Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 47 of 325
Found at i:17309689 original size:21 final size:21
Alignment explanation
Indices: 17309652--17309705 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17309642 TGCTATTCTG
*
17309652 TTGTTTTTCCATGTTTTG-CTA
1 TTGTTTTCCCATGTTTTGTC-A
17309673 TTGTTTTCCCACT-TTTTGTCA
1 TTGTTTTCCCA-TGTTTTGTCA
*
17309694 TTATTTTCCCAT
1 TTGTTTTCCCAT
17309706 CATTTCACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.11, C:0.20, G:0.09, T:0.59
Consensus pattern (21 bp):
TTGTTTTCCCATGTTTTGTCA
Found at i:17315532 original size:5 final size:5
Alignment explanation
Indices: 17315522--17315565 Score: 79
Period size: 5 Copynumber: 8.6 Consensus size: 5
17315512 AATAATTAAG
17315522 TATAT TATAT TATTAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TAT
17315566 TATATATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 33 0.87
6 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:17315537 original size:8 final size:8
Alignment explanation
Indices: 17315524--17315570 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
17315514 TAATTAAGTA
17315524 TATTATAT
1 TATTATAT
17315532 TATTAT-T
1 TATTATAT
17315539 ATATTATAT
1 -TATTATAT
17315548 TA-TAT-T
1 TATTATAT
17315554 ATATTATAT
1 -TATTATAT
17315563 TATTATAT
1 TATTATAT
17315571 ATAAAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
6 1 0.03
7 6 0.18
8 25 0.74
9 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:17316697 original size:45 final size:45
Alignment explanation
Indices: 17316647--17316801 Score: 204
Period size: 45 Copynumber: 3.4 Consensus size: 45
17316637 CTACTGTTAC
* *
17316647 TGTTACCGTTACTGTTACTGATTCGATACTTTGTGTGTCAAATAT
1 TGTTACCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATAT
*
17316692 TGTTACTGTTACTGTTA-TCGATTCGACACTTTGTGTGTCGAATAT
1 TGTTACCGTTACTGTTACT-GATTCGACACTTTGTGTGTCGAATAT
* * * * *
17316737 TGTTATCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATAC
1 TGTTACCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATAT
* *
17316782 TGTTACTGTTACTGCTACTG
1 TGTTACCGTTACTGTTACTG
17316802 CTACCGTTAC
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 94 0.99
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (45 bp):
TGTTACCGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATAT
Found at i:17316810 original size:18 final size:18
Alignment explanation
Indices: 17316779--17316813 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17316769 GTGTGTTGAA
* *
17316779 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
17316797 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
17316814 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:17323979 original size:12 final size:12
Alignment explanation
Indices: 17323962--17323986 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17323952 GCCGACTACT
17323962 GTTACTGTTACC
1 GTTACTGTTACC
17323974 GTTACTGTTACC
1 GTTACTGTTACC
17323986 G
1 G
17323987 ATTCGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:17324017 original size:45 final size:45
Alignment explanation
Indices: 17323967--17324107 Score: 221
Period size: 45 Copynumber: 3.1 Consensus size: 45
17323957 CTACTGTTAC
17323967 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
1 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
*
17324012 TGTTACCGTTACTGTTACCGATTTGACACTTTGTGTGTCGAATAT
1 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
* * * *
17324057 TGTTACTGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATAC
1 TGTTACCGTTACTGTTACCGATTCGA-CACTTTGTGTGTCGAATAT
17324102 TGTTAC
1 TGTTAC
17324108 TATTACTGCT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 1 0.01
45 88 0.99
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAT
Found at i:17331860 original size:35 final size:32
Alignment explanation
Indices: 17331820--17331886 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 32
17331810 CAATCAGTAA
* *
17331820 TATTCATTAACATTCAGCTAATCAGAACAATTATT
1 TATTCAATAACAGTCAG-TAA-CA-AACAATTATT
*
17331855 TATTCAATAACAGTCAGTAACAATCAATTATT
1 TATTCAATAACAGTCAGTAACAAACAATTATT
17331887 CAATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 2 0.07
34 3 0.10
35 15 0.52
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (32 bp):
TATTCAATAACAGTCAGTAACAAACAATTATT
Found at i:17331899 original size:28 final size:28
Alignment explanation
Indices: 17331838--17331900 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
17331828 AACATTCAGC
* *
17331838 TAATCAG-AACAATTATTTATTCAATAA
1 TAATCAGTAACAATCAATTATTCAATAA
* *
17331865 CAGTCAGTAACAATCAATTATTCAATAA
1 TAATCAGTAACAATCAATTATTCAATAA
17331893 TAATCAGT
1 TAATCAGT
17331901 TATTCAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (28 bp):
TAATCAGTAACAATCAATTATTCAATAA
Found at i:17331903 original size:18 final size:18
Alignment explanation
Indices: 17331875--17331919 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17331865 CAGTCAGTAA
*
17331875 CAATCAATTATTCAATAAT
1 CAATCAGTTATTCAAT-AT
*
17331894 -AATCAGTTATTCAGTAT
1 CAATCAGTTATTCAATAT
17331911 CAATCAGTT
1 CAATCAGTT
17331920 GATCGGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (18 bp):
CAATCAGTTATTCAATAT
Found at i:17334616 original size:26 final size:26
Alignment explanation
Indices: 17334585--17334692 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
17334575 TGAAATGCCC
*
17334585 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17334611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17334637 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17334663 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17334689 ATCA
1 ATCA
17334693 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:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17337200 original size:6 final size:6
Alignment explanation
Indices: 17337191--17337313 Score: 81
Period size: 6 Copynumber: 19.7 Consensus size: 6
17337181 CCGAAGCCGA
* *
17337191 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AATAGT -ACGGT
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
* * * *
17337238 ACACAAAGT ACCTCATCGG AACA-- AATCCGA AACAGT AACAGT AACAGT
1 A-AC--AGT A--ACA--GT AACAGT AA-CAGT AACAGT AACAGT AACAGT
**
17337286 AACAGT AATGGT AACAGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACA
17337314 ATATCCAGCA
Statistics
Matches: 93, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
4 2 0.02
5 4 0.04
6 73 0.78
7 4 0.04
8 3 0.03
9 3 0.03
10 4 0.04
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (6 bp):
AACAGT
Found at i:17338624 original size:9 final size:9
Alignment explanation
Indices: 17338612--17338647 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
17338602 CTTTTCTCCC
17338612 TTTCTTTCT
1 TTTCTTTCT
*
17338621 TTTCTTTCCC
1 TTTCTTT-CT
17338631 TTTCTTTCT
1 TTTCTTTCT
17338640 TTTCTTTC
1 TTTCTTTC
17338648 CTTCCCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:17338653 original size:23 final size:19
Alignment explanation
Indices: 17338608--17338648 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
17338598 TTTCCTTTTC
17338608 TCCCTTTCTTTCTTTTCTT
1 TCCCTTTCTTTCTTTTCTT
17338627 TCCCTTTCTTTCTTTTCTT
1 TCCCTTTCTTTCTTTTCTT
17338646 TCC
1 TCC
17338649 TTCCCCTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TCCCTTTCTTTCTTTTCTT
Found at i:17340338 original size:6 final size:6
Alignment explanation
Indices: 17340324--17340357 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17340314 AGGAAACAAG
*
17340324 AAAACT AAAATT AAAACT AAAACT AAAACT AAAA
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAA
17340358 AGAAAAAGAA
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:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAACT
Found at i:17340363 original size:12 final size:12
Alignment explanation
Indices: 17340321--17340363 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
17340311 AGAAGGAAAC
17340321 AAGAAAACTAAA
1 AAGAAAACTAAA
**
17340333 ATTAAAACTAAA
1 AAGAAAACTAAA
**
17340345 ACTAAAACTAAA
1 AAGAAAACTAAA
17340357 AAGAAAA
1 AAGAAAA
17340364 AGAAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (12 bp):
AAGAAAACTAAA
Found at i:17340363 original size:18 final size:18
Alignment explanation
Indices: 17340321--17340363 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17340311 AGAAGGAAAC
*
17340321 AAGAAAACTAAAATTAAA
1 AAGAAAACTAAAACTAAA
**
17340339 ACTAAAACTAAAACTAAA
1 AAGAAAACTAAAACTAAA
17340357 AAGAAAA
1 AAGAAAA
17340364 AGAAAAAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (18 bp):
AAGAAAACTAAAACTAAA
Found at i:17342725 original size:20 final size:18
Alignment explanation
Indices: 17342694--17342750 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
17342684 TCATTTTTCA
17342694 ATAAATTCAATTTCAATAATT
1 ATAAA-TCAATTT-AAT-ATT
