Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 119 of 193
Found at i:37781065 original size:11 final size:11
Alignment explanation
Indices: 37781049--37781099 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
37781039 TTTTATAATT
*
37781049 TAAATTTAAGG
1 TAAATTTAAGA
37781060 TAAATTTAA-A
1 TAAATTTAAGA
* **
37781070 T-AATTAAATT
1 TAAATTTAAGA
37781080 TAAATTTAAGA
1 TAAATTTAAGA
37781091 TAAATTTAA
1 TAAATTTAA
37781100 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAAATTTAAGA
Found at i:37781067 original size:17 final size:16
Alignment explanation
Indices: 37781045--37781118 Score: 89
Period size: 17 Copynumber: 4.6 Consensus size: 16
37781035 TTGTTTTTAT
*
37781045 AATTTAAATTTAAGGTA
1 AATTTAAATTTAA-ATA
*
37781062 AATTTAAA--TAATTA
1 AATTTAAATTTAAATA
37781076 AATTTAAATTTAAGATA
1 AATTTAAATTTAA-ATA
37781093 AATTTAAATTTAAATA
1 AATTTAAATTTAAATA
37781109 AATTTCAAAT
1 AATTT-AAAT
37781119 CAATTTAACC
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 11 0.22
17 27 0.53
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:37781118 original size:11 final size:10
Alignment explanation
Indices: 37781049--37781126 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
37781039 TTTTATAATT
*
37781049 TAAATTTAAGG
1 TAAATTTAA-A
37781060 TAAATTTAAA
1 TAAATTTAAA
37781070 T-AA-TTAAA
1 TAAATTTAAA
37781078 TTTAAATTTAAGA
1 --TAAATTTAA-A
37781091 TAAA-TT---
1 TAAATTTAAA
37781097 TAAATTTAAA
1 TAAATTTAAA
37781107 TAAATTTCAAA
1 TAAATTT-AAA
*
37781118 TCAATTTAA
1 TAAATTTAA
37781127 CCTCTAAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 5 0.09
9 2 0.04
10 13 0.24
11 24 0.44
12 4 0.07
13 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:37781608 original size:76 final size:77
Alignment explanation
Indices: 37781482--37782200 Score: 978
Period size: 76 Copynumber: 9.7 Consensus size: 77
37781472 TTTGTCTAAT
*
37781482 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTTTACTTCAATTTCAAGAGGAT-GGA
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
37781546 AAACGATCTTGC
66 AAACGATCTTGC
* *
37781558 TCTTACTTCAATTTCAGAGATAAAGCCGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
37781623 AAA-GATCTTGC
66 AAACGATCTTGC
* * * * * * *
37781634 TTTTACTTCGATTTCAGAAATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
37781699 AAA-GATCTTGC
66 AAACGATCTTGC
*
37781710 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG-
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
37781774 AAATGATCTTGC
66 AAACGATCTTGC
* *
37781786 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGG-
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
37781850 AAATGATCTTGC
66 AAACGATCTTGC
* * * *
37781862 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCTAGCGGAT--G-
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
37781924 --ACG---TTGC
66 AAACGATCTTGC
*
37781931 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
37781996 AAA-GATCTTGC
66 AAACGATCTTGC
* * *
37782007 TCTTACTTCAATTTC--AG----AGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT--G-
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
37782063 --ACG---TTGC
66 AAACGATCTTGC
*
37782070 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACCTCAATTTCAA-ACGGATAGG
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGA-GGATAGG
37782134 AAAAC-ATCTTGC
65 AAAACGATCTTGC
* *
37782146 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-GCTCCACTTCAATTTCAAG
1 TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAG
37782201 GAAAAGATCT
Statistics
Matches: 582, Mismatches: 34, Indels: 54
0.87 0.05 0.08
Matches are distributed among these distances:
63 19 0.03
65 3 0.01
66 1 0.00
68 1 0.00
69 95 0.16
70 36 0.06
71 2 0.00
72 2 0.00
73 1 0.00
74 6 0.01
75 18 0.03
76 392 0.67
77 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (77 bp):
TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
AAACGATCTTGC
Found at i:37791907 original size:19 final size:19
Alignment explanation
Indices: 37791883--37791921 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37791873 GTAAATATAC
37791883 AAATAT-TTTAAATATTTTT
1 AAATATATTT-AATATTTTT
*
37791902 AAATATATTTTATATTTTT
1 AAATATATTTAATATTTTT
37791921 A
1 A
37791922 GAATTAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATATATTTAATATTTTT
Found at i:37792151 original size:29 final size:31
Alignment explanation
Indices: 37792117--37792187 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
37792107 TTTCGAAAAG
* *
37792117 TTGAGTAACTAA-ATCGAAAAACTT-AATAA
1 TTGAGTGACTAATATAGAAAAACTTGAATAA
* * *
37792146 TTGAGTGACCAATATAGAACAATTTGAATAA
1 TTGAGTGACTAATATAGAAAAACTTGAATAA
37792177 TTGAGTGACTA
1 TTGAGTGACTA
37792188 TTCTTATACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 10 0.29
30 9 0.26
31 15 0.44
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (31 bp):
TTGAGTGACTAATATAGAAAAACTTGAATAA
Found at i:37794337 original size:21 final size:21
Alignment explanation
Indices: 37794311--37794355 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
37794301 AAACTTTTTA
37794311 AAATTAAAAATAGAACTAAAT
1 AAATTAAAAATAGAACTAAAT
37794332 AAATTAAAAATAGAACTAAAT
1 AAATTAAAAATAGAACTAAAT
37794353 AAA
1 AAA
37794356 AATTTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATTAAAAATAGAACTAAAT
Found at i:37794807 original size:28 final size:28
Alignment explanation
Indices: 37794763--37794848 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
37794753 TTTTTTTAAA
37794763 AAATATTTATATTATATTATTTTAATATT-
1 AAATATTT-TA-TATATTATTTTAATATTG
* * *
37794792 TAATAATTTTATATATT-TTTCAGTGATTG
1 AAAT-ATTTTATATATTATTTTAAT-ATTG
*
37794821 AAATTTTTTATATAGTTATTTTAATATT
1 AAATATTTTATATA-TTATTTTAATATT
37794849 ATTTCAATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.11
28 18 0.40
29 13 0.29
30 9 0.20
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (28 bp):
AAATATTTTATATATTATTTTAATATTG
Found at i:37797958 original size:29 final size:28
Alignment explanation
Indices: 37797903--37797958 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
37797893 TGTTTTGTTG
* * *
37797903 CTGTTTTTTTACTGTTTTGGTATTTTTA
1 CTGTTTTATTACTATTTTGGTACTTTTA
*
37797931 CTGTTTTAATTACTATTTTGGTGCTTTT
1 CTGTTTT-ATTACTATTTTGGTACTTTT
37797959 TTTTATTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.12, C:0.09, G:0.14, T:0.64
Consensus pattern (28 bp):
CTGTTTTATTACTATTTTGGTACTTTTA
Found at i:37798046 original size:22 final size:21
Alignment explanation
Indices: 37798008--37798063 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
37797998 TTTGTTGCTA
37798008 TTTTTTCTGTTATTTTTATTG
1 TTTTTTCTGTTATTTTTATTG
*
37798029 TTTTTT-TGTTTATATTTTGTTG
1 TTTTTTCTG-TTAT-TTTTATTG
37798051 TTTTGTTGCTGTT
1 TTTT-TT-CTGTT
37798064 TTGCTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
22 11 0.38
23 2 0.07
24 2 0.07
25 2 0.07
ACGTcount: A:0.07, C:0.04, G:0.14, T:0.75
Consensus pattern (21 bp):
TTTTTTCTGTTATTTTTATTG
Found at i:37798679 original size:6 final size:7
Alignment explanation
Indices: 37798666--37798707 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
37798656 CCTAAGTTGA
37798666 AGGTTTG
1 AGGTTTG
37798673 A-GTTTG
1 AGGTTTG
37798679 AGGTTTG
1 AGGTTTG
*
37798686 -GGTCTG
1 AGGTTTG
*
37798692 AGGTTCG
1 AGGTTTG
37798699 AGGTTTG
1 AGGTTTG
37798706 AG
1 AG
37798708 ATTTTGGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.14, C:0.05, G:0.43, T:0.38
Consensus pattern (7 bp):
AGGTTTG
Found at i:37799703 original size:43 final size:42
Alignment explanation
Indices: 37799650--37799889 Score: 347
Period size: 43 Copynumber: 5.6 Consensus size: 42
37799640 TTATGAGGAA
37799650 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCC-CAC
* * *
37799693 AAACACCGCTAAAGAACATGGTCTTTAGCGGAGCTTTCCTAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCCAC
*
37799735 AAACGCCGCTAAAGGACATGGTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCAC
* * * *
37799778 AAACGCCACTAAAGGACGTGGTCTTTAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCAC
37799821 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTCCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTT-CCCAC
**
37799863 AAACATCGCTAAAGAACATGGTCTTTA
1 AAACGCCGCTAAAGAACATGGTCTTTA
37799890 ACGATGCTTT
Statistics
Matches: 179, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
41 3 0.02
42 62 0.35
43 114 0.64
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCCAC
Found at i:37799745 original size:85 final size:85
Alignment explanation
Indices: 37799650--37799935 Score: 364
Period size: 85 Copynumber: 3.3 Consensus size: 85
37799640 TTATGAGGAA
37799650 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCTCACAAACACCGCTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCC-CACAAACACCGCTAAAGAACATGGT
*
37799715 CTTTAGCGGAGC-TTTCCTAC
65 CTTTAGCGGAGCTTTTCCCAC
* * * * *
37799735 AAACGCCGCTAAAGGACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGGACGTGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCACAAACACCGCTAAAGAACATGGT
* *
37799800 CTTTAGCGGCGCTTTTCCCAT
65 CTTTAGCGGAGCTTTTCCCAC
*
37799821 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTCCCCACAAACATCGCTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTT-CCCACAAACACCGCTAAAGAACATGGT
* *
37799885 CTTTAAC-GATGCTTTTACCCAT
65 CTTTAGCGGA-GCTTTT-CCCAC
* * *
37799907 AAATGCCGCTATAGATA-ATGTTCTTTAGC
1 AAACGCCGCTAAAGA-ACATGGTCTTTAGC
37799936 AACATTTTTC
Statistics
Matches: 176, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
84 4 0.02
85 99 0.56
86 72 0.41
87 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCCACAAACACCGCTAAAGAACATGGTC
TTTAGCGGAGCTTTTCCCAC
Found at i:37799804 original size:128 final size:128
Alignment explanation
Indices: 37799650--37799889 Score: 358
Period size: 128 Copynumber: 1.9 Consensus size: 128
37799640 TTATGAGGAA
*
37799650 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCTCACAAACACCGCTAAAGAACATGG
1 AAACGCCACTAAAGAACATGGTCTTTAGCGGCGCTTTTCC-CACAAACACCGCTAAAGAACATGG
* * *
37799714 TCTTTAGCGGAGCTTT-CCTACAAACGCCGCTAAAGGACATGGTCTTTAGCGGCGCTTTTCCCAC
65 TCTTTAGCGGAG-TTTCCCCACAAACACCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * *
37799778 AAACGCCACTAAAGGACGTGGTCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACATGGT
1 AAACGCCACTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGAACATGGT
* *
37799843 CTTTAGCGGCGTTTCCCCACAAACATCGCTAAAGAACATGGTCTTTA
66 CTTTAGCGGAGTTTCCCCACAAACACCGCTAAAGAACATGGTCTTTA
37799890 ACGATGCTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
