Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 33 of 131
Found at i:7591508 original size:12 final size:12
Alignment explanation
Indices: 7591491--7591515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7591481 ACAAAACTCA
7591491 TCTTTTGATTTT
1 TCTTTTGATTTT
7591503 TCTTTTGATTTT
1 TCTTTTGATTTT
7591515 T
1 T
7591516 TTTGAACTAA
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:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TCTTTTGATTTT
Found at i:7594579 original size:23 final size:22
Alignment explanation
Indices: 7594566--7594735 Score: 103
Period size: 23 Copynumber: 8.0 Consensus size: 22
7594556 TTATATTTAT
7594566 TATATAAATAATATTATATTAA
1 TATATAAATAATATTATATTAA
* * *
7594588 TAAATAATATTATATCATATTAA
1 TATATAA-ATAATATTATATTAA
7594611 TATATTAGAATTAATATTATATTAA
1 TATA-TA-AA-TAATATTATATTAA
7594636 TATAT-AAT-ATATTA-A-TAA
1 TATATAAATAATATTATATTAA
* * * *
7594654 CATAT-TATATTATT-TATT-G
1 TATATAAATAATATTATATTAA
*
7594673 T-TAT-AATATTATTAGTA-TAA
1 TATATAAATAATATTA-TATTAA
*
7594693 TACATATAATAATA-T-TATTAA
1 TATATA-AATAATATTATATTAA
*
7594714 TATTATAAATATTATTATATTA
1 TA-TATAAATAATATTATATTA
7594736 TTAATAACAA
Statistics
Matches: 114, Mismatches: 17, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
18 20 0.18
19 7 0.06
20 12 0.11
21 14 0.12
22 13 0.11
23 27 0.24
24 4 0.04
25 17 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATAAATAATATTATATTAA
Found at i:7594600 original size:41 final size:44
Alignment explanation
Indices: 7594527--7594647 Score: 130
Period size: 48 Copynumber: 2.8 Consensus size: 44
7594517 TAAATATTAC
*
7594527 ATTA-ATAAATAATA-TA-A-TAATTAATAATAT-TAT-AT-TT
1 ATTATATAAATAATATTATATTAATAAATAATATATATCATATT
7594564 ATTATATAAATAATATTATATTAATAAATAATATTATATCATATT
1 ATTATATAAATAATATTATATTAATAAATAATA-TATATCATATT
* *
7594609 AATATATTAGAATTAATATTATATTAATATATAATATAT
1 ATTATA-TA-AA-TAATATTATATTAATAAATAATATAT
7594648 TAATAACATA
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
37 4 0.06
38 10 0.14
39 2 0.03
40 1 0.01
41 11 0.16
42 1 0.01
43 3 0.04
44 2 0.03
45 7 0.10
46 2 0.03
47 5 0.07
48 22 0.31
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (44 bp):
ATTATATAAATAATATTATATTAATAAATAATATATATCATATT
Found at i:7594615 original size:18 final size:19
Alignment explanation
Indices: 7594519--7594666 Score: 101
Period size: 18 Copynumber: 7.7 Consensus size: 19
7594509 TTCTTGTATA
*
7594519 AATATTACATTA-ATAAAT
1 AATATTATATTATATAAAT
*
7594537 AATATAATAATTA-ATAATAT
1 AATATTAT-ATTATATAA-AT
*
7594557 TATATT-TATTATATAAAT
1 AATATTATATTATATAAAT
7594575 AATATTATATTA-ATAAAT
1 AATATTATATTATATAAAT
* *
7594593 AATATTATATCATATTAAT
1 AATATTATATTATATAAAT
* *
7594612 -ATATTAGAATTAATATTATATT
1 AATATTA-TATT-ATA-TA-AAT
* *
7594634 AATA-TATAATATATTAAT
1 AATATTATATTATATAAAT
7594652 AACATATTATATTAT
1 -A-ATATTATATTAT
7594667 TTATTGTTAT
Statistics
Matches: 101, Mismatches: 16, Indels: 23
0.72 0.11 0.16
Matches are distributed among these distances:
18 42 0.42
19 27 0.27
20 15 0.15
21 10 0.10
22 4 0.04
23 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (19 bp):
AATATTATATTATATAAAT
Found at i:7594633 original size:25 final size:24
Alignment explanation
Indices: 7594551--7594640 Score: 98
Period size: 23 Copynumber: 3.8 Consensus size: 24
7594541 TAATAATTAA
*
7594551 TAATATTATATTTAT-TATATAAA-
1 TAATATTATATTAATATAT-TAAAT
*
7594574 TAATATTATATTAATA-AATAATAT
1 TAATATTATATTAATATATTAA-AT
*
7594598 T-ATATCATATTAATATATTAGAAT
1 TAATATTATATTAATATATTA-AAT
7594622 TAATATTATATTAATATAT
1 TAATATTATATTAATATAT
7594641 AATATATTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 3 0.05
23 29 0.52
24 7 0.12
25 17 0.30
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
TAATATTATATTAATATATTAAAT
Found at i:7594658 original size:13 final size:15
Alignment explanation
Indices: 7594527--7594652 Score: 68
Period size: 15 Copynumber: 8.5 Consensus size: 15
7594517 TAAATATTAC
*
7594527 ATTAATAAATAATAT
1 ATTAATATATAATAT
*
7594542 AAT-A-AT-TAATAAT
1 ATTAATATATAAT-AT
* *
7594555 ATT-ATATTTATTAT
1 ATTAATATATAATAT
* *
7594569 ATAAATA-ATATTAT
1 ATTAATATATAATAT
*
7594583 ATTAATAAATAATATT
1 ATTAATATATAATA-T
*
7594599 ATATCATAT-TAATAT
1 AT-TAATATATAATAT
*
7594614 ATTAGA-ATTAATATTAT
1 ATTA-ATA-T-ATAATAT
7594631 ATTAATATATAATAT
1 ATTAATATATAATAT
7594646 ATTAATA
1 ATTAATA
7594653 ACATATTATA
Statistics
Matches: 86, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
12 4 0.05
13 6 0.07
14 21 0.24
15 31 0.36
16 10 0.12
17 14 0.16
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTAATATATAATAT
Found at i:7594663 original size:48 final size:43
Alignment explanation
Indices: 7594515--7594665 Score: 121
Period size: 41 Copynumber: 3.4 Consensus size: 43
7594505 TCTTTTCTTG
* * * *
7594515 TATAA-ATATTACATT-AATAAATAATATAATAATTAATAATAT
1 TATAACATATTATATTAAAT-AATATTATATTAATAAATAATAT
**
7594557 TAT-ATTTATTATA-TAAATAATATTATATTAATAAATAATAT
1 TATAACATATTATATTAAATAATATTATATTAATAAATAATAT
* *
7594598 TATATCATATTAATATATTAGAATTAATATTATATTAATATATAATATAT
1 TATAACATA-T--TATATTA-AA-TAATATTATATTAATAAAT-A-ATAT
7594648 TAATAACATATTATATTA
1 T-ATAACATATTATATTA
7594666 TTTATTGTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
41 25 0.29
42 14 0.16
43 1 0.01
45 4 0.05
46 2 0.02
47 2 0.02
48 25 0.29
49 1 0.01
50 6 0.07
51 7 0.08
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAACATATTATATTAAATAATATTATATTAATAAATAATAT
Found at i:7595784 original size:13 final size:13
Alignment explanation
Indices: 7595766--7595799 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7595756 TCTAATTTTA
7595766 TTTATAATATCAT
1 TTTATAATATCAT
*
7595779 TTTATACTATCAT
1 TTTATAATATCAT
7595792 TTTATAAT
1 TTTATAAT
7595800 CTTTTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTATAATATCAT
Found at i:7597886 original size:5 final size:5
Alignment explanation
Indices: 7597878--7597920 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
7597868 ATAAAACAAA
7597878 AAAGG AAA-G AAA-G AAA-G -AAGG -AAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAA
7597921 AGATGGGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 2 0.06
4 14 0.39
5 20 0.56
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:7597900 original size:16 final size:17
Alignment explanation
Indices: 7597879--7597911 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7597869 TAAAACAAAA
7597879 AAGGAAAGAAA-GAAAG
1 AAGGAAAGAAAGGAAAG
*
7597895 AAGGAAGGAAAGGAAAG
1 AAGGAAAGAAAGGAAAG
7597912 GAAAGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AAGGAAAGAAAGGAAAG
Found at i:7598244 original size:2 final size:2
Alignment explanation
Indices: 7598237--7598281 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
7598227 TGTTGAATTA
* * * *
7598237 AT AT AT AT AC AA AA AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7598279 AT A
1 AT A
7598282 CGAAGAAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:7600715 original size:2 final size:2
Alignment explanation
Indices: 7600708--7600752 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
7600698 TCTTTAGTGC
*
7600708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7600750 TA T
1 TA T
7600753 TTGAATTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7603515 original size:21 final size:21
Alignment explanation
Indices: 7603489--7603550 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
7603479 TTTGATAACA
7603489 TTAATAAAATTTTGATAATTT
1 TTAATAAAATTTTGATAATTT
* * *
7603510 TTAATATAATTTTAATATTTT
1 TTAATAAAATTTTGATAATTT
* *
7603531 TTTATAATATTTTGATAATT
1 TTAATAAAATTTTGATAATT
7603551 CATTATATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (21 bp):
TTAATAAAATTTTGATAATTT
Found at i:7603556 original size:21 final size:22
Alignment explanation
Indices: 7603531--7603591 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
7603521 TTAATATTTT
7603531 TTTATAATATTTTGATAATTCA
1 TTTATAATATTTTGATAATTCA
*
7603553 -TTAT-ATAATTTGAGTAA-TCA
1 TTTATAATATTTTGA-TAATTCA
*
7603573 TTTATACATTTTTTG-TAAT
1 TTTATA-ATATTTTGATAAT
7603592 CTTTGATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
20 11 0.35
21 14 0.45
23 6 0.19
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (22 bp):
TTTATAATATTTTGATAATTCA
Found at i:7603573 original size:20 final size:20
Alignment explanation
Indices: 7603541--7603583 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
7603531 TTTATAATAT
7603541 TTTGATAATTCATTATATA-A
1 TTTGATAATTCATT-TATACA
7603561 TTTGAGTAA-TCATTTATACA
1 TTTGA-TAATTCATTTATACA
7603581 TTT
1 TTT
7603584 TTTGTAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTGATAATTCATTTATACA
Found at i:7603577 original size:42 final size:41
