Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 91 of 130
Found at i:17917428 original size:17 final size:16
Alignment explanation
Indices: 17917398--17917429 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
17917388 TATTTCTTGT
17917398 TTTATTTTTTATTTTA
1 TTTATTTTTTATTTTA
17917414 TTTATTTTGTTATTTT
1 TTTATTTT-TTATTTT
17917430 TTATGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTATTTTA
Found at i:17917452 original size:3 final size:3
Alignment explanation
Indices: 17917444--17917495 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
17917434 GATATTACTG
17917444 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17917492 TTA T
1 TTA T
17917496 ATGTTACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17917893 original size:16 final size:16
Alignment explanation
Indices: 17917872--17917904 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17917862 AAGATTTATT
17917872 TAAACAATATAAAAAA
1 TAAACAATATAAAAAA
*
17917888 TAAACAATGTAAAAAA
1 TAAACAATATAAAAAA
17917904 T
1 T
17917905 GTTTCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.06, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAACAATATAAAAAA
Found at i:17918046 original size:20 final size:19
Alignment explanation
Indices: 17918008--17918061 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
17917998 AAAGTTATTT
17918008 AAATAATAAAAA-AAT-GA
1 AAATAATAAAAATAATAGA
17918025 AAATAATAAATAATAATAGA
1 AAATAATAAA-AATAATAGA
*
17918045 AAATAAGAAAAATAATA
1 AAATAATAAAAATAATA
17918062 ACAATAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 10 0.30
18 2 0.06
19 10 0.30
20 11 0.33
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAATAATAAAAATAATAGA
Found at i:17918057 original size:29 final size:27
Alignment explanation
Indices: 17918009--17918062 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 27
17917999 AAGTTATTTA
17918009 AATAATAAAAAAATGAAAATAATAAAT
1 AATAATAAAAAAATGAAAATAATAAAT
17918036 AATAATAGAAAATAA-GAAAAATAATAA
1 AATAATA-AAAA-AATG-AAAATAATAA
17918063 CAATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.29
28 5 0.21
29 12 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (27 bp):
AATAATAAAAAAATGAAAATAATAAAT
Found at i:17921492 original size:29 final size:28
Alignment explanation
Indices: 17921448--17921701 Score: 205
Period size: 28 Copynumber: 8.9 Consensus size: 28
17921438 AGTTTCAGAT
*
17921448 TTTGAAGTTT-AGGTTTTTGATTTTAGGG
1 TTTGAGGTTTGAGG-TTTTGATTTTAGGG
* * *
17921476 TTTGAGATTTGGGGTTTTGATTTTAAGG
1 TTTGAGGTTTGAGGTTTTGATTTTAGGG
* *
17921504 TTTGAGG-TTGAAGTTTTGGTTTTAGGG
1 TTTGAGGTTTGAGGTTTTGATTTTAGGG
* *
17921531 TTTAGAGGATTTAAGGTTTTAATTTTAGGG
1 TTT-GAGG-TTTGAGGTTTTGATTTTAGGG
* *
17921561 TTTTGAGGTTT-AGGATTTAATTTTAGGG
1 -TTTGAGGTTTGAGGTTTTGATTTTAGGG
* * *
17921589 TTTGAAGGGTTT-AGGGTTTCATTTTAAGG
1 TTTG-A-GGTTTGAGGTTTTGATTTTAGGG
* * *
17921618 TTTGGAGGTTTG-GGGTTTAATTTTAAGG
1 TTT-GAGGTTTGAGGTTTTGATTTTAGGG
* *
17921646 TTTGAAGGTTTGAAGTTTTGATTTTAAGG
1 TTTG-AGGTTTGAGGTTTTGATTTTAGGG
*
17921675 TTTAGAGTGTTTG-GGGTTTGATTTTAG
1 TTT-GAG-GTTTGAGGTTTTGATTTTAG
17921702 CATTTTAATT
Statistics
Matches: 189, Mismatches: 24, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
27 24 0.13
28 78 0.41
29 57 0.30
30 27 0.14
31 3 0.02
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (28 bp):
TTTGAGGTTTGAGGTTTTGATTTTAGGG
Found at i:17921563 original size:57 final size:55
Alignment explanation
Indices: 17921462--17921677 Score: 177
Period size: 57 Copynumber: 3.8 Consensus size: 55
17921452 AAGTTTAGGT
* *
17921462 TTTTGATTTTAGGGTTTGA-GATTTGGGGTTTTGATTTTAAGGTTTGAGGTTGAAG
1 TTTTGATTTTAGGGTTTGAGGATTT-AGGTTTTAATTTTAAGGTTTGAGGTTGAAG
* * * *
17921517 TTTTGGTTTTAGGGTTTAGAGGATTTAAGGTTTTAATTTTAGGGTTTTGAGGTTTAGG
1 TTTTGATTTTAGGGTTT-GAGGATTT-AGGTTTTAATTTTAAGG-TTTGAGGTTGAAG
* * * * * *
17921575 ATTTAATTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTAAGGTTTGGAGGTTTG-GG
1 TTTTGATTTTAGGGTTTG-AGGATTTAGGTTTTAATTTTAAGGTTT-GAGG-TTGAAG
* * * * *
17921632 GTTTAATTTTAAGGTTTGAAGG-TTTGAAGTTTTGATTTTAAGGTTT
1 TTTTGATTTTAGGGTTTG-AGGATTT-AGGTTTTAATTTTAAGGTTT
17921678 AGAGTGTTTG
Statistics
Matches: 134, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
55 16 0.12
56 8 0.06
57 77 0.57
58 33 0.25
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (55 bp):
TTTTGATTTTAGGGTTTGAGGATTTAGGTTTTAATTTTAAGGTTTGAGGTTGAAG
Found at i:17921881 original size:3 final size:3
Alignment explanation
Indices: 17921873--17921944 Score: 74
Period size: 3 Copynumber: 24.3 Consensus size: 3
17921863 TTATGAAAAT
* * * * * * *
17921873 TTA TTA TTA ATA ATA TTA TTA AT- TTA ATA ATA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17921920 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
17921945 GCTTTTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
2 1 0.02
3 61 0.98
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:17921906 original size:23 final size:23
Alignment explanation
Indices: 17921870--17921916 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
17921860 TTTTTATGAA
* *
17921870 AATTTATTATTAATAATATTATT
1 AATTTAATAATAATAATATTATT
17921893 AATTTAATAATAATAATATTATT
1 AATTTAATAATAATAATATTATT
17921916 A
1 A
17921917 TTATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTAATAATAATAATATTATT
Found at i:17922110 original size:3 final size:3
Alignment explanation
Indices: 17922104--17922133 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17922094 ATTTATTCAA
17922104 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17922134 GCTTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17922153 original size:32 final size:31
Alignment explanation
Indices: 17922117--17922183 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
17922107 TATTATTATT
*
17922117 ATTATTATTATTATTAT-GCTTTTTTTAATTTA
1 ATTATTATTATTATTATACCTTTTTTT--TTTA
* *
17922149 ATTATTATTCTTTTTATACCTTTTTTTTTTA
1 ATTATTATTATTATTATACCTTTTTTTTTTA
17922180 ATTA
1 ATTA
17922184 ATCTTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.26
32 15 0.48
33 8 0.26
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.67
Consensus pattern (31 bp):
ATTATTATTATTATTATACCTTTTTTTTTTA
Found at i:17922317 original size:189 final size:189
Alignment explanation
Indices: 17921915--17922300 Score: 661
Period size: 189 Copynumber: 2.1 Consensus size: 189
17921905 ATAATATTAT
17921915 TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATCATTCTTTTTATACC
1 TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATCATTCTTTTTATACC
* * *
17921980 TTCTTTTTTTAATTAATCTTTATATAATAATTTTTCAACATCTAAGCAGAATTATTTTTACAAGT
66 TTCTTTTTTTAATTAATCTTTATATAATAATTTCTCAACATCTAAGCAAAATTATTTTTAAAAGT
* * *
17922045 ACGTTTTTATTCCCTCTAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTTATTCAA
131 ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTAATTCAA
*
17922104 TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATTATTCTTTTTATACC
1 TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATCATTCTTTTTATACC
* *
17922169 TTTTTTTTTTAATTAATCTTTATATAATAATTTCTCAACATCTAGGCAAAATTATTTTTAAAAGT
66 TTCTTTTTTTAATTAATCTTTATATAATAATTTCTCAACATCTAAGCAAAATTATTTTTAAAAGT
*
17922234 ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAATAAA-TAATTCAA
131 ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTAATTCAA
17922292 T-TT-TTATTA
1 TATTATTATTA
17922301 CGTTTTAGAT
Statistics
Matches: 187, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
186 6 0.03
187 2 0.01
188 8 0.04
189 171 0.91
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (189 bp):
TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATCATTCTTTTTATACC
TTCTTTTTTTAATTAATCTTTATATAATAATTTCTCAACATCTAAGCAAAATTATTTTTAAAAGT
ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTAATTCAA
Found at i:17922339 original size:19 final size:17
Alignment explanation
Indices: 17922303--17922351 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
17922293 TTTTATTACG
17922303 TTTTAGATTATTATTTT
1 TTTTAGATTATTATTTT
*
17922320 TTTTAGCATTTTTAATTTT
1 TTTTAG-ATTATT-ATTTT
17922339 TTTTAG-TTATTAT
1 TTTTAGATTATTAT
17922352 CCTACTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 10 0.36
18 5 0.18
19 11 0.39
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTAGATTATTATTTT
Found at i:17922340 original size:18 final size:17
Alignment explanation
Indices: 17922303--17922350 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
17922293 TTTTATTACG
*
17922303 TTTTAGATTATTATTTT
1 TTTTAGATTATTAATTT
*
17922320 TTTTAGCATTTTTAATTTT
1 TTTTAG-ATTATTAA-TTT
17922339 TTTTAG-TTATTA
1 TTTTAGATTATTA
17922351 TCCTACTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.42
18 6 0.23
19 9 0.35
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTAGATTATTAATTT
Found at i:17922389 original size:189 final size:188
Alignment explanation
Indices: 17921915--17922352 Score: 553
Period size: 189 Copynumber: 2.3 Consensus size: 188
17921905 ATAATATTAT
* * * * *
17921915 TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATCATTCTTTTTATACC
1 TATTATTATTATTATTATTATTATTATTATGCTATTTTTAATTT-ATTATTATTATTATCATACC
* * * * *
17921980 TTCTTTTTTTAATTAATCTTTATATAATAATTTTTCAACATCTAAGCAGAATTATTTTTACAAGT
65 TTTTTTTTTTAATTAATCTTTATAAAATAATTTCTCAACATCTAAGCAAAATTATTTTTAAAAGT
* * *
17922045 ACGTTTTTATTCCCTCTAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTTATTCAA
130 ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTAATTCAA
* * * *
17922104 TATTATTATTATTATTATTATTATTATTATGCTTTTTTTAATTTAATTATTATTCTTTTTATACC
1 TATTATTATTATTATTATTATTATTATTATGCTATTTTTAATTT-ATTATTATTATTATCATACC
* *
17922169 TTTTTTTTTTAATTAATCTTTATATAATAATTTCTCAACATCTAGGCAAAATTATTTTTAAAAGT
65 TTTTTTTTTTAATTAATCTTTATAAAATAATTTCTCAACATCTAAGCAAAATTATTTTTAAAAGT