127 3 0.03
128 92 0.92
129 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (128 bp):
AAACGCCACTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGAACATGGT
CTTTAGCGGAGTTTCCCCACAAACACCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:37806143 original size:8 final size:8
Alignment explanation
Indices: 37806120--37806155 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
37806110 TTTAGGGTTT
*
37806120 AATAAATA
1 AATAATTA
*
37806128 ACTAATTA
1 AATAATTA
37806136 AATAATTA
1 AATAATTA
37806144 AATAATTA
1 AATAATTA
37806152 AATA
1 AATA
37806156 TTGGGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATTA
Found at i:37806186 original size:111 final size:109
Alignment explanation
Indices: 37806071--37806407 Score: 426
Period size: 111 Copynumber: 3.0 Consensus size: 109
37806061 ATAGTTGCAA
* *
37806071 ATAATTAAATAATTAAATATATTGAATTAAATATTTGTGTTTAGGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTAAATATATTGAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTA
* * * * *
37806136 AATAATTAAATAATTAAATATTGGGTTGTTATTTTTAATAATTTAT
66 AATAATTAATTATTTTAATATT-TGTT-CTATTTTTAATAATTTAT
* * *
37806182 ATAATTGAATAATTTAATATTTTGAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTA
1 ATAATTAAATAATTAAATATATTGAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTA
37806247 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATCTAATAT
66 AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAAT-T--TAT
* * *
37806294 TTATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTT-ATAAATA
1 ATAATTAA-ATAATT--A-AA--T-ATA-TTGAATTAAATATTTGGGTTTAAGGTTTAATAAATA
37806358 ACTAATTAAATAATTAATTATTTTAATATTTGTTCTA-TTTTAATAATTTA
58 ACTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTA
37806408 AATTTATTTA
Statistics
Matches: 199, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
109 13 0.07
110 4 0.02
111 79 0.40
112 8 0.04
113 6 0.03
115 2 0.01
116 2 0.01
117 1 0.01
118 11 0.06
119 46 0.23
120 27 0.14
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (109 bp):
ATAATTAAATAATTAAATATATTGAATTAAATATTTGGGTTTAAGGTTTAATAAATAACTAATTA
AATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATTTAT
Found at i:37806206 original size:17 final size:16
Alignment explanation
Indices: 37806165--37806208 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
37806155 ATTGGGTTGT
*
37806165 TATTTTTAATAATTTA
1 TATTTTGAATAATTTA
*
37806181 TATAATTGAATAATTTAA
1 TAT-TTTGAATAATTT-A
37806199 TATTTTGAAT
1 TATTTTGAAT
37806209 TAAATATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TATTTTGAATAATTTA
Found at i:37806388 original size:119 final size:118
Alignment explanation
Indices: 37806176--37806446 Score: 492
Period size: 119 Copynumber: 2.3 Consensus size: 118
37806166 ATTTTTAATA
37806176 ATTT-ATATAATTGAATAATTTAATATTTTGAATTAAATATTTGGGTTTAAGGTTTAATAAATAA
1 ATTTAATATAATTGAATAATTTAATATTTT-AATTAAATATTTGGGTTTAAGGTTTAATAAATAA
37806240 CTAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTTAATAATCTAATATTT
65 CTAATTAAATAATTAATTATTTTAATATTTGTTCTA-TTTTAATAATCTAA-ATTT
37806296 ATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTT-ATAAATAAC
1 ATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAAC
*
37806360 TAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTAATAATTTAAATTT
66 TAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTAATAATCTAAATTT
37806413 ATTTAATATAATTGAATAATTTAATATTTTAATT
1 ATTTAATATAATTGAATAATTTAATATTTTAATT
37806447 GAGTTTTCTT
Statistics
Matches: 149, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
117 38 0.26
118 13 0.09
119 44 0.30
120 29 0.19
121 25 0.17
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (118 bp):
ATTTAATATAATTGAATAATTTAATATTTTAATTAAATATTTGGGTTTAAGGTTTAATAAATAAC
TAATTAAATAATTAATTATTTTAATATTTGTTCTATTTTAATAATCTAAATTT
Found at i:37808516 original size:29 final size:29
Alignment explanation
Indices: 37808444--37808709 Score: 318
Period size: 29 Copynumber: 9.0 Consensus size: 29
37808434 GAGAAGTTCG
*
37808444 AGGGTTAAAATGTGATTTTGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
*
37808473 GAGGGTTAAAATGTGATTTTGGAAAAGTTT
1 -AGGGTTAAAATGTAATTTTGGAAAAGTTT
*
37808503 AGGGTTAAAATGTGATTTTGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
*
37808532 AGGGGGTTAAAATGTAATTTT-GAAAAATTT
1 A--GGGTTAAAATGTAATTTTGGAAAAGTTT
37808562 AGGGGTTAAAATGTAATTTTGGAAAAGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTT
* * * **
37808592 GGGGGTTAAAATATTATTTTATAAAAGTTT
1 -AGGGTTAAAATGTAATTTTGGAAAAGTTT
*
37808622 AGGGTTAAAATATAATTTTGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
* * *
37808651 GGGGTTAAAATGTGATTTTAGAAAAAGTTT
1 AGGGTTAAAATGTAATTTT-GGAAAAGTTT
* * * *
37808681 ATGGTCAAATTGTAATTTTGTAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT
37808710 GGGGACCTTT
Statistics
Matches: 209, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
29 99 0.47
30 93 0.44
31 17 0.08
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTGGAAAAGTTT
Found at i:37808517 original size:59 final size:59
Alignment explanation
Indices: 37808444--37808713 Score: 364
Period size: 59 Copynumber: 4.6 Consensus size: 59
37808434 GAGAAGTTCG
* *
37808444 AGGGTTAAAATGTGATTTTGGAAAAGTTTGAGGGTTAAAATGTGATTTTGGAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTGATTTTGGAAAAGTTT
* * *
37808503 AGGGTTAAAATGTGATTTTGGAAAAGTTTAGGGGGTTAAAATGTAATTTT-GAAAAATTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTT-GGGGGTTAAAATGTGATTTTGGAAAAGTTT
* * **
37808562 AGGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATATTATTTTATAAAAGTTT
1 A-GGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTGATTTTGGAAAAGTTT
* *
37808622 AGGGTTAAAATATAATTTTGGAAAAGTTT-GGGGTTAAAATGTGATTTTAGAAAAAGTTT
1 AGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTGATTTT-GGAAAAGTTT
* * * *
37808681 ATGGTCAAATTGTAATTTTGTAAAAGTTTGGGG
1 AGGGTTAAAATGTAATTTTGGAAAAGTTTGGGG
37808714 ACCTTTTGAG
Statistics
Matches: 188, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
58 17 0.09
59 115 0.61
60 56 0.30
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (59 bp):
AGGGTTAAAATGTAATTTTGGAAAAGTTTGGGGGTTAAAATGTGATTTTGGAAAAGTTT
Found at i:37813298 original size:17 final size:18
Alignment explanation
Indices: 37813271--37813308 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
37813261 ATCATGTTCT
37813271 TATTGATAGTTAGTGGAA
1 TATTGATAGTTAGTGGAA
*
37813289 TATT-ATAGTTAGTTGAA
1 TATTGATAGTTAGTGGAA
37813306 TAT
1 TAT
37813309 GATGTTTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
TATTGATAGTTAGTGGAA
Found at i:37813729 original size:41 final size:41
Alignment explanation
Indices: 37813573--37813826 Score: 278
Period size: 41 Copynumber: 6.1 Consensus size: 41
37813563 AAAGTGCTGT
* * **
37813573 TAATGCTCTGATCTTTAGCGGCGTTTTGTGGGAAAGCGCCGC
1 TAATGCTCTGACCTTTAGCGGCG-TTTATGATAAAGCGCCGC
* * * **
37813615 TAATGCTCTGATCTTTTTAGTGGTGTTTATGGGAAAGCGCCGC
1 TAATGCTCTGA-C-CTTTAGCGGCGTTTATGATAAAGCGCCGC
*
37813658 TAATGCTTTGACCTTTTAGCGGCGTTTATGATAAAGCGCCGC
1 TAATGCTCTGACC-TTTAGCGGCGTTTATGATAAAGCGCCGC
* * *
37813700 TATTGCTCTGACCTTTAGCGGCGTTTATGACAAAGCACCGC
1 TAATGCTCTGACCTTTAGCGGCGTTTATGATAAAGCGCCGC
*
37813741 TAATGCTCT-ATCCTTTAGCGACGTTTATGATAAAGCGCCGC
1 TAATGCTCTGA-CCTTTAGCGGCGTTTATGATAAAGCGCCGC
* * *
37813782 TAATGCTCTAACATTTAGCGGCGTTTTTCGATCAAA-CGCCGC
1 TAATGCTCTGACCTTTAGCGGCGTTTAT-GAT-AAAGCGCCGC
37813824 TAA
1 TAA
37813827 AAGTGTCGCT
Statistics
Matches: 183, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.01
41 84 0.46
42 60 0.33
43 30 0.16
44 8 0.04
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
TAATGCTCTGACCTTTAGCGGCGTTTATGATAAAGCGCCGC
Found at i:37817329 original size:29 final size:29
Alignment explanation
Indices: 37817224--37817450 Score: 86
Period size: 29 Copynumber: 7.8 Consensus size: 29
37817214 GACCGGAACT
*
37817224 TTTCAAAAATTCCATTTTTTACCCCTAAAC
1 TTTCAAAAATTCCA-TTTTTACCCCCAAAC
* * * ***
37817254 -TTCTATAAATTCCATTTTTAACCTCGATTT
1 TTTC-AAAAATTCCATTTTT-ACCCCCAAAC
** *
37817284 TTTCAAAAATTATATTTTTACCCCCCAAC
1 TTTCAAAAATTCCATTTTTACCCCCAAAC
* * ** ***
37817313 TTTCTAAAATTCCATTTTGACCCTGATTT
1 TTTCAAAAATTCCATTTTTACCCCCAAAC
* **
37817342 TTTTAAAAATTACCA-TTTTA-CCCTGAAC
1 TTTCAAAAATT-CCATTTTTACCCCCAAAC
* * * * ** **
37817370 TTCCAAAAACTCCATTTTTAACTCTGATT
1 TTTCAAAAATTCCATTTTTACCCCCAAAC
* * *
37817399 TTTCCAAAATTACCA-TTTTATCCCTAAAC
1 TTTCAAAAATT-CCATTTTTACCCCCAAAC
37817428 TTTC-AAAATTCCATTTTTGACCC
1 TTTCAAAAATTCCATTTTT-ACCC
37817451 TATTTTTTTT
Statistics
Matches: 139, Mismatches: 49, Indels: 19
0.67 0.24 0.09
Matches are distributed among these distances:
27 6 0.04
28 25 0.18
29 73 0.53
30 32 0.23
31 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTCAAAAATTCCATTTTTACCCCCAAAC
Found at i:37817397 original size:58 final size:60
Alignment explanation
Indices: 37817223--37817458 Score: 240
Period size: 57 Copynumber: 4.1 Consensus size: 60
37817213 TGACCGGAAC
* *
37817223 TTTTCAAAAATT-CCATTTTTTACCCCTAAACTTCTATAAATTCCATTTTTAA-CCTCGATT
1 TTTTCAAAAATTACCA-TTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCT-GATT
* ** * * *
37817283 TTTTCAAAAATTA-TATTTTTACCCCCCAACTTTCTAAAATTCCA-TTTTGACCCTGATT
1 TTTTCAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGATT
* * * *
37817341 TTTTTAAAAATTACCA-TTTTA-CCCTGAACTTCCAAAAACTCCATTTTTAACTCTGA-T
1 TTTTCAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGATT
* * * *
37817398 TTTTCCAAAATTACCA-TTTTATCCCTAAACTTTC-AAAATTCCATTTTTGACCCT-ATT
1 TTTTCAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGATT
37817455 TTTT
1 TTTT
37817459 TTTATTTTTA
Statistics
Matches: 146, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
56 1 0.01
57 59 0.40
58 46 0.32
59 27 0.18
60 13 0.09
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (60 bp):
TTTTCAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGATT
Found at i:37819046 original size:31 final size:31
Alignment explanation
Indices: 37819006--37819066 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
37818996 ATACAAAGAG
37819006 AGGTATAGTTCTAAGCTCAATTACTAAATAA
1 AGGTATAGTTCTAAGCTCAATTACTAAATAA
*
37819037 AGGTTTAGTTCTAAGCTCAATTACTAAATA
1 AGGTATAGTTCTAAGCTCAATTACTAAATA
37819067 GAAAAGCTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (31 bp):
AGGTATAGTTCTAAGCTCAATTACTAAATAA
Found at i:37823927 original size:100 final size:100
Alignment explanation
Indices: 37823620--37824153 Score: 630
Period size: 99 Copynumber: 5.4 Consensus size: 100
37823610 AGATCTGAAA
