
31295518 AGATCGAAGA-TACAGATCTTATCTCCCTAAG-CAGTAGTGGAGC
1 AGATTGAAGATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* ** * * *
31295561 AGATCGAAGATGGC-GAATTTTACCTCCCTGAGGTTA-CAGTGGAGT
1 AGATTGAAGATTACAG-ATCTTATCTCCCT-AGGTCAGCAGTGGAGT
* * * *
31295606 ATATTGAAG---CCAGTAACTCTATCTCCCT-GGTCAGCAGTGGAAT
1 AGATTGAAGATTACAG-ATCT-TATCTCCCTAGGTCAGCAGTGGAGT
* * *
31295649 AGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGC
1 AGATTGAAGATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
** **** * * *
31295693 AGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTA-CAGTGGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCT-AGGTCAGCAGTGGAGT
** * * * *
31295738 TCATTGAAGCCAATA-A-TTC-TATCTCCCTGGGT-AGCAGTGGAAT
1 AGATTGAAG--ATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* * *
31295781 AGATTGAAGATTACAGATCTTATCTCCCTA-GACAGTAGTTGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* * * * *
31295825 AGATCGAAGATGACAGATTTTACCTCCCTGAGGTTA-CAGTGGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCT-AGGTCAGCAGTGGAGT
* * * * *
31295870 ACATTGAAGCCAGTA-A-TTC-TATCTCCCT-GGGCAGCAGTGGAAT
1 AGATTGAAG--ATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* * *
31295913 AGATTGAAGATTACAGATCTTATCTCCCTA-GACAGTATTGGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* * * * * *
31295957 AGATCGAAGATAACAAATTTTACCTCCCTGAGGTTA-CAGTGGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCT-AGGTCAGCAGTGGAGT
* * * ** * * *
31296002 ACATTGAAGCCAGTA-A-TTC-TATCT-TATTGGGCAGCAGTGGAAT
1 AGATTGAAG--ATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* * * * *
31296045 AAATTGAAAATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGC
1 AGATTGAAGATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
* ** **** * * *
31296089 AAATCAAAGATGGTGGATTTTACCTCCCTGAGGTTA-CAGTGGAGT
1 AGATTGAAGATTACAGATCTTATCTCCCT-AGGTCAGCAGTGGAGT
* * * * *
31296134 ACATTGAAGCCAGTA-A-TTC-TATCTCCCTAGG-CAACAGTGGAAT
1 AGATTGAAG--ATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
*
31296177 AGATTGAAGATGACAGATCTT
1 AGATTGAAGATTACAGATCTT
31296198 GTCTTCATGT
Statistics
Matches: 446, Mismatches: 145, Indels: 91
0.65 0.21 0.13
Matches are distributed among these distances:
41 11 0.02
42 17 0.04
43 108 0.24
44 207 0.46
45 85 0.19
46 12 0.03
47 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
AGATTGAAGATTACAGATCTTATCTCCCTAGGTCAGCAGTGGAGT
Found at i:31295765 original size:132 final size:132
Alignment explanation
Indices: 31295518--31296197 Score: 1042
Period size: 132 Copynumber: 5.2 Consensus size: 132
31295508 ACAGCGAAGC
* *
31295518 AGATCGAAGA-TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATTTT
1 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
* * *
31295582 ACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGA
31295647 AT
131 AT
* *
31295649 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTT
1 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
* * *
31295714 ACCTCCCTGAGGTTACAGTGGAGTTCATTGAAGCCAATAATTCTATCTCCCTGGGTAGCAGTGGA
66 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGA
31295779 AT
131 AT
* * * *
31295781 AGATTGAAGATTACAGATCTTATCTCCCT-AGACAGTAGTTGAGTAGATCGAAGATGACAGATTT
1 AGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGCGGATTT
31295845 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
65 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
31295910 AAT
130 AAT
* * ** **
31295913 AGATTGAAGATTACAGATCTTATCTCCCT-AGACAGTATTGGAGTAGATCGAAGATAACAAATTT
1 AGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGCGGATTT
***
31295977 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTATTGGGCAGCAGTGG
65 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
31296042 AAT
130 AAT
* * * * *
31296045 AAATTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGATGGTGGATTTT
1 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
* *
31296110 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGGA
66 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGA
31296175 AT
131 AT
*
31296177 AGATTGAAGATGACAGATCTT
1 AGATTGAAGATTACAGATCTT
31296198 GTCTTCATGT
Statistics
Matches: 501, Mismatches: 45, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
131 11 0.02
132 488 0.97
133 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (132 bp):
AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGA
AT
Found at i:31296245 original size:44 final size:44
Alignment explanation
Indices: 31296176--31296452 Score: 405
Period size: 44 Copynumber: 6.3 Consensus size: 44
31296166 AACAGTGGAA
* * *
31296176 TAGATTGAAGATGACAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGCGTGAAG
* *
31296220 TAAATCGAAGATAATTGATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGCGTGAAG
*
31296264 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGTGTGAAG
1 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGCGTGAAG
* *
31296308 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGTGTGAAA
1 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGCGTGAAG
* *
31296352 TAGATCGGAGA-AAGCAGATCTTGTC-TCATGTATTGGCGTGAAG
1 TAGATCGAAGATAA-CTGATCTTGTCTTCATGTATTGGCGTGAAG
* * *
31296395 TAGATCGATGATAACTGATCTTGTCTTCCTGTATTGGCAGTAAAG
1 TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGC-GTGAAG
31296440 TAGATCGAAGATA
1 TAGATCGAAGATA
31296453 TAAGTCTTAT
Statistics
Matches: 210, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
43 37 0.18
44 156 0.74
45 17 0.08
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (44 bp):
TAGATCGAAGATAACTGATCTTGTCTTCATGTATTGGCGTGAAG
Found at i:31297102 original size:22 final size:22
Alignment explanation
Indices: 31297077--31297122 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
31297067 TCCGCAAGCG
31297077 CCGCACATCGCGCCCGTCGCTC
1 CCGCACATCGCGCCCGTCGCTC
**
31297099 CCGCACATCGCGCTTGTCGCTC
1 CCGCACATCGCGCCCGTCGCTC
31297121 CC
1 CC
31297123 ACGCGTCGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.52, G:0.22, T:0.17
Consensus pattern (22 bp):