*
17922234 ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAATAAA-TAATTCAA
130 ACATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTAATTCAA
* * * *
17922292 TTTTTATTACGTT-TTAGATTATTATTTTTTTTA-GC-ATTTTTAATTT-TTTTTAGTTATTATC
1 -TATTATTA--TTATT--ATTATTATTATTATTATGCTATTTTTAATTTATTATTA-TTATTATC
17922353 CTACTTGTTT
Statistics
Matches: 225, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
188 12 0.05
189 183 0.81
190 12 0.05
191 4 0.02
192 14 0.06
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (188 bp):
TATTATTATTATTATTATTATTATTATTATGCTATTTTTAATTTATTATTATTATTATCATACCT
TTTTTTTTTAATTAATCTTTATAAAATAATTTCTCAACATCTAAGCAAAATTATTTTTAAAAGTA
CATTTTTATTCCCTCCAACATCTAGGTAAGAAAAATAAAATAAAAAAAATTAATTCAA
Found at i:17923633 original size:14 final size:13
Alignment explanation
Indices: 17923603--17923640 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
17923593 TTTTTTTATT
*
17923603 TTTTTAATTATTA
1 TTTTTAATTTTTA
17923616 -TTTTAATTTTTAA
1 TTTTTAATTTTT-A
17923629 TTTTTAATTTTT
1 TTTTTAATTTTT
17923641 TTGTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTAATTTTTA
Found at i:17933418 original size:23 final size:22
Alignment explanation
Indices: 17933392--17933444 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
17933382 TATCTAACAA
17933392 TTTTAAATTTTAATATTT-ATAAT
1 TTTTAAATTTTAA-ATTTGAT-AT
**
17933415 TTTTTCATTTTAAATTTGATAT
1 TTTTAAATTTTAAATTTGATAT
17933437 TCTTTAAA
1 T-TTTAAA
17933445 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTAAATTTTAAATTTGATAT
Found at i:17936984 original size:37 final size:37
Alignment explanation
Indices: 17936934--17937008 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
17936924 ACATTTTTTG
17936934 TGCAATCAACCACCTTGTGAACGAATGACAGTTTCTA
1 TGCAATCAACCACCTTGTGAACGAATGACAGTTTCTA
17936971 TGCAATCAACCACCTTGTGAACGAATGACAGTTTCTA
1 TGCAATCAACCACCTTGTGAACGAATGACAGTTTCTA
17937008 T
1 T
17937009 CTTTAAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (37 bp):
TGCAATCAACCACCTTGTGAACGAATGACAGTTTCTA
Found at i:17942569 original size:57 final size:56
Alignment explanation
Indices: 17942508--17942769 Score: 176
Period size: 58 Copynumber: 4.6 Consensus size: 56
17942498 TTTCTCAAAT
*
17942508 ATTTTTGAAATATTTTTTTATTTAAGGAAAATTGATATTTCAACTTTCCCTTAAAAC
1 ATTTTTGAAATATTTTTTTATTTAAGGAAAATTAATATTT-AACTTTCCCTTAAAAC
* * *
17942565 ATTTTCTCTAAAT-TTTTTTTTTCGTTAAGGAAAATTAATACTTTAACTTTCCCTAAAAAC
1 ATTTT-T-GAAATATTTTTTTAT--TTAAGGAAAATTAATA-TTTAACTTTCCCTTAAAAC
* * * * * * *** * *
17942625 TTTTTTTTAGA-ATGTTTTTATTTAAGGAAAATTGATGCTTTAACTTTTTGTCAATAC
1 -ATTTTTGAAATATTTTTTTATTTAAGGAAAATTAAT-ATTTAACTTTCCCTTAAAAC
** * * * *
17942682 ATTTTTTTGAAATA-TTTTTTATTTAAAAAAAATTAATACTTCAACTTTTCATTAAAAT
1 A--TTTTTGAAATATTTTTTTATTTAAGGAAAATTAATA-TTTAACTTTCCCTTAAAAC
17942740 ATTTTTTGAAA-A-TTTTTTATTTTAA-GAAAA
1 A-TTTTTGAAATATTTTTTTA-TTTAAGGAAAA
17942770 CCATACTTCA
Statistics
Matches: 162, Mismatches: 30, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
56 12 0.07
57 48 0.30
58 49 0.30
59 15 0.09
60 31 0.19
61 7 0.04
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (56 bp):
ATTTTTGAAATATTTTTTTATTTAAGGAAAATTAATATTTAACTTTCCCTTAAAAC
Found at i:17942643 original size:60 final size:57
Alignment explanation
Indices: 17942521--17942671 Score: 171
Period size: 60 Copynumber: 2.6 Consensus size: 57
17942511 TTTGAAATAT
* *
17942521 TTTTTTATTTAAGGAAAATTGATA-TTTCAACTTTCCCTTAAAACATTTTCTCTAAATTT
1 TTTTTT-TTTAAGGAAAATTGATACTTT-AACTTTCCCTAAAAACATTTTCTCTAAA-TG
* * *
17942580 TTTTTTTCGTTAAGGAAAATTAATACTTTAACTTTCCCTAAAAAC-TTTTTTTTAGAATG
1 TTTTTTT--TTAAGGAAAATTGATACTTTAACTTTCCCTAAAAACATTTTCTCTA-AATG
* *
17942639 TTTTTATTTAAGGAAAATTGATGCTTTAACTTT
1 TTTTTTTTTAAGGAAAATTGATACTTTAACTTT
17942672 TTGTCAATAC
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
57 24 0.30
58 1 0.01
59 20 0.25
60 32 0.40
61 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (57 bp):
TTTTTTTTTAAGGAAAATTGATACTTTAACTTTCCCTAAAAACATTTTCTCTAAATG
Found at i:17942714 original size:58 final size:56
Alignment explanation
Indices: 17942464--17942843 Score: 164
Period size: 58 Copynumber: 6.6 Consensus size: 56
17942454 GAAATTAATA
* *
17942464 TTTTATTTAAAAAAATTTTGATACTTTCAACTTTTTTC-TC-AAATA-TTTTTGAAATATTT
1 TTTTATTTAAAAAAA-ATTAATAC-TTCAAC--TTTTCATCAAAATATTTTTTGAAA-A-TT
** * * * * * * *
17942523 TTTTATTTAAGGAAAATTGATATTTCAACTTTCCCTTAAAACATTTTCTCT-AAATTTT
1 TTTTATTTAAAAAAAATTAATACTTCAACTTTTCATCAAAATATTTT-T-TGAAA-ATT
* ** * * * * * *
17942581 TTTTTTCGTTAAGGAAAATTAATACTTTAACTTTCCCTAAAAACT-TTTTTTTAGAATGT
1 TTTTAT--TTAAAAAAAATTAATACTTCAACTTTTCATCAAAA-TATTTTTTGAAAAT-T
** * * * **
17942640 TTTTATTTAAGGAAAATTGATGCTTTAACTTTTTGTCAATACAT-TTTTTTGAAATATT
1 TTTTATTTAAAAAAAATTAATACTTCAACTTTTCATCAA-A-ATATTTTTTGAAA-ATT
*
17942698 TTTTATTTAAAAAAAATTAATACTTCAACTTTTCATTAAAATATTTTTTGAAAATT
1 TTTTATTTAAAAAAAATTAATACTTCAACTTTTCATCAAAATATTTTTTGAAAATT
* * ** ** * * *
17942754 TTTTATTTTAAGAAAA-CCATACTTCAACTTAAC-CCTAAATCATTTTTTTGAAATAAT
1 TTTTATTTAAAAAAAATTAATACTTCAACTTTTCATCAAAAT-A-TTTTTTGAAA-ATT
* * * *
17942811 TTTTCTTTAAGAAAAATCAATACTTCAATTTTT
1 TTTTATTTAAAAAAAATTAATACTTCAACTTTT
17942844 TCTTAAAACG
Statistics
Matches: 252, Mismatches: 51, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
54 4 0.02
55 18 0.07
56 30 0.12
57 62 0.25
58 72 0.29
59 30 0.12
60 36 0.14
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (56 bp):
TTTTATTTAAAAAAAATTAATACTTCAACTTTTCATCAAAATATTTTTTGAAAATT
Found at i:17942802 original size:56 final size:57
Alignment explanation
Indices: 17942680--17942838 Score: 173
Period size: 56 Copynumber: 2.8 Consensus size: 57
17942670 TTTTGTCAAT
* * * ** *
17942680 ACATTTTTTTGAAATATTTTTTATTTAAAAAAAATTAATACTTCAACTTTTCATTAA
1 ACATTTTTTTGAAATATTTTTTATTTTAAGAAAATCAATACTTCAACTTAACACTAA
* *
17942737 A-ATATTTTTTGAAA-ATTTTTTATTTTAAGAAAA-CCATACTTCAACTTAACCCTAA
1 ACAT-TTTTTTGAAATATTTTTTATTTTAAGAAAATCAATACTTCAACTTAACACTAA
* *
17942792 ATCATTTTTTTGAAATAATTTTT-CTTTAAGAAAAATCAATACTTCAA
1 A-CATTTTTTTGAAATATTTTTTATTTTAAG-AAAATCAATACTTCAA
17942839 TTTTTTCTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
55 17 0.20
56 35 0.41
57 23 0.27
58 10 0.12
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (57 bp):
ACATTTTTTTGAAATATTTTTTATTTTAAGAAAATCAATACTTCAACTTAACACTAA
Found at i:17942858 original size:56 final size:55
Alignment explanation
Indices: 17942504--17942872 Score: 165
Period size: 58 Copynumber: 6.4 Consensus size: 55
17942494 CTTTTTTCTC
* ** * **
17942504 AAATATTTTTGAAATATTTTTTTATTTAAGGAAAATTGATATTTCAACTTTCCCTTAA
1 AAAT-TTTTTGAAATA-TTTTTTATTTAAGAAAAATCAATACTTCAA-TTTTTCTTAA
* * * * * * * *
17942562 AACATTTTCTCT-AAATTTTTTTTTTCGTTAAGGAAAATTAATACTTTAACTTTCCCTAA
1 AA-ATTTT-T-TGAAATATTTTTTAT--TTAAGAAAAATCAATACTTCAATTTTTCTTAA
* * * ** * * * *
17942621 AAACTTTTTTTTAGAAT-GTTTTTATTTAAGGAAAATTGATGCTTTAACTTTTTGTCAA
1 AAA--TTTTTTGA-AATATTTTTTATTTAAGAAAAATCAATACTTCAA-TTTTTCTTAA
* * * *
17942679 TACATTTTTTTGAAATATTTTTTATTTAAAAAAAATTAATACTTCAACTTTTCATTAA
1 -A-AATTTTTTGAAATATTTTTTATTTAAGAAAAATCAATACTTCAATTTTTC-TTAA
* *** *
17942737 AATATTTTTTGAAA-ATTTTTTATTTTAAG-AAAA-CCATACTTCAACTTAACCCTAA
1 AA-ATTTTTTGAAATATTTTTTA-TTTAAGAAAAATCAATACTTCAA-TTTTTCTTAA
* * *
17942792 ATCATTTTTTTGAAATAATTTTTCTTTAAGAAAAATCAATACTTCAATTTTTTCTTAA
1 A--AATTTTTTGAAATATTTTTTATTTAAGAAAAATCAATACTTCAA-TTTTTCTTAA
* *
17942850 AACGTTTTTTGGAAT-TTTTTTAT
1 AA-ATTTTTTGAAATATTTTTTAT
17942873 AAAATTTTTT
Statistics
Matches: 238, Mismatches: 50, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
55 13 0.05
56 38 0.16
57 64 0.27
58 70 0.29
59 25 0.11
60 28 0.12
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (55 bp):
AAATTTTTTGAAATATTTTTTATTTAAGAAAAATCAATACTTCAATTTTTCTTAA
Found at i:17942858 original size:58 final size:56
Alignment explanation
Indices: 17942509--17942872 Score: 193
Period size: 57 Copynumber: 6.3 Consensus size: 56
17942499 TTCTCAAATA
* ** * **
17942509 TTTTTGAAATATTTTTTTATTTAAGGAAAATTGATATTTCAACTTTCCCTTAAAACATT
1 TTTTTGAAATA-TTTTTTATTTAAGAAAAATCAATACTTCAA-TTTTTCTTAAAAC-TT
* * * * * * ** *
17942568 TTCTCT-AAATTTTTTTTTTCGTTAAGGAAAATTAATACTTTAACTTTCCCTAAAAACTT
1 TT-TTTGAAATATTTTTTAT--TTAAGAAAAATCAATACTTCAA-TTTTTCTTAAAACTT
* * * ** * * * * *
17942627 TTTTTTAGAAT-GTTTTTATTTAAGGAAAATTGATGCTTTAACTTTTTGTCAATACATT
1 TTTTTGA-AATATTTTTTATTTAAGAAAAATCAATACTTCAA-TTTTTCTTAAAAC-TT
* * *
17942685 TTTTTGAAATATTTTTTATTTAAAAAAAATTAATACTTCAACTTTTCATTAAAA-TAT
1 TTTTTGAAATATTTTTTATTTAAGAAAAATCAATACTTCAATTTTTC-TTAAAACT-T
* *** * *
17942742 TTTTTGAAA-ATTTTTTATTTTAAG-AAAA-CCATACTTCAACTTAACCCTAAATCATT
1 TTTTTGAAATATTTTTTA-TTTAAGAAAAATCAATACTTCAA-TTTTTCTTAAAAC-TT
* * *
17942798 TTTTTGAAATAATTTTTCTTTAAGAAAAATCAATACTTCAATTTTTTCTTAAAACGT
1 TTTTTGAAATATTTTTTATTTAAGAAAAATCAATACTTCAA-TTTTTCTTAAAACTT
*
17942855 TTTTTGGAAT-TTTTTTAT
1 TTTTTGAAATATTTTTTAT
17942873 AAAATTTTTT
Statistics
Matches: 239, Mismatches: 50, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
55 13 0.05
56 37 0.15
57 72 0.30
58 63 0.26
59 17 0.07
60 37 0.15
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.49
Consensus pattern (56 bp):
TTTTTGAAATATTTTTTATTTAAGAAAAATCAATACTTCAATTTTTCTTAAAACTT
Found at i:17944093 original size:35 final size:35
Alignment explanation
Indices: 17944045--17944117 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
17944035 GTTCTGGTCG
*
17944045 TGGCTGACTAATGATGGTGAGGA-CAATTTGGTAAC
1 TGGCTGACCAATGATGGTGAGGAGCAA-TTGGTAAC
*
17944080 TGGCTGACCAATGATGGTGAGGAGGAATTGGTAAC
1 TGGCTGACCAATGATGGTGAGGAGCAATTGGTAAC
17944115 TGG
1 TGG
17944118 GTAATGGGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.26
Consensus pattern (35 bp):
TGGCTGACCAATGATGGTGAGGAGCAATTGGTAAC