** * * *
37823620 GGGAAAGATCTAAGATAACAATGGCGGATCCAGTACCGCAAAGATAGAAAAGGGAAGGATTTAAG
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
*
37823685 TCGCAACGGTGAACCTTGTACCTCAGAGACATGAC
66 TCGCAACGGTGAACCTTATACCTCAGAGACATGAC
* * * * *
37823720 AGGAAAGATCTAAGACCACAACGGTGGATCCAGTATCGCAAAGATGC-AAAGGGAAAGGTTTAAG
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
* * * *
37823784 TCGTAACGGCGAACCTTATACCTCAGAGATAGGAC
66 TCGCAACGGTGAACCTTATACCTCAGAGACATGAC
** * *
37823819 GGGAAAGATCTAAGACCACAACGGTAGATCCAGTGCCGCAAAGATACAAAAAGGAAGGGTTTAAG
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
* *
37823884 TCGAAACGGTGAACCTTATACCTTAGAGACATGAC
66 TCGCAACGGTGAACCTTATACCTCAGAGACATGAC
* * * *
37823919 GAGAAAGATCTAAGACCTCAACGGCAGATCCAGTACCGCCGCAAGATACAAAAGGGAAGGGTTTA
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCG-C-AAAGATACAAAAGGGAAGGGTTTA
* * * *
37823984 AGGCGCAACGATGAA-CTT-T-CCTTAGAGACATGAT
64 AGTCGCAACGGTGAACCTTATACCTCAGAGACATGAC
* * * * *
37824018 GGGAAAGATCTAAGACCGCAACGACGGATCCAGTTCCGCAAAGATACAAAAGGGAAAGGTTTAAT
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
* * *
37824083 TCGCAATGGCGAACC-TAGTACCTCAGAGACATGAA
66 TCGCAACGGTGAACCTTA-TACCTCAGAGACATGAC
** **
37824118 GGGAAAGATCTAAG-CCGTAATAGCGGATCCAGTACC
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACC
37824154 ATGAAGACAC
Statistics
Matches: 371, Mismatches: 56, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
97 33 0.09
98 2 0.01
99 152 0.41
100 146 0.39
101 4 0.01
102 34 0.09
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (100 bp):
GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
TCGCAACGGTGAACCTTATACCTCAGAGACATGAC
Found at i:37824024 original size:199 final size:199
Alignment explanation
Indices: 37823620--37824131 Score: 620
Period size: 199 Copynumber: 2.6 Consensus size: 199
37823610 AGATCTGAAA
** * * *
37823620 GGGAAAGATCTAAGATAACAATGGCGGATCCAGTACCGCAAAGATAGAAAAGGGAAGGATTTAAG
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
* **
37823685 TCGCAACGGTGAACCTTGTACCTCAGAGACATGAC-AGGAAAGATCTAAGACCACAACGGTGGAT
66 TCGCAACGGTGAACCTTATACCTCAGAGACATGACGA-GAAAGATCTAAGACCACAACGGCAGAT
* * * * * *
37823749 CCAGTATCGCAAAGATGCAAAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTATACCTCAGAGAT
130 CCAGTACCGCAAAGATACAAAGGGAAAGGTTTAAGGCGCAACGACGAACCTTATACCTCAGAGAC
37823814 AGGAC
195 AGGAC
** * *
37823819 GGGAAAGATCTAAGACCACAACGGTAGATCCAGTGCCGCAAAGATACAAAAAGGAAGGGTTTAAG
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
* * *
37823884 TCGAAACGGTGAACCTTATACCTTAGAGACATGACGAGAAAGATCTAAGACCTCAACGGCAGATC
66 TCGCAACGGTGAACCTTATACCTCAGAGACATGACGAGAAAGATCTAAGACCACAACGGCAGATC
* * * *
37823949 CAGTACCGCCGCAAGATACAAAAGGGAAGGGTTTAAGGCGCAACGATGAA-CTT-T-CCTTAGAG
131 CAGTACCG-C-AAAGATAC-AAAGGGAAAGGTTTAAGGCGCAACGACGAACCTTATACCTCAGAG
* *
37824011 ACATGAT
193 ACAGGAC
* * * * *
37824018 GGGAAAGATCTAAGACCGCAACGACGGATCCAGTTCCGCAAAGATACAAAAGGGAAAGGTTTAAT
1 GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
* * * *
37824083 TCGCAATGGCGAACC-TAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
66 TCGCAACGGTGAACCTTA-TACCTCAGAGACATGACGAGAAAGATCTAAG
37824132 CCGTAATAGC
Statistics
Matches: 267, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
198 2 0.01
199 228 0.85
200 3 0.01
201 9 0.03
202 25 0.09
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (199 bp):
GGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGGGTTTAAG
TCGCAACGGTGAACCTTATACCTCAGAGACATGACGAGAAAGATCTAAGACCACAACGGCAGATC
CAGTACCGCAAAGATACAAAGGGAAAGGTTTAAGGCGCAACGACGAACCTTATACCTCAGAGACA
GGAC
Found at i:37824504 original size:101 final size:99
Alignment explanation
Indices: 37824328--37824536 Score: 310
Period size: 101 Copynumber: 2.1 Consensus size: 99
37824318 GATCAAAACT
* * * * *
37824328 ACAATGGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAATATGAAGCTTTAACGTCAATTC
1 ACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATC
*
37824393 CTATCCTCTTGAAGTTACAGTAAAGTTGGATTAAAA
66 CTATCCTCTTGAAGTTACAGCAAAG-TGGATT-AAA
37824429 ACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATC
1 ACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATC
* * *
37824494 CTATCTTCTTGAAGTTGCAGCGAAGTGGATTAAA
66 CTATCCTCTTGAAGTTACAGCAAAGTGGATTAAA
*
37824528 ACTATAGCA
1 ACAATAGCA
37824537 GCGGATCTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 11 0.11
100 6 0.06
101 81 0.83
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
ACAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATC
CTATCCTCTTGAAGTTACAGCAAAGTGGATTAAA
Found at i:37824508 original size:51 final size:51
Alignment explanation
Indices: 37824343--37824510 Score: 128
Period size: 51 Copynumber: 3.3 Consensus size: 51
37824333 GGCAAGTCTT
* * * *
37824343 TATCTCTCTGAAGTTGTAGTAAGAGCAATATGAAGCTTTAACGTCAATTCC
1 TATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCC
** *** * *** * * * *
37824394 TATC-CTCTTGAAGTTACAGTAA-AGTTGGATTAA-AAACAATAGCAAGTCTT
1 TATCTCTC-TGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATC-C
37824444 TATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCC
1 TATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCC
37824495 TATCT-TCTTGAAGTTG
1 TATCTCTC-TGAAGTTG
37824511 CAGCGAAGTG
Statistics
Matches: 82, Mismatches: 29, Indels: 12
0.67 0.24 0.10
Matches are distributed among these distances:
49 7 0.09
50 27 0.33
51 39 0.48
52 9 0.11
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (51 bp):
TATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCC
Found at i:37824758 original size:39 final size:39
Alignment explanation
Indices: 37824633--37824931 Score: 175
Period size: 39 Copynumber: 7.7 Consensus size: 39
37824623 AAGCCATTTG
* *
37824633 ATCTTTTACCCCGAGCCTGGGACAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* *
37824672 ATCTC-TAGCCCCGAG-CTGGGGCAGAT--TGA--AGCCA
1 ATCTCTTA-CCCCGAGCCTGGGGCAGATCATCATCAACCA
* *
37824706 TTTGATCTTTTACCCCGAGCCTGGGGCAAATCATCATCAACCA
1 ----ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* * * ****
37824749 ATCTCTTACCCCGAGCTTGGGGTAGAT--TGCAGCCATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TCAACCA
* * * * * *
37824788 ATATTTTACCCCAAGTCTAGGGCAGATCATCGTCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* * * ** *
37824827 ATCTCTTACCCCGAGCCAGGGGCAGATTA-CAACCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATC-ATCAACCA
* * * *
37824866 ATCTCTTACCCTGAGCTTGGGGCATATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
* * *
37824905 AGCTCCTACCCCGAGCCTGGGGTAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
37824932 TGTAGTTATC
Statistics
Matches: 186, Mismatches: 57, Indels: 34
0.67 0.21 0.12
Matches are distributed among these distances:
34 4 0.02
36 2 0.01
37 1 0.01
38 26 0.14
39 144 0.77
40 2 0.01
41 3 0.02
43 4 0.02
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
Found at i:37824811 original size:78 final size:78
Alignment explanation
Indices: 37824583--37824933 Score: 449
Period size: 78 Copynumber: 4.5 Consensus size: 78
37824573 AGTGAAGTTG
* *
37824583 CATCATCAACCAATCTCTTA-CCCGAGCCTGAGGTAGATTAAAGCCATTTGATCTTTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGTAGATTGAAGCCATTTGATCTTTTACCCCGA
*
37824647 GCCTGGGACAGAT
66 GCCTGGGGCAGAT
*
37824660 CATCATCAACCAATCTC-TAGCCCCGAG-CTGGGGCAGATTGAAGCCATTTGATCTTTTACCCCG
1 CATCATCAACCAATCTCTTA-CCCCGAGCCTGGGGTAGATTGAAGCCATTTGATCTTTTACCCCG
*
37824723 AGCCTGGGGCAAAT
65 AGCCTGGGGCAGAT
* * * *
37824737 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGTAGATTGCAGCCATTTGATATTTTACCCCAA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGTAGATTGAAGCCATTTGATCTTTTACCCCGA
* *
37824802 GTCTAGGGCAGAT
66 GCCTGGGGCAGAT
* * * * * * *
37824815 CATCGTCAACCAATCTCTTACCCCGAGCCAGGGGCAGATT-ACAACCATTCGATCTCTTACCCTG
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGTAGATTGA-AGCCATTTGATCTTTTACCCCG
* *
37824879 AGCTTGGGGCATAT
65 AGCCTGGGGCAGAT
* * *
37824893 CACCATCAACCAAGCTCCTACCCCGAGCCTGGGGTAGATTG
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGTAGATTG
37824934 TAGTTATCCA
Statistics
Matches: 234, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
76 2 0.01
77 86 0.37
78 146 0.62
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (78 bp):
CATCATCAACCAATCTCTTACCCCGAGCCTGGGGTAGATTGAAGCCATTTGATCTTTTACCCCGA
GCCTGGGGCAGAT
Found at i:37825602 original size:23 final size:20
Alignment explanation
Indices: 37825576--37825623 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
37825566 CTGTTGCCTA
37825576 CCACCTCAGCCACTCAGAATGTG
1 CCACCTCAG-CAC-CAGAA-GTG
* *
37825599 CCACGTCAGCACCAGTAGTG
1 CCACCTCAGCACCAGAAGTG
37825619 CCACC
1 CCACC
37825624 ACCACCAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 3 0.14
23 8 0.36
ACGTcount: A:0.25, C:0.42, G:0.19, T:0.15
Consensus pattern (20 bp):
CCACCTCAGCACCAGAAGTG
Found at i:37825656 original size:25 final size:25
Alignment explanation
Indices: 37825622--37825679 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
37825612 AGTAGTGCCA
*
37825622 CCACCACCAGCTTCAACTTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
37825647 CCACCACCAGCTTCAACCTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
*
37825672 CCATCACC
1 CCACCACC
37825680 GCCACACAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.48, G:0.10, T:0.21
Consensus pattern (25 bp):
CCACCACCAGCTTCAACCTGCTCTG
Found at i:37826113 original size:6 final size:6
Alignment explanation
Indices: 37826092--37826130 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
37826082 TTTCAAAACG
*
37826092 TATTAA TAAGTAA TATTAA TATTAA TATTAA TATTAA TA
1 TATTAA T-ATTAA TATTAA TATTAA TATTAA TATTAA TA
37826131 ACAAATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (6 bp):
TATTAA
Found at i:37827362 original size:30 final size:29
Alignment explanation
Indices: 37827324--37827385 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
37827314 CCTTGAAGGT
37827324 CCCTAAACTGTCT-AGAAATTATA-TTTTGA
1 CCCTAAACT-TCTCA-AAATTATATTTTTGA
37827353 CCCTCAAACTTCTCCAAAATTATATTTTTGA
1 CCCT-AAACTTCT-CAAAATTATATTTTTGA
37827384 CC
1 CC
37827386 TTGAACTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 7 0.24
30 13 0.45
31 9 0.31
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTCTCAAAATTATATTTTTGA
Found at i:37827494 original size:30 final size:30
Alignment explanation
Indices: 37827419--37827496 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
37827409 TAACATCACC
*
37827419 CCAAACTTTCTAAAATTCCATTTTTAACCT
1 CCAAACTTTTTAAAATTCCATTTTTAACCT
*
37827449 -C-GA-TTTTTCCAAAAATTACCATTTTT-ACCT
