Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 65
Found at i:9239400 original size:17 final size:17
Alignment explanation
Indices: 9239375--9239411 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9239365 TCTGGAGCCC
9239375 TGTTCGGTCGCACAAAT
1 TGTTCGGTCGCACAAAT
* *
9239392 TGTTTGGTCGCACAACT
1 TGTTCGGTCGCACAAAT
9239409 TGT
1 TGT
9239412 GCTCCCTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (17 bp):
TGTTCGGTCGCACAAAT
Found at i:9239647 original size:33 final size:30
Alignment explanation
Indices: 9239551--9239650 Score: 98
Period size: 33 Copynumber: 3.3 Consensus size: 30
9239541 AAATAATTTA
* * *
9239551 TTTATT-ATTAAAATATCAT-TTTTATAAT
1 TTTATTAATAAAAATATTATATTATATAAT
*
9239579 TTTATTAATAAAAATATTAATATTGGTAT-AT
1 TTTATTAATAAAAATATT-ATATT-ATATAAT
9239610 TTTATTGAAATAAAAATATTATATTATATAAT
1 TTTATT--AATAAAAATATTATATTATATAAT
9239642 ATTTATTAA
1 -TTTATTAA
9239651 AGCAATAGTG
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
28 6 0.10
29 9 0.15
30 2 0.03
31 15 0.25
32 10 0.17
33 18 0.30
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
TTTATTAATAAAAATATTATATTATATAAT
Found at i:9239729 original size:19 final size:20
Alignment explanation
Indices: 9239697--9239734 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9239687 GTATATTTTA
9239697 ATATTTTTATTAAA-ATATT
1 ATATTTTTATTAAATATATT
9239716 ATATATTTTA-TAAATATAT
1 ATAT-TTTTATTAAATATAT
9239735 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTTTTATTAAATATATT
Found at i:9239799 original size:48 final size:47
Alignment explanation
Indices: 9239719--9239817 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 47
9239709 AAATATTATA
9239719 TATTTTATAAATATATAAAAATATATTCATTAATAATTTA-ACATAT
1 TATTTTATAAATATATAAAAATATATTCATTAATAATTTATACATAT
* *
9239765 TATTTCTATGAAATA-ATAAATAATA-ATTTTATTAATAATTTATATATAT
1 TATTT-TAT-AAATATATAAA-AATATA-TTCATTAATAATTTATACATAT
9239814 TATT
1 TATT
9239818 AAAATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
46 5 0.11
47 9 0.20
48 23 0.50
49 9 0.20
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (47 bp):
TATTTTATAAATATATAAAAATATATTCATTAATAATTTATACATAT
Found at i:9239848 original size:19 final size:18
Alignment explanation
Indices: 9239826--9239868 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
9239816 TTAAAATAAA
9239826 AATATATATCTTATTATAT
1 AATATATATCTTATT-TAT
* *
9239845 AATATATTTTTTATTTAT
1 AATATATATCTTATTTAT
9239863 AATATA
1 AATATA
9239869 AATATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATATATCTTATTTAT
Found at i:9243009 original size:111 final size:112
Alignment explanation
Indices: 9242799--9243256 Score: 719
Period size: 112 Copynumber: 4.1 Consensus size: 112
9242789 GATACTTATA
* *
9242799 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACC----TTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
9242860 TTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
9242907 ATAAAGTATCGACACTTTCAATATATCCGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
9242972 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
9243018 ATAAAGTATCGACACTTTCAATATATCTGATAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
**
9243083 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATATATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* ** *
9243130 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTATATGTTTTGTCATTTATATACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * * *
9243195 TTTGTCATTTTTTTACTTGTTATATTATTAGGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
9243242 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
9243257 AAACCGACAA
Statistics
Matches: 324, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
108 39 0.12
111 106 0.33
112 179 0.55
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:9243183 original size:223 final size:220
Alignment explanation
Indices: 9242799--9243256 Score: 711
Period size: 223 Copynumber: 2.1 Consensus size: 220
9242789 GATACTTATA
* *
9242799 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTTGTCATTTATAGACCGGTTTTG
1 ATAAAGTATCGACACTATCAACATATCCGATAGCACTTTACCTTGTCATTTATAGACCGGTTTTG
* *
9242864 TCATTTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
66 TCATTTTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGACACTTTCAAT
* *
9242929 ATATCCGGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTACCTGTTA
131 ATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
* * *
9242993 TATTGTTATGGATCGATACATTTTT
196 TATTATTAGGGATCAATACATTTTT
* * *
9243018 ATAAAGTATCGACACTTTCAATATATCTGATAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGATAGCACTTTACC----TTGTCATTTATAGACCGGT
*
9243083 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATATATACATTTTTATAAAGTATCGACACTTT
62 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGACACTTT
* * * *
9243148 CAATATATCTGGTAGCGCTTTATATGTTTTGTCATTTATATACCGGTTTTGTCATTTTTTTACTT
127 CAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCT
*
9243213 GTTATATTATTAGGGATCAATATATTTTT
192 GTTATATTATTAGGGATCAATACATTTTT
9243242 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
9243257 AAACCGACAA
Statistics
Matches: 216, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
219 37 0.17
223 130 0.60
224 49 0.23
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (220 bp):
ATAAAGTATCGACACTATCAACATATCCGATAGCACTTTACCTTGTCATTTATAGACCGGTTTTG
TCATTTTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGACACTTTCAAT
ATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTA
TATTATTAGGGATCAATACATTTTT
Found at i:9249559 original size:20 final size:19
Alignment explanation
Indices: 9249536--9249608 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 19
9249526 CATTTTGGTC
*
9249536 TTTTTTATTATTTTTTTTA
1 TTTTTTATTATTTTATTTA
*
9249555 TTTTTTACTAACTTTTATTTA
1 TTTTTTA-TTA-TTTTATTTA
*
9249576 ATTTTTATCTATTTTATTTA
1 TTTTTTAT-TATTTTATTTA
9249596 TTTTATTATTATT
1 TTTT-TTATTATT
9249609 ATGCTAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.16
20 19 0.42
21 19 0.42
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTATTATTTTATTTA
Found at i:9250139 original size:19 final size:18
Alignment explanation
Indices: 9250111--9250151 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9250101 TATTATAGAA
*
9250111 ATAAGAATTATTGTTAAG
1 ATAAGAATTATTATTAAG
*
9250129 ATAATGAATTATTATTAGG
1 ATAA-GAATTATTATTAAG
9250148 ATAA
1 ATAA
9250152 ATCTCAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (18 bp):
ATAAGAATTATTATTAAG
Found at i:9254069 original size:2 final size:2
Alignment explanation
Indices: 9254062--9254088 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9254052 ACCATATTTC
9254062 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
9254089 GATCACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9254479 original size:54 final size:54
Alignment explanation
Indices: 9254411--9254535 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
9254401 GGGATATCGG
* * *
9254411 ACTCGAGAAATCTTCTAAC-AATGGGTTCGCTCCCTCTTTCTTTGGGGAGTATGGA
1 ACTCGA-AAATCTTCT-ACGAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* *
9254466 ACTCGAACATCTTCTGCGAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
1 ACTCGAAAATCTTCTACGAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
9254520 ACTCGAATAATCTTCT
1 ACTCGAA-AATCTTCT
9254536 GCAAACGTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 1 0.02
54 48 0.77
55 13 0.21
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (54 bp):
ACTCGAAAATCTTCTACGAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
Found at i:9254570 original size:55 final size:52
Alignment explanation
Indices: 9254457--9254618 Score: 144
Period size: 55 Copynumber: 3.0 Consensus size: 52
9254447 TTTCTTTGGG
* * * * * * *
9254457 GAGTATGGAACTCGAACATCTTCTGCGAACGGGTTCGCTCCCTCTTTCTTTAGG
1 GAGTAT-GAACTCGAAAATCTTCTGCAAACGTGTT-GCTCCCTATTTCATCAGA
9254511 GAGTATAGAACTCGAATAATCTTCTGCAAACGTGTATGCTCCCTATTTCATCAGA
1 GAGTAT-GAACTCGAA-AATCTTCTGCAAACGTGT-TGCTCCCTATTTCATCAGA
* ** * *
9254566 GAGTATGAGACTCGAACGATCTTCAACAATCGTGTCTGCCCCCTATTTCATCA
1 GAGTATGA-ACTCGAA-AATCTTCTGCAAACGTGT-TGCTCCCTATTTCATCA
9254619 ATCGCGTCTG
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
54 17 0.19
55 72 0.80
56 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (52 bp):
GAGTATGAACTCGAAAATCTTCTGCAAACGTGTTGCTCCCTATTTCATCAGA
Found at i:9254621 original size:25 final size:25
Alignment explanation
Indices: 9254587--9254639 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9254577 TCGAACGATC
* *
9254587 TTCAACAATCGTGTCTGCCCCCTAT
1 TTCAACAATCGCGTCTGCCCCATAT
* *
9254612 TTCATCAATCGCGTCTGCTCCATAT
1 TTCAACAATCGCGTCTGCCCCATAT
9254637 TTC
1 TTC
9254640 TTCAGAGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.34, G:0.11, T:0.36
Consensus pattern (25 bp):
TTCAACAATCGCGTCTGCCCCATAT
Found at i:9254775 original size:54 final size:54
Alignment explanation
Indices: 9254654--9255951 Score: 1263
Period size: 54 Copynumber: 24.3 Consensus size: 54
9254644 GAGAGTATAA
* ** * * * * *
9254654 AACTCGAACAACTTTCAACAAATGGGTTTGCTCCCTCTTTCTTTTAGGTAGTATAG
1 AACTCGAACATC-TTCTTCAAACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGG
* * ** * *
9254710 AACTCAAACATCTTTTTCTTACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * *
9254764 AACTCGAACATCTTCTTTAAACGGGTTTGCTCCCTCTTGCTCTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* **
9254818 AACTCGAATATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* ** * * *
9254872 AACTCGAACAATCTTCTACAAACATGTTCGCTCCTTCTTTCTTTAGGGAGTATGA
1 AACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
** * *
9254927 AACTCGAACATCTTCTTCTTACGGGTTCGCCCCCTCTTTCT-TCAGGGAGTATAG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGG
* * * *
9254981 AACTC-AGACATCTTCTTTAAACAGGTTCGCTACCTCTTTCTCTAGGGAGTATAG
1 AACTCGA-ACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
** * * * * *
9255035 AACTCGAACATCTTCTTCTTATGAGTTTGCTCCCTCTTTATCTAAGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * * * *
9255089 AACTCGAACA---TCTTCGAACGAGTTCGTTCCCTCTTTCTTTAGAGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* *
9255140 AACTCGAACA---TCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGA
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * *
9255191 AACTCGAACAACTTC--C-AACGAGTTCGCTCCCTACTTT-TCTAGGGAGTATAG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCT-CTTTCTCTAGGGAGTATGG
* **
9255242 AACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* ** ** * * *
9255296 AACTCGAAAATCTTCTTCTTACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGA
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * * * *
9255350 AACTTGGACATCTTCTTCAAATGTGTTCACTCCCTCTTTCTCTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
** * ** * * *
9255404 AACTAAAAAATCTTCTGAAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* *
9255458 AACTCGAACA---TCTTCAAACGGGTTTGCTCCCACTTTCTCTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* **
9255509 AACTTGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCT-TCAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGG
*
9255563 AACTCGAACATCTTCTTCAAACGGGTACGCTCCCTCTTTCT-TCAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGG
* * * * *
9255617 AACTCAAACA--ATCTTCAAACGGGTTCGCTTCATCTTTCTTTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * * * * **
9255669 AACTCGAATAACTTC--C-AACGAGTTCGCTCCCTCATTATCTAGGGAGTATAA
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * * ** * *
9255720 AACTCGAAAATCTTATCCTTACAGGTTCACTCCCTCTTTCTCTAGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * ** * * ** * * *
9255774 AACTCAAAAATCTTCTTCTTACAGGTTCACTCATTCTTTCTTTAAGGAGTATAG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* * *
9255828 AACTCGAACATCTTCTTCAAACGGTTTCACTCCCTCTTTCTCTTGGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
* ** * * * * *
9255882 AACTCGAAAATCTTCTGAAAACCGGTTCGATCCTTCTTTCTTTAAGGAGTATGG
1 AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
9255936 AACTCGAACAATCTTC
1 AACTCGAAC-ATCTTC
9255952 ACTTGCTTCA
Statistics
Matches: 1025, Mismatches: 193, Indels: 49
0.81 0.15 0.04
Matches are distributed among these distances:
51 209 0.20
52 50 0.05
53 10 0.01
54 671 0.65
55 75 0.07
56 10 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
AACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGG
Found at i:9255633 original size:478 final size:473
Alignment explanation
Indices: 9254636--9255952 Score: 1656
Period size: 478 Copynumber: 2.7 Consensus size: 473
9254626 CTGCTCCATA
** * * * *
9254636 TTTCTTCAGAGAGTATAAAACTCGAACAACTTTCAACAAATGGGTTTGCTCCCTCTTTCTTTTAG
1 TTTCTTCAGAGAGTATGGAACTCAAACATC-TT---CAAACGGGTTCGCTCCCTCTTTC-TTTAG
* * * ** * *
9254701 GTAGTAT-AGAACTCAAACATCTTTTTCTTACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGA
61 GGAGTATGA-AACTCGAACAAC---TTCCAACGAGTTCGCTCCCTCTTT-TCTAGGGAGTATAGA
* * * * *
9254765 ACTCGAACATCTTCTT-TAAACGGGTTTGCTCCCTCTTGCTCTAGGGAGTATGGAACTCGAATAT
121 ACTCGAAAATCTTCTTCT-TACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAAT
** * * * *
9254829 CTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACAATCTTCTACAAA
185 CTTCTTCTTACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGAAACTCGAAC-ATCTTCTTCAAA
* * * * * * **** *
9254894 CATGTTCGCTCCTTCTTTCTTTAGGGAGTATGAAACTCGAACATCTTCTTCTTACGGGTTCGCCC
249 CGTGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTGAAAACGGGTTCGCTC
* * * * *
9254959 CCTCTTTCTTCAGGGAGTATAGAACTC-AGACATCTTCTTTAAACAGGTTCGCTACCTCTTTCTC
314 CTTCTTTCTTTAAGGAGTATGGAACTCGA-ACATCTTC---AAACAGGTTCGCTACCACTTTCTC
* *
9255023 TAGGGAGTATAGAACTCGAACATCTTCTTCTTATGAGTTTGCTCCCTCTTTATCTAAGGAGTATG
375 TAGGGAGTATAGAACTCGAACATCTTCTTCTTACGAGTTCGCTCCCTCTTTATCTAAGGAGTATG
* * *
9255088 GAACTCGAACATCTTCGAACGAGTTCGTTCCCTC
440 GAACTCGAACATCTTCAAACGAGTACGCTCCCTC
* *
9255122 TTTCTTTAGAGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGT
1 TTTCTTCAGAGAGTATGGAACTCAAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGT
9255187 ATGAAACTCGAACAACTTCCAACGAGTTCGCTCCCTACTTTTCTAGGGAGTATAGAACTCGAAAA
66 ATGAAACTCGAACAACTTCCAACGAGTTCGCTCCCT-CTTTTCTAGGGAGTATAGAACTCGAAAA
9255252 TCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTCTTA
130 TCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTCTTA
* * *
9255317 CGGGTTCGCTCATTCTTTCTTTAAGGAGTATGAAACTTGGACATCTTCTTCAAATGTGTTCACTC
195 CGGGTTCGCTCATTCTTTCTTTAAGGAGTATGAAACTCGAACATCTTCTTCAAACGTGTTCACTC
**
9255382 CCTCTTTCTCTAGGGAGTATGGAACTAAAAAATCTTCTGAAAACGGGTTCGCTCCTTCTTTCTTT
260 CCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTGAAAACGGGTTCGCTCCTTCTTTCTTT
* * * *
9255447 AAGGAGTATGGAACTCGAACATCTTCAAACGGGTTTGCTCCCACTTTCTCTAGGGAGTATGGAAC
325 AAGGAGTATGGAACTCGAACATCTTCAAACAGGTTCGCTACCACTTTCTCTAGGGAGTATAGAAC
* * * *
9255512 TTGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCT-TCAGGGAGTATGGAACTCGAACATCT
390 TCGAACATCTTCTTCTTACGAGTTCGCTCCCTCTTTATCT-AAGGAGTATGGAACTCGAACA---
*
9255576 TCTTCAAACGGGTACGCTCCCTC
451 TCTTCAAACGAGTACGCTCCCTC
* * *
9255599 TTTCTTCAGGGAGTATGGAACTCAAACAATCTTCAAACGGGTTCGCTTCATCTTTCTTTAGGGAG
1 TTTCTTCAGAGAGTATGGAACTCAAAC-ATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAG
* * * *
9255664 TATGGAACTCGAATAACTTCCAACGAGTTCGCTCCCTCATTATCTAGGGAGTATAAAACTCGAAA
65 TATGAAACTCGAACAACTTCCAACGAGTTCGCTCCCTC-TTTTCTAGGGAGTATAGAACTCGAAA
* * * * *
9255729 ATCTTATCCTTACAGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCAAAAATCTTCTTCTT
129 ATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTCTT
* *
9255794 ACAGGTTCACTCATTCTTTCTTTAAGGAGTAT-AGAACTCGAACATCTTCTTCAAACG-GTTTCA
194 ACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGA-AACTCGAACATCTTCTTCAAACGTG-TTCA
* * *
9255857 CTCCCTCTTTCTCTTGGGAGTATGGAACTCGAAAATCTTCTGAAAACCGGTTCGATCCTTCTTTC
257 CTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTGAAAACGGGTTCGCTCCTTCTTTC
9255922 TTTAAGGAGTATGGAACTCGAACAATCTTCA
322 TTTAAGGAGTATGGAACTCGAAC-ATCTTCA
9255953 CTTGCTTCAC
Statistics
Matches: 735, Mismatches: 83, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
473 1 0.00
474 87 0.12
477 139 0.19
478 425 0.58
479 12 0.02
481 21 0.03
482 22 0.03
485 2 0.00
486 26 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (473 bp):
TTTCTTCAGAGAGTATGGAACTCAAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGT
ATGAAACTCGAACAACTTCCAACGAGTTCGCTCCCTCTTTTCTAGGGAGTATAGAACTCGAAAAT
CTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTCTTAC
GGGTTCGCTCATTCTTTCTTTAAGGAGTATGAAACTCGAACATCTTCTTCAAACGTGTTCACTCC
CTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTGAAAACGGGTTCGCTCCTTCTTTCTTTA
AGGAGTATGGAACTCGAACATCTTCAAACAGGTTCGCTACCACTTTCTCTAGGGAGTATAGAACT
CGAACATCTTCTTCTTACGAGTTCGCTCCCTCTTTATCTAAGGAGTATGGAACTCGAACATCTTC
AAACGAGTACGCTCCCTC
Found at i:9256379 original size:37 final size:37
Alignment explanation
Indices: 9256336--9256451 Score: 142
Period size: 37 Copynumber: 3.1 Consensus size: 37
9256326 TTAAAATGGA
9256336 TTGCTTCACTACTCTTTGGTAAAGGCTTCAGATTGAT
1 TTGCTTCACTACTCTTTGGTAAAGGCTTCAGATTGAT
* * * *
9256373 TTGCTTCACTACTCTGTGGTGAAGGCTTCAGATCGAG
1 TTGCTTCACTACTCTTTGGTAAAGGCTTCAGATTGAT
* * * * *
9256410 TTGCTTCACTACTCCTCGGTAAGGGCTTAATATTGACT
1 TTGCTTCACTACTCTTTGGTAAAGGCTTCAGATTGA-T
9256448 TTGC
1 TTGC
9256452 CCCAATCTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
37 61 0.94
38 4 0.06
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (37 bp):
TTGCTTCACTACTCTTTGGTAAAGGCTTCAGATTGAT
Found at i:9256918 original size:30 final size:29
Alignment explanation
Indices: 9256884--9257205 Score: 184
Period size: 30 Copynumber: 11.2 Consensus size: 29
9256874 TGACAACATT
* *
9256884 AAATATATTTTATTCTTGTCTTAATCTAAA
1 AAATATATTTTATTCTTATCTTAA-CTTAA
*
9256914 AAATATATTTTATTCTTATTTTAACTTAA
1 AAATATATTTTATTCTTATCTTAACTTAA
*
9256943 AAATATATTTTAGTTTTTATCTTAACTTAA
1 AAATATATTTTA-TTCTTATCTTAACTTAA
* * * *
9256973 AAATACATTTTATTTTTATCTTAAATTATT
1 AAATATATTTTATTCTTATCTTAACTTA-A
* * * * *
9257003 ACATAAATTGTATTCTTAAT-TTAAATTATT
1 AAATATATTTTATTCTT-ATCTTAACTTA-A
* * * *
9257033 AAATATATTCTACTT-TTACCTTAAATTATT
1 AAATATATTTTA-TTCTTATCTTAACTTA-A
* *
9257063 AAATATATTTAATTCTTATTCTTAAGTTAA
1 AAATATATTTTATTCTTA-TCTTAACTTAA
* * * * *
9257093 ATCATATCTTTTATTATTGTCTAAACTT-A
1 A-AATATATTTTATTCTTATCTTAACTTAA
*
9257122 AAATATATTTTTATT-TTAAC-T-AC--AA
1 AAATATA-TTTTATTCTTATCTTAACTTAA
* *
9257147 AAATATATTTTAATCTTAAC-T-AC--AA
1 AAATATATTTTATTCTTATCTTAACTTAA
* * * *
9257172 AAA-ATATTATATTTTTATCTTAAATTTA
1 AAATATATTTTATTCTTATCTTAACTTAA
9257200 AAATAT
1 AAATAT
9257206 TATCAAAATA
Statistics
Matches: 236, Mismatches: 40, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
24 18 0.08
25 22 0.09
26 3 0.01
28 11 0.05
29 45 0.19
30 113 0.48
31 24 0.10
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (29 bp):
AAATATATTTTATTCTTATCTTAACTTAA
Found at i:9256950 original size:59 final size:59
Alignment explanation
Indices: 9256884--9256996 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
9256874 TGACAACATT
* * *
9256884 AAATATATTTTA-TTCTTGTCTTAATCTAAAAAATATATTTTATTCTTATTTTAACTTAA
1 AAATATATTTTAGTTCTTATCTTAA-CTAAAAAATACATTTTATTCTTATCTTAACTTAA
* * *
9256943 AAATATATTTTAGTTTTTATCTTAACTTAAAAATACATTTTATTTTTATCTTAA
1 AAATATATTTTAGTTCTTATCTTAACTAAAAAATACATTTTATTCTTATCTTAA
9256997 ATTATTACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 37 0.79
60 10 0.21
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (59 bp):
AAATATATTTTAGTTCTTATCTTAACTAAAAAATACATTTTATTCTTATCTTAACTTAA
Found at i:9257186 original size:29 final size:25
Alignment explanation
Indices: 9257121--9257194 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 25
9257111 GTCTAAACTT
*
9257121 AAAATATATTTTTATTTTAACTACA
1 AAAATATATTTTTATCTTAACTACA
*
9257146 AAAATATATTTTAATCTTAACTACAAA
1 AAAATATATTTTTATCTTAACTAC--A
9257173 AAATATTATATTTTTATCTTAA
1 AAA-A-TATATTTTTATCTTAA
9257195 ATTTAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 22 0.52
27 4 0.10
28 1 0.02
29 15 0.36
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATATATTTTTATCTTAACTACA
Found at i:9257272 original size:30 final size:30
Alignment explanation
Indices: 9257212--9257346 Score: 123
Period size: 31 Copynumber: 4.5 Consensus size: 30
9257202 ATATTATCAA
* * *
9257212 AATAAAATATAAATATTTAAGTTAAAATAAG
1 AATAAAATAT-ATTTTTTAAATTAAAATAAG
* * *
9257243 AATAAATTATATTTTTTAATTTAAGATAAG
1 AATAAAATATATTTTTTAAATTAAAATAAG
* *
9257273 ATTAAAATATATATTTTTAAAATAAAATAAG
1 AATAAAATATAT-TTTTTAAATTAAAATAAG
**
9257304 AATAAAATAT-TTTTTTGGA-TACAAA-AAG
1 AATAAAATATATTTTTTAAATTA-AAATAAG
9257332 AATAAAAATATATTT
1 AAT-AAAATATATTT