CCGCACATCGCGCCCGTCGCTC
Found at i:31297131 original size:22 final size:22
Alignment explanation
Indices: 31297080--31297133 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
31297070 GCAAGCGCCG
** *
31297080 CACATCGCGCCCGTCGCTCCCG
1 CACATCGCGCTTGTCGCTCCCA
31297102 CACATCGCGCTTGTCGCTCCCA
1 CACATCGCGCTTGTCGCTCCCA
* *
31297124 CGCGTCGCGC
1 CACATCGCGC
31297134 GCACTCAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.09, C:0.50, G:0.24, T:0.17
Consensus pattern (22 bp):
CACATCGCGCTTGTCGCTCCCA
Found at i:31298437 original size:22 final size:23
Alignment explanation
Indices: 31298388--31298443 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
31298378 ATAATATACA
31298388 TATACATATTTTCATGTTTTACC
1 TATACATATTTTCATGTTTTACC
* *
31298411 AATACATATTTTCATG-TTTACT
1 TATACATATTTTCATGTTTTACC
31298433 TATACAT-TTTT
1 TATACATATTTT
31298444 ATTTCTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 4 0.13
22 11 0.37
23 15 0.50
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.54
Consensus pattern (23 bp):
TATACATATTTTCATGTTTTACC
Found at i:31308693 original size:117 final size:117
Alignment explanation
Indices: 31308555--31308765 Score: 352
Period size: 117 Copynumber: 1.8 Consensus size: 117
31308545 TTTGATTTGT
* * *
31308555 TGGTTATTTGTGATTTATTATTGCAATTTTAGTGCCATAATGTAGGGTTTGTTTTGTCGATTTT-
1 TGGTTAATTGTGATTTATTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTC-ATTTTG
* * *
31308619 TGATGCGATAGTGGTCCCGATGTTGTTGATAAAACTGTTGTCAAAATTGTAGA
65 TGATGCAAAAGTGGTCCCGATGATGTTGATAAAACTGTTGTCAAAATTGTAGA
31308672 TGGTTAATTGTGATTTATTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCATTTTGT
1 TGGTTAATTGTGATTTATTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCATTTTGT
31308737 GATGCAAAAGTGGTCCCGATGATGTTGAT
66 GATGCAAAAGTGGTCCCGATGATGTTGAT
31308766 TTCTGTTACC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 5 0.06
117 82 0.94
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (117 bp):
TGGTTAATTGTGATTTATTATTGCAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCATTTTGT
GATGCAAAAGTGGTCCCGATGATGTTGATAAAACTGTTGTCAAAATTGTAGA
Found at i:31309432 original size:33 final size:33
Alignment explanation
Indices: 31309364--31309432 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
31309354 TGTTGACTAT
* *
31309364 TGGGGAGGGTGATGTTGAAGGGGTGGAAGTTGA
1 TGGGGAGGGTGATGATGAAGGGGTGGAAGTCGA
31309397 TGGGGAGGGTGATGATGAAGGGGTGGAA-TCCGA
1 TGGGGAGGGTGATGATGAAGGGGTGGAAGT-CGA
31309430 TGG
1 TGG
31309433 TGAAGGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.22, C:0.03, G:0.54, T:0.22
Consensus pattern (33 bp):
TGGGGAGGGTGATGATGAAGGGGTGGAAGTCGA
Found at i:31309683 original size:51 final size:51
Alignment explanation
Indices: 31309607--31309760 Score: 245
Period size: 51 Copynumber: 3.0 Consensus size: 51
31309597 ATAGTGAAGT
*
31309607 TGTTGCTGATGAATATGCTGATGATTTTGCAACATCAGATGGAGTGGATAA
1 TGTTGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAA
* * *
31309658 TGTTGCTGATGAATATGTTGGTGATTTTCCAACATCAGATAGAGTGGATAA
1 TGTTGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAA
* * *
31309709 TGTTGTTGATGAATATGCTGGTGATTTTGCAACATTAGATGGACTGGATAA
1 TGTTGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAA
31309760 T
1 T
31309761 ATTGATGTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 93 1.00
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.36
Consensus pattern (51 bp):
TGTTGCTGATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAA
Found at i:31313580 original size:32 final size:32
Alignment explanation
Indices: 31313543--31313616 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
31313533 TTTGGTTCTA
* *
31313543 AGGGATTTCACGATTTCG-TTCCTAATAGTTTT
1 AGGGATTTCACGATTT-GATTCATAAAAGTTTT
*
31313575 AGGGA-TTCAACTATTTGATTCATAAAAGTTTT
1 AGGGATTTC-ACGATTTGATTCATAAAAGTTTT
*
31313607 AAGGATTTCA
1 AGGGATTTCA
31313617 AGAATATTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
31 4 0.11
32 28 0.80
33 3 0.09
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (32 bp):
AGGGATTTCACGATTTGATTCATAAAAGTTTT
Found at i:31313678 original size:17 final size:16
Alignment explanation
Indices: 31313639--31313682 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
31313629 AATGGTAACA
*
31313639 ATTTAAGGATTTCAAG
1 ATTTAGGGATTTCAAG
*
31313655 ATTTAGGGATTTGAAG
1 ATTTAGGGATTTCAAG
31313671 ATTTTAGGGATT
1 A-TTTAGGGATT
31313683 CAATGTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (16 bp):
ATTTAGGGATTTCAAG
Found at i:31317985 original size:4 final size:4
Alignment explanation
Indices: 31317976--31318006 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
31317966 TTTTATCTTA
31317976 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
31318007 GTGTTCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:31318441 original size:73 final size:73
Alignment explanation
Indices: 31318334--31318474 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
31318324 TTTCAAACTT
* * * *
31318334 AAGTTTTAAACAATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTAATGGGCATGATTCCTTT
1 AAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTAATAGGCATGATCCCTTT
31318399 TTTTTCTC
66 TTTTTCTC
* *
31318407 AAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTTT
1 AAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTAATAGGCATGATCCCTTT
31318472 TTT
66 TTT
31318475 AAATCCGAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (73 bp):
AAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTAATAGGCATGATCCCTTT
TTTTTCTC
Found at i:31327177 original size:28 final size:29
Alignment explanation
Indices: 31327136--31327192 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
31327126 TAAATATTTT
*
31327136 TATTTTT-TATTTTTTTATTTTTAAAATA
1 TATTTTTAAATTTTTTTATTTTTAAAATA
31327164 TATTTTTAAATTTTTTTATTTTTAAAATA
1 TATTTTTAAATTTTTTTATTTTTAAAATA
31327193 CTTATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTTTAAATTTTTTTATTTTTAAAATA
Found at i:31327206 original size:29 final size:27
Alignment explanation
