Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 38 of 345
Found at i:10825108 original size:18 final size:18
Alignment explanation
Indices: 10825070--10825105 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10825060 TTATTATTTT
*
10825070 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
10825088 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
10825106 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:10825136 original size:22 final size:22
Alignment explanation
Indices: 10825096--10825151 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
10825086 AATAAAATTT
*
10825096 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
10825116 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
10825138 TATTAATAATTTAT
1 AAATAATAAATTAT
10825152 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:10827168 original size:28 final size:26
Alignment explanation
Indices: 10827097--10827179 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
10827087 TATATACATA
10827097 ATATATACATATATAT-TGAAAAAAT
1 ATATATACATATATATATGAAAAAAT
* * **
10827122 GTATGTACATAGCGTATATGAAAAAAT
1 ATATATACATA-TATATATGAAAAAAT
*
10827149 ATATATACATGATATAATATGTAAAAAT
1 ATATATACAT-ATAT-ATATGAAAAAAT
10827177 ATA
1 ATA
10827180 ACATAGTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
25 9 0.20
26 3 0.07
27 18 0.40
28 15 0.33
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.34
Consensus pattern (26 bp):
ATATATACATATATATATGAAAAAAT
Found at i:10827507 original size:17 final size:17
Alignment explanation
Indices: 10827485--10827517 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10827475 ATACATGATA
10827485 ATATATAAACATATACG
1 ATATATAAACATATACG
*
10827502 ATATATAAATATATAC
1 ATATATAAACATATAC
10827518 TAGAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATATAAACATATACG
Found at i:10827882 original size:3 final size:3
Alignment explanation
Indices: 10827874--10827942 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
10827864 ATTAAGTAAA
* * * * *
10827874 AAT AAT AAT AAT GA- AAT ACT GAT AAAT AAA AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
*
10827919 AAC AAT AAT AAT AGAT AAAT AAT A
1 AAT AAT AAT AAT A-AT -AAT AAT A
10827943 TTAAAATTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 6 0.12
5 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:10827922 original size:15 final size:15
Alignment explanation
Indices: 10827898--10827936 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
10827888 AATACTGATA
*
10827898 AATAAAAACAATAAT
1 AATAATAACAATAAT
10827913 AATAATAACAATAAT
1 AATAATAACAATAAT
10827928 AATAGATAA
1 AATA-ATAA
10827937 ATAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:10828481 original size:17 final size:18
Alignment explanation
Indices: 10828445--10828484 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10828435 CGGGGCCAGT
*
10828445 CACCGGCCGATCGTCGGC
1 CACCGGCCGATCGCCGGC
*
10828463 CACCGTCCG-TCGCCGGC
1 CACCGGCCGATCGCCGGC
10828480 CACCG
1 CACCG
10828485 CGGAAGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.10, C:0.50, G:0.30, T:0.10
Consensus pattern (18 bp):
CACCGGCCGATCGCCGGC
Found at i:10829460 original size:3 final size:3
Alignment explanation
Indices: 10829446--10829499 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
10829436 AAATAGATAT
* *
10829446 TTA TTA TAA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
10829488 TTA TTA TTA TTA
1 TTA TTA TTA TTA
10829500 AAATGAAGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 7 0.17
3 34 0.81
4 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10829636 original size:16 final size:16
Alignment explanation
Indices: 10829615--10829654 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10829605 ATGAATTAAA
*
10829615 TATTATTATATTATAT
1 TATTATTATAATATAT
*
10829631 TATTATTATAATGTAT
1 TATTATTATAATATAT
10829647 TATTATTA
1 TATTATTA
10829655 AAACTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TATTATTATAATATAT
Found at i:10831229 original size:25 final size:25
Alignment explanation
Indices: 10831196--10831246 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10831186 ATATTATTAA
10831196 GTTATTATATATATATATAGTAAAT
1 GTTATTATATATATATATAGTAAAT
10831221 GTTATTATATATATATATAGTAAAT
1 GTTATTATATATATATATAGTAAAT
10831246 G
1 G
10831247 AAATAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (25 bp):
GTTATTATATATATATATAGTAAAT
Found at i:10831317 original size:19 final size:18
Alignment explanation
Indices: 10831295--10831336 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10831285 GAATAGCAAT
*
10831295 AGGGAAAAGAAGGAAGAAA
1 AGGGAAAAGAA-AAAGAAA
*
10831314 AGGGGAAAGAAAAAGAAA
1 AGGGAAAAGAAAAAGAAA
10831332 AGGGA
1 AGGGA
10831337 GAATTAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAAAGAAA
Found at i:10832609 original size:18 final size:17
Alignment explanation
Indices: 10832576--10832707 Score: 86
Period size: 18 Copynumber: 7.4 Consensus size: 17
10832566 ATTTGACCGC
*
10832576 TACTAAATAATCGACTGT
1 TACTGAATAAT-GACTGT
10832594 TACTGAATCAATGACTGT
1 TACTGAAT-AATGACTGT
***
10832612 TACTGAATAACTGACCAC
1 TACTGAATAA-TGACTGT
*
10832630 TACTGAATAATTGACTGA
1 TACTGAATAA-TGACTGT
* * *
10832648 TATTGAATAAACGACCGT
1 TACTGAAT-AATGACTGT
* * *
10832666 TACTGAATAACTAATTAT
1 TACTGAATAA-TGACTGT
*
10832684 TACTG-ATGACTGACTGT
1 TACTGAAT-AATGACTGT
10832701 TACTGAA
1 TACTGAA
10832708 CAATAAAGAT
Statistics
Matches: 86, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
17 15 0.17
18 66 0.77
19 5 0.06
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (17 bp):
TACTGAATAATGACTGT
Found at i:10832627 original size:54 final size:54
Alignment explanation
Indices: 10832569--10832677 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
10832559 TACTGAAATT
* * * * *
10832569 TGACCGCTACTAAATAATCGACTGTTACTGAATCAATGACTGTTACTGAATAAC
1 TGACCACTACTAAATAATCGACTGATACTGAATAAACGACCGTTACTGAATAAC
* * *
10832623 TGACCACTACTGAATAATTGACTGATATTGAATAAACGACCGTTACTGAATAAC
1 TGACCACTACTAAATAATCGACTGATACTGAATAAACGACCGTTACTGAATAAC
10832677 T
1 T
10832678 AATTATTACT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (54 bp):
TGACCACTACTAAATAATCGACTGATACTGAATAAACGACCGTTACTGAATAAC
Found at i:10832670 original size:36 final size:35
Alignment explanation
Indices: 10832576--10832675 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 35
10832566 ATTTGACCGC
* * * *
10832576 TACTAAATAATCGACTGTTACTGAATCAATGACTGT
1 TACTGAATAAACGACCGTTACTGAAT-AATGACTGA
**
10832612 TACTGAAT-AACTGACCACTACTGAATAATTGACTGA
1 TACTGAATAAAC-GACCGTTACTGAATAA-TGACTGA
*
10832648 TATTGAATAAACGACCGTTACTGAATAA
1 TACTGAATAAACGACCGTTACTGAATAA
10832676 CTAATTATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
35 4 0.08
36 45 0.87
37 3 0.06
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (35 bp):
TACTGAATAAACGACCGTTACTGAATAATGACTGA
Found at i:10833745 original size:19 final size:20
Alignment explanation
Indices: 10833703--10833748 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
10833693 CCACATGGGT
*
10833703 GTGTTATGGAACACACGGGC
1 GTGTTATGGAACACACGAGC
10833723 GTGTTATGGAACACAC-AGC
1 GTGTTATGGAACACACGAGC
10833742 GTGTTAT
1 GTGTTAT
10833749 CTAGACCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
GTGTTATGGAACACACGAGC
Found at i:10838148 original size:11 final size:12
Alignment explanation
Indices: 10838118--10838151 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10838108 GTATGTTTAC
10838118 TTATTATATAAG
1 TTATTATATAAG
10838130 TATATTAT-TAAG
1 T-TATTATATAAG
10838142 TTATTATATA
1 TTATTATATA
10838152 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:10838926 original size:17 final size:19
Alignment explanation
Indices: 10838887--10838926 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
10838877 GTATTTAAAG
10838887 TTAAATATTTGAATAGGAA
1 TTAAATATTTGAATAGGAA
*
10838906 -TAAATA-TTG-ATTGGAA
1 TTAAATATTTGAATAGGAA
10838922 TTAAA
1 TTAAA
10838927 GAGTGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAAATATTTGAATAGGAA
Found at i:10839566 original size:18 final size:18
Alignment explanation
Indices: 10839536--10839656 Score: 120
Period size: 18 Copynumber: 6.8 Consensus size: 18
10839526 TAAATAAAGG
*
10839536 TACTGAA-AATTGACCGC
1 TACTGAATAATTGACTGC
*
10839553 TACTGAATAATTGACTGT
1 TACTGAATAATTGACTGC
*
10839571 TACTGAATCAA-TGACTGT
1 TACTGAAT-AATTGACTGC
* *
10839589 TACTGAATAACTGACTAC
1 TACTGAATAATTGACTGC
