Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 114 of 356
Found at i:36290722 original size:21 final size:21
Alignment explanation
Indices: 36290698--36290747 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
36290688 ACAATATCTG
*
36290698 TATCTGGTGACTTCGTCACAA
1 TATCTGGCGACTTCGTCACAA
36290719 TATCTGGCGACTTCGTCACAA
1 TATCTGGCGACTTCGTCACAA
36290740 TATCTGGC
1 TATCTGGC
36290748 AGCCTCGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (21 bp):
TATCTGGCGACTTCGTCACAA
Found at i:36294341 original size:12 final size:12
Alignment explanation
Indices: 36294324--36294348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36294314 AAAATACATT
36294324 ATTAATAAAATA
1 ATTAATAAAATA
36294336 ATTAATAAAATA
1 ATTAATAAAATA
36294348 A
1 A
36294349 CACCTGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAATAAAATA
Found at i:36296626 original size:20 final size:19
Alignment explanation
Indices: 36296578--36296629 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
36296568 CAAGTGTATG
*
36296578 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
36296596 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
36296615 GTATATAATAATATA
1 GTA-AAAATAATATA
36296630 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:36296712 original size:20 final size:23
Alignment explanation
Indices: 36296687--36296749 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
36296677 TATAATAATT
36296687 ATAAAAG-AAT-AAATA-AAAAA
1 ATAAAAGAAATGAAATAGAAAAA
36296707 ATAAAAGAAATGAAATAGAAAAA
1 ATAAAAGAAATGAAATAGAAAAA
** *
36296730 GGAATAGAAATAGAAATAGA
1 ATAAAAGAAAT-GAAATAGA
36296750 GAAGTAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 7 0.19
21 3 0.08
22 5 0.14
23 13 0.36
24 8 0.22
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (23 bp):
ATAAAAGAAATGAAATAGAAAAA
Found at i:36296727 original size:6 final size:6
Alignment explanation
Indices: 36296712--36296749 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
36296702 AAAAAATAAA
* *
36296712 AGAAAT -GAAAT AGAAAA AGGAAT AGAAAT AGAAAT AGA
1 AGAAAT AGAAAT AGAAAT AGAAAT AGAAAT AGAAAT AGA
36296750 GAAGTAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (6 bp):
AGAAAT
Found at i:36296788 original size:22 final size:21
Alignment explanation
Indices: 36296763--36296805 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
36296753 GTAAAACGAA
36296763 AGAAA-AATAAAGAAGGAAAAAG
1 AGAAAGAA-AAAGAA-GAAAAAG
*
36296785 AGAAAGAAAAAGGAGAAAAAG
1 AGAAAGAAAAAGAAGAAAAAG
36296806 TTAGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (21 bp):
AGAAAGAAAAAGAAGAAAAAG
Found at i:36296803 original size:20 final size:20
Alignment explanation
Indices: 36296761--36296803 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
36296751 AAGTAAAACG
*
36296761 AAAGAAAAATAAAGAAGGAA
1 AAAGAAAAAGAAAGAAGGAA
*
36296781 AAAGAGAAAGAAA-AAGGAGA
1 AAAGAAAAAGAAAGAAGGA-A
36296801 AAA
1 AAA
36296804 AGTTAGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGGAA
Found at i:36298403 original size:19 final size:20
Alignment explanation
Indices: 36298366--36298412 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
36298356 TTAGCACAGA
36298366 ATGAGAAAGTTGATAAGATG
1 ATGAGAAAGTTGATAAGATG
*
36298386 ATGAGAGAAG-TG-TAAGATT
1 ATGAGA-AAGTTGATAAGATG
36298405 AT-AGAAAG
1 ATGAGAAAG
36298413 AAACCAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 8 0.32
20 8 0.32
21 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (20 bp):
ATGAGAAAGTTGATAAGATG
Found at i:36312062 original size:23 final size:22
Alignment explanation
Indices: 36312019--36312062 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
36312009 TAACCTTTAT
* *
36312019 TTAATGAATTACATTTTTAACC
1 TTAATGAATAACATTTATAACC
36312041 TTAATGAATAAACATTTATAAC
1 TTAATGAAT-AACATTTATAAC
36312063 ATCCATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
TTAATGAATAACATTTATAACC
Found at i:36312566 original size:20 final size:19
Alignment explanation
Indices: 36312518--36312569 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
36312508 CAAGTGTATG
*
36312518 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
36312536 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
36312555 GTATATAATAATATA
1 GTA-AAAATAATATA
36312570 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:36312602 original size:5 final size:5
Alignment explanation
Indices: 36312592--36312640 Score: 80
Period size: 5 Copynumber: 9.8 Consensus size: 5
36312582 TATTTAAATA
* *
36312592 TATAT TATAT TATAT TGTAT TGTAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
36312641 AAAAGAGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:36312731 original size:21 final size:20
Alignment explanation
Indices: 36312707--36312750 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
36312697 AAGTAAAACG
36312707 AAAGAAAAAAGAAAGAAGGA-A
1 AAAG-AAAAAGAAA-AAGGAGA
*
36312728 AAAGAGAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAGGAGA
36312748 AAA
1 AAA
36312751 AGCTAGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGGAGA
Found at i:36312735 original size:16 final size:15
Alignment explanation
Indices: 36312710--36312739 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36312700 TAAAACGAAA
36312710 GAAAAAAGAAAGAAG
1 GAAAAAAGAAAGAAG
36312725 GAAAAAGAGAAAGAA
1 GAAAAA-AGAAAGAA
36312740 AAAGGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAAAAGAAAGAAG
Found at i:36312989 original size:24 final size:24
Alignment explanation
Indices: 36312961--36313007 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36312951 TTGAAATGGA
36312961 ATTG-ATTTAGTATATGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
36312985 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
36313008 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:36313218 original size:41 final size:40
Alignment explanation
Indices: 36313172--36313305 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 40
36313162 ACTTCGAGTT
*
36313172 GATGAGGCATTGGATGTCAATTTACTATTTCGGATTAGTTC
1 GATGAGGCATTGG-TGTCAATTTACTATTTCGGATTAGTCC
* * *
36313213 GATGAGACATTGGGTGTCAAATTAC--TTT-GGTTTAG-CC
1 GATGAGGCATT-GGTGTCAATTTACTATTTCGGATTAGTCC
* * * **
36313250 GATGAGGCACTAGGTGTCAATTTATTACTTCAAATTA-TCC
1 GATGAGGCA-TTGGTGTCAATTTACTATTTCGGATTAGTCC
36313290 GATGAGGCATTAGGTG
1 GATGAGGCATT-GGTG
36313306 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
37 20 0.27
38 7 0.10
39 6 0.08
40 18 0.25
41 20 0.27
42 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (40 bp):
GATGAGGCATTGGTGTCAATTTACTATTTCGGATTAGTCC
Found at i:36314658 original size:3 final size:3
Alignment explanation
Indices: 36314652--36314677 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36314642 TGTTGTTGCA
36314652 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
36314678 CAACAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:36318617 original size:24 final size:24
Alignment explanation
Indices: 36318562--36318617 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
36318552 ACAAAATGCC
* * *
36318562 ACAAATGCCTAATCAGAATACACC
1 ACAAAGGCCAAATCAGAATACACA
* *
36318586 ATAAAGGCCAAATCAGAATACGCA
1 ACAAAGGCCAAATCAGAATACACA
*
36318610 ACATAGGC
1 ACAAAGGC
36318618 TAATAGAATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (24 bp):
ACAAAGGCCAAATCAGAATACACA
Found at i:36321131 original size:17 final size:17
Alignment explanation
Indices: 36321109--36321142 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36321099 GAACTATGTT
*
36321109 ATTGAGAATACGAAAGA
1 ATTGAGAATACAAAAGA
36321126 ATTGAGAATACAAAAGA
1 ATTGAGAATACAAAAGA
36321143 GAAAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.18
Consensus pattern (17 bp):
ATTGAGAATACAAAAGA
Found at i:36321978 original size:66 final size:66
Alignment explanation
Indices: 36321896--36322027 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
36321886 AGTGGGAATG
*
36321896 GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTTGTAAAGGTTAAATATGTAATTTGG
1 GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
36321961 T
66 T
*
36321962 GTCATAAATGGGCATATATTATGATGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
1 GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
36322027 T
66 T
36322028 ATAAATAAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (66 bp):
GTCATAAATGGGCATATATTATGACGATTTTAAATGGTTTAGTAAAGGTTAAATATGTAATTTGG
T
Found at i:36323015 original size:47 final size:47
Alignment explanation
Indices: 36322962--36323072 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
36322952 GTGTGAATAA
* * *
36322962 TACCTTGATTTGGCTACGGGTCATGGCATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGCATAGGTACTCAGAGAGAAGT
* * * *
36323009 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGCATAGGTACTCAGAGAGAAGT
*
36323056 TACCTTGGTTTGGCTAC
1 TACCTTGATTTGGCTAC
36323073 AAGACCTGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGCATAGGTACTCAGAGAGAAGT
Found at i:36333210 original size:18 final size:19
Alignment explanation
Indices: 36333174--36333212 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36333164 GTAACCCTTG
* *
36333174 TTTCCCAAATTTTCATGTT
1 TTTCCAAAATTATCATGTT
36333193 TTTCCAAAATTATC-TGTT
1 TTTCCAAAATTATCATGTT
36333211 TT
1 TT
36333213 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTCCAAAATTATCATGTT
Found at i:36341833 original size:23 final size:23
Alignment explanation
Indices: 36341807--36341854 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
36341797 ACAAAGTTAT
* *
36341807 TAATTAAAAAGATTTAAAAAGAA
1 TAATTAAAAAAATTTAAAAACAA
36341830 TAATTAAAAAAATTTAAAAACAA
1 TAATTAAAAAAATTTAAAAACAA
36341853 TA
1 TA
36341855 TATTCATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
TAATTAAAAAAATTTAAAAACAA
Found at i:36342795 original size:18 final size:19
Alignment explanation
Indices: 36342763--36342892 Score: 90
Period size: 18 Copynumber: 6.9 Consensus size: 19
36342753 AAATATAAAA
*
36342763 ATAAAAATCA-ATAAAATTT
1 ATAAAAAT-ATATAAAAATT
**
36342782 ATAAAAATAT-TAAATTTT
1 ATAAAAATATATAAAAATT
*
36342800 AATAAAAAAATATAAAAATT
1 -ATAAAAATATATAAAAATT
* *
36342820 AGAAAAA-ATATAAAAAAT
1 ATAAAAATATATAAAAATT
* * **
36342838 ATAAAAGTGTA-AAATTTT
1 ATAAAAATATATAAAAATT
*
36342856 ATAAAAATCATAAAAAAATT
1 ATAAAAAT-ATATAAAAATT
*
36342876 AT-AAAATATATAGAAAT
1 ATAAAAATATATAAAAAT
36342893 ATAGAAAAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
18 42 0.48
19 32 0.37
20 13 0.15
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAATATATAAAAATT
Found at i:36342834 original size:9 final size:9
Alignment explanation
Indices: 36342800--36342843 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
36342790 ATTAAATTTT
36342800 AATA-AAAA
1 AATATAAAA
36342808 AATATAAAA
1 AATATAAAA
* *
36342817 ATTAGAAAA
1 AATATAAAA
36342826 AATATAAAA
1 AATATAAAA
36342835 AATATAAAA
1 AATATAAAA
36342844 GTGTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 4 0.13
9 27 0.87
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AATATAAAA
Found at i:36342853 original size:56 final size:54
Alignment explanation
Indices: 36342750--36342901 Score: 146
Period size: 56 Copynumber: 2.7 Consensus size: 54
36342740 GACATGCGGC
* * * *
36342750 AAAAAATATAAAAA-TAAAAATCA-ATAAAATTTATAAAAATATTAAATTTTAATA
1 AAAAAATATAAAAATTAAAAA-AATATAAAATATATAAAAGTATAAAATTTT-ATA
* *
36342804 AAAAAATATAAAAATTAGAAAAAATATAAAAAATATAAAAGTGTAAAATTTTATA
1 AAAAAATATAAAAATTA-AAAAAATATAAAATATATAAAAGTATAAAATTTTATA
* * * *
36342859 AAAATCATAAAAAAATTATAAAATATATAGAAATATAGAAAAG
1 AAAA-AATATAAAAATTA-AAAAAATATA-AAATATATAAAAG
36342902 AAATTTACAA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
54 14 0.17
55 10 0.12
56 46 0.57
57 11 0.14
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (54 bp):
AAAAAATATAAAAATTAAAAAAATATAAAATATATAAAAGTATAAAATTTTATA
Found at i:36342858 original size:27 final size:27
Alignment explanation
Indices: 36342750--36342871 Score: 74
Period size: 27 Copynumber: 4.5 Consensus size: 27
36342740 GACATGCGGC
* **
36342750 AAAAAATATAAAAA-TA-AAAATCAAT
1 AAAAAATATAAAAATTAGAAATTTTAT
** *
36342775 AAAATTTATAAAAATAT-TAAATTTTAAT
1 AAAAAATATAAAAAT-TAGAAATTTT-AT
***
36342803 AAAAAAATATAAAAATTAGAAAAAATAT
1 -AAAAAATATAAAAATTAGAAATTTTAT
*
36342831 AAAAAATATAAAAGTGTA-AAATTTTAT
1 AAAAAATATAAAAAT-TAGAAATTTTAT
36342858 -AAAAATCATAAAAA
1 AAAAAAT-ATAAAAA
36342872 AATTATAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
25 12 0.16
26 6 0.08
27 31 0.42
28 7 0.10
29 17 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAAATATAAAAATTAGAAATTTTAT
Found at i:36342881 original size:9 final size:9
Alignment explanation
Indices: 36342763--36342881 Score: 53
Period size: 9 Copynumber: 12.7 Consensus size: 9
36342753 AAATATAAAA
*
36342763 ATAAAAATCA
1 ATAAAAAT-T
*
36342773 ATAAAATTT
1 ATAAAAATT
36342782 ATAAAAA-T
1 ATAAAAATT
**
36342790 ATTAAATTTT
1 A-TAAAAATT
*
36342800 AATAAAAAAAT
1 -AT-AAAAATT
36342811 ATAAAAATT
1 ATAAAAATT
* *
36342820 AGAAAAAAT
1 ATAAAAATT
*
36342829 ATAAAAAAT
1 ATAAAAATT
*
36342838 ATAAAAGTGT
1 ATAAAAAT-T
**
36342848 A-AAATTTT
1 ATAAAAATT
36342856 ATAAAAATCAT
1 ATAAAAAT--T
*
36342867 AAAAAAATT
1 ATAAAAATT
36342876 ATAAAA
1 ATAAAA
36342882 TATATAGAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 4 0.05
9 51 0.63
10 13 0.16
11 13 0.16
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:36342958 original size:19 final size:20
Alignment explanation
Indices: 36342926--36342982 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
36342916 TTATAAAGTA
*
36342926 GTAAGAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
* * **
36342946 GTAAAGAAA-TATACAATTT
1 GTAAAAAAATTATAAAAAAT
36342965 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
36342983 TTCGTTAACT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:36343039 original size:8 final size:8
Alignment explanation
Indices: 36343026--36343114 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
36343016 TTTTTATGCA
36343026 TTTTATAT
1 TTTTATAT
36343034 TTTTATAT
1 TTTTATAT
*
36343042 TTTTATAAAA
1 TTTTAT--AT
*
36343052 TTTTACAGT
1 TTTTATA-T
*
36343061 TTTTATTT
1 TTTTATAT
*
36343069 TTTTACGAT
1 TTTTA-TAT
36343078 TTTTATAT
1 TTTTATAT
* **
36343086 ATACAT-T
1 TTTTATAT
36343093 TTTTA-AT
1 TTTTATAT
36343100 TTTTAATAT
1 TTTT-ATAT
36343109 TTTTAT
1 TTTTAT
36343115 TTAAATTTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
7 8 0.13
8 29 0.48
9 17 0.28
10 6 0.10
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTATAT
Found at i:36343079 original size:25 final size:24
Alignment explanation
Indices: 36343014--36343080 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 24
36343004 CAGTTAAAAT
* *
36343014 TTTTTTTATGCATTTTATATTTTTA
1 TTTTTTTAAG-ATTTTACATTTTTA
*
36343039 TATTTTTATAAAATTTTACAGTTTTTA
1 T-TTTTT-TAAGATTTTACA-TTTTTA
*
36343066 TTTTTTTACGATTTT
1 TTTTTTTAAGATTTT
36343081 TATATATACA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 8 0.24
26 17 0.50
27 9 0.26
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTTTTAAGATTTTACATTTTTA
Found at i:36344539 original size:15 final size:14
Alignment explanation
Indices: 36344509--36344535 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36344499 GACATGTATT
36344509 TTTTTAAATATTTA
1 TTTTTAAATATTTA
36344523 TTTTTAAATATTT
1 TTTTTAAATATTT
36344536 TATTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:36344873 original size:3 final size:3
Alignment explanation
Indices: 36344865--36344892 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36344855 CTAAGCTATG
36344865 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
36344893 TTTCATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:36345926 original size:3 final size:3
Alignment explanation
Indices: 36345913--36345943 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
36345903 GGTTAAACTT
*
36345913 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36345944 AAATAGACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:36349738 original size:21 final size:21
Alignment explanation
Indices: 36349712--36349755 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36349702 AAGAAGGATC
36349712 TCGAAACTTTTCTACAAGATT
1 TCGAAACTTTTCTACAAGATT
*
36349733 TCGAAACTTTTCTACAAGTTT
1 TCGAAACTTTTCTACAAGATT
36349754 TC
1 TC
36349756 AGTTTCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (21 bp):
TCGAAACTTTTCTACAAGATT
Found at i:36350086 original size:24 final size:21
Alignment explanation
Indices: 36350041--36350089 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
36350031 TTGATGTGGT
36350041 TGGTGATGATGGATACGATAG
1 TGGTGATGATGGATACGATAG
36350062 TGGTGATGATGGATACGATAG
1 TGGTGATGATGGATACGATAG
*
36350083 TAGTGAT
1 TGGTGAT
36350090 CCTTGTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.37, T:0.31
Consensus pattern (21 bp):
TGGTGATGATGGATACGATAG
Found at i:36352333 original size:48 final size:48
Alignment explanation
Indices: 36352265--36352365 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
36352255 TATGTAATCC
* *
36352265 AATGTACTTAATTTGTATTACAAAGTTTGTTCCAAGTTTTAATTTTGT
1 AATGTACTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGT
* *
36352313 AATGTATTTAATTTATATTACAAAGTTTGTTTCAAGTTTTAATGTTGT
1 AATGTACTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGT
36352361 AATGT
1 AATGT