Found at i:17961535 original size:2 final size:2
Alignment explanation
Indices: 17961523--17961554 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17961513 TTTGTGTATT
*
17961523 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17961555 CTAGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17961688 original size:13 final size:13
Alignment explanation
Indices: 17961670--17961696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17961660 TCATACTAAA
17961670 TTAAATTTAAATT
1 TTAAATTTAAATT
17961683 TTAAATTTAAATT
1 TTAAATTTAAATT
17961696 T
1 T
17961697 GAAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:17963422 original size:24 final size:24
Alignment explanation
Indices: 17963374--17963439 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
17963364 AATAAGTTAG
*
17963374 CAATGATTTACTACTATATATTAT
1 CAATGATTTACTACTAAATATTAT
17963398 CAATGATTTACTACTAAAT-TATAT
1 CAATGATTTACTACTAAATAT-TAT
* * *
17963422 CACTAATTTACTATTAAA
1 CAATGATTTACTACTAAA
17963440 ATATGAATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (24 bp):
CAATGATTTACTACTAAATATTAT
Found at i:17963639 original size:22 final size:22
Alignment explanation
Indices: 17963614--17963718 Score: 129
Period size: 22 Copynumber: 4.8 Consensus size: 22
17963604 ATTATAACTA
*
17963614 ATTTATTATTATGTTATTAATG
1 ATTTATTATTAAGTTATTAATG
*
17963636 ATTTATTATTAAATTATTAATG
1 ATTTATTATTAAGTTATTAATG
* *
17963658 ATTTACTATTAAGTTATGAATG
1 ATTTATTATTAAGTTATTAATG
* * *
17963680 ATTTATTACTAAGTTATTGATA
1 ATTTATTATTAAGTTATTAATG
**
17963702 ATTTATTAGAAAGTTAT
1 ATTTATTATTAAGTTAT
17963719 AACTAATTCT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (22 bp):
ATTTATTATTAAGTTATTAATG
Found at i:17963762 original size:22 final size:22
Alignment explanation
Indices: 17963626--17963762 Score: 102
Period size: 22 Copynumber: 6.2 Consensus size: 22
17963616 TTATTATTAT
*
17963626 GTTATTAATGATTTATTATTAAA
1 GTTATTAATGATTTACTA-TAAA
*
17963649 -TTATTAATGATTTACTATTAA
1 GTTATTAATGATTTACTATAAA
* *
17963670 GTTATGAATGATTTATTACT-AA
1 GTTATTAATGATTTACTA-TAAA
* * * *
17963692 GTTATTGATAATTTATTAGAAA
1 GTTATTAATGATTTACTATAAA
* *
17963714 GTTA-TAACTAATTCT-CTATGAA
1 GTTATTAA-TGATT-TACTATAAA
*
17963736 GTTATAAATGATTTACTATAAA
1 GTTATTAATGATTTACTATAAA
*
17963758 ATTAT
1 GTTAT
17963763 CAAGGATTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
21 6 0.07
22 81 0.89
23 4 0.04
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (22 bp):
GTTATTAATGATTTACTATAAA
Found at i:17963995 original size:22 final size:22
Alignment explanation
Indices: 17963933--17964006 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
17963923 GATTAGCTGT
*
17963933 TAAGTTATTAATTATTTACTAC
1 TAAGTTATTAATGATTTACTAC
* *
17963955 -AAGTTATCAATTGAATTACTAC
1 TAAGTTATTAA-TGATTTACTAC
* *
17963977 TAAGTTATTTATGATTTACTAT
1 TAAGTTATTAATGATTTACTAC
*
17963999 TAATTTAT
1 TAAGTTAT
17964007 CAATAAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 9 0.21
22 25 0.60
23 8 0.19
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (22 bp):
TAAGTTATTAATGATTTACTAC
Found at i:17964016 original size:44 final size:44
Alignment explanation
Indices: 17963933--17964017 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
17963923 GATTAGCTGT
* *
17963933 TAAGTTATTAATTATTTACTACAAGTTATCAATTGAATTACTAC
1 TAAGTTATTAATGATTTACTACAAGTTATCAATTAAATTACTAC
* * *
17963977 TAAGTTATTTATGATTTACTATTAATTTATCAA-TAAATTAC
1 TAAGTTATTAATGATTTACTA-CAAGTTATCAATTAAATTAC
17964018 AATATATGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 26 0.74
45 9 0.26
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (44 bp):
TAAGTTATTAATGATTTACTACAAGTTATCAATTAAATTACTAC
Found at i:17964333 original size:21 final size:22
Alignment explanation
Indices: 17964280--17964334 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
17964270 ATTATCATTA
* * * *
17964280 ATTTATCACTAAGTTATAGATG
1 ATTTATTACTAAGTTACAAACG
17964302 ATTTATTACTAAGTTACAAACG
1 ATTTATTACTAAGTTACAAACG
17964324 ATTT-TTACTAA
1 ATTTATTACTAA
17964335 ATTATTGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (22 bp):
ATTTATTACTAAGTTACAAACG
Found at i:17964378 original size:11 final size:10
Alignment explanation
Indices: 17964362--17964424 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 10
17964352 ATTAAGTTAA
*
17964362 TTATTATAAAG
1 TTATTAT-AAT
17964373 TTATTACTAAT
1 TTATTA-TAAT
*
17964384 TTACTATAAT
1 TTATTATAAT
*
17964394 TTATTATAAAA
1 TTATTAT-AAT
17964405 TTATTACTAAT
1 TTATTA-TAAT
*
17964416 TTACTATAA
1 TTATTATAA
17964425 AGTTATTGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 13 0.30
11 28 0.65
12 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (10 bp):
TTATTATAAT
Found at i:17964403 original size:32 final size:32
Alignment explanation
Indices: 17964362--17964424 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
17964352 ATTAAGTTAA
*
17964362 TTATTATAAAGTTATTACTAATTTACTATAAT
1 TTATTATAAAATTATTACTAATTTACTATAAT
17964394 TTATTATAAAATTATTACTAATTTACTATAA
1 TTATTATAAAATTATTACTAATTTACTATAA
17964425 AGTTATTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (32 bp):
TTATTATAAAATTATTACTAATTTACTATAAT
Found at i:17964430 original size:22 final size:21
Alignment explanation
Indices: 17964388--17964465 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
17964378 ACTAATTTAC
* *
17964388 TATAATTTATTATAAAATTAT
1 TATAATTTACTATAAAGTTAT
17964409 TACTAATTTACTATAAAGTTAT
1 TA-TAATTTACTATAAAGTTAT
* *
17964431 TGATGATTTACTA-AGAAGTTGT
1 T-ATAATTTACTATA-AAGTTAT
*
17964453 TAATAATTAACTA
1 T-ATAATTTACTA
17964466 ATTTACAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.06
22 43 0.91
23 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (21 bp):
TATAATTTACTATAAAGTTAT
Found at i:17964547 original size:22 final size:22
Alignment explanation
Indices: 17964513--17964606 Score: 100
Period size: 22 Copynumber: 4.2 Consensus size: 22
17964503 TCAATATAAG
*
17964513 TTATCAATAATTTACTATAACA
1 TTATCAATGATTTACTATAACA
* *
17964535 TTATTAGTGATTTACTACTAA-A
1 TTATCAATGATTTACTA-TAACA
* * *
17964557 TTGTCAATAATTTACTATAAAA
1 TTATCAATGATTTACTATAACA
17964579 TTATCAATGATTTACTATATACTA
1 TTATCAATGATTTACTATA-AC-A
17964603 TTAT
1 TTAT
17964607 GCATTTGCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.05
22 46 0.79
23 4 0.07
24 5 0.09
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (22 bp):
TTATCAATGATTTACTATAACA
Found at i:17964685 original size:22 final size:22
Alignment explanation
Indices: 17964660--17964707 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
17964650 TGATTAACTA
*
17964660 CTAAATTATCAT-TGATTTATTT
1 CTAAATTAT-ATATGATTTATTG
* *
17964682 CTAAGTTATTTATGATTTATTG
1 CTAAATTATATATGATTTATTG
17964704 CTAA
1 CTAA
17964708 GTTTATAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (22 bp):
CTAAATTATATATGATTTATTG
Found at i:17964766 original size:22 final size:22
Alignment explanation
Indices: 17964741--17965154 Score: 184
Period size: 22 Copynumber: 18.7 Consensus size: 22
17964731 ACTAAAACAG
17964741 ATTTACTATTAAGTTAT-ATGTA
1 ATTTACTATTAAGTTATCAT-TA
* * * * *
17964763 ATTTATTACTAAATTTTCATTG
1 ATTTACTATTAAGTTATCATTA
* * *
17964785 ATTTACTATTAAATTATCAATG
1 ATTTACTATTAAGTTATCATTA
*
17964807 ATTAACTATTAAGTTATCATTTA
1 ATTTACTATTAAGTTATCA-TTA
* ** *
17964830 TTTTTTTATTAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTA
* * * * *
17964852 ATTTACTACTATGCTAT-TTTGC
1 ATTTACTATTAAGTTATCATT-A
* * * *
17964874 ATTTACAATTATGTTATAATTG
1 ATTTACTATTAAGTTATCATTA
* **
17964896 ATTTACTATTAAGTTATTATGC
1 ATTTACTATTAAGTTATCATTA
* *
17964918 ATTTACTATTATA-TTATTATTG
1 ATTTACTATTA-AGTTATCATTA
*
17964940 ATTTACTACTAAGTTATCAATT-
1 ATTTACTATTAAGTTATC-ATTA
* *
17964962 ATTTACTATTAAATTATTATTA
1 ATTTACTATTAAGTTATCATTA
* * *
17964984 ATATATTATTAAGTTATCACTA
1 ATTTACTATTAAGTTATCATTA
*
17965006 ATTTACTATACATAA-TTATCACTA
1 ATTTACTAT---TAAGTTATCATTA
* * * *
17965030 ATTAACTGTTAATTTATCGA-TG
1 ATTTACTATTAAGTTATC-ATTA
*
17965052 A-TTACTATT-AGATTAT-ATTG
1 ATTTACTATTAAG-TTATCATTA
* *
17965072 ATTTACTTTTAA-TTTTCAATTA
1 ATTTACTATTAAGTTATC-ATTA
* * * *
17965094 TTAATTACTACTAAGTTCTAAATT-
1 --ATTTACTATTAAGTTAT-CATTA
* *
17965118 ATTTACTACTAAATTATCATTA
1 ATTTACTATTAAGTTATCATTA
* *
17965140 ATTTATTATTGAGTT
1 ATTTACTATTAAGTT
17965155 CTTTATGATT
Statistics
Matches: 296, Mismatches: 72, Indels: 48
0.71 0.17 0.12
Matches are distributed among these distances:
19 1 0.00
20 7 0.02
21 29 0.10
22 200 0.68
23 25 0.08
24 25 0.08
25 9 0.03
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTA
Found at i:17965494 original size:22 final size:22
Alignment explanation
Indices: 17965469--17965639 Score: 68
Period size: 22 Copynumber: 7.9 Consensus size: 22
17965459 ACTGAATCTT
17965469 ATTTACTATTAAATTATTATTA
1 ATTTACTATTAAATTATTATTA
* * * * *
17965491 ATTTACAACTAAGTCATCATTA
1 ATTTACTATTAAATTATTATTA
* * *
17965513 CTTTACTATTAAGTTATCACTT-
1 ATTTACTATTAAATTATTA-TTA
* **
17965535 -TTT-TTATTAAATTATCCTTA
1 ATTTACTATTAAATTATTATTA
* **
17965555 ATTCACTATTGTATTATTA-TA
1 ATTTACTATTAAATTATTATTA
* * *
17965576 TATTTACAATT--ATGTATAAATA
1 -ATTTACTATTAAAT-TATTATTA
* *
17965598 ATTTACCATTAAGTTATTTATT-
1 ATTTACTATTAAATTA-TTATTA
* *
17965620 ATTTACTACTATATTATTAT
1 ATTTACTATTAAATTATTAT
17965640 GTATTTATTG
Statistics
Matches: 110, Mismatches: 29, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
19 2 0.02
20 13 0.12
21 24 0.22
22 65 0.59
23 6 0.05
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAAATTATTATTA
Found at i:17965947 original size:17 final size:18
Alignment explanation
Indices: 17965913--17965948 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17965903 TATTTAATAT
*
17965913 TAAAATTAAATTTTTTTA
1 TAAAATTAAATGTTTTTA
17965931 TAAAATTAAA-GTTTTTA
