Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 35 of 121
Found at i:6257480 original size:71 final size:71
Alignment explanation
Indices: 6257405--6257772 Score: 264
Period size: 71 Copynumber: 5.2 Consensus size: 71
6257395 TGTCCCAATT
* * * *
6257405 ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTTATCTTTATCTTTTTGA-CTATTAATGTTAT
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTCATCTTTATCTTTTCGATC-GTTGATGTTAT
6257469 CTTGATC
65 CTTGATC
* * * * * *
6257476 ATCTTATCTTTTTTATTGTTGGTGTTATCCTGATCATCTTTATCTTCTCGATGGTTGGTGTTATC
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTCATCTTTATCTTTTCGATCGTTGATGTTATC
*
6257541 -TCAGTC
66 TTGA-TC
* * * * * * * *
6257547 ATTTTATCCTTTCTATAGTTAGTGTTGTCCCTGTCATTTTTATCTTTTCGATCGTTGATGTTGT-
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTCATCTTTATCTTTTCGATCGTTGATGTTATC
6257611 TTCGATC
66 TT-GATC
*** * * * * *
6257618 ATCTTATCTTTTTTACCATTGGTGTTATCCCAGTCATCTTTATC-TTTCTGATCGATGGTGTTGT
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTCATCTTTATCTTTTC-GATCGTTGATGTTAT
**
6257682 -TCCAGTC
65 CTTGA-TC
** * * * * * *
6257689 ATCTTTATCTTTTCGATTGTT-GATGTTGTCCCAGTCATC-TTATCTTTTCTACCATTGGTGTTA
1 ATC-TTATCTTTTTTATTGTTAG-TGTTATCCCGGTCATCTTTATCTTTTCGATCGTTGATGTTA
* *
6257752 TCTCGGTC
64 TCTTGATC
6257760 ATCTTTATCTTTT
1 ATC-TTATCTTTT
6257773 CAACCAATGG
Statistics
Matches: 234, Mismatches: 53, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
70 7 0.03
71 193 0.82
72 34 0.15
ACGTcount: A:0.15, C:0.18, G:0.14, T:0.52
Consensus pattern (71 bp):
ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTCATCTTTATCTTTTCGATCGTTGATGTTATC
TTGATC
Found at i:6257533 original size:36 final size:36
Alignment explanation
Indices: 6257408--6257773 Score: 159
Period size: 36 Copynumber: 10.3 Consensus size: 36
6257398 CCCAATTATC
** * * * * *
6257408 TTATCTTTTTTATTGTTAGTGTTATCCCGGTTATCT
1 TTATCTTTTCGATAGTTGGTGTTATCCTGATCATCT
* ** *
6257444 TTATCTTTTTGACTA-TTAATGTTATCTTGATCATC-
1 TTATCTTTTCGA-TAGTTGGTGTTATCCTGATCATCT
** *
6257479 TTATCTTTTTTATTGTTGGTGTTATCCTGATCATCT
1 TTATCTTTTCGATAGTTGGTGTTATCCTGATCATCT
* * *
6257515 TTATCTTCTCGATGGTTGGTGTTAT-CTCAGTCAT-T
1 TTATCTTTTCGATAGTTGGTGTTATCCTGA-TCATCT
* * * * *
6257550 TTATCCTTTCTATAGTTAGTGTTGTCCCTG-TCATTT
1 TTATCTTTTCGATAGTTGGTGTTAT-CCTGATCATCT
* * * *
6257586 TTATCTTTTCGATCGTTGATGTTGT-TTCGATCATC-
1 TTATCTTTTCGATAGTTGGTGTTATCCT-GATCATCT
** * *
6257621 TTATCTTTTTTACCA-TTGGTGTTATCC-CAGTCATCT
1 TTATCTTTTCGA-TAGTTGGTGTTATCCTGA-TCATCT
* * * *
6257657 TTATC-TTTCTGATCGATGGTGTTGTTCCAG-TCATCT
1 TTATCTTTTC-GATAGTTGGTGTT-ATCCTGATCATCT
* * * *
6257693 TTATCTTTTCGATTGTTGATGTTGTCC-CAGTCATC-
1 TTATCTTTTCGATAGTTGGTGTTATCCTGA-TCATCT
* * *
6257728 TTATCTTTTCTACCA-TTGGTGTTAT-CTCGGTCATCT
1 TTATCTTTTCGA-TAGTTGGTGTTATCCT-GATCATCT
6257764 TTATCTTTTC
1 TTATCTTTTC
6257774 AACCAATGGT
Statistics
Matches: 248, Mismatches: 58, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
34 4 0.02
35 109 0.44
36 125 0.50
37 10 0.04
ACGTcount: A:0.15, C:0.18, G:0.14, T:0.52
Consensus pattern (36 bp):
TTATCTTTTCGATAGTTGGTGTTATCCTGATCATCT
Found at i:6257784 original size:36 final size:36
Alignment explanation
Indices: 6257509--6257790 Score: 184
Period size: 36 Copynumber: 7.9 Consensus size: 36
6257499 GTTATCCTGA
* *** *
6257509 TCATCTTTATCTTCTCGATGGTTGGTGTTATCTCAG
1 TCATCTTTATCTTTTCGACCATTGGTGTTGTCTCAG
* * * * * *
6257545 TCAT-TTTATCCTTTCTA-TAGTTAGTGTTGTCCCTG
1 TCATCTTTATCTTTTCGACCA-TTGGTGTTGTCTCAG
* * * * *
6257580 TCATTTTTATCTTTTCGATCGTTGATGTTGTTTC-G
1 TCATCTTTATCTTTTCGACCATTGGTGTTGTCTCAG
** * *
6257615 ATCATC-TTATCTTTTTTACCATTGGTGTTATCCCAG
1 -TCATCTTTATCTTTTCGACCATTGGTGTTGTCTCAG
*
6257651 TCATCTTTATC-TTTCTGATCGA-TGGTGTTGT-TCCAG
1 TCATCTTTATCTTTTC-GA-CCATTGGTGTTGTCT-CAG
*** * *
6257687 TCATCTTTATCTTTTCGATTGTTGATGTTGTCCCAG
1 TCATCTTTATCTTTTCGACCATTGGTGTTGTCTCAG
* * *
6257723 TCATC-TTATCTTTTCTACCATTGGTGTTATCTCGG
1 TCATCTTTATCTTTTCGACCATTGGTGTTGTCTCAG
* *
6257758 TCATCTTTATCTTTTCAACCAATGGTGTTGTCT
1 TCATCTTTATCTTTTCGACCATTGGTGTTGTCT
6257791 TGATCATTTT
Statistics
Matches: 186, Mismatches: 47, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
35 81 0.44
36 99 0.53
37 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.50
Consensus pattern (36 bp):
TCATCTTTATCTTTTCGACCATTGGTGTTGTCTCAG
Found at i:6257803 original size:36 final size:36
Alignment explanation
Indices: 6257723--6257806 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
6257713 GTTGTCCCAG
* * *
6257723 TCATC-TTATCTTTTCTACCATTGGTGTTATCTCGG
1 TCATCTTTATCTTTTCAACCAATGGTGTTATCTCGA
* *
6257758 TCATCTTTATCTTTTCAACCAATGGTGTTGTCTTGA
1 TCATCTTTATCTTTTCAACCAATGGTGTTATCTCGA
*
6257794 TCATTTTTATCTT
1 TCATCTTTATCTT
6257807 CCTTATCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.51
Consensus pattern (36 bp):
TCATCTTTATCTTTTCAACCAATGGTGTTATCTCGA
Found at i:6257803 original size:107 final size:107
Alignment explanation
Indices: 6257530--6257806 Score: 305
Period size: 107 Copynumber: 2.6 Consensus size: 107
6257520 TTCTCGATGG
* ** * * *
6257530 TTGGTGTTATCTCAGTCAT-TTTATCCTTTCTATA--GTTAGTGTTGTCCCTGTCATTTTTATCT
1 TTGGTGTTATCCCAGTCATCTTTAT-CTTTCTA-ACCAATGGTGTTGTTCCAGTCATTTTTATCT
** *
6257592 TTTCGATCGTTGATGTTGTTTCGATCATCTTATCTTTTTTACCA
64 TTTCGATCGTTGATGTTGTCCCGATCATCTTATCTTTTCTACCA
* * * *
6257636 TTGGTGTTATCCCAGTCATCTTTATCTTTCTGATCGATGGTGTTGTTCCAGTCATCTTTATCTTT
1 TTGGTGTTATCCCAGTCATCTTTATCTTTCTAACCAATGGTGTTGTTCCAGTCATTTTTATCTTT
*
6257701 TCGATTGTTGATGTTGTCCC-AGTCATCTTATCTTTTCTACCA
66 TCGATCGTTGATGTTGTCCCGA-TCATCTTATCTTTTCTACCA
* * **
6257743 TTGGTGTTATCTCGGTCATCTTTATCTTT-TCAACCAATGGTGTTG-TCTTGATCATTTTTATCT
1 TTGGTGTTATCCCAGTCATCTTTATCTTTCT-AACCAATGGTGTTGTTCCAG-TCATTTTTATCT
6257806 T
64 T
6257807 CCTTATCTTT
Statistics
Matches: 146, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
105 1 0.01
106 29 0.20
107 116 0.79
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (107 bp):
TTGGTGTTATCCCAGTCATCTTTATCTTTCTAACCAATGGTGTTGTTCCAGTCATTTTTATCTTT
TCGATCGTTGATGTTGTCCCGATCATCTTATCTTTTCTACCA
Found at i:6257829 original size:45 final size:45
Alignment explanation
Indices: 6257764--6257849 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
6257754 TCGGTCATCT
*
6257764 TTATCTTTTCAACCAATGGTGTTGTCTTGATCATTTTTATCTTCC
1 TTATCTTTTCAACCAATGGTGTTATCTTGATCATTTTTATCTTCC
** * *
6257809 TTATCTTTTTGACCATTGGTGTTATCTTGATTATTTTTATC
1 TTATCTTTTCAACCAATGGTGTTATCTTGATCATTTTTATC
6257850 CTTTTGACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.17, C:0.16, G:0.12, T:0.55
Consensus pattern (45 bp):
TTATCTTTTCAACCAATGGTGTTATCTTGATCATTTTTATCTTCC
Found at i:6257865 original size:81 final size:81
Alignment explanation
Indices: 6257727--6257887 Score: 184
Period size: 81 Copynumber: 2.0 Consensus size: 81
6257717 TCCCAGTCAT
* *
6257727 CTTATCTTTTCTACCATTGGTGTTATCTCGGTCATCTTTATCTTTTCAACCAATGGTGTTGTCTT
1 CTTATCTTTTCTACCATTGGTGTTATCTCGATCATCTTTATCTTTTCAACCAATGGTGTTGTCCT
*
6257792 GA-TCATTTTTATCTTC
66 -ATTCATCTTTATCTTC
* * * * ***
6257808 CTTATCTTTT-TGACCATTGGTGTTATCTTGATTATTTTTATCCTTTT-GACTGTTGGTGTTGTC
1 CTTATCTTTTCT-ACCATTGGTGTTATCTCGATCATCTTTAT-CTTTTCAACCAATGGTGTTGTC
6257871 CTATTCATCTTTATCTT
64 CTATTCATCTTTATCTT
6257888 TTCAATTGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
80 2 0.03
81 60 0.90
82 5 0.07
ACGTcount: A:0.15, C:0.19, G:0.13, T:0.53
Consensus pattern (81 bp):
CTTATCTTTTCTACCATTGGTGTTATCTCGATCATCTTTATCTTTTCAACCAATGGTGTTGTCCT
ATTCATCTTTATCTTC
Found at i:6257884 original size:36 final size:36
Alignment explanation
Indices: 6257809--6257921 Score: 88
Period size: 36 Copynumber: 3.1 Consensus size: 36
6257799 TTTATCTTCC
* ** * * *
6257809 TTATCTTTTTGACCATTGGTGTTATCTTGATT-ATTT
1 TTATCCTTTTGACTGTTGGTGTTGTCCT-ATTCATCT
6257845 TTATCCTTTTGACTGTTGGTGTTGTCCTATTCATCT
1 TTATCCTTTTGACTGTTGGTGTTGTCCTATTCATCT
* * * *
6257881 TTAT-CTTTTCAATTGTCGGTGTTGTCTCGA-TCATCT
1 TTATCCTTTT-GACTGTTGGTGTTGTC-CTATTCATCT
6257917 TTATC
1 TTATC
6257922 TTCCTAATCG
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
35 8 0.13
36 53 0.84
37 2 0.03
ACGTcount: A:0.14, C:0.17, G:0.15, T:0.54
Consensus pattern (36 bp):
TTATCCTTTTGACTGTTGGTGTTGTCCTATTCATCT
Found at i:6257976 original size:188 final size:188
Alignment explanation
Indices: 6257620--6257976 Score: 399
Period size: 188 Copynumber: 1.9 Consensus size: 188
6257610 TTTCGATCAT
*
6257620 CTTATCTTTTTTACCATTGGTGTTATCCCAGTCATCTTTATCTTTCTGATCGATGGTGTTGTTCC
1 CTTATCTTTTTGACCATTGGTGTTATCCCAGTCATCTTTATCTTTCTGATCGATGGTGTTGTTCC
* * * *
6257685 AGTCATCTTTATCTTTTCGATTGTTGATGTTGTCCCAGTCATCTTATCTTTTCTACCATTGGTGT
66 AGTCATCTTTATCTTTTCAATTGTCGATGTTGTCCCAGTCATCTTATCTTTCCTACCATTGGGGT
* * *
6257750 TATCTCGGTCATCTTTATCTTTTCAACCAATGGTGTTGTCTTGATCATTTTTATCTTC
131 TATCTCGATCATCTTTATCTTCTCAACCAATAGTGTTGTCTTGATCATTTTTATCTTC
** * * *
6257808 CTTATCTTTTTGACCATTGGTGTTAT-CTTGATTATTTTTATCCTTT-TGA-CTGTTGGTGTTG-
1 CTTATCTTTTTGACCATTGGTGTTATCCCAG-TCATCTTTAT-CTTTCTGATC-GATGGTGTTGT
* * * * *
6257869 TCCTATTCATCTTTATCTTTTCAATTGTCGGTGTTGTCTC-GATCATCTTTATC-TTCCTAATCG
63 TCC-AGTCATCTTTATCTTTTCAATTGTCGATGTTGTCCCAG-TCATC-TTATCTTTCCT-ACCA
*
6257932 TTGGGGTTATCGT-GATCATCTTTA-CTTCTCGA-CAATTAGTGTTGT
124 TTGGGGTTATC-TCGATCATCTTTATCTTCTCAACCAA-TAGTGTTGT
6257977 TCCGATCGTA
Statistics
Matches: 141, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
187 10 0.07
188 99 0.70
189 31 0.22
190 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.50
Consensus pattern (188 bp):
CTTATCTTTTTGACCATTGGTGTTATCCCAGTCATCTTTATCTTTCTGATCGATGGTGTTGTTCC
AGTCATCTTTATCTTTTCAATTGTCGATGTTGTCCCAGTCATCTTATCTTTCCTACCATTGGGGT
TATCTCGATCATCTTTATCTTCTCAACCAATAGTGTTGTCTTGATCATTTTTATCTTC
Found at i:6258084 original size:36 final size:35
Alignment explanation
Indices: 6258040--6258116 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
6258030 CTCAACTATT
*
6258040 AATGTTGTCCTAG-TCATTTTTATATTTTTGACTTAC
1 AATGTTGT-CTAGATCATTTTTAT-TTTTTGACCTAC
* *
6258076 AATGTTGTCTTGATTATTTTTATTTTTTGACCTAC
1 AATGTTGTCTAGATCATTTTTATTTTTTGACCTAC
*
6258111 GATGTT
1 AATGTT
6258117 ATGTTGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.55
Consensus pattern (35 bp):
AATGTTGTCTAGATCATTTTTATTTTTTGACCTAC
Found at i:6263658 original size:24 final size:24
Alignment explanation
Indices: 6263606--6263659 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6263596 GGCCCAGTAA
* * *
6263606 GTGGTGTTGGCGGTGGTGCAGGTG
1 GTGGTGTTGGAGGTAGTGCAGGAG
* *
6263630 ATGGTTTTGGAGGTAGTGCAGGAG
1 GTGGTGTTGGAGGTAGTGCAGGAG
6263654 GTGGTG
1 GTGGTG
6263660 AAGGCCTTGG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.11, C:0.06, G:0.54, T:0.30
Consensus pattern (24 bp):
GTGGTGTTGGAGGTAGTGCAGGAG
Found at i:6263689 original size:33 final size:33
Alignment explanation
Indices: 6263645--6263713 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
6263635 TTTGGAGGTA
6263645 GTGCAGGAGGTGG-TGAAGGCCTTGGTGGTGGTG
1 GTGCAGGAGGTGGATG-AGGCCTTGGTGGTGGTG
* **
6263678 GTGCTGGAGGTGGATGAGGGTTTGGTGGTGGTG
1 GTGCAGGAGGTGGATGAGGCCTTGGTGGTGGTG
6263711 GTG
1 GTG
6263714 GAGTTGGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.10, C:0.06, G:0.57, T:0.28
Consensus pattern (33 bp):
GTGCAGGAGGTGGATGAGGCCTTGGTGGTGGTG
Found at i:6265470 original size:19 final size:19
Alignment explanation
Indices: 6265444--6265489 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6265434 GAACTACTCC
6265444 TAATTTTTCTTGAATCTTTT
1 TAATTTTTCTTGAAT-TTTT
* *
6265464 T-ATTTTTTTTTAATTTTT
1 TAATTTTTCTTGAATTTTT