36352366 TATAATGTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (48 bp):
AATGTACTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGT
Found at i:36352780 original size:33 final size:33
Alignment explanation
Indices: 36352732--36352806 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
36352722 GATACGAACA
* *
36352732 AGAGGAGTGAAGTAATATGGTGGATATGGGCCG
1 AGAGGAGTGAAGTAATATGGTGGATACGGGCAG
* * *
36352765 AGAGAAGTGGAGTAATGTGGTGGATACGGGCAG
1 AGAGGAGTGAAGTAATATGGTGGATACGGGCAG
36352798 AGAGGAGTG
1 AGAGGAGTG
36352807 CTGTACTACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.05, G:0.45, T:0.19
Consensus pattern (33 bp):
AGAGGAGTGAAGTAATATGGTGGATACGGGCAG
Found at i:36355275 original size:16 final size:16
Alignment explanation
Indices: 36355256--36355326 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
36355246 ATAACATGCC
36355256 AAATAAATTACATAAA
1 AAATAAATTACATAAA
*
36355272 AAATAAATCTA-AT-CA
1 AAATAAAT-TACATAAA
** ** *
36355287 ACCTAAAACACATAAC
1 AAATAAATTACATAAA
36355303 AAATAAATTACATAAAA
1 AAATAAATTACAT-AAA
36355320 AAATAAA
1 AAATAAA
36355327 ACATTATTTG
Statistics
Matches: 39, Mismatches: 12, Indels: 7
0.67 0.21 0.12
Matches are distributed among these distances:
14 1 0.03
15 8 0.21
16 19 0.49
17 11 0.28
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:36356527 original size:23 final size:23
Alignment explanation
Indices: 36356479--36356527 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
36356469 CAAAACAGAA
*
36356479 TTTTGTCTGCCTAAGTGCATGGT
1 TTTTGTCTGCCTAAGTGCATGAT
* *
36356502 TTTTGTCTGCCTATGTGCATTAT
1 TTTTGTCTGCCTAAGTGCATGAT
36356525 TTT
1 TTT
36356528 GTGCTCACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.51
Consensus pattern (23 bp):
TTTTGTCTGCCTAAGTGCATGAT
Found at i:36356773 original size:43 final size:43
Alignment explanation
Indices: 36356726--36356962 Score: 307
Period size: 43 Copynumber: 5.5 Consensus size: 43
36356716 AAAAAGTACA
* *
36356726 GCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGAAGCGCC
1 GCTAAAAGTCATGGCCTTTAGTGGCGTTTGTGGGAGAAGCGCC
* *
36356769 GCTAAAAGTCATGACCTTTAGCT-GCATTTGTGGGAGAAGCGCC
1 GCTAAAAGTCATGGCCTTTAG-TGGCGTTTGTGGGAGAAGCGCC
* * * *
36356812 ACTAAAAGTCATAGCCTTTAGCGGCGTTTGTGGGAGAAGCACC
1 GCTAAAAGTCATGGCCTTTAGTGGCGTTTGTGGGAGAAGCGCC
*
36356855 GCTAAAAGTCATGGCCTTTTGGTGGCGTTTGTGGGAGAAGCGCC
1 GCTAAAAGTCATGGCC-TTTAGTGGCGTTTGTGGGAGAAGCGCC
* * ** *
36356899 ACTAAAAGTGATAACCTTTAGTGG-GATTTGTGGGAGAAGAGCC
1 GCTAAAAGTCATGGCCTTTAGTGGCG-TTTGTGGGAGAAGCGCC
36356942 GCTAAAAGTCATGGCCTTTAG
1 GCTAAAAGTCATGGCCTTTAG
36356963 CGGGCTTTTA
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 127 0.77
44 37 0.22
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
GCTAAAAGTCATGGCCTTTAGTGGCGTTTGTGGGAGAAGCGCC
Found at i:36356918 original size:87 final size:86
Alignment explanation
Indices: 36356727--36356963 Score: 325
Period size: 87 Copynumber: 2.7 Consensus size: 86
36356717 AAAAGTACAG
** * * * *
36356727 CTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGAAGCGCCGCTAAAAGTCATGACCTTTAGCT
1 CTAAAAGTCATAACCTTTAGTGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTAGCT
36356792 GCATTTGTGGGAGAAGCGCCA
66 GCATTTGTGGGAGAAGCGCCA
* * * *
36356813 CTAAAAGTCATAGCCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTTGGT
1 CTAAAAGTCATAACCTTTAGTGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTAGCT
*
36356878 GGCGTTTGTGGGAGAAGCGCCA
66 -GCATTTGTGGGAGAAGCGCCA
*
36356900 CTAAAAGTGATAACCTTTAGTGG-GATTTGTGGGAGAAG-AGCCGCTAAAAGTCATGGCCTTTAG
1 CTAAAAGTCATAACCTTTAGTGGCG-TTTGTGGGAGAAGCA-CCGCTAAAAGTCATGGCCTTTAG
36356963 C
64 C
36356964 GGGCTTTTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
86 59 0.44
87 75 0.56
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (86 bp):
CTAAAAGTCATAACCTTTAGTGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGGCCTTTAGCT
GCATTTGTGGGAGAAGCGCCA
Found at i:36356931 original size:130 final size:130
Alignment explanation
Indices: 36356698--36356965 Score: 378
Period size: 130 Copynumber: 2.1 Consensus size: 130
36356688 GATAATGACT
* *
36356698 TTTAGCAGCGTTTGTGGGAAAAAGTACAGCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGA
1 TTTAGCGGCGTTTGTGGGAAAAAGCACAGCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGA
* * *
36356763 AGCGCCGCTAAAAGTCATGACCTTTAGCTGCATTTGTGGGAGAAGCGCCACTAAAAGTCATAGCC
66 AGCGCCACTAAAAGTCATAACCTTTAGCTGCATTTGTGGGAGAAGAGCCACTAAAAGTCATAGCC
* * * * *
36356828 TTTAGCGGCGTTTGTGGG-AGAAGCACCGCTAAAAGTCATGGCCTTTTGGTGGCGTTTGTGGGAG
1 TTTAGCGGCGTTTGTGGGAAAAAGCACAGCTAAAAGTCATGGCC-TTTAGTGGCGCTTGTAGGAG
* * * *
36356892 AAGCGCCACTAAAAGTGATAACCTTTAG-TGGGATTTGTGGGAGAAGAGCCGCTAAAAGTCATGG
65 AAGCGCCACTAAAAGTCATAACCTTTAGCT-GCATTTGTGGGAGAAGAGCCACTAAAAGTCATAG
36356956 CC
129 CC
36356958 TTTAGCGG
1 TTTAGCGG
36356966 GCTTTTATAA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 23 0.19
130 99 0.81
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (130 bp):
TTTAGCGGCGTTTGTGGGAAAAAGCACAGCTAAAAGTCATGGCCTTTAGTGGCGCTTGTAGGAGA
AGCGCCACTAAAAGTCATAACCTTTAGCTGCATTTGTGGGAGAAGAGCCACTAAAAGTCATAGCC
Found at i:36357196 original size:33 final size:31
Alignment explanation
Indices: 36357080--36357176 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
36357070 AACCCTTCAT
*
36357080 GCATTAAATCCAACAAAAAACAGCAAATATA
1 GCATGAAATCCAACAAAAAACAGCAAATATA
36357111 GCATGAAATCCAACAAAAAACAGCAAATATA
1 GCATGAAATCCAACAAAAAACAGCAAATATA
* * *
36357142 GCATGAAATCCAACCAAAAACAACCAATATA
1 GCATGAAATCCAACAAAAAACAGCAAATATA
36357173 GCAT
1 GCAT
36357177 AAAAAATACA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.56, C:0.22, G:0.08, T:0.14
Consensus pattern (31 bp):
GCATGAAATCCAACAAAAAACAGCAAATATA
Found at i:36357522 original size:33 final size:31
Alignment explanation
Indices: 36357411--36357502 Score: 166
Period size: 31 Copynumber: 3.0 Consensus size: 31
36357401 TTCCTGCGTT
36357411 AAATCCAACAAAAAACAGCAAATATAGCATG
1 AAATCCAACAAAAAACAGCAAATATAGCATG
36357442 AAATCCAACAAAAAACAGCAAATATAGCATG
1 AAATCCAACAAAAAACAGCAAATATAGCATG
* *
36357473 AAATCCAACCAAAAACAACAAATATAGCAT
1 AAATCCAACAAAAAACAGCAAATATAGCAT
36357503 AAAAAATACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.59, C:0.21, G:0.08, T:0.13
Consensus pattern (31 bp):
AAATCCAACAAAAAACAGCAAATATAGCATG
Found at i:36357619 original size:326 final size:326
Alignment explanation
Indices: 36357026--36357672 Score: 1249
Period size: 326 Copynumber: 2.0 Consensus size: 326
36357016 TTACAAATGC
36357026 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
1 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
36357091 AACAAAAAACAGCAAATATAGCATGAAATCCAACAAAAAACAGCAAATATAGCATGAAATCCAAC
66 AACAAAAAACAGCAAATATAGCATGAAATCCAACAAAAAACAGCAAATATAGCATGAAATCCAAC
*
36357156 CAAAAACAACCAATATAGCATAAAAAATACAACCAAAAACATTAAATCTAAATGATACTTCAAAT
131 CAAAAACAACAAATATAGCATAAAAAATACAACCAAAAACATTAAATCTAAATGATACTTCAAAT
*
36357221 TCAACGAAAGATATATGATGTAAATTAATAAATAAAGTATAACTCAAAATATTCTTATAATAATT
196 TCAACGAAAGATATATGATGTAAATTAATAAATAAAGTATAACTCAAAATATTCTTACAATAATT
36357286 TTAAATGTGACAATGTTAAAAATAGTCTTACAACGAGAAAACAAATGTCTAAGATGACGGCAACG
261 TTAAATGTGACAATGTTAAAAATAGTCTTACAACGAGAAAACAAATGTCTAAGATGACGGCAACG
36357351 T
326 T
* *
36357352 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCCTGCGTTAAATCC
1 CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
36357417 AACAAAAAACAGCAAATATAGCATGAAATCCAACAAAAAACAGCAAATATAGCATGAAATCCAAC
66 AACAAAAAACAGCAAATATAGCATGAAATCCAACAAAAAACAGCAAATATAGCATGAAATCCAAC
36357482 CAAAAACAACAAATATAGCATAAAAAATACAACCAAAAACATTAAATCTAAATGATACTTCAAAT
131 CAAAAACAACAAATATAGCATAAAAAATACAACCAAAAACATTAAATCTAAATGATACTTCAAAT
36357547 TCAACGAAAGATATATGATGTAAATTAATAAATAAAGTATAACTCAAAATATTCTTACAATAATT
196 TCAACGAAAGATATATGATGTAAATTAATAAATAAAGTATAACTCAAAATATTCTTACAATAATT
*
36357612 TTAAATGTGACAATGTTAAAAATAGTCTTACAATGAGAAAACAAATGTCTAAGATGACGGC
261 TTAAATGTGACAATGTTAAAAATAGTCTTACAACGAGAAAACAAATGTCTAAGATGACGGC
36357673 TTTTGCGACT
Statistics
Matches: 316, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
326 316 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (326 bp):
CGCTAATTTTGGCAGATTTGCAATATACATTTTCACCAATATCGAACCCTTCATGCATTAAATCC
AACAAAAAACAGCAAATATAGCATGAAATCCAACAAAAAACAGCAAATATAGCATGAAATCCAAC
CAAAAACAACAAATATAGCATAAAAAATACAACCAAAAACATTAAATCTAAATGATACTTCAAAT
TCAACGAAAGATATATGATGTAAATTAATAAATAAAGTATAACTCAAAATATTCTTACAATAATT
TTAAATGTGACAATGTTAAAAATAGTCTTACAACGAGAAAACAAATGTCTAAGATGACGGCAACG
T
Found at i:36357785 original size:21 final size:21
Alignment explanation
Indices: 36357761--36357803 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36357751 CCATCGCTGT
36357761 TGCCTCTGACTCTCTTACTGC
