Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 12 of 66
Found at i:3883700 original size:27 final size:25
Alignment explanation
Indices: 3883658--3883713 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
3883648 CGCGGGGNTA
*
3883658 AAAAAATTAAAATAAAATATATAATAT
1 AAAAAATTAAAATAAAA-A-ATAAAAT
* *
3883685 AAAAAATTATATTAAAAAATAAAAT
1 AAAAAATTAAAATAAAAAATAAAAT
3883710 AAAA
1 AAAA
3883714 TATATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 1 0.04
27 15 0.58
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAAATTAAAATAAAAAATAAAAT
Found at i:3883701 original size:32 final size:30
Alignment explanation
Indices: 3883663--3883750 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 30
3883653 GGNTAAAAAA
3883663 ATTAAAATAAAATATATAATATAAAAAATTAT
1 ATTAAAATAAAATA-A-AATATAAAAAATTAT
* *
3883695 ATTAAAAAATAAAATAAAATATATAATATTAT
1 ATT--AAAATAAAATAAAATATAAAAAATTAT
*
3883727 AATAAAAAATGAAAATAAAATATA
1 -AT-TAAAAT-AAAATAAAATATA
3883751 GACATTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
32 21 0.44
33 16 0.33
34 11 0.23
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (30 bp):
ATTAAAATAAAATAAAATATAAAAAATTAT
Found at i:3884009 original size:15 final size:15
Alignment explanation
Indices: 3883969--3884016 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
3883959 TTTTTTCTAC
*
3883969 AATCATATTACTTAT
1 AATCATATTATTTAT
3883984 AATCATATTATTTAT
1 AATCATATTATTTAT
3883999 AATCATATTATATTAT
1 AATCATATTAT-TTAT
3884015 AA
1 AA
3884017 AATATCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 25 0.81
16 6 0.19
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (15 bp):
AATCATATTATTTAT
Found at i:3884021 original size:15 final size:15
Alignment explanation
Indices: 3883973--3884021 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3883963 TTCTACAATC
* *
3883973 ATATTACTTATAATC
1 ATATTATTTATAATA
*
3883988 ATATTATTTATAATC
1 ATATTATTTATAATA
3884003 ATATTATATTATAA-A
1 ATATTAT-TTATAATA
3884018 ATAT
1 ATAT
3884022 CAAATACCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 25 0.81
16 6 0.19
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTATTTATAATA
Found at i:3893574 original size:8 final size:8
Alignment explanation
Indices: 3893561--3893594 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
3893551 ACAATTTTTG
3893561 AAATAAAA
1 AAATAAAA
3893569 AAAT-AAA
1 AAATAAAA
3893576 AAATAAAA
1 AAATAAAA
*
3893584 AGATAAAA
1 AAATAAAA
3893592 AAA
1 AAA
3893595 CTTTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:3893581 original size:15 final size:15
Alignment explanation
Indices: 3893561--3893593 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3893551 ACAATTTTTG
3893561 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
*
3893576 AAATAAAAAGATAAA
1 AAATAAAAAAATAAA
3893591 AAA
1 AAA
3893594 ACTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:3893643 original size:11 final size:11
Alignment explanation
Indices: 3893629--3893670 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
3893619 ATTTTTATTT
3893629 TATTATTTAAA
1 TATTATTTAAA
*
3893640 TATTA-ATAAA
1 TATTATTTAAA
*
3893650 TTATAATTTAAA
1 -TATTATTTAAA
3893662 TATTATTTA
1 TATTATTTA
3893671 TGATTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTATTTAAA
Found at i:3893643 original size:22 final size:22
Alignment explanation
Indices: 3893618--3893755 Score: 66
Period size: 22 Copynumber: 6.6 Consensus size: 22
3893608 ATCTGATTTT
* *
3893618 TATTTTTATTTTATTATTTAAA
1 TATTTTTATATTATAATTTAAA
** *
3893640 TATTAATAAATTATAATTTAAA
1 TATTTTTATATTATAATTTAAA
*
3893662 TATTATTTATGATTA-AA-AT-AA
1 TATT-TTTAT-ATTATAATTTAAA
3893683 TATTTTTA-A--AT-A-TT-AA
1 TATTTTTATATTATAATTTAAA
*
3893699 TTTTTTTAT-TTATAATTTAAA
1 TATTTTTATATTATAATTTAAA
*
3893720 TATTATTTATGATTAAAATATT-AA
1 TATT-TTTAT-ATTATAAT-TTAAA
*
3893744 TAATTTTA-ATTA
1 TATTTTTATATTA
3893756 ATTTTTAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 27
0.68 0.11 0.21
Matches are distributed among these distances:
16 12 0.13
18 3 0.03
19 1 0.01
20 6 0.07
21 15 0.17
22 27 0.30
23 8 0.09
24 15 0.17
25 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
TATTTTTATATTATAATTTAAA
Found at i:3893680 original size:18 final size:18
Alignment explanation
Indices: 3893659--3893742 Score: 62
Period size: 18 Copynumber: 4.4 Consensus size: 18
3893649 ATTATAATTT
3893659 AAATATTATTTATGATTA
1 AAATATTATTTATGATTA
*
3893677 AAATAATATTTTTAAAT-ATTA
1 AAAT-AT-TATTT--ATGATTA
** * * *
3893698 ATTTTTTTATTTATAATTT
1 A-AATATTATTTATGATTA
3893717 AAATATTATTTATGATTA
1 AAATATTATTTATGATTA
3893735 AAATATTA
1 AAATATTA
3893743 ATAATTTTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
18 26 0.53
19 6 0.12
20 8 0.16
21 6 0.12
22 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AAATATTATTTATGATTA
Found at i:3893756 original size:58 final size:57
Alignment explanation
Indices: 3893650--3893761 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 57
3893640 TATTAATAAA
*
3893650 TTATAATTTAAATATTATTTATGATTAAAATAATATTTTTAAATATTAATTTTTTTAT
1 TTATAATTTAAATATTATTTATGATTAAAATAATAATTTT-AATATTAATTTTTTTAT
3893708 TTATAATTTAAATATTATTTATGATTAAAATATTAATAATTTT-A-ATTAATTTTT
1 TTATAATTTAAATATTATTTATGATT-AAA-A-TAATAATTTTAATATTAATTTTT
3893762 AAATTTAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
58 36 0.72
59 4 0.08
60 1 0.02
61 9 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (57 bp):
TTATAATTTAAATATTATTTATGATTAAAATAATAATTTTAATATTAATTTTTTTAT
Found at i:3893768 original size:58 final size:57
Alignment explanation
Indices: 3893646--3893777 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 57
3893636 TAAATATTAA
*
3893646 TAAA-TTATAATTTAAATATTATTTATGATTAAAATAATATTTTTAAATATTAATTTT
1 TAAATTTATAATTTAAATATTATTTATGATTAAAATAATAATTTT-AATATTAATTTT
**
3893703 TTTATTTATAATTTAAATATTATTTATGATTAAAATATTAATAATTTT-A-ATTAATTTT
1 TAAATTTATAATTTAAATATTATTTATGATT-AAA-A-TAATAATTTTAATATTAATTTT
*
3893761 TAAATTTAAAATATTAA
1 TAAATTTATAAT-TTAA
3893778 TTTTTTATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
57 2 0.03
58 44 0.69
59 8 0.12
60 1 0.02
61 9 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (57 bp):
TAAATTTATAATTTAAATATTATTTATGATTAAAATAATAATTTTAATATTAATTTT
Found at i:3894650 original size:19 final size:20
Alignment explanation
Indices: 3894626--3894664 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3894616 AAGTGAGTTA
*
3894626 TTTTAATTTTA-TGTTATTT
1 TTTTAATTTAATTGTTATTT
3894645 TTTTAATTTAATTGTTATTT
1 TTTTAATTTAATTGTTATTT
3894665 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTTAATTTAATTGTTATTT
Found at i:3896305 original size:41 final size:41
Alignment explanation
Indices: 3896209--3896345 Score: 136
Period size: 41 Copynumber: 3.3 Consensus size: 41
3896199 TCATTTTCAA
* * * *
3896209 AATATTTACAAAGTCCAATT-TTCAAGCGTAATCAAATTTCT
1 AATATTTCCAAAGTCTACTTCTT-AAACGTAATCAAATTTCT
*
3896250 AA-AGTTTCCAAAGTCTACTTCTT-AACAGTAATCAAATTTCC
1 AATA-TTTCCAAAGTCTACTTCTTAAAC-GTAATCAAATTTCT
* * ** *
3896291 AATATTTTCGAAGTCTGTTTCTTAAACGTAATCAAATTTTT
1 AATATTTCCAAAGTCTACTTCTTAAACGTAATCAAATTTCT
3896332 AATATTTCCAAAGT
1 AATATTTCCAAAGT
3896346 TTCATTTTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
40 3 0.04
41 69 0.88
42 6 0.08
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (41 bp):
AATATTTCCAAAGTCTACTTCTTAAACGTAATCAAATTTCT
Found at i:3897714 original size:15 final size:15
Alignment explanation
Indices: 3897694--3897735 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
3897684 TAAAACAACC
3897694 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
3897709 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
3897724 TTAAAATCAAAA
1 TTAAAATCAAAA
3897736 TATCTGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:3906747 original size:28 final size:27
Alignment explanation
Indices: 3906716--3906768 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
3906706 ATTTGGAGTA
*
3906716 TAGGGGTAAAATGGTAATTTTGCCACTC
1 TAGGGGCAAAATGGTAATTTT-CCACTC
*
3906744 TAGGGGCAAAATTGTAATTTTCCAC
1 TAGGGGCAAAATGGTAATTTTCCAC
3906769 CACTAGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (27 bp):
TAGGGGCAAAATGGTAATTTTCCACTC
Found at i:3906774 original size:28 final size:28
Alignment explanation
Indices: 3906716--3906775 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
3906706 ATTTGGAGTA
* *
3906716 TAGGGGTAAAATGGTAATTTTGCCACTC
1 TAGGGGCAAAATGGTAATTTTGCCACAC
*
3906744 TAGGGGCAAAATTGTAATTTT-CCACCAC
1 TAGGGGCAAAATGGTAATTTTGCCA-CAC
3906772 TAGG
1 TAGG
3906776 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (28 bp):