Alignment explanation
Indices: 7603479--7603591 Score: 97
Period size: 42 Copynumber: 2.7 Consensus size: 41
7603469 TTGTTAGAAG
* * *
7603479 TTTGATAA-CATTAATAAAATTTTGATAATTTTTAATATAA
1 TTTGATAATCATTTATAATATTTTGATAATTATTAATATAA
* * **
7603519 TTTTAATATTTTTTTATAATATTTTGATAATTCATT-ATATAA
1 -TTTGATAATCATTTATAATATTTTGATAATT-ATTAATATAA
*
7603561 TTTGAGTAATCATTTATACATTTTTTG-TAAT
1 TTTGA-TAATCATTTATA-ATATTTTGATAAT
7603592 CTTTGATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
41 10 0.18
42 37 0.66
43 9 0.16
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (41 bp):
TTTGATAATCATTTATAATATTTTGATAATTATTAATATAA
Found at i:7603592 original size:21 final size:21
Alignment explanation
Indices: 7603566--7603605 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7603556 TATAATTTGA
*
7603566 GTAATCATTT-ATACATTTTTT
1 GTAATC-TTTGATAAATTTTTT
7603587 GTAATCTTTGATAAATTTT
1 GTAATCTTTGATAAATTTT
7603606 AGTAAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
GTAATCTTTGATAAATTTTTT
Found at i:7603610 original size:20 final size:21
Alignment explanation
Indices: 7603559--7603665 Score: 57
Period size: 20 Copynumber: 5.3 Consensus size: 21
7603549 TTCATTATAT
*
7603559 AATTTGAGTAATCATTT-ATAC
1 AATTTTAGTAATC-TTTGATAC
* *
7603580 ATTTTTTGTAATCTTTGATA-
1 AATTTTAGTAATCTTTGATAC
* *
7603600 AATTTTAGTAA-GTTTGATAT
1 AATTTTAGTAATCTTTGATAC
** *
7603620 AATTGGA-TAACCTTT-ATAC
1 AATTTTAGTAATCTTTGATAC
*
7603639 AATGTT-GATAA-CTATTGATAC
1 AATTTTAG-TAATCT-TTGATAC
7603660 AATTTT
1 AATTTT
7603666 GGATCGAAGG
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
19 18 0.28
20 25 0.38
21 22 0.34
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (21 bp):
AATTTTAGTAATCTTTGATAC
Found at i:7603925 original size:9 final size:10
Alignment explanation
Indices: 7603911--7603968 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
7603901 CTGTTTCTTT
7603911 TGTATT-TTA
1 TGTATTATTA
7603920 TGTATT-TTA
1 TGTATTATTA
7603929 T-TATTTATTA
1 TGTA-TTATTA
7603939 T-TATTATTA
1 TGTATTATTA
*
7603948 TGTATTAATA
1 TGTATTATTA
* *
7603958 TATATTTTTA
1 TGTATTATTA
7603968 T
1 T
7603969 TTTTTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 2 0.05
9 19 0.45
10 21 0.50
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (10 bp):
TGTATTATTA
Found at i:7603935 original size:16 final size:16
Alignment explanation
Indices: 7603916--7604040 Score: 79
Period size: 16 Copynumber: 7.9 Consensus size: 16
7603906 TCTTTTGTAT
7603916 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
7603932 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
7603948 TGTATTAATATATATT-
1 TTTATTATTAT-TATTA
7603964 TTTATT-TT-TT-TTA
1 TTTATTATTATTATTA
* *
7603977 -TTATTA-GATTA-GA
1 TTTATTATTATTATTA
7603990 TTTA-TATGTATATAGTTA
1 TTTATTAT-TAT-TA-TTA
*
7604008 TATATTTATTATTATTA
1 TTTA-TTATTATTATTA
7604025 TATTATTATTATTATT
1 T-TTATTATTATTATT
7604041 TTGTTTTTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
12 7 0.08
13 6 0.07
14 4 0.05
15 7 0.08
16 27 0.32
17 19 0.23
18 8 0.10
19 3 0.04
20 3 0.04
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:7603939 original size:3 final size:3
Alignment explanation
Indices: 7603913--7604040 Score: 70
Period size: 3 Copynumber: 41.3 Consensus size: 3
7603903 GTTTCTTTTG
*
7603913 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TAT GTAT TAA TAT
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * *
7603959 ATAT TTT TAT TTT TTT TAT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T
7604006 TAT ATATT TAT TAT TAT TA- TAT TAT TAT TAT TAT T
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7604041 TTGTTTTTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
2 9 0.09
3 64 0.65
4 24 0.24
5 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7603968 original size:48 final size:49
Alignment explanation
Indices: 7603915--7604041 Score: 129
Period size: 48 Copynumber: 2.6 Consensus size: 49
7603905 TTCTTTTGTA
7603915 TTTTATGTATTTTATTATTTATTATTA-TTATTATGTAT-TA-ATATATAT
1 TTTTAT-TATTTTATTATTTATTATTATTTA-TATGTATATAGATATATAT
* * * *
7603963 TTTTATTTTTTTTATTATTAGATTA-GATTTATATGTATATAGTTATATAT
1 TTTTA-TTATTTTATTATT-TATTATTATTTATATGTATATAGATATATAT
*
7604013 TTATTATTATTATATTA-TTATTATTATTT
1 TT-TTATTATTTTATTATTTATTATTATTT
7604042 TGTTTTTGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
48 28 0.44
49 15 0.23
50 18 0.28
51 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (49 bp):
TTTTATTATTTTATTATTTATTATTATTTATATGTATATAGATATATAT
Found at i:7604505 original size:25 final size:25
Alignment explanation
Indices: 7604477--7604530 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
7604467 CTGGGAGTGA
*
7604477 GAAAAAATTTT-TAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
* *
7604501 CGAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
7604527 GAAA
1 GAAA
7604531 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:7605081 original size:4 final size:4
Alignment explanation
Indices: 7605023--7605062 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
7605013 GGTTTTTTTT
* *
7605023 TTTA TTTA TTTG TTTA TTTG TTTA TTTA TTTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT
7605063 GTTAGATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:7605119 original size:11 final size:11
Alignment explanation
Indices: 7605089--7605170 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 11
7605079 TTAATATTCT
*
7605089 TTTTATCTTTA
1 TTTTATTTTTA
7605100 TTTTATTTTTA
1 TTTTATTTTTA
*
7605111 -TTT-TGTTT-
1 TTTTATTTTTA
7605119 TTTTATTTTTA
1 TTTTATTTTTA
*
7605130 -TTTATTTTCA
1 TTTTATTTTTA
*
7605140 CTTTCATTTTTTTA
1 -TTT--TATTTTTA
7605154 TTTTATTATTCTA
1 TTTTATT-TT-TA
7605167 TTTT
1 TTTT
7605171 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
9 7 0.13
10 16 0.29
11 13 0.24
12 4 0.07
13 9 0.16
14 6 0.11
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:7605124 original size:30 final size:30
Alignment explanation
Indices: 7605088--7605160 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
7605078 TTTAATATTC
* **
7605088 TTTTTATCTTTATTTTATTTTTA-TTTTGTT
1 TTTTTAT-TTTATTTTATTTTCACTTTCATT
7605118 TTTTTATTTT-TATTTATTTTCACTTTCATT
1 TTTTTATTTTAT-TTTATTTTCACTTTCATT
7605148 TTTTTATTTTATT
1 TTTTTATTTTATT
7605161 ATTCTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 1 0.03
29 12 0.32
30 23 0.62
31 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTTTATTTTATTTTATTTTCACTTTCATT
Found at i:7605157 original size:6 final size:6
Alignment explanation
Indices: 7605088--7605132 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
7605078 TTTAATATTC
* *
7605088 TTTTTA TCTTTA -TTTTA TTTTTA TTTTGTT TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTT
7605133 ATTTTCACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
6 24 0.73
7 5 0.15
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:7605321 original size:61 final size:59
Alignment explanation
Indices: 7605253--7605545 Score: 407
Period size: 61 Copynumber: 4.9 Consensus size: 59
7605243 AAAGGAAAAT
7605253 AAATAAA-TTTCAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 AAATAAATTTTCAAAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT--AA
* *
7605314 AAATAAA-TTTCAAAAAAAAAGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTTCAAAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
7605373 AAATCAAAGTGTCAAAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAATTTTCAAAAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
7605433 AAATAAATTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-A
1 AAATAAATTTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
7605490 AAATAAATTTTCAAAAAAAAATGTTTATGGGGAAAAGTTGAAGGTATCAATTTTCC
1 AAATAAATTTTCAAAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
7605546 CTACGCAAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
57 21 0.10
58 35 0.16
59 48 0.23
60 41 0.19
61 67 0.31
62 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (59 bp):
AAATAAATTTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:7605600 original size:13 final size:13
Alignment explanation
Indices: 7605584--7605608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7605574 CTTCCTTTCT
7605584 ATTTTGATTTTTG
1 ATTTTGATTTTTG
7605597 ATTTTGATTTTT
1 ATTTTGATTTTT
7605609 CTTTAAATAA
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
ATTTTGATTTTTG
Found at i:7613954 original size:23 final size:23
Alignment explanation
Indices: 7613888--7613948 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 23
7613878 ACAATGCAAA
*
7613888 TTGAAACTCAAAGATTCACAA-T
1 TTGAAATTCAAAGATTCACAATT
* *
7613910 TTG-AGTTCAAAGAATCACAATT
1 TTGAAATTCAAAGATTCACAATT
7613932 TTGAAATTCAAAGATTC