1 CCAAACTTTTT---AAAATT-CCATTTTTAACCT
37827479 CCAAACTTTTTAAAATTC
1 CCAAACTTTTTAAAATTC
37827497 TTCCATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 15
0.68 0.05 0.27
Matches are distributed among these distances:
27 4 0.11
28 1 0.03
29 2 0.05
30 16 0.42
31 9 0.24
32 1 0.03
33 5 0.13
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.41
Consensus pattern (30 bp):
CCAAACTTTTTAAAATTCCATTTTTAACCT
Found at i:37830163 original size:17 final size:17
Alignment explanation
Indices: 37830121--37830163 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
37830111 TGTTTAGTAA
* *
37830121 TGCTTTTATCTCAAAAG
1 TGCTTTTGTCCCAAAAG
37830138 TGCTTTTTGTCCCAAAAG
1 TGC-TTTTGTCCCAAAAG
37830156 TGCTTTTG
1 TGCTTTTG
37830164 AGAAGCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (17 bp):
TGCTTTTGTCCCAAAAG
Found at i:37831032 original size:6 final size:6
Alignment explanation
Indices: 37831013--37831059 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
37831003 TTAATGATTT
37831013 AATATA AA-ATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
37831060 TATAACTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:37833880 original size:2 final size:2
Alignment explanation
Indices: 37833875--37833903 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37833865 TATATATATA
37833875 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
37833904 CATCTTCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:37854400 original size:37 final size:36
Alignment explanation
Indices: 37854329--37854400 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
37854319 GTAGCAAAAT
*
37854329 TAACAATAAAACAATAGTTATACAATATACAAATAA
1 TAACAATAAAACAATAGTAATACAATATACAAATAA
* *
37854365 TAACAATAAAATTAATAGTAATATAATA-ACGAAATA
1 TAACAATAAAA-CAATAGTAATACAATATAC-AAATA
37854401 GTATACAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 13 0.42
37 18 0.58
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (36 bp):
TAACAATAAAACAATAGTAATACAATATACAAATAA
Found at i:37860699 original size:12 final size:12
Alignment explanation
Indices: 37860682--37860714 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37860672 CAGGTTCAGT
37860682 TTCTTCCTTCTC
1 TTCTTCCTTCTC
37860694 TTCTTCCTTC-C
1 TTCTTCCTTCTC
37860705 TTCTT-CTTCT
1 TTCTTCCTTCT
37860715 TTTTCTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 6 0.30
12 10 0.50
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (12 bp):
TTCTTCCTTCTC
Found at i:37860722 original size:19 final size:17
Alignment explanation
Indices: 37860681--37860730 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
37860671 GCAGGTTCAG
37860681 TTTCTTCCTTC-TCTTC
1 TTTCTTCCTTCTTCTTC
*
37860697 TTCCTTCCTTCTTCTTC
1 TTTCTTCCTTCTTCTTC
37860714 TTT-TT-CTTCATTCTTC
1 TTTCTTCCTTC-TTCTTC
37860730 T
1 T
37860731 CTTGATTACC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 4 0.13
16 19 0.63
17 7 0.23
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCTTCCTTCTTCTTC
Found at i:37872078 original size:23 final size:23
Alignment explanation
Indices: 37872051--37872095 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
37872041 ACAGCGCAAA
37872051 AACTAAGACTAATCAAAACATAG
1 AACTAAGACTAATCAAAACATAG
37872074 AACTAAGACTAATCAAAACATA
1 AACTAAGACTAATCAAAACATA
37872096 ACAGACTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.18
Consensus pattern (23 bp):
AACTAAGACTAATCAAAACATAG
Found at i:37872607 original size:33 final size:33
Alignment explanation
Indices: 37872560--37872633 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
37872550 AATTAAATTT
* *
37872560 AAATATTTTTAATTTTTTACTTTTTATCTTATCC
1 AAATA-TTTTAATTTTTTACTTTTTACCTTACCC
37872594 AAATATTTTAATTTTTTACTTTTTACCTTACCC
1 AAATATTTTAATTTTTTACTTTTTACCTTACCC
37872627 AAATATT
1 AAATATT
37872634 GTATAATCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 33 0.87
34 5 0.13
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (33 bp):
AAATATTTTAATTTTTTACTTTTTACCTTACCC
Found at i:37874019 original size:16 final size:16
Alignment explanation
Indices: 37873998--37874031 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37873988 TATCTTCTTT
*
37873998 TTGGTTATTATAATGG
1 TTGGTTATAATAATGG
*
37874014 TTGGTTATAATGATGG
1 TTGGTTATAATAATGG
37874030 TT
1 TT
37874032 TTATATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (16 bp):
TTGGTTATAATAATGG
Found at i:37883283 original size:13 final size:13
Alignment explanation
Indices: 37883265--37883293 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37883255 GATAAATTTG
37883265 TTATTATTATTAT
1 TTATTATTATTAT
37883278 TTATTATTATTAT
1 TTATTATTATTAT
37883291 TTA
1 TTA
37883294 CTGCTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:37883284 original size:16 final size:16
Alignment explanation
Indices: 37883260--37883291 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37883250 TAAATGATAA
*
37883260 ATTTGTTATTATTATT
1 ATTTATTATTATTATT
37883276 ATTTATTATTATTATT
1 ATTTATTATTATTATT
37883292 TACTGCTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTATTATTATTATT
Found at i:37883861 original size:8 final size:8
Alignment explanation
Indices: 37883848--37883903 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
37883838 TTTCAAAATT
37883848 TTATAAAA
1 TTATAAAA
37883856 TTATAAAA
1 TTATAAAA
*
37883864 ATA-AAAA
1 TTATAAAA
*
37883871 TTCT-AAA
1 TTATAAAA
*
37883878 TATATTAAA
1 T-TATAAAA
37883887 TTATAAAAA
1 TTAT-AAAA
37883896 TTATAAAA
1 TTATAAAA
37883904 AAATTTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
7 9 0.23
8 19 0.49
9 11 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
TTATAAAA
Found at i:37883872 original size:15 final size:16
Alignment explanation
Indices: 37883849--37883903 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
37883839 TTCAAAATTT
37883849 TATAAAATTATAAAAA
1 TATAAAATTATAAAAA
* *
37883865 TA-AAAATTCTAAATA
1 TATAAAATTATAAAAA
*
37883880 TATTAAATTATAAAAA
1 TATAAAATTATAAAAA
37883896 TTATAAAA
1 -TATAAAA
37883904 AAATTTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 13 0.42
16 12 0.39
17 6 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAATTATAAAAA
Found at i:37884434 original size:3 final size:3
Alignment explanation
Indices: 37884420--37884455 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
37884410 ATTAATTGTC
*
37884420 GTG GTA GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
37884456 TTATAACACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.64, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:37889435 original size:3 final size:3
Alignment explanation
Indices: 37889427--37889472 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
37889417 ATATTATGTT
37889427 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37889473 ACCTAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37908086 original size:22 final size:22
Alignment explanation
Indices: 37908060--37908102 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
37908050 GCAACAGTAG
37908060 GCACACAAAGTGCTAAACAGAA
1 GCACACAAAGTGCTAAACAGAA
*
37908082 GCACACACAGTGCTAAACAGA
1 GCACACAAAGTGCTAAACAGA
37908103 GGGCGCGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (22 bp):
GCACACAAAGTGCTAAACAGAA
Found at i:37908360 original size:2 final size:2
Alignment explanation
Indices: 37908353--37908436 Score: 145
Period size: 2 Copynumber: 42.5 Consensus size: 2
37908343 ATTTTTCATC
37908353 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37908394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
37908436 A
1 A
37908437 CCTCTTTACT
Statistics
Matches: 79, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.03
2 75 0.95
3 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37910257 original size:21 final size:21
Alignment explanation
Indices: 37910231--37910270 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37910221 ACCAGAATAC
**
37910231 TCAAATGCATTCACATCAAGA
1 TCAAATGCAGCCACATCAAGA
37910252 TCAAATGCAGCCACATCAA
1 TCAAATGCAGCCACATCAA
37910271 AATCGTGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (21 bp):
TCAAATGCAGCCACATCAAGA
Found at i:37919229 original size:12 final size:13
Alignment explanation
Indices: 37919204--37919258 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
37919194 ATTTTAATGT
37919204 TATTTAATTTTTTA
1 TATTT-ATTTTTTA
37919218 T-TTT-TTTATTTA
1 TATTTATTT-TTTA
37919230 TATATTATTTTTTA
1 TAT-TTATTTTTTA
*
37919244 AATTTA-TTTTTA
1 TATTTATTTTTTA
37919256 TAT
1 TAT
37919259 AAAAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
11 3 0.09
12 13 0.37
13 7 0.20
14 9 0.26
15 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTATTTTTTA
Found at i:37921689 original size:27 final size:26
Alignment explanation
Indices: 37921616--37921705 Score: 153
Period size: 26 Copynumber: 3.4 Consensus size: 26
37921606 TAATATTCTC
37921616 TAAATTAATAAATATTAATTTATCGA
1 TAAATTAATAAATATTAATTTATCGA
37921642 TAAATTAATAAATATTAATTTATCGA
1 TAAATTAATAAATATTAATTTATCGA
*
37921668 TAAATTAATAAAATATTTATTTATCGA
1 TAAATTAAT-AAATATTAATTTATCGA
*
37921695 TAAACTAATAA
1 TAAATTAATAA
37921706 CCTCAATGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 37 0.61
27 24 0.39
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (26 bp):
TAAATTAATAAATATTAATTTATCGA
Found at i:37923256 original size:24 final size:23
Alignment explanation
Indices: 37923229--37923280 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
37923219 TTTCTTTTAG
37923229 TTTTTATCTACCTTTGTGGCACGC
1 TTTTTATCTA-CTTTGTGGCACGC
** *
37923253 TTTTCCTCTATTTTGTGGCACGC
1 TTTTTATCTACTTTGTGGCACGC
37923276 TTTTT
1 TTTTT
37923281 CCTCTGTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.52
Consensus pattern (23 bp):
TTTTTATCTACTTTGTGGCACGC
Found at i:37923281 original size:24 final size:24
Alignment explanation
Indices: 37923241--37923303 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
37923231 TTTATCTACC
37923241 TTTGTGGCACGC-TTTTCCTCTAT
1 TTTGTGGCACGCTTTTTCCTCTAT
*
37923264 TTTGTGGCACGCTTTTTCCTCTGT
1 TTTGTGGCACGCTTTTTCCTCTAT
*
37923288 CTTGTGGCACG-TTTTT
1 TTTGTGGCACGCTTTTT
37923304 ACCTTATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.06, C:0.24, G:0.21, T:0.49
Consensus pattern (24 bp):
TTTGTGGCACGCTTTTTCCTCTAT
Found at i:37924250 original size:19 final size:19
Alignment explanation
Indices: 37924225--37924283 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
37924215 ATATATAATA
*
37924225 AAAATTTTTAAAATTATTT
1 AAAATTTATAAAATTATTT
* * *