TAGGGGCAAAATGGTAATTTTGCCACAC
Found at i:3914352 original size:20 final size:20
Alignment explanation
Indices: 3914327--3914372 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3914317 CTTCTAAACC
*
3914327 TCAAATCCTACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
3914347 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
3914367 TCAAAT
1 TCAAAT
3914373 GGGGCAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:3914894 original size:3 final size:3
Alignment explanation
Indices: 3914888--3914921 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
3914878 CTCCGATAAA
3914888 ATT ATT ATT ATT -TT ATT ATT ATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3914922 TCTCACTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:3914905 original size:8 final size:9
Alignment explanation
Indices: 3914888--3914921 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
3914878 CTCCGATAAA
3914888 ATTATTATT
1 ATTATTATT
3914897 ATT-TTATT
1 ATTATTATT
3914905 ATTATT-TT
1 ATTATTATT
3914913 ATTATTATT
1 ATTATTATT
3914922 TCTCACTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTATTATT
Found at i:3914905 original size:11 final size:11
Alignment explanation
Indices: 3914889--3914922 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
3914879 TCCGATAAAA
3914889 TTATTATTATT
1 TTATTATTATT
3914900 TTATTATTATT
1 TTATTATTATT
3914911 TTATTATTATT
1 TTATTATTATT
3914922 T
1 T
3914923 CTCACTTGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTATT
Found at i:3914907 original size:14 final size:14
Alignment explanation
Indices: 3914888--3914921 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3914878 CTCCGATAAA
3914888 ATTATTATTATTTT
1 ATTATTATTATTTT
3914902 ATTATTATT-TTATT
1 ATTATTATTATT-TT
3914916 ATTATT
1 ATTATT
3914922 TCTCACTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTATTATTATTTT
Found at i:3916629 original size:10 final size:10
Alignment explanation
Indices: 3916594--3916632 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
3916584 TTGTGGCTGA
3916594 ATTTGATGAT
1 ATTTGATGAT
*
3916604 ATTTCATGAT
1 ATTTGATGAT
*
3916614 ATTTTGGTGAT
1 A-TTTGATGAT
3916625 ATTTGATG
1 ATTTGATG
3916633 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:3919391 original size:33 final size:33
Alignment explanation
Indices: 3919326--3919391 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3919316 AAGATAGTTG
* ** *
3919326 TATAGGTTTTGCTTGATCCTTGCAAAAGCAAGT
1 TATAAGTTTTGCTTGATCCTTAAAAAACCAAGT
*
3919359 TATAAGTTTTGCTTGATTCTTAAAAAACCAAGT
1 TATAAGTTTTGCTTGATCCTTAAAAAACCAAGT
3919392 GTAAGGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
TATAAGTTTTGCTTGATCCTTAAAAAACCAAGT
Found at i:3920390 original size:62 final size:62
Alignment explanation
Indices: 3920287--3920411 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
3920277 TCCTAGACAT
* *
3920287 AGTTTTGATCTTTTTGAGATAATGCTAGTAATGACACTGTGGTGTTGCATCTACTATATACA
1 AGTTTTCATCTTTTTGAGATAATGCTAGTAACGACACTGTGGTGTTGCATCTACTATATACA
*
3920349 AGTTTTCATCTTTTTGAGATAATGCTAGTAACGACATTGTGGTGTTGCATCTACTATATACA
1 AGTTTTCATCTTTTTGAGATAATGCTAGTAACGACACTGTGGTGTTGCATCTACTATATACA
3920411 A
1 A
3920412 AAGTTTACTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (62 bp):
AGTTTTCATCTTTTTGAGATAATGCTAGTAACGACACTGTGGTGTTGCATCTACTATATACA
Found at i:3924696 original size:335 final size:343
Alignment explanation
Indices: 3924034--3924708 Score: 860
Period size: 335 Copynumber: 2.0 Consensus size: 343
3924024 TAATTACTAT
* * *
3924034 TATATATATACTTTTAATAATAAATATATTTACTTTTTATTTTGTTTTAACATTACAAAAATTAT
1 TATATATATACTTTAAATAATAAACATATTTACTTTTTATTTTGTGTTAACATTACAAAAATTAT
* * * * *
3924099 GACTTATAAAATTATTAATTATAATATATATATCATTGTTTATATAATCTTATAATATATATACT
66 AACGTATAAAATTATTAATTATAATATATATAACATTGTTTATATAAACTTATAATATATATACC
* ** * *
3924164 TAAAGAAAGCTTTTAAGATTAGAATAGTTTTGGAACCTAAATGTTTTTTTAATTTCATGAAATTA
131 TAAAGAAAGCTTGTAAGATTAGAATAGTTTTAAAACCTAAATATTTTTTTAATTTCACGAAATTA
* * *
3924229 AGAAAAAATCCTTATAATTAATTAAATTAACTCTTGAAACTATTATTATTAATTAACTTGTAATG
196 AGAAAAAA-CCTCATAATTAATTAAATTAACTCATGAAACTATAATTATTAATTAACTTGTAATG
3924294 TCTTTTAATATATATATATATATTATATTATGTTAATTTATAAGAAATATAATTACTA-TT-ATA
260 TCTTTTAATATATATATATATATTATATTATGTTAATTTATAAGAAATATAATTACTATTTAATA
3924357 TATATTAAAATATTTGTAG
325 TATATTAAAATATTTGTAG
*
3924376 TATATATATTCTTTAAAT-ATAAACATATTTACTTTTTATTTTGTGTTAACATTAC-AAAATTAT
1 TATATATATACTTTAAATAATAAACATATTTACTTTTTATTTTGTGTTAACATTACAAAAATTAT
* * *
3924439 AACGTATAAAATTGTTAATTATAATATATATAACTTTGTTTATATAAAC-T-T-CTATA-A-ACC
66 AACGTATAAAATTATTAATTATAATATATATAACATTGTTTATATAAACTTATAATATATATACC
* * * *
3924499 TAAAGAGAAG-TTGTGAGATTAGAATAGTTTTAAAACCTAATTATTTTTTTTATTT-ACGTAATT
131 TAAAGA-AAGCTTGTAAGATTAGAATAGTTTTAAAACCTAAATATTTTTTTAATTTCACGAAATT
** * * * *
3924562 AA-AGACGAA-CTCGT-A-TAGTTAAA-TAATTCATGAAACTATAATTATTAATTACCTTGTAAT
195 AAGA-AAAAACCTCATAATTAATTAAATTAACTCATGAAACTATAATTATTAATTAACTTGTAAT
* *
3924622 GTCTTTTAATATATTATATATATATATATATATATTAGATTCATTTATAAGGAATATAATTACTA
259 GTCTTTTAATATA-TATATATATAT-TATAT-TA-T-G-TTAATTTATAAGAAATATAATTACTA
*
3924687 TTTTATATATATTAAAATATTT
318 TTTAATATATATTAAAATATTT
3924709 TTTATGTATG
Statistics
Matches: 291, Mismatches: 32, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
329 46 0.16
330 18 0.06
331 6 0.02
332 5 0.02
333 2 0.01
334 12 0.04
335 70 0.24
336 6 0.02
337 22 0.08
338 1 0.00
339 1 0.00
340 51 0.18
341 35 0.12
342 16 0.05
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (343 bp):
TATATATATACTTTAAATAATAAACATATTTACTTTTTATTTTGTGTTAACATTACAAAAATTAT
AACGTATAAAATTATTAATTATAATATATATAACATTGTTTATATAAACTTATAATATATATACC
TAAAGAAAGCTTGTAAGATTAGAATAGTTTTAAAACCTAAATATTTTTTTAATTTCACGAAATTA
AGAAAAAACCTCATAATTAATTAAATTAACTCATGAAACTATAATTATTAATTAACTTGTAATGT
CTTTTAATATATATATATATATTATATTATGTTAATTTATAAGAAATATAATTACTATTTAATAT
ATATTAAAATATTTGTAG
Found at i:3946918 original size:22 final size:22
Alignment explanation
Indices: 3946875--3946918 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3946865 TTTAAAACAA
* *
3946875 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
3946897 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
3946919 ACCAATCGAA
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:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:3949490 original size:20 final size:20
Alignment explanation
Indices: 3949462--3949505 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3949452 TCTAAACCTT
3949462 AAATCATACTCCAATAAGTC
1 AAATCATACTCCAATAAGTC
*
3949482 AAATTATACTCCAATAAGTC
1 AAATCATACTCCAATAAGTC
3949502 AAAT
1 AAAT
3949506 GGGGCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATCATACTCCAATAAGTC
Found at i:3951544 original size:28 final size:27
Alignment explanation
Indices: 3951512--3951567 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
3951502 TAGGGCACCT
3951512 AATATTTCCAAAGATGCGAAGGCATTTA
1 AATATTT-CAAAGATGCGAAGGCATTTA
** *
3951540 AATATTTTGAAGATGCTAAGGCATTTA
1 AATATTTCAAAGATGCGAAGGCATTTA
3951567 A
1 A
3951568 TTTGTCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (27 bp):
AATATTTCAAAGATGCGAAGGCATTTA
Found at i:3951925 original size:19 final size:19
Alignment explanation
Indices: 3951901--3951938 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3951891 CCATTTAACT
*
3951901 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
3951920 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
3951939 GGTTTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:3956795 original size:13 final size:13
Alignment explanation
Indices: 3956777--3956801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3956767 AGAGAAATTG
3956777 TGATTTTATAAAA
1 TGATTTTATAAAA
3956790 TGATTTTATAAA
1 TGATTTTATAAA
3956802 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:3958182 original size:26 final size:27
Alignment explanation
Indices: 3958115--3958176 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
3958105 TTGGGATAAG
* **
3958115 ATATAAATTTAAAAATAATTTGTTTAA
1 ATATAAATATAAATTTAATTTGTTTAA
3958142 ATATAAATATAAATTTAATTTGTTTAA
1 ATATAAATATAAATTTAATTTGTTTAA
3958169 AT-TAAATA
1 ATATAAATA
3958177 AGAATTATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATAAATATAAATTTAATTTGTTTAA
Found at i:3967749 original size:13 final size:13
Alignment explanation
Indices: 3967731--3967755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3967721 ATTTTCAAAA
3967731 ATTTTATAAAATT
1 ATTTTATAAAATT
3967744 ATTTTATAAAAT
1 ATTTTATAAAAT
3967756 CCCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:3969858 original size:13 final size:13