Indices: 31327139--31327206 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 27
31327129 ATATTTTTAT
31327139 TTTTTATTTTTTTATTTTTAAAATATA
1 TTTTTATTTTTTTATTTTTAAAATATA
31327166 TTTTTAAATTTTTTTATTTTTAAAATACT-
1 TTTTT--ATTTTTTTATTTTTAAAATA-TA
31327195 TATTTTATTTTT
1 T-TTTTATTTTT
31327207 AAAAAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 5 0.14
28 6 0.16
29 21 0.57
30 5 0.14
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTATTTTTTTATTTTTAAAATATA
Found at i:31330141 original size:18 final size:19
Alignment explanation
Indices: 31330118--31330155 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31330108 ATGTCTCAAA
31330118 TATATAC-AAAATATACTT
1 TATATACAAAAATATACTT
31330136 TATATACAAAAATATACTT
1 TATATACAAAAATATACTT
31330155 T
1 T
31330156 TTCATAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
TATATACAAAAATATACTT
Found at i:31331348 original size:17 final size:17
Alignment explanation
Indices: 31331326--31331364 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
31331316 TTTTACCTTT
*
31331326 AACTTAATTAATGGGTA
1 AACTTAATTAATGGGAA
*
31331343 AACTTAATTGATGGGAA
1 AACTTAATTAATGGGAA
31331360 AACTT
1 AACTT
31331365 TTATTAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (17 bp):
AACTTAATTAATGGGAA
Found at i:31331982 original size:2 final size:2
Alignment explanation
Indices: 31331975--31332001 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31331965 AGCAAACGGT
31331975 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31332002 TCTGCTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31334262 original size:42 final size:42
Alignment explanation
Indices: 31334210--31334413 Score: 191
Period size: 42 Copynumber: 4.8 Consensus size: 42
31334200 CACGAAATAC
* *
31334210 ACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAG-GAAAAA
1 ACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
* * * *
31334252 ATGCCGCTAAAGAACATGATCTTTAGCAGCGCTTA-AGAAAAAA
1 ACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGA-AAAAAA
*
31334295 ACGCTGCTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
1 ACGCCGCT-AAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
* * * ***
31334338 ACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTT-GTTCAAAA
1 ACGCCGCTAAAA-TCATGTTCTTTAGCGGCGCTTAGAAAAAAA
*
31334380 ACGTCGCTAAAAGT-AGTGTTCTTTAGCGGCGCTT
1 ACGCCGCTAAAA-TCA-TGTTCTTTAGCGGCGCTT
31334414 GTTTCACAAA
Statistics
Matches: 135, Mismatches: 21, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 68 0.50
43 62 0.46
44 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
ACGCCGCTAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
Found at i:31334318 original size:43 final size:42
Alignment explanation
Indices: 31334216--31334413 Score: 190
Period size: 43 Copynumber: 4.7 Consensus size: 42
31334206 ATACACGCCA
* * * *
31334216 CTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAATGCCG
1 CTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCTG
* *
31334258 CTAAAGAA-CATGATCTTTAGCAGCGCTTAAGAAAAAAACGCTG
1 CTAAA-AATCATGTTCTTTAGCGGCGCTT-AGAAAAAAACGCTG
31334301 CTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCT-
1 CTAAAAATCATGTTCTTTAGCGGCGCTTAG-AAAAAAACG-CTG
* * * **
31334344 CTAAAAGTAATGTTCTATAGCGGCGCTT-GTTCAAAAACG-TCG
1 CTAAAAATCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCT-G
*
31334386 CTAAAAGT-AGTGTTCTTTAGCGGCGCTT
1 CTAAAAATCA-TGTTCTTTAGCGGCGCTT
31334414 GTTTCACAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 60 0.45
43 69 0.52
44 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
CTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCTG
Found at i:31334380 original size:85 final size:84
Alignment explanation
Indices: 31334216--31334413 Score: 215
Period size: 85 Copynumber: 2.3 Consensus size: 84
31334206 ATACACGCCA
* * * *
31334216 CTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAATGCCGCTAAAGAACATGATCTTTAGCAG
1 CTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGATCTATAGCAG
31334281 CGCTTAAGAAAAAAACG-CTG
66 CGCTT-AGAAAAAAACGTC-G
* * *
31334301 CTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCTCTAAAAGTA-ATGTTCTATAGC
1 CTAAAAATCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCGCT-AAAGAACATGATCTATAGC
* **
31334365 GGCGCTT-GTTCAAAAACGTCG
64 AGCGCTTAG-AAAAAAACGTCG
*
31334386 CTAAAAGT-AGTGTTCTTTAGCGGCGCTT
1 CTAAAAATCA-TGTTCTTTAGCGGCGCTT
31334414 GTTTCACAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
84 2 0.02
85 62 0.64
86 28 0.29
87 5 0.05
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (84 bp):
CTAAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGATCTATAGCAG
CGCTTAGAAAAAAACGTCG
Found at i:31340343 original size:9 final size:9
Alignment explanation
Indices: 31340308--31340758 Score: 436
Period size: 9 Copynumber: 49.8 Consensus size: 9
31340298 TTAGACAATA
31340308 ATGTAAGTT
1 ATGTAAGTT
*
31340317 A-GGAAGGTT
1 ATGTAA-GTT
31340326 ATGT-A-TT
1 ATGTAAGTT
31340333 ATGTAAGTT
1 ATGTAAGTT
31340342 ATGTAAGTT
1 ATGTAAGTT
31340351 ATGTAAGTT
1 ATGTAAGTT
31340360 ATGTAAGTT
1 ATGTAAGTT
* *
31340369 ATTTAATTT
1 ATGTAAGTT
31340378 ATGTAAGTT
1 ATGTAAGTT
*
31340387 ATGTAAGAT
1 ATGTAAGTT
31340396 ATGTAAGTT
1 ATGTAAGTT
31340405 ATGTAAGTT
1 ATGTAAGTT
*
31340414 ATTTAAGTT
1 ATGTAAGTT
31340423 ATGTAAGTT
1 ATGTAAGTT
31340432 ATGTAAGTT
1 ATGTAAGTT
*
31340441 ATGAAAGTT
1 ATGTAAGTT
* *
31340450 ATTTAATTT
1 ATGTAAGTT
*
31340459 ATGTAAGAT
1 ATGTAAGTT
31340468 ATGTAAGTT
1 ATGTAAGTT
31340477 ATGTAAGTT
1 ATGTAAGTT
31340486 ATGTAAGTT
1 ATGTAAGTT
31340495 ATGTAAGTT
1 ATGTAAGTT
*
31340504 ACGTAAGTT
1 ATGTAAGTT
*
31340513 ATGTAAGAT
1 ATGTAAGTT
*
31340522 ATGTAAGAT
1 ATGTAAGTT
31340531 ATGTAAGTT
1 ATGTAAGTT
* *
31340540 ATTTAATTT
1 ATGTAAGTT
31340549 ATGTAAGTT
1 ATGTAAGTT
31340558 ATGTAAGTT
1 ATGTAAGTT
* *
31340567 ATATAATTT
1 ATGTAAGTT
31340576 ATGTAAGCAATT
1 ATGTAAG---TT
* * *
31340588 -TAGAAAAAATA
1 AT-G--TAAGTT
31340599 ATGTAAGTT
1 ATGTAAGTT
31340608 ATGTACTAAGTT
1 ATG---TAAGTT
31340620 ATGT-A-TT