1 TTGAAATTCAAAGATTC
7613949 GTAATTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 14 0.44
22 7 0.22
23 11 0.34
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (23 bp):
TTGAAATTCAAAGATTCACAATT
Found at i:7614094 original size:18 final size:18
Alignment explanation
Indices: 7614067--7614109 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7614057 TGAGAGTTGT
*
7614067 AAAA-TTTCAATTTCGCA
1 AAAATTTTCAAATTCGCA
*
7614084 AAAATTTTCAAATTCGTA
1 AAAATTTTCAAATTCGCA
7614102 AAAATTTT
1 AAAATTTT
7614110 GATTATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (18 bp):
AAAATTTTCAAATTCGCA
Found at i:7614526 original size:46 final size:46
Alignment explanation
Indices: 7614475--7614574 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
7614465 AATTACGGGG
*
7614475 TTCACATCCAAAATTTCAAAAATTCTCA-TTTGAAAACTTTTATAGA
1 TTCACATCCAAAATTTCAAAAATTCTCATTTTGAAAAC-TTTAGAGA
* * * *
7614521 TTCACATCCAATATTTGAAATATTCTCATTTTTTAAAACTTTAGAGA
1 TTCACATCCAAAATTTCAAAAATTCTCA-TTTTGAAAACTTTAGAGA
7614568 TTCACAT
1 TTCACAT
7614575 TAAAAACTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
46 25 0.53
47 14 0.30
48 8 0.17
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (46 bp):
TTCACATCCAAAATTTCAAAAATTCTCATTTTGAAAACTTTAGAGA
Found at i:7614601 original size:21 final size:21
Alignment explanation
Indices: 7614552--7614612 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
7614542 ATTCTCATTT
*
7614552 TTTAAAACTTTAGAGATTCACA
1 TTTAAAACTTCA-AGATTCACA
* **
7614574 TTAAAAACTTCAAGATTCTTA
1 TTTAAAACTTCAAGATTCACA
7614595 TTTAAAAC-TCAAAGATTC
1 TTTAAAACTTC-AAGATTC
7614613 CTATCTGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 2 0.06
21 21 0.64
22 10 0.30
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (21 bp):
TTTAAAACTTCAAGATTCACA
Found at i:7615842 original size:6 final size:7
Alignment explanation
Indices: 7615825--7615864 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
7615815 TTTTCATATT
*
7615825 TTTTTTA
1 TTTTTCA
7615832 TTTTTCA
1 TTTTTCA
7615839 TTTTTCA
1 TTTTTCA
7615846 TTTTTCA
1 TTTTTCA
7615853 TTTCTT-A
1 TTT-TTCA
7615860 TTTTT
1 TTTTT
7615865 TTCACTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
6 2 0.06
7 27 0.87
8 2 0.06
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:7616767 original size:19 final size:21
Alignment explanation
Indices: 7616743--7616799 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
7616733 TGATAAAAAA
7616743 AAAAGAAATCT-TATTAC-AT
1 AAAAGAAATCTATATTACTAT
*
7616762 AAAAGAAATTCTAATATTACTTT
1 AAAAGAAA-TCT-ATATTACTAT
7616785 AAAAGAAATCCTATA
1 AAAAGAAAT-CTATA
7616800 ATGATAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.25
20 3 0.09
22 10 0.31
23 11 0.34
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAAGAAATCTATATTACTAT
Found at i:7626193 original size:59 final size:59
Alignment explanation
Indices: 7626113--7626487 Score: 297
Period size: 59 Copynumber: 6.3 Consensus size: 59
7626103 AAAATGGAAG
*
7626113 TTTTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTTTGAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTTTGAA
* *
7626171 TTTTTATTTTTAAGAAAAATTGATACTTTCAAC--TTTCCTTCAAAAATATTTTTTTT-TA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCC--CAAAATTATTTTTTTTGAA
* * * * *
7626229 -TTTTGTTTTCAAGGAAAATTGATACATTCAAGTTTTTCCCAGAAA-TATTTTTTTTAGCAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCCA-AAATTATTTTTTTT-G-AA
* * *** *
7626289 --ATTCTTTTTAAGAAAAATTGATACTTTCAACTATTCCTTAAAAAATAATTTTTTTTATTTTTG
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACT-TT--TT-CCCAA-AA--TTATTT-TTTTTG
7626352 AA
58 AA
*
7626354 TATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATTA--TTTTTTGAAA
1 T-TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTTTG-AA
* * * * * * *
7626413 ATTTTATTTTCAA-AGGAAATTGATACTTTCAACTTTCTT-TCGAAAGTATTTTTTTTCAAA
1 TTTTTATTTTTAAGA-AAAATTGATACTTTCAACTTT-TTCCCAAAATTATTTTTTTT-GAA
*
7626473 TTTTTATTTTAAAGA
1 TTTTTATTTTTAAGA
7626488 GATCATTGAG
Statistics
Matches: 256, Mismatches: 33, Indels: 53
0.75 0.10 0.15
Matches are distributed among these distances:
57 45 0.18
58 54 0.21
59 76 0.30
60 22 0.09
61 3 0.01
62 3 0.01
63 5 0.02
64 2 0.01
65 4 0.02
66 5 0.02
67 7 0.03
68 30 0.12
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (59 bp):
TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTTTGAA
Found at i:7626550 original size:4 final size:4
Alignment explanation
Indices: 7626543--7626576 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
7626533 TAATTTAGTC
7626543 AATA AATA AATA AATAA AATA AATA AAT- AATA AA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AA
7626577 ACTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 21 0.75
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:7626564 original size:13 final size:13
Alignment explanation
Indices: 7626546--7626572 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7626536 TTTAGTCAAT
7626546 AAATAAATAAATA
1 AAATAAATAAATA
7626559 AAATAAATAAATA
1 AAATAAATAAATA
7626572 A
1 A
7626573 TAAAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:7626565 original size:17 final size:16
Alignment explanation
Indices: 7626543--7626582 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
7626533 TAATTTAGTC
7626543 AATAAATAAATAAATAA
1 AATAAATAAAT-AATAA
7626560 AATAAATAAATAATAA
1 AATAAATAAATAATAA
7626576 AACTAAA
1 AA-TAAA
7626583 AAAAAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAATAAATAATAA
Found at i:7627690 original size:23 final size:22
Alignment explanation
Indices: 7627664--7627723 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
7627654 GATAGACCAT
7627664 AAAAAAATAAAAATGAT-AAATA
1 AAAAAAATAAAAAT-ATAAAATA
*
7627686 CAAAAATAA-AAAAATTTAAAATA
1 -AAAAA-AATAAAAATATAAAATA
7627709 AAAATAAATAAAAAT
1 AAAA-AAATAAAAAT
7627724 CTCTACAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 7 0.22
23 23 0.72
24 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAAAAATAAAAATATAAAATA
Found at i:7628902 original size:18 final size:19
Alignment explanation
Indices: 7628871--7628906 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7628861 AATTTTAATT
*
7628871 AATATTAAGATTTTATTAA
1 AATAGTAAGATTTTATTAA
7628890 AATAGTAAG-TTTTATTA
1 AATAGTAAGATTTTATTA
7628907 GGTGGTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
AATAGTAAGATTTTATTAA
Found at i:7632270 original size:18 final size:19
Alignment explanation
Indices: 7632247--7632287 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7632237 CATTATAACA
7632247 TTTTTTT-AATT-TTTAAT
1 TTTTTTTCAATTATTTAAT
*
7632264 TTTTTTTCAATTATTTTAT
1 TTTTTTTCAATTATTTAAT
7632283 TTTTT
1 TTTTT
7632288 AAGTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTCAATTATTTAAT
Found at i:7632300 original size:15 final size:15
Alignment explanation
Indices: 7632260--7632304 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
7632250 TTTTAATTTT
* *
7632260 TAATTTTTTTTCAAT
1 TAATTTTTTTTTAAG
*
7632275 TATTTTATTTTTTAAG
1 TAATTT-TTTTTTAAG
7632291 TAATTTTTTTTTAA
1 TAATTTTTTTTTAA
7632305 TAAAACCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TAATTTTTTTTTAAG
Found at i:7634129 original size:3 final size:3
Alignment explanation
Indices: 7634123--7634179 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
7634113 CATCATCATC
7634123 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7634171 ATT ATT ATT
1 ATT ATT ATT
7634180 GTTGTTGTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7634347 original size:3 final size:3
Alignment explanation
Indices: 7634339--7634372 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7634329 AATCATTTAA
7634339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7634373 TTATTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7634377 original size:3 final size:3
Alignment explanation
Indices: 7634371--7634407 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7634361 ATAATAATAA
7634371 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7634408 TTGCATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7634498 original size:18 final size:18
Alignment explanation
Indices: 7634477--7634511 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7634467 AATTTGAATT
*
7634477 GCATAGAAATTAAAATAA
1 GCATAAAAATTAAAATAA
*
7634495 GCATAAAAATTTAAATA
1 GCATAAAAATTAAAATA
7634512 GTAAGGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
GCATAAAAATTAAAATAA
Found at i:7636703 original size:10 final size:9
Alignment explanation
Indices: 7636681--7636732 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
7636671 GGGTTATTGG
7636681 TTTTT-TTT
1 TTTTTGTTT
7636689 TTTTTGTTGT
1 TTTTTGTT-T
7636699 TTTTTGTTT