Alignment explanation
Indices: 3969840--3969868 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3969830 ATAAAGACGC
3969840 TATCCCTTCATTG
1 TATCCCTTCATTG
3969853 TATCCCTTCATTG
1 TATCCCTTCATTG
3969866 TAT
1 TAT
3969869 TGCCTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.28, G:0.07, T:0.48
Consensus pattern (13 bp):
TATCCCTTCATTG
Found at i:3974757 original size:16 final size:18
Alignment explanation
Indices: 3974725--3974757 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3974715 AAATTTTATT
3974725 TTGTTATATTTGATGTTA
1 TTGTTATATTTGATGTTA
3974743 TTGTTAT-TTTG-TGTT
1 TTGTTATATTTGATGTT
3974758 GTTATAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (18 bp):
TTGTTATATTTGATGTTA
Found at i:3975764 original size:31 final size:32
Alignment explanation
Indices: 3975691--3975771 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
3975681 AGGAAATGAG
**
3975691 AATTCCTCCA-CTGAGGCTTTAAAACTTTTTAC
1 AATTCCTCCATC-GAGGCTCCAAAACTTTTTAC
3975723 AATTCCTCCATCGAGGCTCCAAAAC-TTTT-C
1 AATTCCTCCATCGAGGCTCCAAAACTTTTTAC
3975753 AATGTCCTCCATCGAGGCT
1 AAT-TCCTCCATCGAGGCT
3975772 TTGAATATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
30 4 0.09
31 19 0.42
32 21 0.47
33 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (32 bp):
AATTCCTCCATCGAGGCTCCAAAACTTTTTAC
Found at i:3987142 original size:13 final size:13
Alignment explanation
Indices: 3987124--3987148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3987114 TTTCAAAAAA
3987124 TTTATAAAATCAT
1 TTTATAAAATCAT
3987137 TTTATAAAATCA
1 TTTATAAAATCA
3987149 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:3990107 original size:19 final size:20
Alignment explanation
Indices: 3990080--3990125 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
3990070 AGGAGACAAG
*
3990080 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
3990099 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
3990118 ATAATATT
1 ATAATATT
3990126 AAAATATTAA
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:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:3990573 original size:20 final size:20
Alignment explanation
Indices: 3990528--3990565 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3990518 TTTTGGTCCC
3990528 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
3990548 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
3990566 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:4000859 original size:19 final size:19
Alignment explanation
Indices: 4000835--4000872 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4000825 CTGTCAAACC
* *
4000835 CTCAAATTATACTCCAATA
1 CTCAAATCATAATCCAATA
4000854 CTCAAATCATAATCCAATA
1 CTCAAATCATAATCCAATA
4000873 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATAATCCAATA
Found at i:4005131 original size:19 final size:19
Alignment explanation
Indices: 4005107--4005144 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4005097 ACTTCTCAAC
*
4005107 CTCAAATCATACTTCAATA
1 CTCAAATCATACTCCAATA
*
4005126 CTCAAATCCTACTCCAATA
1 CTCAAATCATACTCCAATA
4005145 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:4008879 original size:31 final size:31
Alignment explanation
Indices: 4008817--4008885 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
4008807 TAAAGTTTCA
* *
4008817 AAAATTTATAAATTTTGTTTTGTTTTGTTTT
1 AAAATTTATAAATTTTATTTTGATTTGTTTT
4008848 AAATATTTAT-AATTTTATCTTTGATTT-TTTT
1 AAA-ATTTATAAATTTTAT-TTTGATTTGTTTT
4008879 AAAATTT
1 AAAATTT
4008886 TATAGTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 4 0.12
31 17 0.50
32 13 0.38
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (31 bp):
AAAATTTATAAATTTTATTTTGATTTGTTTT
Found at i:4008888 original size:31 final size:30
Alignment explanation
Indices: 4008811--4008889 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 30
4008801 CCCCCTTAAA
* *
4008811 GTTTCAAAAATTTATAAATTTTGTTTTGTTTT
1 GTTT-AAAATTTTAT-AATTTTATTTTGTTTT
*
4008843 GTTTTAAATATTTATAATTTTATCTTTGATTTT
1 GTTTAAAAT-TTTATAATTTTAT-TTTG-TTTT
4008876 -TTTAAAATTTTATA
1 GTTTAAAATTTTATA
4008890 GTTTCATCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 16 0.40
32 20 0.50
33 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (30 bp):
GTTTAAAATTTTATAATTTTATTTTGTTTT
Found at i:4010424 original size:57 final size:58
Alignment explanation
Indices: 4010331--4010441 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
4010321 CTAGGCCATA
* * *
4010331 TGTGACACGATAAGGTTTAGAGTTTGTGACACGCCATAGTGAGAATGTGTGACATGGC
1 TGTGACACGACAAGGTTTAGAGTTTATGACAAGCCATAGTGAGAATGTGTGACATGGC
* *
4010389 TGTGACACGACAA-GTTTAGAGTTTATGACAAGCCATGGTGGGAATGTGTGACA
1 TGTGACACGACAAGGTTTAGAGTTTATGACAAGCCATAGTGAGAATGTGTGACA
4010442 CGTCATGGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 36 0.75
58 12 0.25
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (58 bp):
TGTGACACGACAAGGTTTAGAGTTTATGACAAGCCATAGTGAGAATGTGTGACATGGC
Found at i:4010440 original size:23 final size:23
Alignment explanation
Indices: 4010414--4010484 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
4010404 TTAGAGTTTA
*
4010414 TGACAAGCCATGGTGGGAATGTG
1 TGACAAGCCATGGTGAGAATGTG
* * *
4010437 TGACACGTCATGGTGAGAATTTG
1 TGACAAGCCATGGTGAGAATGTG
* ** *
4010460 TGACACGGTATGGTGAGAATATG
1 TGACAAGCCATGGTGAGAATGTG
4010483 TG
1 TG
4010485 GCACATTGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.27, C:0.11, G:0.35, T:0.27
Consensus pattern (23 bp):
TGACAAGCCATGGTGAGAATGTG
Found at i:4010526 original size:23 final size:23
Alignment explanation
Indices: 4010422--4010672 Score: 113
Period size: 23 Copynumber: 11.0 Consensus size: 23
4010412 TATGACAAGC
* * *
4010422 CATGGTGGGAATGTGTGACACGT
1 CATGGTGAGAATATGTGACACGA
* *
4010445 CATGGTGAGAATTTGTGACACGG
1 CATGGTGAGAATATGTGACACGA
* *
4010468 TATGGTGAGAATATGTGGCAC-A
1 CATGGTGAGAATATGTGACACGA
** * * * *
4010490 TTGTGGAGAAAATATGTGAGATGA
1 -CATGGTGAGAATATGTGACACGA
* *
4010514 CATGGTGAGAATATGTGACATGG
1 CATGGTGAGAATATGTGACACGA
* * *
4010537 CAGGGTTTA-AAGTTTGTGACACG-
1 CATGG-TGAGAA-TATGTGACACGA
** * * *
4010560 CTAT-GAAAGGAAAATGTGACATGC
1 C-ATGGTGA-GAATATGTGACACGA
* * * *
4010584 CATAGAGGGAATATGTGAGACGA
1 CATGGTGAGAATATGTGACACGA
4010607 CATGGTGAGAATATGTGACAC-A
1 CATGGTGAGAATATGTGACACGA
* *
4010629 CCAAT-GTGAG-A-ATGTGACATGC
1 -C-ATGGTGAGAATATGTGACACGA
*
4010651 CATGGTGAGAATATATGACACG
1 CATGGTGAGAATATGTGACACG
4010673 GCTATGACAT
Statistics
Matches: 170, Mismatches: 43, Indels: 30
0.70 0.18 0.12
Matches are distributed among these distances:
20 2 0.01
21 14 0.08
22 4 0.02
23 130 0.76
24 20 0.12
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (23 bp):
CATGGTGAGAATATGTGACACGA
Found at i:4010658 original size:21 final size:21
Alignment explanation
Indices: 4010596--4010662 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
4010586 TAGAGGGAAT
* *
4010596 ATGTGAGACGACATGGTGAGAA
1 ATGTGACACGCCATGGTGAG-A
*
4010618 TATGTGACACACCAAT-GTGAGA
1 -ATGTGACACGCC-ATGGTGAGA
*
4010640 ATGTGACATGCCATGGTGAGA
1 ATGTGACACGCCATGGTGAGA
4010661 AT
1 AT
4010663 ATATGACACG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 2 0.05
21 18 0.49
22 1 0.03
23 14 0.38
24 2 0.05
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22
Consensus pattern (21 bp):
ATGTGACACGCCATGGTGAGA
Found at i:4010728 original size:23 final size:23
Alignment explanation
Indices: 4010693--4010820 Score: 116
Period size: 23 Copynumber: 5.6 Consensus size: 23
4010683 GGAAGGGTTT
* * *
4010693 AGAATTTGTGACATGCCAAGGTG
1 AGAATGTGTGACATGACATGGTG
* *
4010716 -GAAATGTGTGACATGGCATGGTA
1 AG-AATGTGTGACATGACATGGTG
*
4010739 AGAATGTGTGACACGACATGGTG
1 AGAATGTGTGACATGACATGGTG
*
4010762 AGAATGTGTGACACGACATGGTG
1 AGAATGTGTGACATGACATGGTG
* * * *
4010785 AGAATTTATGACACGCCATGGATG
1 AGAATGTGTGACATGACATGG-TG
*
4010809 -GAATATGTGACA
1 AGAATGTGTGACA
4010821 CACCATGGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.01
23 86 0.96
24 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.24
Consensus pattern (23 bp):
AGAATGTGTGACATGACATGGTG
Found at i:4010749 original size:46 final size:46
Alignment explanation
Indices: 4010693--4010821 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
4010683 GGAAGGGTTT
* * * *
4010693 AGAATTTGTGACATGCCAAGGTGGAAATGTGTGACATGGCATGGTA
1 AGAATTTGTGACACGCCATGGTGGAAATGTGTGACACGACATGGTA
* * *
4010739 AGAATGTGTGACACGACATGGT-GAGAATGTGTGACACGACATGGTG
1 AGAATTTGTGACACGCCATGGTGGA-AATGTGTGACACGACATGGTA
* *
4010785 AGAATTTATGACACGCCATGGATGG-AATATGTGACAC
1 AGAATTTGTGACACGCCATGG-TGGAAATGTGTGACAC
4010822 ACCATGGCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.03