17342715 -TAATATCAATTTAATATT
1 ATAA-ATCAATTTAATATT
17342733 ATAAATCAATTATAATAT
1 ATAAATCAATT-TAATAT
17342751 AGTGTGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 10 0.30
19 12 0.36
20 10 0.30
21 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATCAATTTAATATT
Found at i:17353921 original size:39 final size:39
Alignment explanation
Indices: 17353865--17353961 Score: 140
Period size: 39 Copynumber: 2.5 Consensus size: 39
17353855 TGATTTGAAA
* * *
17353865 CCCGAAGTCTAGCTAAAGCACATAAGTGCTAAATGGAAG
1 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAATGGAAG
* *
17353904 CTCGAAGGCTAACTAAAGCACACAAGTGTTAAATGGAAG
1 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAATGGAAG
*
17353943 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTAAAGC
17353962 TCATCAGAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (39 bp):
CCCGAAGGCTAACTAAAGCACACAAGTGCTAAATGGAAG
Found at i:17365204 original size:26 final size:26
Alignment explanation
Indices: 17365175--17365234 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
17365165 TCCCTTTGAA
* * *
17365175 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
17365201 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
17365229 CCATTC
1 TCATTC
17365235 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:17365220 original size:28 final size:28
Alignment explanation
Indices: 17365189--17365260 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
17365179 TCGATATTTT
*
17365189 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
17365217 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
17365245 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
17365261 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:17370246 original size:28 final size:28
Alignment explanation
Indices: 17370209--17370476 Score: 205
Period size: 28 Copynumber: 9.4 Consensus size: 28
17370199 AACCGATCTT
* *
17370209 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * ** * *
17370237 GCACATACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
17370266 GCACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * ** * *
17370294 GCGCACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* *
17370323 GCACATACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * ** * *
17370351 GCGCACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* *
17370380 GCACACACAGTGCTCGGTTACAGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * * ** *
17370408 ACACACATAGTGCCTCAACAATC-GATCTC
1 GCACACACAGTG-CTCGATTA-CGGAACTC
*
17370437 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
17370465 GCACACACAGTG
1 GCACACACAGTG
17370477 TCTATGTTCA
Statistics
Matches: 177, Mismatches: 57, Indels: 12
0.72 0.23 0.05
Matches are distributed among these distances:
27 1 0.01
28 94 0.53
29 81 0.46
30 1 0.01
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:17370269 original size:29 final size:29
Alignment explanation
Indices: 17370179--17370449 Score: 199
Period size: 29 Copynumber: 9.4 Consensus size: 29
17370169 GATCTCATTT
* *
17370179 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
17370210 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
17370238 CACATACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* ** * *
17370267 CACACACAGTG-CTCGATTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
17370295 CGCACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* **** * *
17370324 CACATACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
17370352 CGCACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * * *
17370381 CACACACAGTG-CTCGGTTACAGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCG
* *
17370409 CACACATAGTGCCTCAACAATCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
17370438 CACACACAGTGC
1 CACACACAGTGC
17370450 TCGGTTACGG
Statistics
Matches: 173, Mismatches: 63, Indels: 10
0.70 0.26 0.04
Matches are distributed among these distances:
28 80 0.46
29 86 0.50
31 7 0.04
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:17370276 original size:57 final size:57
Alignment explanation
Indices: 17370179--17370476 Score: 470
Period size: 57 Copynumber: 5.2 Consensus size: 57
17370169 GATCTCATTT
* * *
17370179 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
17370238 CACATACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
17370295 CGCACACAGTGCCTCAACAACCGATCTCGCACATACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
17370352 CGCACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
17370409 CACACATAGTGCCTCAACAATCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
17370466 CACACACAGTG
1 CACACACAGTG
17370477 TCTATGTTCA
Statistics
Matches: 221, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
57 215 0.97
59 6 0.03
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:17371290 original size:46 final size:46
Alignment explanation
Indices: 17371237--17371510 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
17371227 TTTGTCATGT
** * *
17371237 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
17371283 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
17371329 TGCCATTGTATCTTTCAACCATGGTC-TACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
**
17371374 TGCCATGGTATCTTTCAACCATGGTCTTACATGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
17371420 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
17371466 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
17371511 TTGCTCACAC
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 36 0.17
46 172 0.83
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:17371422 original size:137 final size:137
Alignment explanation
Indices: 17371237--17371510 Score: 408
Period size: 137 Copynumber: 2.0 Consensus size: 137
17371227 TTTGTCATGT
*
17371237 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCATTTCATATCACGCTGCCATGGTATCTTTCAAC
*** * * * * *
17371302 CATGGTCTTATTTATTTCCCGTCATGTTGCCATTGTATCTTTCAACCATGGTC-TACACATTTCA
65 CATGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
17371366 TATCAGGC
130 TATCAGGC
*
17371374 TGCCATGGTATCTTTCAACCATGGTCTTA-CATGTTTCATATCAGGCTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTATCA--TTTCATATCACGCTGCCATGGTATCTTTCAA
*
17371438 CCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
64 CCATGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
17371503 ATATCAGG
129 ATATCAGG
17371511 TTGCTCACAC
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
135 2 0.02
137 103 0.84
138 18 0.15
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (137 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATCATTTCATATCACGCTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
ATCAGGC
Found at i:17371527 original size:23 final size:23
Alignment explanation
Indices: 17371494--17371537 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17371484 CCATGGTCTT
*
17371494 ACACATTTCATATCAGGTTGCTC
1 ACACATCTCATATCAGGTTGCTC
17371517 ACACATCTCATATCAGGTTGC
1 ACACATCTCATATCAGGTTGC
17371538 CATGGTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (23 bp):
ACACATCTCATATCAGGTTGCTC
Found at i:17371531 original size:69 final size:69
Alignment explanation
Indices: 17371448--17371583 Score: 245
Period size: 69 Copynumber: 2.0 Consensus size: 69
17371438 CCATGGTCTT
*
17371448 ACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
1 ACACATCTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
17371513 GCTC
66 GCTC
* *
17371517 ACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTT
1 ACACATCTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
17371582 GC
66 GC
17371584 CATGGTATCT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (69 bp):
ACACATCTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
GCTC
Found at i:17371611 original size:115 final size:115
Alignment explanation
Indices: 17371409--17371624 Score: 389
Period size: 115 Copynumber: 1.9 Consensus size: 115
17371399 CTTACATGTT
17371409 TCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGG
1 TCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGG
17371474 TATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCTCACACATC
66 TATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCTCACACATC
* * *
17371524 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
1 TCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGG
17371589 TATCTTTCAACCATGGTCTTACACATTTTCTATCAG
66 TATCTTTCAACCATGGTCTTACACATTTTCTATCAG
17371625 AGAGCACACT
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
115 93 0.96
116 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (115 bp):
TCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGG
TATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCTCACACATC
Found at i:17371624 original size:46 final size:46