1 TTTTTGTTT
*
7636708 TTTATGTTT
1 TTTTTGTTT
7636717 ATGTTTATGTTT
1 -T-TTT-TGTTT
7636729 TTTT
1 TTTT
7636733 AAAGGGCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 5 0.14
9 11 0.30
10 13 0.35
11 3 0.08
12 5 0.14
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.83
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:7636818 original size:46 final size:47
Alignment explanation
Indices: 7636766--7636944 Score: 154
Period size: 46 Copynumber: 3.9 Consensus size: 47
7636756 GCTCAATAAT
7636766 TTTTGAAAAT-TAATTTAAAAGCTCTTTTAAGCAAAGACTTCACAAC
1 TTTTGAAAATCTAATTTAAAAGCTCTTTTAAGCAAAGACTTCACAAC
* * *
7636812 TTTTGAAAAT-AAATTTAAAAGTTCTTTTAAGCAAATG--TTCA-ATAA
1 TTTTGAAAATCTAATTTAAAAGCTCTTTTAAGCAAA-GACTTCACA-AC
* * * ** * *
7636857 TTTTAAAAATCTCATTTAAAAGCTCATTTAAATAAAGGCTTAACAAC
1 TTTTGAAAATCTAATTTAAAAGCTCTTTTAAGCAAAGACTTCACAAC
* * * *
7636904 TTTAG-GAATCTCATTATGAAAAACTCTTTTAAGCAAAGACT
1 TTTTGAAAATCTAATT-T-AAAAGCTCTTTTAAGCAAAGACT
7636945 CAATAACTTT
Statistics
Matches: 105, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
44 1 0.01
45 15 0.14
46 61 0.58
47 9 0.09
48 19 0.18
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (47 bp):
TTTTGAAAATCTAATTTAAAAGCTCTTTTAAGCAAAGACTTCACAAC
Found at i:7636953 original size:48 final size:45
Alignment explanation
Indices: 7636753--7636960 Score: 134
Period size: 46 Copynumber: 4.5 Consensus size: 45
7636743 GCAAATTTTG
* * * *
7636753 AAAGCTCAATAATTTTTGAAAAT-TAATTTAAAAGCTCTTTTAAGC
1 AAAGCTCAATAA-CTTTAAAAATCTCATTTAAAAACTCTTTTAAGC
* * ** **
7636798 AAAGACTTC-ACAACTTTTGAAAAT-AAATTTAAAAGTTCTTTTAAGC
1 AAAG-C-TCAATAAC-TTTAAAAATCTCATTTAAAAACTCTTTTAAGC
* * * * **
7636844 AAATGTTCAATAATTTTAAAAATCTCATTTAAAAGCTCATTTAAAT
1 AAA-GCTCAATAACTTTAAAAATCTCATTTAAAAACTCTTTTAAGC
* * **
7636890 AAAGGCTTAACAACTTTAGGAATCTCATTATGAAAAACTCTTTTAAGC
1 AAA-GCTCAATAACTTTAAAAATCTCATT-T-AAAAACTCTTTTAAGC
7636938 AAAGACTCAATAACTTTAAAAAT
1 AAAG-CTCAATAACTTTAAAAAT
7636961 AAACCTAAAG
Statistics
Matches: 125, Mismatches: 29, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
45 14 0.11
46 77 0.62
47 5 0.04
48 29 0.23
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (45 bp):
AAAGCTCAATAACTTTAAAAATCTCATTTAAAAACTCTTTTAAGC
Found at i:7637049 original size:34 final size:35
Alignment explanation
Indices: 7637010--7637109 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 35
7637000 AGATAATTTC
* * *
7637010 AGATATTATCACCAAAGAAG-ATGCATATGACTTT
1 AGATATCACCACCAAAGAAGAATGCAAATGACTTT
* *
7637044 GGATATCACCACCGAAG-AGAATGCAAATGACTTT
1 AGATATCACCACCAAAGAAGAATGCAAATGACTTT
* *
7637078 AGATATCACCACCAAAGAA-AATGTAAAAGACT
1 AGATATCACCACCAAAGAAGAATGCAAATGACT
7637110 CGAATATCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 2 0.04
34 52 0.95
35 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (35 bp):
AGATATCACCACCAAAGAAGAATGCAAATGACTTT
Found at i:7637378 original size:31 final size:31
Alignment explanation
Indices: 7637343--7637798 Score: 267
Period size: 31 Copynumber: 14.4 Consensus size: 31
7637333 CTTATGCTAA
*
7637343 CTAAACTAGGCTTAAATCTCATTGGTGCTAG
1 CTAAACTAGGCTTAAATCTCATTGGTGCCAG
* * *
7637374 CTAAACTA-GTTTAAAATC-CGATTGGTACTAG
1 CTAAACTAGGCTT-AAATCTC-ATTGGTGCCAG
* *
7637405 CTAAACTAGGTTTAAATCTCATTGGTGCTAG
1 CTAAACTAGGCTTAAATCTCATTGGTGCCAG
* **
7637436 CTAAACT-GGATTTAAATCTCATTGGTATCAG
1 CTAAACTAGG-CTTAAATCTCATTGGTGCCAG
* * *
7637467 CTAAACCAGGCTTAAATCTCATCTAGATGCTAG
1 CTAAACTAGGCTTAAATCTCAT-T-GGTGCCAG
* * * * * *
7637500 TTAAATTGGGCTTAAAGCTTATTGGTGCAAG
1 CTAAACTAGGCTTAAATCTCATTGGTGCCAG
* * * * *
7637531 CTAAA-TTGGGTTCAAATCTCATCGTTGCTAG
1 CTAAACTAGGCTT-AAATCTCATTGGTGCCAG
* * *
7637562 TTAAA-TTGAGATTAAATCTCATTTGGGTGCCAG
1 CTAAACTAG-GCTTAAATCTCA-TT-GGTGCCAG
* * ** ** *
7637595 CTAAATTAGGCTTAAAATCTTATCAGCACCAA
1 CTAAACTAGGCTT-AAATCTCATTGGTGCCAG
* ** *
7637627 CTAAA-TTGGCCTTAAATCTTGTTGGTGCCAA
1 CTAAACTAGG-CTTAAATCTCATTGGTGCCAG
* * * *** *
7637658 CTAAATTAGGCTTGATTCTCATCAATGCCAA
1 CTAAACTAGGCTTAAATCTCATTGGTGCCAG
** *
7637689 CTAAACTAGGCTTAAATCTCATTAATGCCAA
1 CTAAACTAGGCTTAAATCTCATTGGTGCCAG
* *
7637720 CTAAACTAGGCTTAAATCTCATTTAAGTGCCAA
1 CTAAACTAGGCTTAAATCTCA-TT-GGTGCCAG
* *
7637753 CTAAACTAAGCTTAAAAGTTCTCATTGGTGCCAA
1 CTAAACTAGGCTT-AAA--TCTCATTGGTGCCAG
7637787 CTAAACTAGGCT
1 CTAAACTAGGCT
7637799 CAAAATCTTA
Statistics
Matches: 340, Mismatches: 64, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
30 11 0.03
31 209 0.61
32 30 0.09
33 53 0.16
34 30 0.09
35 2 0.01
36 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (31 bp):
CTAAACTAGGCTTAAATCTCATTGGTGCCAG
Found at i:7637718 original size:62 final size:66
Alignment explanation
Indices: 7637652--7637798 Score: 194
Period size: 67 Copynumber: 2.3 Consensus size: 66
7637642 ATCTTGTTGG
* * * *
7637652 TGCCAACTAAATTAGGCTTGATTCTCA-TCAA-TGCCAACTAAACTAGGCTT-AAA-TCTCATTA
1 TGCCAACTAAACTAGGCTTAAATCTCATTCAAGTGCCAACTAAACTAAGCTTAAAAGTCTCATTA
7637713 A
66 A
*
7637714 TGCCAACTAAACTAGGCTTAAATCTCATTTAAGTGCCAACTAAACTAAGCTTAAAAGTTCTCATT
1 TGCCAACTAAACTAGGCTTAAATCTCATTCAAGTGCCAACTAAACTAAGCTTAAAAG-TCTCATT
**
7637779 GG
65 AA
7637781 TGCCAACTAAACTAGGCT
1 TGCCAACTAAACTAGGCT
7637799 CAAAATCTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
62 24 0.33
63 3 0.04
64 18 0.25
65 3 0.04
67 25 0.34
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (66 bp):
TGCCAACTAAACTAGGCTTAAATCTCATTCAAGTGCCAACTAAACTAAGCTTAAAAGTCTCATTA
A
Found at i:7640999 original size:19 final size:19
Alignment explanation
Indices: 7640975--7641045 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
7640965 CTCTCTTTTT
7640975 TTTTTCTTTTTTTTGTTTC
1 TTTTTCTTTTTTTTGTTTC
*
7640994 TTTTTCTTTTTCTCTTG--GC
1 TTTTTCTTTTT-T-TTGTTTC
*
7641013 TTTTTCCTTTTTTTTCTTTC
1 TTTTT-CTTTTTTTTGTTTC
*
7641033 -TTCTCTTTTTTTT
1 TTTTTCTTTTTTTT
7641046 TTTTTTTGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 11 0.26
19 21 0.49
20 8 0.19
21 3 0.07
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTTTTTGTTTC
Found at i:7641018 original size:25 final size:23
Alignment explanation
Indices: 7640990--7641052 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
7640980 CTTTTTTTTG
*
7640990 TTTCTTTTTCTTTTTCTCTTGGCTT
1 TTTCTTTTT-TTTTT-TCTTCGCTT
*
7641015 TTTCCTTTTTTTTCTTTCTTCTCTT
1 TTT-CTTTTTTTT-TTTCTTCGCTT
7641040 TTT-TTTTTTTTTT
1 TTTCTTTTTTTTTT
7641053 GCATGCCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 2 0.06
23 8 0.24
25 16 0.47
26 8 0.24
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.79
Consensus pattern (23 bp):
TTTCTTTTTTTTTTTCTTCGCTT
Found at i:7641047 original size:30 final size:29
Alignment explanation
Indices: 7640981--7641047 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
7640971 TTTTTTTTTC
*
7640981 TTTTTTTTGTTTCTTTTTCTTTTTCTCTT
1 TTTTTTTTCTTTCTTTTTCTTTTTCTCTT
** *
7641010 GGCTTTTTCCTTT-TTTTTCTTTCTTCTCTT
1 -TTTTTTTTCTTTCTTTTTCTTT-TTCTCTT
7641040 TTTTTTTT
1 TTTTTTTT
7641048 TTTTTGCATG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.79
Consensus pattern (29 bp):
TTTTTTTTCTTTCTTTTTCTTTTTCTCTT
Found at i:7651981 original size:84 final size:84
Alignment explanation
Indices: 7651817--7651982 Score: 190
Period size: 84 Copynumber: 2.0 Consensus size: 84
7651807 TCTTCTAAAC
* * * * * *
7651817 TGAATTTGTTTTAGTATCAAGATTTGTAAGACCTCAATGCATAGTTTTTAAATCCTTCAAGTAAG
1 TGAATTTATTTTAGTATCAAGATTTGTAAGACCTCAAGGCATAGTCTCTAAAGCCTTCAAGCAAG
*
7651882 ATTCACAAGTTTTTTGAAT
66 ATTCACAAGTCTTTTGAAT
* * * * *
7651901 TGAATTTATTTTAGTGTCAAGATTTGT-AGAACCTCCAGGCATAGTCTCTAAGGCTTTCGAGCAA
1 TGAATTTATTTTAGTATCAAGATTTGTAAG-ACCTCAAGGCATAGTCTCTAAAGCCTTCAAGCAA
**
7651965 GATTCGTAAGTCTTTTGA
65 GATTCACAAGTCTTTTGA
7651983 GCTCAATATG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
83 2 0.03
84 65 0.97
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (84 bp):
TGAATTTATTTTAGTATCAAGATTTGTAAGACCTCAAGGCATAGTCTCTAAAGCCTTCAAGCAAG
ATTCACAAGTCTTTTGAAT
Found at i:7653652 original size:145 final size:145
Alignment explanation
Indices: 7653485--7653776 Score: 539
Period size: 145 Copynumber: 2.0 Consensus size: 145
7653475 TTTTAGTAAT
*
7653485 AAAATTACATATAATAATACATGAATATTATTAGTATTAATTAATTTTTTAAAAAAATACTGGCC
1 AAAATTACATATAATAATACATGAATATTATTAGTATTAATTAATTTTTTAAAAAAATACTAGCC
*
7653550 TCTAAGAATAAGATTTTAAGAAAATTCGAGTAGTGATTTCTAAAAAATTTTTAGGTGAGAAAATT
66 TCTAAGAATAAGATTTTAAGAAAATTCGAGTAGTGATTCCTAAAAAATTTTTAGGTGAGAAAATT
*
7653615 TCTACTAATGTTCTC
131 TCTACTAATGTTATC
7653630 AAAATTACATATAATAATACATGAATATTATTAGTATTAATTAATTTTTTAAAAAAATACTAGCC
1 AAAATTACATATAATAATACATGAATATTATTAGTATTAATTAATTTTTTAAAAAAATACTAGCC
* *
7653695 TCTAAGAATAAGATTTTAAGAAAATTCGAGTAGTGATTCCTAAGAAATTTTTAGGTGAGCAAATT