46 65 0.94
47 1 0.01
48 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (46 bp):
AGAATTTGTGACACGCCATGGTGGAAATGTGTGACACGACATGGTA
Found at i:4010756 original size:28 final size:23
Alignment explanation
Indices: 4010718--4010821 Score: 129
Period size: 23 Copynumber: 4.5 Consensus size: 23
4010708 CCAAGGTGGA
* * *
4010718 AATGTGTGACATGGCATGGTAAG
1 AATGTGTGACACGACATGGTGAG
4010741 AATGTGTGACACGACATGGTGAG
1 AATGTGTGACACGACATGGTGAG
4010764 AATGTGTGACACGACATGGTGAG
1 AATGTGTGACACGACATGGTGAG
* * *
4010787 AATTTATGACACGCCATGGATG-G
1 AATGTGTGACACGACATGG-TGAG
*
4010810 AATATGTGACAC
1 AATGTGTGACAC
4010822 ACCATGGCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
23 70 0.97
24 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (23 bp):
AATGTGTGACACGACATGGTGAG
Found at i:4010811 original size:125 final size:125
Alignment explanation
Indices: 4010574--4010804 Score: 285
Period size: 125 Copynumber: 1.8 Consensus size: 125
4010564 GAAAGGAAAA
*
4010574 TGTGACATGCCATAGAGGGAATATGTGAGACGACATGGTGAGAATATGTGACACACCAATGTGAG
1 TGTGACATGCCATAGAGGGAATATGTGAGACGACATGGTAAGAATATGTGACACACCAATGTGAG
* * *
4010639 AATGTGACATGCCATGGTGAGAATATATGACACGGCTATGACATGGAAGGGTTTAGAATT
66 AATGTGACACGACATGGTGAGAATATATGACACGGCCATGACATGGAAGGGTTTAGAATT
* * *
4010699 TGTGACATGCCA-AG-GTGGAA-ATGTGTGACATGGCATGGTAAGAATGTGTGACACGA-C-ATG
1 TGTGACATGCCATAGAG-GGAATATGTGAGAC--GACATGGTAAGAATATGTGACAC-ACCAAT-
*
4010759 GTGAGAATGTGTGACACGACATGGTGAGAATTTATGACAC-GCCATG
61 GTGAGAA--TGTGACACGACATGGTGAGAATATATGACACGGCCATG
4010805 GATGGAATAT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
123 9 0.10
124 8 0.09
125 40 0.44
126 6 0.07
127 28 0.31
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (125 bp):
TGTGACATGCCATAGAGGGAATATGTGAGACGACATGGTAAGAATATGTGACACACCAATGTGAG
AATGTGACACGACATGGTGAGAATATATGACACGGCCATGACATGGAAGGGTTTAGAATT
Found at i:4010835 original size:23 final size:23
Alignment explanation
Indices: 4010740--4010837 Score: 69
Period size: 23 Copynumber: 4.3 Consensus size: 23
4010730 GGCATGGTAA
*
4010740 GAATGTGTGACACGA-CATGG-TG
1 GAATATGTGACAC-ACCATGGATG
*
4010762 AGAATGTGTGACACGA-CATGG-TG
1 -GAATATGTGACAC-ACCATGGATG
* * *
4010785 AGAATTTATGACACGCCATGGATG
1 -GAATATGTGACACACCATGGATG
* *
4010809 GAATATGTGACACACCATGGCTT
1 GAATATGTGACACACCATGGATG
4010832 GAATAT
1 GAATAT
4010838 AAGACATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
23 63 0.97
24 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (23 bp):
GAATATGTGACACACCATGGATG
Found at i:4010843 original size:23 final size:23
Alignment explanation
Indices: 4010794--4010843 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
4010784 GAGAATTTAT
* **
4010794 GACACGCCATGGATGGAATATGT
1 GACACACCATGGATGGAATATAA
* *
4010817 GACACACCATGGCTTGAATATAA
1 GACACACCATGGATGGAATATAA
4010840 GACA
1 GACA
4010844 TGTCATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (23 bp):
GACACACCATGGATGGAATATAA
Found at i:4011748 original size:31 final size:31
Alignment explanation
Indices: 4011701--4011776 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
4011691 GCATCGGTTG
* * * *
4011701 GCGTGTTACAACATTTTACTTGGTTTGCGTA
1 GCGTGTAACAACATTTTACTTGGTATACATA
*
4011732 GCGTGTAACAATATTTTACTTGGTATACATA
1 GCGTGTAACAACATTTTACTTGGTATACATA
*
4011763 ACGTGTAACAACAT
1 GCGTGTAACAACAT
4011777 ATATTTCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (31 bp):
GCGTGTAACAACATTTTACTTGGTATACATA
Found at i:4013507 original size:151 final size:151
Alignment explanation
Indices: 4013230--4013768 Score: 607
Period size: 151 Copynumber: 3.6 Consensus size: 151
4013220 GAATCGCTGG
* * *
4013230 TAAGGACGGTTCTTATGGTTTATGTTTAACAATTCCATATTTGATTATTAAATAACACAGTAATA
1 TAAGGACGGTTCTTATGGTTTATGTTCAACAATTCCATATATGATTATCAAATAACACAGTAATA
* * * * * * *
4013295 TCTGTTATCACAATTGACCCATGTGACGACATCTCTTCAACGATAGACAAAACTTGTTCAGACAC
66 TCTGTTATTACAGTTGACCCATGCGACGACATCTCTTCAACGACAGACAAGACCTGCTCAGACAC
* * *
4013360 ACAGTGGTAACCAGCTGTCGG
131 ACAGTGGTAACGATCTGTCGA
* *
4013381 TAAGGACGGTTCTAATGGTTTATATTCAACAATTCCATATATGATTATCAAATAACACAGTAATA
1 TAAGGACGGTTCTTATGGTTTATGTTCAACAATTCCATATATGATTATCAAATAACACAGTAATA
* * * * ** * **
4013446 TATGTTATTACAGTTGACTCATACGACGACATCTCCTCAATAACCGACAAGACCTGCTCAGATGC
66 TCTGTTATTACAGTTGACCCATGCGACGACATCTCTTCAACGACAGACAAGACCTGCTCAGACAC
4013511 ACAGTGGTAACGATCTGTCGA
131 ACAGTGGTAACGATCTGTCGA
* * * * * *
4013532 AAAGGGCGATTCTTATGGTTTATGTGCAACAATTCCATAAATGATTATCAAATAACATAGTAA-A
1 TAAGGACGGTTCTTATGGTTTATGTTCAACAATTCCATATATGATTATCAAATAACACAGTAATA
* * * * * * *
4013596 TCTGTTATTGCAGTTAACCCATGCAACGACAACTCTTTAACGACTGACAGGACCTGCTCCA-ACA
66 TCTGTTATTACAGTTGACCCATGCGACGACATCTCTTCAACGACAGACAAGACCTGCT-CAGACA
* * * *
4013660 CATAATGGTCACGATTTG-CAGA
130 CACAGTGGTAACGATCTGTC-GA
* * * *
4013682 TAAAGACGGTTCTTATAGTTTATGTTCAACAATTTCATATTTGATTATCAAATAACACAGTAATA
1 TAAGGACGGTTCTTATGGTTTATGTTCAACAATTCCATATATGATTATCAAATAACACAGTAATA
* **
4013747 TTTGTTATTGTAGTTGACCCAT
66 TCTGTTATTACAGTTGACCCAT
4013769 TTGATGATAG
Statistics
Matches: 321, Mismatches: 64, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
149 1 0.00
150 116 0.36
151 204 0.64
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (151 bp):
TAAGGACGGTTCTTATGGTTTATGTTCAACAATTCCATATATGATTATCAAATAACACAGTAATA
TCTGTTATTACAGTTGACCCATGCGACGACATCTCTTCAACGACAGACAAGACCTGCTCAGACAC
ACAGTGGTAACGATCTGTCGA
Found at i:4014339 original size:80 final size:81
Alignment explanation
Indices: 4014216--4014396 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 81
4014206 ATGCTGTGGC
* * * * *
4014216 AGGGGATGTGACCCTTCAATCAGTT-AATGCTGAAGCAGACCATG-TTCTTCAGGCCAATGTGGT
1 AGGGGATGGGAACCTTGAATCAATTGAA-GCTGAAGCAGACCATGTTTC-TCAGGCCAATGAGGT
*
4014279 TGTCGATGCAGCT-ACAGA
64 TGTCGAGGCAGCTGA-AGA
* *
4014297 AGTGGATGGG-ACCTTGAATCAATTGAAGCTGAAAG-AGACCATGTTTCTCAGGCCGATGAGGTT
1 AGGGGATGGGAACCTTGAATCAATTGAAGCTG-AAGCAGACCATGTTTCTCAGGCCAATGAGGTT
*
4014360 GTCGAGGCAGCTGAGGA
65 GTCGAGGCAGCTGAAGA
4014377 AGGGGATGGGAACCTTGAAT
1 AGGGGATGGGAACCTTGAAT
4014397 TAGTTCAGAC
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
80 59 0.69
81 26 0.31
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (81 bp):
AGGGGATGGGAACCTTGAATCAATTGAAGCTGAAGCAGACCATGTTTCTCAGGCCAATGAGGTTG
TCGAGGCAGCTGAAGA
Found at i:4014435 original size:81 final size:80
Alignment explanation
Indices: 4014254--4014443 Score: 215
Period size: 80 Copynumber: 2.4 Consensus size: 80
4014244 GCTGAAGCAG
* * * *
4014254 ACCATGTTCTTCAGGCCAATGTGGTTGTCGATGCAGCTACAGAAGTGGATGGGACCTTGAATCAA
1 ACCATGTTCCTCAGGCCGATGTGGTTGTCGAGGCAGCTACAGAAGGGGATGGGACCTTGAATCAA
* *
4014319 TTGAAGCTGAAAGAG
66 TTCAAGCTGAAAGAA
* * * *
4014334 ACCATGTTTCTCAGGCCGATGAGGTTGTCGAGGCAGCTGA-GGAAGGGGATGGGAACCTTGAATT
1 ACCATGTTCCTCAGGCCGATGTGGTTGTCGAGGCAGCT-ACAGAAGGGGATGGG-ACCTTGAATC
*
4014398 AGTTC-AGACT-AAAGGAA
64 AATTCAAG-CTGAAA-GAA
*
4014415 ACCATGTTCCTCAGGTCGATGTGGTTGTC
1 ACCATGTTCCTCAGGCCGATGTGGTTGTC
4014444 AGGGCAGTTG
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
80 49 0.53
81 43 0.47
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (80 bp):
ACCATGTTCCTCAGGCCGATGTGGTTGTCGAGGCAGCTACAGAAGGGGATGGGACCTTGAATCAA
TTCAAGCTGAAAGAA
Found at i:4014494 original size:81 final size:80
Alignment explanation
Indices: 4014228--4014500 Score: 228
Period size: 81 Copynumber: 3.4 Consensus size: 80
4014218 GGGATGTGAC
* * * * * * *
4014228 CCTTCAATCAGTTAATGCTGAAGCAGACCATGTTCTTCAGGCCAATGTGGTTGTCGATGCAGCT-
1 CCTTGAATCAATTAA-GCTGAAGGAGACCATGTTCCTCAGGCCGATGAGGTTGTCGAGGCAGCTG
* * **
4014292 ACAGAAGTGGATG-GGA
65 A-GGAAGGGGATGAAAA
* *
4014308 CCTTGAATCAATTGAAGCTGAAAGAGACCATGTTTCTCAGGCCGATGAGGTTGTCGAGGCAGCTG
1 CCTTGAATCAATT-AAGCTGAAGGAGACCATGTTCCTCAGGCCGATGAGGTTGTCGAGGCAGCTG
**
4014373 AGGAAGGGGATGGGAA
65 AGGAAGGGGATGAAAA
* * * * * * * *
4014389 CCTTGAATTAGTTCAGACTAAAGGAAACCATGTTCCTCAGGTCGATGTGGTTGTC-AGGGCAGTT
1 CCTTGAATCAATTAAG-CTGAAGGAGACCATGTTCCTCAGGCCGATGAGGTTGTCGA-GGCAGCT
* * *
4014453 GGGGGAGTGGATGAAAA
64 GAGGAAGGGGATGAAAA
*
4014470 CCTTGAATCAACTTAAGTTGAAGGAGACCAT
1 CCTTGAATCAA-TTAAGCTGAAGGAGACCAT
4014501 AATCCTTAGA
Statistics
Matches: 154, Mismatches: 33, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
80 64 0.42
81 86 0.56
82 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (80 bp):
CCTTGAATCAATTAAGCTGAAGGAGACCATGTTCCTCAGGCCGATGAGGTTGTCGAGGCAGCTGA
GGAAGGGGATGAAAA
Found at i:4017260 original size:26 final size:26
Alignment explanation
Indices: 4017207--4017268 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
4017197 AAATTTTGCC
* *