1 ATGTAAGTT
*
31340627 ATGTAAATT
1 ATGTAAGTT
31340636 ATGTACTAAGTT
1 ATG---TAAGTT
*
31340648 AT-TTA-TT
1 ATGTAAGTT
* *
31340655 ATGTAAATA
1 ATGTAAGTT
*
31340664 ATTTAAGTT
1 ATGTAAGTT
* *
31340673 AGGTAGGTT
1 ATGTAAGTT
31340682 ATGT-A-TT
1 ATGTAAGTT
31340689 ATGTAAGTT
1 ATGTAAGTT
*
31340698 ATTTAAGTT
1 ATGTAAGTT
31340707 ATGTAAGTT
1 ATGTAAGTT
*
31340716 ATGTAAATT
1 ATGTAAGTT
* *
31340725 ATTTAATTT
1 ATGTAAGTT
*
31340734 ATGTAAGGT
1 ATGTAAGTT
31340743 ATGTAAGTT
1 ATGTAAGTT
31340752 ATGTAAG
1 ATGTAAG
31340759 CTATATACTT
Statistics
Matches: 362, Mismatches: 57, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
7 22 0.06
8 11 0.03
9 303 0.84
10 1 0.00
11 3 0.01
12 20 0.06
14 2 0.01
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.44
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:31340639 original size:28 final size:28
Alignment explanation
Indices: 31340599--31340662 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
31340589 AGAAAAAATA
*
31340599 ATGTAAGTTATGTACTAAGTTATGTATT
1 ATGTAAATTATGTACTAAGTTATGTATT
*
31340627 ATGTAAATTATGTACTAAGTTATTTATT
1 ATGTAAATTATGTACTAAGTTATGTATT
31340655 ATGTAAAT
1 ATGTAAAT
31340663 AATTTAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (28 bp):
ATGTAAATTATGTACTAAGTTATGTATT
Found at i:31340689 original size:34 final size:34
Alignment explanation
Indices: 31340642--31340756 Score: 113
Period size: 34 Copynumber: 3.3 Consensus size: 34
31340632 AATTATGTAC
*
31340642 TAAGTTATTTATTATGTAAATAATTTAAGTTAGG
1 TAAGTTATGTATTATGTAAATAATTTAAGTTAGG
* * * *
31340676 TAGGTTATGTATTATGTAAGTTATTTAAGTTATG
1 TAAGTTATGTATTATGTAAATAATTTAAGTTAGG
* * * * * *
31340710 TAAGTTATGTAAATTATTTAATTTATGTAAGGTATG
1 TAAGTTATGT--ATTATGTAAATAATTTAAGTTAGG
31340746 TAAGTTATGTA
1 TAAGTTATGTA
31340757 AGCTATATAC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 39 0.57
36 30 0.43
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (34 bp):
TAAGTTATGTATTATGTAAATAATTTAAGTTAGG
Found at i:31340809 original size:20 final size:19
Alignment explanation
Indices: 31340767--31340809 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
31340757 AGCTATATAC
*
31340767 TTTAAAAATTGTTATGTAA
1 TTTAAAAATTGTTATGCAA
31340786 TTTAAAAATTGTTATGCAA
1 TTTAAAAATTGTTATGCAA
31340805 GTTTA
1 -TTTA
31340810 TATGTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTAAAAATTGTTATGCAA
Found at i:31340898 original size:25 final size:25
Alignment explanation
Indices: 31340870--31340920 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
31340860 AGTTTATATA
31340870 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
31340895 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
31340920 T
1 T
31340921 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Found at i:31340949 original size:17 final size:18
Alignment explanation
Indices: 31340917--31340950 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31340907 TGATTGATAA
31340917 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
31340935 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
31340951 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:31342160 original size:22 final size:22
Alignment explanation
Indices: 31342135--31342180 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
31342125 AAAATTTTCT
31342135 TAAATTTTATACTGATTAAACC
1 TAAATTTTATACTGATTAAACC
31342157 TAAATTTTATACTGATTAAACC
1 TAAATTTTATACTGATTAAACC
31342179 TA
1 TA
31342181 TGTAGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (22 bp):
TAAATTTTATACTGATTAAACC
Found at i:31345590 original size:20 final size:20
Alignment explanation
Indices: 31345559--31345601 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
31345549 AAAGAAAAAC
31345559 TTTGTAAAAATGTAAAGATTA
1 TTTGTAAAAATGTAAAG-TTA
*
31345580 TTTGT-AAAATGTCAAGTTA
1 TTTGTAAAAATGTAAAGTTA
31345599 TTT
1 TTT
31345602 ATAGTGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (20 bp):
TTTGTAAAAATGTAAAGTTA
Found at i:31352874 original size:19 final size:19
Alignment explanation
Indices: 31352829--31352877 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
31352819 ATTAAGAAGA
*
31352829 TGAATTAAAAATATTTTTT
1 TGAATTAAAAATATTTTAT
31352848 TGAA--AAAAATATATTTAT
1 TGAATTAAAAATAT-TTTAT
31352866 T-AATTAAAAATA
1 TGAATTAAAAATA
31352878 AAAAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
TGAATTAAAAATATTTTAT
Found at i:31357592 original size:126 final size:125
Alignment explanation
Indices: 31357436--31357673 Score: 280
Period size: 125 Copynumber: 1.9 Consensus size: 125
31357426 CCCACTTTTG
* * * * *
31357436 ATGTATACTAGTGATGATTCTTTCCGGTTCTTAACACAATTTGT-TGCATATATGGTTATTCGTT
1 ATGTATACTAATGATGATTCCTTACAGTTCTT-ACACAATTT-TCTGCATATATGATTATTCGTT
** * * *
31357500 TGTATATCTTGAGTTTAATGCCGATACGTTCTTCATTGCATTATCATAGCGATTGCACTTTA
64 TACATATCTTGAGTTTAATGCCGATACGTTCTTCAATGCACTAGCATAGCGATTGCACTTTA
* * * * * *
31357562 ATGTATACTAATGATGATTCCTTATAGTTCTTACTCAATTTTCTGCATGTGTTATTATTTGTTTA
1 ATGTATACTAATGATGATTCCTTACAGTTCTTACACAATTTTCTGCATATATGATTATTCGTTTA
** *
31357627 CATATCTTGAGTTTAATGTTGATATGTTCTTCAATGCACTAGCATAG
66 CATATCTTGAGTTTAATGCCGATACGTTCTTCAATGCACTAGCATAG
31357674 GATAGCAGCG
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
124 1 0.01
125 64 0.70
126 27 0.29
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.45
Consensus pattern (125 bp):
ATGTATACTAATGATGATTCCTTACAGTTCTTACACAATTTTCTGCATATATGATTATTCGTTTA
CATATCTTGAGTTTAATGCCGATACGTTCTTCAATGCACTAGCATAGCGATTGCACTTTA
Found at i:31359377 original size:6 final size:6
Alignment explanation
Indices: 31359366--31359432 Score: 89
Period size: 6 Copynumber: 10.7 Consensus size: 6
31359356 AGTCCCTTTA
* *
31359366 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAATT TGTATAC
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T T-TAAAT
31359416 TTAAAT TTAAGAT TTAA
1 TTAAAT TTAA-AT TTAA
31359433 TATAATTTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
6 42 0.78
7 9 0.17
8 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:31360999 original size:31 final size:31