*
10839607 TACTGAATAATTGACTGA
1 TACTGAATAATTGACTGC
* ** *
10839625 TATTGAATAAACGACTGT
1 TACTGAATAATTGACTGC
*
10839643 TACTAAATAATTGA
1 TACTGAATAATTGA
10839657 TTATTACTGA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
17 9 0.10
18 75 0.87
19 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:10839595 original size:36 final size:36
Alignment explanation
Indices: 10839536--10839684 Score: 153
Period size: 36 Copynumber: 4.2 Consensus size: 36
10839526 TAAATAAAGG
* * *
10839536 TACTGAA-AATTGACCGCTACTGAATAATTGACTGT
1 TACTGAATAATTGACTGTTACTGAATAACTGACTGT
**
10839571 TACTGAATCAA-TGACTGTTACTGAATAACTGACTAC
1 TACTGAAT-AATTGACTGTTACTGAATAACTGACTGT
* *
10839607 TACTGAATAATTGACTGATATTGAATAAAC-GACTGT
1 TACTGAATAATTGACTGTTACTGAAT-AACTGACTGT
* * * *
10839643 TACTAAATAATTGATTATTACTG-ATGACTGACTGT
1 TACTGAATAATTGACTGTTACTGAATAACTGACTGT
10839678 TACTGAA
1 TACTGAA
10839685 CAATAAAGAT
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
34 2 0.02
35 23 0.25
36 63 0.68
37 5 0.05
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (36 bp):
TACTGAATAATTGACTGTTACTGAATAACTGACTGT
Found at i:10839610 original size:54 final size:54
Alignment explanation
Indices: 10839552--10839688 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
10839542 AAATTGACCG
*
10839552 CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTGAATAACTGACTA
1 CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTAAATAACTGACTA
* * * * * *
10839606 CTACTGAATAATTGACTGATATTGAATAAACGACTGTTACTAAATAATTGATTA
1 CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTAAATAACTGACTA
* * *
10839660 TTACTG-ATGACTGACTGTTACTGAA-CAAT
1 CTACTGAATAATTGACTGTTACTGAATCAAT
10839689 AAAGATCAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
52 2 0.03
53 15 0.22
54 52 0.75
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (54 bp):
CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTAAATAACTGACTA
Found at i:10841015 original size:21 final size:21
Alignment explanation
Indices: 10840991--10841032 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10840981 TATGTGTCAT
*
10840991 ATATTAGACACCTCGTGTGTC
1 ATATCAGACACCTCGTGTGTC
*
10841012 ATATCAGGCACCTCGTGTGTC
1 ATATCAGACACCTCGTGTGTC
10841033 GCTTCAGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (21 bp):
ATATCAGACACCTCGTGTGTC
Found at i:10846992 original size:13 final size:13
Alignment explanation
Indices: 10846976--10847001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10846966 TTCGTTAAAA
10846976 AAAATTAAAATAC
1 AAAATTAAAATAC
10846989 AAAATTAAAATAC
1 AAAATTAAAATAC
10847002 TCTTAGATAA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATTAAAATAC
Found at i:10852045 original size:41 final size:41
Alignment explanation
Indices: 10851988--10852362 Score: 401
Period size: 41 Copynumber: 9.2 Consensus size: 41
10851978 CGTTTGTCTG
* * * **
10851988 AAACGCCACTAAAAACTAAACTATAGCGGCGTTTTTAGCAA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * * *
10852029 AAACGCTACTAAAAACTGGTCAATAGCGGCGTTTTTGGCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * *
10852070 AAACGCCACTAAAAACTGGTCAATAGCGGTGTTTTTCG-CC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * * *
10852110 AAACGCCACTAAAAGCTTATCAATAGCGGCGTTTTAATCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* *
10852151 AAACGCCACTAAAAACTGATCAATTGCGGCGTTTTTATCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * ** *
10852192 AAACGCCACTAAAAACTGATCAATTGTGGCGTTTTTCTCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * * * *
10852233 AAACGCCATTAAAAACTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * * * * *
10852274 AAACGCCACTAAACATTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
* * * *
10852315 AAATGCCACTAAACACTGATCAATAGCGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
10852356 AAACGCC
1 AAACGCC
10852363 GTAAAAAGTT
Statistics
Matches: 294, Mismatches: 39, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
40 32 0.11
41 262 0.89
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAGCCC
Found at i:10852294 original size:123 final size:122
Alignment explanation
Indices: 10851972--10852362 Score: 471
Period size: 123 Copynumber: 3.2 Consensus size: 122
10851962 TAATAAACAT
* * * * *
10851972 TAGCGGCGTTTGTCTG--AAACGCCACTAAAAACTAAACTATAGCGGCGTTTTTAGCAAAAACGC
1 TAGCGGCGTTTTTC-GCCAAACGCCACTAAAAACTAATCAATAGCGGCGTTTTTATCCAAAACGC
* * * ** *
10852035 TACTAAAAACTGGTCAATAGCGGCGTTTTTGGCCAAAACGCCACTAAAAACTGGTCAA
65 CACTAAAAACTGATCAATTGCGGCGTTTTTATCCAAAACGCCACTAAAAACTGATCAA
* * * * *
10852093 TAGCGGTGTTTTTCGCCAAACGCCACTAAAAGCTTATCAATAGCGGCGTTTTAATCCCAAACGCC
1 TAGCGGCGTTTTTCGCCAAACGCCACTAAAAACTAATCAATAGCGGCGTTTTTATCCAAAACGCC
*
10852158 ACTAAAAACTGATCAATTGCGGCGTTTTTATCCCAAACGCCACTAAAAACTGATCAA
66 ACTAAAAACTGATCAATTGCGGCGTTTTTATCCAAAACGCCACTAAAAACTGATCAA
* * * * * * *
10852215 TTGTGGCGTTTTTCTCCAAAACGCCATTAAAAACTGATCAATTGTGGCGTTTTTATCCAAAACGC
1 TAGCGGCGTTTTTCGCC-AAACGCCACTAAAAACTAATCAATAGCGGCGTTTTTATCCAAAACGC
* * * * *
10852280 CACTAAACATTGATCAATTGTGGCGTTTTTATCCAAAATGCCACTAAACACTGATCAA
65 CACTAAAAACTGATCAATTGCGGCGTTTTTATCCAAAACGCCACTAAAAACTGATCAA
*
10852338 TAGCGGCGTTTTTGGTCCAAACGCC
1 TAGCGGCGTTTTTCG-CCAAACGCC
10852363 GTAAAAAGTT
Statistics
Matches: 228, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
120 1 0.00
121 12 0.05
122 103 0.45
123 110 0.48
124 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (122 bp):
TAGCGGCGTTTTTCGCCAAACGCCACTAAAAACTAATCAATAGCGGCGTTTTTATCCAAAACGCC
ACTAAAAACTGATCAATTGCGGCGTTTTTATCCAAAACGCCACTAAAAACTGATCAA
Found at i:10852935 original size:38 final size:42
Alignment explanation
Indices: 10852888--10852973 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 42
10852878 TTTAAAGCCT
*
10852888 ATGGTTTA-G-GGTTCAATGGTAGAATATAT-T-TTAAGTTC
1 ATGGTTTAGGCGGTTCAATGGTAGAATATATGTATTAAGTTA
* *
10852926 ATGGTTTAGGCCGGTTCAATGGTATAGTATATGTATTAAGTTA
1 ATGGTTTAGG-CGGTTCAATGGTAGAATATATGTATTAAGTTA
10852969 ATGGT
1 ATGGT
10852974 ATGGGCCGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
38 8 0.20
39 1 0.03
41 18 0.45
42 1 0.03
43 12 0.30
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.41
Consensus pattern (42 bp):
ATGGTTTAGGCGGTTCAATGGTAGAATATATGTATTAAGTTA
Found at i:10852947 original size:41 final size:43
Alignment explanation
Indices: 10852897--10852982 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
10852887 TATGGTTTAG
* *
10852897 GGTTCAATGGTAGAATATAT-T-TTAAGTTCATGGTTTAGGCC
1 GGTTCAATGGTAGAATATATGTATTAAGTTAATGGTATAGGCC
* * *
10852938 GGTTCAATGGTATAGTATATGTATTAAGTTAATGGTATGGGCC
1 GGTTCAATGGTAGAATATATGTATTAAGTTAATGGTATAGGCC
10852981 GG
1 GG
10852983 GTTTGTTATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 18 0.47
42 1 0.03
43 19 0.50
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.37
Consensus pattern (43 bp):
GGTTCAATGGTAGAATATATGTATTAAGTTAATGGTATAGGCC
Found at i:10853261 original size:13 final size:13
Alignment explanation
Indices: 10853243--10853281 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
10853233 AGATAATTTA
10853243 AAATACTTTAATT
1 AAATACTTTAATT
10853256 AAATACTTTAATT
1 AAATACTTTAATT
*
10853269 AAGTACTTTAATT
1 AAATACTTTAATT
10853282 TTAAGATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATACTTTAATT
Found at i:10854190 original size:41 final size:40
Alignment explanation
Indices: 10854145--10854228 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
10854135 GCGTTTTTAC
* * *
10854145 AAAAATGCCACTAAAAA-TAGAGAATTAGTGGCGCTTTCGTA
1 AAAAACGCC-CTAAAAACT-GAGAATTAGCGACGCTTTCGTA
* *
10854186 AAAAACGCCGTAAAAACTGAGAATTAGCGACGCTTTTGTA
1 AAAAACGCCCTAAAAACTGAGAATTAGCGACGCTTTCGTA
10854226 AAA
1 AAA
10854229 CACCACTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 28 0.76
41 9 0.24
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (40 bp):
AAAAACGCCCTAAAAACTGAGAATTAGCGACGCTTTCGTA
Found at i:10858583 original size:241 final size:243
Alignment explanation
Indices: 10858158--10858594 Score: 772
Period size: 241 Copynumber: 1.8 Consensus size: 243
10858148 ATGAATTAAT
10858158 TTTATTACCATGTAACTTGCTTGTCCATTAAAATTACAACAATATAGCTGACCTTCTCTCCAACC
1 TTTATTACCATGTAACTTGCTTGTCCATTAAAATTACAACAATATAGCTGACCTTCTCTCCAACC
* * *
10858223 TTTTTTTAAATATTTTAATGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATATCG
*
10858288 ATCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAAT
131 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAAT
10858353 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
10858401 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAAC-A-ATAGCTGACTTTCTCTCCAACC
1 TTTATTACCATGTAACTTGCTTGTCCATTAAAATTACAACAATATAGCTGACCTTCTCTCCAACC
*
10858464 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACTTGACAGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATATCG
*
10858529 AGCTGTAAGATATAATGGATCCTCCCTCA-GTGTAACAACGCCACGTATGATGAATCTTAAAAAA
131 AGCTGTAAGATATAATGGATCCTCCCT-AGGTGTAACAACGCCACATATGATGAATCTTAAAAAA
10858593 TT
195 TT
10858595 ACTATATTCA
Statistics
Matches: 185, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
241 144 0.78
242 2 0.01
243 39 0.21
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (243 bp):
TTTATTACCATGTAACTTGCTTGTCCATTAAAATTACAACAATATAGCTGACCTTCTCTCCAACC
TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATATCG
AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCTTAAAAAAT
TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:10858733 original size:9 final size:9
Alignment explanation
Indices: 10858710--10858837 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
10858700 ATTGATCATT
*
10858710 ACTTAAATA
1 ACTTACATA
*
10858719 AATTACATA
1 ACTTACATA
10858728 ACTTACATA
1 ACTTACATA
* *
10858737 ACTCATATA
1 ACTTACATA
10858746 ACTTACATA
1 ACTTACATA
*
10858755 ATTTACATAACA
1 ACTTACAT---A
10858767 ACTTACATA
1 ACTTACATA
*
10858776 ACTCACATA
1 ACTTACATA
10858785 ACTTACATA
1 ACTTACATA
*
10858794 ATTTACATA
1 ACTTACATA
*
10858803 ACTCACATA
1 ACTTACATA
*
10858812 ACGTACATAACA
1 ACTTACAT---A
10858824 ACTTACATA
1 ACTTACATA
10858833 ACTTA
1 ACTTA
10858838 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:10858779 original size:39 final size:39
Alignment explanation
Indices: 10858727--10858804 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
10858717 TAAATTACAT
*
10858727 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
10858766 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
10858805 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:10858804 original size:57 final size:57
Alignment explanation
Indices: 10858723--10858835 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
10858713 TAAATAAATT
* * **
10858723 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
10858780 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
10858836 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:10864773 original size:31 final size:31
Alignment explanation
Indices: 10864727--10864793 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
10864717 TGGTTGTATT
* *
10864727 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
10864758 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
10864789 TTTTA
1 TTTTA
10864794 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:10864893 original size:43 final size:42
Alignment explanation
Indices: 10864871--10864987 Score: 189
Period size: 43 Copynumber: 2.7 Consensus size: 42
10864861 GAAAAAGCGT
10864871 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCCACAAACGC
*
10864914 CGCTAAAAGCCTTGACCTTTAGCGGTGTTTCTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGTTT-TCCCACAAACGC
* *
10864957 CGCTAAAAGCCTTGACTTTTAACGGCGTTTT
1 CGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
10864988 TTTTCAATAA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (42 bp):
CGCTAAAAGCCTTGACCTTTAGCGGCGTTTTCCCACAAACGC
Found at i:10866430 original size:3 final size:3
Alignment explanation
Indices: 10866424--10866485 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
10866414 CCTGGGTAGT
*
10866424 AGA AGA AGA AG- AGA AAA AGA AGA AGA AG- AGA A-A A-A ATGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
*
10866466 AGA AGA GGA A-A AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA
10866486 GAAAATGGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 10 0.20
3 38 0.76
4 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:10866446 original size:17 final size:17
Alignment explanation
Indices: 10866424--10866485 Score: 97
Period size: 17 Copynumber: 3.5 Consensus size: 17
10866414 CCTGGGTAGT
10866424 AGAAGAAGAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
10866441 AGAAGAAGAAGAGAAAAA
1 AGAAGAAGAAGAG-AAAA
*
10866459 ATGAAGAAGAAGAGGAAA
1 A-GAAGAAGAAGAGAAAA
10866477 AGAAGAAGA
1 AGAAGAAGA
10866486 GAAAATGGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 21 0.50
18 9 0.21
19 12 0.29
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (17 bp):
AGAAGAAGAAGAGAAAA
Found at i:10867588 original size:23 final size:23
Alignment explanation
Indices: 10867545--10867602 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
10867535 ACGTGGCAAG
10867545 TTAACTGGCCAC--ATCAACTAA
1 TTAACTGGCCACGTATCAACTAA
*
10867566 TTAACTGGCCACGTATCAGCTAA
1 TTAACTGGCCACGTATCAACTAA
10867589 TTAACTGGCCACGT
1 TTAACTGGCCACGT
10867603 CAGTTATCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 12 0.35
23 22 0.65
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (23 bp):
TTAACTGGCCACGTATCAACTAA
Found at i:10886533 original size:27 final size:27
Alignment explanation
Indices: 10886471--10886534 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
10886461 ATTGAAATCA
* * * *
10886471 AGTTCGCTAGTTTGTTTGGTAAGCTGG
1 AGTTCGCCAGTCTGTTTGGTAACCAGG
*
10886498 AGTTTGCCAGTCTGTTTGGTGAACCAGG
1 AGTTCGCCAGTCTGTTTGGT-AACCAGG
10886526 -GTTCGCCAG
1 AGTTCGCCAG
10886535 GTAAGTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.16, C:0.17, G:0.33, T:0.34
Consensus pattern (27 bp):
AGTTCGCCAGTCTGTTTGGTAACCAGG
Found at i:10890527 original size:16 final size:16
Alignment explanation
Indices: 10890506--10890537 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10890496 GTGACCATGA
10890506 GATAAAATATAATTGT
1 GATAAAATATAATTGT
*
10890522 GATAAAATATGATTGT
1 GATAAAATATAATTGT
10890538 ATTGAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (16 bp):
GATAAAATATAATTGT
Found at i:10891092 original size:13 final size:13
Alignment explanation
Indices: 10891074--10891098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10891064 CATAATGGGT
10891074 AATTAAACTTGAA
1 AATTAAACTTGAA
10891087 AATTAAACTTGA
1 AATTAAACTTGA
10891099 GAATGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTAAACTTGAA
Found at i:10892504 original size:19 final size:19
Alignment explanation
Indices: 10892472--10892525 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
10892462 TTATGCGCTT
10892472 ATGCACCAAGATGCACTTC
1 ATGCACCAAGATGCACTTC
* *
10892491 ATGTACCAATATGCACTTC
1 ATGCACCAAGATGCACTTC
*
10892510 GTGCACCAAGATGCAC
1 ATGCACCAAGATGCAC
10892526 ATTGTGTGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (19 bp):
ATGCACCAAGATGCACTTC
Found at i:10892537 original size:19 final size:20
Alignment explanation
Indices: 10892515--10892586 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 20
10892505 ACTTCGTGCA
10892515 CCAAG-ATGCACATTGTGTG
1 CCAAGAATGCACATTGTGTG
*
10892534 CCAAGAATGTAC-TTCGTGTG
1 CCAAGAATGCACATT-GTGTG
* * *
10892554 -CTAGTATGCACTTTGTGTG
1 CCAAGAATGCACATTGTGTG
*
10892573 CCAA-TATGCACATT
1 CCAAGAATGCACATT
10892587 ACGTGACAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 29 0.67
20 14 0.33
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (20 bp):
CCAAGAATGCACATTGTGTG
Found at i:10904546 original size:24 final size:24
Alignment explanation
Indices: 10904511--10904559 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
10904501 CATTAAATTA
*
10904511 TTAGTAAGTTTATATTTTGGTCAT
1 TTAGTAAATTTATATTTTGGTCAT
10904535 TTAGTAAATTTATATTTTGGTCAT
1 TTAGTAAATTTATATTTTGGTCAT
10904559 T
1 T
10904560 CCACTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (24 bp):
TTAGTAAATTTATATTTTGGTCAT
Found at i:10913199 original size:20 final size:20
Alignment explanation
Indices: 10913174--10913221 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10913164 AGAGGTTTTG
* *
10913174 AAAATTTTAGTTATACC-CTT
1 AAAATTTTAATTA-ACCTCCT
10913194 AAAATTTTAATTAACCTCCT
1 AAAATTTTAATTAACCTCCT
10913214 AAAATTTT
1 AAAATTTT
10913222 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATTTTAATTAACCTCCT
Found at i:10913237 original size:30 final size:31
Alignment explanation
Indices: 10913194--10913261 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
10913184 TTATACCCTT
*
10913194 AAAATTTTAATT-AACCTCCT-AAAATTTTTA
1 AAAATTTTAATTAAACCT-CTGAAAAATTTTA
*
10913224 AAAATTATT-ATTAAACCTTTGAAAAATTTTA