4017207 ACACGCCCTGTTGAAAACATGTTGTT
1 ACACGCCATGTTGAAAACATGTTCTT
*
4017233 ACACGCCATGTTGAAAA-ATTTTTCTT
1 ACACGCCATGTTGAAAACA-TGTTCTT
*
4017259 ACACGTCATG
1 ACACGCCATG
4017269 CTAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (26 bp):
ACACGCCATGTTGAAAACATGTTCTT
Found at i:4021488 original size:97 final size:97
Alignment explanation
Indices: 4021322--4021515 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
4021312 AGAAATGCGC
4021322 CATTGTCTCATCCAAGACAGGAAAGTTAAGAGATGTAGAAGTTGAGGCTGTTAAACAAGCCATGC
1 CATTGTCTCATCCAAGACAGGAAAGTTAAGAGATGTAGAAGTTGAGGCTGTTAAACAAGCCATGC
4021387 AAATATTTGATATGTCCTTTGCTCTAGTATAG
66 AAATATTTGATATGTCCTTTGCTCTAGTATAG
*
4021419 CATTGTCTCATCGAAGACAGGAAAGTTAAGAGATGTAGAAGTTGAGGCTGTTAAACAAGCCATGC
1 CATTGTCTCATCCAAGACAGGAAAGTTAAGAGATGTAGAAGTTGAGGCTGTTAAACAAGCCATGC
4021484 AAATATTTGATATGTCCTTTGCTCTAGTATAG
66 AAATATTTGATATGTCCTTTGCTCTAGTATAG
4021516 GAGATTTTGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (97 bp):
CATTGTCTCATCCAAGACAGGAAAGTTAAGAGATGTAGAAGTTGAGGCTGTTAAACAAGCCATGC
AAATATTTGATATGTCCTTTGCTCTAGTATAG
Found at i:4031415 original size:30 final size:32
Alignment explanation
Indices: 4031352--4031437 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 32
4031342 TTTTGCTCAA
* *
4031352 AGGTATAACC--AATACTACCTTTTCCAGAGG
1 AGGTATAACCTTAACACTACCTTTTCCAGAAG
4031382 AGGTATAACCTTAACACTACCTTTT-CA-AAG
1 AGGTATAACCTTAACACTACCTTTTCCAGAAG
* * *
4031412 AGGTTTAACCTTCTACACTATCTTTT
1 AGGTATAACCTT-AACACTACCTTTT
4031438 ATGTGGAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
30 23 0.48
31 13 0.27
32 12 0.25
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (32 bp):
AGGTATAACCTTAACACTACCTTTTCCAGAAG
Found at i:4035677 original size:13 final size:13
Alignment explanation
Indices: 4035659--4035683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4035649 ATTTTCAAAA
4035659 ATTTTATAAAATT
1 ATTTTATAAAATT
4035672 ATTTTATAAAAT
1 ATTTTATAAAAT
4035684 CCCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:4036898 original size:28 final size:30
Alignment explanation
Indices: 4036835--4036899 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
4036825 GTAAATTTTT
*
4036835 AAAAATTACACTTTTACCCCCGTAAAAGTG
1 AAAAATTACACTTTTACCCCCGAAAAAGTG
* *
4036865 AAAAATTACATTTTTA-CCCC-AAAAATTG
1 AAAAATTACACTTTTACCCCCGAAAAAGTG
4036893 AAAAATT
1 AAAAATT
4036900 GTCAAAATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 13 0.41
29 4 0.12
30 15 0.47
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (30 bp):
AAAAATTACACTTTTACCCCCGAAAAAGTG
Found at i:4042732 original size:7 final size:7
Alignment explanation
Indices: 4042712--4042746 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4042702 TCCACTCACA
4042712 TTGCCAT
1 TTGCCAT
*
4042719 TTTCCAT
1 TTGCCAT
*
4042726 ATGCCAT
1 TTGCCAT
4042733 TTGCCAT
1 TTGCCAT
4042740 TTGCCAT
1 TTGCCAT
4042747 CATCTCTCGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (7 bp):
TTGCCAT
Found at i:4043688 original size:2 final size:2
Alignment explanation
Indices: 4043681--4043712 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4043671 GCAAAGGATA
4043681 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
4043713 TAAGTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4054504 original size:30 final size:29
Alignment explanation
Indices: 4054470--4054525 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4054460 ACCCTTTTAC
*
4054470 TTTTAATTTAAGCCAAATAAACCCTTAAA
1 TTTTTATTTAAGCCAAATAAACCCTTAAA
** *
4054499 TTTTTATTTTTGCCAAATAAATCCTTA
1 TTTTTATTTAAGCCAAATAAACCCTTA
4054526 TGATTAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (29 bp):
TTTTTATTTAAGCCAAATAAACCCTTAAA
Found at i:4055554 original size:29 final size:29
Alignment explanation
Indices: 4055505--4055631 Score: 114
Period size: 29 Copynumber: 4.4 Consensus size: 29
4055495 TCCTACTTTT
* * *
4055505 AACTTGTTCTCTTGTATCTGTTCACATAC
1 AACTTCTTCTCTTGTACCTATTCACATAC
* * **
4055534 AGCTTCTTCTCTTGTACCTGTTCATGTAC
1 AACTTCTTCTCTTGTACCTATTCACATAC
* * * *
4055563 AGCTTTTTCTCTTCTACCTATTCACGTAC
1 AACTTCTTCTCTTGTACCTATTCACATAC
**
4055592 AACTTCCTT-TCTTACACCTATTCACATAC
1 AACTT-CTTCTCTTGTACCTATTCACATAC
4055621 AAC-TCTTCTCT
1 AACTTCTTCTCT
4055632 ATTAGCTCCT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
27 3 0.04
28 4 0.05
29 73 0.89
30 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.43
Consensus pattern (29 bp):
AACTTCTTCTCTTGTACCTATTCACATAC
Found at i:4058389 original size:28 final size:29
Alignment explanation
Indices: 4058341--4058399 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
4058331 TTTTTGAAAT
* *
4058341 TTACAATTTTACCCCTTAAAAGTCAAAAA
1 TTACAATTTTACCCCTAAAAACTCAAAAA
* *
4058370 TTACATTTTTA-CCCTAAAAACTGAAAAA
1 TTACAATTTTACCCCTAAAAACTCAAAAA
4058398 TT
1 TT
4058400 GCTCATAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (29 bp):
TTACAATTTTACCCCTAAAAACTCAAAAA
Found at i:4058590 original size:19 final size:19
Alignment explanation
Indices: 4058566--4058602 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4058556 TGCCAAACCG
* *
4058566 TCAAATTATAGTCCAATAC
1 TCAAATCATACTCCAATAC
4058585 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
4058603 AGTTAAATGG
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:0.24, G:0.03, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:4060198 original size:21 final size:22
Alignment explanation
Indices: 4060174--4060214 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4060164 ACTTTAAGCA
4060174 ATTA-AAATAATAA-ATAATAAC
1 ATTACAAA-AATAACATAATAAC
4060195 ATTACAAAAATAACATAATA
1 ATTACAAAAATAACATAATA
4060215 TTTTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
ATTACAAAAATAACATAATAAC
Found at i:4060542 original size:20 final size:22
Alignment explanation
Indices: 4060494--4060549 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
4060484 CATGTGCACC
*
4060494 ATCTATCAATAGATGGTTCAAT
1 ATCTATCGATAGATGGTTCAAT
4060516 ATCTATCGATAGATGG-TCAAT
1 ATCTATCGATAGATGGTTCAAT
4060537 -TCTATCGATAGAT
1 ATCTATCGATAGAT
4060550 CAAACTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 13 0.39
21 5 0.15
22 15 0.45
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (22 bp):
ATCTATCGATAGATGGTTCAAT
Found at i:4060624 original size:20 final size:20
Alignment explanation
Indices: 4060599--4060637 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4060589 AATCTACACG
*
4060599 AAATATCTATGGATAGATAA
1 AAATATCTATCGATAGATAA
4060619 AAATATCTATCGATAGATA
1 AAATATCTATCGATAGATA
4060638 GAGACATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (20 bp):
AAATATCTATCGATAGATAA
Found at i:4065242 original size:13 final size:13
Alignment explanation
Indices: 4065206--4065246 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4065196 ATTTTATCTA
*
4065206 AATAATTAAAATT
1 AATAATTAAAACT
4065219 AA-AATTAAAACT
1 AATAATTAAAACT
*
4065231 AATAACTAAAACT
1 AATAATTAAAACT
4065244 AAT
1 AAT
4065247 CTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATTAAAACT
Found at i:4079126 original size:17 final size:18
Alignment explanation
Indices: 4079084--4079127 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
4079074 AATAAGCATA
4079084 CACTAAGGGGAAGCACAT
1 CACTAAGGGGAAGCACAT
4079102 -ACTAAGGGGAAGCAC-T
1 CACTAAGGGGAAGCACAT
*
4079118 CACTTAGGGG
1 CACTAAGGGG
4079128 GAGAAATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.34, C:0.20, G:0.32, T:0.14
Consensus pattern (18 bp):
CACTAAGGGGAAGCACAT
Found at i:4079644 original size:20 final size:20
Alignment explanation
Indices: 4079616--4079654 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4079606 GAAAACAGAG
4079616 ATAACTTAGTAGACTAAGAC
1 ATAACTTAGTAGACTAAGAC
* *
4079636 ATAAGTTAGTCGACTAAGA
1 ATAACTTAGTAGACTAAGA
4079655 GCATTTTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
ATAACTTAGTAGACTAAGAC
Found at i:4083495 original size:15 final size:15
Alignment explanation
Indices: 4083475--4083504 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4083465 TTAACTCACG
*
4083475 GTTCTCTTTTTTGTT
1 GTTCTCTTATTTGTT
4083490 GTTCTCTTATTTGTT
1 GTTCTCTTATTTGTT
4083505 TGGTGTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.13, T:0.70
Consensus pattern (15 bp):
GTTCTCTTATTTGTT
Found at i:4086195 original size:48 final size:48
Alignment explanation
Indices: 4086061--4086196 Score: 137
Period size: 49 Copynumber: 2.8 Consensus size: 48
4086051 TAGTTTGACA
* * * *
4086061 CGTGGTTGGGTTTTTGGGGCATGGGCTTAAGGTATGATAGGGCTGAGTT
1 CGTGGTTGGGTTTTT-GGGCATGGGCTTGAGGTCTAATAGGGCTAAGTT
* *** * * *
4086110 CGTGATTATTTTTTTGGGATATGGGCTTGAGGTCTAATGGGGTTAAGTT