Alignment explanation
Indices: 17371524--17371612 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
17371514 CTCACACATC
17371524 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTT
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTT
17371570 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
17371613 ATTTTCTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (46 bp):
TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTT
Found at i:17376158 original size:26 final size:26
Alignment explanation
Indices: 17376129--17376188 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
17376119 TCCCTTTGAA
* * *
17376129 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
17376155 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
17376183 CCATTC
1 TCATTC
17376189 TCAATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:17376197 original size:56 final size:57
Alignment explanation
Indices: 17376136--17376242 Score: 135
Period size: 57 Copynumber: 1.9 Consensus size: 57
17376126 GAATCATTCG
* *
17376136 ATATTTTGCACACTAAGTGTCAT-TCTCAATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACTAAGTATCATATCTCAATATCCCGCACACTAAGTGCCATTCTCA
* * * * * *
17376192 ATATTTTGTACACTGAGTATCATATTTGATTGTCCCGCACACTAAGTGCCA
1 ATATTTTGCACACTAAGTATCATATCTCAATATCCCGCACACTAAGTGCCA
17376243 CATTTTGTCG
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
56 20 0.48
57 22 0.52
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (57 bp):
ATATTTTGCACACTAAGTATCATATCTCAATATCCCGCACACTAAGTGCCATTCTCA
Found at i:17376204 original size:28 final size:28
Alignment explanation
Indices: 17376136--17376205 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
17376126 GAATCATTCG
*
17376136 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTTGCACACTAAGTGCCATTCTCA
* *
17376164 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACTAAGTGCCATTCTCA
*
17376192 ATATTTTGTACACT
1 ATATTTTGCACACT
17376206 GAGTATCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (28 bp):
ATATTTTGCACACTAAGTGCCATTCTCA
Found at i:17379692 original size:7 final size:7
Alignment explanation
Indices: 17379680--17379722 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
17379670 TTACATATTA
17379680 TAAATTT
1 TAAATTT
17379687 TAAATTT
1 TAAATTT
17379694 TAAATTT
1 TAAATTT
17379701 TAAATTT
1 TAAATTT
17379708 TAAATTT
1 TAAATTT
17379715 TAAATTT
1 TAAATTT
17379722 T
1 T
17379723 CGTATATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TAAATTT
Found at i:17383655 original size:64 final size:64
Alignment explanation
Indices: 17383582--17383706 Score: 196
Period size: 64 Copynumber: 2.0 Consensus size: 64
17383572 TCATTCATAA
* * * **
17383582 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATATCATCCTAATTATTTGACATAAGTAT
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGAATCCTAATTATTTGACATAAGTAT
*
17383646 CACATCTAGTTAAGAACATTTTATTCATGTCGATCATAGAATCCTAATTATTTGACATAAG
1 CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGAATCCTAATTATTTGACATAAG
17383707 CATAGGCTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAAGAACATTTGATTCATGTCGATCATAGAATCCTAATTATTTGACATAAGTAT
Found at i:17383961 original size:133 final size:133
Alignment explanation
Indices: 17383723--17384152 Score: 673
Period size: 133 Copynumber: 3.2 Consensus size: 133
17383713 CTTATGAAAC
* * * * *
17383723 AGATTGTAAATCTTGTCTCCTTGAAGTTGCAATGGACCAAAGCAAAGATGACGAATCTTGGCTTC
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGATGACGAATCTTGGCTTC
*
17383788 CTGAAGTTGCAGTGAAATAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
66 CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
17383853 TAA
131 TAA
* * * * *
17383856 AGATTGTAGATCTTGTCTCCCTAAAATTGCAGTGGGGCAAATCAAAGATAACGAATCTTGCCTTC
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGATGACGAATCTTGGCTTC
* * *
17383921 CTGAAGTTGCAATGAAACAGATTTAAGCCACCATCCTAGCTCTCTAGAGTTGTAGTGGAGTAGGC
66 CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
17383986 TAA
131 TAA
*
17383989 AGATTGTAGATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAAT-AGAAGATGACGAATCTTGGCTT
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCA-AAGATGACGAATCTTGGCTT
* *
17384053 CCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGAAGG
65 CCTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
*
17384118 CTGA
130 CTAA
*
17384122 AGATTATAGATCTTGTCTCCCTGAAGTTGCA
1 AGATTGTAGATCTTGTCTCCCTGAAGTTGCA
17384153 ACAGAGCAAA
Statistics
Matches: 268, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
132 1 0.00
133 267 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (133 bp):
AGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGATGACGAATCTTGGCTTC
CTGAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGC
TAA
Found at i:17384222 original size:89 final size:88
Alignment explanation
Indices: 17384093--17384327 Score: 274
Period size: 88 Copynumber: 2.6 Consensus size: 88
17384083 ACCATCCTAG
* * *
17384093 CTCCCTAAAGTTGTAGTGGAGA-AGGCTGAAGATTATAGATCTTGTCTCCCTGAAGTTGCAACAG
1 CTCCCT-AAGTCGTAG-GGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTGCAACAG
* * **
17384157 AGCAAATCGAAGACGGCAAGCCTTAA
64 AGCAAAT-AAAAAAAGCAAGCCTTAA
* * * * *
17384183 CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTGTAGATCTTGTCTTTCTGAAGTCGCAGCGGAG
1 CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTGCAACAGAG
17384248 CAAATAAAAAAAGCAAGCCTTAA
66 CAAATAAAAAAAGCAAGCCTTAA
* * * * * *
17384271 CACCCTAATTCGTAGGGTAACAGGCTGAAGTTTACAGATCTCGTCTCTCTGAAGTTG
1 CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTG
17384328 TAGTGGAACA
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 66 0.54
89 51 0.41
90 6 0.05
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (88 bp):
CTCCCTAAGTCGTAGGGTGACAGGCTGAAGATTATAGATCTTGTCTCTCTGAAGTTGCAACAGAG
CAAATAAAAAAAGCAAGCCTTAA
Found at i:17384340 original size:88 final size:88
Alignment explanation
Indices: 17384115--17384398 Score: 236
Period size: 88 Copynumber: 3.2 Consensus size: 88
17384105 GTAGTGGAGA
* * * * * * * * * **
17384115 AGGCTGAAGATTATAGATCTTGTCTCCCTGAAGTTGCAACAGAGCAAATCGAAGACGGCAAGCCT
1 AGGCTGAAGATTACAGATCTCGTCTCTCTGAAGTCGCAGCGGAACAAAT-AAAAAAAGCAAGCCT
* *
17384180 TAACTCCCTAAGTCGTAGGGTGAC
65 TAACACCCTAAGTCGTAGGGTAAC
** * * *
17384204 AGGCTGAAGATTGTAGATCTTGTCTTTCTGAAGTCGCAGCGGAGCAAATAAAAAAAGCAAGCCTT
1 AGGCTGAAGATTACAGATCTCGTCTCTCTGAAGTCGCAGCGGAACAAATAAAAAAAGCAAGCCTT
*
17384269 AACACCCTAATTCGTAGGGTAAC
66 AACACCCTAAGTCGTAGGGTAAC
* * * * * * *
17384292 AGGCTGAAGTTTACAGATCTCGTCTCTCTGAAGTTGTAGTGGAACAAATCAAACAAGGTGAA-CC
1 AGGCTGAAGATTACAGATCTCGTCTCTCTGAAGTCGCAGCGGAACAAAT-AAAAAAAG-CAAGCC
*
17384356 TTAAC-CCACTAAG-CAATAGGGTAAC
64 TTAACACC-CTAAGTC-GTAGGGTAAC
*
17384381 AGACTG-A-ATTACAGATCT
1 AGGCTGAAGATTACAGATCT
17384399 TATCTCCTTG
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
87 10 0.06
88 76 0.47
89 74 0.46
90 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (88 bp):
AGGCTGAAGATTACAGATCTCGTCTCTCTGAAGTCGCAGCGGAACAAATAAAAAAAGCAAGCCTT
AACACCCTAAGTCGTAGGGTAAC
Found at i:17385958 original size:46 final size:46
Alignment explanation
Indices: 17385689--17385962 Score: 359
Period size: 46 Copynumber: 6.0 Consensus size: 46
17385679 TTTGACATGA
* * * * ** * *
17385689 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
17385735 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
17385781 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
17385827 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
17385873 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
17385919 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
17385963 AGAGCACACT
Statistics
Matches: 206, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 206 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:17385962 original size:92 final size:92
Alignment explanation
Indices: 17385689--17385962 Score: 404
Period size: 92 Copynumber: 3.0 Consensus size: 92
17385679 TTTGACATGA
* * * **
17385689 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
** * *
17385754 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTACACATTTCATATCAGGC
* * **
17385781 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
17385846 CATGGTCTTACACATTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
* * *
17385873 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
17385938 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
17385963 AGAGCACACT
Statistics
Matches: 163, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 163 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:17391087 original size:46 final size:46
Alignment explanation
Indices: 17390976--17391250 Score: 325
Period size: 46 Copynumber: 6.0 Consensus size: 46
17390966 TTATCTTTGA
* * * * * **