9257347 AATAAGTTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
28 8 0.09
29 16 0.18
30 30 0.34
31 33 0.38
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.39
Consensus pattern (30 bp):
AATAAAATATATTTTTTAAATTAAAATAAG
Found at i:9257415 original size:18 final size:19
Alignment explanation
Indices: 9257370--9257415 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
9257360 AAAAAATATT
*
9257370 TTTATGTTAAAATGTTTAA
1 TTTATGTTAAAATGTTAAA
* *
9257389 TTAAT-TTAATATG-TAAA
1 TTTATGTTAAAATGTTAAA
9257406 TTTATGTTAA
1 TTTATGTTAA
9257416 GATATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (19 bp):
TTTATGTTAAAATGTTAAA
Found at i:9257575 original size:16 final size:16
Alignment explanation
Indices: 9257554--9257588 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9257544 CCTAGTAAGA
* *
9257554 AAAAATATATTAAATT
1 AAAAATAAATTAAAAT
9257570 AAAAATAAATTAAAAT
1 AAAAATAAATTAAAAT
9257586 AAA
1 AAA
9257589 GGATAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAATTAAAAT
Found at i:9258928 original size:21 final size:20
Alignment explanation
Indices: 9258904--9258953 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9258894 AAAATATTAA
*
9258904 AATATATTTATTAATATTTCT
1 AATATATATATT-ATATTTCT
*
9258925 AATATATATATTATATTTTT
1 AATATATATATTATATTTCT
9258945 AATAT-TATA
1 AATATATATA
9258954 ATAAATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 12 0.44
21 11 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATATATATATTATATTTCT
Found at i:9259070 original size:14 final size:13
Alignment explanation
Indices: 9259047--9259086 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9259037 AATTTCATAG
9259047 AAATAATATTATT
1 AAATAATATTATT
* *
9259060 AAATTATTATTAAT
1 AAA-TAATATTATT
9259074 AAATAATATTATT
1 AAATAATATTATT
9259087 TATATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATAATATTATT
Found at i:9259105 original size:27 final size:27
Alignment explanation
Indices: 9259025--9259105 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
9259015 AATAAAATTT
*
9259025 ATATTATTTAT-TAATTTCATAGA-AATA
1 ATATTATTTATAT-ATTTAATA-ATAATA
* *
9259052 ATATTA-TTAAAT-TATTATTAATAAATA
1 ATATTATTTATATAT-TTAATAAT-AATA
9259079 ATATTATTTATATATTTAATAATAATA
1 ATATTATTTATATATTTAATAATAATA
9259106 TAATAATCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
25 2 0.05
26 7 0.16
27 21 0.49
28 12 0.28
29 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATAATAATA
Found at i:9261751 original size:190 final size:194
Alignment explanation
Indices: 9261420--9261803 Score: 740
Period size: 190 Copynumber: 2.0 Consensus size: 194
9261410 TTTAATTTAA
9261420 CAAAGCAAAGCAAATTGGTGGAAAATAAATATATTAAATTAAAATAAAGTTAGTCCTCCAGTCAA
1 CAAAGCAAAGCAAATTGGTGGAAAATAAATATATTAAATTAAAATAAAGTTAGTCCTCCAGTCAA
9261485 ATAGTGACACGTGACACAACACATGGCACCAGTGACACATGATATCATTCGATTGGATGATTAAA
66 ATAGTGACACGTGACACAACACATGGCACCAGTGACACATGATATCATTCGATTGGATGATTAAA
9261550 TTTATTTTACTTTATTAAAAGTATGACT-AATTGAGAGAATATGT-AATAATAGGGACCAAATC
131 TTTATTTTACTTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATAATAGGGACCAAATC
9261612 CAAAGC-AAGCAAATTGGTGGAAAAT-AATATATTAAATTAAAATAAAGTTAGTCCTCCAGTCAA
1 CAAAGCAAAGCAAATTGGTGGAAAATAAATATATTAAATTAAAATAAAGTTAGTCCTCCAGTCAA
9261675 ATAGTGACACGTGACACAACACATGGCACCAGTGACACATGATATCATTCGATTGGATGATTAAA
66 ATAGTGACACGTGACACAACACATGGCACCAGTGACACATGATATCATTCGATTGGATGATTAAA
9261740 TTTATTTTACTTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATAATAGGGACCAAATC
131 TTTATTTTACTTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATAATAGGGACCAAATC
9261804 TCTGATTATA
Statistics
Matches: 190, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
190 131 0.69
191 35 0.18
192 24 0.13
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (194 bp):
CAAAGCAAAGCAAATTGGTGGAAAATAAATATATTAAATTAAAATAAAGTTAGTCCTCCAGTCAA
ATAGTGACACGTGACACAACACATGGCACCAGTGACACATGATATCATTCGATTGGATGATTAAA
TTTATTTTACTTTATTAAAAGTATGACTAAATTGAGAGAATATGTAAATAATAGGGACCAAATC
Found at i:9261917 original size:31 final size:31
Alignment explanation
Indices: 9261869--9261941 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
9261859 ACCCTTGGTA
*
9261869 ACCACATCTTAAATAAATAAAAACAAAAGTG
1 ACCATATCTTAAATAAATAAAAACAAAAGTG
* * * *
9261900 GCCATATCTTAATTAAATAAAAACGAATGTG
1 ACCATATCTTAAATAAATAAAAACAAAAGTG
9261931 ACCATATCTTA
1 ACCATATCTTA
9261942 TATATTTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (31 bp):
ACCATATCTTAAATAAATAAAAACAAAAGTG
Found at i:9263459 original size:10 final size:10
Alignment explanation
Indices: 9263444--9263468 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9263434 AATTTTTTTC
9263444 TCAAATTAAA
1 TCAAATTAAA
9263454 TCAAATTAAA
1 TCAAATTAAA
9263464 TCAAA
1 TCAAA
9263469 ACTGGAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (10 bp):
TCAAATTAAA
Found at i:9264018 original size:19 final size:19
Alignment explanation
Indices: 9263973--9264023 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
9263963 AATTAATTTC
*
9263973 AATAAAAT-TGATAATTTAT
1 AATAAAATATTAT-ATTTAT
*
9263992 TA-AAAATATTATATTTAT
1 AATAAAATATTATATTTAT
*
9264010 AATAAAATAATATA
1 AATAAAATATTATA
9264024 AAATTTAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAAAATATTATATTTAT
Found at i:9264191 original size:23 final size:23
Alignment explanation
Indices: 9264115--9264192 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
9264105 AAATTATTAG
*
9264115 ATTTATAATAAAAATAATAGAAA
1 ATTTATAATAAAAATAATATAAA
** * * *
9264138 CAACTAAAATAAAGGAAATAATATTAG
1 -ATTTATAAT-AA--AAATAATATAAA
9264165 ATTTATAATAAAAATAATATAAA
1 ATTTATAATAAAAATAATATAAA
9264188 ATTTA
1 ATTTA
9264193 CTTATGTTAC
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
23 15 0.38
24 6 0.15
25 4 0.10
26 6 0.15
27 9 0.22
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (23 bp):
ATTTATAATAAAAATAATATAAA
Found at i:9265850 original size:2 final size:2
Alignment explanation
Indices: 9265843--9265875 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9265833 ACTGAATTTA
9265843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9265876 CACGACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9271690 original size:41 final size:41
Alignment explanation
Indices: 9271462--9271907 Score: 447
Period size: 41 Copynumber: 10.8 Consensus size: 41
9271452 CATTTACAGC
* * * *
9271462 GGCGTTTTTAGAACAAACGCCGCTAAAGACTCAT-ATTATAGC
1 GGCGTTTTTA-TACAAACGCCGCTATAGACTCGTGATT-TAGT
* * * * *
9271504 GGCGTTTGTATAAAAACGCCACTAAAGAAT-GT-ACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGA-TTTAGT
** * * *
9271544 GGCGTTTTTATACAAACATCGTTAAAGACT-GTAATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGATTTAGT
* ** * *
9271584 GGCGTTTTTATACAAACGCCGCAATAGTACGAGT-CTTTAGC
1 GGCGTTTTTATACAAACGCCGCTATAG-ACTCGTGATTTAGT
* *
9271625 GGCGTTTGTT-TCAAAAATGCCGCTATAGACTCGTGATTTAGT
1 GGCGTTT-TTAT-ACAAACGCCGCTATAGACTCGTGATTTAGT
* *
9271667 GGTGTTTTTATACAAACGTCGCTATAGACTCGTGATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGATTTAGT
** * *
9271708 GGAATTTTTATACAAACGCTGCTATAGACTCATGATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGATTTAGT
*
9271749 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTGATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGATTTAGT
* * * * *
9271790 GGCATTTTTTTGCAAACGCCGCTAAAGAATCGTGATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGATTTAGT
9271831 GGCGTTTTTATACAAACGCCGCTATAGACTCGT-ACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGA-TTTAGT
* *
9271872 GACGTTTGTGTTTACAAACGCCGCTATAGACTCGTG
1 GGCGTTT-T-TATACAAACGCCGCTATAGACTCGTG
9271908 CTGCAATTGC
Statistics
Matches: 338, Mismatches: 54, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
40 59 0.17
41 216 0.64
42 39 0.12
43 24 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTATAGACTCGTGATTTAGT
Found at i:9273825 original size:66 final size:66
Alignment explanation
Indices: 9273755--9273880 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
9273745 GGATAGAAAA
* * *
9273755 TTTGATTCAATGTGAAGTTCCCTGCAAGTCTAGGTGAGGATGGTTTGCTGTTTATGATTGATGCA
1 TTTGATTCAATGTGAAGATCCCTGCAAGTCTAGATGAGGATGGTTTACTGTTTATGATTGATGCA
9273820 C
66 C
* * * *
9273821 TTTGATTCAATGTGAAGATCCTTTCAAGTCTAGATGAGGATGGTTTATTGTTTCTGATTG
1 TTTGATTCAATGTGAAGATCCCTGCAAGTCTAGATGAGGATGGTTTACTGTTTATGATTG
9273881 TTATTTAGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.40
Consensus pattern (66 bp):
TTTGATTCAATGTGAAGATCCCTGCAAGTCTAGATGAGGATGGTTTACTGTTTATGATTGATGCA
C
Found at i:9274855 original size:21 final size:21
Alignment explanation
Indices: 9274829--9274886 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
9274819 TGATTTATTA
9274829 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
9274850 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
9274871 TTAT-GATGTCAAGTTT
1 TTATGGATTTCAAGTTT
9274887 ATTGGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:9275062 original size:43 final size:42
Alignment explanation
Indices: 9274996--9275426 Score: 558
Period size: 43 Copynumber: 10.1 Consensus size: 42
9274986 TAAATACATA
* * *
9274996 GTTTGTATCCAAAAACACCGCTATAGATTTGACCTTTTACGGC
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* *
9275039 GTTTATATCCAAAAACGCCGCTATAGATCTGACCTTTTGTGGC
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* *
9275082 GTTTGTATCAAAAAACGCCGCTATAGATTTGACCTTTTGCGGC
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* *
9275125 GTTTGTATCAAAAAACGCCGCTACAGAT-TGACCTTTTGCGGC
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* * *
9275167 GTTTGTTCCAGAAACGCCACTATAGATCTGACCTTTTGAGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* * * *
9275209 GTTTATATCAAAAAACGCCGCTATAGATCTGACCTTTTACAGC
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
*
9275252 GTTTGTTCCAGAAACGCCGCTATAGATCTGACCTTTTGCGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* *
9275294 GTTTATTCCAAAAACGCCGCTATAGATCTCGACCTATTGCGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGC
* *
9275337 GTTTGTTCCAAAAACACCGCTATAGATACCGACCTTTTGCGGC
1 GTTTGTTCCAAAAACGCCGCTATAGAT-CTGACCTTTTGCGGC
* * **
9275380 GTTTGTTCCAAAAACGCTGCTATAGATAATGACCTTTTAAGGC
1 GTTTGTTCCAAAAACGCCGCTATAGAT-CTGACCTTTTGCGGC
9275423 GTTT
1 GTTT
9275427 TTTGTTCTCA
Statistics
Matches: 344, Mismatches: 40, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