1 TGCCTCTGACTCTCTTACTGC
* * *
36357782 TGCCTCTGCCTCTTTTGCTGC
1 TGCCTCTGACTCTCTTACTGC
36357803 T
1 T
36357804 ACCGCTGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.37, G:0.16, T:0.42
Consensus pattern (21 bp):
TGCCTCTGACTCTCTTACTGC
Found at i:36363320 original size:9 final size:9
Alignment explanation
Indices: 36363306--36363427 Score: 74
Period size: 9 Copynumber: 13.7 Consensus size: 9
36363296 TAAGTATAAT
36363306 TAAGTTATG
1 TAAGTTATG
36363315 TAAGTTATG
1 TAAGTTATG
* * *
36363324 ATATGATATA
1 -TAAGTTATG
*
36363334 T-ATTTATG
1 TAAGTTATG
36363342 T-A-TTATG
1 TAAGTTATG
36363349 TAAGTTATG
1 TAAGTTATG
*
36363358 TAAATTATG
1 TAAGTTATG
36363367 TAAGTTATG
1 TAAGTTATG
* * *
36363376 AAATTTGAAATC
1 TAAGTT---ATG
*
36363388 TAAATTATG
1 TAAGTTATG
36363397 TAAGTTATG
1 TAAGTTATG
36363406 T-A-TTATG
1 TAAGTTATG
*
36363413 TAAATTATG
1 TAAGTTATG
*
36363422 TGAGTT
1 TAAGTT
36363428 GCTAGTGAAC
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
7 12 0.14
8 8 0.09
9 55 0.63
10 6 0.07
12 6 0.07
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:36363375 original size:34 final size:34
Alignment explanation
Indices: 36363310--36363422 Score: 103
Period size: 34 Copynumber: 3.4 Consensus size: 34
36363300 TATAATTAAG
* * * *
36363310 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATTATGTA-AGTTATGTA
*
36363344 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATG-TA
*
36363379 TT-TG-AA---ATCTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
*
36363408 TTATGTAAATTATGT
1 TTATGTAAGTTATGT
36363423 GAGTTGCTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
29 3 0.05
30 22 0.34
31 2 0.03
33 2 0.03
34 25 0.39
35 10 0.16
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
Found at i:36367227 original size:120 final size:120
Alignment explanation
Indices: 36367071--36367326 Score: 442
Period size: 120 Copynumber: 2.1 Consensus size: 120
36367061 TTACTCAACA
36367071 CTTTTGCGGCATTTTTAGATAAGTACCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
1 CTTTTGCGGCATTTTTAGATAAGTACCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
* *
36367136 TCGCTAATGCTTGATCATTTGC-GACATTTGTTACATAAGCGCCGTTAATAGTGAT
66 TCACTAATGCTTGATCATTTACGGA-ATTTGTTACATAAGCGCCGTTAATAGTGAT
* * *
36367191 CTTTTGCAGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
1 CTTTTGCGGCATTTTTAGATAAGTACCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
*
36367256 TCACTAATGCTTGATCATTTACGGAGTTTGTTACATAAGCGCCGTTAATAGTGAT
66 TCACTAATGCTTGATCATTTACGGAATTTGTTACATAAGCGCCGTTAATAGTGAT
36367311 CTTTTGCGGCATTTTT
1 CTTTTGCGGCATTTTT
36367327 TTCACAAGTG
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 125 0.98
121 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (120 bp):
CTTTTGCGGCATTTTTAGATAAGTACCGCTAATGCTTGACCTATAGCGGTGTTTTTCAAGAAACG
TCACTAATGCTTGATCATTTACGGAATTTGTTACATAAGCGCCGTTAATAGTGAT
Found at i:36367245 original size:40 final size:40
Alignment explanation
Indices: 36367076--36367246 Score: 111
Period size: 40 Copynumber: 4.3 Consensus size: 40
36367066 CAACACTTTT
* *
36367076 GCGGCATTTTTAGATAAGTACCGCTAATGCTTGACCTATA
1 GCGGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATA
* * *
36367116 GCGGTGTTTTTCAAGA-AACGT--CGCTAATGCTTGATC-ATTT
1 GCGGCGTTTTT--AGATAA-GTGCCGCTAATGCTTGACCTA-TA
* * * * * * * *
36367156 GCGACATTTGTTACATAAGCGCCGTTAATAG--TGATCTTTT
1 GCGGCGTTT-TTAGATAAGTGCCGCTAAT-GCTTGACCTATA
*
36367196 GCAGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATA
1 GCGGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATA
*
36367236 GCGGTGTTTTT
1 GCGGCGTTTTT
36367247 CAAGAAACGT
Statistics
Matches: 97, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
38 1 0.01
39 20 0.21
40 60 0.62
41 10 0.10
42 6 0.06
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (40 bp):
GCGGCGTTTTTAGATAAGTGCCGCTAATGCTTGACCTATA
Found at i:36379741 original size:5 final size:6
Alignment explanation
Indices: 36379726--36379751 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36379716 AATGTATCTA
36379726 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
36379752 TATGTGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:36382527 original size:99 final size:99
Alignment explanation
Indices: 36382356--36382549 Score: 334
Period size: 99 Copynumber: 2.0 Consensus size: 99
36382346 ATCTACTGTC
*
36382356 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAAT
* * *
36382421 ACTAAGTGTAGGCTACTATGTGTATCAGATGATT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATGATT
*
36382455 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAAT
*
36382520 ACTAAGTGCGGGCTACTATGCGTACCAGAT
66 ACTAAGTGCAGGCTACTATGCGTACCAGAT
36382550 AGCTTTGGCT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (99 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAAT
ACTAAGTGCAGGCTACTATGCGTACCAGATGATT
Found at i:36382545 original size:49 final size:49
Alignment explanation
Indices: 36382364--36382550 Score: 248
Period size: 49 Copynumber: 3.8 Consensus size: 49
36382354 TCAGGTCACG
**
36382364 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
36382413 TGTGTAATACTAAGTGTAGGCTACTATGTGTATCAGATGATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
*
36382463 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
36382512 TGTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
36382551 GCTTTGGCTA
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
49 75 0.65
50 41 0.35
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:36384871 original size:13 final size:14
Alignment explanation
Indices: 36384847--36384875 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36384837 TATTAAAGTG
36384847 ATTATCTTAATATA
1 ATTATCTTAATATA
36384861 ATTAT-TTAATATA
1 ATTATCTTAATATA
36384874 AT
1 AT
36384876 ACTTATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATCTTAATATA
Found at i:36384921 original size:39 final size:33
Alignment explanation
Indices: 36384832--36384928 Score: 101
Period size: 39 Copynumber: 2.8 Consensus size: 33
36384822 TAAAATACTG
*
36384832 TTTAATATTAAAGTGATTATCTTAATATAATTA
1 TTTAATATTAAAGTAATTATCTTAATATAATTA
*
36384865 TTTAATA-T-AA-TACTTATCTTAATAGTATTTTATTAA
1 TTTAATATTAAAGTAATTATCTTAATA-TA----ATT-A
36384901 TTTAATATTAAAGTAATTATCTTAATAT
1 TTTAATATTAAAGTAATTATCTTAATAT
36384929 TAAATTAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
30 12 0.23
31 4 0.08
32 1 0.02
33 7 0.13
35 3 0.06
36 8 0.15
37 1 0.02
38 3 0.06
39 13 0.25
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (33 bp):
TTTAATATTAAAGTAATTATCTTAATATAATTA
Found at i:36389404 original size:22 final size:22
Alignment explanation
Indices: 36389379--36389422 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36389369 TAGTCATATA
36389379 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
36389401 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
36389423 TATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:36389461 original size:19 final size:19
Alignment explanation
Indices: 36389439--36389494 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
36389429 ATTTTTCAAT
36389439 TTTATTTTAATAATAAATA
1 TTTATTTTAATAATAAATA
** *
36389458 TTTATTACAATTATAAATA
1 TTTATTTTAATAATAAATA
36389477 --TA--TTAATAATAAATA
1 TTTATTTTAATAATAAATA
36389492 TTT
1 TTT
36389495 TGTAGTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 10 0.34
17 3 0.10
19 16 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATTTTAATAATAAATA
Found at i:36389490 original size:15 final size:15
Alignment explanation
Indices: 36389445--36389492 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
36389435 CAATTTTATT
36389445 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
36389462 TTACAATTATAAATATA
1 TT--AATAATAAATATA
36389479 TTAATAATAAATAT
1 TTAATAATAAATAT
36389493 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:36389670 original size:14 final size:14
Alignment explanation
Indices: 36389651--36389688 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
36389641 TCAGAAAAGT
36389651 AAATCATTTTTCAG
1 AAATCATTTTTCAG
36389665 AAATCA-TTTTCAG
1 AAATCATTTTTCAG
36389678 AAAGTCATTTT
1 AAA-TCATTTT
36389689 CAGTGAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:36389689 original size:14 final size:13
Alignment explanation
Indices: 36389651--36389691 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 13
36389641 TCAGAAAAGT
36389651 AAATCATTTTTCAG
1 AAATCA-TTTTCAG
36389665 AAATCATTTTCAG
1 AAATCATTTTCAG
36389678 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
36389692 TGAAACAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:36392834 original size:3 final size:3