17390976 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
**
17391023 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *** **
17391069 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
17391115 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * * * *
17391161 CAGGCTGCCATGATATCTTTCAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
17391207 CAAGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
17391251 ATCAGAGAGC
Statistics
Matches: 199, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
46 166 0.83
47 33 0.17
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:17391219 original size:138 final size:139
Alignment explanation
Indices: 17390976--17391240 Score: 361
Period size: 138 Copynumber: 1.9 Consensus size: 139
17390966 TTATCTTTGA
* * * ** * * * *
17390976 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGCTGCCATGATATCT
** * *
17391041 TTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTT
66 TTCAACCATGGTCTTACACATTTCATATCAAGCTGCCATGGTATCTTTCAACCATGGTCTTATTT
17391106 ATTTCCCGT
131 ATTTCCCGT
* *
17391115 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGATATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGCTGCCATGATATCT
* * *
17391179 TTCAACTATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTCTTA
66 TTCAACCATGGTCTTACACATTTCATATCAAGCTGCCATGGTATCTTTCAACCATGGTCTTA
17391241 CACATTTCAT
Statistics
Matches: 108, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
138 75 0.69
139 33 0.31
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (139 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGCTGCCATGATATCT
TTCAACCATGGTCTTACACATTTCATATCAAGCTGCCATGGTATCTTTCAACCATGGTCTTATTT
ATTTCCCGT
Found at i:17391255 original size:92 final size:92
Alignment explanation
Indices: 17390991--17391255 Score: 377
Period size: 92 Copynumber: 2.9 Consensus size: 92
17390981 TGCCATAGTG
**
17390991 TCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACTATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
** * * *
17391056 ATTCATTTCATGTCACGCTGCCATGGTA
65 ACACATTTCATATCAGGCTGCCATGATA
* * * **
17391084 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACTATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
17391149 CACATTTCATATCAGGCTGCCATGATA
66 CACATTTCATATCAGGCTGCCATGATA
* * * *
17391176 TCTTTCAACTATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACTATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
17391241 CACATTTCATATCAG
66 CACATTTCATATCAG
17391256 AGAGCACACT
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
92 132 0.87
93 20 0.13
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (92 bp):
TCTTTCAACTATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCAGGCTGCCATGATA
Found at i:17393429 original size:18 final size:20
Alignment explanation
Indices: 17393414--17393450 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17393404 TAATAATAAA
*
17393414 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
17393434 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
17393451 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:17395902 original size:11 final size:10
Alignment explanation
Indices: 17395882--17395918 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 10
17395872 TGTTAATTTG
17395882 TTTTTTATTA
1 TTTTTTATTA
17395892 TTTTATTATTA
1 TTTT-TTATTA
17395903 TTTTTATATTA
1 TTTTT-TATTA
17395914 TTTTT
1 TTTTT
17395919 ATTCATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:17396430 original size:131 final size:131
Alignment explanation
Indices: 17396088--17396444 Score: 446
Period size: 130 Copynumber: 2.7 Consensus size: 131
17396078 AACAAAAGCG
* * * * * *
17396088 ATGTTTGACGTTTAGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGT
1 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
* * * *
17396153 TCAAAACGATCGAATATTTCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCTAAATGAAGGC
66 TCAAAACAATCGAATATTCCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCAAAACGAAGGC
17396218 A
131 A
** * * * * *
17396219 ATACTCGATGCTTGTCAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGT
1 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
* ** * *
17396283 TCAAAACAATCGAATATTCCTTTGGAATTTCGTTCATGTCTTTAAAAATTCTTCAAAACGAATGT
66 TCAAAACAATCGAATATTCCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCAAAACGAAGGC
17396348 A
131 A
* * * * *
17396349 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTAGGTTGTGATCTCTTGTTTGT
1 ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
* *
17396414 TCCAAATAATCGAATATTCCTTTAGAATTTC
66 TCAAAACAATCGAATATTCCTTTAGAATTTC
17396445 ACTCATTCTA
Statistics
Matches: 188, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
130 111 0.59
131 77 0.41
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (131 bp):
ATGTTCGACGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGT
TCAAAACAATCGAATATTCCTTTAGAATTTCGCACATGTCTTTAAAAATTCTTCAAAACGAAGGC
A
Found at i:17397395 original size:24 final size:24
Alignment explanation
Indices: 17397366--17397412 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17397356 CCATAAAAAA
17397366 ATTAATGATTAATAACCAATCACC
1 ATTAATGATTAATAACCAATCACC
* * *
17397390 ATTAATTATTAATTATCAATCAC
1 ATTAATGATTAATAACCAATCAC
17397413 GTTTTAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (24 bp):
ATTAATGATTAATAACCAATCACC
Found at i:17422455 original size:21 final size:23
Alignment explanation
Indices: 17422431--17422473 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
17422421 TTGATAGTAT
17422431 AATTATATTATT-TAA-TATTTG
1 AATTATATTATTATAATTATTTG
*
17422452 AATTATTTTATTATAATTATTT
1 AATTATATTATTATAATTATTT
17422474 TTAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTATATTATTATAATTATTTG
Found at i:17430007 original size:21 final size:22
Alignment explanation
Indices: 17429978--17430024 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
17429968 CAGAAGGAGT
*
17429978 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
17430000 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
17430021 GAGT
1 GAGT
17430025 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:17448672 original size:15 final size:15
Alignment explanation
Indices: 17448649--17448698 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
17448639 TTTATTTAAT
17448649 TTATATTGATTGAAA
1 TTATATTGATTGAAA
*
17448664 TTATTTTGATTGAAA
1 TTATATTGATTGAAA
17448679 TTATATTGATTG-AA
1 TTATATTGATTGAAA
17448693 TTATAT
1 TTATAT
17448699 AATATATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 8 0.24
15 25 0.76
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:17449337 original size:19 final size:20
Alignment explanation
Indices: 17449313--17449354 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17449303 ATGAAACGAG
17449313 AAATTGA-AT-TGAGAATTGA
1 AAATTGAGATATGAG-ATTGA
17449332 AAATTGAGATATGAGATTGA
1 AAATTGAGATATGAGATTGA
17449352 AAA
1 AAA
17449355 CATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTGAGATATGAGATTGA
Found at i:17468056 original size:17 final size:16
Alignment explanation
Indices: 17468030--17468065 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
17468020 TAAAAATTGA
17468030 TAATTTTAATTATAAT
1 TAATTTTAATTATAAT
*
17468046 TAATATTTAATTATATT
1 TAAT-TTTAATTATAAT
17468063 TAA
1 TAA
17468066 CAAAGGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTTTAATTATAAT
Found at i:17485487 original size:27 final size:28
Alignment explanation
Indices: 17485427--17485488 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
17485417 ACCTCGAACC
17485427 TCGAGG-TTTAGGGTTTGGATTTAAGAT
1 TCGAGGTTTTAGGGTTTGGATTTAAGAT
** * *
17485454 TTAAGGTTTTA-GGTTTGGGTTTGAGAT
1 TCGAGGTTTTAGGGTTTGGATTTAAGAT
17485481 TCGAGGTT
1 TCGAGGTT
17485489 CGAGGTTCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (28 bp):
TCGAGGTTTTAGGGTTTGGATTTAAGAT
Found at i:17485497 original size:14 final size:14
Alignment explanation
Indices: 17485480--17485520 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17485470 GGGTTTGAGA
*
17485480 TTCGAGGTTCGAGG
1 TTCGAGGTTCAAGG
*
17485494 TTCGAGATTCAAGG
1 TTCGAGGTTCAAGG
*
17485508 TTCAAGGTTCAAG
1 TTCGAGGTTCAAG
17485521 ATTTAAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (14 bp):
TTCGAGGTTCAAGG
Found at i:17485500 original size:21 final size:21
Alignment explanation
Indices: 17485471--17485523 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
17485461 TTTAGGTTTG
* * *
17485471 GGTTTGAGATTCGAGGTTCGA
1 GGTTCGAGATTCAAGGTTCAA
17485492 GGTTCGAGATTCAAGGTTCAA
1 GGTTCGAGATTCAAGGTTCAA
*
17485513 GGTTCAAGATT
1 GGTTCGAGATT
17485524 TAAGTTTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (21 bp):
GGTTCGAGATTCAAGGTTCAA
Found at i:17490909 original size:46 final size:44
Alignment explanation