6265482 TAATTTTT
1 TAATTTTT
6265490 AGTCTTCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TAATTTTTCTTGAATTTTT
Found at i:6267932 original size:29 final size:29
Alignment explanation
Indices: 6267897--6267973 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
6267887 AATTTGTTTG
*
6267897 AAATAAAAGTTTATTTAAATATA-AATAAA
1 AAATAAAAATTTATTTAAAT-TACAATAAA
*
6267926 AAATAAAAATTTATTT-GATTACAATAAA
1 AAATAAAAATTTATTTAAATTACAATAAA
6267954 AATATAAAAATTTATTTAAA
1 AA-ATAAAAATTTATTTAAA
6267974 AAATAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 2 0.05
28 10 0.24
29 29 0.69
30 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATAAAAATTTATTTAAATTACAATAAA
Found at i:6269543 original size:20 final size:20
Alignment explanation
Indices: 6269497--6269534 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6269487 AATCAAAAAA
*
6269497 TATT-TTTTTTAATTTTAAC
1 TATTATTTTTAAATTTTAAC
6269516 TATTATTTTTAAATTTTAA
1 TATTATTTTTAAATTTTAA
6269535 TTTTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTTTTAAATTTTAAC
Found at i:6270455 original size:19 final size:19
Alignment explanation
Indices: 6270431--6270467 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6270421 AATTGTATAA
*
6270431 TTTATTAATAGAATATTAG
1 TTTATTAATAAAATATTAG
6270450 TTTATTAATAAAATATTA
1 TTTATTAATAAAATATTA
6270468 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTATTAATAAAATATTAG
Found at i:6273697 original size:15 final size:16
Alignment explanation
Indices: 6273666--6273706 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
6273656 TGAAACTAGA
*
6273666 TTTTAGGG-TAAAGAG
1 TTTTAGGGTTTAAGAG
6273681 TTTTAGGGTTTAA-AG
1 TTTTAGGGTTTAAGAG
*
6273696 TTTAAGGGTTT
1 TTTTAGGGTTT
6273707 GGGGTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (16 bp):
TTTTAGGGTTTAAGAG
Found at i:6274037 original size:21 final size:21
Alignment explanation
Indices: 6274013--6274062 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
6274003 TTATTATTAA
* *
6274013 ATAAATAATTAGATATTTATC
1 ATAAATAATTAAACATTTATC
6274034 AT-AATAAATTAAACATTTATC
1 ATAAAT-AATTAAACATTTATC
*
6274055 ATACATAA
1 ATAAATAA
6274063 ATATTAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAATAATTAAACATTTATC
Found at i:6275124 original size:3 final size:3
Alignment explanation
Indices: 6275099--6275196 Score: 162
Period size: 3 Copynumber: 32.3 Consensus size: 3
6275089 TTATTTTTTA
*
6275099 ATT ATT ATAT ATAT ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6275146 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6275193 ATT A
1 ATT A
6275197 AACTGAAATG
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 2 0.02
3 82 0.90
4 7 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6275981 original size:203 final size:202
Alignment explanation
Indices: 6275654--6276065 Score: 607
Period size: 203 Copynumber: 2.0 Consensus size: 202
6275644 TTAAACCATG
* *
6275654 AGTCAGAGGATAACAACAATCGAGATTAAACTACGACTTGAATTAAAGAGATCAGGATTGAACGT
1 AGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTGAATTAAAGAGATCAGGATTGAACGC
*
6275719 AAATCAGAGAATAAAAATATCAGGATTAAACTGTGAGTCAAAGGATAACAACAATCGAGATTAAA
66 AAATCAGAGAATAAAAATATCAGAATTAAACTGTGAGTCAAAGGATAACAACAATCGAGATTAAA
* * *
6275784 CTACGACTTTGAATTAAAGAGATCGA-GATTGAATCGTAAATCAAAGAATAAAAAGATTAGGATT
131 CTACGACTTTGAATTAAAGAGATC-ATGATTGAACCGCAAATCAAAGAATAAAAAGATTAGGAAT
6275848 AAACCGCA
195 AAACCGCA
* *
6275856 AGTCAAAGGATAACAACAATCGAGATTGAACTGCGACTTTGAATTAAAGAGATC-GAGATTGAAC
1 AGTCAAAGGATAACAACAATCGAGATTAAACTACGAC-TTGAATTAAAGAGATCAG-GATTGAAC
* *
6275920 AGCGAATCAGAGAATAAAAATATCAGAATTAAA-TCGTGAGTCAAA-GATAACAACTATCGAGAT
64 -GCAAATCAGAGAATAAAAATATCAGAATTAAACT-GTGAGTCAAAGGATAACAACAATCGAGAT
* * * * *
6275983 TAAACTGCGACTTTGAATTAAAGAGATCATGATTGAACCGCGAATTAGAGAATAAAAAGATTGGG
127 TAAACTACGACTTTGAATTAAAGAGATCATGATTGAACCGCAAATCAAAGAATAAAAAGATTAGG
*
6276048 AATAAACCGCG
192 AATAAACCGCA
6276059 AGTCAAA
1 AGTCAAA
6276066 AAATGACGTT
Statistics
Matches: 189, Mismatches: 16, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
202 36 0.19
203 114 0.60
204 39 0.21
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (202 bp):
AGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTGAATTAAAGAGATCAGGATTGAACGC
AAATCAGAGAATAAAAATATCAGAATTAAACTGTGAGTCAAAGGATAACAACAATCGAGATTAAA
CTACGACTTTGAATTAAAGAGATCATGATTGAACCGCAAATCAAAGAATAAAAAGATTAGGAATA
AACCGCA
Found at i:6276020 original size:101 final size:101
Alignment explanation
Indices: 6275642--6276065 Score: 559
Period size: 102 Copynumber: 4.2 Consensus size: 101
6275632 AAGGGACCGA
* *
6275642 GATTAAACCATGAGTCAGAGGATAACAACAATCGAGATTAAACTACGAC-TTGAATTAAAGAGAT
1 GATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGAT
*
6275706 C-AGGATTGAACGTAAATCAGAGAATAAAAATATCAG
66 CGA-GATTGAACGCAAATCAGAGAATAAAAATATCAG
*
6275742 GATTAAACTGTGAGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGAT
1 GATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGAT
* * * *
6275807 CGAGATTGAATCGTAAATCAAAGAATAAAAAGATTAG
66 CGAGATTGAA-CGCAAATCAGAGAATAAAAATATCAG
** * *
6275844 GATTAAACCGCAAGTCAAAGGATAACAACAATCGAGATTGAACTGCGACTTTGAATTAAAGAGAT
1 GATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGAT
*
6275909 CGAGATTGAACAGCGAATCAGAGAATAAAAATATCAG
66 CGAGATTGAAC-GCAAATCAGAGAATAAAAATATCAG
* * * *
6275946 AATTAAATCGTGAGTCAAA-GATAACAACTATCGAGATTAAACTGCGACTTTGAATTAAAGAGAT
1 GATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGAT
* * * **
6276010 C-ATGATTGAACCGCGAATTAGAGAATAAAAAGATTGG
66 CGA-GATTGAA-CGCAAATCAGAGAATAAAAATATCAG
* *
6276047 GAATAAACCGCGAGTCAAA
1 GATTAAACCGTGAGTCAAA
6276066 AAATGACGTT
Statistics
Matches: 288, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
100 47 0.16
101 111 0.39
102 130 0.45
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (101 bp):
GATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGAT
CGAGATTGAACGCAAATCAGAGAATAAAAATATCAG
Found at i:6285882 original size:40 final size:41
Alignment explanation
Indices: 6285823--6285930 Score: 168
Period size: 40 Copynumber: 2.7 Consensus size: 41
6285813 GTCATAATTG
6285823 TCAG-ATGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTAT
1 TCAGAATGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTAT
*
6285863 TCA-AATGAGCCATTTATTTTTCAAAGTTCGTTGTCTCTAT
1 TCAGAATGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTAT
*
6285903 TCAGAA-GAGCAATTTATTTTTCCAAAGT
1 TCAGAATGAGCCATTTATTTTT-CAAAGT
6285931 CATGTTTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
40 55 0.87
41 8 0.13
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (41 bp):
TCAGAATGAGCCATTTATTTTTCAAAGTTCGTTGCCTCTAT
Found at i:6286159 original size:14 final size:12
Alignment explanation
Indices: 6286133--6286184 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 12
6286123 AATGGCCCAA
*
6286133 TTTTAATTTTAT
1 TTTTTATTTTAT
6286145 TTATTTATTTGTAT
1 TT-TTTATTT-TAT
6286159 TTTTTGATTTTTAT
1 TTTTT-A-TTTTAT
6286173 TTTTTAGTTTTA
1 TTTTTA-TTTTA
6286185 AATTGAGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.06
13 15 0.44
14 14 0.41
15 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:6292531 original size:35 final size:36
Alignment explanation
Indices: 6292492--6292765 Score: 144
Period size: 35 Copynumber: 7.7 Consensus size: 36
6292482 TCAACTATTG
* *
6292492 GTGTTGTCCCAATTATC-TTATCTTTTTTATTGTTA
1 GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
** * * * *
6292527 GTGTTATCCCGGTTATCTTTATCTTTTTGACTATTA
1 GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
* ** *
6292563 ATGTTATCCTGATCATC-TTATCTTTTTTATTGTTG
1 GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
* * ** * *
6292598 GTGTTATCCTAATCATCTTTATCTTCTCGATGGTTG
1 GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
* * * * *
6292634 GTGTTATCTCAGTCAT-TTTATCCTTTCTATAGTTA
1 GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
* ** * ** *
6292669 GTGTTGTCCCTGTCATTTTTATCTTTTCGATCGTT-
1 GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
* ** * * *** *
6292704 GATGTTGTTTCGATCATC-TAATCTTTTTTACCATTG
1 G-TGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
*
6292740 GTGTTATCCCAGTCATCTTTATCTTT
1 GTGTTATCCCAATCATCTTTATCTTT
6292766 CTGATCAATG
Statistics
Matches: 183, Mismatches: 50, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
35 94 0.51
36 89 0.49
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.53
Consensus pattern (36 bp):
GTGTTATCCCAATCATCTTTATCTTTTTTATTGTTA
Found at i:6292568 original size:36 final size:35
Alignment explanation
Indices: 6292493--6292589 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 35
6292483 CAACTATTGG
* * * * * *
6292493 TGTTGTCCCAATTATCTTATCTTTTTTATTGTTAG
1 TGTTATCCCGATTATCTTATCTTTTTGACTATTAA
*
6292528 TGTTATCCCGGTTATCTTTATCTTTTTGACTATTAA
1 TGTTATCCCGATTATC-TTATCTTTTTGACTATTAA
* *
6292564 TGTTATCCTGATCATCTTATCTTTTT
1 TGTTATCCCGATTATCTTATCTTTTT
6292590 TATTGTTGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 23 0.45
36 28 0.55
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.56
Consensus pattern (35 bp):
TGTTATCCCGATTATCTTATCTTTTTGACTATTAA
Found at i:6292639 original size:71 final size:69
Alignment explanation
Indices: 6292506--6292839 Score: 242
Period size: 71 Copynumber: 4.7 Consensus size: 69
6292496 TGTCCCAATT
* * * * *
6292506 ATCTTATCTTTTTTATTGTTAGTGTTATCCCGGTTATCTTTATCTTTTTGACTATTAATGTTATC
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCAGTCATCTTTATCTTTTCGA-TGTTGATGTTAT-
6292571 CTGATC
64 CTGATC
* * * * *
6292577 ATCTTATCTTTTTTATTGTTGGTGTTATCCTAATCATCTTTATCTTCTCGATGGTTGGTGTTATC
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCAGTCATCTTTATCTTTTCGAT-GTTGATGTTATC
*
6292642 TCAGTC
65 TGA-TC
* * * * * * * * *
6292648 ATTTTATCCTTTCTATAGTTAGTGTTGTCCCTGTCATTTTTATCTTTTCGATCGTTGATGTTGTT
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCAGTCATCTTTATCTTTTCGAT-GTTGATGTTATC
6292713 TCGATC
65 T-GATC
* *** * ** * *
6292719 ATCTAATCTTTTTTACCATTGGTGTTATCCCAGTCATCTTTATC-TTTCTGATCAATGGTGTTGT
1 ATCTTATCTTTTTTATTGTTAGTGTTATCCCAGTCATCTTTATCTTTTC-GAT-GTTGATGTT-A
6292783 TCT-AGTC
63 TCTGA-TC
** * *
6292790 ATCTTTATCTTTTCGATTGTT-GATGTTATCTCGGTCATCTTTATCTTTTC
1 ATC-TTATCTTTTTTATTGTTAG-TGTTATCCCAGTCATCTTTATCTTTTC
6292840 TACCATTGGT
Statistics
Matches: 203, Mismatches: 51, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
70 9 0.04
71 156 0.77
72 34 0.17
73 4 0.02
ACGTcount: A:0.16, C:0.17, G:0.14, T:0.53
Consensus pattern (69 bp):
ATCTTATCTTTTTTATTGTTAGTGTTATCCCAGTCATCTTTATCTTTTCGATGTTGATGTTATCT
GATC
Found at i:6292710 original size:36 final size:36
Alignment explanation
Indices: 6292527--6292908 Score: 210
Period size: 36 Copynumber: 10.7 Consensus size: 36
6292517 TTTATTGTTA
* * * * *
6292527 GTGTTATCCCGGTTATCTTTATCTTTTTGA-CTATTA
1 GTGTTATCTCTGTCATCTTTATCTTTTCGATC-ATTG
* ** **
6292563 ATGTTATC-CTGATCATC-TTATCTTTTTTATTGTTG
1 GTGTTATCTCTG-TCATCTTTATCTTTTCGATCATTG
* * **
6292598 GTGTTATC-CTAATCATCTTTATCTTCTCGATGGTTG
1 GTGTTATCTCT-GTCATCTTTATCTTTTCGATCATTG
* * * *
6292634 GTGTTATCTCAGTCAT-TTTATCCTTTCTAT-AGTTA
1 GTGTTATCTCTGTCATCTTTATCTTTTCGATCA-TTG
* * * *
6292669 GTGTTGTCCCTGTCATTTTTATCTTTTCGATCGTTG
1 GTGTTATCTCTGTCATCTTTATCTTTTCGATCATTG
* * * * ** *
6292705 ATGTTGTTTC-GATCATC-TAATCTTTTTTACCATTG
1 GTGTTATCTCTG-TCATCTTTATCTTTTCGATCATTG
* * *
6292740 GTGTTATCCCAGTCATCTTTATC-TTTCTGATCAATG
1 GTGTTATCTCTGTCATCTTTATCTTTTC-GATCATTG
* **
6292776 GTGTTGT-TCTAGTCATCTTTATCTTTTCGATTGTTG
1 GTGTTATCTCT-GTCATCTTTATCTTTTCGATCATTG
* * * *