1 AAAATT-TTAATTAAACCTCTGAAAAATTTTA
10913255 AAAATTT
1 AAAATTT
10913262 CTATTAGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAATTTTAATTAAACCTCTGAAAAATTTTA
Found at i:10913471 original size:30 final size:31
Alignment explanation
Indices: 10913429--10913497 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
10913419 TATGTGTATT
* **
10913429 AAAATGATATATATAATCTTAA-AATTTATA
1 AAAATAATATATATAATCAAAATAATTTATA
* *
10913459 GAAATAATATATATATTCAAAATAATTTATA
1 AAAATAATATATATAATCAAAATAATTTATA
10913490 AAAATAAT
1 AAAATAAT
10913498 TAAACATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATAATATATATAATCAAAATAATTTATA
Found at i:10937006 original size:43 final size:43
Alignment explanation
Indices: 10936959--10937109 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
10936949 CCGAGATGTG
* *
10936959 ATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGAA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGAA
* * * *
10937002 ATTACGTGTAAGACTATTTCTGGGACATTGGCATCATATT-ATA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA-A
* * * * *
10937045 ATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG-ATATGTA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGAA
* * *
10937088 TTTACATGTAATACCATATCTG
1 ATTACATGTAAGACCATGTCTG
10937110 AGATATGGCA
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
42 3 0.03
43 83 0.97
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGAA
Found at i:10939309 original size:93 final size:93
Alignment explanation
Indices: 10939196--10939367 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
10939186 CGCCCATAAG
* * *
10939196 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10939261 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
10939289 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAGTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10939354 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10939368 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10939364 original size:46 final size:46
Alignment explanation
Indices: 10939189--10939364 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
10939179 TGTAACCCGC
* * * *
10939189 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10939235 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10939285 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10939328 CCATAAGTGAACTCGGACTCAAGTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10939365 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10939383 original size:46 final size:44
Alignment explanation
Indices: 10939240--10939383 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
10939230 CGTATCCATA
10939240 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
10939287 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
10939333 AGTGAACTCGGACTCAAGTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
10939379 AGTGA
1 AGTGA
10939384 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 32 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:10943906 original size:9 final size:9
Alignment explanation
Indices: 10943892--10943941 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
10943882 GTAAGTATAA
10943892 AATTAACCG
1 AATTAACCG
* *
10943901 AATTAATCA
1 AATTAACCG
10943910 AATTAACCG
1 AATTAACCG
*
10943919 AATTACCCG
1 AATTAACCG
*
10943928 AATTAACTG
1 AATTAACCG
10943937 AATTA
1 AATTA
10943942 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:10943973 original size:6 final size:6
Alignment explanation
Indices: 10943962--10944008 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
10943952 ATTATATGTT
* *
10943962 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
10944009 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:10944275 original size:30 final size:29
Alignment explanation
Indices: 10944239--10944321 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
10944229 TCGACCCCTG
10944239 ACCGAATTAATTCGGTTAACCGACCAGTTA
1 ACCGAATT-ATTCGGTTAACCGACCAGTTA
* *
10944269 ACCGAATTCTGTCGGTTAACCGACCGGTTA
1 ACCGAATTAT-TCGGTTAACCGACCAGTTA
**
10944299 ACCGAATTCGGTCGGTTAACCGA
1 ACCGAATT-ATTCGGTTAACCGA
10944322 TTTTTTTTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (29 bp):
ACCGAATTATTCGGTTAACCGACCAGTTA
Found at i:10944288 original size:18 final size:17
Alignment explanation
Indices: 10944265--10944321 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
10944255 TAACCGACCA
10944265 GTTAACCGAATTCTGTCG
1 GTTAACCGAATTC-GTCG
10944283 GTTAACCG-A--C--CG
1 GTTAACCGAATTCGTCG
10944295 GTTAACCGAATTCGGTCG
1 GTTAACCGAATTC-GTCG
10944313 GTTAACCGA
1 GTTAACCGA
10944322 TTTTTTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 10 0.30
13 1 0.03
15 2 0.06
17 1 0.03
18 19 0.58
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (17 bp):
GTTAACCGAATTCGTCG
Found at i:10950212 original size:14 final size:13
Alignment explanation
Indices: 10950191--10950223 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10950181 CCTCTTCCCA
*
10950191 TCCCTCTCTCT-T
1 TCCCTTTCTCTCT
10950203 TCCCTTTCTCTCT
1 TCCCTTTCTCTCT
10950216 TCCCTTTC
1 TCCCTTTC
10950224 CTTTTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (13 bp):
TCCCTTTCTCTCT
Found at i:10950224 original size:19 final size:18
Alignment explanation
Indices: 10950200--10950248 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
10950190 ATCCCTCTCT
10950200 CTTTCCCTTTCTCTCTTCC
1 CTTTCCCTTTCTCTCTT-C
* * *
10950219 CTTTCCTTTTTTCTCTTT
1 CTTTCCCTTTCTCTCTTC
10950237 CTTTCCCTTTCT
1 CTTTCCCTTTCT
10950249 TTTTCTGCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (18 bp):
CTTTCCCTTTCTCTCTTC
Found at i:10957168 original size:43 final size:41
Alignment explanation
Indices: 10957015--10957176 Score: 119
Period size: 43 Copynumber: 3.8 Consensus size: 41
10957005 CCGAGATGTG
* * ** *
10957015 ATTACATGTAAGACCATGTATAGGACATTGGAATTGTATTGAG
1 ATTACATGTAAGACCATGTATGGGACA-TGGCATCATATT-AT
** * *
10957058 ATTATGTGTAAGACTATGTCTGGGACATTGGCATCATATTAT
1 ATTACATGTAAGACCATGTATGGGACA-TGGCATCATATTAT
* * * *
10957100 AATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTAT
1 -ATTACATGTAAGACCATGTATGGGACA-TGGCATC-ATAT-TAT
* *
10957145 -TTACATGTAAGACCATATATGGGATATGGCAT
1 ATTACATGTAAGACCATGTATGGGACATGGCAT
10957177 TGTACGGGTT
Statistics
Matches: 95, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 7 0.07
43 81 0.85
44 4 0.04
45 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (41 bp):
ATTACATGTAAGACCATGTATGGGACATGGCATCATATTAT
Found at i:10962328 original size:6 final size:6
Alignment explanation
Indices: 10962310--10962345 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
10962300 GCAAATGGGT
10962310 CATTTC TCATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTT
10962346 TTTGAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:10965585 original size:26 final size:26
Alignment explanation
Indices: 10965554--10965661 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
10965544 TGAAATGCCC
10965554 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
10965580 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
10965606 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
10965632 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
10965658 ATCA
1 ATCA
10965662 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:10967129 original size:90 final size:90
Alignment explanation
Indices: 10966976--10967161 Score: 345
Period size: 90 Copynumber: 2.1 Consensus size: 90
10966966 AGGGTAAAAA
* *
10966976 TGTGAAATACATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCTAACATGGGTGTA
1 TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
10967041 TTCAAATTTTGAATATTTTGTGTTT
66 TTCAAATTTTGAATATTTTGTGTTT
*
10967066 TGTGAAATAAATGAAACATATGGGCTTGTATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
1 TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
10967131 TTCAAATTTTGAATATTTTGTGTTT
66 TTCAAATTTTGAATATTTTGTGTTT
10967156 TGTGAA
1 TGTGAA
10967162 TTAGAGACTA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (90 bp):
TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
TTCAAATTTTGAATATTTTGTGTTT
Found at i:10968544 original size:45 final size:45
Alignment explanation
Indices: 10968480--10968569 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
10968470 ATGTACCCTG
10968480 GTTCCACGCGTTTCCTTATTGATGGGGTATTTTCGCGTTAAGTCC