Indices: 17490850--17490964 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
17490840 ACAGGACAGA
* *
17490850 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
17490896 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
17490940 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
17490965 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:17490945 original size:44 final size:45
Alignment explanation
Indices: 17490850--17490983 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
17490840 ACAGGACAGA
* *
17490850 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
17490896 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
17490940 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17490984 TAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:17492369 original size:7 final size:7
Alignment explanation
Indices: 17492357--17492384 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17492347 AGGCCATTAC
17492357 ATGTTCA
1 ATGTTCA
17492364 ATGTTCA
1 ATGTTCA
17492371 ATGTTCA
1 ATGTTCA
17492378 ATGTTCA
1 ATGTTCA
17492385 CTATTCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
ATGTTCA
Found at i:17497588 original size:2 final size:2
Alignment explanation
Indices: 17497583--17497613 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17497573 GCTTCTTTAA
17497583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17497614 ACATTTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17502485 original size:19 final size:19
Alignment explanation
Indices: 17502463--17502500 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17502453 AGTTTTCAAT
17502463 TATTGTAAATT-TTTTTTAA
1 TATT-TAAATTATTTTTTAA
*
17502482 TATTTACATTATTTTTTAA
1 TATTTAAATTATTTTTTAA
17502501 AATACTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TATTTAAATTATTTTTTAA
Found at i:17506264 original size:18 final size:18
Alignment explanation
Indices: 17506241--17506283 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
17506231 GAATAGGTTT
*
17506241 TTAATTAAACTATTTT-AA
1 TTAATTAAA-AATTTTAAA
17506259 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATTTTAAA
17506277 TTAATTA
1 TTAATTA
17506284 CACGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAATTTTAAA
Found at i:17510261 original size:15 final size:15
Alignment explanation
Indices: 17510241--17510270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17510231 CATGAAAATT
17510241 ATTTTTTTATAATAA
1 ATTTTTTTATAATAA
*
17510256 ATTTTTTTATTATAA
1 ATTTTTTTATAATAA
17510271 CTTTAGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTTTTATAATAA
Found at i:17510263 original size:18 final size:18
Alignment explanation
Indices: 17510236--17510270 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17510226 TATAACATGA
*
17510236 AAATTATTTTTTTATAAT
1 AAATTATTTTATTATAAT
*
17510254 AAATTTTTTTATTATAA
1 AAATTATTTTATTATAA
17510271 CTTTAGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATTATTTTATTATAAT
Found at i:17521853 original size:126 final size:127
Alignment explanation
Indices: 17521605--17521961 Score: 491
Period size: 126 Copynumber: 2.8 Consensus size: 127
17521595 GAGAGGTCTG
* * * *
17521605 TTTTAGGTCAGACGCACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGGAAG
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATT-A-CAAGAGGAAG
* * * * *
17521670 TTGGCTGGCATGCCTCAAACTTAAAGTCGGCTGTATCGTAGGTAATCCGATTCTCTTCACCCTC
64 TTGGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATCGTAGATAATCAGATTCTCTTCACCCTC
* * *
17521734 TTTTATGTCAGATTTACTGTTGTCAATCTGAGGTTTCTCCAAATCATCCATTA-AAGAGGATGTT
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTACAAGAGGAAGTT
* * *
17521798 GGCTGGCAAGCCTCGAACTTAAAGTCAGTTGCATTGTAGATAATCAGATTCTCTTCACCCTC
66 GGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATCGTAGATAATCAGATTCTCTTCACCCTC
*
17521860 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTACCGTAGAGGAAG
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTA-C-AAGAGGAAG
* * **
17521925 TTGTCTGGCATGCCTCGAACTTAGAGTTGGCTGCATC
64 TTGGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATC
17521962 ATGGGCGATC
Statistics
Matches: 200, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
126 115 0.57
128 1 0.00
129 84 0.42
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (127 bp):
TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTACAAGAGGAAGTT
GGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATCGTAGATAATCAGATTCTCTTCACCCTC
Found at i:17522306 original size:28 final size:28
Alignment explanation
Indices: 17522274--17522329 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
17522264 GTATACATAG
17522274 TTTGACAGATGCCAACATATAGTTAAAA
1 TTTGACAGATGCCAACATATAGTTAAAA
*
17522302 TTTGATAGATGCCAACATATAGTTAAAA
1 TTTGACAGATGCCAACATATAGTTAAAA
17522330 GAAAGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTGACAGATGCCAACATATAGTTAAAA
Found at i:17525837 original size:25 final size:25
Alignment explanation
Indices: 17525819--17525866 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
17525809 AATTTAGTAT
*
17525819 TTTTA-TTGTTTTAAGAATTTAATCA
1 TTTTACTTGATTTAA-AATTTAATCA
17525844 TTTTACTTGATTTAAAATTTAAT
1 TTTTACTTGATTTAAAATTTAAT
17525867 TGATAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTTACTTGATTTAAAATTTAATCA
Found at i:17543140 original size:18 final size:18
Alignment explanation
Indices: 17543117--17543209 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
17543107 CCCAACTACT
*
17543117 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
17543135 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
17543153 ATATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* *
17543171 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
17543189 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
17543207 GTA
1 GTA
17543210 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:17543169 original size:36 final size:36
Alignment explanation
Indices: 17543118--17543209 Score: 139
Period size: 36 Copynumber: 2.6 Consensus size: 36
17543108 CCAACTACTG
* *
17543118 TATACGTGAACAGTACCGTATACGTGAATAGTGCCA
1 TATACGTGAATAGTACCGTATACGTAAATAGTGCCA
* *
17543154 TATACGTAAATAGTACCGTATACGTAAATAGTGCCG
1 TATACGTGAATAGTACCGTATACGTAAATAGTGCCA
*
17543190 TATACGTGAATAGTATCGTA
1 TATACGTGAATAGTACCGTA
17543210 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (36 bp):
TATACGTGAATAGTACCGTATACGTAAATAGTGCCA
Found at i:17548264 original size:27 final size:27
Alignment explanation
Indices: 17548226--17548280 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17548216 AATGGAAAAT
17548226 AAGAAAAATTCATTTTTCTTCTTCAAC
1 AAGAAAAATTCATTTTTCTTCTTCAAC
17548253 AAGAAAAATTCATTTTTCTTCTTCAAC
1 AAGAAAAATTCATTTTTCTTCTTCAAC
17548280 A
1 A
17548281 TTTTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (27 bp):
AAGAAAAATTCATTTTTCTTCTTCAAC
Found at i:17557879 original size:21 final size:20
Alignment explanation
Indices: 17557849--17557888 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
17557839 CCGCCACTCT
17557849 TTCTCCCCCTTAC-CCTCCCC
1 TTCTCCCCCTT-CTCCTCCCC
17557869 TTCTCGCCCCTTCTCCTCCC
1 TTCTC-CCCCTTCTCCTCCC
17557889 GAACGCCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.03, C:0.62, G:0.03, T:0.33
Consensus pattern (20 bp):
TTCTCCCCCTTCTCCTCCCC
Found at i:17558298 original size:10 final size:10
Alignment explanation
Indices: 17558271--17558300 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
17558261 TTTTATCTTC
*
17558271 TTCTTTTCTT
1 TTCTTTTTTT
17558281 TTCTTTTTTT
1 TTCTTTTTTT
17558291 TTCTTTTTTT
1 TTCTTTTTTT
17558301 AATTTGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:17566950 original size:26 final size:27
Alignment explanation
Indices: 17566921--17566971 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
17566911 TAAAAAAAAA
*
17566921 CCAAAATCAATT-TTTTTTTAAAAACC
1 CCAAAATCAATTGCTTTTTTAAAAACC
17566947 CCAAAATCAATTGCTTTTTTAAAAA
1 CCAAAATCAATTGCTTTTTTAAAAA
17566972 AAATAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (27 bp):
CCAAAATCAATTGCTTTTTTAAAAACC
Found at i:17572708 original size:13 final size:13
Alignment explanation
Indices: 17572690--17572714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17572680 AAATCGAGCC
17572690 ATAAATATTTATT
1 ATAAATATTTATT
17572703 ATAAATATTTAT
1 ATAAATATTTAT
17572715 GGAGTGTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAAATATTTATT
Found at i:17576174 original size:21 final size:22
Alignment explanation
Indices: 17576150--17576204 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
17576140 ATTAAATATT
17576150 TATTTTAATTTTTTTAATAA-A
1 TATTTTAATTTTTTTAATAATA
* **
17576171 TATTTTCA-TAATTTAATAATA
1 TATTTTAATTTTTTTAATAATA
*
17576192 TATTTTTATTTTT
1 TATTTTAATTTTT
17576205 GTTACAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 9 0.35