1 CGTGGTTGGGTTTTTGGG-CATGGGCTTGAGGTCTAATAGGGCTAAGTT
* *
4086159 CGTGGTTGGGTTTTTGGGCATGGGTTTGAGTTCTAATA
1 CGTGGTTGGGTTTTTGGGCATGGGCTTGAGGTCTAATA
4086197 AAGTTCGGTT
Statistics
Matches: 67, Mismatches: 19, Indels: 3
0.75 0.21 0.03
Matches are distributed among these distances:
48 19 0.28
49 48 0.72
ACGTcount: A:0.15, C:0.07, G:0.38, T:0.40
Consensus pattern (48 bp):
CGTGGTTGGGTTTTTGGGCATGGGCTTGAGGTCTAATAGGGCTAAGTT
Found at i:4086826 original size:22 final size:22
Alignment explanation
Indices: 4086753--4086836 Score: 57
Period size: 22 Copynumber: 3.9 Consensus size: 22
4086743 TTATATAATG
* *
4086753 TTTTTGTTTGTTT-TTTT-CTC
1 TTTTTCTTTCTTTCTTTTCCTC
* * * *
4086773 TTCTTCCTTCTTACTTTTTCTC
1 TTTTTCTTTCTTTCTTTTCCTC
*
4086795 ATTTGT-TTTCTTTCTTTTCCTC
1 -TTTTTCTTTCTTTCTTTTCCTC
*
4086817 TTTTTCTTTCTCTTTTTTTC
1 TTTTTCTTTCT-TTCTTTTC
4086837 TCCTCTTACC
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
20 8 0.17
21 8 0.17
22 21 0.45
23 10 0.21
ACGTcount: A:0.02, C:0.21, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTCTTTCTTTCTTTTCCTC
Found at i:4094949 original size:15 final size:15
Alignment explanation
Indices: 4094929--4094958 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4094919 TTAGCTCACG
*
4094929 GTTCTCTTTTTTGTT
1 GTTCTCTTATTTGTT
4094944 GTTCTCTTATTTGTT
1 GTTCTCTTATTTGTT
4094959 TAGTGTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.13, T:0.70
Consensus pattern (15 bp):
GTTCTCTTATTTGTT
Found at i:4096844 original size:19 final size:19
Alignment explanation
Indices: 4096820--4096857 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4096810 ACATTTAACT
*
4096820 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
4096839 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
4096858 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:4098104 original size:237 final size:238
Alignment explanation
Indices: 4097689--4098165 Score: 893
Period size: 237 Copynumber: 2.0 Consensus size: 238
4097679 CATTTTGCAC
4097689 TTCATATCATGCATTAGTAGTATAAATTAGTTTATTTTGGTTTAGTACCAAAGTAGTAAACCTCT
1 TTCATATCATGCATTAGTAGTATAAATTAGTTTATTTTGGTTTAGTACCAAAGTAGTAAACCTCT
*
4097754 TAATTGTACAATTTGTCAAGGTGGCGAATCCTCTGGCAAGGGCAAAGAAATCGCACTCGAGTAGT
66 TAATTGTACAATTTGTCAAGGTGGCGAATCCTCTGGCAAGGGCAAAGAAATCGCACTCGAGGAGT
4097819 AATAGTTGGAGTACCCGAATTTAGTTTTCGAAAATTGTGAGTAAACTTATTATCGTCTTAATTAT
131 AATAGTTGGAGTACCCGAATTTAGTTTTCGAAAATTGTGAGTAAACTTATTATCGTCTTAATTAT
4097884 CTAGAGTAGTTTTATACAATTGTGTGA-TTTATAGAAAATGGG
196 CTAGAGTAGTTTTATACAATTGTGTGATTTTATAGAAAATGGG
4097926 TTCATATCATGCATTAGTAGTATAAATTAGTTTATTTTGGTTTAGTACCAAAGTAGTAAACCTCT
1 TTCATATCATGCATTAGTAGTATAAATTAGTTTATTTTGGTTTAGTACCAAAGTAGTAAACCTCT
* * *
4097991 TAATTGTACAATTTGTCAAGGTGGCGAATCTTCTGGCAAGGGTAAAGAAATCGCACTCGAGGATT
66 TAATTGTACAATTTGTCAAGGTGGCGAATCCTCTGGCAAGGGCAAAGAAATCGCACTCGAGGAGT
*
4098056 AATAGTTGGAGTGCCCGAATTTAGTTTTCGAAAATTGTGAGTAAACTTATTATCGTCTTAATTAT
131 AATAGTTGGAGTACCCGAATTTAGTTTTCGAAAATTGTGAGTAAACTTATTATCGTCTTAATTAT
*
4098121 CTAGAGTAGTTTTATACAATTGTGTGATTTTATGGAAAATGGG
196 CTAGAGTAGTTTTATACAATTGTGTGATTTTATAGAAAATGGG
4098164 TT
1 TT
4098166 TAAATGGTAA
Statistics
Matches: 233, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
237 217 0.93
238 16 0.07
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (238 bp):
TTCATATCATGCATTAGTAGTATAAATTAGTTTATTTTGGTTTAGTACCAAAGTAGTAAACCTCT
TAATTGTACAATTTGTCAAGGTGGCGAATCCTCTGGCAAGGGCAAAGAAATCGCACTCGAGGAGT
AATAGTTGGAGTACCCGAATTTAGTTTTCGAAAATTGTGAGTAAACTTATTATCGTCTTAATTAT
CTAGAGTAGTTTTATACAATTGTGTGATTTTATAGAAAATGGG
Found at i:4100526 original size:49 final size:49
Alignment explanation
Indices: 4100424--4100525 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
4100414 CATGGTTGGG
* * * * *
4100424 TTTTTGAGGTATGGGCTTAAGGTATGATAGGGTTGAGTTTGTAGTTGTA
1 TTTTTAAGGTATGGGCTTAAGGTATGAGAGGGTTGAGTTTGGACTAGTA
* * * *
4100473 TTTTTAAGGTATGGGCTTGAGGTCTGAGGGGGTTGGGTTTGGACTAG-A
1 TTTTTAAGGTATGGGCTTAAGGTATGAGAGGGTTGAGTTTGGACTAGTA
4100521 TTTTT
1 TTTTT
4100526 TTTCGATCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 6 0.14
49 38 0.86
ACGTcount: A:0.18, C:0.04, G:0.36, T:0.42
Consensus pattern (49 bp):
TTTTTAAGGTATGGGCTTAAGGTATGAGAGGGTTGAGTTTGGACTAGTA
Found at i:4101134 original size:19 final size:18
Alignment explanation
Indices: 4101102--4101137 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4101092 TCCTTTTTTT
4101102 TCTTGTTTTTTTTCTTTC
1 TCTTGTTTTTTTTCTTTC
*
4101120 TCTTTTTTTTCTTTCTTT
1 TCTTGTTTTT-TTTCTTT
4101138 TTTTCCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (18 bp):
TCTTGTTTTTTTTCTTTC
Found at i:4101138 original size:25 final size:23
Alignment explanation
Indices: 4101074--4101139 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
4101064 CTTTTGTTTG
*
4101074 TTTTTTTC-TTTTCTTCCTTCCT
1 TTTTTTTCTTTTTTTTCCTTCCT
*
4101096 TTTTTTTCTTGTTTTTTTTCTTTCTCT
1 TTTTTTTC---TTTTTTTTCCTTC-CT
4101123 TTTTTTTCTTTCTTTTT
1 TTTTTTTCTTT-TTTTT
4101140 TTCCTCTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 8 0.22
24 3 0.08
25 5 0.14
26 10 0.28
27 10 0.28
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTTTCTTTTTTTTCCTTCCT
Found at i:4101305 original size:9 final size:9
Alignment explanation
Indices: 4101293--4101336 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
4101283 GAGGAGAGAG
4101293 AAAGAAAAA
1 AAAGAAAAA
**
4101302 AAAGGGAAA
1 AAAGAAAAA
4101311 AAAGAAAAA
1 AAAGAAAAA
*
4101320 AAAGGAAATA
1 AAA-GAAAAA
4101330 AAAGAAA
1 AAAGAAA
4101337 GAAGAGACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:4101314 original size:18 final size:19
Alignment explanation
Indices: 4101293--4101336 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
4101283 GAGGAGAGAG
*
4101293 AAAGAAAAAAAAGGGAA-A
1 AAAGAAAAAAAAGGAAATA
4101311 AAAGAAAAAAAAGGAAATA
1 AAAGAAAAAAAAGGAAATA
4101330 AAAGAAA
1 AAAGAAA
4101337 GAAGAGACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAAAAGGAAATA
Found at i:4101320 original size:17 final size:18
Alignment explanation
Indices: 4101293--4101327 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4101283 GAGGAGAGAG
*
4101293 AAAGAAAAAAAAGGGAAA
1 AAAGAAAAAAAAAGGAAA
4101311 AAAG-AAAAAAAAGGAAA
1 AAAGAAAAAAAAAGGAAA
4101328 TAAAAGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAGGAAA
Found at i:4105444 original size:2 final size:2
Alignment explanation
Indices: 4105437--4105464 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4105427 GTTTCTTTAC
4105437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4105465 GACATATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4114594 original size:27 final size:25
Alignment explanation
Indices: 4114522--4114604 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 25
4114512 ACAAGTAATA
* *
4114522 AGGTTACTTCCACCTTAACAATTGGT
1 AGGTTACTTCCA-CTGAACAAGTGGT
4114548 CAGGTTACTTCCA-TGGGAACAAGTGGT
1 -AGGTTACTTCCACT--GAACAAGTGGT
*
4114575 AGGATTACTTCCACTAGAACAAGTTGT
1 AGG-TTACTTCCACT-GAACAAGTGGT
4114602 AGG
1 AGG
4114605 GTTATACTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 43 0.90
28 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (25 bp):
AGGTTACTTCCACTGAACAAGTGGT
Found at i:4125597 original size:44 final size:44
Alignment explanation
Indices: 4125532--4125629 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
4125522 AAAATAAACA
* *
4125532 ATAAATCAGAAACAAAACCCAACTGTTCTGGTAACACAAAGATCT
1 ATAAA-CACAAACAAAACCCAACCGTTCTGGTAACACAAAGATCT
*
4125577 ATAAACACAAACAAACCCCAACCGTTCTGGTAACACAAAGATCT
1 ATAAACACAAACAAAACCCAACCGTTCTGGTAACACAAAGATCT
4125621 ATAAACACA
1 ATAAACACA
4125630 TAAGCTTCCA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.48, C:0.26, G:0.09, T:0.17
Consensus pattern (44 bp):
ATAAACACAAACAAAACCCAACCGTTCTGGTAACACAAAGATCT
Found at i:4131825 original size:2 final size:2
Alignment explanation
Indices: 4131818--4131851 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4131808 TGATAAAGAA
4131818 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
4131852 GAAATCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4132693 original size:51 final size:51
Alignment explanation
Indices: 4132617--4132724 Score: 207
Period size: 51 Copynumber: 2.1 Consensus size: 51
4132607 TAACGTATTT
*
4132617 CGTGTCTAATCGTATCTGACACATTAAGACACGAAAATTTTCGTGTCTTAA
1 CGTGTCTAATCGTATCTGACACATTAAAACACGAAAATTTTCGTGTCTTAA
4132668 CGTGTCTAATCGTATCTGACACATTAAAACACGAAAATTTTCGTGTCTTAA
1 CGTGTCTAATCGTATCTGACACATTAAAACACGAAAATTTTCGTGTCTTAA
4132719 CGTGTC
1 CGTGTC
4132725 AGACACGACA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (51 bp):