6292812 ATGTTATCTCGGTCATCTTTATCTTTTCTACCATTG
1 GTGTTATCTCTGTCATCTTTATCTTTTCGATCATTG
* * * *
6292848 GTGTTATCTCGGTCATCTTTATCTTTTCAACCAATG
1 GTGTTATCTCTGTCATCTTTATCTTTTCGATCATTG
* *
6292884 GTGTTGTC-CTGATCATTTTTATCTT
1 GTGTTATCTCTG-TCATCTTTATCTT
6292909 CCTTATCTTT
Statistics
Matches: 266, Mismatches: 64, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
35 86 0.32
36 173 0.65
37 7 0.03
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.51
Consensus pattern (36 bp):
GTGTTATCTCTGTCATCTTTATCTTTTCGATCATTG
Found at i:6292883 original size:108 final size:106
Alignment explanation
Indices: 6292631--6292908 Score: 321
Period size: 108 Copynumber: 2.6 Consensus size: 106
6292621 TTCTCGATGG
* ** *
6292631 TTGGTGTTATCTCAGTCAT-TTTATCCTTTCTATA--GTTAGTGTTGTCCCTGTCATTTTTATCT
1 TTGGTGTTATCCCAGTCATCTTTAT-CTTTCTA-ACCAATGGTGTTGT-CCTGTCATTTTTATCT
* * *
6292693 TTTCGATCGTTGATGTTGTTTCGATCATCTAATCTTTTTTACCA
63 TTTCGATCGTTGATGTTATCTCGATCATCTAATCTTTTCTACCA
* * * *
6292737 TTGGTGTTATCCCAGTCATCTTTATCTTTCTGATCAATGGTGTTGTTCTAGTCATCTTTATCTTT
1 TTGGTGTTATCCCAGTCATCTTTATCTTTCTAACCAATGGTGTTGTCCT-GTCATTTTTATCTTT
* * *
6292802 TCGATTGTTGATGTTATCTCGGTCATCTTTATCTTTTCTACCA
65 TCGATCGTTGATGTTATCTCGATCATC-TAATCTTTTCTACCA
* *
6292845 TTGGTGTTATCTCGGTCATCTTTATCTTT-TCAACCAATGGTGTTGTCCTGATCATTTTTATCTT
1 TTGGTGTTATCCCAGTCATCTTTATCTTTCT-AACCAATGGTGTTGTCCTG-TCATTTTTATCTT
6292909 CCTTATCTTT
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
105 1 0.01
106 26 0.18
107 52 0.36
108 67 0.46
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.51
Consensus pattern (106 bp):
TTGGTGTTATCCCAGTCATCTTTATCTTTCTAACCAATGGTGTTGTCCTGTCATTTTTATCTTTT
CGATCGTTGATGTTATCTCGATCATCTAATCTTTTCTACCA
Found at i:6292931 original size:45 final size:45
Alignment explanation
Indices: 6292866--6292951 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
6292856 TCGGTCATCT
*
6292866 TTATCTTTTCAACCAATGGTGTTGTCCTGATCATTTTTATCTTCC
1 TTATCTTTTCAACCAATGGTGTTATCCTGATCATTTTTATCTTCC
* * * *
6292911 TTATCTTTTCGACCATTGGTGTTATCTTGATTATTTTTATC
1 TTATCTTTTCAACCAATGGTGTTATCCTGATCATTTTTATC
6292952 CTTTTGACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (45 bp):
TTATCTTTTCAACCAATGGTGTTATCCTGATCATTTTTATCTTCC
Found at i:6292967 original size:81 final size:81
Alignment explanation
Indices: 6292830--6292989 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
6292820 TCGGTCATCT
* * **
6292830 TTATCTTTTCTACCATTGGTGTTATCTCGGTCATCTTTATCTTTTCAACCAATGGTGTTGTCCTG
1 TTATCTTTTCGACCATTGGTGTTATCTCGATCATCTTTATCTTTTCAACCAATGGTGTTGTCCCA
*
6292895 ATCATTTTTATCTTCC
66 ATCATCTTTATCTTCC
* * * * ***
6292911 TTATCTTTTCGACCATTGGTGTTATCTTGATTATTTTTATCCTTTT-GACTGTTGGTGTTGTCCC
1 TTATCTTTTCGACCATTGGTGTTATCTCGATCATCTTTAT-CTTTTCAACCAATGGTGTTGTCCC
6292975 AATCATCTTTATCTT
65 AATCATCTTTATCTT
6292990 TTCAATTGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 61 0.92
82 5 0.08
ACGTcount: A:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (81 bp):
TTATCTTTTCGACCATTGGTGTTATCTCGATCATCTTTATCTTTTCAACCAATGGTGTTGTCCCA
ATCATCTTTATCTTCC
Found at i:6292986 original size:36 final size:37
Alignment explanation
Indices: 6292946--6293023 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
6292936 CTTGATTATT
* *
6292946 TTTATCCTTTT-GACTGTTGGTGTTGTCCCAATCATC
1 TTTATCCTTTTCAACTGTCGGTGTTGTCCCAATCATC
* * *
6292982 TTTAT-CTTTTCAATTGTCGGTGTTGTCTCGATCATC
1 TTTATCCTTTTCAACTGTCGGTGTTGTCCCAATCATC
6293018 TTTATC
1 TTTATC
6293024 TTCCTAATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 5 0.14
36 30 0.86
ACGTcount: A:0.14, C:0.21, G:0.15, T:0.50
Consensus pattern (37 bp):
TTTATCCTTTTCAACTGTCGGTGTTGTCCCAATCATC
Found at i:6293186 original size:36 final size:35
Alignment explanation
Indices: 6293142--6293218 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
6293132 CTCAACCGTT
*
6293142 AATGTTGTCCTAG-TCATTTTTATATTTTTGACTTAC
1 AATGTTGT-CTAGATCATTTTTAT-TTTTTGACCTAC
* *
6293178 AATGTTGTCTTGATTATTTTTATTTTTTGACCTAC
1 AATGTTGTCTAGATCATTTTTATTTTTTGACCTAC
*
6293213 GATGTT
1 AATGTT
6293219 ATGTTGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.55
Consensus pattern (35 bp):
AATGTTGTCTAGATCATTTTTATTTTTTGACCTAC
Found at i:6293365 original size:35 final size:33
Alignment explanation
Indices: 6293326--6293408 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 33
6293316 TATTATATTG
* * *
6293326 GTCATCTTTATTTATTGACTTACGATGTTGTCCTA
1 GTCATCTTTATTT-TTGACCTACAATGTTG-CATA
* *
6293361 GTCATATTTAGTTTTTGACCTACAATGTTGCATC
1 GTCATCTTTA-TTTTTGACCTACAATGTTGCATA
6293395 GATCATCTTTATTT
1 G-TCATCTTTATTT
6293409 GTTTTCAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
34 6 0.15
35 31 0.77
36 3 0.08
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (33 bp):
GTCATCTTTATTTTTGACCTACAATGTTGCATA
Found at i:6298651 original size:24 final size:24
Alignment explanation
Indices: 6298624--6298677 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6298614 GGCCCAGTAA
* *
6298624 GTGGTGTTGGAGGTGGTGCAGGTG
1 GTGGTGTTGGAGGTAGTGCAGGAG
*
6298648 GTGGTTTTGGAGGTAGTGCAGGAG
1 GTGGTGTTGGAGGTAGTGCAGGAG
6298672 GTGGTG
1 GTGGTG
6298678 AAGGCCTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.04, G:0.56, T:0.30
Consensus pattern (24 bp):
GTGGTGTTGGAGGTAGTGCAGGAG
Found at i:6300494 original size:17 final size:19
Alignment explanation
Indices: 6300458--6300501 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
6300448 GAACTACTCC
6300458 TAATTTTTCTTGAATCTTT
1 TAATTTTTCTTGAATCTTT
* *
6300477 T-ATTTTT-TTTAATTTTT
1 TAATTTTTCTTGAATCTTT
6300494 TAATTTTT
1 TAATTTTT
6300502 AGTCTTCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 12 0.55
19 1 0.05
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (19 bp):
TAATTTTTCTTGAATCTTT
Found at i:6300881 original size:2 final size:2
Alignment explanation
Indices: 6300874--6300899 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6300864 TTTACTATCT
6300874 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
6300900 ACTCCTTGTG
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):
TA
Found at i:6302855 original size:30 final size:30
Alignment explanation
Indices: 6302817--6302891 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
6302807 TATATTTTTA
*
6302817 TTATATTCAAATAAATCTTTAATCTTTAAT
1 TTATATTCAAATAAATCTTTAACCTTTAAT
6302847 CTT-TATTCAAATAAATCTTTAACCTTTAAT
1 -TTATATTCAAATAAATCTTTAACCTTTAAT
*
6302877 TTATATCCAAATAAA
1 TTATATTCAAATAAA
6302892 CCATTTGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.05
30 37 0.90
31 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATATTCAAATAAATCTTTAACCTTTAAT
Found at i:6303000 original size:30 final size:28
Alignment explanation
Indices: 6302947--6303033 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 28
6302937 AATTTGTTTG
**
6302947 AAATAAATGTTTATTTAAATACAAATCAAA
1 AAATAAAAATTTATTTAAATAC-AAT-AAA
* *
6302977 AAATAAAAATTTATTTGATTACAATAAA
1 AAATAAAAATTTATTTAAATACAATAAA
* *
6303005 AATATAAAAACTTATTTAAA-AAAATAAA
1 AA-ATAAAAATTTATTTAAATACAATAAA
6303033 A
1 A
6303034 TAATTCAGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 13 0.27
29 17 0.35
30 18 0.38
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (28 bp):
AAATAAAAATTTATTTAAATACAATAAA
Found at i:6304586 original size:13 final size:13
Alignment explanation
Indices: 6304564--6304599 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
6304554 AAATATTTTT
6304564 TTAATTTTAAATA
1 TTAATTTTAAATA
* *
6304577 TTATTTTTAAATT
1 TTAATTTTAAATA
6304590 TTAATTTTAA
1 TTAATTTTAA
6304600 TTTATACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:6304602 original size:20 final size:20
Alignment explanation
Indices: 6304554--6304593 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6304544 AGTAATCAAA
6304554 AAATATT-TTTTT-AATTTT
1 AAATATTATTTTTAAATTTT
6304572 AAATATTATTTTTAAATTTT
1 AAATATTATTTTTAAATTTT
6304592 AA
1 AA
6304594 TTTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATATTATTTTTAAATTTT
Found at i:6305513 original size:19 final size:19
Alignment explanation
Indices: 6305489--6305525 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6305479 AATTGTATAA
*
6305489 TTTATTAATAGAATATTAG
1 TTTATTAATAAAATATTAG
6305508 TTTATTAATAAAATATTA
1 TTTATTAATAAAATATTA
6305526 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTATTAATAAAATATTAG
Found at i:6310265 original size:14 final size:15
Alignment explanation
Indices: 6310236--6310272 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
6310226 AACAAATACC
6310236 CAAAC-CAAATAAAA
1 CAAACACAAATAAAA
*
6310250 CAGACACAAA-AAAA
1 CAAACACAAATAAAA
6310264 CAAACACAA
1 CAAACACAA
6310273 TCCTCGCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.70, C:0.24, G:0.03, T:0.03
Consensus pattern (15 bp):
CAAACACAAATAAAA
Found at i:6311374 original size:14 final size:13
Alignment explanation
Indices: 6311340--6311432 Score: 60
Period size: 14 Copynumber: 6.5 Consensus size: 13
6311330 TAAAATCCCT
*
6311340 AAAATCCAAACCTAT
1 AAAATCCAAACC--C
6311355 AAAATCCAAATCCC
1 AAAATCCAAA-CCC
*
6311369 AAAATCCAAAATTTCC
1 AAAATCC-AAA--CCC
6311385 AAAATCCAAACCC
1 AAAATCCAAACCC
* *
6311398 TTAAATCAAAACCCC
1 -AAAATCCAAA-CCC
*
6311413 AAAACCCAAACCC
1 AAAATCCAAACCC
6311426 TAAAATC
1 -AAAATC
6311433 TCCGAACTCT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
13 5 0.08
14 27 0.43
15 19 0.30
16 12 0.19
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATCCAAACCC
Found at i:6311388 original size:16 final size:15
Alignment explanation
Indices: 6311355--6311394 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
6311345 CCAAACCTAT
6311355 AAAATCC-AAATCCC
1 AAAATCCAAAATCCC
*
6311369 AAAATCCAAAATTTCC
1 AAAATCCAAAA-TCCC
6311385 AAAATCCAAA
1 AAAATCCAAA
6311395 CCCTTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 3 0.13
16 13 0.57
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCCAAAATCCC
Found at i:6313689 original size:13 final size:14
Alignment explanation
Indices: 6313658--6313686 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6313648 ATAAAAAATG
6313658 TTATTTTTTTAATT
1 TTATTTTTTTAATT
6313672 TTATTTTTTTAATT
1 TTATTTTTTTAATT
6313686 T
1 T
6313687 ATTATGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTTTTAATT
Found at i:6315084 original size:2 final size:2
Alignment explanation
Indices: 6315077--6315112 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6315067 TCTATTGCTA
6315077 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
6315113 GCACAGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6315730 original size:11 final size:11
Alignment explanation
Indices: 6315705--6315746 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6315695 TTATAAAAAA
*
6315705 AAATGATTTTTT
1 AAAT-ATTTTAT
6315717 AAATATTTTAT
1 AAATATTTTAT
*
6315728 AAAT-TTTTAA
1 AAATATTTTAT
6315738 AAATATTTT
1 AAATATTTT
6315747 TATTAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 9 0.33
11 14 0.52
12 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
AAATATTTTAT
Found at i:6322782 original size:94 final size:94
Alignment explanation
Indices: 6322680--6322852 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 94
6322670 AACTTGCAAT
* * *
6322680 TGTATAAAAATGATTACACAATATTAAAAT-AGCATAAATT-AAAAAAAGTTAATTTAAAATCAT
1 TGTATAAAAATGATTACACAAGATGAAAATGA-CACAAATTGAAAAAAA-TTAATTTAAAATCAT
*
6322743 GAAACTTTGAATTTTTTTATTTAATTGCAGG
64 GAAAATTTGAATTTTTTTATTTAATTGCAGG
* * *
6322774 TGTATAAAAATGATTACACAAGATGAAAATGACACAAATTGAAGAAAATTAATTTGAAATGATGA
1 TGTATAAAAATGATTACACAAGATGAAAATGACACAAATTGAAAAAAATTAATTTAAAATCATGA