Alignment explanation
Indices: 31360964--31361024 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
31360954 ATTAAATTTT
31360964 AATAAAAT-TATTATTAAAT-ATAATTTAATAA
1 AATAAAATATATT-TT-AATCATAATTTAATAA
* *
31360995 AATAATATATATTTTAATCATATTTTAATA
1 AATAAAATATATTTTAATCATAATTTAATA
31361025 TATTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 3 0.12
31 19 0.73
32 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
AATAAAATATATTTTAATCATAATTTAATAA
Found at i:31361157 original size:6 final size:6
Alignment explanation
Indices: 31361146--31361179 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
31361136 TTTTCTTCTC
*
31361146 CCTCTA CCTCTA CCTCTA CCTCAA CCTCTA CCTC
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTC
31361180 ACGAGTCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (6 bp):
CCTCTA
Found at i:31368420 original size:29 final size:31
Alignment explanation
Indices: 31368362--31368422 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 31
31368352 TGTACTTTAA
*
31368362 TTTTGAAATATGAAAAATAGAGAGAATAAAT
1 TTTTGAAATATGAAAAATAGAGAAAATAAAT
*
31368393 TTTTGAAA-AT-AAAAATATA-AAAATTAAAT
1 TTTTGAAATATGAAAAATAGAGAAAA-TAAAT
31368422 T
1 T
31368423 CTAAAATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 14 0.52
30 2 0.07
31 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (31 bp):
TTTTGAAATATGAAAAATAGAGAAAATAAAT
Found at i:31368766 original size:26 final size:26
Alignment explanation
Indices: 31368714--31368764 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
31368704 AGAAAATTTT
*
31368714 TAAATATATATTTTTTATAATTAAAA
1 TAAATATATATTATTTATAATTAAAA
* *
31368740 TAAAT-TATATTATTTCTTATTAAAA
1 TAAATATATATTATTTATAATTAAAA
31368765 ATTTAGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TAAATATATATTATTTATAATTAAAA
Found at i:31380192 original size:30 final size:31
Alignment explanation
Indices: 31380148--31380210 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
31380138 TTTATTATGT
31380148 CAATATCTCGATACCCATATCTTTGACTTTC
1 CAATATCTCGATACCCATATCTTTGACTTTC
* *
31380179 CAATAT-TTGATACCCATATCTTTGATTTTC
1 CAATATCTCGATACCCATATCTTTGACTTTC
31380209 CA
1 CA
31380211 TAAATATGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.41
Consensus pattern (31 bp):
CAATATCTCGATACCCATATCTTTGACTTTC
Found at i:31380202 original size:15 final size:15
Alignment explanation
Indices: 31380157--31380204 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
31380147 TCAATATCTC
31380157 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
31380172 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
31380187 GATACCCATATCTTT
1 GATACCCATATCTTT
31380202 GAT
1 GAT
31380205 TTTCCATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:31384822 original size:30 final size:30
Alignment explanation
Indices: 31384776--31384899 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
31384766 TTTTATTATG
* *
31384776 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATATTTGACTTT
31384807 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
31384837 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
* * *
31384867 CTAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATATTTGACTTT
31384897 CCA
1 CCA
31384900 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATATTTGACTTT
Found at i:31384828 original size:15 final size:15
Alignment explanation
Indices: 31384786--31384893 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
31384776 CCAATATCTC
*
31384786 GATACCCATATCTTT
1 GATACCCATATATTT
**
31384801 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
31384816 GATACCCATATATTT
1 GATACCCATATATTT
**
31384831 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
31384846 GATACCCATATATTT
1 GATACCCATATATTT
** *
31384861 GACTTTCTA-ATATTT
1 GA-TACCCATATATTT
*
31384876 GATACCCATATCTTT
1 GATACCCATATATTT
31384891 GAT
1 GAT
31384894 TTTCCATAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 11 0.15
15 49 0.69
16 11 0.15
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:31386293 original size:31 final size:31
Alignment explanation
Indices: 31386253--31386311 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
31386243 ATTAATTTTT
31386253 AAATTTTTTT-AAAATTCAAAAAT-ATTATAA
1 AAATTTTTTTAAAAATT-AAAAATCATTATAA
31386283 AAATTATTTTTAAAAATTAAAAATCATTA
1 AAATT-TTTTTAAAAATTAAAAATCATTA
31386312 AAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 11 0.42
32 10 0.38
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
AAATTTTTTTAAAAATTAAAAATCATTATAA
Found at i:31390988 original size:28 final size:29
Alignment explanation
Indices: 31390926--31390981 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
31390916 TAAAAGCTAT
*
31390926 AAATATTATTAAATTTTAATAAAAAAATTC
1 AAATATTA-TAAAATTTAATAAAAAAATTC
31390956 AAATATTA-AAAATTT-ATAAAAAAATT
1 AAATATTATAAAATTTAATAAAAAAATT
31390982 AGAAATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
28 6 0.24
30 8 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATATTATAAAATTTAATAAAAAAATTC
Found at i:31391028 original size:27 final size:27
Alignment explanation
Indices: 31390992--31391086 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
31390982 AGAAATACAA
*
31390992 ATATAAAAATCGTAAAAATTATAAAAT
1 ATATAGAAATCGTAAAAATTATAAAAT
*
31391019 ATATAGAAAT-ATAAAAAATTATAAAATT
1 ATATAGAAATCGT-AAAAATTATAAAA-T
* *
31391047 TTATA-AAGTCGTAAGAAGATTATACAAAAT
1 ATATAGAAATCGTAA-AA-ATTAT--AAAAT
*
31391077 ATAAAGAAAT
1 ATATAGAAAT
31391087 ATAAATTTCG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
26 1 0.02
27 27 0.52
28 8 0.15
29 5 0.10
30 4 0.08
31 7 0.13
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (27 bp):
ATATAGAAATCGTAAAAATTATAAAAT
Found at i:31391628 original size:89 final size:89
Alignment explanation
Indices: 31391373--31391643 Score: 275
Period size: 89 Copynumber: 3.1 Consensus size: 89
31391363 TCTAATTTTT
* * * *
31391373 AAAAATAGCAGGGGCTTTATTG-TTTTTTTGAAAAATTTTGAGGGTCTTTTTT-ATGCATTTTGA