66 TCTAAGAATAAGATTTTAAGAAAATTCGAGTAGTGATTCCTAAAAAATTTTTAGGTGAGAAAATT
7653760 TCTACTAATGTTATC
131 TCTACTAATGTTATC
7653775 AA
1 AA
7653777 GGCACTAAAA
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (145 bp):
AAAATTACATATAATAATACATGAATATTATTAGTATTAATTAATTTTTTAAAAAAATACTAGCC
TCTAAGAATAAGATTTTAAGAAAATTCGAGTAGTGATTCCTAAAAAATTTTTAGGTGAGAAAATT
TCTACTAATGTTATC
Found at i:7654688 original size:2 final size:2
Alignment explanation
Indices: 7654681--7654711 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7654671 TTGGTAACTT
7654681 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7654712 TAAAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7660512 original size:21 final size:21
Alignment explanation
Indices: 7660472--7660695 Score: 72
Period size: 21 Copynumber: 10.7 Consensus size: 21
7660462 AACCTTTGAT
* **
7660472 ATTAATGCAATTTTTTTAACC
1 ATTAATACAATTTTGATAACC
7660493 ATTAATACAATTTTGATAACC
1 ATTAATACAATTTTGATAACC
* * * *
7660514 TTTGATACTATTTTAATAA--
1 ATTAATACAATTTTGATAACC
* * **
7660533 TTTATGATATAA-TTTGGCAACC
1 ATTA--ATACAATTTTGATAACC
* *
7660555 ATTGATACAATTTTGGTAACC
1 ATTAATACAATTTTGATAACC
* * * *
7660576 TTTAATAAAAGTTT-AGTAA-G
1 ATTAATACAATTTTGA-TAACC
* * *
7660596 TTTGATATAATTTT-AGTAACC
1 ATTAATACAATTTTGA-TAACC
*
7660617 TTTAATACAATTTT-AGTAA-C
1 ATTAATACAATTTTGA-TAACC
* *
7660637 -TTATGATATAATTTTTGAAAACC
1 ATTA--ATACAA-TTTTGATAACC
*
7660660 ATTGATACAATTTTGATAA-C
1 ATTAATACAATTTTGATAACC
*
7660680 ATTTTATACAATTTTG
1 A-TTAATACAATTTTG
7660696 GAAGTTTTAA
Statistics
Matches: 154, Mismatches: 35, Indels: 28
0.71 0.16 0.13
Matches are distributed among these distances:
19 6 0.04
20 29 0.19
21 102 0.66
22 13 0.08
23 2 0.01
24 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (21 bp):
ATTAATACAATTTTGATAACC
Found at i:7660601 original size:41 final size:41
Alignment explanation
Indices: 7660556--7660651 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
7660546 TTGGCAACCA
* * *
7660556 TTGATACAATTTTGGTAACCTTTAATAAAAGTTTAGTAAGT
1 TTGATATAATTTTAGTAACCTTTAATAAAAGTTTAGTAACT
* *
7660597 TTGATATAATTTTAGTAACCTTTAATACAATTTTAGTAACT
1 TTGATATAATTTTAGTAACCTTTAATAAAAGTTTAGTAACT
7660638 TATGATATAATTTT
1 T-TGATATAATTTT
7660652 TGAAAACCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 37 0.76
42 12 0.24
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (41 bp):
TTGATATAATTTTAGTAACCTTTAATAAAAGTTTAGTAACT
Found at i:7660612 original size:20 final size:20
Alignment explanation
Indices: 7660556--7660651 Score: 93
Period size: 21 Copynumber: 4.7 Consensus size: 20
7660546 TTGGCAACCA
* *
7660556 TTGATACAATTTTGGTAACCT
1 TTGATATAATTTTAGTAA-CT
* * * *
7660577 TTAATAAAAGTTTAGTAAGT
1 TTGATATAATTTTAGTAACT
7660597 TTGATATAATTTTAGTAACCT
1 TTGATATAATTTTAGTAA-CT
* *
7660618 TTAATACAATTTTAGTAACT
1 TTGATATAATTTTAGTAACT
7660638 TATGATATAATTTT
1 T-TGATATAATTTT
7660652 TGAAAACCAT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
20 19 0.32
21 41 0.68
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (20 bp):
TTGATATAATTTTAGTAACT
Found at i:7660625 original size:62 final size:62
Alignment explanation
Indices: 7660488--7660636 Score: 174
Period size: 62 Copynumber: 2.4 Consensus size: 62
7660478 GCAATTTTTT
* * ** * * *
7660488 TAACCATTAATACAATTTTGATAACCTTTGATACTATTTTAATAATTTATGATATAATTTGG
1 TAACCATTAATACAATTTTGGTAACCTTTAATAAAAGTTTAATAAGTTATGATATAATTTAG
* * *
7660550 CAACCATTGATACAATTTTGGTAACCTTTAATAAAAGTTTAGTAAGTT-TGATATAATTTTAG
1 TAACCATTAATACAATTTTGGTAACCTTTAATAAAAGTTTAATAAGTTATGATATAA-TTTAG
* *
7660612 TAACCTTTAATACAATTTTAGTAAC
1 TAACCATTAATACAATTTTGGTAAC
7660637 TTATGATATA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 8 0.11
62 64 0.89
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (62 bp):
TAACCATTAATACAATTTTGGTAACCTTTAATAAAAGTTTAATAAGTTATGATATAATTTAG
Found at i:7661010 original size:21 final size:21
Alignment explanation
Indices: 7660895--7661034 Score: 81
Period size: 21 Copynumber: 6.6 Consensus size: 21
7660885 GGTAATCTTT
* *
7660895 GATAAAATTTTGTTAATCAATT-
1 GATATAATTTTGGTAA-C-ATTG
*
7660917 GATGTAATTTTGGTAACA-TG
1 GATATAATTTTGGTAACATTG
* *
7660937 TGATATACTTTTGGTAATTATT-
1 -GATATAATTTTGGTAA-CATTG
* * * * *
7660959 AATACAATTTTAGTAACTTTT
1 GATATAATTTTGGTAACATTG
7660980 GATAGT-ATTTTGGTAACATTG
1 GATA-TAATTTTGGTAACATTG
* * * *
7661001 GGTATAATTTTGATAACTTTT
1 GATATAATTTTGGTAACATTG
7661022 GATATAATTTTGG
1 GATATAATTTTGG
7661035 CAAACTTTAA
Statistics
Matches: 88, Mismatches: 23, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.01
20 4 0.05
21 68 0.77
22 14 0.16
23 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (21 bp):
GATATAATTTTGGTAACATTG
Found at i:7661049 original size:42 final size:41
Alignment explanation
Indices: 7660921--7661054 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 41
7660911 TCAATTGATG
* * * * *
7660921 TAATTTTGGTAACATGTGATATACTTTTGGTAATTATTAATA
1 TAATTTTGATAACTTTTGATATAATTTTGGTAACT-TTAATA
* ***
7660963 CAATTTT-AGTAACTTTTGATAGT-ATTTTGGTAACATTGGGTA
1 TAATTTTGA-TAACTTTTGATA-TAATTTTGGTAAC-TTTAATA
*
7661005 TAATTTTGATAACTTTTGATATAATTTTGGCAAACTTTAATA
1 TAATTTTGATAACTTTTGATATAATTTTGG-TAACTTTAATA
7661047 TAATTTTG
1 TAATTTTG
7661055 TTTTTCATAA
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 65 0.90
43 6 0.08
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (41 bp):
TAATTTTGATAACTTTTGATATAATTTTGGTAACTTTAATA
Found at i:7661074 original size:27 final size:27
Alignment explanation
Indices: 7661044--7661214 Score: 258
Period size: 27 Copynumber: 6.3 Consensus size: 27
7661034 GCAAACTTTA
* *
7661044 ATATAATTTTGTTTTTCATAAATTTTG
1 ATATAATTTTGATTTTGATAAATTTTG
*
7661071 ATATAATTTTGATTTTGATAAACTTTG
1 ATATAATTTTGATTTTGATAAATTTTG
*
7661098 ATATAATTTTGATTTTGATAAACTTTG
1 ATATAATTTTGATTTTGATAAATTTTG
7661125 ATATAATTTTGATTTTGATAAACTTTT-
1 ATATAATTTTGATTTTGATAAA-TTTTG
7661152 ATATAATTTTGATTTTGATAAACTTTT-
1 ATATAATTTTGATTTTGATAAA-TTTTG
7661179 ATATAATTTTGATTTTGAT-AATGTTTG
1 ATATAATTTTGATTTTGATAAAT-TTTG
7661206 ATATAATTT
1 ATATAATTT
7661215 GATAGCTTTG
Statistics
Matches: 137, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
25 1 0.01
26 5 0.04
27 128 0.93
28 3 0.02
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (27 bp):
ATATAATTTTGATTTTGATAAATTTTG
Found at i:7661078 original size:11 final size:10
Alignment explanation
Indices: 7661056--7661191 Score: 56
Period size: 10 Copynumber: 14.7 Consensus size: 10
7661046 ATAATTTTGT
*
7661056 TTTTCATAAA
1 TTTTGATAAA
7661066 TTTTGATATAA
1 TTTTGATA-AA
7661077 TTTTG----A
1 TTTTGATAAA
7661083 TTTTGATAAA
1 TTTTGATAAA
*
7661093 CTTTGATATAA
1 TTTTGATA-AA
7661104 TTTTG----A
1 TTTTGATAAA
7661110 TTTTGATAAA
1 TTTTGATAAA
*
7661120 CTTTGATATAA
1 TTTTGATA-AA
7661131 TTTTG----A
1 TTTTGATAAA
7661137 TTTTGATAAA
1 TTTTGATAAA
7661147 CTTTT-ATATAA
1 -TTTTGATA-AA
7661158 TTTTG----A
1 TTTTGATAAA
7661164 TTTTGATAAA
1 TTTTGATAAA
7661174 CTTTT-ATATAA
1 -TTTTGATA-AA
7661185 TTTTGAT
1 TTTTGAT
7661192 TTTGATAATG
Statistics
Matches: 96, Mismatches: 5, Indels: 49
0.64 0.03 0.33
Matches are distributed among these distances:
6 24 0.25
10 39 0.41
11 33 0.34
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (10 bp):
TTTTGATAAA
Found at i:7661087 original size:17 final size:17
Alignment explanation
Indices: 7661065--7661144 Score: 56
Period size: 17 Copynumber: 4.5 Consensus size: 17
7661055 TTTTTCATAA
7661065 ATTTTGATATAATTTTG
1 ATTTTGATATAATTTTG
*
7661082 ATTTTGATA-AACTTTG
1 ATTTTGATATAATTTTG
* * * *
7661098 A-TATAATTTTGATTTTG
1 ATTTTGA-TATAATTTTG
7661115 ATAAACTTTGATATAATTTTG
1 AT----TTTGATATAATTTTG
7661136 ATTTTGATA
1 ATTTTGATA
7661145 AACTTTTATA
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
15 3 0.07
16 8 0.17
17 22 0.48
21 10 0.22
22 3 0.07
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.54
Consensus pattern (17 bp):
ATTTTGATATAATTTTG
Found at i:7661146 original size:81 final size:81
Alignment explanation
Indices: 7661036--7661214 Score: 288
Period size: 81 Copynumber: 2.2 Consensus size: 81
7661026 TAATTTTGGC
* *
7661036 AAACTTTAATATAATTTTGTTTTTCATAAA-TTTTGATATAATTTTGATTTTGATAAACTTTGAT
1 AAACTTTGATATAATTTTGATTTTCATAAACTTTT-ATATAATTTTGATTTTGATAAACTTTGAT
7661100 ATAATTTTGATTTTGAT
65 ATAATTTTGATTTTGAT
* *
7661117 AAACTTTGATATAATTTTGATTTTGATAAACTTTTATATAATTTTGATTTTGATAAACTTTTATA
1 AAACTTTGATATAATTTTGATTTTCATAAACTTTTATATAATTTTGATTTTGATAAACTTTGATA
7661182 TAATTTTGATTTTGAT
66 TAATTTTGATTTTGAT
**
7661198 AATGTTTGATATAATTT
1 AAACTTTGATATAATTT
7661215 GATAGCTTTG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
81 87 0.96
82 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (81 bp):
AAACTTTGATATAATTTTGATTTTCATAAACTTTTATATAATTTTGATTTTGATAAACTTTGATA