41 17 0.05
42 97 0.28
43 229 0.67
44 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (42 bp):
GTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
Found at i:9275224 original size:127 final size:127
Alignment explanation
Indices: 9274996--9275426 Score: 587
Period size: 127 Copynumber: 3.4 Consensus size: 127
9274986 TAAATACATA
* *
9274996 GTTTGTATCCAAAAACACCGCTATAGATTTGACCTTTTACGGCGTTTATATCCAAAAACGCCGCT
1 GTTTGT-TCCAAAAACGCCGCTATAGATATGACCTTTTACGGCGTTTAT-TCCAAAAACGCCGCT
* *
9275061 ATAGATCTGACCTTTTGTGGCGTTTGTATCAAAAAACGCCGCTATAGATTTGACCTTTTGCGGC
64 ATAGATCTGACCTTTTGAGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* * * * * *
9275125 GTTTGTATCAAAAAACGCCGCTACAGAT-TGACCTTTTGCGGCGTTTGTTCCAGAAACGCCACTA
1 GTTTGT-TCCAAAAACGCCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACGCCGCTA
* * *
9275189 TAGATCTGACCTTTTGAGGCGTTTATATCAAAAAACGCCGCTATAGATCTGACCTTTTACAGC
65 TAGATCTGACCTTTTGAGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* * *
9275252 GTTTGTTCCAGAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTATTCCAAAAACGCCGCTAT
1 GTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACGCCGCTAT
* * * * *
9275317 AGATCTCGACCTATTGCGGCGTTTGT-TCCAAAAACACCGCTATAGATACCGACCTTTTGCGGC
66 AGATCT-GACCTTTTGAGGCGTTTGTATCAAAAAACGCCGCTATAGAT-CTGACCTTTTGCGGC
* *
9275380 GTTTGTTCCAAAAACGCTGCTATAGATAATGACCTTTTAAGGCGTTT
1 GTTTGTTCCAAAAACGCCGCTATAGAT-ATGACCTTTTACGGCGTTT
9275427 TTTGTTCTCA
Statistics
Matches: 267, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
126 18 0.07
127 137 0.51
128 71 0.27
129 41 0.15
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (127 bp):
GTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACGCCGCTAT
AGATCTGACCTTTTGAGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
Found at i:9275336 original size:170 final size:169
Alignment explanation
Indices: 9274996--9275426 Score: 582
Period size: 170 Copynumber: 2.5 Consensus size: 169
9274986 TAAATACATA
*
9274996 GTTTGTATCCAAAAACACCGCTATAGATTTGACCTTTT-ACGGCGTTTATATCCAAAAACGCCGC
1 GTTTGT-TCCAAAAACACCGCTATAGATCTGACCTTTTGA-GGCGTTTATATCCAAAAACGCCGC
** *
9275060 TATAGATCTGACCTTTTGTGGCGTTTGTATCAAAAAACGCCGCTATAGATTTGACCTTTTGCGGC
64 TATAGATCTGACCTTTT-AAGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGC
* *
9275125 GTTTGTATCAAAAAACGCCGCTACAGATTGACCTTTTGCGGC
128 GTTTATATCAAAAAACGCCGCTACAGATTGACCTATTGCGGC
* * * *
9275167 GTTTGTTCCAGAAACGCCACTATAGATCTGACCTTTTGAGGCGTTTATATCAAAAAACGCCGCTA
1 GTTTGTTCCAAAAACACCGCTATAGATCTGACCTTTTGAGGCGTTTATATCCAAAAACGCCGCTA
* *
9275232 TAGATCTGACCTTTTACAGCGTTTGT-TCCAGAAACGCCGCTATAGATCTGACCTTTTGCGGCGT
66 TAGATCTGACCTTTTA-AGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGT
* *
9275296 TTAT-TCCAAAAACGCCGCTATAGATCTCGACCTATTGCGGC
130 TTATATCAAAAAACGCCGCTACAGAT-T-GACCTATTGCGGC
* * * *
9275337 GTTTGTTCCAAAAACACCGCTATAGATACCGACCTTTTGCGGCGTTTGT-TCCAAAAACGCTGCT
1 GTTTGTTCCAAAAACACCGCTATAGAT-CTGACCTTTTGAGGCGTTTATATCCAAAAACGCCGCT
*
9275401 ATAGATAATGACCTTTTAAGGCGTTT
65 ATAGAT-CTGACCTTTTAA-GCGTTT
9275427 TTTGTTCTCA
Statistics
Matches: 230, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
168 19 0.08
169 39 0.17
170 131 0.57
171 41 0.18
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (169 bp):
GTTTGTTCCAAAAACACCGCTATAGATCTGACCTTTTGAGGCGTTTATATCCAAAAACGCCGCTA
TAGATCTGACCTTTTAAGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTT
TATATCAAAAAACGCCGCTACAGATTGACCTATTGCGGC
Found at i:9279965 original size:2 final size:2
Alignment explanation
Indices: 9279958--9279984 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9279948 ACTGGAATTA
9279958 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9279985 GGACTTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9301365 original size:32 final size:32
Alignment explanation
Indices: 9301315--9301394 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
9301305 TTTTTAAAAA
9301315 GGGATCGAT--CTTTTATTGGACAGAAACTTT
1 GGGATCGATCCCTTTTATTGGACAGAAACTTT
9301345 GGGATCGATCCCTTTTATTGGACAGAAACTTT
1 GGGATCGATCCCTTTTATTGGACAGAAACTTT
9301377 GGGATCGATCCCTTTTAT
1 GGGATCGATCCCTTTTAT
9301395 GGAAATGACT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 9 0.19
32 39 0.81
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (32 bp):
GGGATCGATCCCTTTTATTGGACAGAAACTTT
Found at i:9302373 original size:15 final size:15
Alignment explanation
Indices: 9302349--9302396 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9302339 GATTAATCAA
* *
9302349 GACCCAAAATTACCC
1 GACCCGAAATGACCC
*
9302364 GACCCGAAATGACTC
1 GACCCGAAATGACCC
* *
9302379 GACTCGAAATGACTC
1 GACCCGAAATGACCC
9302394 GAC
1 GAC
9302397 TCAAACCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (15 bp):
GACCCGAAATGACCC
Found at i:9302397 original size:15 final size:15
Alignment explanation
Indices: 9302363--9302398 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9302353 CAAAATTACC
*
9302363 CGACCCGAAATGACT
1 CGACTCGAAATGACT
9302378 CGACTCGAAATGACT
1 CGACTCGAAATGACT
9302393 CGACTC
1 CGACTC
9302399 AAACCCTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (15 bp):
CGACTCGAAATGACT
Found at i:9303054 original size:27 final size:27
Alignment explanation
Indices: 9303024--9303077 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9303014 GTAAAGTATA
9303024 GTATTAAAGTATATCTTAGGTAAGGGG
1 GTATTAAAGTATATCTTAGGTAAGGGG
9303051 GTATTAAAGTATATCTTAGGTAAGGGG
1 GTATTAAAGTATATCTTAGGTAAGGGG
9303078 CCTAACGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (27 bp):
GTATTAAAGTATATCTTAGGTAAGGGG
Found at i:9304741 original size:2 final size:2
Alignment explanation
Indices: 9304734--9304776 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9304724 CAATGGGGTT
9304734 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
9304776 T
1 T
9304777 TGTATTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9307632 original size:131 final size:131
Alignment explanation
Indices: 9307456--9307813 Score: 477
Period size: 131 Copynumber: 2.7 Consensus size: 131
9307446 AAGGGAGAAT
** * *
9307456 GATAATATCTAATTATTTATAATCGATAATAAATGACCTCTCATACCTTAAAGCAATCATTTATT
1 GATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATT
* * * *
9307521 ACTCTAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTTA-ATATCT-ATTCGAGTGAA
66 ACTCTAATCGAAATGAAGAAATATCACTATTTCATCTTAAAA-ATAGATAT-TAATTCGAGAGAA
9307584 AAC
129 AAC
* * * *
9307587 GATAATATCTAATGATTTCCAATCTAGAATAAATGACCTCTCATACCTTAAAGCAGTCGTTTATT
1 GATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATT
* * *
9307652 GCTCCAATCGAAATGAAGATATATCACTATTTCATCTTAAAAATAGATATTAATTCGAGAGAAAA
66 ACTCTAATCGAAATGAAGAAATATCACTATTTCATCTTAAAAATAGATATTAATTCGAGAGAAAA
9307717 C
131 C
* * * *
9307718 GACAATATCAAATTATTTCCAATCAAGAATAAATGACCTCTCATTCCTTAAAGCATTCATTTATT
1 GATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATT
* * * *
9307783 ACTCTGACCGAAATGAAAAAATATTACTATT
66 ACTCTAATCGAAATGAAGAAATATCACTATT
9307814 CTTAATATTG
Statistics
Matches: 198, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
130 3 0.02
131 195 0.98
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (131 bp):
GATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTCATACCTTAAAGCAATCATTTATT
ACTCTAATCGAAATGAAGAAATATCACTATTTCATCTTAAAAATAGATATTAATTCGAGAGAAAA
C
Found at i:9309862 original size:23 final size:23
Alignment explanation
Indices: 9309812--9309877 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
9309802 CCACATATAA
* * *
9309812 ATGTCCCGAATGACCACATAGAT
1 ATGTCCCAAAGGACCACGTAGAT
* *
9309835 ATGTCTCTAAGGACCACGTAGA-
1 ATGTCCCAAAGGACCACGTAGAT
*
9309857 ATTGTCCCAAAGGACCGCGTA
1 A-TGTCCCAAAGGACCACGTA
9309878 AAGCCTTTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
ATGTCCCAAAGGACCACGTAGAT
Found at i:9310006 original size:45 final size:45
Alignment explanation
Indices: 9309956--9310114 Score: 158
Period size: 45 Copynumber: 3.5 Consensus size: 45
9309946 TTTATACATT
*
9309956 TCACATTTTCATATATTCACGTAGTTCAGTATCACATAACGTATA
1 TCACATTTTCATATATTCACATAGTTCAGTATCACATAACGTATA
* * ** * *
9310001 TCACATTTTCACATAGTCACATAGACCA-TATCGCATAACTTATA
1 TCACATTTTCATATATTCACATAGTTCAGTATCACATAACGTATA
* * ****
9310045 TCACCTTTTTCATATATTCTCATAGTTCAGTATCACATGGTTTATA
1 TCA-CATTTTCATATATTCACATAGTTCAGTATCACATAACGTATA
* * *
9310091 TCACATGTTCACATAATCACATAG
1 TCACATTTTCATATATTCACATAG
9310115 ACATGTATAA
Statistics
Matches: 90, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
44 17 0.19
45 58 0.64
46 15 0.17
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (45 bp):
TCACATTTTCATATATTCACATAGTTCAGTATCACATAACGTATA
Found at i:9312944 original size:3 final size:3
Alignment explanation
Indices: 9312931--9313010 Score: 90
Period size: 3 Copynumber: 26.3 Consensus size: 3
9312921 AAAAATTATA
* * * * *
9312931 AAT ATT AAT AAT AAT ATT AGT AAT AAT AAT ATT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9312979 AAAT AAT AAT AAT AAT AAAT AAT -AT AAT AAT A
1 -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
9313011 GCGGGAAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.03
3 57 0.88
4 6 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:9317062 original size:46 final size:44
Alignment explanation
Indices: 9316996--9317111 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 44
9316986 TATTTAAAAA
* *
9316996 TTGGTAAAAAAA-AA--TTTAGGTTGCGC-CTAATATTAATATTTT
1 TTGGTAAAAAAATAATTTTTAGGTAGCGCTC-AATATTAACA-TTT
*
9317038 TTGGTAAAAAAATAATGTTTTAGGTAGCGTTCAATATTAACATTT
1 TTGGTAAAAAAATAAT-TTTTAGGTAGCGCTCAATATTAACATTT
** * *
9317083 TCAGTATAAAAATAATATTTTAGATAGCG
1 TTGGTAAAAAAATAAT-TTTTAGGTAGCG
9317112 TTTCACCGGA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 12 0.20
43 2 0.03
45 27 0.44
46 19 0.31
47 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.39
Consensus pattern (44 bp):
TTGGTAAAAAAATAATTTTTAGGTAGCGCTCAATATTAACATTT
Found at i:9317531 original size:186 final size:186
Alignment explanation
Indices: 9317217--9317587 Score: 742
Period size: 186 Copynumber: 2.0 Consensus size: 186
9317207 AACGGGATCG
9317217 GAATATATCATTGCACATCATTATGATATAAATTCAAACGATTTAAATTTATTGGTTATTTAACA
1 GAATATATCATTGCACATCATTATGATATAAATTCAAACGATTTAAATTTATTGGTTATTTAACA
9317282 CCTTCAATCCATCGATTATTTCAGATCAAATTGGGGTGTTATAATAAAGACCATATATGATGTTC
66 CCTTCAATCCATCGATTATTTCAGATCAAATTGGGGTGTTATAATAAAGACCATATATGATGTTC