CGTGTCTAATCGTATCTGACACATTAAAACACGAAAATTTTCGTGTCTTAA
Found at i:4132793 original size:18 final size:19
Alignment explanation
Indices: 4132767--4132816 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
4132757 ATACGTTTAC
*
4132767 TTAATCGTGTTAT-CGTAT
1 TTAAACGTGTTATACGTAT
*
4132785 TTAAACGTG-TATACGTGT
1 TTAAACGTGTTATACGTAT
4132803 TTAAACGTG-TATAC
1 TTAAACGTGTTATAC
4132817 ATGACATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (19 bp):
TTAAACGTGTTATACGTAT
Found at i:4132949 original size:28 final size:26
Alignment explanation
Indices: 4132916--4132965 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
4132906 TTTAACCTTA
*
4132916 TATATAATAATAAATTTTA-TATATGT
1 TATAT-ATATTAAATTTTATTATATGT
*
4132942 TATTTATATTAAATTTTATTATAT
1 TATATATATTAAATTTTATTATAT
4132966 TTGATGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TATATATATTAAATTTTATTATATGT
Found at i:4132976 original size:25 final size:25
Alignment explanation
Indices: 4132926--4132977 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
4132916 TATATAATAA
*
4132926 TAAATTTTATATATGTTATTTATAT
1 TAAATTTTATATATGTTATGTATAT
4132951 TAAATTTTATTATAT-TTGATGT-TAT
1 TAAATTTTA-TATATGTT-ATGTATAT
4132976 TA
1 TA
4132978 TTATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (25 bp):
TAAATTTTATATATGTTATGTATAT
Found at i:4133087 original size:18 final size:18
Alignment explanation
Indices: 4133064--4133116 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
4133054 ATATTTTTAT
*
4133064 TTAATCATGTTAAACGTG
1 TTAATCGTGTTAAACGTG
4133082 TTAATCGTGTTAAACGTG
1 TTAATCGTGTTAAACGTG
*
4133100 TTAATCGTATTAAACGT
1 TTAATCGTGTTAAACGT
4133117 ATTATTAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
TTAATCGTGTTAAACGTG
Found at i:4133120 original size:9 final size:9
Alignment explanation
Indices: 4133071--4133116 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
4133061 TATTTAATCA
4133071 TGTTAAACG
1 TGTTAAACG
*
4133080 TGTTAATCG
1 TGTTAAACG
4133089 TGTTAAACG
1 TGTTAAACG
*
4133098 TGTTAATCG
1 TGTTAAACG
*
4133107 TATTAAACG
1 TGTTAAACG
4133116 T
1 T
4133117 ATTATTAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (9 bp):
TGTTAAACG
Found at i:4141321 original size:58 final size:57
Alignment explanation
Indices: 4141241--4141349 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
4141231 CAAAGTAGTT
* * * * *
4141241 TGCATGTGATGGATTTGTTTTATGCGATTTAATGAATGATATGCAATGCAAAGAAATA
1 TGCACGTGATAGATTTATTTTATACGATTTAATAAATGATATGC-ATGCAAAGAAATA
*
4141299 TGCACGTGATAGATTTATTTTATACGATTTAATAAATGCTATGCATGCAAA
1 TGCACGTGATAGATTTATTTTATACGATTTAATAAATGATATGCATGCAAA
4141350 AATGAGACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 7 0.16
58 38 0.84
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (57 bp):
TGCACGTGATAGATTTATTTTATACGATTTAATAAATGATATGCATGCAAAGAAATA
Found at i:4147256 original size:2 final size:2
Alignment explanation
Indices: 4147249--4147290 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4147239 TCTCATTAAG
4147249 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4147291 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4154088 original size:21 final size:22
Alignment explanation
Indices: 4154033--4154088 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
4154023 ACAACTATCA
* *
4154033 ATAGATG-TGAAACATCTATCG
1 ATAGATGAAGAAACATCTATAG
4154054 ATAGATGAAG-AACATCTATAG
1 ATAGATGAAGAAACATCTATAG
4154075 ATAGAT-AAGAAACA
1 ATAGATGAAGAAACA
4154089 AAAAGCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (22 bp):
ATAGATGAAGAAACATCTATAG
Found at i:4154372 original size:20 final size:19
Alignment explanation
Indices: 4154342--4154380 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4154332 CTTCAAAACT
*
4154342 TATGTAAACAAGTTTAAAA
1 TATGTAAACAAGTTCAAAA
4154361 TATGTCAAACAAGTTCAAAA
1 TATGT-AAACAAGTTCAAAA
4154381 ACTCACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
TATGTAAACAAGTTCAAAA
Found at i:4154420 original size:21 final size:21
Alignment explanation
Indices: 4154347--4154432 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
4154337 AAACTTATGT
*
4154347 AAACAAGTT-TAAAAT-ATGTC
1 AAACAAGTTCAAAAATAAT-TC
*
4154367 AAACAAGTTCAAAAACTCACTT-
1 AAACAAGTTCAAAAA-T-AATTC
*
4154389 AAACAATTTCAAAAATAATTC
1 AAACAAGTTCAAAAATAATTC
* * *
4154410 AAATAAGTTCAAAGATCATTC
1 AAACAAGTTCAAAAATAATTC
4154431 AA
1 AA
4154433 GTAATCTTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
20 12 0.23
21 24 0.45
22 15 0.28
23 1 0.02
24 1 0.02
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (21 bp):
AAACAAGTTCAAAAATAATTC
Found at i:4154574 original size:21 final size:22
Alignment explanation
Indices: 4154540--4154581 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4154530 ATAAATTAAG
4154540 TTCAAAAACACATTCAAACAAC
1 TTCAAAAACACATTCAAACAAC
*
4154562 TTCAAAAA-TCATTCAAACAA
1 TTCAAAAACACATTCAAACAA
4154582 GTTTAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (22 bp):
TTCAAAAACACATTCAAACAAC
Found at i:4158420 original size:21 final size:22
Alignment explanation
Indices: 4158394--4158434 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
4158384 TCTGTGTCAA
4158394 AAGTATCAATACTT-GAAGATG
1 AAGTATCAATACTTAGAAGATG
4158415 AAGTATCAATACTTAGAAGA
1 AAGTATCAATACTTAGAAGA
4158435 CATAATGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (22 bp):
AAGTATCAATACTTAGAAGATG
Found at i:4158431 original size:71 final size:70
Alignment explanation
Indices: 4158312--4158501 Score: 193
Period size: 71 Copynumber: 2.7 Consensus size: 70
4158302 AAAAATTATG
* * * * *
4158312 TTCTGT-TGCAAAAGTATCGATACCTCAAGAACAAGTATTGATATTTAGAAGACAAAATGCCTCA
1 TTCTGTGT-CAAAAGTATCGATACTTGAAG-AGAAGTATCGATACTTAGAAGACAAAATGCCTCA
4158376 GAAAGCA
64 GAAAGCA
* * * **
4158383 TTCTGTGTCAAAAGTATCAATACTTGAAGATGAAGTATCAATACTTAGAAGACATAATGCCTTGG
1 TTCTGTGTCAAAAGTATCGATACTTGAAGA-GAAGTATCGATACTTAGAAGACAAAATGCCTCAG
* *
4158448 GAAGTA
65 AAAGCA
* * * *
4158454 TTATGTGTGAAAAGTATCGAGATTTGAAGAGTAAGTATCGATACTTAG
1 TTCTGTGTCAAAAGTATCGATACTTGAAGAG-AAGTATCGATACTTAG
4158502 TGGTTAGGAT
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
70 2 0.02
71 95 0.97
72 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (70 bp):
TTCTGTGTCAAAAGTATCGATACTTGAAGAGAAGTATCGATACTTAGAAGACAAAATGCCTCAGA
AAGCA
Found at i:4165587 original size:47 final size:47
Alignment explanation
Indices: 4165518--4165611 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
4165508 ATTTTCCTCG
* * * *
4165518 CCATCCTACTAATCAATGAACTGGGTTGCTTCATAAGCTTCAAATAT
1 CCATCCTACCAAGCAATGAACTGGCTTACTTCATAAGCTTCAAATAT
4165565 CCATCCTACCAAGCAATGAACTGGCTTACTTCATAAGCTTCAAATAT
1 CCATCCTACCAAGCAATGAACTGGCTTACTTCATAAGCTTCAAATAT
4165612 TAATATCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.30
Consensus pattern (47 bp):
CCATCCTACCAAGCAATGAACTGGCTTACTTCATAAGCTTCAAATAT
Found at i:4172108 original size:450 final size:450
Alignment explanation
Indices: 4171267--4172153 Score: 1747
Period size: 450 Copynumber: 2.0 Consensus size: 450
4171257 AGCATTGTTG
4171267 TATAGCTAACATTTTATTTTGTTTGTTTGCTCTTCTTTCAAAGATAACCATATAATATTCACTTG
1 TATAGCTAACATTTTATTTTGTTTGTTTGCTCTTCTTTCAAAGATAACCATATAATATTCACTTG
4171332 GAAGTTTACTGTCAGCCATTTCTGGCAGCTATGAGGAAATCATGCTCCTAAAGTAGCAAAGAAGA
66 GAAGTTTACTGTCAGCCATTTCTGGCAGCTATGAGGAAATCATGCTCCTAAAGTAGCAAAGAAGA
*
4171397 GAATTTAGAATCAAACAAAGCCAGATTTTGCTAATTCACAAAAGAAGAGGTATATGCAATCATAC
131 GAATTTAGAATCAAACAAAGCCAGATTTTGCTAATGCACAAAAGAAGAGGTATATGCAATCATAC
*
4171462 CCAACATAAGTTCTATAGAGAAATTTAATGTTTGGTCTATCCTTTTCTGTCTTTGCAATGGACAT
196 CCAACATAAGTTCTATAAAGAAATTTAATGTTTGGTCTATCCTTTTCTGTCTTTGCAATGGACAT
4171527 TGATTAGGTATGTAAGGCTTCATAAGCAACCCTACCGATTACTAATCTGAAGTCAACCATACTTG
261 TGATTAGGTATGTAAGGCTTCATAAGCAACCCTACCGATTACTAATCTGAAGTCAACCATACTTG
4171592 GTTAATATACACTGGAAATTAAGGGGATAGAAAGCATTTATCTAAATTATCCAAAAATACCATTC
326 GTTAATATACACTGGAAATTAAGGGGATAGAAAGCATTTATCTAAATTATCCAAAAATACCATTC
4171657 TGAAGCAACTTGTAGCAACATGGTATCTCAATAACATTAATCAAACATTTTATCTCAACT
391 TGAAGCAACTTGTAGCAACATGGTATCTCAATAACATTAATCAAACATTTTATCTCAACT
4171717 TATAGCTAACATTTTATTTTGTTTGTTTGCTCTTCTTTCAAAGATAACCATATAATATTCACTTG
1 TATAGCTAACATTTTATTTTGTTTGTTTGCTCTTCTTTCAAAGATAACCATATAATATTCACTTG
4171782 GAAGTTTACTGTCAGCCATTTCTGGCAGCTATGAGGAAATCATGCTCCTAAAGTAGCAAAGAAGA
66 GAAGTTTACTGTCAGCCATTTCTGGCAGCTATGAGGAAATCATGCTCCTAAAGTAGCAAAGAAGA
4171847 GAATTTAGAATCAAACAAAGCCAGATTTTGCTAATGCACAAAAGAAGAGGTATATGCAATCATAC
131 GAATTTAGAATCAAACAAAGCCAGATTTTGCTAATGCACAAAAGAAGAGGTATATGCAATCATAC
*
4171912 CCAACATAAGTTCTGTAAAGAAATTTAATGTTTGGTCTATCCTTTTCTGTCTTTGCAATGGACAT