TAATTTTGATTTTGAT
Found at i:7661254 original size:21 final size:21
Alignment explanation
Indices: 7661190--7661300 Score: 104
Period size: 21 Copynumber: 5.4 Consensus size: 21
7661180 TATAATTTTG
**
7661190 ATTTTGATAATGTTTGATATA
1 ATTTTGATAACCTTTGATATA
* *
7661211 A-TTTGAT-AGCTTTGGATACA
1 ATTTTGATAACCTTT-GATATA
*
7661231 ATTTTAATAACCTTTGATATA
1 ATTTTGATAACCTTTGATATA
*
7661252 ATTGTTG-TAACCTTTTATATA
1 ATT-TTGATAACCTTTGATATA
*
7661273 A-TTTGATAACATTTGATATA
1 ATTTTGATAACCTTTGATATA
*
7661293 GTTTTGAT
1 ATTTTGAT
7661301 TTTGATAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
19 7 0.10
20 25 0.34
21 34 0.47
22 7 0.10
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (21 bp):
ATTTTGATAACCTTTGATATA
Found at i:7661595 original size:42 final size:42
Alignment explanation
Indices: 7661522--7661611 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
7661512 TTGGTAACCA
* *
7661522 TGATAGAATTTTATAAAACTTGGATACAATTTTAATAACCTT
1 TGATATAATTTTATAAAACTTGGATACAATTTTAATAAACTT
* * * * *
7661564 TGATATAATTTTAGTAATA-TTTGATATAATTTTTATAAATTT
1 TGATATAATTTTA-TAAAACTTGGATACAATTTTAATAAACTT
7661606 TGATAT
1 TGATAT
7661612 CATTGCAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 36 0.90
43 4 0.10
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (42 bp):
TGATATAATTTTATAAAACTTGGATACAATTTTAATAAACTT
Found at i:7661611 original size:21 final size:20
Alignment explanation
Indices: 7661522--7661611 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 20
7661512 TTGGTAACCA
*
7661522 TGATAGAATTTTATAAAACTT
1 TGATATAATTTTAT-AAACTT
* * *
7661543 GGATACAATTTTAATAACCTT
1 TGATATAATTTT-ATAAACTT
7661564 TGATATAATTTTAGTAATA-TT
1 TGATATAATTTTA-TAA-ACTT
*
7661585 TGATATAATTTTTATAAATTT
1 TGATATAA-TTTTATAAACTT
7661606 TGATAT
1 TGATAT
7661612 CATTGCAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.03
21 49 0.84
22 7 0.12
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (20 bp):
TGATATAATTTTATAAACTT
Found at i:7662163 original size:21 final size:21
Alignment explanation
Indices: 7662137--7662374 Score: 126
Period size: 21 Copynumber: 11.4 Consensus size: 21
7662127 TTCCCACTCT
*
7662137 TAATTTTGGTCACTTTTGATA
1 TAATTTTGGTAACTTTTGATA
* *
7662158 TAATTTTGGTAATTTTTTATA
1 TAATTTTGGTAACTTTTGATA
* * **
7662179 TTATTTTGATAACTTAAGATA
1 TAATTTTGGTAACTTTTGATA
* *
7662200 TAATTTTGGAAACCATTT-ATA
1 TAATTTTGGTAA-CTTTTGATA
* * **
7662221 AAATTTAGAAAACTTTTGATA
1 TAATTTTGGTAACTTTTGATA
* * *
7662242 AAAGTTTGGTAACTTTTAATA
1 TAATTTTGGTAACTTTTGATA
*
7662263 TAATTTTGGTAACTTAT-ATTA
1 TAATTTTGGTAACTTTTGA-TA
* **
7662284 TAATTTTGTTAA-TCAATGATA
1 TAATTTTGGTAACT-TTTGATA
* * *
7662305 CAATTTTAGTAACCTTTGATA
1 TAATTTTGGTAACTTTTGATA
* * * * *
7662326 AAAATTT-ATAACATTGGATA
1 TAATTTTGGTAACTTTTGATA
* * *
7662346 CAATTTCT-ATAACTTTTAATA
1 TAATTT-TGGTAACTTTTGATA
7662367 TAATTTTG
1 TAATTTTG
7662375 ATTTTTATAA
Statistics
Matches: 163, Mismatches: 46, Indels: 16
0.72 0.20 0.07
Matches are distributed among these distances:
20 21 0.13
21 139 0.85
22 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (21 bp):
TAATTTTGGTAACTTTTGATA
Found at i:7662310 original size:84 final size:84
Alignment explanation
Indices: 7662148--7662328 Score: 195
Period size: 84 Copynumber: 2.2 Consensus size: 84
7662138 AATTTTGGTC
* * * * *
7662148 ACTTTTGATATAATTTTGGTAATTTTTTATATTATTTTGATAACTTAAGATATAATTTTGGAAAC
1 ACTTTTGATAAAAGTTTGGTAACTTTTAATATAATTTTGATAACTTAAGATATAATTTTGGAAAC
* *
7662213 CATTTATAAAA-TTTAGAAA
66 CAATGATAAAATTTTAG-AA
* * **
7662232 ACTTTTGATAAAAGTTTGGTAACTTTTAATATAATTTTGGTAACTTATA-TTATAATTTTGTTAA
1 ACTTTTGATAAAAGTTTGGTAACTTTTAATATAATTTTGATAACTTA-AGATATAATTTTGGAAA
* * *
7662296 TCAATGATACAATTTTAGTA
65 CCAATGATAAAATTTTAGAA
*
7662316 ACCTTTGATAAAA
1 ACTTTTGATAAAA
7662329 ATTTATAACA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
84 74 0.93
85 6 0.08
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (84 bp):
ACTTTTGATAAAAGTTTGGTAACTTTTAATATAATTTTGATAACTTAAGATATAATTTTGGAAAC
CAATGATAAAATTTTAGAA
Found at i:7662394 original size:27 final size:27
Alignment explanation
Indices: 7662364--7662422 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
7662354 ATAACTTTTA
* *
7662364 ATATAATTTTGATTTTTATAATCTTTG
1 ATATAATTTTGATTTTCATAAACTTTG
*
7662391 ATATGATTTTGATTTTCATAAACTTTG
1 ATATAATTTTGATTTTCATAAACTTTG
7662418 ATATA
1 ATATA
7662423 GTTTGGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (27 bp):
ATATAATTTTGATTTTCATAAACTTTG
Found at i:7662579 original size:21 final size:21
Alignment explanation
Indices: 7662536--7662606 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
7662526 TTAAGAAAAG
* * *
7662536 TTTGGTAATCTATTGTACAAT
1 TTTGGTAATCTTTTATATAAT
*
7662557 TTTGGTAATCTTTTATATTA-
1 TTTGGTAATCTTTTATATAAT
*
7662577 TTTGGATAA-CTTTTGATGTAAT
1 TTTGG-TAATCTTTT-ATATAAT
7662599 TTTGGTAA
1 TTTGGTAA
7662607 CCACCAGTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
20 10 0.24
21 26 0.63
22 5 0.12
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (21 bp):
TTTGGTAATCTTTTATATAAT
Found at i:7662667 original size:11 final size:11
Alignment explanation
Indices: 7662651--7662705 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
7662641 TTTAATAACC
*
7662651 TTTATATACTT
1 TTTATATAATT
*
7662662 TTTATA-AGTT
1 TTTATATAATT
7662672 TTTATATAATT
1 TTTATATAATT
* *
7662683 TTGATA-AAAT
1 TTTATATAATT
*
7662693 TTGATATAATT
1 TTTATATAATT
7662704 TT
1 TT
7662706 AATTTTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
TTTATATAATT
Found at i:7662684 original size:10 final size:10
Alignment explanation
Indices: 7662638--7662706 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
7662628 CTTTTAACAA
7662638 AATTTTA-AT
1 AATTTTATAT
*
7662647 AACCTTTATAT
1 AA-TTTTATAT
*
7662658 ACTTTT-TAT
1 AATTTTATAT
7662667 AAGTTTTTATAT
1 AA--TTTTATAT
*
7662679 AATTTTGATAA
1 AATTTT-ATAT
*
7662690 AATTTGATAT
1 AATTTTATAT
7662700 AATTTTA
1 AATTTTA
7662707 ATTTTGATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
9 6 0.13
10 20 0.43
11 15 0.33
12 5 0.11
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (10 bp):
AATTTTATAT
Found at i:7662716 original size:27 final size:27
Alignment explanation
Indices: 7662678--7662731 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
7662668 AGTTTTTATA
*
7662678 TAATTTTGATAAAATTTGATATAATTT
1 TAATTTTGATAAAATTTAATATAATTT
**
7662705 TAATTTTGATAACCTTTAATATAATTT
1 TAATTTTGATAAAATTTAATATAATTT
7662732 GGTAGCGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (27 bp):
TAATTTTGATAAAATTTAATATAATTT
Found at i:7662729 original size:21 final size:21
Alignment explanation
Indices: 7662620--7663026 Score: 101
Period size: 21 Copynumber: 19.1 Consensus size: 21
7662610 CCAGTACAAA
* * *
7662620 TTTGATAACTTTTAACAAAAT
1 TTTGATAACCTTTAATATAAT
* *
7662641 TTTAATAACCTTT-ATATACT
1 TTTGATAACCTTTAATATAAT
* ** *
7662661 TTTTATAAGTTTTTATATAAT
1 TTTGATAACCTTTAATATAAT
**
7662682 TTTGATAAAATTTGATATAATTTTAAT
1 TTTGATAACCTTT-A-AT-A---TAAT
7662709 TTTGATAACCTTTAATATAA-
1 TTTGATAACCTTTAATATAAT
* * * ** * *
7662729 TTTGGTAGCGTTTGTTAGAAA
1 TTTGATAACCTTTAATATAAT
* * * *
7662750 TTTAACAACCTTTCATAAAAT
1 TTTGATAACCTTTAATATAAT
* *
7662771 TTCGATAACCTTTGATATAAT
1 TTTGATAACCTTTAATATAAT
* *
7662792 TTT-AGT-AGCTTATAACATAAT
1 TTTGA-TAACCTT-TAATATAAT
** ** *
7662813 TTCAATAACCACTAATACAAAT
1 TTTGATAACCTTTAATA-TAAT
* *
7662835 TTGGA-AACCTTTAATAAAAT
1 TTTGATAACCTTTAATATAAT
* *** *
7662855 TTTGGTAGTTTATTGATATAAT
1 TTTGATAACCT-TTAATATAAT
**
7662877 TTT-AGTAATTTTTAATATAAT
1 TTTGA-TAACCTTTAATATAAT
* * * *
7662898 TTTGGTAATCGTTGATATAAT
1 TTTGATAACCTTTAATATAAT
* * *
7662919 TTTGATAAACATTAATAGAAT
1 TTTGATAACCTTTAATATAAT
* * *
7662940 TTT-AGTAA-ATTTGGATACAAT
1 TTTGA-TAACCTTT-AATATAAT
** *
7662961 TTTGATAATTTTTAATACAAT
1 TTTGATAACCTTTAATATAAT
* ** *
7662982 TTTGATTAGTTTTGATATAAT
1 TTTGATAACCTTTAATATAAT
* * *
7663003 TTTGGTAATCTTTGATATAAT
1 TTTGATAACCTTTAATATAAT
7663024 TTT
1 TTT
7663027 AGTTTTCATA
Statistics
Matches: 283, Mismatches: 82, Indels: 42
0.70 0.20 0.10
Matches are distributed among these distances:
20 43 0.15
21 189 0.67
22 29 0.10
23 2 0.01
24 2 0.01
25 2 0.01
26 1 0.00
27 15 0.05
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTGATAACCTTTAATATAAT
Found at i:7662914 original size:42 final size:40
Alignment explanation
Indices: 7662843--7663026 Score: 145
Period size: 42 Copynumber: 4.4 Consensus size: 40
7662833 ATTTGGAAAC
* *
7662843 CTTTAATAAAATTTTGGTAGTTTATTGATATAATTTT-AGTAAT
1 CTTTAATATAATTTTGGTA--AT-TTGATATAATTTTGA-TAAT
* *
7662886 TTTTAATATAATTTTGGTAATCGTTGATATAATTTTGATAAA
1 CTTTAATATAATTTTGGTAAT--TTGATATAATTTTGATAAT
* * * *