1 GTTCCACGCGTTTCCTTATTGATGGGGTATTTTCGCGTTAAGTCC
10968525 GTTCCACGCGTTTCCTTATTGATGGGGTATTTTCGCGTTAAGTCC
1 GTTCCACGCGTTTCCTTATTGATGGGGTATTTTCGCGTTAAGTCC
10968570 CACCACATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.40
Consensus pattern (45 bp):
GTTCCACGCGTTTCCTTATTGATGGGGTATTTTCGCGTTAAGTCC
Found at i:10969233 original size:14 final size:14
Alignment explanation
Indices: 10969214--10969246 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10969204 TAAATCTATT
10969214 TATGTATATATATA
1 TATGTATATATATA
*
10969228 TATGTATGTATATA
1 TATGTATATATATA
10969242 TATGT
1 TATGT
10969247 TTTTTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:10973948 original size:10 final size:10
Alignment explanation
Indices: 10973935--10973968 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
10973925 AAAGGCATCC
10973935 AAAAAGAAAA
1 AAAAAGAAAA
10973945 AAAAAGTATAAA
1 AAAAAG-A-AAA
10973957 AAAAAGAAAA
1 AAAAAGAAAA
10973967 AA
1 AA
10973969 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.50
11 2 0.09
12 9 0.41
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:10974565 original size:1 final size:1
Alignment explanation
Indices: 10974556--10974635 Score: 70
Period size: 1 Copynumber: 80.0 Consensus size: 1
10974546 AATCAAAATC
* * * ** * * * *
10974556 AAAACAAAAAAATAAAAAAAAAGAAAAATTAAAAATAAAAAAAAATAAAAAAAATAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
10974621 AAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAA
10974636 GGATAGGCCA
Statistics
Matches: 61, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.88, C:0.01, G:0.03, T:0.09
Consensus pattern (1 bp):
A
Found at i:10974565 original size:6 final size:6
Alignment explanation
Indices: 10974538--10974632 Score: 70
Period size: 6 Copynumber: 15.5 Consensus size: 6
10974528 AAGAAGATTG
* * *
10974538 AAATAAA AAATCA AAATCAA AACAAAA AAATAA AAA-AA AAGA-AA AATTAA
1 AAAT-AA AAATAA AAAT-AA AA-ATAA AAATAA AAATAA AA-ATAA AAATAA
* * *
10974588 AAATAA AAAAAA ATAAAAA AAATAA AAATAA AAA-AA AAAGAA AAA
1 AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA AAATAA AAA
10974633 AAAGGATAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
5 9 0.12
6 47 0.64
7 17 0.23
8 1 0.01
ACGTcount: A:0.84, C:0.03, G:0.02, T:0.11
Consensus pattern (6 bp):
AAATAA
Found at i:10974567 original size:14 final size:12
Alignment explanation
Indices: 10974538--10974635 Score: 85
Period size: 12 Copynumber: 7.9 Consensus size: 12
10974528 AAGAAGATTG
*
10974538 AAATAAAAAATCA
1 AAATAAAAAA-AA
10974551 AAATCAAAACAAAA
1 AAAT-AAAA-AAAA
10974565 AAATAAAAAAAA
1 AAATAAAAAAAA
* **
10974577 AGA-AAAATTAA
1 AAATAAAAAAAA
10974588 AAATAAAAAAAA
1 AAATAAAAAAAA
10974600 ATAA-AAAAAATAA
1 A-AATAAAAAA-AA
10974613 AAATAAAAAAAA
1 AAATAAAAAAAA
10974625 AAGA-AAAAAAA
1 AA-ATAAAAAAA
10974636 GGATAGGCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.11
12 32 0.45
13 20 0.28
14 9 0.13
15 2 0.03
ACGTcount: A:0.85, C:0.03, G:0.02, T:0.10
Consensus pattern (12 bp):
AAATAAAAAAAA
Found at i:10974589 original size:25 final size:24
Alignment explanation
Indices: 10974556--10974635 Score: 99
Period size: 23 Copynumber: 3.3 Consensus size: 24
10974546 AATCAAAATC
*
10974556 AAAACAAAAAAATAAAAAAAAAG-
1 AAAAAAAAAAAATAAAAAAAAAGA
** *
10974579 AAAAATTAAAAATAAAAAAAAATA
1 AAAAAAAAAAAATAAAAAAAAAGA
10974603 AAAAAAATAAAAATAAAAAAAAAAGA
1 AAAAAAA-AAAAAT-AAAAAAAAAGA
10974629 AAAAAAA
1 AAAAAAA
10974636 GGATAGGCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 19 0.40
24 5 0.11
25 6 0.13
26 17 0.36
ACGTcount: A:0.88, C:0.01, G:0.03, T:0.09
Consensus pattern (24 bp):
AAAAAAAAAAAATAAAAAAAAAGA
Found at i:10975807 original size:64 final size:64
Alignment explanation
Indices: 10975728--10975851 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
10975718 TCATTCATAA
* *
10975728 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGAATCCTAATTATTTGACATAAGCAT
* * *
10975792 CACATCTAGTTAGGAGCATCTGATTCATTTTGATCATAGAATCCTAGTTATTTGGCATAA
1 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGAATCCTAATTATTTGACATAA
10975852 ACATAGATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGAATCCTAATTATTTGACATAAGCAT
Found at i:10976085 original size:97 final size:93
Alignment explanation
Indices: 10975963--10976142 Score: 227
Period size: 93 Copynumber: 1.9 Consensus size: 93
10975953 CATTGAAATG
* * * * *
10975963 ACAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAA-TCTTATTTCCCTGA
1 ACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T---CATAGC-AAGCCTTATCTCCCTGA
*
10976027 AGTTGCAGTGGAATAGGTTGAAGCTATAAATAA
61 AGTTGCAGTGGAACAGGTTGAAGCTATAAATAA
* *
10976060 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAGCCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAGCCTTATCTCCCTGAAGTTG
*
10976125 CAGTGGAGCAGGTTGAAG
66 CAGTGGAACAGGTTGAAG
10976143 TGATAGGTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 2 0.03
93 38 0.52
96 1 0.01
97 32 0.44
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (93 bp):
ACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAGCCTTATCTCCCTGAAGTTG
CAGTGGAACAGGTTGAAGCTATAAATAA
Found at i:10976265 original size:44 final size:44
Alignment explanation
Indices: 10976066--10976269 Score: 137
Period size: 44 Copynumber: 4.7 Consensus size: 44
10976056 ATAAACAGAT
* * * * *
10976066 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATA--G-CAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAGC
* * * * * *
10976107 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTGATAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAGC
* ** * **
10976151 CTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAGACGGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CGACAAGC
* * * * * * *
10976196 CTTATCTCCATGTA-TCGATAATGGAGCAGATTTAAGCCACAAGC
1 CTTATCTCCCTGAAGTTG-CAGTGGAGCAGATTAAAGCGACAAGC
*
10976240 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
10976270 CTCAATATAC
Statistics
Matches: 118, Mismatches: 39, Indels: 9
0.71 0.23 0.05
Matches are distributed among these distances:
41 28 0.24
43 1 0.01
44 60 0.51
45 29 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAGC
Found at i:10976282 original size:44 final size:44
Alignment explanation
Indices: 10976065--10976296 Score: 129
Period size: 44 Copynumber: 5.3 Consensus size: 44
10976055 AATAAACAGA
* * * *
10976065 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TC-ATA-GCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATATACAAG
* ** * *
10976106 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTGAT--AGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAA-T-ATACAAG
* * *
10976150 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGAC-CAA-AGACGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATATA---CAAG
* * * * * * * ***
10976195 TCTTATCTCCATGTA-TCGATAATGGAGCAGATTTAAGCCACAAG
1 TCTTATCTCCCTGAAGTTG-CAGTGGAGCAGACTCAATATACAAG
* *
10976239 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTCAATATACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATATACAAG
*
10976283 TCTTATCTTCCTGA
1 TCTTATCTCCCTGA
10976297 GGTAACAAGG
Statistics
Matches: 136, Mismatches: 41, Indels: 25
0.67 0.20 0.12
Matches are distributed among these distances:
40 1 0.01
41 26 0.19
42 1 0.01
43 3 0.02
44 76 0.56
45 26 0.19
46 2 0.01
47 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATATACAAG
Found at i:10976376 original size:177 final size:176
Alignment explanation
Indices: 10976170--10976588 Score: 464
Period size: 177 Copynumber: 2.4 Consensus size: 176
10976160 CTGAAGTTGC
* * * * **
10976170 AGTGGAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGATAATGGAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * *
10976235 CAAGCCTTATCTCTCTGAAGTTGC-AGTGGAGCAGACTCAATATACAAGTCTTATCTTCCTGAGG
66 CAAGCCTTATCTCTCTGAAGTAGCAAG-AGAGCAGACTCAAGATACAAGTCTTATCTTCCTGAGG
* * * *
10976299 TAACAAGGAAGCAGACTGAAGATTGAAGATGTTATCTCGCTAAGCAGT
130 TAACAAGGAAGCAGAATGAAGATTGAAGAT-CTATCTCCCTAAGCAAT
* *
10976347 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * * ** ** *** *
10976412 CTAGCCTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTGGAGATTGTAGTCTTATCTTCTTGAGGT
66 CAAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGACTCAAGATACAAGTCTTATCTTCCTGAGGT
** * *
10976477 AGTAAGGAAGCAGAATGGAGATTGAAGATCTATTTCCCTAAGCAAT
131 AACAAGGAAGCAGAATGAAGATTGAAGATCTATCTCCCTAAGCAAT
* ** * * *