1 TAAAATTAAATGTTTTTA
17965948 T
1 T
17965949 GTTTTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAAATTAAATGTTTTTA
Found at i:17966080 original size:17 final size:17
Alignment explanation
Indices: 17966058--17966091 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17966048 TGGGACATCC
17966058 CAAAAAGAA-AAGATAGA
1 CAAAAA-AATAAGATAGA
17966075 CAAAAAAATAAGATAGA
1 CAAAAAAATAAGATAGA
17966092 GGGAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.71, C:0.06, G:0.15, T:0.09
Consensus pattern (17 bp):
CAAAAAAATAAGATAGA
Found at i:17968319 original size:153 final size:154
Alignment explanation
Indices: 17968106--17968410 Score: 463
Period size: 153 Copynumber: 2.0 Consensus size: 154
17968096 TTAATTGATT
* *
17968106 TAAATTTAAAAAACTAATAAATAAAAAGCTATATTTTTAATGACAAATAATCTTTATTAAATAAA
1 TAAATTTAAAAAACTAATAAATAAAAAGCTATATATTTAATGACAAATAATCATTATTAAATAAA
* *
17968171 TAAAAAATGCTAAAAATTGAAATA-TAAATTTGTTATTTTTTAAAATTTATAAAGATATTTATGT
66 TAAAAAATGCTAAAAATTGAAA-AGTAAATTTGTTATTTCTTAAAATTTATAAAAATATTTATGT
* *
17968235 TATTCATTTTTAACACTTTTAGATA
130 CATTCATTATTAACACTTTTAGATA
*
17968260 TAAATTTAAATAACTAACT-AAT-AAAAGCTATATATTTAATGACAAATAATCATTATTAAATAA
1 TAAATTTAAAAAACTAA-TAAATAAAAAGCTATATATTTAATGACAAATAATCATTATTAAATAA
* * *
17968323 ATAAATAATGTTAAAAATTTAAAAGTAAATTTGTTATTTCTTAAAATTTATAAAAATATTTATGT
65 ATAAAAAATGCTAAAAATTGAAAAGTAAATTTGTTATTTCTTAAAATTTATAAAAATATTTATGT
* *
17968388 CGTTCATTATTAATACTTTTAGA
130 CATTCATTATTAACACTTTTAGA
17968411 GTTCATACTT
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
152 1 0.01
153 116 0.85
154 19 0.14
155 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (154 bp):
TAAATTTAAAAAACTAATAAATAAAAAGCTATATATTTAATGACAAATAATCATTATTAAATAAA
TAAAAAATGCTAAAAATTGAAAAGTAAATTTGTTATTTCTTAAAATTTATAAAAATATTTATGTC
ATTCATTATTAACACTTTTAGATA
Found at i:17968440 original size:2 final size:2
Alignment explanation
Indices: 17968422--17968464 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
17968412 TTCATACTTT
*
17968422 TA TA TA T- TA GA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17968464 T
1 T
17968465 TGATAAACCG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17969521 original size:30 final size:30
Alignment explanation
Indices: 17969476--17969532 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17969466 AATTATTTAA
*
17969476 TTTTTTTGTAATCAATCGAATTTTTAAATT
1 TTTTTTTGTAATCAATCGAATCTTTAAATT
*
17969506 TTTTATTTG-AATCAATTGAATCTTTAA
1 TTTT-TTTGTAATCAATCGAATCTTTAA
17969533 TTAAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTTTTTGTAATCAATCGAATCTTTAAATT
Found at i:17977079 original size:19 final size:19
Alignment explanation
Indices: 17977044--17977090 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
17977034 ATTTGAATTA
17977044 AAAATAAAACTAATATATT
1 AAAATAAAACTAATATATT
*
17977063 AAAATCAAAA-TATTATATT
1 AAAAT-AAAACTAATATATT
17977082 ATAAATAAA
1 A-AAATAAA
17977091 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATAAAACTAATATATT
Found at i:17977175 original size:14 final size:16
Alignment explanation
Indices: 17977158--17977190 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17977148 TTAGTTTGAA
17977158 AATAT-AAA-AATTAT
1 AATATAAAATAATTAT
17977172 AATATAAAATAATTAT
1 AATATAAAATAATTAT
17977188 AAT
1 AAT
17977191 TACTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 3 0.18
16 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:17981567 original size:15 final size:14
Alignment explanation
Indices: 17981525--17981571 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
17981515 TATTAATATA
17981525 TATTTTTGCATGAT
1 TATTTTTGCATGAT
**
17981539 T-TTGTTTGTGTGAT
1 TATT-TTTGCATGAT
17981553 TCATTTTTGCATGAT
1 T-ATTTTTGCATGAT
17981568 TATT
1 TATT
17981572 AATAAATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 2 0.08
14 13 0.50
15 9 0.35
16 2 0.08
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (14 bp):
TATTTTTGCATGAT
Found at i:17981626 original size:21 final size:22
Alignment explanation
Indices: 17981579--17981668 Score: 91
Period size: 21 Copynumber: 4.3 Consensus size: 22
17981569 ATTAATAAAT
* *
17981579 TTGCATGATATT-TA-TCTTAG
1 TTGCATGATATTATATTATTAA
*
17981599 TTACATGATAGTT-TA-TATTAA
1 TTGCATGATA-TTATATTATTAA
*
17981620 TTGCATGATATTGTATTATT-A
1 TTGCATGATATTATATTATTAA
*
17981641 TTGCATGATATTATATTATTAT
1 TTGCATGATATTATATTATTAA
17981663 TTGCAT
1 TTGCAT
17981669 AATTTTATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.18
21 39 0.65
22 10 0.17
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (22 bp):
TTGCATGATATTATATTATTAA
Found at i:17985529 original size:22 final size:22
Alignment explanation
Indices: 17985516--17985576 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
17985506 AATGATGAGT
17985516 AAAAA-AAAAAAAAAAGATAAA
1 AAAAAGAAAAAAAAAAGATAAA
17985537 AAAAAG-AAAAAAAAAGA-AGAA
1 AAAAAGAAAAAAAAAAGATA-AA
*
17985558 AAAGAAGGAAAAAAAAAGA
1 AAA-AAGAAAAAAAAAAGA
17985577 AATTGATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 21 0.58
22 3 0.08
23 11 0.31
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGATAAA
Found at i:17985537 original size:10 final size:9
Alignment explanation
Indices: 17985516--17985563 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 9
17985506 AATGATGAGT
17985516 AAAAAAAA-
1 AAAAAAAAG
*
17985524 AAAAAAAGAT
1 AAAAAAA-AG
17985534 AAAAAAAAG
1 AAAAAAAAG
17985543 AAAAAAAAAG
1 -AAAAAAAAG
*
17985553 AAGAAAAAG
1 AAAAAAAAG
17985562 AA
1 AA
17985564 GGAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 7 0.20
9 12 0.34
10 16 0.46
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:17985560 original size:23 final size:22
Alignment explanation
Indices: 17985516--17985578 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
17985506 AATGATGAGT
*
17985516 AAAAAA-AAAAAAAAAGAT-AA
1 AAAAAAGAAAAAAAAAGAAAAA
17985536 AAAAAAGAAAAAAAAAGAAGAAA
1 AAAAAAGAAAAAAAAAGAA-AAA
* *
17985559 AAGAAGGAAAAAAAAAGAAA
1 AAAAAAGAAAAAAAAAGAAA
17985579 TTGATGGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.16
21 11 0.30
22 1 0.03
23 19 0.51
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAAAAAAGAAAAA
Found at i:17985578 original size:10 final size:10
Alignment explanation
Indices: 17985516--17985578 Score: 83
Period size: 11 Copynumber: 6.0 Consensus size: 10
17985506 AATGATGAGT
17985516 AAAAAA-AAA
1 AAAAAAGAAA
17985525 AAAAAAGATAA
1 AAAAAAGA-AA
17985536 AAAAAAGAAA
1 AAAAAAGAAA
17985546 AAAAAAGAAGA
1 AAAAAAGAA-A
17985557 AAAAGAAGGAAA
1 AAAA-AA-GAAA
17985569 AAAAAAGAAA
1 AAAAAAGAAA
17985579 TTGATGGAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.12
10 16 0.33
11 17 0.35
12 7 0.14
13 3 0.06
ACGTcount: A:0.86, C:0.00, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:17987042 original size:46 final size:45
Alignment explanation
Indices: 17986990--17987133 Score: 139
Period size: 46 Copynumber: 3.2 Consensus size: 45
17986980 ATGAATATCT
17986990 AATTTTTCGAATATGAATATTTGAAATCTTTAGATGTAAATCTTTA
1 AATTTTTCGAATATGAATATTTGAAAT-TTTAGATGTAAATCTTTA
* ** * ** *
17987036 AATTTTTTGAATAAAAATCTTT-AGCTTTTAGATGTGAAT-TTCTA
1 AATTTTTCGAATATGAATATTTGAAATTTTAGATGTAAATCTT-TA
* * * * *
17987080 AACTTTTTCAAATGTGAAAATTTGAAATTTTGGATGTAAATCTTTC
1 AA-TTTTTCGAATATGAATATTTGAAATTTTAGATGTAAATCTTTA
17987126 AATTTTTC
1 AATTTTTC
17987134 AAAGGAAAAT
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
43 2 0.03
44 16 0.21
45 21 0.28
46 34 0.45
47 2 0.03
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (45 bp):
AATTTTTCGAATATGAATATTTGAAATTTTAGATGTAAATCTTTA
Found at i:17987130 original size:90 final size:90
Alignment explanation
Indices: 17986970--17987162 Score: 239
Period size: 90 Copynumber: 2.2 Consensus size: 90
17986960 GAACTTTTGA
* * * * *
17986970 AACTTTGGATATGAATATCT-AA-TTTTTCGAATATGAATATTTGAAATCTTTAGATGTAAATCT
1 AACTTTTGATGTGAATTTCTAAACTTTTTCAAATATGAAAATTTGAAATCTTTAGATGTAAATCT
** *
17987033 TTAAATTTTTTGAATAAAAATCTTT
66 TTAAATTTTTCAAAGAAAAATCTTT
* * *
17987058 AGCTTTTAGATGTGAATTTCTAAACTTTTTCAAATGTGAAAATTTGAAAT-TTTGGATGTAAATC
1 AACTTTT-GATGTGAATTTCTAAACTTTTTCAAATATGAAAATTTGAAATCTTTAGATGTAAATC
* *
17987122 TTTCAATTTTTCAAAGGAAAATCTTT
65 TTTAAATTTTTCAAAGAAAAATCTTT
17987148 AACTTTTGATGTGAA
1 AACTTTTGATGTGAA
17987163 ACCCTAAAAC
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
88 5 0.06
89 19 0.22
90 42 0.48
91 22 0.25
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (90 bp):
AACTTTTGATGTGAATTTCTAAACTTTTTCAAATATGAAAATTTGAAATCTTTAGATGTAAATCT
TTAAATTTTTCAAAGAAAAATCTTT
Found at i:17987522 original size:17 final size:17
Alignment explanation
Indices: 17987502--17987551 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
17987492 GAACCTAAAG
*
17987502 TTTTTGCGAACTTGAAA
1 TTTTTGAGAACTTGAAA
*
17987519 TTTTTGTGAACTTGAAA
1 TTTTTGAGAACTTGAAA
* *
17987536 TTCTTGAGAACCTGAA
1 TTTTTGAGAACTTGAA
17987552 GCTCTTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (17 bp):
TTTTTGAGAACTTGAAA
Found at i:17987720 original size:17 final size:17
Alignment explanation
Indices: 17987686--17987756 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 17
17987676 AATATTTGAT
** *
17987686 TTCTTATGAACCTAAAA
1 TTCTTATGAAATTGAAA
*
17987703 TTCTTGTGAAATTGAAA
1 TTCTTATGAAATTGAAA
* * *
17987720 TTGTTACGAAGTTGAAA
1 TTCTTATGAAATTGAAA
*
17987737 TTCTTATGAATTTGAAA
1 TTCTTATGAAATTGAAA
17987754 TTC
1 TTC
17987757 GTATATTTGA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (17 bp):
TTCTTATGAAATTGAAA
Found at i:17987803 original size:82 final size:80
Alignment explanation
Indices: 17987663--17987913 Score: 247
Period size: 82 Copynumber: 3.1 Consensus size: 80
17987653 AGTTTTTGCA
* * * * * * * *
17987663 AATTTGAAATTTGAATATTTGATTTCTTATGAACCTAAAATTCTTGTGAAATTGAAATTGTTACG