*
6322839 AAATTTTAATTTTT
66 AAATTTGAATTTTT
6322853 AGTTAATATT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 62 0.90
95 7 0.10
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (94 bp):
TGTATAAAAATGATTACACAAGATGAAAATGACACAAATTGAAAAAAATTAATTTAAAATCATGA
AAATTTGAATTTTTTTATTTAATTGCAGG
Found at i:6331659 original size:214 final size:214
Alignment explanation
Indices: 6331246--6331662 Score: 647
Period size: 215 Copynumber: 1.9 Consensus size: 214
6331236 GCATTCCCTT
* * *
6331246 ATGTTCTTTAAGACATGTTTTAATTAATGAGGCTCATGATGGTGCACTAGGTGGACACTTTGTAA
1 ATGTTCTTTAAGACATGCTTTAATCAATGAAGCTCATGATGGTGCACTAGGTGGACACTTTGTAA
* * * *
6331311 AGGATAAACACTTGCTCTTTTGCATGATAGGTTTTATTGGCTGAAAATGGAGAGGGATGTGATGG
66 AGGATAAACACTTGCTCTTTTGCAAGATAGGTTTTATTGGCTGAAAATGGAAAGAGATGTGATGA
* *
6331376 AACACCTTGAACGATGTAGAATGTGTCACATTACCAAAAGTCATGGTCAAAACATTAAATTTTAT
131 AACACCTTGAACGATGTAGAACGTGTCACATTACCAAAAGTCATGGTCAAAACATTAAATTGTAT
6331441 ACTCCATTGCCCGTGTGTA
196 ACTCCATTGCCCGTGTGTA
* *
6331460 ATGTTCTTTGAGATATGCTTTAATCAATGAAGCTCATGATGGTGCACTAGGTGGACACTTTGTAA
1 ATGTTCTTTAAGACATGCTTTAATCAATGAAGCTCATGATGGTGCACTAGGTGGACACTTTGTAA
* * * * *
6331525 GGGCTAAGATACTTGCTCTTTTGCAAGATAGGTTTTATTGGCTGAGAATGGAAAGATATGTGATG
66 AGGATAA-ACACTTGCTCTTTTGCAAGATAGGTTTTATTGGCTGAAAATGGAAAGAGATGTGATG
* * *
6331590 AAACACTTTGAACGATGTAGAACGTGTCACATTGCCAAAAGTTATGGTC-AAACATTAAATTGTA
130 AAACACCTTGAACGATGTAGAACGTGTCACATTACCAAAAGTCATGGTCAAAACATTAAATTGTA
6331654 TACTCCATT
195 TACTCCATT
6331663 ACCTGTGCCT
Statistics
Matches: 183, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
214 88 0.48
215 95 0.52
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (214 bp):
ATGTTCTTTAAGACATGCTTTAATCAATGAAGCTCATGATGGTGCACTAGGTGGACACTTTGTAA
AGGATAAACACTTGCTCTTTTGCAAGATAGGTTTTATTGGCTGAAAATGGAAAGAGATGTGATGA
AACACCTTGAACGATGTAGAACGTGTCACATTACCAAAAGTCATGGTCAAAACATTAAATTGTAT
ACTCCATTGCCCGTGTGTA
Found at i:6333875 original size:3 final size:3
Alignment explanation
Indices: 6333867--6333918 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
6333857 ATTAGGTGAC
6333867 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6333915 TAA T
1 TAA T
6333919 GGTGGTTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6335440 original size:19 final size:19
Alignment explanation
Indices: 6335416--6335452 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6335406 GTGTCATATT
* *
6335416 TAAAATTATCAAGTTTATC
1 TAAAATCATCAACTTTATC
6335435 TAAAATCATCAACTTTAT
1 TAAAATCATCAACTTTAT
6335453 GTTCTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (19 bp):
TAAAATCATCAACTTTATC
Found at i:6336306 original size:91 final size:92
Alignment explanation
Indices: 6336196--6336437 Score: 246
Period size: 91 Copynumber: 2.6 Consensus size: 92
6336186 AAATTTTTAG
* * *
6336196 ATATAATATA-TTTGTATATTTTATCTAGTTTTATAATTTAAAATAAATAAGTTTGACAA-TTT-
1 ATATAATATATTTTATATATTTTATCTAGTTTTATAATTTAAAATAAATAAATTTGAAAACTTTC
6336258 TATTTTTAATAAGTTTTT-TA-AA-ATAA
66 TA-TTTTAATAA-TTTTTGTATAATATAA
* * * * *
6336284 ATATAATATAATTTTAATATATTTTATCAAATTTTATAGTTTAAGATAAATAAATTTTAAAACTT
1 ATATAATAT-ATTTT-ATATATTTTATCTAGTTTTATAATTTAAAATAAATAAATTTGAAAACTT
* *
6336349 TCTATTTTAATAATTTTTGTATTTTAATTTTTAG
64 TCTATTTTAATAATTTTTGTA---TAA--TATAA
*
6336383 ATATAATATATTTTA-ATATTTTATCTAGTTTTATAATTTAAAATATATACAATTT
1 ATATAATATATTTTATATATTTTATCTAGTTTTATAATTTAAAATAAATA-AATTT
6336438 AAATTTAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
88 9 0.07
89 1 0.01
90 3 0.02
91 43 0.34
92 14 0.11
93 2 0.02
96 31 0.25
97 6 0.05
98 5 0.04
99 11 0.09
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (92 bp):
ATATAATATATTTTATATATTTTATCTAGTTTTATAATTTAAAATAAATAAATTTGAAAACTTTC
TATTTTAATAATTTTTGTATAATATAA
Found at i:6337588 original size:30 final size:33
Alignment explanation
Indices: 6337554--6337615 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
6337544 ACATTCCTTT
*
6337554 CCTTCCAAGC-CTTCCTCT-C-TCTCTTCTTCC
1 CCTTCCAAACTCTTCCTCTGCTTCTCTTCTTCC
6337584 CCTTCCAAACTCTTCCTCTGCTTCTCTTCTTC
1 CCTTCCAAACTCTTCCTCTGCTTCTCTTCTTC
6337616 TTCTTCACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.32
31 8 0.29
32 1 0.04
33 10 0.36
ACGTcount: A:0.08, C:0.47, G:0.03, T:0.42
Consensus pattern (33 bp):
CCTTCCAAACTCTTCCTCTGCTTCTCTTCTTCC
Found at i:6337683 original size:21 final size:21
Alignment explanation
Indices: 6337659--6337714 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
6337649 AGAAGCCAGG
* *
6337659 TGGCTTCGCGAAGAACAACGC
1 TGGCTCCGAGAAGAACAACGC
*
6337680 TGGCTCCGAGAAGAGCAACGC
1 TGGCTCCGAGAAGAACAACGC
**
6337701 TGGCTAAGAGAAGA
1 TGGCTCCGAGAAGA
6337715 GCAGCGTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.12
Consensus pattern (21 bp):
TGGCTCCGAGAAGAACAACGC
Found at i:6337715 original size:21 final size:21
Alignment explanation
Indices: 6337668--6337728 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
6337658 GTGGCTTCGC
* **
6337668 GAAGAACAACGCTGGCTCCGA
1 GAAGAGCAACGCTGGCTAAGA
6337689 GAAGAGCAACGCTGGCTAAGA
1 GAAGAGCAACGCTGGCTAAGA
* *
6337710 GAAGAGCAGCGTTGGCTAA
1 GAAGAGCAACGCTGGCTAA
6337729 CCGAGAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.33, T:0.11
Consensus pattern (21 bp):
GAAGAGCAACGCTGGCTAAGA
Found at i:6341182 original size:22 final size:22
Alignment explanation
Indices: 6341154--6341196 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6341144 TCGGGCAGTG
6341154 CAATTAAATTACAAGCCGAGCA
1 CAATTAAATTACAAGCCGAGCA
* *
6341176 CAATTAAATTACGAGTCGAGC
1 CAATTAAATTACAAGCCGAGC
6341197 TTGCACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (22 bp):
CAATTAAATTACAAGCCGAGCA
Found at i:6352254 original size:3 final size:3
Alignment explanation
Indices: 6352246--6352276 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6352236 AAAAATAAAG
6352246 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6352277 GATATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6352293 original size:12 final size:14
Alignment explanation
Indices: 6352276--6352308 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
6352266 AATAATAATA
6352276 AGATATATAT-GAT
1 AGATATATATAGAT
6352289 A-ATATATATAGAT
1 AGATATATATAGAT
6352302 AGATATA
1 AGATATA
6352309 ATAAAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 5 0.28
14 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (14 bp):
AGATATATATAGAT
Found at i:6352307 original size:22 final size:20
Alignment explanation
Indices: 6352246--6352312 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 20
6352236 AAAAATAAAG
6352246 ATAATAATAAT-A-ATA-AT
1 ATAATAATAATAAGATAGAT
*
6352263 AATAATAATAATAAGATATAT
1 -ATAATAATAATAAGATAGAT
*
6352284 ATGATAATATATATAGATAGAT
1 ATAATAATA-ATA-AGATAGAT
6352306 ATAATAA
1 ATAATAA
6352313 AAGTAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.27
19 1 0.02
20 11 0.27
21 5 0.12
22 13 0.32
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAAGATAGAT
Found at i:6353165 original size:112 final size:113
Alignment explanation
Indices: 6352823--6353202 Score: 301
Period size: 111 Copynumber: 3.4 Consensus size: 113
6352813 GATTATATTT
** * * * * * * *
6352823 AGAGGA-TTTAAAAGATCATGTTCGAAAGTCTTAT-GATCTTGACC-AAAGGTCTTTGAGGTTAT
1 AGAGGACTTTAAAAGATCATGCCCAAAAGTCTTATAAATCATG-CCTAAAAGCCTTTAAGATTAT
* * * * * *
6352885 GCTTGGAGGACTTTAAATA-ATCACGCACAAA-AGTTTTTGAGATTATGTCT
65 GCTTGAAGGAC-TTAAA-AGATCATGCGCAAAGA-TCTTTGAGATTATGACC
* * * *
6352935 AGAGGACTTTAAAAGATCATGCCCAGAGGTCTTATAAGTCATGCTTAAAAGCCTTTAAGATTATG
1 AGAGGACTTTAAAAGATCATGCCCAAAAGTCTTATAAATCATGCCTAAAAGCCTTTAAGATTATG
* * * *
6353000 CTTGGAGGATTTAAAAGATTATGCTCAAAGATCTTTGAGATTAT-ACC
66 CTTGAAGGACTTAAAAGATCATGCGCAAAGATCTTTGAGATTATGACC
* * * * * *
6353047 AAAGGACTTTAAAAGATCGTGTCCAAAAGTCTTATAAATTATGCCT-AAAGTCTTTGAGATTATA
1 AGAGGACTTTAAAAGATCATGCCCAAAAGTCTTATAAATCATGCCTAAAAGCCTTTAAGATTAT-
* * * *
6353111 G-TTTAAGGACTTAAAAGATCATGCGCAGAGGTCTTTGAGATTATGCCC
65 GCTTGAAGGACTTAAAAGATCATGCGCAAAGATCTTTGAGATTATGACC
* * ** *
6353159 AGAGGAC-TTAAGAGATTATGCCTGAAAGTTTTATTAAATCATGC
1 AGAGGACTTTAAAAGATCATGCCCAAAAGTCTTA-TAAATCATGC
6353203 TCAAATGACT
Statistics
Matches: 213, Mismatches: 47, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
111 70 0.33
112 64 0.30
113 50 0.23
114 29 0.14
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (113 bp):
AGAGGACTTTAAAAGATCATGCCCAAAAGTCTTATAAATCATGCCTAAAAGCCTTTAAGATTATG
CTTGAAGGACTTAAAAGATCATGCGCAAAGATCTTTGAGATTATGACC
Found at i:6353177 original size:23 final size:23
Alignment explanation
Indices: 6353116--6353180 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 23
6353106 TTATAGTTTA
* * *
6353116 AGGACTTAAAAGATCATGCGCAG
1 AGGACTTAAGAGATTATGCCCAG
* *
6353139 AGGTCTT-TGAGATTATGCCCAG
1 AGGACTTAAGAGATTATGCCCAG
6353161 AGGACTTAAGAGATTATGCC
1 AGGACTTAAGAGATTATGCC
6353181 TGAAAGTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (23 bp):
AGGACTTAAGAGATTATGCCCAG
Found at i:6353680 original size:22 final size:22
Alignment explanation
Indices: 6353647--6353689 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6353637 ATACATGAAA
6353647 TGAATATGATGCATAT-AATGCG
1 TGAATATGATGCA-ATGAATGCG
6353669 TGAA-ATGCATGCAATGAATGC
1 TGAATATG-ATGCAATGAATGC
6353690 AATGCATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAATATGATGCAATGAATGCG
Found at i:6353693 original size:18 final size:18
Alignment explanation
Indices: 6353623--6353697 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 18
6353613 GTCAAAGAAT
*
6353623 ATGCAATGAATGCAATAC
1 ATGCAATGAATGCAATGC
* ***
6353641 ATGAAATGAATATGATGC
1 ATGCAATGAATGCAATGC
** ** *
6353659 ATATAATGCGTGAAATGC
1 ATGCAATGAATGCAATGC
6353677 ATGCAATGAATGCAATGC
1 ATGCAATGAATGCAATGC
6353695 ATG
1 ATG
6353698 AAACCTATAC
Statistics
Matches: 40, Mismatches: 17, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (18 bp):
ATGCAATGAATGCAATGC
Found at i:6358776 original size:30 final size:30
Alignment explanation
Indices: 6358742--6358799 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6358732 AGTCCATTAT
6358742 GGCTCACTATATGAGTGTTTTGCGTTTGTA
1 GGCTCACTATATGAGTGTTTTGCGTTTGTA
*
6358772 GGCTCATTATATGAGTGTTTTGCGTTTG
1 GGCTCACTATATGAGTGTTTTGCGTTTG
6358800 CAATCTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.28, T:0.45
Consensus pattern (30 bp):
GGCTCACTATATGAGTGTTTTGCGTTTGTA
Found at i:6361708 original size:144 final size:145
Alignment explanation
Indices: 6361500--6361793 Score: 421
Period size: 146 Copynumber: 2.0 Consensus size: 145
6361490 ATAACCCAGA
* * *
6361500 TTTTAGTTTCACTTTTCTCTTCCTTCTTTATCTCCTCCACCATTTTCTCTTCTTTTTTTGTAGAC
1 TTTTAGTTTCACTTTTCTCTTCCTTCTTTATCTCCTCCACCATTTTCTCCTCTTTCTTTATAGAC
*
6361565 T-CCACCGAAAGCTGGGAAATGGCATCAAAAACTGGGAAGTGGAGTTGGAAACTTCAAATATTCA
66 TACCACCAAAAGCTGGGAAATGGCATCAAAAACTGGGAAGTGGAGTTGGAAACTTCAAATATTCA
6361629 TCGAAATCTGAAAAT
131 TCGAAATCTGAAAAT
** * * **
6361644 TTTTAGTTTTGCTTTTCTCTTCTTTCTTTCTCTACC-CCACTGTTTTCTCCTCTTTCTTTATAGA
1 TTTTAGTTTCACTTTTCTCTTCCTTCTTTATCT-CCTCCACCATTTTCTCCTCTTTCTTTATAGA
** *
6361708 CTAACCATTAAAAGTTGGGAAATGGCATCAAAAACTGGGAAGTGGAGTTGGAAACTTCAAATATT
65 CT-ACCACCAAAAGCTGGGAAATGGCATCAAAAACTGGGAAGTGGAGTTGGAAACTTCAAATATT
* *
6361773 CATTGAAATCTGAAATT
129 CATCGAAATCTGAAAAT
6361790 TTTT
1 TTTT
6361794 TAGATTTTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 54 0.41
145 2 0.02
146 76 0.58
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (145 bp):
TTTTAGTTTCACTTTTCTCTTCCTTCTTTATCTCCTCCACCATTTTCTCCTCTTTCTTTATAGAC