Alignment explanation
Indices: 36392828--36392859 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
36392818 TGATGATGAT
*
36392828 GAG GAG GAG GAG GAG GAG GAG GAG GAA GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
36392860 TAAGCAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:36395270 original size:18 final size:18
Alignment explanation
Indices: 36395243--36395282 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36395233 AAATTGTTAT
* *
36395243 TTAAAATAATATTTTCTG
1 TTAAAATAATAATTTCTA
*
36395261 TTAAATTAATAATTTCTA
1 TTAAAATAATAATTTCTA
36395279 TTAA
1 TTAA
36395283 TTTTATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (18 bp):
TTAAAATAATAATTTCTA
Found at i:36396018 original size:32 final size:32
Alignment explanation
Indices: 36395982--36396046 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
36395972 TTGATCTGCG
*
36395982 AATCTATATGGACTAGTTGGACTGAGCTAAAA
1 AATCTATATGGACTAGTTGAACTGAGCTAAAA
36396014 AATCTATATGGACTAGTTGAACTGAGCTAAAA
1 AATCTATATGGACTAGTTGAACTGAGCTAAAA
36396046 A
1 A
36396047 TTTAGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (32 bp):
AATCTATATGGACTAGTTGAACTGAGCTAAAA
Found at i:36396147 original size:20 final size:20
Alignment explanation
Indices: 36396119--36396157 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
36396109 AGTTCAAAGC
36396119 AAAAAAAAAT-TATAAAATAA
1 AAAAAAAAATATAT-AAATAA
36396139 AAAATAAAAATATATAAAT
1 AAAA-AAAAATATATAAAT
36396158 TATAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 10 0.59
22 3 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAAAAATATATAAATAA
Found at i:36396154 original size:22 final size:22
Alignment explanation
Indices: 36396119--36396166 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
36396109 AGTTCAAAGC
36396119 AAAA-AAAAATTATAAAATA-A
1 AAAATAAAAATTATAAAATATA
*
36396139 AAAATAAAAATATATAAATTATA
1 AAAATAAAAAT-TATAAAATATA
36396162 AAAAT
1 AAAAT
36396167 CAGTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.25
22 8 0.33
23 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATAAAAATTATAAAATATA
Found at i:36400307 original size:41 final size:41
Alignment explanation
Indices: 36400181--36400407 Score: 316
Period size: 41 Copynumber: 5.6 Consensus size: 41
36400171 CTCGCACAAG
* * * * * * *
36400181 GCCTTCGGGTCTTAACACGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
36400221 GCCTTCGGGACTTAGCCCGGATATAGTCG-TTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
36400261 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
36400302 GCCTTCGGGACTTAGCGCGGATATAGTCGCTTAGTACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
36400343 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
36400384 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
36400408 CATTCGAGTA
Statistics
Matches: 168, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 56 0.33
41 106 0.63
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:36403798 original size:8 final size:8
Alignment explanation
Indices: 36403787--36403828 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
36403777 TTTAAGAAAT
36403787 TAATATAA
1 TAATATAA
36403795 TAATATAA
1 TAATATAA
36403803 TAATATAA
1 TAATATAA
36403811 T--T-TAA
1 TAATATAA
36403816 TAATATAA
1 TAATATAA
36403824 TAATA
1 TAATA
36403829 AAACATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.13
6 1 0.03
7 1 0.03
8 25 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:36403810 original size:13 final size:13
Alignment explanation
Indices: 36403794--36403825 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36403784 AATTAATATA
36403794 ATAATATAATAAT
1 ATAATATAATAAT
*
36403807 ATAATTTAATAAT
1 ATAATATAATAAT
36403820 ATAATA
1 ATAATA
36403826 ATAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:36403816 original size:21 final size:21
Alignment explanation
Indices: 36403787--36403828 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
36403777 TTTAAGAAAT
36403787 TAATATAATAATATAATAATA
1 TAATATAATAATATAATAATA
*
36403808 TAATTTAATAATATAATAATA
1 TAATATAATAATATAATAATA
36403829 AAACATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATAATAATATAATAATA
Found at i:36404762 original size:44 final size:44
Alignment explanation
Indices: 36404712--36404800 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
36404702 TGTACAGGGA
36404712 TACTTCGACCTTGAGTCGATGAGGCACTAAT-AGTGTCATACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACT-ATGAGTGTCATACTGT
* * * *
36404756 TACTTCGACTTTGTGTCGATGAGGCACTTTGTGTGTCATACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGT
36404800 T
1 T
36404801 TCTGTTACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGT
Found at i:36407889 original size:33 final size:34
Alignment explanation
Indices: 36407847--36407918 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
36407837 AGTCCATTAG
* *
36407847 TGATTCAAGAT-AGAATTTTTCTTGTTGATTTAT
1 TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
36407880 TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
1 TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
36407914 TGATT
1 TGATT
36407919 ATGCCGTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 11 0.31
34 25 0.69
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (34 bp):
TGATTCAAGATAAAAATTTTTCCTGTTGATTTAT
Found at i:36411403 original size:8 final size:8
Alignment explanation
Indices: 36411392--36411435 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
36411382 TTTAAGAAAT
36411392 TAATATAA
1 TAATATAA
36411400 TAATAT-A
1 TAATATAA
*
36411407 TTA-AT-A
1 TAATATAA
36411413 TAATATAA
1 TAATATAA
36411421 TAATATAA
1 TAATATAA
36411429 TAATATA
1 TAATATA
36411436 CTAAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 5 0.16
8 22 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATATAA
Found at i:36411411 original size:16 final size:16
Alignment explanation
Indices: 36411390--36411435 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
36411380 TATTTAAGAA
36411390 ATTAATATAATAATAT
1 ATTAATATAATAATAT
36411406 ATTAATATAAT-ATA-
1 ATTAATATAATAATAT
36411420 A-TAATATAATAATAT
1 ATTAATATAATAATAT
36411435 A
1 A
36411436 CTAAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.32
14 4 0.14
15 4 0.14
16 11 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAATATAATAATAT
Found at i:36411417 original size:13 final size:13
Alignment explanation
Indices: 36411399--36411430 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36411389 AATTAATATA
*
36411399 ATAATATATTAAT
1 ATAATATAATAAT
36411412 ATAATATAATAAT
1 ATAATATAATAAT
36411425 ATAATA
1 ATAATA
36411431 ATATACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:36411418 original size:21 final size:21
Alignment explanation
Indices: 36411392--36411435 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36411382 TTTAAGAAAT
*
36411392 TAATATAATAATATATTAATA
1 TAATATAATAATATAATAATA
36411413 TAATATAATAATATAATAATA
1 TAATATAATAATATAATAATA
36411434 TA
1 TA
36411436 CTAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATAATAATATAATAATA
Found at i:36414787 original size:26 final size:26
Alignment explanation
Indices: 36414758--36414865 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
36414748 TGATACAAAT
36414758 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
36414784 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36414810 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36414836 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36414862 TGAT
1 TGAT
36414866 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36416331 original size:26 final size:26
Alignment explanation
Indices: 36416301--36416353 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
36416291 TTTATAGTTT
*
36416301 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
36416327 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
36416353 T
1 T
36416354 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:36428460 original size:44 final size:44
Alignment explanation
Indices: 36428384--36428487 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 44
36428374 GGCTATATGA
* * * * *
36428384 GGCACTAAGTGTGCAATATCGAGATAATTTCAGTTTAAT-GTGAT
1 GGCACTAAGTGTGCGAGATCGAGATAACTTCAG-CTAATACTGAT
** *
36428428 GGCACTAAGTGTGCGAGATCGTTATAGCTTCAGCTAATCACTGAT
1 GGCACTAAGTGTGCGAGATCGAGATAACTTCAGCTAAT-ACTGAT
36428473 -GCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
36428488 ATTCTTAGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 4 0.08
44 42 0.84
45 4 0.08
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
GGCACTAAGTGTGCGAGATCGAGATAACTTCAGCTAATACTGAT
Found at i:36431958 original size:23 final size:23