1 AATTTGAAATTCGAATATTTGATTTCTTGTGAACCTAAAATTC-TATAAAACTAAAATTCTTACA
17987728 AAGTTGAAATTCTTATG
65 AAGTTG-AATTCTTATG
* *
17987745 AATTTGAAATTCGTATATTTGATTTCTTGTGAACCTAAAATTCTAATAAAACTAAAATTCTTGCA
1 AATTTGAAATTCGAATATTTGATTTCTTGTGAACCTAAAATTCT-ATAAAACTAAAATTCTTACA
* * * *
17987810 AAATTGAGTTATTGTG
65 AAGTTGAATTCTTATG
* * ** * * *
17987826 AATTTGAAATTCGAATCTTTGATTTTTTGCAAACCTGAAATT-TACAAAAC-AGAAATTTTTACA
1 AATTTGAAATTCGAATATTTGATTTCTTGTGAACCTAAAATTCTATAAAACTA-AAATTCTTACA
17987889 AAGTTGAATTCTTGA-G
65 AAGTTGAATTCTT-ATG
17987905 AATTTGAAA
1 AATTTGAAA
17987914 CTCTTGCGAA
Statistics
Matches: 139, Mismatches: 27, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
79 35 0.25
80 1 0.01
81 44 0.32
82 58 0.42
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (80 bp):
AATTTGAAATTCGAATATTTGATTTCTTGTGAACCTAAAATTCTATAAAACTAAAATTCTTACAA
AGTTGAATTCTTATG
Found at i:17987924 original size:17 final size:17
Alignment explanation
Indices: 17987898--17987930 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17987888 AAAGTTGAAT
17987898 TCTTGAGAATTTGAAAC
1 TCTTGAGAATTTGAAAC
*
17987915 TCTTGCGAATTTGAAA
1 TCTTGAGAATTTGAAA
17987931 ATTCTTGTGA
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:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (17 bp):
TCTTGAGAATTTGAAAC
Found at i:17988040 original size:17 final size:18
Alignment explanation
Indices: 17987994--17988044 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
17987984 TTTTATCTGA
17987994 AACCTCTATGAAACTTAG
1 AACCTCTATGAAACTTAG
* * *
17988012 AACCTTTGTGAATC-TAG
1 AACCTCTATGAAACTTAG
*
17988029 AATCTCTATGAAACTT
1 AACCTCTATGAAACTT
17988045 GAAACTTTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (18 bp):
AACCTCTATGAAACTTAG
Found at i:17988102 original size:17 final size:18
Alignment explanation
Indices: 17988064--17988102 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17988054 GCAAAACTTA
* *
17988064 AAAATTTTTGCGAATTTG
1 AAAATTTTTACGAATCTG
17988082 AAAATTTTTACGAATCT-
1 AAAATTTTTACGAATCTG
17988099 AAAA
1 AAAA
17988103 CCTTTGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAATTTTTACGAATCTG
Found at i:17988172 original size:18 final size:17
Alignment explanation
Indices: 17988127--17988175 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
17988117 GAATCTCCGT
*
17988127 GAAACTTGAAATCTTAT
1 GAAACTTGAAATCTTAC
17988144 G-AA-TATGAAATCTCTAC
1 GAAACT-TGAAATCT-TAC
17988161 GAAACTTGAAATCTT
1 GAAACTTGAAATCTT
17988176 TGTGTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
15 1 0.04
16 10 0.37
17 5 0.19
18 10 0.37
19 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (17 bp):
GAAACTTGAAATCTTAC
Found at i:17989184 original size:30 final size:30
Alignment explanation
Indices: 17989150--17989207 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17989140 ACTAATGGTT
*
17989150 TTACCTACGAAATTTTTTGTAGGTAATTAA
1 TTACCTACGAAATTTTTCGTAGGTAATTAA
* *
17989180 TTACCTATGAAATTTTTCGTTGGTAATT
1 TTACCTACGAAATTTTTCGTAGGTAATT
17989208 CTGTTAATAA
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:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (30 bp):
TTACCTACGAAATTTTTCGTAGGTAATTAA
Found at i:17991724 original size:33 final size:31
Alignment explanation
Indices: 17991614--17991743 Score: 96
Period size: 31 Copynumber: 4.2 Consensus size: 31
17991604 TATAATCAAA
17991614 AAATTTCAACAAATATAT--CCAAAACCCAAAC
1 AAATTTCAACAAATATATAACCAAAA-CC-AAC
* *
17991645 AAATTTTAACAAATATAAAACC--AA-CAA-
1 AAATTTCAACAAATATATAACCAAAACCAAC
*
17991672 AAA-CTCAACAAAT-TGATAACCAAAATCCAATC
1 AAATTTCAACAAATAT-ATAACCAAAA-CCAA-C
17991704 AAATTTCAACAAATATATAACAACAAAAACTCAAC
1 AAATTTCAACAAATATATAAC--C-AAAAC-CAAC
17991739 AAATT
1 AAATT
17991744 GGTAACCAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
25 1 0.01
26 13 0.17
27 3 0.04
28 4 0.05
29 1 0.01
30 3 0.04
31 18 0.23
32 3 0.04
33 16 0.21
34 1 0.01
35 8 0.10
36 7 0.09
ACGTcount: A:0.58, C:0.21, G:0.01, T:0.21
Consensus pattern (31 bp):
AAATTTCAACAAATATATAACCAAAACCAAC
Found at i:17991750 original size:58 final size:59
Alignment explanation
Indices: 17991599--17991781 Score: 239
Period size: 58 Copynumber: 3.2 Consensus size: 59
17991589 AAGTCAACAA
* ** *
17991599 AAATATATAATCAA-AAAATTTCAACAAA-T-ATATCCAAAACCCAAACAAATTTTAAC
1 AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTTAAC
* * * *
17991655 AAATATAAAACCAACAAAAACTCAACAAATTGATAACCAAAATCCAATCAAATTTCAAC
1 AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTTAAC
* *
17991714 AAATATATAA-CAACAAAAACTCAACAAATTGGTAACCAAAACCCAAACAAATTTTAAT
1 AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTTAAC
*
17991772 AAATTTATAA
1 AAATATATAA
17991782 TAAAAAATTA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
56 12 0.11
57 12 0.11
58 53 0.49
59 32 0.29
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (59 bp):
AAATATATAACCAACAAAAACTCAACAAATTGATAACCAAAACCCAAACAAATTTTAAC
Found at i:17992152 original size:63 final size:61
Alignment explanation
Indices: 17992079--17992215 Score: 157
Period size: 62 Copynumber: 2.2 Consensus size: 61
17992069 AGCAACAGAA
17992079 TTTCGGTCGATAACATGTAATTTTTTTTCATAAAATTTTTTACCAATGGATTTAGCGATGGAAT
1 TTTC-GTCGATAACATGTAATTTTTTTTCA-AAAATTTTTTACCAATGGATTTAGC-ATGGAAT
* ** * * ***
17992143 TTTCGTCGATGATGTGTAATTTTTTTTGAAAATTTTTTTATTGATGGATTTAGCATGGAAT
1 TTTCGTCGATAACATGTAATTTTTTTTCAAAAATTTTTTACCAATGGATTTAGCATGGAAT
* *
17992204 TTTTGTTGATAA
1 TTTCGTCGATAA
17992216 TGTGTAAACT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 16 0.26
62 21 0.34
63 21 0.34
64 4 0.06
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (61 bp):
TTTCGTCGATAACATGTAATTTTTTTTCAAAAATTTTTTACCAATGGATTTAGCATGGAAT
Found at i:17992201 original size:61 final size:63
Alignment explanation
Indices: 17992079--17992259 Score: 177
Period size: 63 Copynumber: 2.8 Consensus size: 63
17992069 AGCAACAGAA
**
17992079 TTTCGGTCGATAACATGTAATTTTTTTTCATAAAATTTTTTACCAATGGATTTAGCGATGGAAT
1 TTTC-GTCGATAATGTGTAATTTTTTTTCATAAAATTTTTTACCAATGGATTTAGCGATGGAAT
* * * ***
17992143 TTTCGTCGATGATGTGTAATTTTTTTTGA-AAATTTTTTTATTGATGGATTTAGC-ATGGAAT
1 TTTCGTCGATAATGTGTAATTTTTTTTCATAAAATTTTTTACCAATGGATTTAGCGATGGAAT
* * ** * *
17992204 TTTTGTTGATAATGTGTAAACTTTTTTTTTTTGCAAATTTTTTTACCAACGGATTT
1 TTTCGTCGATAATGTGT-AA-TTTTTTTTCAT--AAAATTTTTTACCAATGGATTT
17992260 TTTCGCCACT
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
61 21 0.22
62 23 0.24
63 29 0.31
64 4 0.04
66 18 0.19
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (63 bp):
TTTCGTCGATAATGTGTAATTTTTTTTCATAAAATTTTTTACCAATGGATTTAGCGATGGAAT
Found at i:17992971 original size:24 final size:25
Alignment explanation
Indices: 17992930--17992993 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
17992920 TGACTCGGTA
*
17992930 TATATTATTTTTATTATTTGTTTAAT
1 TATA-TATTTTTATTATTTATTTAAT
17992956 TATATATTTTTA-TATTTATTTAAT
1 TATATATTTTTATTATTTATTTAAT
* *
17992980 TTTATATTTATATT
1 TATATATTTTTATT
17992994 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.62
25 9 0.26
26 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TATATATTTTTATTATTTATTTAAT
Found at i:17992974 original size:16 final size:16
Alignment explanation
Indices: 17992934--17992992 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
17992924 TCGGTATATA
*
17992934 TTATTTTTAT-TATTT
1 TTATATTTATATATTT
*
17992949 GTT-TAATTATATATTT
1 -TTATATTTATATATTT
* *
17992965 TTATATTTATTTAATT
1 TTATATTTATATATTT
17992981 TTATATTTATAT
1 TTATATTTATAT
17992993 TTTAAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 7 0.20
16 28 0.80
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATATTTATATATTT
Found at i:17993033 original size:17 final size:19
Alignment explanation
Indices: 17992983--17993030 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
17992973 ATTTAATTTT
*
17992983 ATATTTATATTTTAAAAATA
1 ATATTT-TATATTAAAAATA
17993003 ATATTTTATATTAAAAATA
1 ATATTTTATATTAAAAATA
17993022 ATATTTTAT
1 ATATTTTAT
17993031 TAATTTCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTTTATATTAAAAATA
Found at i:17994704 original size:7 final size:6
Alignment explanation
Indices: 17994674--17994707 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
17994664 AATTAAAAAT
17994674 AATT-A AATTAA AATTAA AATTAA AGATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA A-ATTAA AATT
17994708 GATAGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (6 bp):
AATTAA
Found at i:17994704 original size:13 final size:13
Alignment explanation
Indices: 17994678--17994722 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
17994668 AAAAATAATT
17994678 AAATTAAA-ATTA
1 AAATTAAAGATTA
17994690 AAATTAAAGATTA
1 AAATTAAAGATTA
*
17994703 AAATTGATAGATTGA
1 AAATT-AAAGATT-A
17994718 AAATT
1 AAATT
17994723 CTAGTTACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 8 0.28
13 9 0.31
14 6 0.21
15 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (13 bp):
AAATTAAAGATTA
Found at i:17995247 original size:18 final size:17
Alignment explanation
Indices: 17995214--17995247 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17995204 TAATTAAAAA
*
17995214 TTAAAAAAAAAGTTAAT
1 TTAAAAAAAAAATTAAT
17995231 TTAAAATAAAAAATTAA
1 TTAAAA-AAAAAATTAA
17995248 AAAACTAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAAAAAAAATTAAT
Found at i:17996912 original size:20 final size:22
Alignment explanation
Indices: 17996887--17996927 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
17996877 GTTGACCATA
17996887 TTTTTTAGATT-TTTT-TTAAT
1 TTTTTTAGATTATTTTGTTAAT
*
17996907 TTTTTTATATTATTTTGTTAA
1 TTTTTTAGATTATTTTGTTAA
17996928 GCTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTTTAGATTATTTTGTTAAT
Found at i:18002564 original size:21 final size:21