9317347 TTGATGATTGTATTCTTCAAGGATCTTCTCTAGGGGTTGTTCGACCTTCAAATGAC
131 TTGATGATTGTATTCTTCAAGGATCTTCTCTAGGGGTTGTTCGACCTTCAAATGAC
9317403 GAATATATCATTGCACATCATTATGATATAAATTCAAACGATTTAAATTTATTGGTTATTTAACA
1 GAATATATCATTGCACATCATTATGATATAAATTCAAACGATTTAAATTTATTGGTTATTTAACA
9317468 CCTTCAATCCATCGATTATTTCAGATCAAATTGGGGTGTTATAATAAAGACCATATATGATGTTC
66 CCTTCAATCCATCGATTATTTCAGATCAAATTGGGGTGTTATAATAAAGACCATATATGATGTTC
9317533 TTGATGATTGTATTCTTCAAGGATCTTCTCTAGGGGTTGTTCGACCTTCAAATGA
131 TTGATGATTGTATTCTTCAAGGATCTTCTCTAGGGGTTGTTCGACCTTCAAATGA
9317588 GACTCGATCT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 185 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (186 bp):
GAATATATCATTGCACATCATTATGATATAAATTCAAACGATTTAAATTTATTGGTTATTTAACA
CCTTCAATCCATCGATTATTTCAGATCAAATTGGGGTGTTATAATAAAGACCATATATGATGTTC
TTGATGATTGTATTCTTCAAGGATCTTCTCTAGGGGTTGTTCGACCTTCAAATGAC
Found at i:9321760 original size:36 final size:36
Alignment explanation
Indices: 9321708--9322003 Score: 234
Period size: 36 Copynumber: 8.2 Consensus size: 36
9321698 ATTCAAATAT
*
9321708 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
9321744 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGAAAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC------AAAA
* * *
9321786 ATTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
9321822 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
9321859 TTTATTT-AATGTA-AAACATAT-TCAA-AG-G-----T
1 TTTGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAA
* * * *
9321888 TTTGTTTGAAGGGAAACTGTTTCACGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
9321924 TTTGTTTCAAGGGAAACTATCTCAATAGAGATAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
9321960 TTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
9321996 CTTTGTTT
1 -TTTGTTT
9322004 TGAGTAAATT
Statistics
Matches: 203, Mismatches: 36, Indels: 41
0.73 0.13 0.15
Matches are distributed among these distances:
28 2 0.01
29 14 0.07
30 4 0.02
31 1 0.00
34 1 0.00
35 3 0.01
36 108 0.53
37 37 0.18
42 33 0.16
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:9321792 original size:42 final size:42
Alignment explanation
Indices: 9321740--9321820 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
9321730 CAAGAGAGAC
* * *
9321740 AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGAA
1 AAAAATTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAGAA
9321782 AAAAATTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAA
1 AAAAATTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAA
9321821 ACTTAGTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (42 bp):
AAAAATTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAGAA
Found at i:9321817 original size:78 final size:79
Alignment explanation
Indices: 9321709--9321854 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 79
9321699 TTCAAATATT
** * * * *
9321709 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
9321773 GACAAAGAAAAAAA
66 GACAAAGAAAAAAA
*
9321787 TTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGA
1 TTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
9321852 GAC
66 GAC
9321855 GAAATTTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 32 0.53
79 28 0.47
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (79 bp):
TTGTTTCAAGAAAAAATGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
GACAAAGAAAAAAA
Found at i:9322985 original size:110 final size:106
Alignment explanation
Indices: 9322796--9322990 Score: 250
Period size: 110 Copynumber: 1.8 Consensus size: 106
9322786 CCTTGACTTG
* *
9322796 AATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAGCCAACC
1 AATATCCTTCGTCGTGAAGTTGAAATTGACTCTGAAACTGGAAAATTGTTTGTTGACAGCCAACC
9322861 ACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCGTGAGTCT
66 ACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCGTGAGTCT
*
9322902 AATATCGTTCG-CTGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTTGTTTGTTGACAG
1 AATATCCTTCGTC-GTGAAGTTGAAATTGACTC----TGAAACTGGAAAA-TTGTTTGTTGACAG
* ** * *
9322965 TCAGTCGCCTCTTCGCTGTGAAGTTG
60 CCAACCACCCCTTCGCTGTGAAGTTG
9322991 GACAACCACC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
105 1 0.01
106 28 0.37
109 4 0.05
110 42 0.56
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AATATCCTTCGTCGTGAAGTTGAAATTGACTCTGAAACTGGAAAATTGTTTGTTGACAGCCAACC
ACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCGTGAGTCT
Found at i:9327986 original size:9 final size:9
Alignment explanation
Indices: 9327974--9328003 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9327964 GAAAGAAAAG
9327974 AAAAAAATT
1 AAAAAAATT
9327983 -AAAAAATT
1 AAAAAAATT
9327991 AAAAAAATT
1 AAAAAAATT
9328000 AAAA
1 AAAA
9328004 TAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAAATT
Found at i:9329729 original size:2 final size:2
Alignment explanation
Indices: 9329722--9329747 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9329712 ACAGAACTAA
9329722 AT 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
9329748 TTAAAGGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9330277 original size:8 final size:8
Alignment explanation
Indices: 9330264--9330296 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9330254 ATAATAATAT
9330264 TATTAAAA
1 TATTAAAA
9330272 TATTAAAA
1 TATTAAAA
*
9330280 -ATTATAA
1 TATTAAAA
9330287 TATTAAAA
1 TATTAAAA
9330295 TA
1 TA
9330297 AGACTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATTAAAA
Found at i:9330288 original size:15 final size:15
Alignment explanation
Indices: 9330265--9330294 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9330255 TAATAATATT
9330265 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
*
9330280 ATTATAATATTAAAA
1 ATTAAAATATTAAAA
9330295 TAAGACTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:9330294 original size:23 final size:24
Alignment explanation
Indices: 9330248--9330296 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
9330238 ATATTATATT
*
9330248 TATTAAATAATAATATTATTAAAA
1 TATTAAATAATAATAATATTAAAA
*
9330272 TATTAAA-AATTATAATATTAAAA
1 TATTAAATAATAATAATATTAAAA
9330295 TA
1 TA
9330297 AGACTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TATTAAATAATAATAATATTAAAA
Found at i:9330824 original size:31 final size:31
Alignment explanation
Indices: 9330775--9330833 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9330765 TAATTCTAAA
9330775 TTTAACCACTAAATTTTAAATAAAATATTAG
1 TTTAACCACTAAATTTTAAATAAAATATTAG
*
9330806 TTTAACCCCTAACA-TTTAAATAAAATAT
1 TTTAACCACTAA-ATTTTAAATAAAATAT
9330834 CAAATTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (31 bp):
TTTAACCACTAAATTTTAAATAAAATATTAG
Found at i:9331329 original size:30 final size:30
Alignment explanation
Indices: 9331295--9331352 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
9331285 TGATAACAAA
9331295 AAACGCCGCAATAGGTGTTGAGATTTAGAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGAC
9331325 AAACGCCGCAATAGGTGTTGAGATTTAG
1 AAACGCCGCAATAGGTGTTGAGATTTAG
9331353 CGGCGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (30 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGAC
Found at i:9331384 original size:43 final size:43
Alignment explanation
Indices: 9331323--9331421 Score: 171
Period size: 43 Copynumber: 2.3 Consensus size: 43
9331313 TGAGATTTAG
* *
9331323 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCTC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTCCCC
*
9331366 ACAAATGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTCCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTCCCC
9331409 ACAAACGCCGCAA
1 ACAAACGCCGCAA
9331422 AATACGTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTCCCC
Found at i:9331576 original size:44 final size:44
Alignment explanation
Indices: 9331482--9331575 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 44
9331472 TATTTTACGA
* * * * *
9331482 CGTTTTTAGGATACAAACGCCGCAAAATGTCTGGTATATTGCTG
1 CGTTTTTAGGATACAAACGCCACAAAAGGTATGGTATATAGCGG
9331526 CGTTTTTAGGATACAAACGCCAC-AAAGGTATGGTATATAGCGG
1 CGTTTTTAGGATACAAACGCCACAAAAGGTATGGTATATAGCGG
*
9331569 CATTTTT
1 CGTTTTT
9331576 TGTTACAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 22 0.50
44 22 0.50
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
CGTTTTTAGGATACAAACGCCACAAAAGGTATGGTATATAGCGG
Found at i:9331937 original size:21 final size:21
Alignment explanation
Indices: 9331912--9331970 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9331902 TGCTGATATG
**
9331912 CTGCTTCTCTCTGTGCTGTCA
1 CTGCTTCTCTCTGTGCTACCA
* * * *
9331933 CTGCTTCGCTCTATGTTACCG
1 CTGCTTCTCTCTGTGCTACCA
9331954 CTGCTTCTCTCTGTGCT
1 CTGCTTCTCTCTGTGCT
9331971 TCCGTTGTTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.05, C:0.34, G:0.19, T:0.42
Consensus pattern (21 bp):
CTGCTTCTCTCTGTGCTACCA
Found at i:9341421 original size:22 final size:22
Alignment explanation
Indices: 9341396--9341437 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9341386 TTTCAAAAGT
9341396 TATTATTTTCCTATTCGAAAAC
1 TATTATTTTCCTATTCGAAAAC
*
9341418 TATTATTTTTCTATTCGAAA
1 TATTATTTTCCTATTCGAAA
9341438 GTAGAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (22 bp):
TATTATTTTCCTATTCGAAAAC
Found at i:9342009 original size:83 final size:83
Alignment explanation
Indices: 9341907--9342213 Score: 224
Period size: 83 Copynumber: 3.7 Consensus size: 83
9341897 CTAAAAATAA
* * ** *
9341907 CACTATAAACAACAATATTGTGGCGTTTGTAGGATAAACG-TCGCTACGTTACTACTCTATAGCG
1 CACTATAAATAACAATATTGCGGCGTTTGTAGGATAAACGCT-GCTAAATTACTACTCTATAGCA
* *
9341971 GCGTTTTTTGCATAAACGC
65 GCGTTTGTTGCACAAACGC
* * ** * *
9341990 CACTATAAATGACACTATTGCGGCGTTTGTTTGATAAACGCTGCTAAATTACTATTCTATAGCAT
1 CACTATAAATAACAATATTGCGGCGTTTGTAGGATAAACGCTGCTAAATTACTACTCTATAGCAG
* *
9342055 TGTTTGTTGGACAAACGC
66 CGTTTGTTGCACAAACGC
** * * * * * * * * * **
9342073 CACTATAAATAACCCTGTTGCGACATTTTTA-TAAAAACGCCGCTAAATTACTACTCTTTTGTGG
1 CACTATAAATAACAATATTGCGGCGTTTGTAGGATAAACGCTGCTAAATTACTACTCTATAGCAG
* *
9342137 CGTTTGTT-AAAAAACGC
66 CGTTTGTTGCACAAACGC
* ** * * *** * *
9342154 CACTATAAAGAACTCTATTCCAGCGTTTGTTCTATAAACGCCGCTAAATTACCACTCTAT
1 CACTATAAATAACAATATTGCGGCGTTTGTAGGATAAACGCTGCTAAATTACTACTCTAT
9342214 TGCGGCATTT
Statistics
Matches: 176, Mismatches: 46, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