TACCACCAAAAGCTGGGAAATGGCATCAAAAACTGGGAAGTGGAGTTGGAAACTTCAAATATTCA
TCGAAATCTGAAAAT
Found at i:6362527 original size:20 final size:20
Alignment explanation
Indices: 6362489--6362528 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6362479 TTAAACCAAA
**
6362489 TTATATATTTTTTTTAGTTT
1 TTATATATTTTTTAAAGTTT
6362509 TTATATATTTTTTAAAGTTT
1 TTATATATTTTTTAAAGTTT
6362529 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATATATTTTTTAAAGTTT
Found at i:6362589 original size:21 final size:24
Alignment explanation
Indices: 6362551--6362604 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 24
6362541 TAGTTATTGC
6362551 ATATAAAAATCTATTT-AAAT-AT
1 ATATAAAAATCTATTTAAAATAAT
6362573 AT-TAAAAATCT-TGTTAAAATAAT
1 ATATAAAAATCTAT-TTAAAATAAT
6362596 ATATAAAAA
1 ATATAAAAA
6362605 ATAAACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 11 0.39
22 6 0.21
23 4 0.14
24 6 0.21
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
ATATAAAAATCTATTTAAAATAAT
Found at i:6363663 original size:9 final size:10
Alignment explanation
Indices: 6363640--6363674 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6363630 TAAATATGAA
6363640 TTTATATAAT
1 TTTATATAAT
*
6363650 TTTTTATAAAT
1 TTTATAT-AAT
6363661 TTTATATAAT
1 TTTATATAAT
6363671 TTTA
1 TTTA
6363675 AATTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTATATAAT
Found at i:6374909 original size:2 final size:2
Alignment explanation
Indices: 6374902--6374945 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6374892 AATGAAAGAT
6374902 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6374944 AG
1 AG
6374946 TGGATGTGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6375563 original size:19 final size:18
Alignment explanation
Indices: 6375530--6375565 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6375520 TTAAATCTTG
6375530 TTATTTTTATATTATTTT
1 TTATTTTTATATTATTTT
*
6375548 TTATTCTTTATTTTATTT
1 TTATT-TTTATATTATTT
6375566 AAAATTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTATATTATTTT
Found at i:6376413 original size:22 final size:22
Alignment explanation
Indices: 6376371--6376413 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6376361 TTACAATGTA
* *
6376371 ATTAAATTTTATTCAATTAAAG
1 ATTAAATTTTAGTCAAATAAAG
6376393 ATTAAA-TTTAGTCAAAATAAA
1 ATTAAATTTTAGTC-AAATAAA
6376414 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTAAATTTTAGTCAAATAAAG
Found at i:6377356 original size:18 final size:20
Alignment explanation
Indices: 6377314--6377363 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
6377304 GTACTTTGAA
6377314 AAAAAAGAAAAAGCCTAACTT
1 AAAAAAGAAAAA-CCTAACTT
*
6377335 AAAAAAGAAAAA-TTAA-TT
1 AAAAAAGAAAAACCTAACTT
*
6377353 AAAAAGGAAAA
1 AAAAAAGAAAA
6377364 GGGAAAGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 3 0.11
21 12 0.44
ACGTcount: A:0.70, C:0.06, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAAAAGAAAAACCTAACTT
Found at i:6377540 original size:3 final size:3
Alignment explanation
Indices: 6377532--6377561 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6377522 ATTAAGGCAG
6377532 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6377562 TCTACATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6378631 original size:21 final size:22
Alignment explanation
Indices: 6378593--6378634 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6378583 TCAAATATTA
6378593 AATAATTTAAACTTAATTTAAT
1 AATAATTTAAACTTAATTTAAT
6378615 AATAA-TTAAA-TTAAATTTAA
1 AATAATTTAAACTT-AATTTAA
6378635 ATTTTATTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAATTTAAACTTAATTTAAT
Found at i:6380975 original size:3 final size:3
Alignment explanation
Indices: 6380967--6381004 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6380957 TTTACTTGTA
6380967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6381005 AGTTTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6386475 original size:59 final size:56
Alignment explanation
Indices: 6386393--6386586 Score: 189
Period size: 59 Copynumber: 3.4 Consensus size: 56
6386383 TGATCTCTTT
* *
6386393 AAAATGAAAATTTGAAAAAATATTTTTGAAAGAAAGTTAAATATATCAATTTCCTTTG
1 AAAATAAAAATTTTAAAAAATATTTTTGAAAGAAAGTTAAA-ATATCAATTTCC-TTG
* * * * *
6386451 AACATAAAAGATTTTAAAAGATATTTTAG-GA-AAAGTTGAAAATATCAATTTCCCTTC
1 AAAATAAAA-ATTTTAAAAAATATTTTTGAAAGAAAGTT-AAAATATCAATTT-CCTTG
* *
6386508 AAAATAAAAATTTTCAAAAAATATTGTT-AAGGAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTT-AAAAAATATTTTTGAAAG-AAAGTTAAAA-TATCAA-TTTCCTTG
6386567 AAAAT-AAAATTTTCAAAAAA
1 AAAATAAAAATTTT-AAAAAA
6386587 ACATTTCTTA
Statistics
Matches: 113, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
56 5 0.04
57 36 0.32
58 32 0.28
59 37 0.33
60 3 0.03
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (56 bp):
AAAATAAAAATTTTAAAAAATATTTTTGAAAGAAAGTTAAAATATCAATTTCCTTG
Found at i:6386602 original size:60 final size:59
Alignment explanation
Indices: 6386407--6386682 Score: 255
Period size: 60 Copynumber: 4.7 Consensus size: 59
6386397 TGAAAATTTG
* * *
6386407 AAAAAATATTTTTGAAAG-AAAGTTAAATA-TATCAA-TTTCCTTTGAACATAAAAGATTTT--
1 AAAAAATATTTTT-AAGGAAAAGTTAAA-AGTATCAATTTTCC-TTAAAAAT-AAA-ATTTTCA
* * *
6386466 AAAAGATA-TTTT-AGGAAAAGTTGAAAA-TATCAATTTCCCTTCAAAATAAAAATTTTC-
1 AAAAAATATTTTTAAGGAAAAGTT-AAAAGTATCAATTTTCCTTAAAAAT-AAAATTTTCA
* *
6386523 AAAAAATATTGTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATTTTCA
1 AAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTTCA
* ** * * **
6386582 AAAAAACATTTCTTAAGGAAAAGTTGGAAGTACCAATTTTCTTTAAAAATAAAATTTGAA
1 AAAAAATATTT-TTAAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTTCA
* *
6386642 GAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTC
1 -AAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTC
6386683 TTTGTGTAAA
Statistics
Matches: 185, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
56 7 0.04
57 30 0.16
58 27 0.15
59 44 0.24
60 67 0.36
61 10 0.05
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (59 bp):
AAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTTCA
Found at i:6397117 original size:68 final size:68
Alignment explanation
Indices: 6396994--6397131 Score: 172
Period size: 68 Copynumber: 2.0 Consensus size: 68
6396984 CATTTTAAGG
* *
6396994 TTTTTATTTTCAAGAAAAAAATGATACTTTCAACTTTTCCTTAAAAATCCCTTTTGGAAATCTTT
1 TTTTTATTTTCAAGAAAAAAATAATACTTTCAACTTTTCCTTAAAAATCCCTTTTGAAAAT-TTT
6397059 ATTT
65 ATTT
* * * ***
6397063 TTTTTATTTTCAAG-GAAAATTAATACTTTCAACTTTTCC-TAAAAGTTTTTTTTTGAAAATTTT
1 TTTTTATTTTCAAGAAAAAAATAATACTTTCAACTTTTCCTTAAAA-ATCCCTTTTGAAAATTTT
6397126 ATTT
65 ATTT
6397130 TT
1 TT
6397132 AAAAAAACTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 14 0.23
68 32 0.53
69 14 0.23
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (68 bp):
TTTTTATTTTCAAGAAAAAAATAATACTTTCAACTTTTCCTTAAAAATCCCTTTTGAAAATTTTA
TTT
Found at i:6397216 original size:58 final size:58
Alignment explanation
Indices: 6397064--6397228 Score: 210
Period size: 58 Copynumber: 2.8 Consensus size: 58
6397054 TCTTTATTTT
* * * * *
6397064 TTTTATTTTCAAGGAAAATTAATACTTTCAAC-TTTTCCTAAAAGTTTTTTTTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATTTTTTTTT-AAAA
*
6397122 TTTTATTTTTAA-AAAAACTTGATACTTTTAACTTTTTCTTAAAAATATTTTTTTT-AAA
1 TTTTATTTTTAAGAAAAA-TTGATACTTTCAACTTTTTCTTAAAAAT-TTTTTTTTAAAA
*
6397180 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTTAAAACATTT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAA-ATTT
6397229 AAAAAAAATA
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.04
58 64 0.68
59 18 0.19
60 8 0.09
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (58 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATTTTTTTTTAAAA
Found at i:6399196 original size:86 final size:85
Alignment explanation
Indices: 6399067--6399891 Score: 514
Period size: 86 Copynumber: 9.7 Consensus size: 85
6399057 GACTGAATCG
* * * * * *
6399067 AAGTCTAAAATGAATACCTTGGACTAAACCGAAGAAGGATCTGGCATATGCCAAAATCTAAAAAT
1 AAGTCTGAAATGAATAACTTAGACT-AACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAAT
**
6399132 AGAATGACCTAAATAGAACCA
65 AGAATGACCTGGATAGAACCA
* * *
6399153 AAGTTTGAAATGAATAACTTAGACTGAACCGAAGAAGGATCTGGCATAGGCCGAAATCCAAAAAT
1 AAGTCTGAAATGAATAACTTAGACT-AACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAAT
* *
6399218 AGAATGACCTGGATTGAACTGA
65 AGAATGACCTGGATAGAAC-CA
* ** * * ** *** * **
6399240 AA-CCTGAAATGAATAACTTAGA-T----TGAGAAAGATTTGAAATAGATAAAAATCTAAAAGCC
1 AAGTCTGAAATGAATAACTTAGACTAACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAA-AT
*
6399299 A-AATGACCTGGACT-GAACCG
65 AGAATGACCTGGA-TAGAACCA
* * * * * * **
6399319 AAGTCTGAAAT-AAGTACCTTGGACTAAGCCAAAGGAGGATTTGACATATGCCAAAATTTAAAAA
1 AAGTCTGAAATGAA-TAACTTAGACTAA-CCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAA
*
6399383 TAGAATGACCTGGATAGAATCA
64 TAGAATGACCTGGATAGAACCA
* * * ***
6399405 AAGTCTGAAATAAATAACTTAGACTGAGCCAAAAAAGGATCTGGCATAGGCCAAAATTTGAAAAT
1 AAGTCTGAAATGAATAACTTAGACT-AACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAAT
** * *
6399470 AGAATGATATGGATTGAATCA
65 AGAATGACCTGGATAGAACCA
* * * * * * * * * *
6399491 AAGTTTGGAATAAATAACTTGGATTAAGTCAAAAAAAGATCTGGCATAGACCAAAATCCGAAAAT
1 AAGTCTGAAATGAATAACTTAGACTAA-CCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAAT
* * * **
6399556 AGAATAACTTGGATTGAACTG
65 AGAATGACCTGGATAGAACCA
* * *** ** *
6399577 AAG-CTTGAAATGAATAACTTAGACT-----GAGAAGGATTTAAAATAGATCAAAATCTAAAAAC
1 AAGTC-TGAAATGAATAACTTAGACTAACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAA-
* * * **
6399636 CA-AATGACTTAGACTA-AACTG
64 TAGAATGACCTGGA-TAGAACCA
* * * * * * *
6399657 AAGTCTAAAATGAATACCTTGGACTAAGCTAAAAAAGGATCTAGCATATGCCAAAATCCAAAAAT
1 AAGTCTGAAATGAATAACTTAGACTAA-CCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAAT
* * *
6399722 AGAACGACATGGACAGAACCA
65 AGAATGACCTGGATAGAACCA
* * * *
6399743 AAGTTTGAAATGAATAACTTAGACTAAGCCAAAGAAAGATTTGGCATAGGTCAAAATCCAAAAAT
1 AAGTCTGAAATGAATAACTTAGACTAA-CCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAAT
* * *
6399808 AGAATGACCTGGATTGAATCG
65 AGAATGACCTGGATAGAACCA
** ** * * *
6399829 AAGTCTGAAATGAATAACTTAGGTTGAACTGAAGAAAGATTTGGCATAGGTCAAAATCCAAAA
1 AAGTCTGAAATGAATAACTTAGACT-AACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAA
6399892 CAAAATGACC
Statistics
Matches: 576, Mismatches: 134, Indels: 58
0.75 0.17 0.08
Matches are distributed among these distances:
79 4 0.01
80 108 0.19
81 6 0.01
85 6 0.01
86 444 0.77
87 8 0.01
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (85 bp):
AAGTCTGAAATGAATAACTTAGACTAACCAAAGAAGGATCTGGCATAGGCCAAAATCCAAAAATA
GAATGACCTGGATAGAACCA
Found at i:6399509 original size:252 final size:252
Alignment explanation
Indices: 6398930--6399517 Score: 718
Period size: 252 Copynumber: 2.3 Consensus size: 252
6398920 TGGAATGACT
* * **
6398930 CAAAGAAA-GATCTGGCATAGGCGAAAATCTAAAAATAAAATGACCTGGATTGAATTGAAGCTTG
1 CAAA-AAAGGATCTGGCATAGGCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGCTTG
* ** ** * *
6398994 AAATGAATAACTTGGACTAAAAATGATTTAAAATTTATCGAAATCCAAAGACCAAATTACATGGA
65 AAATGAATAACTTGGATTAAAAATGATTTAAAATAGATAAAAATCAAAAGACCAAATGACATGGA
* * *
6399059 CTGAATCGAAGTCTAAAATGAATACCTTGGACTAAACCGAAGAAGGATCTGGCATATGCCAAAAT
130 CTGAACCGAAGTCTAAAATGAATACCTTGGACTAAACCAAAGAAGGATCTGACATATGCCAAAAT
* *
6399124 CTAAAAATAGAATGACCTAAATAGAACCAAAGTTTGAAATGAATAACTTAGACTGAAC
195 CTAAAAATAGAATGACCTAAATAGAACCAAAGTCTGAAATAAATAACTTAGACTGAAC
* * * * * *
6399182 CGAAGAAGGATCTGGCATAGGCCGAAATCCAAAAATAGAATGACCTGGATTGAACTGAAA-CCTG