Alignment explanation
Indices: 18002519--18002631 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
18002509 TTTTACATGT
** **
18002519 GAATCTTTGAAACCCTTTTAT
1 GAATCTTTGAAAATCTTTTGC
* *
18002540 GAATATTTGAAACTCTTTTGC
1 GAATCTTTGAAAATCTTTTGC
**
18002561 GAATAATT-AAAATCCTTTTGC
1 GAATCTTTGAAAAT-CTTTTGC
* * *
18002582 TAATCTTTG--AATTTTTTGT
1 GAATCTTTGAAAATCTTTTGC
18002601 GAATCTTT-AAAATCTTTTTGC
1 GAATCTTTGAAAATC-TTTTGC
18002622 GAATCTTTGA
1 GAATCTTTGA
18002632 GTCTTTTGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
19 12 0.17
20 10 0.14
21 49 0.68
22 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (21 bp):
GAATCTTTGAAAATCTTTTGC
Found at i:18002605 original size:19 final size:20
Alignment explanation
Indices: 18002571--18002638 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
18002561 GAATAATTAA
* *
18002571 AATCCTTTTGCTAATCTTTG
1 AATCTTTTTGCGAATCTTTG
* *
18002591 AAT-TTTTTGTGAATCTTTAA
1 AATCTTTTTGCGAATCTTT-G
18002611 AATCTTTTTGCGAATCTTTG
1 AATCTTTTTGCGAATCTTTG
*
18002631 AGTCTTTT
1 AATCTTTT
18002639 GAGCATCTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.31
20 13 0.33
21 14 0.36
ACGTcount: A:0.22, C:0.13, G:0.12, T:0.53
Consensus pattern (20 bp):
AATCTTTTTGCGAATCTTTG
Found at i:18002611 original size:40 final size:40
Alignment explanation
Indices: 18002553--18002678 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
18002543 TATTTGAAAC
* **
18002553 TCTTTTGCGAATAATTAAAATCCTTTTGCTAATCTTTGAA
1 TCTTTTGAGAATCTTTAAAATCCTTTTGCTAATCTTTGAA
* * * * *
18002593 TTTTTTGTGAATCTTTAAAATCTTTTTGCGAATCTTTGAG
1 TCTTTTGAGAATCTTTAAAATCCTTTTGCTAATCTTTGAA
* * * *
18002633 TCTTTTGAGCATCTTCAAAACCCTTTTG-TGAATCTTTGAG
1 TCTTTTGAGAATCTTTAAAATCCTTTTGCT-AATCTTTGAA
18002673 TCTTTT
1 TCTTTT
18002679 TCACATATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (40 bp):
TCTTTTGAGAATCTTTAAAATCCTTTTGCTAATCTTTGAA
Found at i:18002694 original size:40 final size:40
Alignment explanation
Indices: 18002616--18002705 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
18002606 TTTAAAATCT
* *
18002616 TTTTGCGAATCTTTGAGTCTTTTGAGCATCTTCAAAACCC
1 TTTTGCGAATCTTTGAGTCTTTTCAGCATATTCAAAACCC
* **
18002656 TTTTGTGAATCTTTGAGTCTTTTTCA-CATATTTGAAACCC
1 TTTTGCGAATCTTTGAGTC-TTTTCAGCATATTCAAAACCC
18002696 TTTTGCGAAT
1 TTTTGCGAAT
18002706 GTTTAAACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 38 0.88
41 5 0.12
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (40 bp):
TTTTGCGAATCTTTGAGTCTTTTCAGCATATTCAAAACCC
Found at i:18002806 original size:20 final size:20
Alignment explanation
Indices: 18002781--18003012 Score: 180
Period size: 20 Copynumber: 11.6 Consensus size: 20
18002771 AACCCTGTTA
* *
18002781 TGAATCTTGAACACTCAATG
1 TGAATCTCGAACACTCGATG
*
18002801 TGAATCTCGAACAC-CTAATG
1 TGAATCTCGAACACTC-GATG
* * * *
18002821 TGAATCTTGAATATTTGATG
1 TGAATCTCGAACACTCGATG
18002841 TGAATCTCGAACACTCGATG
1 TGAATCTCGAACACTCGATG
* * * *
18002861 TAAATTTCGAATACTCAATG
1 TGAATCTCGAACACTCGATG
18002881 TGAATCTCGAACACTCGATG
1 TGAATCTCGAACACTCGATG
* * * *
18002901 TGAATCTTGAACCCCCAATG
1 TGAATCTCGAACACTCGATG
* *
18002921 TGAATCTCAAATACTCGATG
1 TGAATCTCGAACACTCGATG
* * *
18002941 TAAATCTCAAACCCTCGATG
1 TGAATCTCGAACACTCGATG
* ** *
18002961 TGAATCT-TAATGCTTGATG
1 TGAATCTCGAACACTCGATG
* * *
18002980 TGAATCTCAAACTCTCCCATG
1 TGAATCTCGAACACT-CGATG
*
18003001 TGAATCTTGAAC
1 TGAATCTCGAAC
18003013 CTTCAATTTG
Statistics
Matches: 165, Mismatches: 43, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
19 16 0.10
20 136 0.82
21 13 0.08
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (20 bp):
TGAATCTCGAACACTCGATG
Found at i:18002853 original size:60 final size:60
Alignment explanation
Indices: 18002781--18003012 Score: 207
Period size: 60 Copynumber: 3.9 Consensus size: 60
18002771 AACCCTGTTA
* * * *
18002781 TGAATCTTGAACACTCAATGTGAATCTCGAACAC-CTAATGTGAATCTTGAATATTTGATG
1 TGAATCTTGAACACTCAATGTGAATCTCGAACACTC-AATGTGAATCTCGAACACTCGATG
* * * * *
18002841 TGAATCTCGAACACTCGATGTAAATTTCGAATACTCAATGTGAATCTCGAACACTCGATG
1 TGAATCTTGAACACTCAATGTGAATCTCGAACACTCAATGTGAATCTCGAACACTCGATG
* * * * * * * *
18002901 TGAATCTTGAACCCCCAATGTGAATCTCAAATACTCGATGTAAATCTCAAACCCTCGATG
1 TGAATCTTGAACACTCAATGTGAATCTCGAACACTCAATGTGAATCTCGAACACTCGATG
** ** * * * *
18002961 TGAATCTT-AATGCTTGATGTGAATCTCAAACTCTCCCATGTGAATCTTGAAC
1 TGAATCTTGAACACTCAATGTGAATCTCGAACACT-CAATGTGAATCTCGAAC
18003013 CTTCAATTTG
Statistics
Matches: 139, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
59 19 0.14
60 119 0.86
61 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (60 bp):
TGAATCTTGAACACTCAATGTGAATCTCGAACACTCAATGTGAATCTCGAACACTCGATG
Found at i:18002926 original size:80 final size:80
Alignment explanation
Indices: 18002793--18002945 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
18002783 AATCTTGAAC
* **** *
18002793 ACTCAATGTGAATCTCGAACACCTAATGTGAATCTTGAATATTTGATGTGAATCTCGAACACTCG
1 ACTCAATGTGAATCTCGAACACCTAATGTGAATCTTGAACACCCAATGTGAATCTCAAACACTCG
18002858 ATGTAAATTTCGAAT
66 ATGTAAATTTCGAAT
* * *
18002873 ACTCAATGTGAATCTCGAACA-CTCGATGTGAATCTTGAACCCCCAATGTGAATCTCAAATACTC
1 ACTCAATGTGAATCTCGAACACCT-AATGTGAATCTTGAACACCCAATGTGAATCTCAAACACTC
18002937 GATGTAAAT
65 GATGTAAAT
18002946 CTCAAACCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 2 0.03
80 61 0.97
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (80 bp):
ACTCAATGTGAATCTCGAACACCTAATGTGAATCTTGAACACCCAATGTGAATCTCAAACACTCG
ATGTAAATTTCGAAT
Found at i:18003140 original size:44 final size:45
Alignment explanation
Indices: 18003102--18003283 Score: 181
Period size: 45 Copynumber: 4.1 Consensus size: 45
18003092 TTCAAGTGTA
*
18003102 AATATTTGATTTTTATATGTGAATATCTAAAA-TTTTCAAATGTA-
1 AATATTTGATTTTTAGATGTGAATATCTAAAACTTTTCAAATG-AG
* * * * * *
18003146 AATCTTTGATTTTCAAATGAGAACATCTAAAATTTTTCAAATGAG
1 AATATTTGATTTTTAGATGTGAATATCTAAAACTTTTCAAATGAG
* * *
18003191 AA-ACTTTGAATTTTAGATGTGAATTTTTAAAACTTTTCAAATGAG
1 AATA-TTTGATTTTTAGATGTGAATATCTAAAACTTTTCAAATGAG
* * * * * *
18003236 AATCTTTCATTTTTAGATGTGAATCTCTAAAAATCTTCAAATGTG
1 AATATTTGATTTTTAGATGTGAATATCTAAAACTTTTCAAATGAG
18003281 AAT
1 AAT
18003284 CTTTAAATCC
Statistics
Matches: 112, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
44 28 0.25
45 84 0.75
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (45 bp):
AATATTTGATTTTTAGATGTGAATATCTAAAACTTTTCAAATGAG
Found at i:18003157 original size:21 final size:21
Alignment explanation
Indices: 18003091--18003164 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
18003081 GTGTGAATCC
* *
18003091 TTTCAAGTGTAAATATTTGAT
1 TTTCAAATGTAAATCTTTGAT
* * ***
18003112 TTTTATATGTGAATATCTAAAAT
1 TTTCAAATGT-AA-ATCTTTGAT
18003135 TTTCAAATGTAAATCTTTGAT
1 TTTCAAATGTAAATCTTTGAT
18003156 TTTCAAATG
1 TTTCAAATG
18003165 AGAACATCTA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 22 0.56
22 4 0.10
23 13 0.33
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (21 bp):
TTTCAAATGTAAATCTTTGAT
Found at i:18003238 original size:24 final size:23
Alignment explanation
Indices: 18003122--18003238 Score: 75
Period size: 21 Copynumber: 5.2 Consensus size: 23
18003112 TTTTATATGT
*
18003122 GAATATCTAAAATTTTCAAATGTA
1 GAATATTTAAAATTTTCAAATG-A
* *
18003146 -AATCTTT--GATTTTCAAATGA
1 GAATATTTAAAATTTTCAAATGA
* *
18003166 GAACATCTAAAATTTTTCAAATGA
1 GAATATTTAAAA-TTTTCAAATGA
* * *
18003190 GAA-ACTTT-GAATTTT-AGATGT
1 GAATA-TTTAAAATTTTCAAATGA
*
18003211 GAATTTTTAAAACTTTTCAAATGA
1 GAATATTTAAAA-TTTTCAAATGA
18003235 GAAT
1 GAAT
18003239 CTTTCATTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
20 1 0.01
21 25 0.36
22 6 0.09
23 13 0.19
24 24 0.35
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (23 bp):
GAATATTTAAAATTTTCAAATGA
Found at i:18003265 original size:90 final size:89
Alignment explanation
Indices: 18003106--18003287 Score: 215
Period size: 90 Copynumber: 2.0 Consensus size: 89
18003096 AGTGTAAATA
* * *
18003106 TTTGATTTTTATATGTGAATATCTAAAATTTTCAAATGTAAATCTTTGATTTTCAAATGAGAACA
1 TTTGAATTTTAGATGTGAATATCTAAAATTTTCAAATGTAAATCTTTCATTTTCAAATGAGAACA
* *
18003171 TCTAAAATTTTTCAAATGAGAAAC
66 TCTAAAAATCTTCAAATGAGAAAC
* * * * *
18003195 TTTGAATTTTAGATGTGAATTTTTAAAACTTTTCAAATG-AGAATCTTTCATTTTTAGATGTGAA
1 TTTGAATTTTAGATGTGAATATCTAAAA-TTTTCAAATGTA-AATCTTTCATTTTCAAATGAGAA
* *
18003259 TC-TCTAAAAATCTTCAAATGTGAATC
64 -CATCTAAAAATCTTCAAATGAGAAAC
18003285 TTT
1 TTT
18003288 AAATCCCTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
89 25 0.32
90 52 0.67
91 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (89 bp):
TTTGAATTTTAGATGTGAATATCTAAAATTTTCAAATGTAAATCTTTCATTTTCAAATGAGAACA
TCTAAAAATCTTCAAATGAGAAAC
Found at i:18003364 original size:77 final size:77
Alignment explanation
Indices: 18003218--18003364 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 77
18003208 TGTGAATTTT
* * *
18003218 TAAAACTTTTCAAATGAGAATCTTTCATTTTTAGATGTGAATCTCTAAAAATCTTCAAATGTGAA
1 TAAAACTTTTCAAATGAGAATCTTTCATTTTTAGATGTAAATCTCTAAAAATCTTAAAAAGTGAA
18003283 TCTTTAAATCCC
66 TCTTTAAATCCC
* * * * * *
18003295 TAAAATTTTTCAAAT-ACGAATTTTTTATTTTTAGATGTAAATTTCTAAAATTTTTAAAAAGTGA
1 TAAAACTTTTCAAATGA-GAATCTTTCATTTTTAGATGTAAATCTCTAAAAATCTTAAAAAGTGA
*
18003359 GTCTTT
65 ATCTTT
18003365 GATTTTTAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 1 0.02
77 58 0.98
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (77 bp):
TAAAACTTTTCAAATGAGAATCTTTCATTTTTAGATGTAAATCTCTAAAAATCTTAAAAAGTGAA
TCTTTAAATCCC
Found at i:18003412 original size:38 final size:37
Alignment explanation
Indices: 18003362--18003537 Score: 145
Period size: 38 Copynumber: 4.6 Consensus size: 37
18003352 AAAGTGAGTC
* *
18003362 TTTGATTTTTAGAAGTAAATCTCTTCAAATATGAATA
1 TTTGAATTTTAGAAGTGAATCTCTTCAAATATGAATA