81 29 0.16
82 56 0.32
83 90 0.51
84 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (83 bp):
CACTATAAATAACAATATTGCGGCGTTTGTAGGATAAACGCTGCTAAATTACTACTCTATAGCAG
CGTTTGTTGCACAAACGC
Found at i:9342142 original size:82 final size:83
Alignment explanation
Indices: 9341955--9342247 Score: 227
Period size: 82 Copynumber: 3.5 Consensus size: 83
9341945 CGTCGCTACG
* * * * * * * * *
9341955 TTACTACTCTATAGCGGCGTTTTTTGCATAAACGCCACTATAAATG-ACACTATTGCGGCGTTTG
1 TTACCACTCTATTGCGGCGTTTGTTGGAAAAACGCCACTATAAA-GAACCCTATTCCAGCATTTG
* *
9342019 TT-TGATAAACGCTGCTAAA
65 TTAT-AAAAACGCCGCTAAA
* * * *** * * * *
9342038 TTACTATTCTATAGCATTGTTTGTTGGACAAACGCCACTATAAATAACCCTGTTGC-GACATTT-
1 TTACCACTCTATTGCGGCGTTTGTTGGAAAAACGCCACTATAAAGAACCCTATTCCAG-CATTTG
9342101 TTATAAAAACGCCGCTAAA
65 TTATAAAAACGCCGCTAAA
* * * * * *
9342120 TTACTACTCTTTTGTGGCGTTTGTT-AAAAAACGCCACTATAAAGAACTCTATTCCAGCGTTTGT
1 TTACCACTCTATTGCGGCGTTTGTTGGAAAAACGCCACTATAAAGAACCCTATTCCAGCATTTGT
* *
9342184 TCTATAAACGCCGCTAAA
66 TATAAAAACGCCGCTAAA
* * *
9342202 TTACCACTCTATTGCGGCATTTTTTGGAAAAACGCCGCTATTAAAG
1 TTACCACTCTATTGCGGCGTTTGTTGGAAAAACGCCACTA-TAAAG
9342248 TATCATTTTG
Statistics
Matches: 167, Mismatches: 36, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
81 28 0.17
82 72 0.43
83 62 0.37
84 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (83 bp):
TTACCACTCTATTGCGGCGTTTGTTGGAAAAACGCCACTATAAAGAACCCTATTCCAGCATTTGT
TATAAAAACGCCGCTAAA
Found at i:9343175 original size:30 final size:30
Alignment explanation
Indices: 9343105--9343208 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 30
9343095 AACGAATCAT
*
9343105 GAGTTAAATTGATATTTTATATAAAAATTA
1 GAGTTAAATTAATATTTTATATAAAAATTA
* * *
9343135 AAGATTAAATTAATATTTTATCT-AAAGTTA
1 GAG-TTAAATTAATATTTTATATAAAAATTA
* *
9343165 CGAGTTAAATTAATATTTTATTTAAAATTTAA
1 -GAGTTAAATTAATATTTTATATAAAAATT-A
9343197 GAGTTAAATTAA
1 GAGTTAAATTAA
9343209 AAATTAATCA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
30 26 0.41
31 36 0.57
32 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (30 bp):
GAGTTAAATTAATATTTTATATAAAAATTA
Found at i:9348026 original size:2 final size:2
Alignment explanation
Indices: 9348019--9348060 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9348009 AATGTTATGA
9348019 AT AT AT AT AT AT AT AT AT 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
9348061 GAAGTTTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9351382 original size:16 final size:17
Alignment explanation
Indices: 9351361--9351396 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
9351351 TTACTATTCA
*
9351361 TGTGAATAGTGAA-TTT
1 TGTGAATAGTAAAGTTT
9351377 TGTGAATAGTAAAGTTT
1 TGTGAATAGTAAAGTTT
9351394 TGT
1 TGT
9351397 CGGCGATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (17 bp):
TGTGAATAGTAAAGTTT
Found at i:9358122 original size:32 final size:31
Alignment explanation
Indices: 9358085--9358161 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
9358075 TCAAAAAACA
* *
9358085 TAAGATATGATCA-TTACTCGTTTTTATTTAAT
1 TAAGATATGATCACTT--TCATGTTTATTTAAT
9358117 TAAGATAT-AGTCACTTTCATGTTTATTTAAT
1 TAAGATATGA-TCACTTTCATGTTTATTTAAT
9358148 TAAGATATGATCAC
1 TAAGATATGATCAC
9358162 CCGAGTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 26 0.65
32 12 0.30
33 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (31 bp):
TAAGATATGATCACTTTCATGTTTATTTAAT
Found at i:9358727 original size:11 final size:11
Alignment explanation
Indices: 9358667--9358729 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
9358657 AAAATTACAT
9358667 TATTAAAAATA
1 TATTAAAAATA
*
9358678 TTTTAAAAATA
1 TATTAAAAATA
* * **
9358689 CACTACTAATA
1 TATTAAAAATA
9358700 -ATTATAAAAT-
1 TATTA-AAAATA
9358710 T-TTAAAAATA
1 TATTAAAAATA
9358720 TATTAAAAAT
1 TATTAAAAAT
9358730 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:9359247 original size:14 final size:14
Alignment explanation
Indices: 9359228--9359264 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9359218 CTTTGTAATG
*
9359228 AACCCTAAATCTTA
1 AACCCTAAACCTTA
9359242 AACCCTAAACCTTA
1 AACCCTAAACCTTA
*
9359256 AATCCTAAA
1 AACCCTAAA
9359265 GCATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCCTAAACCTTA
Found at i:9359579 original size:14 final size:14
Alignment explanation
Indices: 9359556--9359593 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9359546 CATTACTAAA
9359556 AAAATGAATAAATT
1 AAAATGAATAAATT
* *
9359570 AAAATAAATAATTT
1 AAAATGAATAAATT
9359584 AAAATGAATA
1 AAAATGAATA
9359594 CTACCGCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
AAAATGAATAAATT
Found at i:9359765 original size:20 final size:20
Alignment explanation
Indices: 9359729--9359771 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9359719 AGAACGATTA
*
9359729 ATAAAATATATAAATTTAAT
1 ATAAAAAATATAAATTTAAT
*
9359749 ATAAAAAAT-TAATATTTGAT
1 ATAAAAAATATAA-ATTTAAT
9359769 ATA
1 ATA
9359772 TCTAGTACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAAAAATATAAATTTAAT
Found at i:9360766 original size:25 final size:23
Alignment explanation
Indices: 9360721--9360766 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
9360711 ATTAATTTAA
* *
9360721 AAATATTTTTATATTATCTTATT
1 AAATATTTTTATAGTAACTTATT
9360744 AAATATATTTTATTAGTAACTTA
1 AAATAT-TTTTA-TAGTAACTTA
9360767 ATTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 5 0.26
25 8 0.42
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
AAATATTTTTATAGTAACTTATT
Found at i:9360800 original size:25 final size:25
Alignment explanation
Indices: 9360764--9360821 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
9360754 TATTAGTAAC
**
9360764 TTAATTTAAAAATATATTTTTTATT
1 TTAATTTAAAAATATATAATTTATT
*
9360789 TTCATTTAAAAATATATAATTTATT
1 TTAATTTAAAAATATATAATTTATT
9360814 TTAATTTA
1 TTAATTTA
9360822 TTAAAAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTTAAAAATATATAATTTATT
Found at i:9362872 original size:14 final size:14
Alignment explanation
Indices: 9362846--9362893 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
9362836 GATTGGGCTA
*
9362846 AACATAAATGAACG
1 AACATAAACGAACG
* *
9362860 CACTTAAACGAACG
1 AACATAAACGAACG
*
9362874 AACATAAACGAACA
1 AACATAAACGAACG
9362888 AACATA
1 AACATA
9362894 TTACTAAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.12
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:9373080 original size:24 final size:25
Alignment explanation
Indices: 9373020--9373080 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
9373010 ATTTAATATT
* *
9373020 AAATCTATTTATTTTGATTTATTTTA
1 AAAT-TATATATTTTAATTTATTTTA
*
9373046 ATATT-TAATATTTTAATTT-TTTTA
1 AAATTAT-ATATTTTAATTTATTTTA
9373070 AAATTATATAT
1 AAATTATATAT
9373081 AATGTTTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 14 0.48
25 12 0.41
26 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
AAATTATATATTTTAATTTATTTTA
Found at i:9377874 original size:20 final size:19
Alignment explanation
Indices: 9377832--9377874 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
9377822 AAAATAGCCA
* *
9377832 AATTTCACATTCTAATATC
1 AATTTCACACTCTAACATC
*
9377851 AATTTCAACACTCTAACATT
1 AATTTC-ACACTCTAACATC
9377871 AATT
1 AATT
9377875 CCAGCATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTCACACTCTAACATC
Found at i:9381357 original size:18 final size:18
Alignment explanation
Indices: 9381336--9381376 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9381326 CGACCCATTT
*
9381336 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACACG
*
9381354 ACCCGACCTGTTGACACG
1 ACCCGACCCGTTGACACG
9381372 ACCCG
1 ACCCG
9381377 TTGACCGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.46, G:0.22, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACACG
Found at i:9381358 original size:13 final size:13
Alignment explanation
Indices: 9381323--9381358 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9381313 ACCGGTTATA
* *
9381323 ACCCGACCCATTT
1 ACCCGACCCGTTG
9381336 ACCCGACCCGTTG
1 ACCCGACCCGTTG
9381349 ACCCGACCCG
1 ACCCGACCCG
9381359 ACCTGTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.19, C:0.50, G:0.17, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:9381358 original size:31 final size:31
Alignment explanation
Indices: 9381323--9381382 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
9381313 ACCGGTTATA
* *
9381323 ACCCGACCCATTTACCCGACCCGTTGACCCG
1 ACCCGACCCATTGACACGACCCGTTGACCCG
**
9381354 ACCCGACCTGTTGACACGACCCGTTGACC
1 ACCCGACCCATTGACACGACCCGTTGACC
9381383 GCTGACCGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.17
Consensus pattern (31 bp):
ACCCGACCCATTGACACGACCCGTTGACCCG
Found at i:9383995 original size:24 final size:24
Alignment explanation
Indices: 9383873--9383988 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
9383863 TTCGATTTGA
* *
9383873 ATTCTGATATGATACTTGACATAG
1 ATTCTGATCTGATACTTGACATGG
9383897 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
9383921 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
9383945 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
9383968 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
9383989 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:9385055 original size:24 final size:24
Alignment explanation
Indices: 9385009--9385056 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9384999 TTGACGTCAA
* *
9385009 GTGGTGATGATGATGTCGGTGGTG
1 GTGGTGATGATGATATCGATGGTG
9385033 GTGGTGATGATGATCAT-GATGGTG
1 GTGGTGATGATGAT-ATCGATGGTG
9385057 ATAATGAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.17, C:0.04, G:0.46, T:0.33
Consensus pattern (24 bp):
GTGGTGATGATGATATCGATGGTG
Found at i:9386660 original size:14 final size:14
Alignment explanation
Indices: 9386641--9386667 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9386631 ATACTAAAAA
9386641 ATATTTAAATTATT
1 ATATTTAAATTATT
9386655 ATATTTAAATTAT
1 ATATTTAAATTAT
9386668 ATGATAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTTAAATTATT
Found at i:9392397 original size:3 final size:3
Alignment explanation
Indices: 9392389--9392462 Score: 67
Period size: 3 Copynumber: 24.7 Consensus size: 3
9392379 TTTTTACCCA
* * * * *
9392389 TAT TAT TAT TAT TAT AAT TAT AAT TAT CAT TAT TAT AAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