7662928 CATTAATAGAATTTTAGTAAATTTGGATACAATTTTGATAAT
1 CTTTAATATAATTTTGGT-AATTT-GATATAATTTTGATAAT
* * * * *
7662970 TTTTAATACAATTTTGATTAGTTTTGATATAATTTTGGTAAT
1 CTTTAATATAATTTTG-GTA-ATTTGATATAATTTTGATAAT
*
7663012 CTTTGATATAATTTT
1 CTTTAATATAATTTT
7663027 AGTTTTCATA
Statistics
Matches: 113, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.03
42 85 0.75
43 25 0.22
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (40 bp):
CTTTAATATAATTTTGGTAATTTGATATAATTTTGATAAT
Found at i:7663025 original size:63 final size:62
Alignment explanation
Indices: 7662843--7663026 Score: 163
Period size: 63 Copynumber: 2.9 Consensus size: 62
7662833 ATTTGGAAAC
* * *
7662843 CTTTAATAAAATTTTG-GTAGTTTATTGATATAATTTTAGTAATTTTTAATATAATTTTGGTAAT
1 CTTTAATAAAATTTTGATTAG-TT-TTGATATAATTTTAGTAA-TTTTGATATAATTTTGATAAT
* * * * *** * * * *
7662907 CGTTGATATAATTTTGATAAACATTAATAGAATTTTAGTAAATTTGGATACAATTTTGATAAT
1 CTTTAATAAAATTTTGATTAGTTTTGATATAATTTTAGT-AATTTTGATATAATTTTGATAAT
* * *
7662970 TTTTAATACAATTTTGATTAGTTTTGATATAATTTTGGTAATCTTTGATATAATTTT
1 CTTTAATAAAATTTTGATTAGTTTTGATATAATTTTAGTAAT-TTTGATATAATTTT
7663027 AGTTTTCATA
Statistics
Matches: 90, Mismatches: 27, Indels: 7
0.73 0.22 0.06
Matches are distributed among these distances:
62 3 0.03
63 71 0.79
64 15 0.17
65 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (62 bp):
CTTTAATAAAATTTTGATTAGTTTTGATATAATTTTAGTAATTTTGATATAATTTTGATAAT
Found at i:7663047 original size:27 final size:26
Alignment explanation
Indices: 7663008--7663079 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
7662998 ATAATTTTGG
*
7663008 TAATCTTTGATATAATTTT-AGTTTTCA
1 TAAT-TTTAATATAATTTTGA-TTTTCA
* *
7663035 TAATATTTTATATAATTTTGATTTTGA
1 TAAT-TTTAATATAATTTTGATTTTCA
7663062 TAACTTTTAATATAATTT
1 TAA-TTTTAATATAATTT
7663080 AATAACCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 37 0.95
28 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (26 bp):
TAATTTTAATATAATTTTGATTTTCA
Found at i:7663079 original size:21 final size:21
Alignment explanation
Indices: 7663055--7663141 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
7663045 TATAATTTTG
7663055 ATTTTGATAACTTTTAATATA
1 ATTTTGATAACTTTTAATATA
* * *
7663076 A-TTTAATAACCTTTAATATG
1 ATTTTGATAACTTTTAATATA
*
7663096 ATTTTGATAATTTTTAATATA
1 ATTTTGATAACTTTTAATATA
* *
7663117 ATTTTGATAATTTTTTATATA
1 ATTTTGATAACTTTTAATATA
7663138 ATTT
1 ATTT
7663142 ATGTGCCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.30
21 40 0.70
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTGATAACTTTTAATATA
Found at i:7663825 original size:30 final size:30
Alignment explanation
Indices: 7663777--7663886 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 30
7663767 AAGCTCTTAT
*
7663777 ATTTTT-A-TTGCACTCAAATAAATGTTTA
1 ATTTTTAATTTGCACCCAAATAAATGTTTA
*
7663805 ATTTTTATTTTGCACCCAAAT-AA-GTATTA
1 ATTTTTAATTTGCACCCAAATAAATGT-TTA
* ** * * *
7663834 AATTTTAATTTATATCCAAATAAGTCTTTA
1 ATTTTTAATTTGCACCCAAATAAATGTTTA
* *
7663864 ATTTTTAACTTGTACCCAAATAA
1 ATTTTTAATTTGCACCCAAATAA
7663887 GCTTTTAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
28 8 0.12
29 21 0.33
30 34 0.53
31 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (30 bp):
ATTTTTAATTTGCACCCAAATAAATGTTTA
Found at i:7663891 original size:29 final size:29
Alignment explanation
Indices: 7663801--7663891 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
7663791 CAAATAAATG
* *
7663801 TTTAATTTTTATTTTGCACCCAAATAAG-
1 TTTAATTTTTAATTTGTACCCAAATAAGC
* * *
7663829 TATTAAATTTTAATTTATATCCAAATAAGTC
1 T-TTAATTTTTAATTTGTACCCAAATAAG-C
*
7663860 TTTAATTTTTAACTTGTACCCAAATAAGC
1 TTTAATTTTTAATTTGTACCCAAATAAGC
7663889 TTT
1 TTT
7663892 TAATATAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.02
29 26 0.51
30 23 0.45
31 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTAATTTTTAATTTGTACCCAAATAAGC
Found at i:7663894 original size:30 final size:29
Alignment explanation
Indices: 7663791--7663895 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 29
7663781 TTATTGCACT
* * *
7663791 CAAATAAATGTTTAATTTTTATTTTGCACC
1 CAAATAAGT-TTTAATTTTTAATTTGTACC
* * * *
7663821 CAAATAAGTATTAAATTTTAATTTATATC
1 CAAATAAGTTTTAATTTTTAATTTGTACC
*
7663850 CAAATAAGTCTTTAATTTTTAACTTGTACC
1 CAAATAAGT-TTTAATTTTTAATTTGTACC
7663880 CAAATAAGCTTTTAAT
1 CAAATAAG-TTTTAAT
7663896 ATAAATTAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 23 0.38
30 37 0.61
31 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (29 bp):
CAAATAAGTTTTAATTTTTAATTTGTACC
Found at i:7663994 original size:29 final size:29
Alignment explanation
Indices: 7663926--7663997 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
7663916 AAACAAAAGC
* *
7663926 TTAT-TAAATACAAATAAAAAAATAAAGAT
1 TTATCTAAATA-AAACAAAAAAATAAAAAT
* *
7663955 TTA-CTTGAATAAAACAAAAATATAAAAAT
1 TTATC-TAAATAAAACAAAAAAATAAAAAT
7663984 TTATCTAAATAAAA
1 TTATCTAAATAAAA
7663998 TGATAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (29 bp):
TTATCTAAATAAAACAAAAAAATAAAAAT
Found at i:7665402 original size:17 final size:17
Alignment explanation
Indices: 7665380--7665412 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7665370 TCTATATTTT
*
7665380 TATTTTTGTAAAAGTAC
1 TATTTTTATAAAAGTAC
7665397 TATTTTTATAAAAGTA
1 TATTTTTATAAAAGTA
7665413 TTATGGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (17 bp):
TATTTTTATAAAAGTAC
Found at i:7666779 original size:12 final size:12
Alignment explanation
Indices: 7666763--7666796 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
7666753 GTGGTAAAAC
7666763 AAAACCCTAAA-
1 AAAACCCTAAAT
7666774 AGAAACCCTAAAT
1 A-AAACCCTAAAT
7666787 AAAACCCTAA
1 AAAACCCTAA
7666797 GTGAGAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.59, C:0.26, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAACCCTAAAT
Found at i:7667406 original size:22 final size:21
Alignment explanation
Indices: 7667376--7667417 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7667366 TAATTATTTT
*
7667376 TAAAAAAAATTAATTTCAAAAA
1 TAAAAAAAATAAATTT-AAAAA
*
7667398 TAAATAAAATAAATTTAAAA
1 TAAAAAAAATAAATTTAAAA
7667418 TAATATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAAAAATAAATTTAAAAA
Found at i:7670984 original size:9 final size:9
Alignment explanation
Indices: 7670960--7670992 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
7670950 ATAAAAATAG
7670960 ATTAATAAT
1 ATTAATAAT
7670969 AATTAATAAT
1 -ATTAATAAT
7670979 ATTAATAAT
1 ATTAATAAT
7670988 ATTAA
1 ATTAA
7670993 AAGTGATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATTAATAAT
Found at i:7673472 original size:19 final size:19
Alignment explanation
Indices: 7673445--7673487 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7673435 GCCAAATTCC
*
7673445 AAACTCTAAACCACCCATG
1 AAACCCTAAACCACCCATG
**
7673464 AAACCCTAAACCATTCATG
1 AAACCCTAAACCACCCATG
7673483 AAACC
1 AAACC
7673488 TTACACCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (19 bp):
AAACCCTAAACCACCCATG
Found at i:7673550 original size:7 final size:7
Alignment explanation
Indices: 7673521--7673615 Score: 53
Period size: 7 Copynumber: 14.7 Consensus size: 7
7673511 ACCGTCAACC
7673521 AAACCCT
1 AAACCCT
*
7673528 AAAACCT
1 AAACCCT
*
7673535 -AACTC-
1 AAACCCT
7673540 AAACCCT
1 AAACCCT
7673547 AAA-CC-
1 AAACCCT
*
7673552 AAACCTT
1 AAACCCT
7673559 AAACCCT
1 AAACCCT
7673566 -AA-CCT
1 AAACCCT
*
7673571 AAACCCC
1 AAACCCT
7673578 AAA-CC-
1 AAACCCT
*
7673583 AACCCCT
1 AAACCCT
***
7673590 AAAATGT
1 AAACCCT
7673597 AAACCCT
1 AAACCCT
*
7673604 AAACCTT
1 AAACCCT
7673611 AAACC
1 AAACC
7673616 AAACTCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 16
0.67 0.17 0.17
Matches are distributed among these distances:
5 8 0.12
6 18 0.28
7 38 0.59
ACGTcount: A:0.46, C:0.38, G:0.01, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:7673553 original size:31 final size:31
Alignment explanation
Indices: 7673517--7673593 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
7673507 CCTAACCGTC
*
7673517 AACCAAACCCTAAAACCTAA-CTCAAACCCTA
1 AACCAAACCCTAAAACCTAACCT-AAACCCCA
* *
7673548 AACCAAACCTTAAACCCTAACCTAAACCCCA
1 AACCAAACCCTAAAACCTAACCTAAACCCCA
*
7673579 AACCAACCCCTAAAA
1 AACCAAACCCTAAAA
7673594 TGTAAACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (31 bp):
AACCAAACCCTAAAACCTAACCTAAACCCCA
Found at i:7673574 original size:19 final size:20
Alignment explanation
Indices: 7673497--7673575 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 20
7673487 CTTACACCCC
7673497 AAACCTT-AACCCT-AACCGT
1 AAACCTTAAACCCTAAACC-T
*
7673516 CAACC--AAACCCTAAAACCT
1 AAACCTTAAACCCT-AAACCT
*
7673535 -AA-CTCAAACCCTAAACC-
1 AAACCTTAAACCCTAAACCT
7673552 AAACCTTAAACCCT-AACCT
1 AAACCTTAAACCCTAAACCT
7673571 AAACC
1 AAACC