37924244 TAAATTTATGAAATTATTA
1 AAAATTTATAAAATTATTT
*
37924263 AAAATTTATAAATTTATTT
1 AAAATTTATAAAATTATTT
37924282 AA
1 AA
37924284 TAAAATATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
AAAATTTATAAAATTATTT
Found at i:37925162 original size:26 final size:26
Alignment explanation
Indices: 37925133--37925186 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
37925123 CTTGCATCAC
*
37925133 ATCCAATTATTTTC-GATTATTAAAAT
1 ATCCAAATATTTTCTG-TTATTAAAAT
37925159 ATCCAAATATTTTCTGTTATTAAAAT
1 ATCCAAATATTTTCTGTTATTAAAAT
37925185 AT
1 AT
37925187 TTAATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (26 bp):
ATCCAAATATTTTCTGTTATTAAAAT
Found at i:37927269 original size:25 final size:26
Alignment explanation
Indices: 37927232--37927280 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
37927222 TTCGATCCTC
37927232 CAGAATTTAGCTC-ATACGAGCCCAGA
1 CAGAATTTAGCTCTA-ACGAGCCCAGA
37927258 CAGAA-TTAGCTCTAACGAGCCCA
1 CAGAATTTAGCTCTAACGAGCCCA
37927281 AAAAGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (26 bp):
CAGAATTTAGCTCTAACGAGCCCAGA
Found at i:37929167 original size:30 final size:30
Alignment explanation
Indices: 37929131--37929190 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
37929121 AATATTACAC
37929131 TTAGGACACTAGATCCAACAACATCATATG
1 TTAGGACACTAGATCCAACAACATCATATG
37929161 TTAGGACACTAGATCCAACAACATCATATG
1 TTAGGACACTAGATCCAACAACATCATATG
37929191 ATCCTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (30 bp):
TTAGGACACTAGATCCAACAACATCATATG
Found at i:37939427 original size:20 final size:21
Alignment explanation
Indices: 37939385--37939434 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
37939375 GTATCGATCC
*
37939385 GGTATCGATACCTTTTGAGAA
1 GGTATCGATACATTTTGAGAA
**
37939406 GGTATCGATA-ATTTTGTTAA
1 GGTATCGATACATTTTGAGAA
37939426 GGTATCGAT
1 GGTATCGAT
37939435 TTTTAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (21 bp):
GGTATCGATACATTTTGAGAA
Found at i:37941807 original size:2 final size:2
Alignment explanation
Indices: 37941794--37941823 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37941784 CAAAATCCAC
*
37941794 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37941824 TAATTACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37945336 original size:39 final size:37
Alignment explanation
Indices: 37945293--37945371 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
37945283 GATATGATTT
*
37945293 TAATTCTTTTATATATTTATATATATTTTTATAAATTCA
1 TAATTC-TTTATATATTT-TATATATATTTATAAATTCA
* * *
37945332 TAATTCTTTATTTGTTTTATATATATTTATAAATTTA
1 TAATTCTTTATATATTTTATATATATTTATAAATTCA
37945369 TAA
1 TAA
37945372 AATTTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 21 0.58
38 9 0.25
39 6 0.17
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (37 bp):
TAATTCTTTATATATTTTATATATATTTATAAATTCA
Found at i:37945491 original size:2 final size:2
Alignment explanation
Indices: 37945484--37945552 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
37945474 ACTTAGGTTT
37945484 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA
37945526 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37945553 TAAAATAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37946691 original size:19 final size:20
Alignment explanation
Indices: 37946667--37946722 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
37946657 AAAATATAAT
37946667 TTTTGATTTTTTATAAA-TA
1 TTTTGATTTTTTATAAATTA
*
37946686 TTTTGATTTTTTTTAAAATTA
1 TTTTGATTTTTTAT-AAATTA
37946707 TTTTGATTATTTTATA
1 TTTTGATT-TTTTATA
37946723 TTTTTTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 13 0.41
20 3 0.09
21 11 0.34
22 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTGATTTTTTATAAATTA
Found at i:37946697 original size:21 final size:20
Alignment explanation
Indices: 37946648--37946719 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 20
37946638 TTTTTTATAT
37946648 ATTTTTTTTAAAATATAATTTTTG
1 ATTTTTTTT-AAA-AT-A-TTTTG
*
37946672 ATTTTTTAT-AAATATTTTG
1 ATTTTTTTTAAAATATTTTG
37946691 ATTTTTTTTAAAATTATTTTG
1 ATTTTTTTTAAAA-TATTTTG
*
37946712 ATTATTTT
1 ATTTTTTT
37946720 ATATTTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.30
20 4 0.09
21 16 0.37
22 2 0.05
24 8 0.19
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
ATTTTTTTTAAAATATTTTG
Found at i:37950951 original size:42 final size:41
Alignment explanation
Indices: 37950747--37950967 Score: 282
Period size: 41 Copynumber: 5.3 Consensus size: 41
37950737 TGTCTTAGGT
* * * *
37950747 TGAGCATGAGATTATGTTTAAGGAAGACTCATTGTCTTGGGA
1 TGAGCATGAGATTATGTTTAAGGAAGACTC-GTGACTCGGAA
* * *
37950789 TGAGCATGAGATTATGTATAAATAGAAGACTTGTGACTCGGAA
1 TGAGCATGAGATTATGT-TTAA-GGAAGACTCGTGACTCGGAA
37950832 TGAGCATGAGATTATGTTTAAGGAAGACTCGTGACTCGGAA
1 TGAGCATGAGATTATGTTTAAGGAAGACTCGTGACTCGGAA
*
37950873 TGAGCATGAGATTATGTTTAAGGAAGACTCGTGACTCGAAA
1 TGAGCATGAGATTATGTTTAAGGAAGACTCGTGACTCGGAA
* ** *
37950914 TGACCATGAGATTATGTTTAAAGGAAGACTTATGACTCGGTA
1 TGAGCATGAGATTATGTTT-AAGGAAGACTCGTGACTCGGAA
*
37950956 -GAGCATAAGATT
1 TGAGCATGAGATT
37950968 GTTTAGAAAG
Statistics
Matches: 158, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
41 86 0.54
42 38 0.24
43 27 0.17
44 7 0.04
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (41 bp):
TGAGCATGAGATTATGTTTAAGGAAGACTCGTGACTCGGAA
Found at i:37958758 original size:139 final size:141
Alignment explanation
Indices: 37958602--37958864 Score: 422
Period size: 139 Copynumber: 1.8 Consensus size: 141
37958592 ATGTTTTGTT
* *
37958602 TTTTTAATTCGTGCTTTAAACTTCATTTTGGTTTAAATTTAGTCCTCTCATGTTTTATTCTTTTT
1 TTTTTAATTCGTACTTTAAACTTCATTTTAGTTTAAATTTAGTCCTCTCATGTTTTATTCTTTTT
*
37958667 TAAATTGGCCCTAATCTTCC-TTTTTA-ATTTTGAATTTCATTTTTATTTTAATTTAGTCCTTAT
66 TAAATTAGCCCTAATCTTCCTTTTTTATATTTTGAATTTCATTTTTATTTTAATTTAGTCCTTAT
37958730 ATTATTTTCCC
131 ATTATTTTCCC
* *
37958741 TTTTTAATTTGTACTTTAAACTTCATTTTAGTTTTAATTTAGTCCTCTCATGTTTTATTCTTTTT
1 TTTTTAATTCGTACTTTAAACTTCATTTTAGTTTAAATTTAGTCCTCTCATGTTTTATTCTTTTT
37958806 TAAATTAGCCCTAATCTTCCTGTTTTTTATTTTATTTTGAATTTCATTTTTATTTTAAT
66 TAAATTAGCCCTAATCTTCC--TTTTTTA---TATTTTGAATTTCATTTTTATTTTAAT
37958865 CCTTAAATTA
Statistics
Matches: 112, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
139 80 0.71
142 6 0.05
146 26 0.23
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (141 bp):
TTTTTAATTCGTACTTTAAACTTCATTTTAGTTTAAATTTAGTCCTCTCATGTTTTATTCTTTTT
TAAATTAGCCCTAATCTTCCTTTTTTATATTTTGAATTTCATTTTTATTTTAATTTAGTCCTTAT
ATTATTTTCCC
Found at i:37959284 original size:109 final size:110
Alignment explanation
Indices: 37959127--37959342 Score: 303
Period size: 109 Copynumber: 2.0 Consensus size: 110
37959117 AAATCAAGAC
* *
37959127 AATGTTCTTTTATTTTAGGGACCTCGAGAAATCGTGCCCTAACGTGTTGGGTATAG-TTTTTTCT
1 AATGTTCTTTTATTTTAGGGACCTCGAAAAATCGTGCCCTAACATGTTGGGTAT-GTTTTTTTCT
* * **
37959191 TCGAACCTAAATAATTGAGTATCCTATTTAAAATCGATAAATGCTA
65 TCGAACCTAAACAAGTGAACATCCTATTTAAAATCGATAAATGCTA
*
37959237 AATGTT-TTTTATTTTAGGGGA-CTCGAAAAATTGTGCCCTAACATGTTGGGTATGTTTTTTTCT
1 AATGTTCTTTTATTTTA-GGGACCTCGAAAAATCGTGCCCTAACATGTTGGGTATGTTTTTTTCT
* * *
37959300 TCGAACCTAAGCAAGTGAACATCCTATTTAAAATTGATGAATG
65 TCGAACCTAAACAAGTGAACATCCTATTTAAAATCGATAAATG
37959343 TTCATTGTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
108 1 0.01
109 83 0.88
110 10 0.11
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (110 bp):
AATGTTCTTTTATTTTAGGGACCTCGAAAAATCGTGCCCTAACATGTTGGGTATGTTTTTTTCTT
CGAACCTAAACAAGTGAACATCCTATTTAAAATCGATAAATGCTA
Found at i:37962466 original size:19 final size:17
Alignment explanation
Indices: 37962420--37962453 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
37962410 CTTAAGACCC
37962420 AAAA-AAGAAAAGAAAA
1 AAAAGAAGAAAAGAAAA
37962436 AAAAGAAGAAAAGAAAA
1 AAAAGAAGAAAAGAAAA
37962453 A
1 A
37962454 GGAAAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAA
Found at i:37963403 original size:15 final size:14
Alignment explanation
Indices: 37963362--37963412 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
37963352 ATTTCACAAA
37963362 AAAAAGAAGAAACAG
1 AAAAAGAAGAAA-AG
37963377 AAAAA-AAGGAAAAGG
1 AAAAAGAA-GAAAA-G
37963392 AAAAAGAAG-AAAG
1 AAAAAGAAGAAAAG
37963405 AAAAAGAA
1 AAAAAGAA
37963413 AAAGGAGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 16 0.48
16 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGAAAAG
Found at i:37964097 original size:160 final size:159
Alignment explanation
Indices: 37963834--37964154 Score: 552
Period size: 160 Copynumber: 2.0 Consensus size: 159
37963824 TGATCTTATC
* *
37963834 CATTTTCATAACCCTATCCAAAGTATTTTTTTGCAATAAAATAATAGAGACCTGAAACAGGACCA
1 CATTTTCATAACCCTATCCAAAGCATTTTTTTGCAACAAAATAATAGAGACCTGAAACAGGACCA
* *
37963899 CTAGTTGGAATGAATCAAACCTGAAGGCTGGAAGGTTCCCCAAAGCAAGTAGTTCAGGTTATGAC
66 CTAGTTGGAATGAACCAAACCTGAAGGCTGGAAGGTTCCCCAAAGCAAGTAGTTCACGTTATGAC
37963964 TACCCCATTTGATTTTCATGTCAAAATAT
131 TACCCCATTTGATTTTCATGTCAAAATAT
* *
37963993 CATTTTCATAACCCTATCCAAAGCATTTTTTTTGCAACAACATAATAGAGACCTGAAATAGGACC
1 CATTTTCATAACCCTATCCAAAGCA-TTTTTTTGCAACAAAATAATAGAGACCTGAAACAGGACC
** *
37964058 ACTAGTTGGAATGAACCAAATTTGAAGGTTGGAAGGTTCCCCAAAGCAAGTAGTTCACGTTATGA
65 ACTAGTTGGAATGAACCAAACCTGAAGGCTGGAAGGTTCCCCAAAGCAAGTAGTTCACGTTATGA
37964123 CTACCCCATTTGATTTTCATGTCAAAATAT
130 CTACCCCATTTGATTTTCATGTCAAAATAT
37964153 CA
1 CA
37964155 GACTCGAAAG
Statistics
Matches: 152, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
159 24 0.16
160 128 0.84
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (159 bp):
CATTTTCATAACCCTATCCAAAGCATTTTTTTGCAACAAAATAATAGAGACCTGAAACAGGACCA
CTAGTTGGAATGAACCAAACCTGAAGGCTGGAAGGTTCCCCAAAGCAAGTAGTTCACGTTATGAC
TACCCCATTTGATTTTCATGTCAAAATAT
Found at i:37964669 original size:101 final size:95
Alignment explanation
Indices: 37964396--37964699 Score: 303
Period size: 98 Copynumber: 3.1 Consensus size: 95
37964386 AACGAAATAA
* *
37964396 CAAATCCTATATTCTTGAAGTTGCAAGGATTGGATTAAAACTTACATTGGCAAATCTTTATTTCC
1 CAAATCCTATATCCTTGAAGTTGCAAGGA-TGGATTAAAAC-TACATTGGCAAATCTTTATCT-C
* * *
37964461 CTGAAGTTACAATGGAGCAAGATGAAGCCATAC
63 CTGAAGTTGCAGTGGAGCAAGATGAAGCCAAAC
* * * * *
37964494 CAAATCCTATCTTCC-TGAAGTTAC-AGTGAAGTGGATT-AAAGT--AGTAGCAAATCTTTATCT
1 CAAATCCTAT-ATCCTTGAAGTTGCAAG-G-A-TGGATTAAAACTACATTGGCAAATCTTTATCT
*
37964554 CCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAAC
62 CC-TGAAGTTGCAGTGGAGCAAGATGAAGC--C-AAAC
* * *
37964592 TAAATCCTATATCCTTGAAGTTGCAAGGATCAGATTAAAACTAACATTGGCATATCTTTATCTCT
1 CAAATCCTATATCCTTGAAGTTGCAAGGAT-GGATTAAAACT-ACATTGGCAAATCTTTATCTC-