9392437 AAT AAT AAT AAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
9392463 AATACATTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (3 bp):
TAT
Found at i:9393014 original size:15 final size:15
Alignment explanation
Indices: 9392994--9393035 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
9392984 ACCATTCAGC
9392994 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
9393009 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
9393024 AAAGAAGAGAAA
1 AAAGAAAAGAAA
9393036 CTTACTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:9393019 original size:20 final size:20
Alignment explanation
Indices: 9392994--9393035 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9392984 ACCATTCAGC
*
9392994 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
9393014 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
9393034 AA
1 AA
9393036 CTTACTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:9393904 original size:13 final size:13
Alignment explanation
Indices: 9393888--9393934 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
9393878 ATATAATAAA
9393888 TAAATATTTATTT
1 TAAATATTTATTT
*
9393901 TAAATAAATTATTT
1 TAAAT-ATTTATTT
9393915 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
9393928 TCAATAT
1 TAAATAT
9393935 CAAAGAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:9394672 original size:13 final size:15
Alignment explanation
Indices: 9394641--9394677 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
9394631 ATTTATGTTT
9394641 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
9394656 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
9394669 TA-TTTATTT
1 TATTTTATTT
9394678 TTCTGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:9405312 original size:9 final size:9
Alignment explanation
Indices: 9405300--9405390 Score: 68
Period size: 9 Copynumber: 10.3 Consensus size: 9
9405290 GAAAAAATAA
9405300 AAAAGAAAG
1 AAAAGAAAG
9405309 AAAAGAAAG
1 AAAAGAAAG
*
9405318 AAAATAGAA-
1 AAAAGA-AAG
9405327 AAAAGAAAG
1 AAAAGAAAG
9405336 AAAAGAAA-
1 AAAAGAAAG
*
9405344 AAAA-ATAG
1 AAAAGAAAG
*
9405352 AAAA-AATAA
1 AAAAGAA-AG
9405361 AAAAGAGAA-
1 AAAAGA-AAG
*
9405370 AAAAAAAAG
1 AAAAGAAAG
9405379 AAGAA-AAAG
1 AA-AAGAAAG
9405388 AAA
1 AAA
9405391 GGGGGTCAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
7 2 0.03
8 14 0.21
9 45 0.66
10 6 0.09
11 1 0.01
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:9405328 original size:27 final size:27
Alignment explanation
Indices: 9405291--9405391 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
9405281 ATGCTTGAAG
* *
9405291 AAAAAATAAAAAAGAAAGAAAAGAAAG
1 AAAAAAGAAAAAAGAAAGAAAAGAAAA
*
9405318 AAAATAGAAAAAAGAAAGAAAAGAAAA
1 AAAAAAGAAAAAAGAAAGAAAAGAAAA
* *
9405345 AAAATAGAAAAAATAAA-AAAGAGAAAA
1 AAAAAAGAAAAAAGAAAGAAA-AGAAAA
9405372 AAAAAAGAAGAAAAAGAAAG
1 AAAAAAG-A-AAAAAGAAAG
9405392 GGGGTCAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.05
27 52 0.81
28 1 0.02
29 8 0.12
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (27 bp):
AAAAAAGAAAAAAGAAAGAAAAGAAAA
Found at i:9405362 original size:16 final size:14
Alignment explanation
Indices: 9405288--9405386 Score: 83
Period size: 16 Copynumber: 6.6 Consensus size: 14
9405278 ATTATGCTTG
*
9405288 AAGAAAAAATAAAA
1 AAGAAAAAAAAAAA
9405302 AAGAAAGAAAAGAAAGA
1 AAGAAA-AAAA-AAA-A
* *
9405319 AA-ATAGAAAAAAGA
1 AAGA-AAAAAAAAAA
9405333 AAGAAAAGAAAAAAA
1 AAGAAAA-AAAAAAA
9405348 ATAGAAAAAATAAAAA
1 A-AGAAAAAA-AAAAA
*
9405364 AGAGAAAAAAAAAAG
1 A-AGAAAAAAAAAAA
9405379 AAGAAAAA
1 AAGAAAAA
9405387 GAAAGGGGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.26
15 20 0.29
16 28 0.40
17 4 0.06
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (14 bp):
AAGAAAAAAAAAAA
Found at i:9405993 original size:12 final size:12
Alignment explanation
Indices: 9405978--9406002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9405968 CATCGATTCC
9405978 AGCAAAAAAAAA
1 AGCAAAAAAAAA
9405990 AGCAAAAAAAAA
1 AGCAAAAAAAAA
9406002 A
1 A
9406003 AAAAGAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AGCAAAAAAAAA
Found at i:9406635 original size:83 final size:83
Alignment explanation
Indices: 9406496--9406757 Score: 427
Period size: 83 Copynumber: 3.2 Consensus size: 83
9406486 GAACAAATGT
9406496 AATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
*
9406560 TCATTGCATTTGGAAGATG
65 TCATTGAATTTGGAAGATG
* * * * *
9406579 AATGTGCTCATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
*
9406644 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
* *
9406662 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
9406727 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
9406745 AATTTGCTCATAG
1 AATTTGCTCATAG
9406758 GAGAAATAAG
Statistics
Matches: 162, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
83 161 0.99
84 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:9406896 original size:79 final size:79
Alignment explanation
Indices: 9406765--9407008 Score: 371
Period size: 79 Copynumber: 3.0 Consensus size: 79
9406755 TAGGAGAAAT
*
9406765 AAGGAAACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCA
1 AAGGAAACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCA
*
9406830 ATCATTGCATTTGG
66 ATCATTGAATTTGG
* * *
9406844 AAGGAAACTCAATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCA
1 AAGGAAACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCA
*
9406909 ATCATTGAATTTAG
66 ATCATTGAATTTGG
** *
9406923 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGA
1 AAG--GAAACT-C-AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
9406988 ATCAATCATTGAATTTGG
62 ATCAATCATTGAATTTGG
9407006 AAG
1 AAG
9407009 ATGAATTTGC
Statistics
Matches: 148, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
79 76 0.51
81 4 0.03
82 1 0.01
83 67 0.45
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (79 bp):
AAGGAAACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCA
ATCATTGAATTTGG
Found at i:9406915 original size:184 final size:187
Alignment explanation
Indices: 9406588--9406941 Score: 543
Period size: 184 Copynumber: 1.9 Consensus size: 187
9406578 GAATGTGCTC
*
9406588 ATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAATCATTGAATT
1 ATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
** * * * *
9406653 TAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAC
66 TAGAAGA-GAAACTGCTAATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
9406718 AGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGGAGAAATAAGGAAACTCA
130 AGAACCAATCATTGAATTTAGAAGATGAATTTGCTAATAGGAGAAATAAGGAAACTCA
* * * *
9406776 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCATT
1 ATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
*
9406841 TGGAAG-GAAACT-C-AATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACA
66 TAGAAGAGAAACTGCTAATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACA
*
9406903 GAATCAATCATTGAATTTAGAAGATGAATTTGCTAATAG
131 GAACCAATCATTGAATTTAGAAGATGAATTTGCTAATAG
9406942 CATCTTCTGG
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
184 81 0.54
185 1 0.01
186 4 0.03
188 65 0.43
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (187 bp):
ATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
TAGAAGAGAAACTGCTAATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACA
GAACCAATCATTGAATTTAGAAGATGAATTTGCTAATAGGAGAAATAAGGAAACTCA
Found at i:9406991 original size:83 final size:83
Alignment explanation
Indices: 9406775--9407024 Score: 382
Period size: 83 Copynumber: 3.1 Consensus size: 83
9406765 AAGGAAACTC
* *
9406775 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAATCATTGAAT
**
9406840 TTGGAAG--GAAACT-C-
66 TTGGAAGATGAATTTGCT
* * *
9406854 AATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAATCATTGAAT
*
9406919 TTAGAAGATGAATTTGCT
66 TTGGAAGATGAATTTGCT
*
9406937 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAATCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAATCATTGAAT
9407002 TTGGAAGATGAATTTGCT
66 TTGGAAGATGAATTTGCT
*
9407020 CATAG
1 AATAG
9407025 TAGAAATAAG
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
79 66 0.43
81 4 0.03
82 1 0.01
83 82 0.54
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (83 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCAATCATTGAAT
TTGGAAGATGAATTTGCT
Found at i:9406996 original size:267 final size:268
Alignment explanation
Indices: 9406503--9407081 Score: 1063
Period size: 267 Copynumber: 2.2 Consensus size: 268
9406493 TGTAATTTGC
9406503 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCA
*
9406568 TTTGGAAGATGAATGTGCTCATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGG
66 TTTGGAAGA-GAA--TACTCATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGG
9406633 ACAGAATCAATCATTGAATTTAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGA
128 ACAGAATCAATCATTGAATTTAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGA
*
9406698 GTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGGAGAA
193 GTTATCTGATCTGGTTGGACAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGGAGAA
9406763 ATAAGGAAACT
258 ATAAGGAAACT
9406774 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCA
9406839 TTTGGAAG-GAA-ACTCAATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGAC
66 TTTGGAAGAGAATACTC-ATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGAC
9406902 AGAATCAATCATTGAATTTAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGT
130 AGAATCAATCATTGAATTTAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGT
* * *
9406967 TATCTGATCTGGTTGGATAGAATCAATCATTGAATTTGGAAGATGAATTTGCTCATAGTAGAAAT
195 TATCTGATCTGGTTGGACAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGGAGAAAT
9407032 AAGGAAACT
260 AAGGAAACT
9407041 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
9407082 AGTGGTAGGA
Statistics
Matches: 302, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
266 3 0.01
267 223 0.74
269 3 0.01
271 73 0.24
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (268 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGCA
TTTGGAAGAGAATACTCATAGCATCTGCTAGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACA
GAATCAATCATTGAATTTAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTGGACAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCATAGGAGAAATA
AGGAAACT