1 AAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGAT-TTTTTTGATGCATTTTGA
*
31391436 AAGTTTAAGTACTCAATTAAGTG--
65 AAGTTTAAATACTCAATTAAGTGAA
*** * **
31391459 -AAAAAAGCAGGGGCTTAATTGCTTTTTTTTTTAAAGCTTGA-GAGCCTTTTTGATGCATTTTGA
1 AAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGA-TTTTTTTGATGCATTTTGA
* * *
31391522 ATGTTTAAATACCCAATTAAATGAA
65 AAGTTTAAATACTCAATTAAGTGAA
* * * *
31391547 AAAAAAAGTAGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGATTTTTTTGATGTATTTTAAA
1 AAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATTTTTTTGATGCATTTTGAA
* * * *
31391612 AGTTCAATTGCTCAATTATGTGCAA
66 AGTTTAAATACTCAATTAAGTG-AA
31391637 AAAAAAA
1 AAAAAAA
31391644 TTTGAGGAGC
Statistics
Matches: 146, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
85 25 0.17
86 44 0.30
89 66 0.45
90 11 0.08
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (89 bp):
AAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATTTTTTTGATGCATTTTGAA
AGTTTAAATACTCAATTAAGTGAA
Found at i:31391890 original size:29 final size:30
Alignment explanation
Indices: 31391834--31391889 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
31391824 ACTGTATTAA
31391834 ATACCTATTTTCATAATTAATTTATTTTCC
1 ATACCTATTTTCATAATTAATTTATTTTCC
31391864 ATACC-ATTTTCATAATTAA-TTATTTT
1 ATACCTATTTTCATAATTAATTTATTTT
31391890 TATATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 7 0.27
29 14 0.54
30 5 0.19
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (30 bp):
ATACCTATTTTCATAATTAATTTATTTTCC
Found at i:31393490 original size:31 final size:31
Alignment explanation
Indices: 31393444--31393517 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
31393434 TTTAACGATA
* * **
31393444 GAGTGGCT-AAATTGACAACTTATCTTATGC
1 GAGTGACTAAAATTGACAACTTATCTAACAC
*
31393474 GAGTGACTAAAATTGACAACTTATCTAACAT
1 GAGTGACTAAAATTGACAACTTATCTAACAC
31393505 GAGTGACTAAAAT
1 GAGTGACTAAAAT
31393518 AACAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (31 bp):
GAGTGACTAAAATTGACAACTTATCTAACAC
Found at i:31395631 original size:22 final size:23
Alignment explanation
Indices: 31395582--31395633 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
31395572 ATAAATTTAA
31395582 AAATTTTGCCAAAACTATTTTTT
1 AAATTTTGCCAAAACTATTTTTT
31395605 AAATTTTGCCAAAACTATTTTTT
1 AAATTTTGCCAAAACTATTTTTT
31395628 -AATTTT
1 AAATTTT
31395634 AATTGAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.50
Consensus pattern (23 bp):
AAATTTTGCCAAAACTATTTTTT
Found at i:31396027 original size:14 final size:14
Alignment explanation
Indices: 31395998--31396044 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
31395988 ATTTTACAGC
*
31395998 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
31396012 ATTTACAAATATAT
1 ATATACAAATAAAT
31396026 ATATACAAATACAAT
1 ATATACAAATA-AAT
31396041 ATAT
1 ATAT
31396045 CAGTAAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:31399555 original size:133 final size:133
Alignment explanation
Indices: 31399372--31399619 Score: 352
Period size: 133 Copynumber: 1.9 Consensus size: 133
31399362 ACCGGGGAAA
* * ** *
31399372 TAGAGTTACTGGCTTCAATATACTCCACTGCAACCTTAGGGAGGTAAAATCCACCATCTTTGATC
1 TAGAATTACCGGCTTCAATATACTCCACTGCAACCACAAGGAGGTAAAATCCACCATCTTTGATC
* * * * * *
31399437 TACTTCACTATTGCTTAGGGAGATAATATCTGTAATCTTCACTCTATTCCACTGTAACCTCAGGG
66 TACTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTAACCTCAGGG
31399502 AGG
131 AGG
* * **
31399505 TAGAATTACCGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTGCCATCTTTGATC
1 TAGAATTACCGGCTTCAATATACTCCACTGCAACCACAAGGAGGTAAAATCCACCATCTTTGATC
*
31399570 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCC
66 TACTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCC
31399620 GCTACTGCCT
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 99 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (133 bp):
TAGAATTACCGGCTTCAATATACTCCACTGCAACCACAAGGAGGTAAAATCCACCATCTTTGATC
TACTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTAACCTCAGGG
AGG
Found at i:31400026 original size:40 final size:40
Alignment explanation
Indices: 31399982--31400061 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
31399972 AGTGTTGCGT
31399982 TGAATCCGTTTTCCTTGCAGGTATGGCGGTCGTAGAGGTG
1 TGAATCCGTTTTCCTTGCAGGTATGGCGGTCGTAGAGGTG
* *
31400022 TGAATCCGTTTTTCTTGCAGGTGTGGCGGTCGTAGAGGTG
1 TGAATCCGTTTTCCTTGCAGGTATGGCGGTCGTAGAGGTG
31400062 CAATTTACGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.14, C:0.16, G:0.36, T:0.34
Consensus pattern (40 bp):
TGAATCCGTTTTCCTTGCAGGTATGGCGGTCGTAGAGGTG
Found at i:31402082 original size:22 final size:22
Alignment explanation
Indices: 31402040--31402082 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31402030 ACAACTGAAG
**
31402040 AAAATAATAAATTGTGGATATT
1 AAAATAATAAATTGTAAATATT
31402062 AAAATAA-AAATGTGTAAATAT
1 AAAATAATAAAT-TGTAAATAT
31402083 ATCAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (22 bp):
AAAATAATAAATTGTAAATATT
Found at i:31402741 original size:92 final size:86
Alignment explanation
Indices: 31402567--31402750 Score: 271
Period size: 86 Copynumber: 2.1 Consensus size: 86
31402557 TAGTAAAATG
*
31402567 CCTAATAAATAGTGAGTATATAGATATAGATACACAAATTTATAAAAATTTAGAACAACTTAATT
1 CCTAATAAATAGTGAGTATATAGATATAGATACACAAATTTATAAAAATTCAGAACAACTTAATT
31402632 AATGAAAATCCTATTATCATT
66 AATGAAAATCCTATTATCATT
*
31402653 CCTAATAAATAGTGAGTATATAGATATAGATACACAAA-TTATACATGACATATTGACATAACAA
1 CCTAATAAATAGTGAGTATATAGATATAGATACACAAATTTATA-A--A-A-ATT--CAGAACAA
31402717 CTTAATTAATGAAAATCCTATTATCATT
59 CTTAATTAATGAAAATCCTATTATCATT
*
31402745 TCTAAT
1 CCTAAT
31402751 TAATTCATAA
Statistics
Matches: 88, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
85 5 0.06
86 39 0.44
88 1 0.01
89 1 0.01
90 3 0.03
92 39 0.44
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (86 bp):
CCTAATAAATAGTGAGTATATAGATATAGATACACAAATTTATAAAAATTCAGAACAACTTAATT
AATGAAAATCCTATTATCATT
Found at i:31417952 original size:12 final size:12
Alignment explanation