Alignment explanation
Indices: 36431928--36432016 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 23
36431918 AACCATATCA
36431928 GGAAGCTCACAAAGAGCCTATTG
1 GGAAGCTCACAAAGAGCCTATTG
* *
36431951 GGAAGCTC-CGAATAGCCATATATTG
1 GGAAGCTCACAAAGAGCC---TATTG
* ** *
36431976 GGAAGTTCA-AGCGAGCACTATCG
1 GGAAGCTCACAAAGAGC-CTATTG
36431999 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
36432017 ATATATCGGG
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
22 7 0.14
23 21 0.43
24 5 0.10
25 15 0.31
26 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATTG
Found at i:36431980 original size:48 final size:49
Alignment explanation
Indices: 36431922--36432027 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 49
36431912 ACAAAGAACC
* * * *
36431922 ATATCAGGAAGCTCACAAAGAGC-CTATTGGGAAGCTC-CGAATAGCCAT
1 ATATCGGGAAGCTCA-AAAGAGCACTATCGGGAAGCTCACAAAGAGCCAT
* * **
36431970 ATATTGGGAAGTTCAAGCGAGCACTATCGGGAAGCTCACAAAGAGCCAT
1 ATATCGGGAAGCTCAAAAGAGCACTATCGGGAAGCTCACAAAGAGCCAT
36432019 ATATCGGGA
1 ATATCGGGA
36432028 TGCTTTTAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
47 5 0.11
48 25 0.53
49 17 0.36
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (49 bp):
ATATCGGGAAGCTCAAAAGAGCACTATCGGGAAGCTCACAAAGAGCCAT
Found at i:36434114 original size:26 final size:26
Alignment explanation
Indices: 36434085--36434244 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
36434075 TGGTACAAAT
36434085 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
36434111 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36434137 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
36434163 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36434189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36434215 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36434241 TGAT
1 TGAT
36434245 GGGCATTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36434150 original size:52 final size:52
Alignment explanation
Indices: 36434085--36434244 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
36434075 TGGTACAAAT
36434085 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
36434137 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
36434189 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
36434241 TGAT
1 TGAT
36434245 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:36435902 original size:27 final size:27
Alignment explanation
Indices: 36435864--36436031 Score: 225
Period size: 27 Copynumber: 6.2 Consensus size: 27
36435854 AGGAAGCGTC
36435864 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
36435891 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
36435918 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
36435945 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
36435972 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
36435999 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
36436026 CTGGTG
1 CTGGTG
36436032 ACTTCGTCAC
Statistics
Matches: 128, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
26 10 0.08
27 115 0.90
28 3 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:36435948 original size:54 final size:54
Alignment explanation
Indices: 36435864--36436031 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
36435854 AGGAAGCGTC
* *
36435864 CTGGTGGCTATGCCACA-ATTATCTGATCTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTTCTGGTGGCTATGCCACAATTATCTGAT
*
36435918 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACAATTATCTGAT
* *
36435972 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACAATTATCTG-AT
36436026 CTGGTG
1 CTGGTG
36436032 ACTTCGTCAC
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
53 6 0.06
54 99 0.93
55 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACAATTATCTGAT
Found at i:36436002 original size:81 final size:81
Alignment explanation
Indices: 36435864--36436031 Score: 268
Period size: 81 Copynumber: 2.1 Consensus size: 81
36435854 AGGAAGCGTC
36435864 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCT
*
36435929 GCCACATATATCTGT-T
66 ACCACA-ATATCTGTAT
* * *
36435945 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTC
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTC
36436009 TACCACAATATCTGTAT
65 TACCACAATATCTGTAT
36436026 CTGGTG
1 CTGGTG
36436032 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
80 10 0.12
81 71 0.88
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCT
ACCACAATATCTGTAT
Found at i:36437316 original size:3 final size:3
Alignment explanation
Indices: 36437302--36437350 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
36437292 TTTTATACTA
*
36437302 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36437345 AA- AAT A
1 AAT AAT A
36437351 TTTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:36437324 original size:11 final size:11
Alignment explanation
Indices: 36437308--36437346 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
36437298 ACTAAATAAT
36437308 TAATAATAAAA
1 TAATAATAAAA
*
36437319 TAATAATGAAA
1 TAATAATAAAA
36437330 TAATAATAAAA
1 TAATAATAAAA
36437341 TAATAA
1 TAATAA
36437347 AATATTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:36437333 original size:19 final size:19
Alignment explanation
Indices: 36437309--36437350 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
36437299 CTAAATAATT
*
36437309 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
36437328 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
36437347 AATA
1 AATA
36437351 TTTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:36438621 original size:6 final size:6
Alignment explanation
Indices: 36438610--36438706 Score: 53
Period size: 6 Copynumber: 16.5 Consensus size: 6
36438600 CAAAACAAAT
* * * *
36438610 AAAAGA AAAAG- AATAGA AAAAGAA ACAAAGTTA AAATGA AACAG- AGAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A A-AAAG--A AAAAGA AAAAGA AAAAGA
* * *
36438660 AAAAG- -AAAGG AAAAGA AAAAG- -AAAGG AAAAGA AAAAGA GAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
36438704 AAA
1 AAA
36438707 GGAGAAAAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
4 8 0.12
5 7 0.10
6 43 0.62
7 2 0.03
8 7 0.10
9 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:36438672 original size:22 final size:22
Alignment explanation
Indices: 36438612--36438715 Score: 58
Period size: 22 Copynumber: 4.7 Consensus size: 22
36438602 AAACAAATAA
*
36438612 AAGAAAAA-GAATAGAAAA-AG
1 AAGAAAAAGGAAAAGAAAAGAG
* *
36438632 AA-ACAAAGTTAAAATGAAACAGAG
1 AAGAAAAAG-GAAAA-GAAA-AGAG
*
36438656 AAGAAAAA-GAAAGGAAAAGA-
1 AAGAAAAAGGAAAAGAAAAGAG
36438676 AA-AAGAAAGGAAAAGAAAAAGAG
1 AAGAA-AAAGGAAAAG-AAAAGAG
*
36438699 AAAGAAAAGGAGAAAAG
1 -AAGAAAAAG-GAAAAG
36438716 TTAGGGATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
19 6 0.10
20 7 0.11
21 11 0.17
22 14 0.22
23 4 0.06
24 9 0.14
25 12 0.19
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.04
Consensus pattern (22 bp):
AAGAAAAAGGAAAAGAAAAGAG
Found at i:36438677 original size:5 final size:5
Alignment explanation
Indices: 36438660--36438707 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
36438650 ACAGAGAAGA
* *
36438660 AAAAG AAAGG AAAAG AAAAAG AAAGG AAAAG AAAAAG AGAAAG AAAAG
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG -AAAAG A-AAAG AAAAG
36438708 GAGAAAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 21 0.58
6 15 0.42
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:36438677 original size:16 final size:16
Alignment explanation
Indices: 36438656--36438707 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
36438646 TGAAACAGAG
36438656 AAGAAAAAGAAAGGAA
1 AAGAAAAAGAAAGGAA
36438672 AAGAAAAAGAAAGGAA
1 AAGAAAAAGAAAGGAA
*
36438688 AAGAAAAAGAGAAAGAA
1 AAGAAAAAGA-AAGGAA
36438705 AAG
1 AAG
36438708 GAGAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 26 0.76
17 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAGGAA
Found at i:36438706 original size:11 final size:11
Alignment explanation
Indices: 36438647--36438713 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
36438637 AAGTTAAAAT
36438647 GAAACAGAG-AA
1 GAAA-AGAGAAA
36438658 GAAAA-AGAAA
1 GAAAAGAGAAA
*
36438668 GGAAAAGAAAAA
1 -GAAAAGAGAAA
*
36438680 GAAAGGA-AAA
1 GAAAAGAGAAA
36438690 GAAAAAGAGAAA
1 G-AAAAGAGAAA
36438702 GAAAAGGAGAAA
1 GAAAA-GAGAAA
36438714 AGTTAGGGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 2 0.04
10 7 0.15
11 24 0.51
12 14 0.30
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (11 bp):
GAAAAGAGAAA
Found at i:36438711 original size:12 final size:12
Alignment explanation