10976523 TGTAAAGCAGATAG-AGAATGGCGAGTCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCC
1 AGTGGAGCAGATCGAAG-ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
10976587 AC
65 AC
10976589 CAGTCCTATT
Statistics
Matches: 201, Mismatches: 39, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
175 2 0.01
176 68 0.34
177 129 0.64
178 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (176 bp):
AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
CAAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGACTCAAGATACAAGTCTTATCTTCCTGAGGT
AACAAGGAAGCAGAATGAAGATTGAAGATCTATCTCCCTAAGCAAT
Found at i:10978346 original size:122 final size:122
Alignment explanation
Indices: 10978109--10978351 Score: 294
Period size: 122 Copynumber: 2.0 Consensus size: 122
10978099 TACTCATATA
* * * * *
10978109 TTAATATATATACATAATATTTATATTAAAATTAATTTTATTCTATATACATTATTAAATCTATG
1 TTAATATATATACATAATATTCATAGTAAAATTAATTTGATCCTATATACATTATTAAATCCATG
* * *
10978174 TTATTTTATACATATAATTTCTTCTAAATTTATTTATATACATATTTATGTTTTTTT
66 TTATTTTATACATATAATTGCTTCTAAATCTATTTATATACATATATATGTTTTTTT
* * **
10978231 TTAATTTAT-TACATATATAATTCATAGTAAAATTAATTTGATCCTATGTACA-TATTCGATCCC
1 TTAATATATATACATA-AT-ATTCATAGTAAAATTAATTTGATCCTATATACATTATTAAAT-CC
* * * *
10978294 ATGTTATTTT-TACATCTAGTTGCTTCTAAATCTATTTATGTATATATATATGTTTTTT
63 ATGTTATTTTATACATATAATTGCTTCTAAATCTATTTATATACATATATATGTTTTTT
10978352 AAAACCCATT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
121 6 0.06
122 57 0.56
123 39 0.38
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (122 bp):
TTAATATATATACATAATATTCATAGTAAAATTAATTTGATCCTATATACATTATTAAATCCATG
TTATTTTATACATATAATTGCTTCTAAATCTATTTATATACATATATATGTTTTTTT
Found at i:10986277 original size:13 final size:13
Alignment explanation
Indices: 10986259--10986283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10986249 GAATTGATAT
10986259 GTGTGAAAATTTC
1 GTGTGAAAATTTC
10986272 GTGTGAAAATTT
1 GTGTGAAAATTT
10986284 TATTATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:10987448 original size:44 final size:43
Alignment explanation
Indices: 10987387--10987546 Score: 159
Period size: 42 Copynumber: 3.8 Consensus size: 43
10987377 ATAGGACTCC
* *
10987387 GATATGAGATT-CGTGTAAGACCACGTTTGGGACATTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATT
* * * * *
10987429 GATTTGTGATTTACGTGTAAGACTATGTCTGGGATATTGGCATC
1 GATATGTGA-TTACGTGTAAGACCACGTCTGGGACATTGGCATT
* * *
10987473 G-TATATAAGTTA-GTGTAAGACC-CTGTCTGGGACAGTGGCA-T
1 GATATGTGA-TTACGTGTAAGACCAC-GTCTGGGACATTGGCATT
*
10987514 GATATGTGATTACATGTAAGACCACGTCTGGGA
1 GATATGTGATTACGTGTAAGACCACGTCTGGGA
10987547 TGTTGGTGAT
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.04
42 52 0.56
43 10 0.11
44 27 0.29
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATT
Found at i:10988865 original size:28 final size:29
Alignment explanation
Indices: 10988833--10988890 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
10988823 CTAATATTAG
10988833 TAAATATATACATGTAGTA-AAGCAACTA
1 TAAATATATACATGTAGTATAAGCAACTA
10988861 TAAATATATACATGTAGTATAAGCAACTA
1 TAAATATATACATGTAGTATAAGCAACTA
10988890 T
1 T
10988891 GGTATGTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (29 bp):
TAAATATATACATGTAGTATAAGCAACTA
Found at i:10989530 original size:11 final size:11
Alignment explanation
Indices: 10989524--10989555 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
10989514 TGAAATTTTC
10989524 TCAAAATTCTA
1 TCAAAATTCTA
10989535 TCAAAATTCTA
1 TCAAAATTCTA
10989546 TCAAAATTCT
1 TCAAAATTCT
10989556 TTGTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:10989821 original size:47 final size:45
Alignment explanation
Indices: 10989690--10989821 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 45
10989680 AGTGATAATT
* *
10989690 TTAAATTTTCAATACTATTCGATATTTTTTTAAATTATGCAATTTAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGCAATTTAA
* *
10989737 TTAAATTTGCAATACTATTTGATATTTTATTCTTTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATT-TAA
*
10989785 TTACAATTTCAATACTGCTTGAT-TTTTTTTCATTTAT
1 TTA-AATTTCAATACT-ATTGATATTTTTTTCATTTAT
10989822 AATGTTTGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
46 3 0.04
47 45 0.62
48 20 0.27
49 5 0.07
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTTAA
Found at i:10995135 original size:126 final size:127
Alignment explanation
Indices: 10994903--10995160 Score: 412
Period size: 126 Copynumber: 2.0 Consensus size: 127
10994893 ATTTATAGCC
*
10994903 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
1 TTATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
* *
10994968 TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTTTT-CAAAAACGTCTATTCAGAA
66 TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTTTTCCAAAAACATCTACTCAGAA
* * * *
10995029 TTATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGC
1 TTATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
* *
10995094 TGACAGTGCATCCTGCTTGAAGCGTTTTTCGATACTA-TTTTTCCAAAAACATCTGCTCAGAA
66 TGACAGTGCATCCTGCTTGAAGCG-TTTTCGACACTATTTTTTCCAAAAACATCTACTCAGAA
10995156 TTATT
1 TTATT
10995161 CTTGCAGAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
126 89 0.74
127 32 0.26
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (127 bp):
TTATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTTTTCCAAAAACATCTACTCAGAA
Found at i:10995885 original size:21 final size:22
Alignment explanation
Indices: 10995860--10995911 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
10995850 AACCCAAAAA
* *
10995860 AACCCTTAA-CTTAAAAACCCT
1 AACCCTAAACCTTAAAAACCAT
10995881 AACCCTAAACCTTAAAAACCAT
1 AACCCTAAACCTTAAAAACCAT
10995903 AACCCTAAA
1 AACCCTAAA
10995912 TCAATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCCTAAACCTTAAAAACCAT
Found at i:10996218 original size:9 final size:9
Alignment explanation
Indices: 10996204--10996280 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
10996194 ATAAGTATAA
10996204 AATTAACCG
1 AATTAACCG
* *
10996213 AATTAATCA
1 AATTAACCG
**
10996222 AATTAATAG
1 AATTAACCG
10996231 AATT-ACCTG
1 AATTAACC-G
* *
10996240 AATTACCCA
1 AATTAACCG
*
10996249 AATTAACTG
1 AATTAACCG
*
10996258 AATTAACCA
1 AATTAACCG
10996267 AATTAACCG
1 AATTAACCG
10996276 AATTA
1 AATTA
10996281 TTTGTATAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
8 1 0.02
9 49 0.94
10 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:10996242 original size:27 final size:26
Alignment explanation
Indices: 10996204--10996280 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
10996194 ATAAGTATAA
*
10996204 AATTAACCGAATTAATCAAATTAA-TAG
1 AATT-ACCGAATTAACCAAATTAACT-G
*
10996231 AATTACCTGAATTACCCAAATTAACTG
1 AATTACC-GAATTAACCAAATTAACTG
* *
10996258 AATTAACCAAATTAACCGAATTA
1 AATT-ACCGAATTAACCAAATTA
10996281 TTTGTATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 35 0.83
28 4 0.10
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (26 bp):
AATTACCGAATTAACCAAATTAACTG
Found at i:10996311 original size:6 final size:6
Alignment explanation
Indices: 10996300--10996352 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
10996290 TATTATATGT
**
10996300 TTTTTA TTTTTA TTTTTA TTTTTA GTTTCAGA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TTTTTA TTTTTA
10996350 TTT
1 TTT
10996353 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 34 0.83
7 6 0.15
8 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:10996393 original size:13 final size:13
Alignment explanation
Indices: 10996377--10996401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10996367 AATTTTTATG
10996377 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
10996390 ATTGGGTTGGGT
1 ATTGGGTTGGGT
10996402 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:10996401 original size:18 final size:18
Alignment explanation
Indices: 10996378--10996415 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10996368 ATTTTTATGA
10996378 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
10996396 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
10996414 TT
1 TT
10996416 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:10996913 original size:13 final size:13
Alignment explanation
Indices: 10996897--10996938 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
10996887 TAAGTGATTA
10996897 AATAGATGATATT
1 AATAGATGATATT
*
10996910 AATATG-TGAT-TA
1 AATA-GATGATATT
10996922 AATAGATGATATT
1 AATAGATGATATT
10996935 AATA
1 AATA