* * * *
18003399 TTTGAAATTTTAGATGTGAATCTTTTCAAATGTGAATC
1 TTTG-AATTTTAGAAGTGAATCTCTTCAAATATGAATA
* * * * *
18003437 TTTGATTTTTAAGATGCGAATCTCTTTAAATATGAATC
1 TTTGAATTTT-AGAAGTGAATCTCTTCAAATATGAATA
* * *
18003475 TTTGAGTTTGAGTTTAGAAGTGAATCTCTTTAGATATGAATA
1 TTTGA-----ATTTTAGAAGTGAATCTCTTCAAATATGAATA
* *
18003517 TTTGAGTTTTAGATGTGAATC
1 TTTGAATTTTAGAAGTGAATC
18003538 ACTTGAACAT
Statistics
Matches: 112, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
37 22 0.20
38 59 0.53
42 28 0.25
43 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.44
Consensus pattern (37 bp):
TTTGAATTTTAGAAGTGAATCTCTTCAAATATGAATA
Found at i:18003652 original size:23 final size:23
Alignment explanation
Indices: 18003566--18003681 Score: 79
Period size: 23 Copynumber: 5.0 Consensus size: 23
18003556 AGAATTTTTT
* * *
18003566 ATTTTTTGATTTGAATTTTTGAAA
1 ATTTTTAGATGTGAATCTTT-AAA
* * * *
18003590 AATTTCAAATGTGAATCTCTAAA
1 ATTTTTAGATGTGAATCTTTAAA
***
18003613 ATTTTTAGATAAAAATCTTTAAA
1 ATTTTTAGATGTGAATCTTTAAA
**
18003636 ATTTTTCTATGTGAATCTCTTAAA
1 ATTTTTAGATGTGAATCT-TTAAA
* * *
18003660 TTTTTTAGATTTGAATATTTAA
1 ATTTTTAGATGTGAATCTTTAA
18003682 TTGTTAAGTT
Statistics
Matches: 67, Mismatches: 24, Indels: 3
0.71 0.26 0.03
Matches are distributed among these distances:
23 36 0.54
24 31 0.46
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTTTAGATGTGAATCTTTAAA
Found at i:18004449 original size:12 final size:13
Alignment explanation
Indices: 18004434--18004493 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 13
18004424 AATATTATTT
18004434 TAAATA-TAAATA
1 TAAATATTAAATA
18004446 TAAA-ATTAAATA
1 TAAATATTAAATA
* *
18004458 TATATA-AAAATA
1 TAAATATTAAATA
*
18004470 TATATAATTAAATA
1 TAAAT-ATTAAATA
18004484 TAAA-ATTAAA
1 TAAATATTAAA
18004494 AAAATAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.03
12 29 0.73
13 2 0.05
14 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:18004474 original size:16 final size:16
Alignment explanation
Indices: 18004437--18004475 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18004427 ATTATTTTAA
* *
18004437 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
18004453 AAATATATATAAAAAT
1 ATATATATATAAAAAT
18004469 ATATATA
1 ATATATA
18004476 ATTAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:18004486 original size:22 final size:22
Alignment explanation
Indices: 18004433--18004494 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
18004423 AAATATTATT
*
18004433 TTAAATATAAATATAAAATTAA
1 TTAAATATAAAAATAAAATTAA
* * *
18004455 ATATATATAAAAAT-ATATATAA
1 TTAAATATAAAAATAAAAT-TAA
*
18004477 TTAAATATAAAATTAAAA
1 TTAAATATAAAAATAAAA
18004495 AAATAATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 3 0.10
22 25 0.83
23 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAATATAAAAATAAAATTAA
Found at i:18009149 original size:17 final size:18
Alignment explanation
Indices: 18009117--18009150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18009107 AAAAAGGAAC
18009117 GAAAAGAAAGAAAGAATA
1 GAAAAGAAAGAAAGAATA
*
18009135 GAAAAGAGA-AAAGAAT
1 GAAAAGAAAGAAAGAAT
18009151 TAATCCGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (18 bp):
GAAAAGAAAGAAAGAATA
Found at i:18012890 original size:3 final size:3
Alignment explanation
Indices: 18012882--18012925 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18012872 TTATGAAAAC
18012882 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18012926 CCAATAGGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18013638 original size:23 final size:23
Alignment explanation
Indices: 18013608--18013656 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18013598 TTTTTTTGGG
18013608 GTATATATGCTTTATTAGAATAC
1 GTATATATGCTTTATTAGAATAC
18013631 GTATATATGCTTTATTAGAATAC
1 GTATATATGCTTTATTAGAATAC
18013654 GTA
1 GTA
18013657 CTACGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (23 bp):
GTATATATGCTTTATTAGAATAC
Found at i:18013667 original size:21 final size:23
Alignment explanation
Indices: 18013608--18013669 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
18013598 TTTTTTTGGG
*
18013608 GTATATATGCTTTATTAGAATAC
1 GTATATACGCTTTATTAGAATAC
*
18013631 GTATATATGCTTTATTAGAATAC
1 GTATATACGCTTTATTAGAATAC
*
18013654 GTA-CTACG-TTTATTAG
1 GTATATACGCTTTATTAG
18013670 TACATAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.22
22 3 0.08
23 26 0.70
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (23 bp):
GTATATACGCTTTATTAGAATAC
Found at i:18016002 original size:16 final size:16
Alignment explanation
Indices: 18015981--18016125 Score: 149
Period size: 16 Copynumber: 9.2 Consensus size: 16
18015971 GATTTAAGGG
18015981 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
*
18015997 TTTGGATTTT-GGG-G
1 TTTGGATTTTAGGGAT
18016011 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
*
18016027 TTCGGATTTTAAGGG--
1 TTTGGATTTT-AGGGAT
* * *
18016042 TTGGGATTTAACGGAT
1 TTTGGATTTTAGGGAT
*
18016058 TTTAGATTTTAGGG-T
1 TTTGGATTTTAGGGAT
18016073 TTTCGGATTTTA-GGAT
1 TTT-GGATTTTAGGGAT
18016089 TTTGGATTTTAAGGAGAT
1 TTTGGATTTT-AGG-GAT
*
18016107 TTTGGATTTTAGGGGT
1 TTTGGATTTTAGGGAT
18016123 TTT
1 TTT
18016126 AGAAACCTAG
Statistics
Matches: 107, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
14 13 0.12
15 27 0.25
16 46 0.43
17 8 0.07
18 13 0.12
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:18016049 original size:31 final size:31
Alignment explanation
Indices: 18015973--18016125 Score: 177
Period size: 31 Copynumber: 4.9 Consensus size: 31
18015963 GAGGTTTTGA
18015973 TTTAAGGGTTTGGATTTTAGGGATTTTGGAT
1 TTTAAGGGTTTGGATTTTAGGGATTTTGGAT
* *
18016004 TTT-GGGGTTTGGATTTTAGGGATTTCGGAT
1 TTTAAGGGTTTGGATTTTAGGGATTTTGGAT
* * * *
18016034 TTTAAGGGTTGGGATTTAACGGATTTTAGAT
1 TTTAAGGGTTTGGATTTTAGGGATTTTGGAT
18016065 TTT-AGGGTTTTCGGATTTTA-GGATTTTGGAT
1 TTTAAGGG-TTT-GGATTTTAGGGATTTTGGAT
*
18016096 TTTAAGGAGATTTTGGATTTTAGGGGTTTT
1 TTTAAGG-G--TTTGGATTTTAGGGATTTT
18016126 AGAAACCTAG
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
30 32 0.31
31 42 0.41
32 10 0.10
33 9 0.09
34 10 0.10
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (31 bp):
TTTAAGGGTTTGGATTTTAGGGATTTTGGAT
Found at i:18016050 original size:15 final size:14
Alignment explanation
Indices: 18015909--18016120 Score: 123
Period size: 16 Copynumber: 14.5 Consensus size: 14
18015899 ATATGGAAGG
*
18015909 TTTAGGGTTTTGAT
1 TTTAGGGTTTGGAT
*
18015923 TTTAGAGTTTGGAGAT
1 TTTAGGGTTT-G-GAT
*
18015939 TTTAGGGTTTGGGT
1 TTTAGGGTTTGGAT
18015953 TTT---G--T-GAT
1 TTTAGGGTTTGGAT
* *
18015961 TTGA-GGTTTTGAT
1 TTTAGGGTTTGGAT
*
18015974 TTAAGGGTTTGGAT
1 TTTAGGGTTTGGAT
18015988 TTTAGGGATTTTGGAT
1 TTTAGGG--TTTGGAT
*
18016004 TTTGGGGTTTGGAT
1 TTTAGGGTTTGGAT
18016018 TTTAGGGATTTCGGAT
1 TTTAGGG-TTT-GGAT
*
18016034 TTTAAGGGTTGGGAT
1 TTT-AGGGTTTGGAT
* * *
18016049 TTAACGGATTTTAGAT
1 TTTA-GG-GTTTGGAT
18016065 TTTAGGGTTTTCGGAT
1 TTTAGGG-TTT-GGAT
*
18016081 TTTAGGATTTTGGAT
1 TTTAGG-GTTTGGAT
18016096 TTTAAGGAGATTTTGGAT
1 TTT-AGG-G--TTTGGAT
18016114 TTTAGGG
1 TTTAGGG
18016121 GTTTTAGAAA
Statistics
Matches: 156, Mismatches: 21, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
8 4 0.03
9 1 0.01
10 1 0.01
11 1 0.01
12 1 0.01
13 6 0.04
14 42 0.27
15 24 0.15
16 59 0.38
17 7 0.04
18 10 0.06
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTGGAT
Found at i:18016069 original size:47 final size:49
Alignment explanation
Indices: 18016015--18016120 Score: 137
Period size: 47 Copynumber: 2.2 Consensus size: 49
18016005 TTGGGGTTTG
18016015 GATTTTAGGGATTTCGGATTTTAAGG-GTTGGGA-TTTAACG-GATTTTA
1 GATTTTAGGGATTTCGGATTTT-AGGAGTTGGGATTTTAACGAGATTTTA
* * * * *
18016062 GATTTTAGGGTTTTCGGATTTTAGGATTTTGGATTTTAAGGAGATTTTG
1 GATTTTAGGGATTTCGGATTTTAGGAGTTGGGATTTTAACGAGATTTTA
18016111 GATTTTAGGG
1 GATTTTAGGG
18016121 GTTTTAGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 3 0.06
47 26 0.51
48 6 0.12
49 16 0.31
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (49 bp):
GATTTTAGGGATTTCGGATTTTAGGAGTTGGGATTTTAACGAGATTTTA
Found at i:18016116 original size:7 final size:7
Alignment explanation
Indices: 18015981--18016098 Score: 58
Period size: 7 Copynumber: 15.4 Consensus size: 7
18015971 GATTTAAGGG
18015981 TTTGGAT
1 TTTGGAT
18015988 TTTAGGGAT
1 TTT--GGAT
18015997 TTTGGAT
1 TTTGGAT
**
18016004 TTTGGGG
1 TTTGGAT
18016011 TTTGGAT
1 TTTGGAT
18016018 TTTAGGGAT
1 TTT--GGAT
*
18016027 TTCGGAT
1 TTTGGAT
*
18016034 TTTAAGG-G
1 TTT--GGAT
*
18016042 TTGGGAT
1 TTTGGAT
*
18016049 TTAACGGAT
1 TT--TGGAT
*
18016058 TTTAGAT
1 TTTGGAT
*
18016065 TTTAGGGT
1 TTT-GGAT
18016073 TTTCGGAT
1 TTT-GGAT
18016081 TTTAGGAT
1 TTT-GGAT
18016089 TTTGGAT
1 TTTGGAT
18016096 TTT
1 TTT
18016099 AAGGAGATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
6 2 0.02
7 41 0.49
8 20 0.24
9 21 0.25
ACGTcount: A:0.18, C:0.03, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTGGAT
Found at i:18017661 original size:3 final size:3
Alignment explanation
Indices: 18017653--18017694 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
18017643 CAATATATAT
18017653 TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
18017695 ATTTTAATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18026004 original size:20 final size:21
Alignment explanation
Indices: 18025981--18026037 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
18025971 AGTCAAGTCC
*
18025981 TTTAACATTTGTATATCA-TT
1 TTTAATATTTGTATATCACTT
18026001 TTTAAATATTTGTAT-TCACTT
1 TTT-AATATTTGTATATCACTT
* *
18026022 TTCAATACTTGTATAT
1 TTTAATATTTGTATAT
18026038 TTTCAAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTAATATTTGTATATCACTT
Found at i:18026012 original size:21 final size:21
Alignment explanation