Found at i:9408011 original size:113 final size:113
Alignment explanation
Indices: 9407813--9408381 Score: 998
Period size: 113 Copynumber: 5.0 Consensus size: 113
9407803 AGTCAAATCT
9407813 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
9407878 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
9407926 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
9407991 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
9408039 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
9408104 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
*
9408152 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
9408217 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
* * *
9408265 ATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * *
9408329 GAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCAT-AATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
9408376 TATCAC
1 -ATCAC
9408382 AGAAGGAGAT
Statistics
Matches: 441, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
111 5 0.01
112 76 0.17
113 360 0.82
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (113 bp):
ATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
Found at i:9408692 original size:3 final size:3
Alignment explanation
Indices: 9408684--9408754 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
9408674 TTTTTACCCA
* * * * *
9408684 TAT TAT TAT TAT TAT AAT TAT AAT TAT CAT TAT TAT AAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9408732 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
9408755 AATACATTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9409307 original size:15 final size:15
Alignment explanation
Indices: 9409287--9409328 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
9409277 ACCATTCAGC
9409287 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
9409302 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
9409317 AAAGAAGAGAAA
1 AAAGAAAAGAAA
9409329 CTTACTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:9409312 original size:20 final size:20
Alignment explanation
Indices: 9409287--9409328 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9409277 ACCATTCAGC
*
9409287 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
9409307 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
9409327 AA
1 AA
9409329 CTTACTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:9411849 original size:23 final size:23
Alignment explanation
Indices: 9411817--9411869 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
9411807 TCCCGAATGA
9411817 CCACATAGGTTTGCACCAAAGTG
1 CCACATAGGTTTGCACCAAAGTG
* *
9411840 CTACATAGGTTTGCACCGAAGTG
1 CCACATAGGTTTGCACCAAAGTG
9411863 CCACATA
1 CCACATA
9411870 TTTGTCCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CCACATAGGTTTGCACCAAAGTG
Found at i:9411887 original size:21 final size:21
Alignment explanation
Indices: 9411863--9411912 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
9411853 CACCGAAGTG
* *
9411863 CCACATATTTGTCCCCAAGGA
1 CCACATAATTATCCCCAAGGA
* *
9411884 CCACATAATTATCCCGAATGA
1 CCACATAATTATCCCCAAGGA
9411905 CCACATAA
1 CCACATAA
9411913 AACCCTCGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.10, T:0.22
Consensus pattern (21 bp):
CCACATAATTATCCCCAAGGA
Found at i:9412500 original size:19 final size:20
Alignment explanation
Indices: 9412452--9412503 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
9412442 TATCCCTCCA
*
9412452 GTACCGATACTTCTCTTCAAGG
1 GTACCGATAC--CTCCTCAAGG
*
9412474 GTATCGATACCTCCTCAA-G
1 GTACCGATACCTCCTCAAGG
9412493 GTACCGATACC
1 GTACCGATACC
9412504 AATCTAGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 7 0.26
22 9 0.33
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (20 bp):
GTACCGATACCTCCTCAAGG
Found at i:9425827 original size:33 final size:33
Alignment explanation
Indices: 9425785--9425850 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
9425775 TTTAAAAAGT
9425785 TTTCAATCTAGATAATGGATCGGACCGATCTAA
1 TTTCAATCTAGATAATGGATCGGACCGATCTAA
9425818 TTTCAATCTAGATAATGGATCGGACCGATCTAA
1 TTTCAATCTAGATAATGGATCGGACCGATCTAA
9425851 GGAGATACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (33 bp):
TTTCAATCTAGATAATGGATCGGACCGATCTAA
Found at i:9428308 original size:2 final size:2
Alignment explanation
Indices: 9428301--9428348 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
9428291 GAAGTAATCT
9428301 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9428343 TC TC TC
1 TC TC TC
9428349 AAACTAGTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9441334 original size:44 final size:44
Alignment explanation
Indices: 9441280--9441367 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
9441270 CTGCATATGA
9441280 ACCACTAGTAATTGGCTGTTTTCTAGAAGGTTGACTATGATGGT
1 ACCACTAGTAATTGGCTGTTTTCTAGAAGGTTGACTATGATGGT
*
9441324 ACCACTAGTAATTGGCTGTTTTCTGGAAGGTTGACTATGATGGT
1 ACCACTAGTAATTGGCTGTTTTCTAGAAGGTTGACTATGATGGT
9441368 CTGTTTTACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (44 bp):
ACCACTAGTAATTGGCTGTTTTCTAGAAGGTTGACTATGATGGT
Found at i:9446315 original size:21 final size:20
Alignment explanation
Indices: 9446289--9446342 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
9446279 TCCCATAGTG
* *
9446289 AAAGGATCGATCCCTTTGACT
1 AAAGGATCGATCCCCTTGA-A
9446310 AAAGGATCGATCCCCTTGAA
1 AAAGGATCGATCCCCTTGAA
*
9446330 AAATGATCGATCC
1 AAAGGATCGATCC
9446343 ATTGGACAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
AAAGGATCGATCCCCTTGAA
Found at i:9446339 original size:20 final size:20
Alignment explanation
Indices: 9446273--9446346 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
9446263 TGGCTCAAAT
* **
9446273 GATCGATCCCATAGTGAAAG
1 GATCGATCCCATTGAAAAAG
* *
9446293 GATCGATCCCTTTGACTAAAG
1 GATCGATCCCATTGA-AAAAG
* *
9446314 GATCGATCCCCTTGAAAAAT
1 GATCGATCCCATTGAAAAAG
9446334 GATCGAT-CCATTG
1 GATCGATCCCATTG
9446347 GACAACAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 5 0.11
20 22 0.49
21 18 0.40
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (20 bp):
GATCGATCCCATTGAAAAAG
Found at i:9449170 original size:20 final size:21
Alignment explanation
Indices: 9449131--9449184 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
9449121 AGTGAGTTTG
9449131 GGATCGATCCCTTAGACAAAA
1 GGATCGATCCCTTAGACAAAA
*
9449152 GGATCAATCCCTT-GACAAAA
1 GGATCGATCCCTTAGACAAAA
9449172 GGATCGATCCCTT
1 GGATCGATCCCTT
9449185 TAGTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
GGATCGATCCCTTAGACAAAA
Found at i:9455251 original size:20 final size:18
Alignment explanation
Indices: 9455201--9455268 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
9455191 AAGAAATACT
*
9455201 TGGGTATCGATACTCTTA
1 TGGGTATCGATACTCTCA
* *
9455219 TGGCT-TTGATACTCTACCA
1 TGGGTATCGATACTCT--CA
* *
9455238 TGGGTATCGATACTCACT
1 TGGGTATCGATACTCTCA
*
9455256 TGAGTATCGATAC
1 TGGGTATCGATAC
9455269 CAAATTTGGC
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 9 0.23
18 17 0.44
19 5 0.13
20 8 0.21
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (18 bp):
TGGGTATCGATACTCTCA
Found at i:9455588 original size:17 final size:17
Alignment explanation
Indices: 9455535--9455591 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
9455525 AATAAATTTA
*
9455535 ATTTAAATTAAATATAT
1 ATTTAATTTAAATATAT
* *
9455552 ATATATATATAATATTTATAT
1 ATTTA-ATTTAA-A--TATAT
9455573 ATTTAATTTAAATATAT
1 ATTTAATTTAAATATAT
9455590 AT
1 AT
9455592 ACCCGGCCCG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
19 2 0.06
20 5 0.16
21 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATTTAAATATAT
Found at i:9455607 original size:12 final size:12
Alignment explanation
Indices: 9455590--9455620 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9455580 TTAAATATAT
9455590 ATACCCGGCCCG
1 ATACCCGGCCCG
*
9455602 ATACCCGGCCTG
1 ATACCCGGCCCG
9455614 ATACCCG
1 ATACCCG
9455621 TTTAAATAAC
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:0.19, C:0.45, G:0.23, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCG
Found at i:9455828 original size:21 final size:20
Alignment explanation
Indices: 9455804--9455854 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
9455794 CCTACTTCAA
* *
9455804 TATCGATACTGGCCCTTTGAG
1 TATCGATACTGGACC-TCGAG
*
9455825 TATCGAGACTGGACCTCGAG
1 TATCGATACTGGACCTCGAG
*
9455845 TATAGATACT
1 TATCGATACT
9455855 CATATGGGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (20 bp):
TATCGATACTGGACCTCGAG
Found at i:9455868 original size:21 final size:21
Alignment explanation
Indices: 9455842--9455894 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9455832 ACTGGACCTC
9455842 GAGTATAGATACTCATATGGG
1 GAGTATAGATACTCATATGGG
*
9455863 GAGTATAAATACTCATATGGG
1 GAGTATAGATACTCATATGGG
*
9455884 GAGTATTGATA
1 GAGTATAGATA
9455895 TTTCCCTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (21 bp):
GAGTATAGATACTCATATGGG
Found at i:9458665 original size:22 final size:21
Alignment explanation
Indices: 9458623--9458666 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
9458613 GTAATTTGAT
* *
9458623 CATTCATGGTGTATTGATACC
1 CATTCATGGGGTATCGATACC
*
9458644 CATTCATAGGGGTATCGGTACC
1 CATTCAT-GGGGTATCGATACC
9458666 C
1 C
9458667 GTTTATAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (21 bp):
CATTCATGGGGTATCGATACC
Found at i:9458714 original size:22 final size:22
Alignment explanation
Indices: 9458686--9458744 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
9458676 AGGTATTAAT
9458686 AGGGGTATCGGTACCCATTCAA
1 AGGGGTATCGGTACCCATTCAA
* * * *
9458708 AGGGGTATTGATACTCATTCAT
1 AGGGGTATCGGTACCCATTCAA
*
9458730 AGGGGTATCAGTACC
1 AGGGGTATCGGTACC
9458745 TCTTAATATT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (22 bp):
AGGGGTATCGGTACCCATTCAA
Found at i:9459016 original size:18 final size:18
Alignment explanation
Indices: 9458969--9459030 Score: 79
Period size: 18 Copynumber: 3.2 Consensus size: 18
9458959 TTTTTTAATG
9458969 AAAAAGATACCAATTGATT
1 AAAAAGATACCAATTG-TT
*
9458988 ACAAAATGATATCAATTGTT
1 A-AAAA-GATACCAATTGTT
9459008 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
9459026 GAAAA
1 -AAAA
9459031 TATATGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 12 0.32
19 9 0.24
20 7 0.18
21 10 0.26
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (18 bp):
AAAAAGATACCAATTGTT
Done.