Indices: 31417916--31417955 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
31417906 TGAATAATAA
31417916 ATAATTAAAATT
1 ATAATTAAAATT
31417928 -TCAATT-AAA-T
1 AT-AATTAAAATT
31417938 ATAATTAAAATT
1 ATAATTAAAATT
31417950 ATAATT
1 ATAATT
31417956 CTAAATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATTAAAATT
Found at i:31422894 original size:16 final size:16
Alignment explanation
Indices: 31422873--31422903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31422863 TAATTATTTT
31422873 TAAAAAATATATATTC
1 TAAAAAATATATATTC
*
31422889 TAAAAATTATATATT
1 TAAAAAATATATATT
31422904 TGCTTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAAAATATATATTC
Found at i:31425597 original size:63 final size:63
Alignment explanation
Indices: 31425446--31425637 Score: 206
Period size: 63 Copynumber: 3.0 Consensus size: 63
31425436 TGGTCCACAT
* *
31425446 GGCTTGGACACACGCTCATGTCTCT-GACCCGTGTGACTCAAATTCCAAACCAGTGAGTTACAC
1 GGCTTGGACACACGCCCATGTCTCTAG-CCCGTGTGACTCAAATTCCAAAACAGTGAGTTACAC
* * * * * * * **
31425509 AGCCTGGACACACGTCCGTGCCTCTAGCTCGTTTGACTCAAATTTTAAAACAGTGAGTTACAC
1 GGCTTGGACACACGCCCATGTCTCTAGCCCGTGTGACTCAAATTCCAAAACAGTGAGTTACAC
* * * * * **
31425572 GGCTTGGACACACACCCATATCTCTAGCCCGTGTGAATCTAATTCCAAAATAGTTTGTTACAC
1 GGCTTGGACACACGCCCATGTCTCTAGCCCGTGTGACTCAAATTCCAAAACAGTGAGTTACAC
31425635 GGC
1 GGC
31425638 CTGCCACACG
Statistics
Matches: 101, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
63 100 0.99
64 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (63 bp):
GGCTTGGACACACGCCCATGTCTCTAGCCCGTGTGACTCAAATTCCAAAACAGTGAGTTACAC
Found at i:31426685 original size:29 final size:30
Alignment explanation
Indices: 31426643--31426701 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
31426633 TACGATTTAA
*
31426643 TGTGAAATTGTATACAT-AAACTTTGATTT
1 TGTGAAATTGTATACATGAAAATTTGATTT
* * *
31426672 TGTGCAATTTTATATATGAAAATTTGATTT
1 TGTGAAATTGTATACATGAAAATTTGATTT
31426702 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (30 bp):
TGTGAAATTGTATACATGAAAATTTGATTT
Found at i:31428596 original size:11 final size:11
Alignment explanation
Indices: 31428580--31428622 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
31428570 AGAAATTAAA
31428580 ATTTTAAAAAT
1 ATTTTAAAAAT
31428591 ATTTTAAAAAT
1 ATTTTAAAAAT
31428602 AATTTTTAAATAAT
1 -A-TTTTAAA-AAT
*
31428616 TTTTTAA
1 ATTTTAA
31428623 TATTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 11 0.39
12 7 0.25
13 7 0.25
14 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:31430434 original size:46 final size:46
Alignment explanation
Indices: 31430356--31430724 Score: 585
Period size: 46 Copynumber: 8.0 Consensus size: 46
31430346 ATAATGCTAT
* * * *
31430356 AACTTAGTATGGTTTTCTTTACTGAAACACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
* *
31430402 AACTCAGTAAGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
*
31430448 AACTCAGTATGGTTTTCCTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
* * *
31430494 ATCTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
* * *
31430540 AACTCAGTATGGTTTTGTTCATTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
* * *
31430586 AACTCAGTATGATTTTCTTCATTGAAATACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
*
31430632 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
31430678 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
31430724 A
1 A
31430725 CTTTGCCATG
Statistics
Matches: 297, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 297 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
Found at i:31434836 original size:13 final size:13
Alignment explanation
Indices: 31434818--31434856 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
31434808 CTAAATCATA
31434818 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
*
31434831 ATTTTAGTAAAAC
1 ATTTTAGTAAAAT
*
31434844 ATTTTTGTAAAAT
1 ATTTTAGTAAAAT
31434857 CAAGAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:31439136 original size:17 final size:20
Alignment explanation
Indices: 31439094--31439131 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
31439084 TTTTCATTAC
*
31439094 GATATTTGATTTTTTTTCCA
1 GATATTTGATTTTTTCTCCA
31439114 GATATTTG-TTTTTTCTCC
1 GATATTTGATTTTTTCTCC
31439132 GTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.16, C:0.13, G:0.11, T:0.61
Consensus pattern (20 bp):
GATATTTGATTTTTTCTCCA
Found at i:31451700 original size:43 final size:42
Alignment explanation
Indices: 31451558--31451734 Score: 200
Period size: 41 Copynumber: 4.2 Consensus size: 42
31451548 GCTGGCAGTT
* * * *
31451558 AGCCTGCTAGACTTAAAGCCTGAT-TCAG-TACACCGGCACTT-
1 AGCCTGCTAGACATAAAGTCTGATAT-TGTTTCACCGGCA-TTA
* * *
31451599 AGCATGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTCACCGGCATTA
* *
31451640 AGCCTACTAGACGTAAAGTCTGATATTGTTTCACCGGCATTTA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTCACCGGCA-TTA
* *
31451683 AGCCTGCTAGACATAAAGTCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTCACCGGCATTA
31451725 AGCCTGCTAG
1 AGCCTGCTAG
31451735 GCGCTAAGCC
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
40 3 0.03
41 47 0.41
42 26 0.23
43 39 0.34
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGATATTGTTTCACCGGCATTA
Found at i:31456225 original size:19 final size:19
Alignment explanation
Indices: 31456201--31456273 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
31456191 AATTTTTGAG
31456201 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
31456220 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
31456239 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31456258 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
31456274 ATATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31457461 original size:94 final size:94
Alignment explanation
Indices: 31457350--31457531 Score: 337
Period size: 94 Copynumber: 1.9 Consensus size: 94
31457340 AAAAATCGTA
31457350 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
31457415 AAATCTTGGATAAGCGGATGTTCTTGGAT
66 AAATCTTGGATAAGCAGATGTTCTTGGAT