196 CCAACATAAGTTCTATAAAGAAATTTAATGTTTGGTCTATCCTTTTCTGTCTTTGCAATGGACAT
4171977 TGATTAGGTATGTAAGGCTTCATAAGCAACCCTACCGATTACTAATCTGAAGTCAACCATACTTG
261 TGATTAGGTATGTAAGGCTTCATAAGCAACCCTACCGATTACTAATCTGAAGTCAACCATACTTG
4172042 GTTAATATACACTGGAAATTAAGGGGATAGAAAGCATTTATCTAAATTATCCAAAAATACCATTC
326 GTTAATATACACTGGAAATTAAGGGGATAGAAAGCATTTATCTAAATTATCCAAAAATACCATTC
4172107 TGAAGCAACTTGTAGCAACATGGTATCTCAATAACATTAATCAAACA
391 TGAAGCAACTTGTAGCAACATGGTATCTCAATAACATTAATCAAACA
4172154 ATTAACTGAC
Statistics
Matches: 434, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
450 434 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (450 bp):
TATAGCTAACATTTTATTTTGTTTGTTTGCTCTTCTTTCAAAGATAACCATATAATATTCACTTG
GAAGTTTACTGTCAGCCATTTCTGGCAGCTATGAGGAAATCATGCTCCTAAAGTAGCAAAGAAGA
GAATTTAGAATCAAACAAAGCCAGATTTTGCTAATGCACAAAAGAAGAGGTATATGCAATCATAC
CCAACATAAGTTCTATAAAGAAATTTAATGTTTGGTCTATCCTTTTCTGTCTTTGCAATGGACAT
TGATTAGGTATGTAAGGCTTCATAAGCAACCCTACCGATTACTAATCTGAAGTCAACCATACTTG
GTTAATATACACTGGAAATTAAGGGGATAGAAAGCATTTATCTAAATTATCCAAAAATACCATTC
TGAAGCAACTTGTAGCAACATGGTATCTCAATAACATTAATCAAACATTTTATCTCAACT
Found at i:4181956 original size:2 final size:2
Alignment explanation
Indices: 4181949--4181988 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
4181939 ATTCATATGT
4181949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4181989 TAGACTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4183219 original size:28 final size:29
Alignment explanation
Indices: 4183146--4183228 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
4183136 ATTAGGTAAT
* **
4183146 TTTTTTGAACATAGCGTGTAACAGCATCA
1 TTTTTTAAACATAGCGTGTAACAATATCA
*
4183175 TTTTTTCAACA-AGGCGTGTAACAATATCA
1 TTTTTTAAACATA-GCGTGTAACAATATCA
4183204 -TTTTTAAACATAGCGTGTAACAATA
1 TTTTTTAAACATAGCGTGTAACAATA
4183229 ACTTGCTACA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 23 0.48
29 25 0.52
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (29 bp):
TTTTTTAAACATAGCGTGTAACAATATCA
Found at i:4184031 original size:22 final size:24
Alignment explanation
Indices: 4183986--4184031 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
4183976 TACTATTACC
* *
4183986 ACTTTTCTTGACCTTCCTACTATT
1 ACTTTTCTTGACCTTCCCAATATT
4184010 ACTTTTCTT-A-CTTCCCAATATT
1 ACTTTTCTTGACCTTCCCAATATT
4184032 TTCTTAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 1 0.05
24 9 0.45
ACGTcount: A:0.20, C:0.28, G:0.02, T:0.50
Consensus pattern (24 bp):
ACTTTTCTTGACCTTCCCAATATT
Found at i:4184180 original size:20 final size:23
Alignment explanation
Indices: 4184155--4184196 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
4184145 TTGTACATAT
4184155 AGAAAA-AATT-GAA-AATAAAA
1 AGAAAATAATTAGAATAATAAAA
4184175 AGAAAATAATTAGAATAATAAA
1 AGAAAATAATTAGAATAATAAA
4184197 TCTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 3 0.16
23 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (23 bp):
AGAAAATAATTAGAATAATAAAA
Found at i:4184525 original size:21 final size:20
Alignment explanation
Indices: 4184471--4184565 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
4184461 TGTAGACACC
*
4184471 TAAAAATAATAATAATAATAA
1 TAAATATAATAA-AATAATAA
**
4184492 TAAATA-AAT-AAATAATTT
1 TAAATATAATAAAATAATAA
*
4184510 TAAATTATAATAAAATAA-AC
1 TAAA-TATAATAAAATAATAA
4184530 TAAA-AT-ATAAAATAAT-A
1 TAAATATAATAAAATAATAA
*
4184547 TAAAAATAAATAAAA-AATA
1 TAAATAT-AATAAAATAATA
4184566 TAAGGAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
17 13 0.22
18 14 0.23
19 6 0.10
20 16 0.27
21 11 0.18
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAATATAATAAAATAATAA
Found at i:4184541 original size:17 final size:15
Alignment explanation
Indices: 4184471--4184560 Score: 55
Period size: 15 Copynumber: 6.0 Consensus size: 15
4184461 TGTAGACACC
4184471 TAAAAATAATAAT-AA
1 TAAAAATAA-AATAAA
*
4184486 TAATAAT-AAATAAA
1 TAAAAATAAAATAAA
**
4184500 T--AAATAATTTTAAA
1 TAAAAATAA-AATAAA
* *
4184514 TTATAATAAAATAAA
1 TAAAAATAAAATAAA
4184529 CTAAAATATAAAATAATA
1 -TAAAA-ATAAAATAA-A
4184547 TAAAAAT-AAATAAA
1 TAAAAATAAAATAAA
4184561 AAATATAAGG
Statistics
Matches: 58, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
12 3 0.05
13 4 0.07
14 10 0.17
15 16 0.28
16 10 0.17
17 14 0.24
18 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAAATAAAATAAA
Found at i:4184546 original size:10 final size:10
Alignment explanation
Indices: 4184473--4184568 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 10
4184463 TAGACACCTA
4184473 AAAATAATA-
1 AAAATAATAT
*
4184482 ATAATAATA-
1 AAAATAATAT
4184491 ATAAATAA-AT
1 A-AAATAATAT
*
4184501 -AAATAATTT
1 AAAATAATAT
* *
4184510 TAAATTATAAT
1 AAAATAAT-AT
4184521 AAAATAA-ACT
1 AAAATAATA-T
4184531 --AA-AATAT
1 AAAATAATAT
4184538 AAAATAATAT
1 AAAATAATAT
4184548 AAAAATAA-AT
1 -AAAATAATAT
4184558 AAAA-AATAT
1 AAAATAATAT
4184567 AA
1 AA
4184569 GGAAAAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
7 3 0.04
8 11 0.16
9 22 0.32
10 19 0.28
11 13 0.19
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATAATAT
Found at i:4184562 original size:28 final size:27
Alignment explanation
Indices: 4184471--4184568 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 27
4184461 TGTAGACACC
*
4184471 TAAAAATAATAATAATAATAATAAATAAA
1 TAAAAAT-ATAA-AATAATAAAAAATAAA
* * *
4184500 TAAATAATTTTAAATTATAATAAAATAAA
1 TAAA-AATATAAAATAATAA-AAAATAAA
4184529 CT-AAAATATAAAATAATATAAAAATAAA
1 -TAAAAATATAAAATAATA-AAAAATAAA
4184557 TAAAAAATATAA
1 T-AAAAATATAA
4184569 GGAAAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 1 0.02
28 26 0.46
29 25 0.45
30 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (27 bp):
TAAAAATATAAAATAATAAAAAATAAA
Found at i:4185603 original size:23 final size:23
Alignment explanation
Indices: 4185559--4185604 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4185549 AGTAAAAGAA
* * * *
4185559 AAATAAATATATATACATAAAAT
1 AAATAAATAAATAGAAAGAAAAT
4185582 AAATAAATAAATAGAAAGAAAAT
1 AAATAAATAAATAGAAAGAAAAT
4185605 TCATAATACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATAAATAAATAGAAAGAAAAT
Found at i:4185907 original size:13 final size:13
Alignment explanation
Indices: 4185877--4185916 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
4185867 TATTGTTTAA
4185877 AATAAT-ATATAAT
1 AATAATGATA-AAT
*
4185890 GATAATGATAAAT
1 AATAATGATAAAT
4185903 AATAATGATAAAT
1 AATAATGATAAAT
4185916 A
1 A
4185917 TATGAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 21 0.88
14 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
AATAATGATAAAT
Found at i:4201876 original size:35 final size:35
Alignment explanation
Indices: 4201837--4201923 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
4201827 CATTTATTAT
*
4201837 ATTCACGTATCACTATTGCATACATGAA-TAAGCAA
1 ATTCATGTATCACTATTGCATACATGAATTAA-CAA
* * *
4201872 ATTCATGTATCACTATTGCATGCATGAATTAATAG
1 ATTCATGTATCACTATTGCATACATGAATTAACAA
4201907 ATTCATGTATCACTATT
1 ATTCATGTATCACTATT
4201924 AATTACATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
35 44 0.94
36 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (35 bp):
ATTCATGTATCACTATTGCATACATGAATTAACAA
Found at i:4202812 original size:22 final size:22
Alignment explanation
Indices: 4202787--4202836 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
4202777 ACAATACTAG
4202787 TTTTTAGACATTACGTGACTGA
1 TTTTTAGACATTACGTGACTGA
** *
4202809 -TTTTAGACATTGTGTGATTGA
1 TTTTTAGACATTACGTGACTGA
4202830 TTTTTAG
1 TTTTTAG
4202837 GTATTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (22 bp):
TTTTTAGACATTACGTGACTGA
Found at i:4203158 original size:59 final size:60
Alignment explanation
Indices: 4203056--4203179 Score: 160
Period size: 59 Copynumber: 2.1 Consensus size: 60
4203046 TACTTGGCAA
* * * * *
4203056 AAAATGCTCGAAATGCTTAAAGGTTTTTCCTTATACATCAAAAATCACTTCAAAATACTT
1 AAAATGCTCAAAACGCTCAAAGGTTTTTCCTTATACATCAAAAACCACTTCAAAATACTC
* * * *
4203116 AAAAT-CTCAAAACGCTCAAAGGTTTTTCTTTGTATATTAAAAACCACTTCAAAATACTC
1 AAAATGCTCAAAACGCTCAAAGGTTTTTCCTTATACATCAAAAACCACTTCAAAATACTC
4203175 AAAAT
1 AAAAT
4203180 ACTTAAAGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 50 0.91
60 5 0.09
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (60 bp):
AAAATGCTCAAAACGCTCAAAGGTTTTTCCTTATACATCAAAAACCACTTCAAAATACTC
Found at i:4203688 original size:2 final size:2
Alignment explanation
Indices: 4203683--4203722 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4203673 TCTCAAAAAC
*
4203683 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4203723 ATAAATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Done.