1 CAAAAAAGGATCTGGCATAGGCCAAAATCTAAAAATAGAATGACCTGGATTGAA-TCAAAGCTTG
* * * *
6399246 AAATGAATAACTTAGATTGAGAAA-GATTTGAAATAGATAAAAATCTAAAAG-CCAAATGACCTG
65 AAATGAATAACTTGGATT-AAAAATGATTTAAAATAGATAAAAATC-AAAAGACCAAATGACATG
* * * *
6399309 GACTGAACCGAAGTCTGAAAT-AAGTACCTTGGACTAAGCCAAAGGAGGATTTGACATATGCCAA
128 GACTGAACCGAAGTCTAAAATGAA-TACCTTGGACTAAACCAAAGAAGGATCTGACATATGCCAA
* ** * *
6399373 AATTTAAAAATAGAATGACCTGGATAGAATCAAAGTCTGAAATAAATAACTTAGACTGAGC
192 AATCTAAAAATAGAATGACCTAAATAGAACCAAAGTCTGAAATAAATAACTTAGACTGAAC
* * ** * *
6399434 CAAAAAAGGATCTGGCATAGGCCAAAATTTGAAAATAGAATGATATGGATTGAATCAAAGTTTGG
1 CAAAAAAGGATCTGGCATAGGCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGCTTGA
*
6399499 AATAAATAACTTGGATTAA
66 AATGAATAACTTGGATTAA
6399518 GTCAAAAAAA
Statistics
Matches: 281, Mismatches: 49, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
251 9 0.03
252 261 0.93
253 11 0.04
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.23
Consensus pattern (252 bp):
CAAAAAAGGATCTGGCATAGGCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGCTTGA
AATGAATAACTTGGATTAAAAATGATTTAAAATAGATAAAAATCAAAAGACCAAATGACATGGAC
TGAACCGAAGTCTAAAATGAATACCTTGGACTAAACCAAAGAAGGATCTGACATATGCCAAAATC
TAAAAATAGAATGACCTAAATAGAACCAAAGTCTGAAATAAATAACTTAGACTGAAC
Found at i:6399557 original size:338 final size:339
Alignment explanation
Indices: 6399052--6399891 Score: 990
Period size: 338 Copynumber: 2.5 Consensus size: 339
6399042 AGACCAAATT
* * * * * * * * * *
6399052 ACATGGACTGAATCGAAGTCTAAAATGAATACCTTGGACTAAACCGAAG-AAGGATCTGGCATAT
1 ACATGGACAGAACCAAAGTCTGAAATAAATAACTTAGACTAAGCCAAAGAAAGGATCTGGCATAG
** * *
6399116 GCCAAAATCTAAAAATAGAATGACCTAAATAGAACCAAAGTTTGAAATGAATAACTTAGACTGAA
66 GCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGTTTGAAATGAATAACTTAGACTGAA
* * * * * *
6399181 CCGAAGAAGGATCTGGCATAGGCCGAAATCCAAAAATAGAATGACCTGGATTGAACTGAAACCTG
131 CCAAAAAAAGATCTGGCATAGACCAAAATCCAAAAATAGAATAACCTGGATTGAACTGAAACCTG
* * * *
6399246 AAATGAATAACTTAGATTGAGAAAGATTTGAAATAGATAAAAATCTAAAAGCCAAATGACCTGGA
196 AAATGAATAACTTAGACTGAGAAAGATTTAAAATAGATAAAAATCTAAAAACCAAATGACCTAGA
* * ** *
6399311 CTGAACCGAAGTCTGAAAT-AAGTACCTTGGACTAAGCCAAAGGAGGAT-TTGACATATGCCAAA
261 CTAAACCGAAGTCTAAAATGAA-TACCTTGGACTAAGCCAAAAAAGGATCTAG-CATATGCCAAA
** *
6399374 ATTTAAAAATAGAATG
324 ATCCAAAAATAGAACG
* * * *
6399390 ACCTGGATAGAATCAAAGTCTGAAATAAATAACTTAGACTGAGCCAAA-AAAGGATCTGGCATAG
1 ACATGGACAGAACCAAAGTCTGAAATAAATAACTTAGACTAAGCCAAAGAAAGGATCTGGCATAG
* * ** * * * *
6399454 GCCAAAATTTGAAAATAGAATGATATGGATTGAATCAAAGTTTGGAATAAATAACTTGGA-TTAA
66 GCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGTTTGAAATGAATAACTTAGACTGAA
* * * * *
6399518 GTCAAAAAAAGATCTGGCATAGACCAAAATCCGAAAATAGAATAACTTGGATTGAACTGAAGCTT
131 -CCAAAAAAAGATCTGGCATAGACCAAAATCCAAAAATAGAATAACCTGGATTGAACTGAAACCT
* * *
6399583 GAAATGAATAACTTAGACTGAGAAGGATTTAAAATAGATCAAAATCTAAAAACCAAATGACTTAG
195 GAAATGAATAACTTAGACTGAGAAAGATTTAAAATAGATAAAAATCTAAAAACCAAATGACCTAG
* *
6399648 ACTAAACTGAAGTCTAAAATGAATACCTTGGACTAAGCTAAAAAAGGATCTAGCATATGCCAAAA
260 ACTAAACCGAAGTCTAAAATGAATACCTTGGACTAAGCCAAAAAAGGATCTAGCATATGCCAAAA
6399713 TCCAAAAATAGAACG
325 TCCAAAAATAGAACG
* * *
6399728 ACATGGACAGAACCAAAGTTTGAAATGAATAACTTAGACTAAGCCAAAGAAA-GATTTGGCATAG
1 ACATGGACAGAACCAAAGTCTGAAATAAATAACTTAGACTAAGCCAAAGAAAGGATCTGGCATAG
* * * * **
6399792 GTCAAAATCCAAAAATAGAATGACCTGGATTGAATCGAAGTCTGAAATGAATAACTTAGGTTGAA
66 GCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGTTTGAAATGAATAACTTAGACTGAA
** * * **
6399857 CTGAAGAAAGATTTGGCATAGGTCAAAATCCAAAA
131 CCAAAAAAAGATCTGGCATAGACCAAAATCCAAAA
6399892 CAAAATGACC
Statistics
Matches: 416, Mismatches: 80, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
337 3 0.01
338 403 0.97
339 10 0.02
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (339 bp):
ACATGGACAGAACCAAAGTCTGAAATAAATAACTTAGACTAAGCCAAAGAAAGGATCTGGCATAG
GCCAAAATCTAAAAATAGAATGACCTGGATTGAATCAAAGTTTGAAATGAATAACTTAGACTGAA
CCAAAAAAAGATCTGGCATAGACCAAAATCCAAAAATAGAATAACCTGGATTGAACTGAAACCTG
AAATGAATAACTTAGACTGAGAAAGATTTAAAATAGATAAAAATCTAAAAACCAAATGACCTAGA
CTAAACCGAAGTCTAAAATGAATACCTTGGACTAAGCCAAAAAAGGATCTAGCATATGCCAAAAT
CCAAAAATAGAACG
Found at i:6400087 original size:8 final size:8
Alignment explanation
Indices: 6400074--6400115 Score: 75
Period size: 8 Copynumber: 5.1 Consensus size: 8
6400064 AAGGTTTGCA
6400074 ATTCAAAG
1 ATTCAAAG
6400082 ATTCAAAG
1 ATTCAAAG
6400090 ATTCAAAG
1 ATTCAAAG
6400098 ATTCAAAG
1 ATTCAAAG
6400106 ATTCATAAG
1 ATTCA-AAG
6400115 A
1 A
6400116 ATTTTAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 29 0.88
9 4 0.12
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (8 bp):
ATTCAAAG
Found at i:6400124 original size:17 final size:17
Alignment explanation
Indices: 6400104--6400217 Score: 95
Period size: 17 Copynumber: 6.7 Consensus size: 17
6400094 AAAGATTCAA
*
6400104 AGATTCATAAGAATTTT
1 AGATTCATAAGAATTTG
*
6400121 AGATTCATAAGAATTGG
1 AGATTCATAAGAATTTG
* * *
6400138 AGATTCACAAAAATTTC
1 AGATTCATAAGAATTTG
* *
6400155 AGTTTCATAAGAATTAG
1 AGATTCATAAGAATTTG
* *
6400172 AGATTCACAAGACACTT-
1 AGATTCATAAGA-ATTTG
** *
6400189 AGATTCGCAAGAATTGG
1 AGATTCATAAGAATTTG
*
6400206 AGATTCGTAAGA
1 AGATTCATAAGA
6400218 CATTCATATT
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
16 2 0.03
17 72 0.95
18 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (17 bp):
AGATTCATAAGAATTTG
Found at i:6400144 original size:34 final size:34
Alignment explanation
Indices: 6400104--6400211 Score: 128
Period size: 34 Copynumber: 3.2 Consensus size: 34
6400094 AAAGATTCAA
*
6400104 AGATTCATAAGAATTTTAGATTCATAAGAATTGG
1 AGATTCACAAGAATTTTAGATTCATAAGAATTGG
* * * *
6400138 AGATTCACAAAAATTTCAGTTTCATAAGAATTAG
1 AGATTCACAAGAATTTTAGATTCATAAGAATTGG
* **
6400172 AGATTCACAAGACA-CTTAGATTCGCAAGAATTGG
1 AGATTCACAAGA-ATTTTAGATTCATAAGAATTGG
6400206 AGATTC
1 AGATTC
6400212 GTAAGACATT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 60 0.98
35 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.31
Consensus pattern (34 bp):
AGATTCACAAGAATTTTAGATTCATAAGAATTGG
Found at i:6400218 original size:34 final size:34
Alignment explanation
Indices: 6400129--6400246 Score: 105
Period size: 34 Copynumber: 3.5 Consensus size: 34
6400119 TTAGATTCAT
* * **
6400129 AAGAATTGGAGATTCACAA-AAATTTCAGTTTCAT
1 AAGAATTGGAGATTCACAAGACA-TTCAGATTCGC
*
6400163 AAGAATTAGAGATTCACAAGACACTT-AGATTCGC
1 AAGAATTGGAGATTCACAAGACA-TTCAGATTCGC
** * * *
6400197 AAGAATTGGAGATTCGTAAGACATTCATATTTGT
1 AAGAATTGGAGATTCACAAGACATTCAGATTCGC
*
6400231 AAGAATTGAAGATTCA
1 AAGAATTGGAGATTCA
6400247 TGGGGCTTTC
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
33 2 0.03
34 62 0.91
35 4 0.06
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.30
Consensus pattern (34 bp):
AAGAATTGGAGATTCACAAGACATTCAGATTCGC
Found at i:6400269 original size:34 final size:34
Alignment explanation
Indices: 6400231--6400297 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
6400221 TCATATTTGT
* * * *
6400231 AAGAATTGAAGATTCATGGGGCTTTCAGATTGAC
1 AAGAAATGAAAATTCATGAGACTTTCAGATTGAC
* *
6400265 AAGAAATGAAAATTCGTTAGACTTTCAGATTGA
1 AAGAAATGAAAATTCATGAGACTTTCAGATTGA
6400298 AGATTCACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (34 bp):
AAGAAATGAAAATTCATGAGACTTTCAGATTGAC
Found at i:6401504 original size:16 final size:16
Alignment explanation
Indices: 6401485--6401539 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 16
6401475 TTTTTCTCTA
*
6401485 TTTTTATTTTTTATTT
1 TTTTTATTTTTCATTT
6401501 TTTTTATTCTTTCATTT
1 TTTTTATT-TTTCATTT
6401518 TTTTCT-TTTTTCATTT
1 TTTT-TATTTTTCATTT
6401534 CTTTTT
1 -TTTTT
6401540 TCTTTCTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 17 0.49
17 17 0.49
18 1 0.03
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTTTTCATTT
Found at i:6401527 original size:32 final size:32
Alignment explanation
Indices: 6401485--6401545 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6401475 TTTTTCTCTA
*
6401485 TTTTTATTTTTT-ATTTTTTTTATTCTTTCATT
1 TTTTTATTTTTTCATTTCTTTT-TTCTTTCATT
*
6401517 TTTTTCTTTTTTCATTTCTTTTTTCTTTC
1 TTTTTATTTTTTCATTTCTTTTTTCTTTC
6401546 TTTCATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTATTTTTTCATTTCTTTTTTCTTTCATT
Found at i:6401535 original size:25 final size:24
Alignment explanation
Indices: 6401490--6401558 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
6401480 CTCTATTTTT
*
6401490 ATTTTTTATTTTTTTTATTCTTTC
1 ATTTTTTATTTTTTTCATTCTTTC
6401514 ATTTTTT-TCTTTTTTCA---TTTC
1 ATTTTTTAT-TTTTTTCATTCTTTC
* *
6401535 -TTTTTTCTTTCTTTCATTCTTTC
1 ATTTTTTATTTTTTTCATTCTTTC
6401558 A
1 A
6401559 CCCATTATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
20 13 0.35
21 5 0.14
23 5 0.14
24 14 0.38
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (24 bp):
ATTTTTTATTTTTTTCATTCTTTC
Found at i:6401536 original size:12 final size:11
Alignment explanation
Indices: 6401491--6401548 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 11
6401481 TCTATTTTTA
* *
6401491 TTTTTTATTTT
1 TTTTTTCTTTC
6401502 TTTTATTCTTTC
1 TTTT-TTCTTTC
*
6401514 -ATTTT-TTTC
1 TTTTTTCTTTC
6401523 TTTTTTCATTTC
1 TTTTTTC-TTTC
6401535 TTTTTTCTTTC
1 TTTTTTCTTTC
6401546 TTT
1 TTT
6401549 CATTCTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 4 0.10
10 6 0.15
11 13 0.33
12 16 0.41
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:6401538 original size:19 final size:19
Alignment explanation
Indices: 6401507--6401556 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6401497 ATTTTTTTTA
6401507 TTCTTTCA-T-TTTTTTCT
1 TTCTTTCATTCTTTTTTCT
6401524 TT-TTTCATTTCTTTTTTCT
1 TTCTTTCA-TTCTTTTTTCT
6401543 TTCTTTCATTCTTT
1 TTCTTTCATTCTTT
6401557 CACCCATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.17
17 2 0.07
18 1 0.03
19 16 0.55
20 5 0.17
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCTTTCATTCTTTTTTCT
Found at i:6401545 original size:16 final size:17
Alignment explanation
Indices: 6401486--6401549 Score: 64
Period size: 16 Copynumber: 4.0 Consensus size: 17
6401476 TTTTCTCTAT
* *
6401486 TTTTATT-TTTTATTTT
1 TTTTATTCTTTCATTTC
6401502 TTTTATTCTTTCATTT-
1 TTTTATTCTTTCATTTC
* *
6401518 TTTTCTTTTTTCATTTC
1 TTTTATTCTTTCATTTC
6401535 TTTT-TTCTTTC-TTTC
1 TTTTATTCTTTCATTTC
6401550 ATTCTTTCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
15 4 0.10
16 27 0.64
17 11 0.26
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTATTCTTTCATTTC
Found at i:6401554 original size:12 final size:11
Alignment explanation
Indices: 6401494--6401557 Score: 55
Period size: 12 Copynumber: 6.0 Consensus size: 11
6401484 ATTTTTATTT
6401494 TTTATT-TTT-
1 TTTATTCTTTC
6401503 TTTATTCTTTC
1 TTTATTCTTTC
*
6401514 ATT-TT-TTTC
1 TTTATTCTTTC
*
6401523 TTTTTTCATTTC
1 TTTATTC-TTTC
*
6401535 TTTTTTCTTTC
1 TTTATTCTTTC
6401546 TTTCATTCTTTC
1 TTT-ATTCTTTC
6401558 ACCCATTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 12 0.26
10 7 0.15
11 9 0.20
12 18 0.39
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTCTTTC
Found at i:6405635 original size:63 final size:61
Alignment explanation
Indices: 6405477--6405720 Score: 235
Period size: 60 Copynumber: 3.9 Consensus size: 61
6405467 ATTTTAAGGT
*** *
6405477 TTTTATTTTCAAAGAAAATTGATACTTTCAAC-TTTTCTTTAAAAATCCCTTTTTGAAATCTTTA
1 TTTTATTTTC-AAGAAAATTGATACTTTCAACTTTTTC-TTAAAAATATATTTTT----T-TTGA
***
6405541 TTT
59 AAA
* * * *
6405544 TTTTATTTTCAAGGAAAATTGATGCTTTCAACTTTTTCTCAAAAATGTTTTTTTTTTTGAAAA
1 TTTTATTTTCAA-GAAAATTGATACTTTCAACTTTTTCTTAAAAAT-ATATTTTTTTTGAAAA