21 15 0.58
22 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTAATTTTTTTAATAATA
Found at i:17581820 original size:33 final size:33
Alignment explanation
Indices: 17581782--17581846 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
17581772 CCATGTTTTG
17581782 GAGTTAGGACAAGCACTAGATGGCTGGTGGTTA
1 GAGTTAGGACAAGCACTAGATGGCTGGTGGTTA
17581815 GAGTTAGGACAAGCACTAGATGGCTGGTGGTT
1 GAGTTAGGACAAGCACTAGATGGCTGGTGGTT
17581847 TGAGCCTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.25
Consensus pattern (33 bp):
GAGTTAGGACAAGCACTAGATGGCTGGTGGTTA
Found at i:17583235 original size:21 final size:21
Alignment explanation
Indices: 17583187--17583242 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
17583177 TGGTCGTGGG
* * *
17583187 GGAGGTGGAGGTGGTGGCGGC
1 GGAGGTGGAGGTGGAGGAGGA
*
17583208 GGGGGTGGAGGTGGAGGAGGA
1 GGAGGTGGAGGTGGAGGAGGA
*
17583229 GGAGGTGGCGGTGG
1 GGAGGTGGAGGTGG
17583243 CGGGTACGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.05, G:0.70, T:0.12
Consensus pattern (21 bp):
GGAGGTGGAGGTGGAGGAGGA
Found at i:17583279 original size:17 final size:17
Alignment explanation
Indices: 17583259--17583312 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
17583249 CGGATGGGGA
*
17583259 TGGGGTGGAGGAGGTGG
1 TGGGGAGGAGGAGGTGG
*
17583276 TGGGGAGGAGGCGG-GG
1 TGGGGAGGAGGAGGTGG
*
17583292 AGGGGGAGGAGGAGGTGG
1 -TGGGGAGGAGGAGGTGG
17583310 TGG
1 TGG
17583313 TTGGTATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.07
17 26 0.87
18 2 0.07
ACGTcount: A:0.15, C:0.02, G:0.72, T:0.11
Consensus pattern (17 bp):
TGGGGAGGAGGAGGTGG
Found at i:17585119 original size:21 final size:21
Alignment explanation
Indices: 17585095--17585209 Score: 69
Period size: 24 Copynumber: 5.3 Consensus size: 21
17585085 AGACTCATTC
17585095 ATATTATTTT-TTTAAATATTT
1 ATATTATTTTATTT-AATATTT
17585116 ATATTATTTTAATTTAATATTT
1 ATATTATTTT-ATTTAATATTT
**
17585138 ACTAGTT-TTATATATTTTTTATTT
1 A-TA-TTATT-T-TATTTAATATTT
*
17585162 ATTAATT-TTTTATATAATTATTT
1 A-T-ATTATTTTATTTAA-TATTT
* *
17585185 -TACTATTAT-TTTAATATTT
1 ATATTATTTTATTTAATATTT
17585204 ATATTA
1 ATATTA
17585210 AAATAATATT
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
19 5 0.07
20 10 0.14
21 14 0.19
22 12 0.16
23 13 0.18
24 18 0.24
25 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (21 bp):
ATATTATTTTATTTAATATTT
Found at i:17585137 original size:22 final size:21
Alignment explanation
Indices: 17585095--17585138 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
17585085 AGACTCATTC
17585095 ATATTATTTTTTTAAATATTT
1 ATATTATTTTTTTAAATATTT
17585116 ATATTATTTTAATTT-AATATTT
1 ATATTATTTT--TTTAAATATTT
17585138 A
1 A
17585139 CTAGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 8 0.38
23 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTATTTTTTTAAATATTT
Found at i:17589305 original size:26 final size:24
Alignment explanation
Indices: 17589265--17589324 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
17589255 TTATTTCATT
* * *
17589265 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
17589289 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
17589315 AAATAAATAT
1 AAATAAATAT
17589325 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:17589336 original size:22 final size:22
Alignment explanation
Indices: 17589295--17589353 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
17589285 ATAATAAATC
* *
17589295 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
17589315 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
17589337 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
17589354 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:17589430 original size:15 final size:16
Alignment explanation
Indices: 17589400--17589432 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17589390 AAATAGTTAT
17589400 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
17589417 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
17589432 A
1 A
17589433 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:17592369 original size:20 final size:22
Alignment explanation
Indices: 17592344--17592390 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
17592334 TTTGGTCTTG
*
17592344 ATTTAATT-TTTTATATTT-TA
1 ATTTAATTCTTGTATATTTATA
*
17592364 ATTTAATTCTTGTATTTTTATA
1 ATTTAATTCTTGTATATTTATA
17592386 ATTTA
1 ATTTA
17592391 TTAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 8 0.35
22 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTAATTCTTGTATATTTATA
Found at i:17593090 original size:24 final size:24
Alignment explanation
Indices: 17593063--17593111 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17593053 ATTTGAATGT
17593063 ACTAAATCATATTAGAATTATTTA
1 ACTAAATCATATTAGAATTATTTA
*
17593087 ACTAAATCGTATTAGAATTATTTA
1 ACTAAATCATATTAGAATTATTTA
17593111 A
1 A
17593112 TTATTACTTT
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:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (24 bp):
ACTAAATCATATTAGAATTATTTA
Found at i:17593441 original size:18 final size:18
Alignment explanation
Indices: 17593407--17593441 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17593397 AAAAAAATGA
*
17593407 TTAATTATAATTATTTTT
1 TTAATTATAATCATTTTT
17593425 TTAATTAT-ATCATTTTT
1 TTAATTATAATCATTTTT
17593442 ATAACATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTATAATCATTTTT
Found at i:17596458 original size:5 final size:5
Alignment explanation
Indices: 17596448--17596513 Score: 84
Period size: 5 Copynumber: 13.2 Consensus size: 5
17596438 AATTATGTTT
17596448 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA -TATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
17596496 TTATTA TTATA TATATA T
1 TTA-TA TTATA T-TATA T
17596514 GACAAAGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.04
4 6 0.11
5 32 0.58
6 15 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:17596473 original size:14 final size:13
Alignment explanation
Indices: 17596449--17596507 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 13
17596439 ATTATGTTTT
17596449 TATATTATATT-A
1 TATATTATATTAA
*
17596461 T-TATTA-ATATAT
1 TATATTATAT-TAA
17596473 TATATTATATTATA
1 TATATTATATTA-A
17596487 TATATTATATT-A
1 TATATTATATTAA
17596499 T-TATTATAT
1 TATATTATAT
17596508 ATATATGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
10 2 0.05
11 14 0.35
12 4 0.10
13 7 0.17
14 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATATTATATTAA
Found at i:17596473 original size:19 final size:20
Alignment explanation
Indices: 17596449--17596511 Score: 112
Period size: 19 Copynumber: 3.2 Consensus size: 20
17596439 ATTATGTTTT
17596449 TATATTATATTATTATTA-A
1 TATATTATATTATTATTATA
17596468 TATATTATATTA-TATTATA
1 TATATTATATTATTATTATA
17596487 TATATTATATTATTATTATA
1 TATATTATATTATTATTATA
17596507 TATAT
1 TATAT
17596512 ATGACAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.12
19 25 0.60
20 12 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTATATTATTATTATA
Found at i:17596510 original size:24 final size:23
Alignment explanation
Indices: 17596456--17596513 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
17596446 TTTTATATTA
17596456 TATTATTATTA-ATATA-T-TA-
1 TATTATTATTATATATATTATAT
17596475 TATTA-TATTATATATATTATAT
1 TATTATTATTATATATATTATAT
17596497 TATTATTA-TATATATAT
1 TATTATTATTATATATAT
17596514 GACAAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.15
19 10 0.29
20 1 0.03
21 2 0.06
22 14 0.41
23 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTATTATTATATATATTATAT
Found at i:17596582 original size:40 final size:40
Alignment explanation
Indices: 17596522--17596617 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
17596512 ATGACAAAGA
*
17596522 AAGAAAGAAAAGAAATAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
17596563 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
17596603 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
17596618 GAAAGAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 32 0.65
41 17 0.35
ACGTcount: A:0.64, C:0.07, G:0.28, T:0.01
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:17597382 original size:29 final size:30
Alignment explanation
Indices: 17597323--17597380 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17597313 TCCGAGCCTT
*
17597323 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
17597353 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
17597381 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:17597610 original size:13 final size:13
Alignment explanation
Indices: 17597592--17597623 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17597582 TTTCCAGCAA
17597592 TTATGAATTTATT
1 TTATGAATTTATT
17597605 TTATGAATTTATT
1 TTATGAATTTATT
*
17597618 TGATGA
1 TTATGA