Indices: 18025987--18026037 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
18025977 GTCCTTTAAC
*
18025987 ATTTGTATATCATTTTTAAAT
1 ATTTGTATATCACTTTTAAAT
*
18026008 ATTTGTAT-TCACTTTTCAAT
1 ATTTGTATATCACTTTTAAAT
*
18026028 ACTTGTATAT
1 ATTTGTATAT
18026038 TTTCAAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTGTATATCACTTTTAAAT
Found at i:18032103 original size:18 final size:17
Alignment explanation
Indices: 18032058--18032105 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
18032048 ATAAAAAGTT
18032058 AAATATAAATATAAATA
1 AAATATAAATATAAATA
* * *
18032075 AAAAACAAAATATAAATGC
1 AAATA-TAAATATAAAT-A
18032094 AAATATAAATAT
1 AAATATAAATAT
18032106 TTAAACCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATATAAATATAAATA
Found at i:18033208 original size:59 final size:59
Alignment explanation
Indices: 18033140--18033252 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
18033130 CTCTTTTTGA
** *
18033140 ATTTCTAAACTTTTTACCATTTGGGCCTATTTAAAAATTCTTTTTATTTATTTATTTTT
1 ATTTCTAAACTTTTTACCATTTAAGCCAATTTAAAAATTCTTTTTATTTATTTATTTTT
* * *
18033199 ATTTCTAAACTTTTTACCATTTAAGTCAATTTAGAAATTCTTTTTATTTTTTTA
1 ATTTCTAAACTTTTTACCATTTAAGCCAATTTAAAAATTCTTTTTATTTATTTA
18033253 AAAGAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (59 bp):
ATTTCTAAACTTTTTACCATTTAAGCCAATTTAAAAATTCTTTTTATTTATTTATTTTT
Found at i:18033613 original size:7 final size:7
Alignment explanation
Indices: 18033601--18033635 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
18033591 ATTCTCAAAT
18033601 TTTTTTA
1 TTTTTTA
18033608 TTTTTTA
1 TTTTTTA
18033615 TTTTTTA
1 TTTTTTA
*
18033622 TTCTTTA
1 TTTTTTA
18033629 TTCTTTT
1 TT-TTTT
18033636 TTCTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 22 0.88
8 3 0.12
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:18033620 original size:14 final size:14
Alignment explanation
Indices: 18033601--18033639 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
18033591 ATTCTCAAAT
*
18033601 TTTTTTATTTTTTA
1 TTTTTTATTCTTTA
18033615 TTTTTTATTCTTTA
1 TTTTTTATTCTTTA
18033629 TTCTTTT-TTCT
1 TT-TTTTATTCT
18033640 AAATTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTATTCTTTA
Found at i:18034298 original size:41 final size:39
Alignment explanation
Indices: 18034246--18034370 Score: 146
Period size: 41 Copynumber: 3.1 Consensus size: 39
18034236 AGTAAACAAA
18034246 GCTCCTCTAAACAGAGGAACAACAACTTTGAAAAGTAAAAT
1 GCTCCTCTAAACAGAGG-ACAACAACTTTGAAAA-TAAAAT
* *
18034287 GCTCCTTTAAACAGAGG-CATCGTAACTTTG-AAATAAAAT
1 GCTCCTCTAAACAGAGGACAAC--AACTTTGAAAATAAAAT
* *
18034326 GCTCCTCTAAACAAAGGCACCACAACTTTGAAAAATAAAAT
1 GCTCCTCTAAACAGAGG-ACAACAACTTTG-AAAATAAAAT
18034367 GCTC
1 GCTC
18034371 TTCGACAATC
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
39 31 0.43
40 3 0.04
41 38 0.53
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGACAACAACTTTGAAAATAAAAT
Found at i:18035605 original size:79 final size:79
Alignment explanation
Indices: 18035452--18035607 Score: 179
Period size: 79 Copynumber: 2.0 Consensus size: 79
18035442 AACTGACCTT
* ** * *
18035452 CATTATTTTCATCACTTGATCACTATTCATAGACATCTCAACACTAGCAATTTTAAAATAAATTC
1 CATTATGTTCATCACTCCATCACCATTCATAGACATCTCAACACTAGCAATTCTAAAATAAATTC
18035517 TATCAATTGATCTA
66 TATCAATTGATCTA
* * * * * * *
18035531 CATTATGTTCATCACTCCATTACCATTCATAGGCTTCTCAATACTAGCCATTCTAGAATGAATT-
1 CATTATGTTCATCACTCCATCACCATTCATAGACATCTCAACACTAGCAATTCTAAAATAAATTC
*
18035595 TCATCCATTGATC
66 T-ATCAATTGATC
18035608 ATCATCATTT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
78 1 0.02
79 62 0.98
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (79 bp):
CATTATGTTCATCACTCCATCACCATTCATAGACATCTCAACACTAGCAATTCTAAAATAAATTC
TATCAATTGATCTA
Found at i:18036228 original size:8 final size:8
Alignment explanation
Indices: 18036205--18036298 Score: 72
Period size: 8 Copynumber: 11.8 Consensus size: 8
18036195 TCATTTTCAT
18036205 ATTTTTTCC
1 ATTTTTT-C
18036214 ATTTTTTC
1 ATTTTTTC
18036222 ATTTTTTTTC
1 A--TTTTTTC
*
18036232 TTTTTTTC
1 ATTTTTTC
*
18036240 --TCTTTC
1 ATTTTTTC
18036246 ATTTTTTC
1 ATTTTTTC
18036254 ATTTTTTTC
1 A-TTTTTTC
18036263 ATTTTTTC
1 ATTTTTTC
*
18036271 -TCTTTT-
1 ATTTTTTC
18036277 ATATTTTT-
1 AT-TTTTTC
18036285 ATTTTTTC
1 ATTTTTTC
*
18036293 CTTTTT
1 ATTTTT
18036299 AATTTTTTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
6 5 0.07
7 11 0.15
8 33 0.46
9 15 0.21
10 7 0.10
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTTC
Found at i:18036259 original size:31 final size:31
Alignment explanation
Indices: 18036213--18036298 Score: 120
Period size: 31 Copynumber: 2.7 Consensus size: 31
18036203 ATATTTTTTC
18036213 CATTTTTTCATTTTTTTTCTTTTTTTCTCTTT
1 CATTTTTTCA-TTTTTTTCTTTTTTTCTCTTT
*
18036245 CATTTTTTCATTTTTTTCATTTTTTCTCTTT
1 CATTTTTTCATTTTTTTCTTTTTTTCTCTTT
* *
18036276 TATATTTTT-ATTTTTTCCTTTTT
1 CAT-TTTTTCATTTTTTTCTTTTT
18036299 AATTTTTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 34 0.69
32 15 0.31
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (31 bp):
CATTTTTTCATTTTTTTCTTTTTTTCTCTTT
Found at i:18036288 original size:22 final size:22
Alignment explanation
Indices: 18036257--18036305 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
18036247 TTTTTTCATT
18036257 TTTTTCATTTTTT-CTCTTTTATA
1 TTTTTCATTTTTTCCT-TTTTA-A
18036280 TTTTT-ATTTTTTCCTTTTTAA
1 TTTTTCATTTTTTCCTTTTTAA
18036301 TTTTT
1 TTTTT
18036306 TTCATCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 12 0.48
23 7 0.28
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTCATTTTTTCCTTTTTAA
Found at i:18040413 original size:59 final size:59
Alignment explanation
Indices: 18040283--18040413 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
18040273 TTAAAAATAT
** * *
18040283 TTTATTTTTTTGAATTTCTAAACTTTTTACCATTTGGGCTTATTTAGAAATTCTCTTTA
1 TTTATTTTTTTTTATTTCTAAACTTTTTACCATTTGGGCTAATTTAAAAATTCTCTTTA
* * *
18040342 TTTATTTATTTTTATTTCTAAA-TTTTTCACCATTTGTG-TCAATTTAAAAATTCTTTTTA
1 TTTATTTTTTTTTATTTCTAAACTTTTT-ACCATTTGGGCT-AATTTAAAAATTCTCTTTA
*
18040401 TTTCTTTTTTTTT
1 TTTATTTTTTTTT
18040414 TGAAAGAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 6 0.10
59 55 0.90
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (59 bp):
TTTATTTTTTTTTATTTCTAAACTTTTTACCATTTGGGCTAATTTAAAAATTCTCTTTA
Found at i:18041236 original size:20 final size:20
Alignment explanation
Indices: 18041208--18041249 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
18041198 AACTTTATAA
*
18041208 ACCAGTTCAAATAATTTCAC
1 ACCAATTCAAATAATTTCAC
18041228 ACCAATTCAAATAATTTCAC
1 ACCAATTCAAATAATTTCAC
18041248 AC
1 AC
18041250 AAACTCAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (20 bp):
ACCAATTCAAATAATTTCAC
Found at i:18041257 original size:20 final size:20
Alignment explanation
Indices: 18041214--18041257 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
18041204 ATAAACCAGT
* *
18041214 TCAAATAATTTCACACCAAT
1 TCAAATAATTTCACACAAAC
18041234 TCAAATAATTTCACACAAAC
1 TCAAATAATTTCACACAAAC
18041254 TCAA
1 TCAA
18041258 CTACTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (20 bp):
TCAAATAATTTCACACAAAC
Found at i:18042219 original size:21 final size:21
Alignment explanation
Indices: 18042190--18042236 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18042180 CGTGAGGCAG
*
18042190 ATATCAGTGATGAGTAATGAC
1 ATATTAGTGATGAGTAATGAC
18042211 ATATTAGTGATGAGTAATGAC
1 ATATTAGTGATGAGTAATGAC
18042232 ATATT
1 ATATT
18042237 TCTTGTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.34
Consensus pattern (21 bp):
ATATTAGTGATGAGTAATGAC
Found at i:18042832 original size:40 final size:40
Alignment explanation
Indices: 18042787--18042865 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
18042777 AATCGAAATT
* *
18042787 TATTTAACGATAAAAA-TTTATTCAATATTTTTATTAAAAA
1 TATTTAACGAAAAAAATTTTATTCAAAATTTTT-TTAAAAA
* * *
18042827 TATTTATCTAAAAAAATTTTTTTCAAAATTTTTTTAAAA
1 TATTTAACGAAAAAAATTTTATTCAAAATTTTTTTAAAA
18042866 TTTGACACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 19 0.58
41 14 0.42
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (40 bp):
TATTTAACGAAAAAAATTTTATTCAAAATTTTTTTAAAAA
Found at i:18042856 original size:12 final size:11
Alignment explanation
Indices: 18042839--18042868 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
18042829 TTTATCTAAA
18042839 AAAATTTTTTT
1 AAAATTTTTTT
18042850 CAAAATTTTTTT
1 -AAAATTTTTTT
18042862 AAAATTT
1 AAAATTT
18042869 GACACATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
AAAATTTTTTT
Found at i:18065042 original size:73 final size:73
Alignment explanation
Indices: 18064923--18065062 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 73
18064913 TTGACCAAAG
18064923 TCTTAACATGACTTTCCTGACCATGCCATAGTTGAATTGAAGGTTCAAAGTTGAAACATGAAACA
1 TCTTAACATGACTTTCCTGACCATGCCATAGTTGAATTGAAGGTTCAAAGTTGAAACATGAAACA
18064988 GACTAAGC
66 GACTAAGC
* *** * **
18064996 TCTTAACATGACTTTCTTGATTGTGCGATAGTTGAATTGTGGGTTCAAAGTTGAAACATGAAACA
1 TCTTAACATGACTTTCCTGACCATGCCATAGTTGAATTGAAGGTTCAAAGTTGAAACATGAAACA
18065061 GA
66 GA
18065063 TTTGGAACTG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (73 bp):
TCTTAACATGACTTTCCTGACCATGCCATAGTTGAATTGAAGGTTCAAAGTTGAAACATGAAACA
GACTAAGC
Found at i:18067488 original size:10 final size:10
Alignment explanation
Indices: 18067464--18067507 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
18067454 CCTAAAAATG
18067464 TTTTATTTAT
1 TTTTATTTAT
18067474 TATTTATTTTTAT
1 T-TTTA--TTTAT
18067487 TTTTATTTAT
1 TTTTATTTAT
18067497 TTTTA-TTAT
1 TTTTATTTAT
18067506 TT
1 TT
18067508 AATTGGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.19
10 11 0.35
11 4 0.13
12 4 0.13
13 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTTAT
Done.