* *
37964657 CTGAAGTTGCAGTGGAGCAATATGAAGCCACAC
63 CTGAAGTTGCAGTGGAGCAAGATGAAGCCAAAC
37964690 CAAATCCTAT
1 CAAATCCTAT
37964700 CTTTCTGAAG
Statistics
Matches: 167, Mismatches: 24, Indels: 30
0.76 0.11 0.14
Matches are distributed among these distances:
94 2 0.01
95 39 0.23
96 1 0.01
97 12 0.07
98 59 0.35
99 12 0.07
101 41 0.25
102 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (95 bp):
CAAATCCTATATCCTTGAAGTTGCAAGGATGGATTAAAACTACATTGGCAAATCTTTATCTCCTG
AAGTTGCAGTGGAGCAAGATGAAGCCAAAC
Found at i:37964738 original size:196 final size:196
Alignment explanation
Indices: 37964397--37964779 Score: 595
Period size: 196 Copynumber: 2.0 Consensus size: 196
37964387 ACGAAATAAC
* ** * *
37964397 AAATCCTATATTCTTGAAGTTGCAAGGATTGGATTAAAACTTACATTGGCAAATCTTTATTTCCC
1 AAATCCTATATCCTTGAAGTTGCAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTCCC
* *
37964462 TGAAGTTACAATGGAGCAAGATGAAGCCATACCAAATCCTATCTTCCTGAAGTTACAGTGAAGTG
66 TGAAGTTACAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCTGAAGTTACAGTGAAGCG
* * * *
37964527 GATTAAAGTAGTAGCAAATCTTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAAC
131 GATTAAAGAAGTAGCAAATCGTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTACAAAAC
37964592 T
196 T
* *
37964593 AAATCCTATATCCTTGAAGTTGCAAGGATCAGATTAAAACTAACATTGGCATATCTTTATCTCTC
1 AAATCCTATATCCTTGAAGTTGCAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTCCC
* * * * *
37964658 TGAAGTTGCAGTGGAGCAATATGAAGCCACACCAAATCCTATCTTTCTGAAGTTGCAGTGAAGCG
66 TGAAGTTACAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCTGAAGTTACAGTGAAGCG
*
37964723 GATTAAAGAAGTAGCAAATCGTTATCTCCCTAAAGTTGTAATGGAGCAAGATGAAGC
131 GATTAAAGAAGTAGCAAATCGTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGC
37964780 CACACCTTCC
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
196 168 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (196 bp):
AAATCCTATATCCTTGAAGTTGCAAGGATCAGATTAAAACTAACATTGGCAAATCTTTATCTCCC
TGAAGTTACAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCTGAAGTTACAGTGAAGCG
GATTAAAGAAGTAGCAAATCGTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTACAAAAC
T
Found at i:37964749 original size:101 final size:101
Alignment explanation
Indices: 37964449--37964749 Score: 266
Period size: 98 Copynumber: 3.0 Consensus size: 101
37964439 ACATTGGCAA
* * * * *
37964449 ATCTTTATTTCCCTGAAGTTACAATGGAGCAAGATGAAGCCATACCAAATCCTATCTTCCTGAAG
1 ATCTTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCCAAACCAAATCCTATCTTCCTGAAG
* * * *
37964514 TTACAGTGAAGTGGATTAAAGTAGTAGCAAATCTTT
66 TTGCAGTGAAGCGGATTAAAGAAGTAGCAAATCGTT
* * *
37964550 ATC----TC-CT-TAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAACTAAATCCTAT-ATCCTT
1 ATCTTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGC--C-AAACCAAATCCTATCTTCC-T
* * * * * * *
37964608 GAAGTTGCAAG-G-ATCAGATT-AA-AACTAAC-ATTGGCAT
62 GAAGTTGC-AGTGAAGCGGATTAAAGAAGTAGCAAATCG-TT
* * *
37964645 ATCTTTATCTCTCTGAAGTTGCAGTGGAGCAATATGAAGCCACACCAAATCCTATCTTTCTGAAG
1 ATCTTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCCAAACCAAATCCTATCTTCCTGAAG
37964710 TTGCAGTGAAGCGGATTAAAGAAGTAGCAAATCGTT
66 TTGCAGTGAAGCGGATTAAAGAAGTAGCAAATCGTT
37964746 ATCT
1 ATCT
37964750 CCCTAAAGTT
Statistics
Matches: 150, Mismatches: 32, Indels: 36
0.69 0.15 0.17
Matches are distributed among these distances:
94 2 0.01
95 32 0.21
96 3 0.02
97 12 0.08
98 43 0.29
99 13 0.09
100 4 0.03
101 38 0.25
102 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (101 bp):
ATCTTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCCAAACCAAATCCTATCTTCCTGAAG
TTGCAGTGAAGCGGATTAAAGAAGTAGCAAATCGTT
Found at i:37964782 original size:95 final size:95
Alignment explanation
Indices: 37964445--37964785 Score: 355
Period size: 95 Copynumber: 3.5 Consensus size: 95
37964435 ACTTACATTG
* * * *
37964445 GCAAATCTTTATTTCCCTGAAGTTACAATGGAGCAAGATGAAGCCATACCAAATCCTATCTTCCT
1 GCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCT
* * *
37964510 GAAGTTACAGTGAAGTGGATTAAAGTAGTA
66 GAAGTTGCAGTGAAGCGGATTAAAGAAGTA
* * * * *
37964540 GCAAATCTTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAACTAAATCCTAT-AT
1 GCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGC--C-ACACCAAATCCTATCTT
* * * * *
37964604 CCTTGAAGTTGCAAG-G-ATCAGATTAAAACTAACATTG
63 CC-TGAAGTTGC-AGTGAAGCGGATT-AAA--GA-AGTA
* * * * * *
37964641 GCATATCTTTATCTCTCTGAAGTTGCAGTGGAGCAATATGAAGCCACACCAAATCCTATCTTTCT
1 GCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCT
37964706 GAAGTTGCAGTGAAGCGGATTAAAGAAGTA
66 GAAGTTGCAGTGAAGCGGATTAAAGAAGTA
* *
37964736 GCAAATCGTTATCTCCCTAAAGTTGTAATGGAGCAAGATGAAGCCACACC
1 GCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCCACACC
37964786 TTCCTGAAGT
Statistics
Matches: 197, Mismatches: 37, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
95 84 0.43
96 1 0.01
97 11 0.06
98 49 0.25
99 11 0.06
101 41 0.21
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (95 bp):
GCAAATCTTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCCACACCAAATCCTATCTTCCT
GAAGTTGCAGTGAAGCGGATTAAAGAAGTA
Found at i:37965000 original size:81 final size:82
Alignment explanation
Indices: 37964867--37965250 Score: 437
Period size: 81 Copynumber: 4.7 Consensus size: 82
37964857 AAAGCAAGAC
* * *
37964867 ATCATCCAATCTCTTATCCCGATCAT-GGGCAGATTGAAGATATCATCCAATCTCTTACCTTGAC
1 ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTCGAC
*
37964931 CATGGGGTAGATTGAAG
66 CATGGGGCAGATTGAAG
* *
37964948 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCTAATCTTTTACCTCGAC
1 ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTCGAC
*
37965012 CATGGGGCAGATTGGAG
66 CATGGGGCAGATTGAAG
* * ** * *
37965029 -TCATCCAATCTTCTTACCCTGATCATGGGGCATATTGAAGATGTCATCCAATCTCTTACCCCAA
1 ATCATCCAATC-TCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTCGA
*
37965093 TCATGGGGCAGATTGAAG
65 CCATGGGGCAGATTGAAG
* * *
37965111 ACATCATCCAATCTCTTGCCCCGACCATGGGGCAAATTGAAG--A-CATCCAATCTCTTACGC-C
1 --ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTAC-CTC
* ** *
37965172 GATCAAAGAGCAGATTGAAG
63 GACCATGGGGCAGATTGAAG
* *
37965192 ATATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG---TCATCCAATCTTTTACC
1 --ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACC
37965251 CTTAATGAAG
Statistics
Matches: 266, Mismatches: 30, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
80 25 0.09
81 144 0.54
82 62 0.23
84 25 0.09
85 10 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (82 bp):
ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCTCGAC
CATGGGGCAGATTGAAG
Found at i:37965016 original size:42 final size:42
Alignment explanation
Indices: 37964862--37965251 Score: 446
Period size: 42 Copynumber: 9.6 Consensus size: 42
37964852 AGAGTAAAGC
*
37964862 AAGACATCATCCAATCTCTTATCCCGATCAT-GGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* ** * *
37964903 AAGATATCATCCAATCTCTTACCTTGACCATGGGGTAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
37964945 AAG---TCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* * * *
37964984 AAGACATCATCTAATCTTTTACCTCGACCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* * *
37965026 --GA-GTCATCCAATCTTCTTACCCTGATCATGGGGCATATTG
1 AAGACATCATCCAATC-TCTTACCCCGATCATGGGGCAGATTG
** *
37965066 AAGATGTCATCCAATCTCTTACCCCAATCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* * *
37965108 AAGACATCATCCAATCTCTTGCCCCGACCATGGGGCAAATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* ** *
37965150 AAG--A-CATCCAATCTCTTACGCCGATCAAAGAGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* *
37965189 AAGATATCATCCAATCTCTTACCCCGACCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
*
37965231 AAG---TCATCCAATCTTTTACCC
1 AAGACATCATCCAATCTCTTACCC
37965252 TTAATGAAGA
Statistics
Matches: 295, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
39 92 0.31
40 24 0.08
41 27 0.09
42 141 0.48
43 11 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
Found at i:37965219 original size:205 final size:203
Alignment explanation
Indices: 37964868--37965252 Score: 590
Period size: 205 Copynumber: 1.9 Consensus size: 203
37964858 AAGCAAGACA
* * * **
37964868 TCATCCAATCTCTTATCCCGATCATGGGCAGATTGAAGATATCATCCAATCTCTTACCTTGACCA
1 TCATCCAATCTCTTACCCCAATCATGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* * * ** * *
37964933 TGGGGTAGATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCTAA
66 TGGGGCAAATTGAAGACATCCAATCTCTTACCCCGATCAAAGAGCAGATTGAAGACATCATCCAA
* * *
37964998 TCTTTTACCTCGACCATGGGGCAGATTGGAGTCATCCAATCTTCTTACCCTGATCATGGGGCATA
131 TCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTT-TTACCCTGATCATGGGGCATA
37965063 TTGAAGATG
195 TTGAAGATG
*
37965072 TCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCATCCAATCTCTTGCCCCGACC
1 TCATCCAATCTCTTACCCCAATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACC
* *
37965137 ATGGGGCAAATTGAAGACATCCAATCTCTTACGCCGATCAAAGAGCAGATTGAAGATATCATCCA
65 ATGGGGCAAATTGAAGACATCCAATCTCTTACCCCGATCAAAGAGCAGATTGAAGACATCATCCA
37965202 ATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCT
130 ATCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCT
37965253 TAATGAAGAA
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
204 30 0.19
205 132 0.81
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (203 bp):
TCATCCAATCTCTTACCCCAATCATGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
TGGGGCAAATTGAAGACATCCAATCTCTTACCCCGATCAAAGAGCAGATTGAAGACATCATCCAA
TCTCTTACCCCGACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTGATCATGGGGCATAT
TGAAGATG
Found at i:37965288 original size:45 final size:45
Alignment explanation
Indices: 37965235--37965446 Score: 239
Period size: 45 Copynumber: 4.7 Consensus size: 45
37965225 AGATTGAAGT
* * * *
37965235 CATCCAATCTTTTACCCTTAATGAAGAAGGACAGATTGAAACCAC
1 CATCCAATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAACCAC
* * *
37965280 CATCCAATCTTTTACCTCTAAGTCAAGAGGGGCAAATT-AAAGCTAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAAGGGCAAATTGAAA-CCAC
* * * * **
37965326 CATCCAATATTTTACCCCTAATTAAGAGGGGCAAATTGAAGCTTC
1 CATCCAATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAACCAC
**
37965371 CATCCAATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAGTCAC
1 CATCCAATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAACCAC
*
37965416 CATCCAATCTTTTACCCATAAGTCAA-AAGGG
1 CATCCAATCTTTTACCCCTAA-TCAAGAAGGG
37965447 GCAGATTAAA
Statistics
Matches: 144, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
45 104 0.72