17597624 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:17597846 original size:50 final size:51
Alignment explanation
Indices: 17597718--17597966 Score: 297
Period size: 50 Copynumber: 4.8 Consensus size: 51
17597708 ATTTGGGTAA
17597718 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCATG
* * * *
17597774 AGAGCTCCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * *
17597824 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * * * *
17597874 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* *
17597924 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17597967 TGTTATTATC
Statistics
Matches: 173, Mismatches: 18, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 95 0.55
51 36 0.21
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (51 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
Found at i:17597908 original size:100 final size:103
Alignment explanation
Indices: 17597718--17597967 Score: 328
Period size: 100 Copynumber: 2.4 Consensus size: 103
17597708 ATTTGGGTAA
17597718 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGCTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGCTCCC
* * * * *
17597783 CTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * * *
17597824 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGCTCCCCTA
17597886 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
17597924 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
17597968 GTTATTATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 47 0.36
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGCTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:17599834 original size:39 final size:40
Alignment explanation
Indices: 17599760--17599903 Score: 188
Period size: 39 Copynumber: 3.6 Consensus size: 40
17599750 GCTACTCGTT
* * *
17599760 CAAATGCCTTCGGGACATAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
17599800 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
17599839 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCA
17599879 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17599904 CATCATTCGA
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 58 0.62
40 34 0.37
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:17607405 original size:39 final size:40
Alignment explanation
Indices: 17607315--17607477 Score: 192
Period size: 39 Copynumber: 4.1 Consensus size: 40
17607305 CGAAATTTAA
** *
17607315 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17607355 CCGGTTATAGTAACTCGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
17607394 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTATC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17607433 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
17607473 CCGGA
1 CCGGA
17607478 CATCATTCGA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 60 0.56
40 46 0.43
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:17616453 original size:15 final size:15
Alignment explanation
Indices: 17616433--17616472 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17616423 AGTCAAAGTA
*
17616433 TAATTTTAATTTTAT
1 TAATTTAAATTTTAT
17616448 TAATTTAAATTTTAT
1 TAATTTAAATTTTAT
*
17616463 AAACTTTAAA
1 TAA-TTTAAA
17616473 AGGGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTAAATTTTAT
Found at i:17620807 original size:25 final size:23
Alignment explanation
Indices: 17620761--17620822 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
17620751 GTAAGCATGT
*
17620761 ATGTACATAT-TA-AATATAAAA
1 ATGTACATATATATATTATAAAA
*
17620782 ACGTGTACATATATATATTATGAAA
1 A--TGTACATATATATATTATAAAA
*
17620807 ATGTATATATATATAT
1 ATGTACATATATATAT
17620823 AGATATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.03
23 23 0.68
24 2 0.06
25 8 0.24
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (23 bp):
ATGTACATATATATATTATAAAA
Found at i:17620911 original size:3 final size:3
Alignment explanation
Indices: 17620872--17620981 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
17620862 ATGTATTAGT
* * *
17620872 ATA ATA GTA ATAA ATA AAA AGA A-A ATA A-A ACTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA
* **
17620918 ATA GTA ATA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
17620964 AT- ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
17620982 GAGCAAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:17622551 original size:41 final size:41
Alignment explanation
Indices: 17622481--17622766 Score: 134
Period size: 41 Copynumber: 6.8 Consensus size: 41
17622471 AATTCTTCAG
* * *
17622481 TCTACTCCACTGTAATCTCAGGGAAATAAGACCTGACACGA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGACCTGACACAA
* * *
17622522 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TCATTTTAA
1 TCTACTCCACTGTAATC-TCAGAGAGATAAGA-CCTGACA---CAA
** * * * *
17622566 TCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAACAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGACCTGACACAA
* * *
17622607 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TCATTTTAA
1 TCTACTCCACTGTAATC-TCAGAGAGATAAGA-CCTGACA---CAA
** * * * * *
17622651 TCCGCTCCACTGTAATATCAGGGAGATAGGATTACT-ATCTTCAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGA--CCTGA-C-ACAA
* * * * * *
17622695 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAACGA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGACCTGACACAA
*
17622736 TCTACTCTACTGTAA-CTTCAGAGAGATAAGA
1 TCTACTCCACTGTAATC-TCAGAGAGATAAGA
17622767 TCCTTCGTTT
Statistics
Matches: 181, Mismatches: 46, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
40 3 0.02
41 82 0.45
42 7 0.04
43 3 0.02
44 81 0.45
45 4 0.02
46 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (41 bp):
TCTACTCCACTGTAATCTCAGAGAGATAAGACCTGACACAA
Found at i:17622579 original size:44 final size:43
Alignment explanation
Indices: 17622530--17623023 Score: 229
Period size: 44 Copynumber: 11.6 Consensus size: 43
17622520 GATCTACTCT
* *
17622530 ACTGTAACT-TCAGAGAGATAAGATCCTTCATTTTAATCCGCTCC
1 ACTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCC
* * * ** ** *
17622574 ACTGTAATCTCAGGGAGATAGGATC-TGA-AACAATCTACTCT
1 ACTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCC
* *
17622615 ACTGTAACT-TCAGAGAGATAAGATCCTTCATTTTAATCCGCTCC
1 ACTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCC
* * *
17622659 ACTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCC
1 ACTGTAATATCAGGGAGATAAGATCTTC-AT-TTCAATCCGCTCC
* * * ** * ** *
17622703 GCTGTAATCTCAGGGAGATAAGATC-TGA-AACGATCTACTCT
1 ACTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCC
* * *
17622744 ACTGTAACT-TCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCC
1 ACTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCC
* * *
17622788 ACTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCC
1 ACTGTAATATCAGGGAGATAAGATCTTC-AT-TTCAATCCGCTCC
* * * **
17622832 GCTGTAATCTCAGGGAGATAAGATCTGCCATCTTCAATGTGCTCC
1 ACTGTAATATCAGGGAGATAAGATCT-TCAT-TTCAATCCGCTCC
* ** * ** *
17622877 AC--T--T-T--GGGAGATAAGATC-TGA-AACGATCTACTCT
1 ACTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCC
* * * *
17622911 ACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTAATCCACTCC
1 ACTGTAA-TATCAGGGAGATAAGAT-CTTCATTTCAATCCGCTCC
* * * * *
17622955 ACTGTAATCTCA-GGAGATAGGAT-TACTAGCTTCAATCTGCTCC
1 ACTGTAATATCAGGGAGATAAGATCTTC-A-TTTCAATCCGCTCC
*
17622998 ACTGTAATTTCAGGGAGATAAGATCT
1 ACTGTAATATCAGGGAGATAAGATCT
17623024 GAAATTCTTT
Statistics
Matches: 335, Mismatches: 82, Indels: 65
0.70 0.17 0.13
Matches are distributed among these distances:
34 9 0.03
36 2 0.01
38 13 0.04
39 2 0.01
40 1 0.00
41 68 0.20
42 12 0.04
43 45 0.13
44 164 0.49
45 18 0.05
46 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ACTGTAATATCAGGGAGATAAGATCTTCATTTCAATCCGCTCC
Found at i:17622675 original size:85 final size:85
Alignment explanation
Indices: 17622485--17622682 Score: 342
Period size: 85 Copynumber: 2.3 Consensus size: 85
17622475 CTTCAGTCTA
* * * * *
17622485 CTCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACAATCTACTCTACTGTAACTTCAGAGAGATA
17622550 AGATCCTTCATTTTAATCCG
66 AGATCCTTCATTTTAATCCG
17622570 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACAATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACAATCTACTCTACTGTAACTTCAGAGAGATA
17622635 AGATCCTTCATTTTAATCCG
66 AGATCCTTCATTTTAATCCG
*
17622655 CTCCACTGTAATATCAGGGAGATAGGAT
1 CTCCACTGTAATCTCAGGGAGATAGGAT
17622683 TACTATCTTC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 107 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (85 bp):
CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACAATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTCATTTTAATCCG
Found at i:17622712 original size:129 final size:129
Alignment explanation
Indices: 17622564--17622858 Score: 545