6405607 TTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTCTTAAAAA-ATATTTTTTTTGAAAA
1 TTTTATTTTCAAG-AAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTTGAAAA
* * *
6405667 TTTTATTTTCATTG-AAATTGATACTTTCAACTTTTCCTTAAAAATATATATTTT
1 TTTTATTTTCA-AGAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTT
6405721 CCTTTATTCA
Statistics
Matches: 154, Mismatches: 16, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
59 17 0.11
60 36 0.23
61 9 0.06
62 12 0.08
63 32 0.21
64 1 0.01
66 2 0.01
67 35 0.23
68 10 0.06
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (61 bp):
TTTTATTTTCAAGAAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTTGAAAA
Found at i:6405692 original size:59 final size:60
Alignment explanation
Indices: 6405477--6405720 Score: 240
Period size: 67 Copynumber: 3.9 Consensus size: 60
6405467 ATTTTAAGGT
*** * *
6405477 TTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAATCCCTTTTTGAAATCTTTAT
1 TTTTATTTTC-AAGAAAATTGATACTTTCAACTTTTC-TTAAAAATATATTTTT----T-TTGAA
**
6405542 TT
59 AA
* * * *
6405544 TTTTATTTTCAAGGAAAATTGATGCTTTCAACTTTTTCTCAAAAATGTTTTTTTTTTTGAAAA
1 TTTTATTTTCAA-GAAAATTGATACTTTCAAC-TTTTCTTAAAAAT-ATATTTTTTTTGAAAA
6405607 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTTAAAAA-ATATTTTTTTTGAAAA
1 TTTTATTTTCAAG-AAAATTGATACTTTCAACTTTTCTTAAAAATATATTTTTTTTGAAAA
* *
6405667 TTTTATTTTCATTG-AAATTGATACTTTCAACTTTTCCTTAAAAATATATATTTT
1 TTTTATTTTCA-AGAAAATTGATACTTTCAACTTTT-CTTAAAAATATATTTTTT
6405721 CCTTTATTCA
Statistics
Matches: 155, Mismatches: 15, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
59 21 0.14
60 33 0.21
61 9 0.06
62 12 0.08
63 32 0.21
64 1 0.01
66 2 0.01
67 35 0.23
68 10 0.06
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (60 bp):
TTTTATTTTCAAGAAAATTGATACTTTCAACTTTTCTTAAAAATATATTTTTTTTGAAAA
Found at i:6406108 original size:28 final size:28
Alignment explanation
Indices: 6406075--6406144 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
6406065 GATTTTTCTC
6406075 TCTTTCTCTCTCTATAACTTTCGCTCTG
1 TCTTTCTCTCTCTATAACTTTCGCTCTG
*
6406103 TCTTTCTTTCTCTATAACTTTCGCTCTG
1 TCTTTCTCTCTCTATAACTTTCGCTCTG
*
6406131 TCTTTCCCTCTCTA
1 TCTTTCTCTCTCTA
6406145 AGTGAGAACG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.10, C:0.33, G:0.06, T:0.51
Consensus pattern (28 bp):
TCTTTCTCTCTCTATAACTTTCGCTCTG
Found at i:6406965 original size:24 final size:25
Alignment explanation
Indices: 6406922--6406970 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
6406912 GGCAAAAGTG
* *
6406922 ATAGTATGGTATTGATGGTG-TGGA
1 ATAGAATGGTATTGACGGTGATGGA
*
6406946 ATAGAATGGTATTTACGGTGATGGA
1 ATAGAATGGTATTGACGGTGATGGA
6406971 GGATGAGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.35
Consensus pattern (25 bp):
ATAGAATGGTATTGACGGTGATGGA
Found at i:6407556 original size:15 final size:15
Alignment explanation
Indices: 6407536--6407616 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 15
6407526 AAACGAATGA
6407536 AGAAAGGAAAAAAAG
1 AGAAAGGAAAAAAAG
* *
6407551 AGAAAGAAAAAAAAA
1 AGAAAGGAAAAAAAG
6407566 AGAAAGAATGAAAAAAAG
1 AGAAAG---GAAAAAAAG
*
6407584 AAAAAAGAGGAAAGAAAAG
1 --AGAA-AGGAAA-AAAAG
*
6407603 AAAAAGGAAAAAAA
1 AGAAAGGAAAAAAA
6407617 TGGAAAATAG
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
15 23 0.43
16 6 0.11
17 4 0.07
18 11 0.20
19 5 0.09
20 3 0.06
21 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (15 bp):
AGAAAGGAAAAAAAG
Found at i:6407559 original size:19 final size:18
Alignment explanation
Indices: 6407535--6407616 Score: 70
Period size: 16 Copynumber: 4.8 Consensus size: 18
6407525 TAAACGAATG
6407535 AAGAAAGGAAAAAAAGAGA
1 AAGAAAGGAAAAAAA-AGA
6407554 AAG-AA--AAAAAAAAGA
1 AAGAAAGGAAAAAAAAGA
*
6407569 AAG-AATG-AAAAAAAGA
1 AAGAAAGGAAAAAAAAGA
* *
6407585 AAAAAGAGGAAAGAAAAG-
1 AAGAA-AGGAAAAAAAAGA
6407603 AA-AAAGGAAAAAAA
1 AAGAAAGGAAAAAAA
6407617 TGGAAAATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
15 8 0.15
16 27 0.50
17 3 0.06
18 6 0.11
19 10 0.19
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (18 bp):
AAGAAAGGAAAAAAAAGA
Found at i:6407564 original size:16 final size:16
Alignment explanation
Indices: 6407543--6407645 Score: 75
Period size: 17 Copynumber: 6.1 Consensus size: 16
6407533 TGAAGAAAGG
*
6407543 AAAAAAAGAGAAAGAAA
1 AAAAAAAGAAAAAG-AA
6407560 AAAAAAAGAAAGAATGAA
1 AAAAAAAGAAA-AA-GAA
*
6407578 AAAAAGAA-AAAAGAGGA
1 AAAAA-AAGAAAA-AGAA
*
6407595 AAGAAAAGAAAAAGGAA
1 AAAAAAAGAAAAA-GAA
**
6407612 AAAAATGGAAAATAGAA
1 AAAAAAAGAAAA-AGAA
6407629 AAAAAAA-AAAAGAGAA
1 AAAAAAAGAAAA-AGAA
6407645 A
1 A
6407646 TGGAAAGGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
16 12 0.17
17 40 0.58
18 14 0.20
19 3 0.04
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:6407567 original size:26 final size:24
Alignment explanation
Indices: 6407538--6407639 Score: 91
Period size: 24 Copynumber: 4.1 Consensus size: 24
6407528 ACGAATGAAG
6407538 AAAGGAAAAAAAGAGAAAGAAAAAAA
1 AAAGGAAAAAAAGA-AAA-AAAAAAA
* *
6407564 AAA-GAAAGAATGAAAAAAAGAAAA
1 AAAGGAAAAAAAGAAAAAAA-AAAA
*
6407588 AAGAGGAAAGAAAAGAAAAAGGAAAAA
1 AA-AGGAAA-AAAAGAAAAA-AAAAAA
* *
6407615 AATGG-AAAATAGAAAAAAAAAAA
1 AAAGGAAAAAAAGAAAAAAAAAAA
6407638 AA
1 AA
6407640 GAGAAATGGA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
23 10 0.16
24 18 0.29
25 11 0.17
26 9 0.14
27 14 0.22
28 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (24 bp):
AAAGGAAAAAAAGAAAAAAAAAAA
Found at i:6407576 original size:41 final size:41
Alignment explanation
Indices: 6407530--6407632 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
6407520 ATGGGTAAAC
* *
6407530 GAATGAAGAAAGGAAAAAA-AGAGAAAGAAAAAAAAAAGAAA
1 GAATGAAAAAAAGAAAAAAGAG-GAAAGAAAAAAAAAAGAAA
*
6407571 GAATGAAAAAAAGAAAAAAGAGGAAAGAAAAGAAAAAGGAAAA
1 GAATGAAAAAAAGAAAAAAGAGGAAAGAAAA-AAAAAAG-AAA
* * *
6407614 AAATGGAAAATAGAAAAAA
1 GAATGAAAAAAAGAAAAAA
6407633 AAAAAAAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 26 0.49
42 8 0.15
43 19 0.36
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (41 bp):
GAATGAAAAAAAGAAAAAAGAGGAAAGAAAAAAAAAAGAAA
Found at i:6407621 original size:10 final size:9
Alignment explanation
Indices: 6407538--6407623 Score: 53
Period size: 10 Copynumber: 10.0 Consensus size: 9
6407528 ACGAATGAAG
6407538 AAAGGAAAA
1 AAAGGAAAA
*
6407547 AAAGAGAAAG
1 AAAG-GAAAA
6407557 AAA--AAAA
1 AAAGGAAAA
6407564 AAA-G-AAA
1 AAAGGAAAA
* *
6407571 GAATGAAAA
1 AAAGGAAAA
6407580 AAA-GAAAA
1 AAAGGAAAA
6407588 AAGAGGAAAGA
1 AA-AGGAAA-A
6407599 AAA-G--AA
1 AAAGGAAAA
6407605 AAAGGAAAA
1 AAAGGAAAA
6407614 AAATGGAAAA
1 AAA-GGAAAA
6407624 TAGAAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
6 4 0.06
7 13 0.21
8 8 0.13
9 16 0.26
10 18 0.29
11 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (9 bp):
AAAGGAAAA
Found at i:6408848 original size:21 final size:22
Alignment explanation
Indices: 6408801--6408869 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
6408791 TATTTTGATA
* * *
6408801 AGAATTTTTGAGTTCTCAAATG
1 AGAATATTTGAATTTTCAAATG
*
6408823 CGAATATTTGAATTTTC-AATG
1 AGAATATTTGAATTTTCAAATG
* * *
6408844 AGAATCTTT-AAATTTCAAACG
1 AGAATATTTGAATTTTCAAATG
6408865 AGAAT
1 AGAAT
6408870 CATTGAAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 6 0.16
21 19 0.50
22 13 0.34
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (22 bp):
AGAATATTTGAATTTTCAAATG
Found at i:6408885 original size:22 final size:21
Alignment explanation
Indices: 6408843--6408885 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
6408833 AATTTTCAAT
* *
6408843 GAGAATCTTTAAATTTCAAAC
1 GAGAATCTTGAAATGTCAAAC
*
6408864 GAGAATCATTGAAATGTGAAAC
1 GAGAATC-TTGAAATGTCAAAC
6408886 CCTAAGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (21 bp):
GAGAATCTTGAAATGTCAAAC
Found at i:6409280 original size:42 final size:42
Alignment explanation
Indices: 6409205--6409816 Score: 651
Period size: 42 Copynumber: 14.6 Consensus size: 42
6409195 ATGCTTGTCA
* * * * * * *
6409205 AGGAGCAGTTTATTTTTCCAACGTTCTGTTGCCTATATTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * *
6409247 AGGAGCAATTTATTTTTTCAAAGTCGTGATGCCTTTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * *
6409289 AGGAGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
6409331 AAGTGC--TTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * * *
6409371 ATGAGCATTTTATTTTGTCCAAAGTTGTGGTGCCTTTGTTTAA
1 AGGAGCATTTTATTTT-TTCAAAGTTGTGGTGCCTCTGTTTAG
* * * * *
6409414 AGGAACATTTTACTTTTCCAAAGTTGTGGTGTCTTTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
6409456 ATGAGCATTTTATTTTTTCCAAAGTTGCGGTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTT-CAAAGTTGTGGTGCCTCTGTTTAG
* ** * * * *
6409499 ATGAGCATTTTACATTTTGAAAGTGGTGGTGCCTTTATTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * ** *
6409541 AGGAGCATTTTATTTTTTCAAAGTCGTTGAACCTTTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * *
6409583 AGGAGCATTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
6409625 AAGAGCATTTTATTTTTTTCAAAGTTGTGGTGCCCCTGTTTAG
1 AGGAGCATTTTA-TTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* *
6409668 AGGAGCATTTTATTTTTTCAAAGTCGT--TGAACTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTG-CCTCTGTTTAG
* * *
6409709 AGGAGCATTTTATTTTTTCAAAATTATGGTACCTCTGTTTAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
* * *
6409751 AGGAGCATTTTA-TTTTTCAAAAGCTGTGGTACCTTTGTTTAG
1 AGGAGCATTTTATTTTTTC-AAAGTTGTGGTGCCTCTGTTTAG
*
6409793 AGGAGCATTTGT-TTTTCTCAAAGT
1 AGGAGCATTT-TATTTTTTCAAAGT
6409817 CGTTAAGCCT
Statistics
Matches: 481, Mismatches: 78, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
40 38 0.08
41 39 0.08
42 287 0.60
43 117 0.24
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (42 bp):
AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:6409453 original size:85 final size:84
Alignment explanation
Indices: 6409205--6409816 Score: 651
Period size: 85 Copynumber: 7.3 Consensus size: 84
6409195 ATGCTTGTCA
* * * * * * * * *
6409205 AGGAGCAGTTTATTTTTCCAACGTTCTGTTGCCTATATTTAGAGGAGCAATTTATTTTTTCAAAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAG
* *
6409270 TCGTGATGCCTTTGTTTAG
66 TTGTGGTGCCTTTGTTTAG
* * * * * *
6409289 AGGAGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAAGTGC--TTTATTTTTTCAAAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAG
*
6409352 TTGTGGTGCCTCTGTTTAG
66 TTGTGGTGCCTTTGTTTAG
* * * * * *
6409371 ATGAGCATTTTATTTTGTCCAAAGTTGTGGTGCCTTTGTTTAAAGGAACATTTTACTTTTCCAAA
1 AGGAGCATTTTATTTT-TTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAA
*
6409436 GTTGTGGTGTCTTTGTTTAG
65 GTTGTGGTGCCTTTGTTTAG
* * * * *
6409456 ATGAGCATTTTATTTTTTCCAAAGTTGCGGTGCCTCTGTTTAGATGAGCATTTTACATTTT-GAA
1 AGGAGCATTTTATTTTTT-CAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTA-TTTTTCCAA
* *
6409520 AGTGGTGGTGCCTTTATTTAG
64 AGTTGTGGTGCCTTTGTTTAG
* * ** * *
6409541 AGGAGCATTTTATTTTTTCAAAGTCGTTGAACCTTTGTTTAGAGGAGCATTTTACTTTTCCAAAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAG
* *
6409606 TTATGGTGCCTCTGTTTAG
66 TTGTGGTGCCTTTGTTTAG
* * *
6409625 AAGAGCATTTTATTTTTTTCAAAGTTGTGGTGCCCCTGTTTAGAGGAGCATTTTATTTTTTCAAA
1 AGGAGCATTTTA-TTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAA
* * *
6409690 GTCGT--TGAACTCTGTTTAG
65 GTTGTGGTG-CCTTTGTTTAG
* * * *
6409709 AGGAGCATTTTATTTTTTCAAAATTATGGTACCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAG
1 AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAG
* *
6409774 CTGTGGTACCTTTGTTTAG
66 TTGTGGTGCCTTTGTTTAG
*
6409793 AGGAGCATTTGT-TTTTCTCAAAGT