*
31457444 AAGGAAATATTTCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
31457509 AAATCTTGGATAAGTAGATGTTC
66 AAATCTTGGATAAGCAGATGTTC
31457532 CTTTAAAGTT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (94 bp):
AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGCAGATGTTCTTGGAT
Found at i:31463435 original size:3 final size:3
Alignment explanation
Indices: 31463427--31463458 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
31463417 AATGCTATGT
31463427 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31463459 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:31465211 original size:15 final size:16
Alignment explanation
Indices: 31465191--31465220 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31465181 ATATTTGGTG
31465191 AAATTATT-TTTAAAA
1 AAATTATTATTTAAAA
31465206 AAATTATTATTTAAA
1 AAATTATTATTTAAA
31465221 TATTACCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTATTATTTAAAA
Found at i:31469595 original size:28 final size:29
Alignment explanation
Indices: 31469553--31469623 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
31469543 CAATTTTTTT
31469553 TTAAAAAAAT-AAAAAAGTATTTTAAAAA
1 TTAAAAAAATAAAAAAAGTATTTTAAAAA
31469581 -TAAAAAAATAAAAAAAGTATTTTAAAAA
1 TTAAAAAAATAAAAAAAGTATTTTAAAAA
**
31469609 TTTTAAAAATAAAAA
1 TTAAAAAAATAAAAA
31469624 TAAATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 9 0.23
28 18 0.46
29 12 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (29 bp):
TTAAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:31470195 original size:19 final size:18
Alignment explanation
Indices: 31470167--31470202 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31470157 TTGCTTTTAT
*
31470167 TCAAAAAAAACCTTTGAA
1 TCAAAAAAAAACTTTGAA
31470185 TCAAGAAAAAAACTTTGA
1 TCAA-AAAAAAACTTTGA
31470203 TGTATGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.22
Consensus pattern (18 bp):
TCAAAAAAAAACTTTGAA
Found at i:31472509 original size:17 final size:17
Alignment explanation
Indices: 31472466--31472832 Score: 236
Period size: 17 Copynumber: 20.7 Consensus size: 17
31472456 AAAAAAAAAA
*
31472466 TTTGAAACACGAGAATTT
1 TTTGAAACACGA-AAATT
* *
31472484 TTTAAAACACGAAGATT
1 TTTGAAACACGAAAATT
*
31472501 TTTGGAACACGCAAAA-T
1 TTTGAAACACG-AAAATT
*
31472518 TTTGAAAACATGAAAATT
1 TTTG-AAACACGAAAATT
*
31472536 TTTGAAATACGAAAATT
1 TTTGAAACACGAAAATT
*
31472553 TTAGAAACACGAAAATT
1 TTTGAAACACGAAAATT
* *
31472570 TTTAAAACACGACAA-T
1 TTTGAAACACGAAAATT
**
31472586 TTTGAAACACGGTCAATT
1 TTTGAAACAC-GAAAATT
* *
31472604 TTTGAAAATACGACAATT
1 TTTG-AAACACGAAAATT
* * *
31472622 TTTGAAATATGAGAATTTTTTT
1 TTTGAAACACGA-AA----ATT
* *
31472644 TTTAAAACACGGAAATTTT
1 TTTGAAACAC-GAAA-ATT
*
31472663 TTTGAAAACAAGAAAATT
1 TTTG-AAACACGAAAATT
** * **
31472681 TTCAAAATACGGGAATT
1 TTTGAAACACGAAAATT
*
31472698 TTTGAAAACACGGGAAATTTT
1 TTTG-AAACAC--GAAA-ATT
*
31472719 TTTAAAAACACGAAAATT
1 TTT-GAAACACGAAAATT
* *
31472737 TTTGAAACACTAGAATT
1 TTTGAAACACGAAAATT
* *
31472754 TTTAAAACACGAAGATT
1 TTTGAAACACGAAAATT
31472771 TTTGAAACACGAAAATT
1 TTTGAAACACGAAAATT
* **
31472788 TTAGAAACGTGAAAATT
1 TTTGAAACACGAAAATT
* *
31472805 TTTAAAACACGACAA-T
1 TTTGAAACACGAAAATT
31472821 TTTGAAACACGA
1 TTTGAAACACGA
31472833 TTTTTTTAAA
Statistics
Matches: 271, Mismatches: 60, Indels: 38
0.73 0.16 0.10
Matches are distributed among these distances:
16 22 0.08
17 144 0.53
18 54 0.20
19 20 0.07
20 7 0.03
21 11 0.04
22 11 0.04
23 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTGAAACACGAAAATT
Found at i:31472662 original size:19 final size:19
Alignment explanation
Indices: 31472640--31472739 Score: 89
Period size: 20 Copynumber: 5.3 Consensus size: 19
31472630 ATGAGAATTT
31472640 TTTTTTTAAAACACGGAAA
1 TTTTTTTAAAACACGGAAA
*
31472659 TTTTTTTGAAAACA-AGAAA
1 TTTTTTT-AAAACACGGAAA
* * * *
31472678 -ATTTTCAAAATACGGGAA
1 TTTTTTTAAAACACGGAAA
*
31472696 -TTTTTGAAAACACGGGAAA
1 TTTTTTTAAAACAC-GGAAA
*
31472715 TTTTTTTAAAAACACGAAAA
1 TTTTTTT-AAAACACGGAAA
31472735 TTTTT
1 TTTTT
31472740 GAAACACTAG
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.08
18 17 0.27
19 15 0.23
20 20 0.31
21 7 0.11
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (19 bp):
TTTTTTTAAAACACGGAAA
Found at i:31472727 original size:56 final size:55
Alignment explanation
Indices: 31472642--31472764 Score: 167
Period size: 56 Copynumber: 2.2 Consensus size: 55
31472632 GAGAATTTTT
* * *
31472642 TTTTTAAAACAC-GGAAATTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAA
1 TTTTTAAAACACGGGAAATTTTTTTAAAAACAAGAAAATTTTCAAAACACGAGAA
* ** *
31472696 TTTTTGAAAACACGGGAAATTTTTTTAAAAACACGAAAATTTTTGAAACACTAGAA
1 TTTTT-AAAACACGGGAAATTTTTTTAAAAACAAGAAAATTTTCAAAACACGAGAA
31472752 TTTTTAAAACACG
1 TTTTTAAAACACG
31472765 AAGATTTTTG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 5 0.08
55 15 0.25
56 40 0.67
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (55 bp):
TTTTTAAAACACGGGAAATTTTTTTAAAAACAAGAAAATTTTCAAAACACGAGAA
Found at i:31473134 original size:5 final size:5
Alignment explanation
Indices: 31473124--31473148 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31473114 TAAAATTATT
31473124 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
31473149 ATTGAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:31473338 original size:7 final size:7
Alignment explanation
Indices: 31473326--31473350 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31473316 TTCTTCTTCT
31473326 TTTTTTC
1 TTTTTTC
31473333 TTTTTTC
1 TTTTTTC
31473340 TTTTTTC
1 TTTTTTC
31473347 TTTT
1 TTTT
31473351 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:31473355 original size:18 final size:18
Alignment explanation
Indices: 31473319--31473360 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
31473309 GAACCCCTTC
*
31473319 TTCTTCTTTTTTTCTTTT
1 TTCTTTTTTTTTTCTTTT
31473337 TTCTTTTTTCTTTTC-TTT
1 TTCTTTTTT-TTTTCTTTT
31473355 TTCTTT
1 TTCTTT
31473361 CCCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTTTTTTTCTTTT
Done.