Indices: 36438663--36438713 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
36438653 GAGAAGAAAA
36438663 AGAAAGGAAAA-G
1 AGAAA-GAAAAGG
*
36438675 AAAAAG-AAAGG
1 AGAAAGAAAAGG
*
36438686 A-AAAGAAAAAG
1 AGAAAGAAAAGG
36438697 AGAAAGAAAAGG
1 AGAAAGAAAAGG
36438709 AGAAA
1 AGAAA
36438714 AGTTAGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 7 0.21
11 8 0.24
12 18 0.55
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAGG
Found at i:36439256 original size:29 final size:29
Alignment explanation
Indices: 36439224--36439280 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
36439214 AAAGATAGAG
36439224 TCGACGAGGAATAACTTGAAAGTTTCTAC
1 TCGACGAGGAATAACTTGAAAGTTTCTAC
36439253 TCGACGAGGAATAACTTGAAAGTTTCTA
1 TCGACGAGGAATAACTTGAAAGTTTCTA
36439281 GTTTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (29 bp):
TCGACGAGGAATAACTTGAAAGTTTCTAC
Found at i:36457261 original size:24 final size:25
Alignment explanation
Indices: 36457186--36457268 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 25
36457176 CTATCCAGAG
*
36457186 CTTCCCGA-TATGGTTCTTTGTAAA
1 CTTCCCGATTATGGTTCTTTGTGAA
* *
36457210 CTT-CCTAATATGGTTCTTTGTGAA
1 CTTCCCGATTATGGTTCTTTGTGAA
* *
36457234 CTTCCCGATTATGGCTCTTT-TGAG
1 CTTCCCGATTATGGTTCTTTGTGAA
36457258 CTTCCC-ATTAT
1 CTTCCCGATTAT
36457269 ATAGCCCGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 8 0.16
24 30 0.59
25 13 0.25
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (25 bp):
CTTCCCGATTATGGTTCTTTGTGAA
Found at i:36464062 original size:13 final size:13
Alignment explanation
Indices: 36464040--36464116 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
36464030 TTTGGCAATA
36464040 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
36464053 CTTTTAAAAAGTG
1 CTTTTGAAAAGTG
* * *
36464066 C-TGTGAAAAAATA
1 CTTTTG-AAAAGTG
* *
36464079 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
*
36464092 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
36464105 CTTTTGAAAAGT
1 CTTTTGAAAAGT
36464117 TTGGTTTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
12 2 0.04
13 47 0.90
14 3 0.06
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:36466655 original size:12 final size:12
Alignment explanation
Indices: 36466638--36466671 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36466628 TTATTTTATT
36466638 TAAATATAAATA
1 TAAATATAAATA
*
36466650 TAAATATTAATA
1 TAAATATAAATA
*
36466662 TTAATATAAA
1 TAAATATAAA
36466672 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAATATAAATA
Found at i:36466657 original size:25 final size:24
Alignment explanation
Indices: 36466611--36466671 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
36466601 GGGGGGTTTA
* **
36466611 ATTTAATATTAATATATTTATTTT
1 ATTTAATATAAATATAAATATTTT
*
36466635 ATTTAAATATAAATATAAATA-TTA
1 ATTT-AATATAAATATAAATATTTT
36466659 ATATTAATATAAA
1 AT-TTAATATAAA
36466672 ATTTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 16 0.52
25 15 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTAATATAAATATAAATATTTT
Found at i:36467543 original size:4 final size:4
Alignment explanation
Indices: 36467534--36467560 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36467524 TTAGTAAAAC
36467534 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
36467561 ACGTTTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:36468298 original size:23 final size:22
Alignment explanation
Indices: 36468272--36468315 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
36468262 AAACAATAGC
* *
36468272 GAAATAAAATTAAAAACCACAAT
1 GAAACAAAAGTAAAAA-CACAAT
*
36468295 GAAACAATAGTAAAAACACAA
1 GAAACAAAAGTAAAAACACAA
36468316 AAAAAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.66, C:0.14, G:0.07, T:0.14
Consensus pattern (22 bp):
GAAACAAAAGTAAAAACACAAT
Found at i:36478271 original size:19 final size:19
Alignment explanation
Indices: 36478231--36478273 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
36478221 TTTTTGTAAG
* *
36478231 TTTTATAATTTTTCATTAA
1 TTTTATAACTTTTAATTAA
36478250 TTTTATATACTTTTAATT-A
1 TTTTATA-ACTTTTAATTAA
36478269 TTTTA
1 TTTTA
36478274 ATAAATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATAACTTTTAATTAA
Found at i:36485489 original size:12 final size:12
Alignment explanation
Indices: 36485454--36485489 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
36485444 ACTAGTCCTT
36485454 TAATTATCATGA
1 TAATTATCATGA
36485466 TAATT-TCATGA
1 TAATTATCATGA
*
36485477 TAATTATCTTGA
1 TAATTATCATGA
36485489 T
1 T
36485490 TGAGAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (12 bp):
TAATTATCATGA
Found at i:36487613 original size:13 final size:13
Alignment explanation
Indices: 36487542--36487675 Score: 76
Period size: 13 Copynumber: 10.0 Consensus size: 13
36487532 TATCTATATC
*
36487542 CATATAAACATTT
1 CATATAATCATTT
* *
36487555 CGTATAAACATTT
1 CATATAATCATTT
36487568 CATATAA-CTATTT
1 CATATAATC-ATTT
* *
36487581 CTATATAGCTGA-TT
1 C-ATATA-ATCATTT
36487595 CATATAATCATTT
1 CATATAATCATTT
*
36487608 CGTAT-ATCTATTT
1 CATATAATC-ATTT
*
36487621 CCATATAATCAATT
1 -CATATAATCATTT
*
36487635 CATATAACCATTT
1 CATATAATCATTT
* * *
36487648 TATGTATTCATTTTT
1 CATATAATCA--TTT
*
36487663 CATATAACCATTT
1 CATATAATCATTT
36487676 GGTATATTTA
Statistics
Matches: 92, Mismatches: 19, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
12 6 0.07
13 58 0.63
14 15 0.16
15 13 0.14
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:36487625 original size:27 final size:26
Alignment explanation
Indices: 36487531--36487640 Score: 84
Period size: 27 Copynumber: 4.1 Consensus size: 26
36487521 TCCCTTTTAC
* *
36487531 ATATCTATATCCATATAAACATTTCGT
1 ATATCTAT-TTCATATAATCATTTCGT
*
36487558 ATAAAC-ATTTCATATAA-CTATTTC-T
1 AT-ATCTATTTCATATAATC-ATTTCGT
36487583 ATATAGCTGA-TTCATATAATCATTTCGT
1 ATAT--CT-ATTTCATATAATCATTTCGT
* *
36487611 ATATCTATTTCCATATAATCAATTCAT
1 ATATCTATTT-CATATAATCATTTCGT
36487638 ATA
1 ATA
36487641 ACCATTTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
24 1 0.01
25 5 0.07
26 18 0.26
27 35 0.51
28 9 0.13
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (26 bp):
ATATCTATTTCATATAATCATTTCGT
Found at i:36487636 original size:40 final size:40
Alignment explanation
Indices: 36487531--36487647 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
36487521 TCCCTTTTAC
* * *
36487531 ATATCTATATCCATATAAACATTTCGTATAAACATTTCAT
1 ATATCTATTTCCATATAAACAATTCATATAAACATTTCAT
* * * * * *
36487571 ATAACTATTTCTATAT-AGCTGATTCATATAATCATTTCGT
1 ATATCTATTTCCATATAAAC-AATTCATATAAACATTTCAT
* *
36487611 ATATCTATTTCCATATAATCAATTCATATAACCATTT
1 ATATCTATTTCCATATAAACAATTCATATAAACATTT
36487648 TATGTATTCA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.03
40 57 0.93
41 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (40 bp):
ATATCTATTTCCATATAAACAATTCATATAAACATTTCAT
Found at i:36487647 original size:27 final size:27
Alignment explanation
Indices: 36487595--36487647 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36487585 ATAGCTGATT
* * * *
36487595 CATATAATCATTTCGTATATCTATTTC
1 CATATAATCAATTCATATAACCATTTC
36487622 CATATAATCAATTCATATAACCATTT
1 CATATAATCAATTCATATAACCATTT
36487648 TATGTATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (27 bp):
CATATAATCAATTCATATAACCATTTC
Found at i:36487683 original size:28 final size:28
Alignment explanation
Indices: 36487633--36487689 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
36487623 ATATAATCAA
* *
36487633 TTCATATAACCATTTTATGTATTCATTT
1 TTCATATAACCATTTGATATATTCATTT
* *
36487661 TTCATATAACCATTTGGTATATTTATTT
1 TTCATATAACCATTTGATATATTCATTT
36487689 T
1 T
36487690 CTACTCGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.54
Consensus pattern (28 bp):
TTCATATAACCATTTGATATATTCATTT
Found at i:36500955 original size:21 final size:20
Alignment explanation
Indices: 36500926--36500964 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36500916 TATAGGCAGC
36500926 AAAAACATGCCAGTTCATAT
1 AAAAACATGCCAGTTCATAT
*
36500946 AAAAATCATGCCATTTCAT
1 AAAAA-CATGCCAGTTCAT
36500965 CTTCAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAAACATGCCAGTTCATAT
Found at i:36502117 original size:42 final size:42
Alignment explanation
Indices: 36502065--36502182 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
36502055 ATGTTATAGT
*
36502065 ATATCAATGCCAATAG-CCCAGCTATGGTCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCCCAGCTATGGTCTTACACGAATCTC
* *
36502107 ATATTGATGCCAATGTCCCAGAC-ATGGTTTTACACGAATCTC
1 ATATCGATGCCAATGTCCCAG-CTATGGTCTTACACGAATCTC
* *
36502149 GTATCGATGCCAATGTCCCAGATATGGTCTTACA
1 ATATCGATGCCAATGTCCCAGCTATGGTCTTACA
36502183 TGAAATCACA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGCTATGGTCTTACACGAATCTC
Found at i:36510794 original size:46 final size:43
Alignment explanation
Indices: 36510742--36510955 Score: 148
Period size: 46 Copynumber: 4.7 Consensus size: 43
36510732 ATTGTGGGCT
36510742 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GA-AGTA
* * *
36510788 AGTGTAAGACCACGTCTGGGAAATGGCATCGG--CATTGAGACAAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AG--AAGT--A
* ** *
36510836 AGTGTAAGATATGTCTGGGACATGCATCGGCCTCAGGACGTAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-G-AAGTA
* *
36510882 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGA-AATGTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGAA-GTA
*
36510924 TCAGTGTAAAACCATGTCTGGGACATGACATC
1 --AGTGTAAGA-CATGTCTGGGACATG-CATC
36510956 TGCAACTTGC
Statistics
Matches: 136, Mismatches: 16, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
44 11 0.08
45 21 0.15
46 53 0.39
47 24 0.18
48 20 0.15
49 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGAAGTA
Found at i:36538337 original size:14 final size:15
Alignment explanation
Indices: 36538313--36538342 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
36538303 GGATATCAAA
36538313 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
36538328 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
36538342 A
1 A
36538343 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:36544153 original size:470 final size:471
Alignment explanation
Indices: 36543272--36544211 Score: 1765
Period size: 470 Copynumber: 2.0 Consensus size: 471
36543262 GTCAGGACTT
* *
36543272 AATCAGGAATTCTAAGAATTTTTTACAAGATTTCAAAAATTTTCTAACTTACGAGGCTGACACGC
1 AATCAGGAATTCTAAGAAGTTTTTACAAGATTTCAAAAATTTTCTAACTTACGAGGATGACACGC
36543337 TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCATGTAACTTCTCTGACTT
66 TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCATGTAACTTCTCTGACTT
36543402 GTGCACATGGCCATGCCACACGCCCGTGTGCTAGGTCGCATGGTCAATTAATTCATTTCGAAATT
131 GTGCACATGGCCATGCCACACGCCCGTGTGCTAGGTCGCATGGTCAATTAATTCATTTCGAAATT
*
36543467 AGGTGCAGGTTTCACACGGCCAAGACACATGCCTATGTTCTAGGCCATGTAGCATACACGCTCGT
196 AGGTGCAGGTTTCACACGGCCAAGACACATACCTATGTTCTAGGCCATGTAGCATACACGCTCGT
36543532 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
261 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
*
36543597 GGCCTAACCACACGCCCATGTACCTGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
326 GGCCTAACCACACGCCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
36543662 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
391 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
*
36543727 CTGCACTAAAACTCAA
456 CTACACTAAAACTCAA
*
36543743 AATCAGGAATTCTAAGAAGTTTTTACAGGATTTCAAAAATTTTCTAACTTACGAGGATGACACGC
1 AATCAGGAATTCTAAGAAGTTTTTACAAGATTTCAAAAATTTTCTAACTTACGAGGATGACACGC
*
36543808 TCGT-TGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCGTGTAACTTCTCTGACTT
66 TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCATGTAACTTCTCTGACTT
**
36543872 GTGCACATGGCCATGCCACACGCCCGTGTGCTAGGTCGTGTGGTCAATTAATTCATTTCGAAATT
131 GTGCACATGGCCATGCCACACGCCCGTGTGCTAGGTCGCATGGTCAATTAATTCATTTCGAAATT
36543937 AGGTGCAGGTTTCACACGGCCAAGACACATACCTATGTTCTAGGCCATGTAGCATACACGCTCGT
196 AGGTGCAGGTTTCACACGGCCAAGACACATACCTATGTTCTAGGCCATGTAGCATACACGCTCGT
36544002 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
261 GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
* * *
36544067 GGCCTAACCATACGTCCATGTACCAGGCCATGTGTCACACACGGTCTAGAGACACACTCGTGTGT
326 GGCCTAACCACACGCCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
36544132 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
391 CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
36544197 CTACACTAAAACTCA
456 CTACACTAAAACTCA
36544212 CATCCATTAA
Statistics
Matches: 457, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
470 391 0.86
471 66 0.14
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (471 bp):
AATCAGGAATTCTAAGAAGTTTTTACAAGATTTCAAAAATTTTCTAACTTACGAGGATGACACGC
TCGTGTGACCCTAGGACACGCCCGTGCTATAGAGCATGTTCGACTTCATGTAACTTCTCTGACTT
GTGCACATGGCCATGCCACACGCCCGTGTGCTAGGTCGCATGGTCAATTAATTCATTTCGAAATT
AGGTGCAGGTTTCACACGGCCAAGACACATACCTATGTTCTAGGCCATGTAGCATACACGCTCGT
GTCTCTACCTGTATGCTCAATTCTGAGCATTCTATTTTCTTAAATTTAAGGTGCAGGGGACACAC
GGCCTAACCACACGCCCATGTACCAGGCCATGTGTCACACACGGTCTAGACACACACTCGTGTGT
CTATCCATGTGGACGAAATAAAGCCATTTCTAGTTTCATTTCTCACCCAAAATCACACCAATGAC
CTACACTAAAACTCAA
Found at i:36546024 original size:13 final size:13
Alignment explanation
Indices: 36546006--36546033 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36545996 CTGCCAAAGG
36546006 GACACGCCCGTGT
1 GACACGCCCGTGT
36546019 GACACGCCCGTGT
1 GACACGCCCGTGT
36546032 GA
1 GA
36546034 GAAAGTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:36553765 original size:44 final size:44
Alignment explanation
Indices: 36553717--36553808 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
36553707 ACACATAATT
36553717 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
1 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
36553761 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
1 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
36553805 AAGA
1 AAGA
36553809 TCCATCTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (44 bp):
AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
Found at i:36561952 original size:44 final size:44
Alignment explanation
Indices: 36561904--36561995 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
36561894 ACACATAATT
36561904 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
1 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
36561948 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
1 AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
36561992 AAGA
1 AAGA
36561996 TCCATCTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (44 bp):
AAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAA
Found at i:36565612 original size:32 final size:32
Alignment explanation
Indices: 36565571--36565633 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
36565561 TATGGTGCCT
36565571 ATGAAAATGGAGAATTAGGAAAAAGGATGAGC
1 ATGAAAATGGAGAATTAGGAAAAAGGATGAGC
*
36565603 ATGAAAATGGAGAATTAGGAAAGAGGATGAG
1 ATGAAAATGGAGAATTAGGAAAAAGGATGAG
36565634 TAAGACGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.49, C:0.02, G:0.33, T:0.16
Consensus pattern (32 bp):
ATGAAAATGGAGAATTAGGAAAAAGGATGAGC
Found at i:36565624 original size:16 final size:16
Alignment explanation
Indices: 36565573--36565624 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
36565563 TGGTGCCTAT
36565573 GAAAATGGAGAATTAG
1 GAAAATGGAGAATTAG
* ** *
36565589 GAAAAAGGATG-AGCAT
1 GAAAATGGA-GAATTAG
36565605 GAAAATGGAGAATTAG
1 GAAAATGGAGAATTAG
36565621 GAAA
1 GAAA
36565625 GAGGATGAGT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.15
Consensus pattern (16 bp):
GAAAATGGAGAATTAG
Found at i:36570508 original size:26 final size:26
Alignment explanation
Indices: 36570476--36570583 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
36570466 TGAAATGCCC
*
36570476 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
36570502 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
36570528 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
36570554 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36570580 ATCA
1 ATCA
36570584 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36582547 original size:46 final size:48
Alignment explanation
Indices: 36582445--36582763 Score: 221
Period size: 46 Copynumber: 6.7 Consensus size: 48
36582435 ACATTATGAG
* * * ** ***
36582445 AGCCAATGTAAGACCATGTCTGGTACATGGCATCGGCATTAAGACAAA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
**
36582493 AGATAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* * * *
36582539 AGCCAGTGTAAGA-TATGTCTAGGACATGG-ATTGG-CTATGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
** * * * *
36582584 -GTTAGTGTAAGACCATGTTTGGGACATGGCATCGACAC-AGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A
* * *
36582632 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATTACG-A
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTA
* * * *
36582681 TAGTCAGTGTAAGACCAAGTCTGGGACATGGCATC-GACT-TA-ATGGATA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-G-TA
* *
36582729 AGCTAGTGCAAGACCATGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
36582764 ACATTCTACC
Statistics
Matches: 213, Mismatches: 42, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 57 0.27
47 45 0.21
48 15 0.07
49 34 0.16
50 33 0.15
51 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Done.