1 AGGAGCATTT-TATTTTTTCAAAGT
6409817 CGTTAAGCCT
Statistics
Matches: 438, Mismatches: 79, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
82 45 0.10
83 79 0.18
84 147 0.34
85 163 0.37
86 4 0.01
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (84 bp):
AGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAG
TTGTGGTGCCTTTGTTTAG
Found at i:6409759 original size:252 final size:249
Alignment explanation
Indices: 6409242--6409843 Score: 744
Period size: 252 Copynumber: 2.4 Consensus size: 249
6409232 GTTGCCTATA
* * * *
6409242 TTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGATGCCTTTGTTTAGAGGAGCAATTTATTTTTT
1 TTTAGAGGAGCATTTTA-TTTTTAAAAGT-GTGGTGCCTTTGTTTAGAGGAGCATTTTATTTTTT
* * * * * * * *
6409307 CAAAGTTGTTGAGCCTCTGTTTAGAAGTGCTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGA
64 CAAAGTCGTTGAACCTTTGTTTAGAGGAGCTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGA
* **
6409372 TGAGCATTTTATTTTGTCCAAAGTTGTGGTGCCTTTGTTTAAAGGAACATTTTACTTTTCCAAAG
129 AGAGCATTTTATTTTGTCCAAAGTTGTGGTGCCCCTGTTTAAAGGAACATTTTACTTTTCCAAAG
* * * * * * *
6409437 TTGTGGTGTCTTTGTTTAGATGAGCATTTTATTTTTTCCAAAGTTGCGGTGCCTCTG
194 TCGT-GTGACTCTGTTTAGAGGAGCATTTTATTTTTTCCAAAATTACGGTACCTCTG
* * * *
6409494 TTTAGATGAGCATTTTACATTTTGAAAGTGGTGGTGCCTTTATTTAGAGGAGCATTTTATTTTTT
1 TTTAGAGGAGCATTTTA-TTTTTAAAAGT-GTGGTGCCTTTGTTTAGAGGAGCATTTTATTTTTT
6409559 CAAAGTCGTTGAACCTTTGTTTAGAGGAGCATTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTA
64 CAAAGTCGTTGAACCTTTGTTTAGAGGAGC--TTTACTTTTCCAAAGTTATGGTGCCTCTGTTTA
* * * * * *
6409624 GAAGAGCATTTTATTTTTTTCAAAGTTGTGGTGCCCCTGTTTAGAGGAGCATTTTATTTTTTCAA
127 GAAGAGCATTTTATTTTGTCCAAAGTTGTGGTGCCCCTGTTTAAAGGAACATTTTACTTTTCCAA
*
6409689 AGTCGT-TGAACTCTGTTTAGAGGAGCATTTTATTTTTT-CAAAATTATGGTACCTCTG
192 AGTCGTGTG-ACTCTGTTTAGAGGAGCATTTTATTTTTTCCAAAATTACGGTACCTCTG
* *
6409746 TTTAGAGGAGCATTTTATTTTTCAAAAGCTGTGGTACCTTTGTTTAGAGGAGCATTTGT-TTTTC
1 TTTAGAGGAGCATTTTATTTTT-AAAAG-TGTGGTGCCTTTGTTTAGAGGAGCATTT-TATTTTT
*
6409810 TCAAAGTCGTT-AAGCCTTTATTTAGAGGAGCTTT
63 TCAAAGTCGTTGAA-CCTTTGTTTAGAGGAGCTTT
6409844 GTTTGATTTA
Statistics
Matches: 302, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
250 3 0.01
251 6 0.02
252 174 0.58
253 28 0.09
254 91 0.30
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (249 bp):
TTTAGAGGAGCATTTTATTTTTAAAAGTGTGGTGCCTTTGTTTAGAGGAGCATTTTATTTTTTCA
AAGTCGTTGAACCTTTGTTTAGAGGAGCTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGAAG
AGCATTTTATTTTGTCCAAAGTTGTGGTGCCCCTGTTTAAAGGAACATTTTACTTTTCCAAAGTC
GTGTGACTCTGTTTAGAGGAGCATTTTATTTTTTCCAAAATTACGGTACCTCTG
Found at i:6409866 original size:9 final size:9
Alignment explanation
Indices: 6409852--6409886 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
6409842 TTGTTTGATT
6409852 TAAAAAAAA
1 TAAAAAAAA
6409861 T-AAAAAAA
1 TAAAAAAAA
*
6409869 CAAAAAAAA
1 TAAAAAAAA
6409878 TAAAAAAAA
1 TAAAAAAAA
6409887 GAGATGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:6409875 original size:17 final size:17
Alignment explanation
Indices: 6409853--6409885 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6409843 TGTTTGATTT
6409853 AAAAAAAATAAAAAAAC
1 AAAAAAAATAAAAAAAC
6409870 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
6409886 AGAGATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAC
Found at i:6411756 original size:59 final size:59
Alignment explanation
Indices: 6411665--6411877 Score: 229
Period size: 59 Copynumber: 3.6 Consensus size: 59
6411655 TCAATAATCT
* *
6411665 CTTT-AAAATGAAAATTTGAAAAAAAATATTTTTGAAGGAAAGTTGAATA-TATCAATTTC
1 CTTTGAAAATAAAAATTT-TAAAAAAATATTTTTGAAGGAAAGTTGAA-AGTATCAATTTC
* * * *
6411724 CTTTGAACATAAAAATTTTTAAAAAATATTTTTTAGGGAAAGTTGAAAGTATCAATTTCC
1 CTTTGAAAATAAAAATTTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTT-C
* * * * *
6411784 CTTT-AAAATAAAAATTTTCAAAAAATATTTTTAAAGAAAAGTTAAAAGTATCTATTT-
1 CTTTGAAAATAAAAATTTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTC
*
6411841 TTCTTGAAAAT-AAAATTTTCAAAAAAATATTTCTTGA
1 CT-TTGAAAATAAAAATTTT-AAAAAAATATTT-TTGA
6411878 GTACCAATTT
Statistics
Matches: 131, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
57 1 0.01
58 11 0.08
59 100 0.76
60 19 0.15
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (59 bp):
CTTTGAAAATAAAAATTTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTC
Found at i:6411997 original size:56 final size:60
Alignment explanation
Indices: 6411877--6412003 Score: 172
Period size: 56 Copynumber: 2.2 Consensus size: 60
6411867 ATATTTCTTG
* * * *
6411877 AGTACCAATTTTTCTTAAAAATAAAATTTGAAAAAAATATATTTTTAAGGAAAAGTTGAA
1 AGTATCAATTTTCCTTAAAAATAAAATATGAAAAAAATATATTTTTAAGAAAAAGTTGAA
* *
6411937 AGTATCAATTTTCCTTGAAAATAAAA-ATG-TAAAAA-ATA-TTTTAAGAAAAAGTTGAA
1 AGTATCAATTTTCCTTAAAAATAAAATATGAAAAAAATATATTTTTAAGAAAAAGTTGAA
6411993 AGTATCAATTT
1 AGTATCAATTT
6412004 CTTTGTGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 28 0.46
57 3 0.05
58 5 0.08
59 2 0.03
60 23 0.38
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (60 bp):
AGTATCAATTTTCCTTAAAAATAAAATATGAAAAAAATATATTTTTAAGAAAAAGTTGAA
Found at i:6412689 original size:14 final size:14
Alignment explanation
Indices: 6412644--6412691 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
6412634 GAAAAAATTG
*
6412644 TAAATATTTAAAAAA
1 TAAA-ATTTAAAAAT
*
6412659 TAAAATTATAAATAT
1 TAAAATT-TAAAAAT
*
6412674 TAAAATTTAAACAT
1 TAAAATTTAAAAAT
6412688 TAAA
1 TAAA
6412692 TTTGTTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAATTTAAAAAT
Found at i:6415759 original size:3 final size:3
Alignment explanation
Indices: 6415753--6415811 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
6415743 TTTAAAAAGT
6415753 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6415801 ATA ATA A-A ATA
1 ATA ATA ATA ATA
6415812 GAGTAACAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6416090 original size:14 final size:14
Alignment explanation
Indices: 6416067--6416308 Score: 72
Period size: 14 Copynumber: 17.2 Consensus size: 14
6416057 CTTTTTTTTT
6416067 AAACCTTAAAATTC
1 AAACCTTAAAATTC
*
6416081 AAACCCT-AAATCTC
1 AAACCTTAAAAT-TC
*
6416095 AAACCTTAAAATCC
1 AAACCTTAAAATTC
* **
6416109 AAACCCTAAACCTC
1 AAACCTTAAAATTC
6416123 AAACCTT-AAA-TC
1 AAACCTTAAAATTC
** * **
6416135 GAGGCATTAAACCCTC
1 -AAACCTTAAA-ATTC
* *
6416151 AAAACTTAAAACT-
1 AAACCTTAAAATTC
6416164 AAGATCC-T-AAATTGC
1 AA-A-CCTTAAAATT-C
*
6416179 AAACCCTAAAA-TC
1 AAACCTTAAAATTC
* *
6416192 AAAACTTTAAAATCC
1 -AAACCTTAAAATTC
* * *
6416207 AAGCCCTAAAATTA
1 AAACCTTAAAATTC
**
6416221 AAACCTTAAACCTC
1 AAACCTTAAAATTC
*
6416235 AAACCCTAAAA-TC
1 AAACCTTAAAATTC
* * *
6416248 AAAACCCTAAACCCTCC
1 -AAACCTTAAA--ATTC
*
6416265 AAACCCTAAAA-TC
1 AAACCTTAAAATTC
**
6416278 AAAACCTTAAACCTC
1 -AAACCTTAAAATTC
6416293 AAACCTTAAAA-TC
1 AAACCTTAAAATTC
6416306 AAA
1 AAA
6416309 ACTTTAATCC
Statistics
Matches: 166, Mismatches: 42, Indels: 41
0.67 0.17 0.16
Matches are distributed among these distances:
12 2 0.01
13 27 0.16
14 105 0.63
15 19 0.11
16 12 0.07
17 1 0.01
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.20
Consensus pattern (14 bp):
AAACCTTAAAATTC
Found at i:6416099 original size:28 final size:27
Alignment explanation
Indices: 6416067--6416379 Score: 166
Period size: 28 Copynumber: 11.0 Consensus size: 27
6416057 CTTTTTTTTT
*
6416067 AAACCTTAAAATTCAAACCCTAAATCTC
1 AAACCTTAAAA-TCAAACCCTAAACCTC
6416095 AAACCTTAAAATCCAAACCCTAAACCTC
1 AAACCTTAAAAT-CAAACCCTAAACCTC
** **
6416123 AAACCTT-AAATCGAGGCATTAAACCCTC
1 AAACCTTAAAATC-AAACCCTAAA-CCTC
* * *
6416151 AAAACTTAAAA-CTAAGATCCTAAA-TTGC
1 AAACCTTAAAATC-AA-ACCCTAAACCT-C
* ** *
6416179 AAACCCTAAAATCAAAACTTTAAA-ATCC
1 AAACCTTAAAATC-AAACCCTAAACCT-C
* * * *
6416207 AAGCCCTAAAATTAAAACCTTAAACCTC
1 AAACCTTAAAA-TCAAACCCTAAACCTC
*
6416235 AAACCCTAAAATCAAAACCCTAAACCCTCC
1 AAACCTTAAAATC-AAACCCTAAA-CCT-C
* *
6416265 AAACCCTAAAATCAAAACCTTAAACCTC
1 AAACCTTAAAATC-AAACCCTAAACCTC
** *
6416293 AAACCTTAAAATCAAAACTTTAATCCCTCC
1 AAACCTTAAAATC-AAACCCTAA-ACCT-C
* *
6416323 AAACCTTAAATTCAAAGTCCTAAACCTACC
1 AAACCTTAAAATCAAA-CCCTAAACCT--C
* * *
6416353 AAACCATAAAATTAAAACCATAAACCT
1 AAACCTTAAAA-TCAAACCCTAAACCT
6416380 TTTAAACCCT
Statistics
Matches: 226, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.00
27 13 0.06
28 122 0.54
29 27 0.12
30 59 0.26
31 4 0.02
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (27 bp):
AAACCTTAAAATCAAACCCTAAACCTC
Found at i:6416270 original size:30 final size:29
Alignment explanation
Indices: 6416178--6416434 Score: 220
Period size: 30 Copynumber: 8.9 Consensus size: 29
6416168 TCCTAAATTG
* *
6416178 CAAACCCTAAAATCAAAACTTTAAA-ATC
1 CAAACCCTAAAATCAAAACCTTAAACCTC
* *
6416206 CAAGCCCTAAAATTAAAACCTTAAACCT-
1 CAAACCCTAAAATCAAAACCTTAAACCTC
*
6416234 CAAACCCTAAAATCAAAACCCTAAACCCTC
1 CAAACCCTAAAATCAAAACCTTAAA-CCTC
6416264 CAAACCCTAAAATCAAAACCTTAAACCT-
1 CAAACCCTAAAATCAAAACCTTAAACCTC
* * *
6416292 CAAACCTTAAAATCAAAACTTTAATCCCTC
1 CAAACCCTAAAATCAAAACCTTAA-ACCTC
* * *
6416322 CAAACCTTAAATTCAAAGTCC-TAAACCTAC
1 CAAACCCTAAAATCAAA-ACCTTAAACCT-C
* * * *
6416352 CAAACCATAAAATTAAAACCATAAACCTTT
1 CAAACCCTAAAATCAAAACCTTAAACC-TC
* * **
6416382 TAAACCCTCAAATCAAAATTTTAAACC-C
1 CAAACCCTAAAATCAAAACCTTAAACCTC
* * *
6416410 TAAACCAT-AAAGCTAAAACCTTAAA
1 CAAACCCTAAAATC-AAAACCTTAAA
6416435 ACCCTATAAT
Statistics
Matches: 187, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
27 4 0.02
28 82 0.44
29 15 0.08
30 84 0.45
31 2 0.01
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (29 bp):
CAAACCCTAAAATCAAAACCTTAAACCTC
Found at i:6416282 original size:58 final size:58
Alignment explanation
Indices: 6416178--6416439 Score: 237
Period size: 58 Copynumber: 4.5 Consensus size: 58
6416168 TCCTAAATTG
* * * *
6416178 CAAACCCTAAAATCAAAACTTTAAA--ATCCAAGCCCTAAAATTAAAACCTTAAACCT
1 CAAACCCTAAAATCAAAACCTTAAACCCTCCAAACCCTAAAATCAAAACCTTAAACCT
*
6416234 CAAACCCTAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCTTAAACCT
1 CAAACCCTAAAATCAAAACCTTAAACCCTCCAAACCCTAAAATCAAAACCTTAAACCT
* * * * * *
6416292 CAAACCTTAAAATCAAAACTTTAATCCCTCCAAACCTTAAATTCAAAGTCC-TAAACCT
1 CAAACCCTAAAATCAAAACCTTAAACCCTCCAAACCCTAAAATCAAA-ACCTTAAACCT
* * * * ** * **
6416350 ACCAAACCATAAAATTAAAACCATAAACCTTTTAAACCCTCAAATCAAAATTTTAAACC-
1 --CAAACCCTAAAATCAAAACCTTAAACCCTCCAAACCCTAAAATCAAAACCTTAAACCT
* *
6416409 CTAAACCAT-AAAGCTAAAACCTTAAAACCCT
1 C-AAACCCTAAAATC-AAAACCTT-AAACCCT
6416440 ATAATCAAAA
Statistics
Matches: 167, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
56 23 0.14
57 4 0.02
58 90 0.54
59 8 0.05
60 42 0.25
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.21
Consensus pattern (58 bp):
CAAACCCTAAAATCAAAACCTTAAACCCTCCAAACCCTAAAATCAAAACCTTAAACCT
Found at i:6416310 original size:14 final size:14
Alignment explanation
Indices: 6416179--6416310 Score: 106
Period size: 14 Copynumber: 9.3 Consensus size: 14
6416169 CCTAAATTGC
6416179 AAACCCTAAAATCA
1 AAACCCTAAAATCA
** *
6416193 AAACTTTAAAATCC
1 AAACCCTAAAATCA
* *
6416207 AAGCCCTAAAATTA
1 AAACCCTAAAATCA
* *
6416221 AAACCTTAAACCTC-
1 AAACCCTAAA-ATCA
6416235 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
6416249 AAACCCTAAACCCTCC
1 AAACCCTAAA--ATCA
6416265 AAACCCTAAAATCA
1 AAACCCTAAAATCA
* *
6416279 AAACCTTAAACCTC-
1 AAACCCTAAA-ATCA
*
6416293 AAACCTTAAAATCA
1 AAACCCTAAAATCA
6416307 AAAC
1 AAAC
6416311 TTTAATCCCT
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
13 4 0.04
14 72 0.79
15 3 0.03
16 12 0.13
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCA
Done.