46 40 0.28
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (45 bp):
CATCCAATCTTTTACCCCTAATCAAGAAGGGCAAATTGAAACCAC
Found at i:37967009 original size:23 final size:24
Alignment explanation
Indices: 37966966--37967010 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37966956 TATCTCCATT
37966966 GTCCTTTCACATTGTTTTAATTTA
1 GTCCTTTCACATTGTTTTAATTTA
* *
37966990 GTCCTTTTACCTT-TTTTAATT
1 GTCCTTTCACATTGTTTTAATT
37967011 ATTTTCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.58
Consensus pattern (24 bp):
GTCCTTTCACATTGTTTTAATTTA
Found at i:37967375 original size:146 final size:147
Alignment explanation
Indices: 37967225--37967495 Score: 499
Period size: 146 Copynumber: 1.9 Consensus size: 147
37967215 TGTTCCTATT
37967225 TTTTTAATTCCTGCTTTAAACTTCATTTTGGTTTTAATTTAGTCCTCTCATGTTATATTCTTTTT
1 TTTTTAATTCCTGCTTTAAACTTCATTTTGGTTTTAATTTAGTCCTCTCATGTTATATTCTTTTT
*
37967290 TAAATTGGCCCTAATCTTCCT-TTTTTTAATTTTATTTTGAATTTCATTTTTATTTTAATTTAGT
66 TAAATTAGCCCTAATCTTCCTGTTTTTTAATTTTATTTTGAATTTCATTTTTATTTTAATTTAGT
37967354 CCTTATAATATTTTCCC
131 CCTTATAATATTTTCCC
* *
37967371 TTTTTAATTCGTGTTTTAAACTTCATTTTGGTTTTAATTTAGTCCTCTCATGTTATATTCTTTTT
1 TTTTTAATTCCTGCTTTAAACTTCATTTTGGTTTTAATTTAGTCCTCTCATGTTATATTCTTTTT
*
37967436 TAAATTAGCCCTAATCTTCCTGTTTTTTTATTTTATTTTGAATTTCATTTTTATTTTAAT
66 TAAATTAGCCCTAATCTTCCTGTTTTTTAATTTTATTTTGAATTTCATTTTTATTTTAAT
37967496 ACTTAAATTA
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
146 83 0.69
147 37 0.31
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (147 bp):
TTTTTAATTCCTGCTTTAAACTTCATTTTGGTTTTAATTTAGTCCTCTCATGTTATATTCTTTTT
TAAATTAGCCCTAATCTTCCTGTTTTTTAATTTTATTTTGAATTTCATTTTTATTTTAATTTAGT
CCTTATAATATTTTCCC
Found at i:37967585 original size:28 final size:28
Alignment explanation
Indices: 37967534--37967601 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
37967524 ACCTTTCTAT
*
37967534 TATTTTTTAAAATTAAATCCTTTTATTC
1 TATTTTTTAAAATTAAACCCTTTTATTC
* *
37967562 TCTTTTTTAAAATT-AACCCTTTTTGTTC
1 TATTTTTTAAAATTAAACCC-TTTTATTC
37967590 TATTTTTCTAAA
1 TATTTTT-TAAA
37967602 TCCTTTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.12
28 26 0.76
29 4 0.12
ACGTcount: A:0.28, C:0.13, G:0.01, T:0.57
Consensus pattern (28 bp):
TATTTTTTAAAATTAAACCCTTTTATTC
Found at i:37967917 original size:111 final size:110
Alignment explanation
Indices: 37967761--37967978 Score: 312
Period size: 111 Copynumber: 2.0 Consensus size: 110
37967751 AATTCAAGGC
* *
37967761 AATGTTCTTTTATTTTAGAGACCTCGAGAAATCGTGCCCTAACGTGTTGGGTATGATTTTTTTCT
1 AATGTTCTATTATTTTAGAGACCTCGAAAAATCGTGCCCTAACGTGTTGGGTATG-TTTTTTTCT
**
37967826 TCGAACCTAAATAATTGAGTATCATATTTAAAATTGATAAATGCTA
65 TCGAACCTAAATAATTGAACATCATATTTAAAATTGATAAATGCTA
* *
37967872 AATGTTCTATTATTTTAGGAGA-TTCGAAAAATTGTGCCCTAACGTGTTGGGTATGTTTTTTTCT
1 AATGTTCTATTATTTTA-GAGACCTCGAAAAATCGTGCCCTAACGTGTTGGGTATGTTTTTTTCT
* * * * *
37967936 TCGAACTTTAGTAATTGAACATCCTATTTAAAATTGATGAATG
65 TCGAACCTAAATAATTGAACATCATATTTAAAATTGATAAATG
37967979 TTCATTGTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
110 45 0.47
111 46 0.48
112 4 0.04
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (110 bp):
AATGTTCTATTATTTTAGAGACCTCGAAAAATCGTGCCCTAACGTGTTGGGTATGTTTTTTTCTT
CGAACCTAAATAATTGAACATCATATTTAAAATTGATAAATGCTA
Found at i:37970193 original size:42 final size:42
Alignment explanation
Indices: 37970146--37970279 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 42
37970136 TTGGAGGTAA
* * * * * *
37970146 AGCAATAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTATAG
1 AGCAATAGCGACGTTTATGGGAAAACGCCGCAAAAAATAAAG
37970188 AGCAATAGCGACGTTTATGGGAAAACGCCGCAAAAAATAAAG
1 AGCAATAGCGACGTTTATGGGAAAACGCCGCAAAAAATAAAG
* * * * **
37970230 AACATTAGCGTCGTTTATGGGAAAACGCCACAAAAGGTAAAG
1 AGCAATAGCGACGTTTATGGGAAAACGCCGCAAAAAATAAAG
*
37970272 AGCTATAG
1 AGCAATAG
37970280 TCAATTTACA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (42 bp):
AGCAATAGCGACGTTTATGGGAAAACGCCGCAAAAAATAAAG
Found at i:37972118 original size:44 final size:44
Alignment explanation
Indices: 37972069--37972198 Score: 113
Period size: 43 Copynumber: 3.0 Consensus size: 44
37972059 CTGTTAATGT
*
37972069 TAACTGCGTTTATATGGGAAAACACCGCTAAAGAACATGTTCTA
1 TAACTGCGTTTATATGGAAAAACACCGCTAAAGAACATGTTCTA
* * * * *
37972113 TAACTGCG-GT-TGTGGTAAAAACGCCGCTAAAAAACATGCTCTA
1 TAACTGCGTTTATATGG-AAAAACACCGCTAAAGAACATGTTCTA
* * * * * *
37972156 TAGCGGAGTTAATA-GTAAAAACACACACTAAAGAACATGTTCT
1 TAACTGCGTTTATATGGAAAAACAC-CGCTAAAGAACATGTTCT
37972199 TTAATGGCGT
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
42 4 0.06
43 36 0.55
44 24 0.37
45 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (44 bp):
TAACTGCGTTTATATGGAAAAACACCGCTAAAGAACATGTTCTA
Found at i:37972223 original size:17 final size:17
Alignment explanation
Indices: 37972197--37972230 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37972187 AGAACATGTT
37972197 CTTTAATGGCGTTTGTG
1 CTTTAATGGCGTTTGTG
*
37972214 CTTTAGTGGCGTTTGTG
1 CTTTAATGGCGTTTGTG
37972231 TGAAAAGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.32, T:0.47
Consensus pattern (17 bp):
CTTTAATGGCGTTTGTG
Found at i:37972279 original size:43 final size:43
Alignment explanation
Indices: 37972209--37972358 Score: 210
Period size: 43 Copynumber: 3.5 Consensus size: 43
37972199 TTAATGGCGT
* ** *
37972209 TTGTGCTTTAGTGGCGTTTGTGTGAAAAGCGCCGCTAAAGAAC
1 TTGTTCTTTAGTGGCGTTTGTAAGAAAAGCGCCGCTAAAGACC
*
37972252 ATGTTCTTTAGTGGCGTTTGTAAGAAAAGCGCCGCTAAAGACC
1 TTGTTCTTTAGTGGCGTTTGTAAGAAAAGCGCCGCTAAAGACC
* *
37972295 TTGTTCTTTAGTGGTGTTTGTAAGAAAAGCGCCGTTAAAGACC
1 TTGTTCTTTAGTGGCGTTTGTAAGAAAAGCGCCGCTAAAGACC
* **
37972338 TTGTTCTATAACGGCGTTTGT
1 TTGTTCTTTAGTGGCGTTTGT
37972359 TGGAAAGCTC
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TTGTTCTTTAGTGGCGTTTGTAAGAAAAGCGCCGCTAAAGACC
Found at i:37973829 original size:20 final size:21
Alignment explanation
Indices: 37973792--37973833 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37973782 GCCAGACTCA
37973792 TCATCTTGTGCTTTCTTCTCC
1 TCATCTTGTGCTTTCTTCTCC
37973813 TCATCTTGTGC-TTCTTCTCC
1 TCATCTTGTGCTTTCTTCTCC
37973833 T
1 T
37973834 TAGCCAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.05, C:0.33, G:0.10, T:0.52
Consensus pattern (21 bp):
TCATCTTGTGCTTTCTTCTCC
Found at i:37976984 original size:16 final size:17
Alignment explanation
Indices: 37976965--37977001 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
37976955 AATTATTATA
*
37976965 AATATAATTAATAAA-T
1 AATATAATAAATAAATT
37976981 AATATAATAAATAAATT
1 AATATAATAAATAAATT
37976998 AATA
1 AATA
37977002 GATTAACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATAATAAATAAATT
Found at i:37977000 original size:12 final size:12
Alignment explanation
Indices: 37976947--37977001 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 12
37976937 ATGTATATTA
*
37976947 AATATATAAATT
1 AATAAATAAATT
37976959 ATTATAAATATAATT
1 A--ATAAATA-AATT
37976974 AATAAAT-AATAT
1 AATAAATAAAT-T
37976986 AATAAATAAATT
1 AATAAATAAATT
37976998 AATA
1 AATA
37977002 GATTAACTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
11 3 0.08
12 14 0.38
13 9 0.24
14 6 0.16
15 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAAATAAATT
Found at i:37977177 original size:19 final size:19
Alignment explanation
Indices: 37977161--37977203 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
37977151 ATATTTCAAT
*
37977161 CAAAATATTTCATTTCATC
1 CAAAAAATTTCATTTCATC
37977180 CAAAAAATTTC-TTT--TC
1 CAAAAAATTTCATTTCATC
37977196 CAAAAAAT
1 CAAAAAAT
37977204 CATTTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
18 3 0.13
19 10 0.43
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (19 bp):
CAAAAAATTTCATTTCATC
Found at i:37977216 original size:12 final size:12
Alignment explanation
Indices: 37977199--37977229 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37977189 TCTTTTCCAA
37977199 AAAATCATTTTC
1 AAAATCATTTTC
37977211 AAAATCATTTTC
1 AAAATCATTTTC
*
37977223 AATATCA
1 AAAATCA
37977230 ATATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATCATTTTC
Found at i:37977283 original size:21 final size:20
Alignment explanation
Indices: 37977258--37977301 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
37977248 TCCAAACACC
*
37977258 AAAAATTATTAACTTTTCTAA
1 AAAAATAATTAA-TTTTCTAA
*
37977279 AAAAATAATTTATTTTCTAA
1 AAAAATAATTAATTTTCTAA
37977299 AAA
1 AAA
37977302 TTATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATAATTAATTTTCTAA
Found at i:37980601 original size:22 final size:22
Alignment explanation
Indices: 37980562--37980603 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37980552 GTGAAATTGT
*
37980562 AACAAAATAGTGAGAAAACAAC
1 AACAAAATAGTCAGAAAACAAC
37980584 AACAAAATAG-CAGTAAAACA
1 AACAAAATAGTCAG-AAAACA
37980604 GTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.10
Consensus pattern (22 bp):
AACAAAATAGTCAGAAAACAAC
Found at i:37986337 original size:15 final size:16
Alignment explanation
Indices: 37986298--37986337 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
37986288 TAATCAATGC
*
37986298 AAAATAAT-ATTATTT
1 AAAATAATAATTAATT
37986313 AAAATAATAATTAATT
1 AAAATAATAATTAATT
37986329 -AAATAATAA
1 AAAATAATAA
37986338 ATAAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAATT
Found at i:37987644 original size:18 final size:17
Alignment explanation
Indices: 37987605--37987648 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
37987595 TATTTTTTTG
*
37987605 AAAATATAAATTTTTAAA
1 AAAATA-AAATTTTCAAA
*
37987623 AAAATAAAATTTTCATAT
1 AAAATAAAATTTTCA-AA
37987641 AAAATAAA
1 AAAATAAA
37987649 TCTAGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAAATTTTCAAA
Found at i:37995571 original size:18 final size:17
Alignment explanation
Indices: 37995550--37995585 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
37995540 TTACAGCAAA
37995550 AATTTATTTTATCTTTTT
1 AATTTATTTTAT-TTTTT
37995568 AATTTATTTTATTTTTT
1 AATTTATTTTATTTTTT
37995585 A
1 A
37995586 GTAAAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
AATTTATTTTATTTTTT
Found at i:37999669 original size:52 final size:52
Alignment explanation
Indices: 37999590--37999877 Score: 438
Period size: 52 Copynumber: 5.6 Consensus size: 52
37999580 GAAAAAAAAG
*
37999590 GGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
37999642 GGTCCGATGACTATGTGTCATCGTGAGTGTATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* *
37999694 GGTCCGATGACTATATGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