Period size: 129 Copynumber: 2.3 Consensus size: 129
17622554 CCTTCATTTT
* * *
17622564 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAACAATCTACTCTACTGTAACTTCAGA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAACAATCTACTCTACTGTAACTTCAGA
17622629 GAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTC
66 GAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTC
*
17622693 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAACAATCTACTCTACTGTAACTTCAGA
*
17622758 GAGATAAGATCCTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTC
66 GAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTC
17622822 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
17622859 CCATCTTCAA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 161 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (129 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAACAATCTACTCTACTGTAACTTCAGA
GAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTC
Found at i:17622906 original size:167 final size:166
Alignment explanation
Indices: 17622715--17623024 Score: 548
Period size: 167 Copynumber: 1.9 Consensus size: 166
17622705 TGTAATCTCA
*
17622715 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAA
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
* * *
17622780 TCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAG
66 TCCACTCCACTGTAATATCA-GGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
17622845 GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
130 GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
*
17622882 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
* *
17622947 TCCACTCCACTGTAATCTCAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATTTCAGG
66 TCCACTCCACTGTAATATCAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGG
17623012 GAGATAAGATCTG
131 GAGATAAGATCTG
17623025 AAATTCTTTG
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
166 55 0.40
167 81 0.60
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (166 bp):
GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
TCCACTCCACTGTAATATCAGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGG
GAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
Found at i:17637989 original size:29 final size:28
Alignment explanation
Indices: 17637954--17638011 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
17637944 TTATAATTTT
*
17637954 ATTATATATT-AC-TATTTATATTATTAA
1 ATTAAATATTCACATATTTATATTA-TAA
17637981 ATTAAATATTCACATATTTATATTATAA
1 ATTAAATATTCACATATTTATATTATAA
17638009 ATT
1 ATT
17638012 GTTAGTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 9 0.32
28 8 0.29
29 11 0.39
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAAATATTCACATATTTATATTATAA
Found at i:17641826 original size:10 final size:10
Alignment explanation
Indices: 17641771--17641826 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
17641761 ATATTTTACG
17641771 TTTTATTATAT
1 TTTTA-TATAT
17641782 TATTTAT-TA-
1 T-TTTATATAT
*
17641791 TTTTAGATAT
1 TTTTATATAT
17641801 GTTTTAATATAT
1 -TTTT-ATATAT
17641813 TTTTATATAT
1 TTTTATATAT
17641823 TTTT
1 TTTT
17641827 TGTATATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 12 0.32
11 10 0.26
12 9 0.24
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:17646193 original size:21 final size:21
Alignment explanation
Indices: 17646151--17646193 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17646141 TTCACTATAC
*
17646151 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
17646172 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
17646193 A
1 A
17646194 ATCTATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:17647302 original size:39 final size:37
Alignment explanation
Indices: 17647235--17647327 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
17647225 ACCAGAATGG
* *
17647235 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
17647274 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
17647311 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
17647328 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:17648441 original size:20 final size:20
Alignment explanation
Indices: 17648407--17648446 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17648397 TTCTATTCTG
*
17648407 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
17648427 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
17648447 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:17648613 original size:31 final size:28
Alignment explanation
Indices: 17648577--17648644 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
17648567 TTGTCTTTAT
**
17648577 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
17648607 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
17648636 TTAATTTAT
1 TTAATTTAT
17648645 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:17648661 original size:21 final size:20
Alignment explanation
Indices: 17648623--17648661 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17648613 TAATTTAATA
*
17648623 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
17648643 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
17648662 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:17657657 original size:6 final size:7
Alignment explanation
Indices: 17657640--17657664 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17657630 GAGAATCCAA
17657640 AAAAAAT
1 AAAAAAT
17657647 AAAAAAT
1 AAAAAAT
17657654 AAAAAAT
1 AAAAAAT
17657661 AAAA
1 AAAA
17657665 TCAAAAGATA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:17671499 original size:8 final size:8
Alignment explanation
Indices: 17671485--17671513 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17671475 GGTTGCAGAG
17671485 GTTTTTTT
1 GTTTTTTT
17671493 -TTTTTTT
1 GTTTTTTT
17671500 GTTTTTTT
1 GTTTTTTT
17671508 GTTTTT
1 GTTTTT
17671514 GTGTGTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
GTTTTTTT
Found at i:17676579 original size:30 final size:30
Alignment explanation
Indices: 17676543--17676607 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
17676533 ACATATTTTA
* *
17676543 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAAACAT
17676573 TTGTTAATTTTATTATTATTTTAAAAACAT
1 TTGTTAATTTTATTATTATTTTAAAAACAT
17676603 TTGTT
1 TTGTT
17676608 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAAACAT
Found at i:17677982 original size:11 final size:11
Alignment explanation
Indices: 17677966--17678007 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
17677956 TAGCTATTTA
17677966 TAATAAAATAT
1 TAATAAAATAT
17677977 TAATAAAATATCT
1 TAATAAAATA--T
*
17677990 TATTAAAATAT
1 TAATAAAATAT
17678001 TAATAAA
1 TAATAAA
17678008 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 17 0.63
13 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:17706847 original size:17 final size:18
Alignment explanation
Indices: 17706825--17706858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17706815 TTTCTTCTTC
17706825 TTTTTTG-TTTTACTTTA
1 TTTTTTGTTTTTACTTTA
17706842 TTTTTTGTTTTTACTTT
1 TTTTTTGTTTTTACTTT
17706859 TAAAAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTTGTTTTTACTTTA
Found at i:17708099 original size:6 final size:6
Alignment explanation
Indices: 17708081--17708113 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
17708071 AATGAATGAA
*
17708081 ATGAGC ATAAGC ATGAGC ATGAGC ATGAGC ATG
1 ATGAGC ATGAGC ATGAGC ATGAGC ATGAGC ATG
17708114 TAAAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.18
Consensus pattern (6 bp):
ATGAGC
Found at i:17720656 original size:17 final size:17
Alignment explanation
Indices: 17720619--17720652 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17720609 AATTGATCTA
17720619 ATTTAAATTATATTATT
1 ATTTAAATTATATTATT
17720636 ATTTAAA-TATATT-TT
1 ATTTAAATTATATTATT
17720651 AT
1 AT
17720653 ATTTTGCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTAAATTATATTATT
Found at i:17720795 original size:22 final size:20
Alignment explanation
Indices: 17720755--17720793 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17720745 AATATTTAAA
17720755 TTATTAAAAAATATAAAATG
1 TTATTAAAAAATATAAAATG
*
17720775 TTATATAAAAAATTTAAAA
1 TTAT-TAAAAAATATAAAA
17720794 ATAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
TTATTAAAAAATATAAAATG
Found at i:17725020 original size:25 final size:26
Alignment explanation
Indices: 17724975--17725029 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
17724965 CAACCCAATC
*
17724975 ATAAAAATTACAAATAATTTA-ATAA
1 ATAAAAATTACAAATAATTTATACAA
17725000 ATAAAAA-TA-AATATAATTTTATACAA
1 ATAAAAATTACAA-ATAA-TTTATACAA
17725026 ATAA
1 ATAA
17725030 TTCGGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 11 0.42
26 7 0.27
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAAAAATTACAAATAATTTATACAA
Done.