10996939 TGTTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 1 0.04
12 9 0.38
13 13 0.54
14 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (13 bp):
AATAGATGATATT
Found at i:10996939 original size:25 final size:25
Alignment explanation
Indices: 10996885--10996941 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
10996875 AGTTGATTTG
*
10996885 AATAAGTGATTAAATAGATGATATT
1 AATATGTGATTAAATAGATGATATT
10996910 AATATGTGATTAAATAGATGATATT
1 AATATGTGATTAAATAGATGATATT
10996935 AATATGT
1 AATATGT
10996942 TTGAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.39
Consensus pattern (25 bp):
AATATGTGATTAAATAGATGATATT
Found at i:10999775 original size:27 final size:27
Alignment explanation
Indices: 10999687--10999782 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 27
10999677 AACTTACGAA
**
10999687 TTGGTACCTAAACTATACTCTTTTTCCCATC
1 TTGGTACCTAAA-T-TA-T-TTTTTCCCAAG
* * * *
10999718 TTGGTATCT-ATTTTTTTTTGTCTCAAG
1 TTGGTACCTAAATTATTTTT-TCCCAAG
10999745 -TGGTACCTAAATTATTTTTTCCCAAG
1 TTGGTACCTAAATTATTTTTTCCCAAG
*
10999771 TTGGTACTTAAA
1 TTGGTACCTAAA
10999783 CTTTTTAATT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
26 17 0.33
27 23 0.45
28 1 0.02
29 1 0.02
30 1 0.02
31 8 0.16
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (27 bp):
TTGGTACCTAAATTATTTTTTCCCAAG
Found at i:10999788 original size:26 final size:26
Alignment explanation
Indices: 10999731--10999788 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
10999721 GTATCTATTT
*
10999731 TTTTTTGTCTCAAGTGGTACCTAAA-
1 TTTTTTGTCCCAAGTGGTACCTAAAC
* *
10999756 TTATTTTTTCCCAAGTTGGTACTTAAAC
1 TT-TTTTGTCCCAAG-TGGTACCTAAAC
10999784 TTTTT
1 TTTTT
10999789 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.07
26 10 0.37
27 13 0.48
28 2 0.07
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (26 bp):
TTTTTTGTCCCAAGTGGTACCTAAAC
Found at i:10999960 original size:33 final size:31
Alignment explanation
Indices: 10999923--11000002 Score: 124
Period size: 33 Copynumber: 2.5 Consensus size: 31
10999913 TATTCATTTT
10999923 CCTTTTTTTCTTTTACATTCTCTCTCTCTTTCG
1 CCTTTTTTTCTTTTACATTCTCTCTCTC--TCG
10999956 CCTTTTTTTCTTTTACATTCTCTCTCTCTCG
1 CCTTTTTTTCTTTTACATTCTCTCTCTCTCG
10999987 CCTTTTCTTTTCTTTT
1 CC-TTT-TTTTCTTTT
11000003 CTTCTTTCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 5 0.11
32 3 0.07
33 37 0.82
ACGTcount: A:0.05, C:0.30, G:0.03, T:0.62
Consensus pattern (31 bp):
CCTTTTTTTCTTTTACATTCTCTCTCTCTCG
Found at i:11000633 original size:25 final size:25
Alignment explanation
Indices: 11000605--11000652 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11000595 AAAGTAGTTT
*
11000605 AGATACCAATTAAAAAAATTTAATC
1 AGATACCAATTAAAAAAAATTAATC
11000630 AGATACCAATTAAAAAAAATTAA
1 AGATACCAATTAAAAAAAATTAA
11000653 GTACCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (25 bp):
AGATACCAATTAAAAAAAATTAATC
Found at i:11005639 original size:21 final size:21
Alignment explanation
Indices: 11005613--11005654 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11005603 GATACCCAGT
11005613 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
11005634 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
11005655 TAATTGATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:11008243 original size:16 final size:17
Alignment explanation
Indices: 11008210--11008244 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11008200 TGAAAATAAG
*
11008210 AAGTTAAATTTAGTTTA
1 AAGTGAAATTTAGTTTA
11008227 AAGTGAAATTT-GTTTA
1 AAGTGAAATTTAGTTTA
11008243 AA
1 AA
11008245 AATATAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
AAGTGAAATTTAGTTTA
Found at i:11016743 original size:14 final size:14
Alignment explanation
Indices: 11016720--11016749 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11016710 TTGAAAATAT
11016720 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
11016734 GTTGATTTGGATTG
1 GTTGAATTGGATTG
11016748 GT
1 GT
11016750 CTCGATAAAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:11020906 original size:14 final size:14
Alignment explanation
Indices: 11020883--11020912 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11020873 TTGAAAATAT
11020883 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
11020897 GTTGATTTGGATTG
1 GTTGAATTGGATTG
11020911 GT
1 GT
11020913 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:11023237 original size:14 final size:14
Alignment explanation
Indices: 11023214--11023243 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11023204 TTGAAAATAT
11023214 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
11023228 GTTGATTTGGATTG
1 GTTGAATTGGATTG
11023242 GT
1 GT
11023244 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:11030685 original size:14 final size:14
Alignment explanation
Indices: 11030666--11030703 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11030656 GTTTGCCAGT
11030666 AAAAT-ATTTTTCGG
1 AAAATAATTTTT-GG
11030680 AAAATAATTTTTGG
1 AAAATAATTTTTGG
*
11030694 AAAATGATTT
1 AAAATAATTT
11030704 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (14 bp):
AAAATAATTTTTGG
Found at i:11035314 original size:16 final size:16
Alignment explanation
Indices: 11035295--11035325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11035285 CTTCTTCACT
11035295 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
11035311 TACTTACTTACTTAA
1 TACTCACTTACTTAA
11035326 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:11035331 original size:20 final size:20
Alignment explanation
Indices: 11035292--11035331 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11035282 AAACTTCTTC
* *
11035292 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
11035312 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
11035332 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:11035712 original size:55 final size:53
Alignment explanation
Indices: 11035522--11035777 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 53
11035512 ATACGGGTAC
* * * * *
11035522 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
11035571 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
11035624 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
11035679 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
** *
11035732 CCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTTG
11035778 AACCCTAATG
Statistics
Matches: 174, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 11 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:11035713 original size:108 final size:110
Alignment explanation
Indices: 11035569--11035769 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
11035559 ATCCTTTTGA
* *
11035569 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
11035632 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
11035677 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
11035742 TGCCATACCTTAGCATGGTCTTACATGG
66 TGCCATACCTTAGCATGGTCTTACATGG
11035770 TATCCTTGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:11038324 original size:10 final size:8
Alignment explanation
Indices: 11038257--11038323 Score: 98
Period size: 8 Copynumber: 8.4 Consensus size: 8
11038247 CTGAAGACGA
*
11038257 AGAAAAAA
1 AGAAAAAG
11038265 AGAAAAAG
1 AGAAAAAG
*
11038273 ACAAAAAG
1 AGAAAAAG
*
11038281 ACAAAAAG
1 AGAAAAAG
11038289 AGAAAAAG
1 AGAAAAAG
11038297 AGAAAAAG
1 AGAAAAAG
11038305 AGAAAAAG
1 AGAAAAAG
*
11038313 AGAGAAAG
1 AGAAAAAG
11038321 AGA
1 AGA
11038324 GGGGGGAGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 55 1.00
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (8 bp):
AGAAAAAG
Found at i:11042395 original size:36 final size:36
Alignment explanation
Indices: 11042370--11042488 Score: 202
Period size: 36 Copynumber: 3.3 Consensus size: 36
11042360 ATTGTTGTAC
11042370 TAGAAATTGAGATACTGAAATATGAGATTGCTACAT
1 TAGAAATTGAGATACTGAAATATGAGATTGCTACAT
11042406 TAGAAATTGAGATACTGAAATATGAGATTGCTACAT
1 TAGAAATTGAGATACTGAAATATGAGATTGCTACAT
* ** *
11042442 TAGAAATTGAGATACTGAAACATGAGATTGAAACAC
1 TAGAAATTGAGATACTGAAATATGAGATTGCTACAT
11042478 TAGAAATTGAG
1 TAGAAATTGAG
11042489 TTTGGTTGTA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 79 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (36 bp):
TAGAAATTGAGATACTGAAATATGAGATTGCTACAT
Found at i:11042399 original size:21 final size:21
Alignment explanation
Indices: 11042375--11042435 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