37999746 GGTCCGATGAC--TGTGTTATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * *
37999796 GGTCCGATGACTATGTGTCATCGTGAATATATGGATCCTATTACAGATT-TAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCT-TTACGGATTATGA
* * *
37999848 GGTCTGATGACTTTGTGTCATCATGAGTAT
1 GGTCCGATGACTATGTGTCATCGTGAGTAT
37999878 GAAAGGGGAA
Statistics
Matches: 216, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
50 47 0.22
52 161 0.75
53 8 0.04
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (52 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:37999815 original size:102 final size:103
Alignment explanation
Indices: 37999590--37999877 Score: 445
Period size: 102 Copynumber: 2.8 Consensus size: 103
37999580 GAAAAAAAAG
* *
37999590 GGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGACT-
*
37999655 TGTGTCATCGTGAGTGTATGAATCCTTTACGGATTATGA
65 TGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
37999694 GGTCCGATGACTATATGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGAC-T
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGACTT
*
37999758 GTGTTATCGTGAGTATATGAATCCTTTACGGATTATGA
66 GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * *
37999796 GGTCCGATGACTATGTGTCATCGTGAATATATGGATCCTATTACAGATT-TAAGGTCTGATGACT
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCT-TTACAGATTATGAGGTCCGATGAC-
*
37999860 TTGTGTCATCATGAGTAT
64 TTGTGTCATCGTGAGTAT
37999878 GAAAGGGGAA
Statistics
Matches: 169, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
102 85 0.50
103 9 0.05
104 75 0.44
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (103 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTCCGATGACTT
GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:38002716 original size:19 final size:19
Alignment explanation
Indices: 38002692--38002738 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
38002682 CCGACAACTA
* * *
38002692 GACCCGACTTGAGACTTGT
1 GACCCGACCTGAGACCTAT
38002711 GACCCGACCTGAGACCTAT
1 GACCCGACCTGAGACCTAT
38002730 GACCCGACC
1 GACCCGACC
38002739 CGTTGACTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.17
Consensus pattern (19 bp):
GACCCGACCTGAGACCTAT
Found at i:38002909 original size:19 final size:19
Alignment explanation
Indices: 38002887--38002933 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
38002877 TCCGACACTA
* **
38002887 GACCCGACTTGAGACTTGT
1 GACCCGACCTGAGACTTAC
38002906 GACCCGACCTGAGACTTAC
1 GACCCGACCTGAGACTTAC
38002925 GACCCGACC
1 GACCCGACC
38002934 CGTTGACCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.17
Consensus pattern (19 bp):
GACCCGACCTGAGACTTAC
Found at i:38003283 original size:50 final size:50
Alignment explanation
Indices: 38003208--38003307 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
38003198 CCGAGTGTTG
38003208 CATGTGAGTATTTGTAATTCGGTTTAGTGATGTGTTTAGTAGGTGGCATA
1 CATGTGAGTATTTGTAATTCGGTTTAGTGATGTGTTTAGTAGGTGGCATA
38003258 CATGTGAGTATTTGTAATTCGGTTTAGTGATGTGTTTAGTAGGTGGCATA
1 CATGTGAGTATTTGTAATTCGGTTTAGTGATGTGTTTAGTAGGTGGCATA
38003308 GTAGTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.06, G:0.30, T:0.42
Consensus pattern (50 bp):
CATGTGAGTATTTGTAATTCGGTTTAGTGATGTGTTTAGTAGGTGGCATA
Found at i:38003309 original size:24 final size:24
Alignment explanation
Indices: 38003232--38003309 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
38003222 TAATTCGGTT
38003232 TAGTGATGTGTTTAGTAGGTGGCA
1 TAGTGATGTGTTTAGTAGGTGGCA
* ** **
38003256 TACATGTGA-GTATTT-GTAATTCGGTT
1 T--A-GTGATGTGTTTAGTAGGT-GGCA
38003282 TAGTGATGTGTTTAGTAGGTGGCA
1 TAGTGATGTGTTTAGTAGGTGGCA
38003306 TAGT
1 TAGT
38003310 AGTAGTTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
23 4 0.11
24 13 0.34
25 8 0.21
26 9 0.24
27 4 0.11
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (24 bp):
TAGTGATGTGTTTAGTAGGTGGCA
Found at i:38007230 original size:22 final size:21
Alignment explanation
Indices: 38007205--38007252 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
38007195 TTTTTTCTCT
*
38007205 CATTTTCTCTCCTGCCAAACAC
1 CATTTT-TCTCCTGCAAAACAC
* *
38007227 CATTTTTCTTCTTCAAAACAC
1 CATTTTTCTCCTGCAAAACAC
38007248 CATTT
1 CATTT
38007253 ATAAAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.40
Consensus pattern (21 bp):
CATTTTTCTCCTGCAAAACAC
Found at i:38007659 original size:23 final size:23
Alignment explanation
Indices: 38007633--38007680 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
38007623 ACCTTCAAAG
38007633 AAGATAAAATAAAATCCAATTCC
1 AAGATAAAATAAAATCCAATTCC
*
38007656 AAGATAAAATAAAATCCTATTCC
1 AAGATAAAATAAAATCCAATTCC
38007679 AA
1 AA
38007681 AAACAAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.17, G:0.04, T:0.23
Consensus pattern (23 bp):
AAGATAAAATAAAATCCAATTCC
Found at i:38014223 original size:33 final size:33
Alignment explanation
Indices: 38014186--38014250 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
38014176 TTATTGATAA
38014186 ATTTACAATAATATTTAAAATTAATAATAAAGG
1 ATTTACAATAATATTTAAAATTAATAATAAAGG
38014219 ATTTACAATAATATTTAAAATTAATAATAAAG
1 ATTTACAATAATATTTAAAATTAATAATAAAG
38014251 TATCACTATC
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:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (33 bp):
ATTTACAATAATATTTAAAATTAATAATAAAGG
Found at i:38022206 original size:30 final size:30
Alignment explanation
Indices: 38022183--38022249 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
38022173 TTTATACTTA
38022183 ACTACATTATATAAAAACTATTTATAAATAG
1 ACTA-ATTATATAAAAACTATTTATAAATAG
*
38022214 ATTAATTATATAAAAACTATTTATAAATAG
1 ACTAATTATATAAAAACTATTTATAAATAG
*
38022244 ATTAAT
1 ACTAAT
38022250 ATTCGATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 32 0.91
31 3 0.09
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (30 bp):
ACTAATTATATAAAAACTATTTATAAATAG
Found at i:38022207 original size:15 final size:15
Alignment explanation
Indices: 38022189--38022238 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
38022179 CTTAACTACA
38022189 TTATATAAAAACTAT
1 TTATATAAAAACTAT
* * *
38022204 TTATA-AATAGATTAA
1 TTATATAA-AAACTAT
38022219 TTATATAAAAACTAT
1 TTATATAAAAACTAT
38022234 TTATA
1 TTATA
38022239 AATAGATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (15 bp):
TTATATAAAAACTAT
Found at i:38022210 original size:13 final size:13
Alignment explanation
Indices: 38022192--38022240 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
38022182 AACTACATTA
38022192 TATAAAAACTATT
1 TATAAAAACTATT
*
38022205 TATAAATAGATTAATT
1 TATAAA-A-ACT-ATT
38022221 ATATAAAAACTATT
1 -TATAAAAACTATT
38022235 TATAAA
1 TATAAA
38022241 TAGATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 12 0.40
14 4 0.13
15 4 0.13
16 4 0.13
17 6 0.20
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (13 bp):
TATAAAAACTATT
Found at i:38032381 original size:20 final size:21
Alignment explanation
Indices: 38032345--38032396 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
38032335 AGTCAAATTA
* *
38032345 ATATA-ATATACAGAATAA-T
1 ATATATATATAAACAATAACT
38032364 ATATATATATAAACAATAAGCT
1 ATATATATATAAACAATAA-CT
38032386 ATATATATATA
1 ATATATATATA
38032397 TACACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 11 0.39
22 12 0.43
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATATATATAAACAATAACT
Found at i:38032550 original size:20 final size:20
Alignment explanation
Indices: 38032525--38032563 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38032515 ACTATATATA
*
38032525 TATATATATAAGGAATAAAC
1 TATATATACAAGGAATAAAC
*
38032545 TATATATACAAGTAATAAA
1 TATATATACAAGGAATAAA
38032564 TTACATACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
TATATATACAAGGAATAAAC
Found at i:38038000 original size:15 final size:15
Alignment explanation
Indices: 38037980--38038013 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
38037970 GAAGTCTGTT
*
38037980 TTTTATTTTCATTTG
1 TTTTATTTTCATTTA
38037995 TTTTATTTTCATTTA
1 TTTTATTTTCATTTA
38038010 TTTT
1 TTTT
38038014 CTCAGCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTCATTTA
Found at i:38039015 original size:10 final size:10
Alignment explanation
Indices: 38039000--38039025 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38038990 AAATAGAAAT
38039000 ATATATATAA
1 ATATATATAA
38039010 ATATATATAA
1 ATATATATAA
38039020 ATATAT
1 ATATAT
38039026 CAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATATAA
Found at i:38039787 original size:17 final size:16
Alignment explanation
Indices: 38039765--38039820 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
38039755 CAATTTATTA
38039765 CTTTAATTTCACTTATC
1 CTTTAATTTCA-TTATC
**
38039782 CTTTAA-TT-AAAATC
1 CTTTAATTTCATTATC
*
38039796 ATTTAATTTCATTTATC
1 CTTTAATTTCA-TTATC
38039813 CTTTAATT
1 CTTTAATT
38039821 AAAATAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 8 0.27
15 3 0.10
16 3 0.10
17 16 0.53
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (16 bp):
CTTTAATTTCATTATC
Found at i:38039804 original size:31 final size:31
Alignment explanation
Indices: 38039766--38039842 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
38039756 AATTTATTAC
* *
38039766 TTTAATTTCACTTATCCTTTAATTAAAATCA
1 TTTAATTTCATTTATCCTTTAATTAAAATAA
38039797 TTTAATTTCATTTATCCTTTAATTAAAATAA
1 TTTAATTTCATTTATCCTTTAATTAAAATAA
*
38039828 TTTAACTTCATTTAT
1 TTTAATTTCATTTAT
38039843 TACTTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTAATTTCATTTATCCTTTAATTAAAATAA
Found at i:38039891 original size:18 final size:17
Alignment explanation
Indices: 38039851--38039919 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 17
38039841 ATTACTTTTA
* *
38039851 AATTTATTACTTGAATTT
1 AATTTATT-CTTTAAATT
*
38039869 CATTTATTCCTTTAAATT
1 AATTTATT-CTTTAAATT
38039887 AATTTATTCTTT-AATT
1 AATTTATTCTTTAAATT
38039903 -ATTTAATT-TTT-AATT
1 AATTT-ATTCTTTAAATT
38039918 AA
1 AA
38039920 AATCGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 11 0.25
16 8 0.18
17 4 0.09
18 21 0.48
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (17 bp):
AATTTATTCTTTAAATT
Found at i:38039914 original size:15 final size:15
Alignment explanation
Indices: 38039870--38039918 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
38039860 CTTGAATTTC
38039870 ATTTATTCCTTTAAATT
1 ATTTATT-CTTT-AATT
38039887 AATTTATTCTTTAATT
1 -ATTTATTCTTTAATT
38039903 ATTTAATT-TTTAATT
1 ATTT-ATTCTTTAATT
38039918 A
1 A
38039919 AAATCGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.40
16 7 0.23
17 4 0.13
18 7 0.23
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTCTTTAATT
Done.