11042365 TGTACTAGAA
11042375 ATTGAGATACTGAAATATGAG
1 ATTGAGATACTGAAATATGAG
* * *
11042396 ATT--GCTAC---ATTA-GAA
1 ATTGAGATACTGAAATATGAG
11042411 ATTGAGATACTGAAATATGAG
1 ATTGAGATACTGAAATATGAG
11042432 ATTG
1 ATTG
11042436 CTACATTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 5 0.18
16 3 0.11
17 4 0.14
19 4 0.14
20 3 0.11
21 9 0.32
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (21 bp):
ATTGAGATACTGAAATATGAG
Found at i:11045169 original size:16 final size:17
Alignment explanation
Indices: 11045131--11045169 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
11045121 TTTATTATTT
*
11045131 ATAACATATATATAAAT
1 ATAACATATATATAAAC
11045148 AT-ACATATA-ATAAAC
1 ATAACATATATATAAAC
11045163 ATAACAT
1 ATAACAT
11045170 TTATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAACATATATATAAAC
Found at i:11046421 original size:36 final size:35
Alignment explanation
Indices: 11046362--11046443 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 35
11046352 GACACAGTAG
*
11046362 AGAAATTGAAGAACTGAAACATGAGATTGTTGCACA
1 AGAAATTG-AGAACTGAAACATGAGATTGATGCACA
*
11046398 AGAAATTGAGATACT-AAAGCATGAGATTGATGCACT
1 AGAAATTGAGA-ACTGAAA-CATGAGATTGATGCACA
11046434 AGAAATTGAG
1 AGAAATTGAG
11046444 TTTGGTGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 6 0.14
36 36 0.86
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (35 bp):
AGAAATTGAGAACTGAAACATGAGATTGATGCACA
Found at i:11049571 original size:77 final size:76
Alignment explanation
Indices: 11049405--11049612 Score: 204
Period size: 77 Copynumber: 2.7 Consensus size: 76
11049395 TTTTTTTTTC
* * ** * *
11049405 AATTGTCATTTTATCAAAAATTGAATTTGTTTTCAAAAAAAGGGTTGAGCCTTGAGATTGCTGTT
1 AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAGGGTTGAGCCTTAAGATTGCTATT
11049470 GAAGTCCTTCT
66 GAAGTCCTTCT
* * *
11049481 AATTATCAATTTATAAAAGAATCGAATTTCCTTTCAAAAAATGGGTTGAGCCTTAAGATTG-TCA
1 AATTGTCATTTTATAAAA-AATCGAATTTCCTTTCAAAAAAAGGGTTGAGCCTTAAGATTGCT-A
*
11049545 TTG-AGATCCTTTT
64 TTGAAG-TCCTTCT
* * * * ** **
11049558 AGTTGTCATTTTATGAAAAATCAAATATGTTTTCTAAAAAAAGGGTCAAGCCTTA
1 AATTGTCATTTTATAAAAAATCGAATTTCCTTTC-AAAAAAAGGGTTGAGCCTTA
11049613 GTATCATCGT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
76 30 0.28
77 77 0.72
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (76 bp):
AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAGGGTTGAGCCTTAAGATTGCTATT
GAAGTCCTTCT
Found at i:11052547 original size:12 final size:13
Alignment explanation
Indices: 11052516--11052549 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11052506 AATGAAAAAG
*
11052516 TAAAGAATTTATA
1 TAAAAAATTTATA
11052529 TAAAAAATTTATA
1 TAAAAAATTTATA
11052542 -AAAAAATT
1 TAAAAAATT
11052550 CTAAAAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
TAAAAAATTTATA
Found at i:11052694 original size:23 final size:24
Alignment explanation
Indices: 11052652--11052699 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
11052642 TTTAAAAAAA
11052652 TAATATTGTGGGCAATTTTTTCTTT
1 TAATATTGTGGGCAATTTTTT-TTT
11052677 TAAT-TTGTGGG-AATTTTTTTTT
1 TAATATTGTGGGCAATTTTTTTTT
11052699 T
1 T
11052700 GCTTGTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 8 0.35
24 7 0.30
25 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.60
Consensus pattern (24 bp):
TAATATTGTGGGCAATTTTTTTTT
Found at i:11052844 original size:16 final size:17
Alignment explanation
Indices: 11052777--11052849 Score: 66
Period size: 16 Copynumber: 4.5 Consensus size: 17
11052767 ATAATCAATT
11052777 AATATTTT-TATATTTA
1 AATATTTTATATATTTA
*
11052793 AA-ATTATT-TA-ATTTG
1 AATATT-TTATATATTTA
* *
11052808 ATTAATTTAATATATTTA
1 AAT-ATTTTATATATTTA
11052826 AATATTTTATATA-TTA
1 AATATTTTATATATTTA
11052842 AATATTTT
1 AATATTTT
11052850 TTAAAAACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
15 8 0.17
16 18 0.39
17 14 0.30
18 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
AATATTTTATATATTTA
Found at i:11055897 original size:9 final size:9
Alignment explanation
Indices: 11055856--11055900 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
11055846 ATAATCTATA
*
11055856 TTAAAAAAA
1 TTAAAAAAT
*
11055865 TTATAAAAT
1 TTAAAAAAT
*
11055874 TTAAAAACT
1 TTAAAAAAT
11055883 TTAAAAAAT
1 TTAAAAAAT
*
11055892 TCAAAAAAT
1 TTAAAAAAT
11055901 AAATTTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:11057045 original size:19 final size:19
Alignment explanation
Indices: 11057012--11057057 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11057002 AATAATTATG
*
11057012 TTTTAATATTTAAAATGT-AA
1 TTTT-ATATTCAAAAT-TAAA
11057032 TTTTATATTCAAAATTAAA
1 TTTTATATTCAAAATTAAA
11057051 TTTTATA
1 TTTTATA
11057058 AATAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 19 0.79
20 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATTCAAAATTAAA
Found at i:11058414 original size:20 final size:19
Alignment explanation
Indices: 11058378--11058419 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
11058368 TTTTATGAGC
11058378 TTTTTATAATTTTAAA-TA
1 TTTTTATAATTTTAAATTA
11058396 TTTTTATATATTTTAAAATTA
1 TTTTTATA-ATTTT-AAATTA
11058417 TTT
1 TTT
11058420 GTTAATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 3 0.14
21 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTAAATTA
Found at i:11073496 original size:8 final size:8
Alignment explanation
Indices: 11073485--11073522 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
11073475 ATATTTATAT
11073485 ATTAAATA
1 ATTAAATA
11073493 ATTAAATA
1 ATTAAATA
11073501 ATTAAATA
1 ATTAAATA
11073509 ATTATAATA
1 ATTA-AATA
11073518 TATTA
1 -ATTA
11073523 TTAGTAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 20 0.71
9 4 0.14
10 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATTAAATA
Found at i:11073506 original size:16 final size:18
Alignment explanation
Indices: 11073481--11073522 Score: 70
Period size: 16 Copynumber: 2.4 Consensus size: 18
11073471 GAAGATATTT
11073481 ATATATTAAATAATTA-A
1 ATATATTAAATAATTATA
11073498 ATA-ATTAAATAATTATA
1 ATATATTAAATAATTATA
11073515 ATATATTA
1 ATATATTA
11073523 TTAGTAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 7 0.30
18 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATATTAAATAATTATA
Found at i:11078686 original size:15 final size:15
Alignment explanation
Indices: 11078668--11078696 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11078658 ATATTTATAA
11078668 AATTATTATTATTAT
1 AATTATTATTATTAT
11078683 AATTATTATTATTA
1 AATTATTATTATTA
11078697 GATAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:11084687 original size:19 final size:19
Alignment explanation
Indices: 11084663--11084699 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11084653 GTTATAAATT
*
11084663 TAATTATGTTAAATTATAA
1 TAATTATATTAAATTATAA
*
11084682 TAATTATATTATATTATA
1 TAATTATATTAAATTATA
11084700 TTATGAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATTATATTAAATTATAA
Found at i:11085193 original size:21 final size:21
Alignment explanation
Indices: 11085169--11085216 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11085159 ATAATAAATT
*
11085169 AAAATAAA-AAAATAAAGAAAC
1 AAAACAAAGAAAA-AAAGAAAC
*
11085190 AAAACAAAGAAGAAAAGAAAC
1 AAAACAAAGAAAAAAAGAAAC
11085211 AAAACA
1 AAAACA
11085217 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.04
Consensus pattern (21 bp):
AAAACAAAGAAAAAAAGAAAC
Found at i:11085665 original size:11 final size:11
Alignment explanation
Indices: 11085649--11085673 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11085639 GAATTTAAGG
11085649 TAGAAATTGAA
1 TAGAAATTGAA
11085660 TAGAAATTGAA
1 TAGAAATTGAA
11085671 TAG
1 TAG
11085674 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:11086067 original size:70 final size:64
Alignment explanation
Indices: 11086017--11086138 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
11086007 AATTATGAAT
*
11086017 TATGTGAATGTTTGAAA-GTATATTGATTGAAAATTAAAAGTGATTTGAATTGAATGAAGAAAA
1 TATGTGAATATTTGAAATGTATATTGATTGAAAATTAAAAGTGATTTGAATTGAATGAAGAAAA
* * * *
11086080 TATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATTAGTGATTTGAATTTGAATG
1 TATGTGAATATTTGAAATGTATATTGATTGAAAATTAA-AAGTGATTTGAA-TTGAATG
11086139 GAAAATGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
63 15 0.29
64 18 0.35
65 11 0.22
66 7 0.14
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (64 bp):
TATGTGAATATTTGAAATGTATATTGATTGAAAATTAAAAGTGATTTGAATTGAATGAAGAAAA
Done.