7673576 CCAAACCAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
17 1 0.02
18 19 0.38
19 26 0.52
20 4 0.08
ACGTcount: A:0.44, C:0.39, G:0.01, T:0.15
Consensus pattern (20 bp):
AAACCTTAAACCCTAAACCT
Found at i:7673581 original size:19 final size:19
Alignment explanation
Indices: 7673519--7673582 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
7673509 TAACCGTCAA
*
7673519 CCAAACCCTAAAACCTAA-C
1 CCAAACCCT-AAACCAAACC
*
7673538 TCAAACCCTAAACCAAACC
1 CCAAACCCTAAACCAAACC
**
7673557 TTAAACCCT-AACCTAAACC
1 CCAAACCCTAAACC-AAACC
7673576 CCAAACC
1 CCAAACC
7673583 AACCCCTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 11 0.29
19 27 0.71
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.12
Consensus pattern (19 bp):
CCAAACCCTAAACCAAACC
Found at i:7673582 original size:13 final size:13
Alignment explanation
Indices: 7673539--7673632 Score: 58
Period size: 12 Copynumber: 7.5 Consensus size: 13
7673529 AAACCTAACT
*
7673539 CAAACCCTAAA-C
1 CAAACCTTAAACC
7673551 CAAACCTTAAACC
1 CAAACCTTAAACC
*
7673564 CTAACC-TAAACCC
1 CAAACCTTAAA-CC
*
7673577 CAAACC--AACCC
1 CAAACCTTAAACC
*
7673588 CTAAA-ATGTAAACC
1 C-AAACCT-TAAACC
7673602 CTAAACCTTAAA-C
1 C-AAACCTTAAACC
*
7673615 CAAA-CTCAAACC
1 CAAACCTTAAACC
7673627 CAAACC
1 CAAACC
7673633 AACCTTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
11 8 0.12
12 27 0.42
13 16 0.25
14 13 0.20
15 1 0.02
ACGTcount: A:0.47, C:0.39, G:0.01, T:0.13
Consensus pattern (13 bp):
CAAACCTTAAACC
Found at i:7674108 original size:26 final size:28
Alignment explanation
Indices: 7674042--7674109 Score: 68
Period size: 32 Copynumber: 2.4 Consensus size: 28
7674032 ATTTTGATCC
* *
7674042 AAAAATAAATTGTTTTGCTTTTCAAAGAA
1 AAAAATAAAATGTTTTGCCTTTC-AAGAA
7674071 AAAAATTTTAAAATGTTTTGCCTTTC-A-AA
1 AAAAA---TAAAATGTTTTGCCTTTCAAGAA
7674100 AAAAATAAAA
1 AAAAATAAAA
7674110 GAGAAAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 5 0.15
29 12 0.35
30 1 0.03
32 16 0.47
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (28 bp):
AAAAATAAAATGTTTTGCCTTTCAAGAA
Found at i:7675486 original size:14 final size:14
Alignment explanation
Indices: 7675467--7675503 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
7675457 TAATTTATAT
7675467 AATAAAAATTTAAA
1 AATAAAAATTTAAA
7675481 AAT-AAAATTTAAA
1 AATAAAAATTTAAA
7675494 AATAAAAATT
1 AATAAAAATT
7675504 CACATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATTTAAA
Found at i:7675516 original size:27 final size:28
Alignment explanation
Indices: 7675452--7675521 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 28
7675442 TTTATTTATT
* *
7675452 AAAAT-TAATTTATATAATAAAAATTTA
1 AAAATATAATTTATAAAATAAAAATTCA
*
7675479 AAAATAAAATTTA-AAAATAAAAATTCA
1 AAAATATAATTTATAAAATAAAAATTCA
* * *
7675506 CATATATAATTAATAA
1 AAAATATAATTTATAA
7675522 TTATAATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 26 0.76
28 8 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAATATAATTTATAAAATAAAAATTCA
Found at i:7676307 original size:3 final size:3
Alignment explanation
Indices: 7676299--7676332 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7676289 TTTAAAATGC
7676299 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7676333 GATTTTGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7678482 original size:19 final size:19
Alignment explanation
Indices: 7678458--7678494 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7678448 TCATTTCCTC
7678458 TCTCTAAAAACAAACCAAT
1 TCTCTAAAAACAAACCAAT
*
7678477 TCTCTAAAACCAAACCAA
1 TCTCTAAAAACAAACCAA
7678495 ACTATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (19 bp):
TCTCTAAAAACAAACCAAT
Found at i:7679143 original size:13 final size:13
Alignment explanation
Indices: 7679127--7679152 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7679117 ATTACACTAA
7679127 TTCATAAAAATTT
1 TTCATAAAAATTT
7679140 TTCATAAAAATTT
1 TTCATAAAAATTT
7679153 CTTTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCATAAAAATTT
Found at i:7679529 original size:20 final size:19
Alignment explanation
Indices: 7679479--7679538 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
7679469 ATATAGGTAT
7679479 AAAATATG-AAATACAAT-A
1 AAAATATGAAAATA-AATAA
*
7679497 AAAATATACAAAATAATATAA
1 AAAATAT-GAAAATAA-ATAA
*
7679518 AAAATATGAAAAAAAATAA
1 AAAATATGAAAATAAATAA
7679537 AA
1 AA
7679539 TAGAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 7 0.20
19 7 0.20
20 13 0.37
21 8 0.23
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAATATGAAAATAAATAA
Found at i:7679530 original size:21 final size:19
Alignment explanation
Indices: 7679496--7679552 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
7679486 GAAATACAAT
7679496 AAAAATATACAAAATAATATA
1 AAAAATATACAAAA-AA-ATA
7679517 AAAAATATGA-AAAAAAATA
1 AAAAATAT-ACAAAAAAATA
* *
7679536 AAATAGA-ACAAAAAAAT
1 AAAAATATACAAAAAAAT
7679553 CGAGGATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 8 0.25
20 2 0.06
21 12 0.38
22 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAATATACAAAAAAATA
Found at i:7681140 original size:11 final size:11
Alignment explanation
Indices: 7681124--7681148 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7681114 TTTTTAAATA
7681124 AAAATATTAAT
1 AAAATATTAAT
7681135 AAAATATTAAT
1 AAAATATTAAT
7681146 AAA
1 AAA
7681149 TTTTCTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATATTAAT
Found at i:7682402 original size:16 final size:15
Alignment explanation
Indices: 7682377--7682406 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7682367 TAGTCTGTTT
7682377 TTTATTTATTTTTAG
1 TTTATTTATTTTTAG
7682392 TTTATTTTATTTTTA
1 TTTA-TTTATTTTTA
7682407 TTAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTTTAG
Found at i:7682466 original size:24 final size:24
Alignment explanation
Indices: 7682418--7682469 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7682408 TAAATTAAAC
* *
7682418 AAAATACAAACAAAAGGAAAGAAA
1 AAAAGACAAACAAAAGGAAACAAA
7682442 AAAAGACAAACAAAA-GAATACAAA
1 AAAAGACAAACAAAAGGAA-ACAAA
7682466 AAAA
1 AAAA
7682470 AAAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.04
Consensus pattern (24 bp):
AAAAGACAAACAAAAGGAAACAAA
Found at i:7683419 original size:10 final size:10
Alignment explanation
Indices: 7683404--7683443 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
7683394 CCGGTTCAAG
7683404 TAATTTTTTT
1 TAATTTTTTT
7683414 TAATTTTTTT
1 TAATTTTTTT
*
7683424 TAATTTTTTA
1 TAATTTTTTT
7683434 TATATTTTTT
1 TA-ATTTTTT
7683444 AATAGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 21 0.75
11 7 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TAATTTTTTT
Found at i:7683444 original size:19 final size:18
Alignment explanation
Indices: 7683409--7683446 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7683399 TCAAGTAATT
*
7683409 TTTTTTAATTTTTTTTAA
1 TTTTTTAATATTTTTTAA
7683427 TTTTTTATATATTTTTTAA
1 TTTTTTA-ATATTTTTTAA
7683446 T
1 T
7683447 AGTATTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTAATATTTTTTAA
Found at i:7683582 original size:20 final size:21
Alignment explanation
Indices: 7683557--7683603 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
7683547 TGTTAATTTT
7683557 AAAATAAACTTTA-AAAAATA
1 AAAATAAACTTTATAAAAATA
*
7683577 AAAATAAACTTTATAATAATA
1 AAAATAAACTTTATAAAAATA
7683598 AAAATA
1 AAAATA
7683604 TAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAAACTTTATAAAAATA
Found at i:7683607 original size:14 final size:14
Alignment explanation
Indices: 7683588--7683615 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7683578 AAATAAACTT
7683588 TATAATAATAAAAA
1 TATAATAATAAAAA
7683602 TATAATAATAAAAA
1 TATAATAATAAAAA
7683616 GTGTAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TATAATAATAAAAA
Found at i:7695907 original size:49 final size:49
Alignment explanation
Indices: 7695767--7696042 Score: 232
Period size: 49 Copynumber: 5.8 Consensus size: 49
7695757 AGACATCTCA
** *
7695767 TTTTCAAGATAAGAACTTTAAAGTTGTTAAGCCTCTACTTAGAAGAGCT
1 TTTTCAAGATAAGATTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCT
* * *
7695816 TTTTCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTTCTTAGAGGAGCT
1 TTTTCAAGATAAG-ATTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCT
* * * * * *
7695866 TTTTTAAGATGAGATTTTTAAAGTTGTTAAGTCTCTGCTTAGTGAAGCT
1 TTTTCAAGATAAGATTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCT
*
7695915 TTTTCAAGATAAGGATTTTT--A-----T---CCTCTACTTAGAGGAACT
1 TTTTCAAGATAA-GATTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCT
* * * * ** * *
7695955 TTTTCAAGATGATATTTTTAAAGTCGTTGAGCCT-TTGTTGAGAGAAGGT
1 TTTTCAAGATAAGATTTTTAAAGTTGTTAAGCCTCTACTT-AGAGGAGCT
* *
7696004 TTTTCAAGATAAGAATTTTTAAAATTATTAAGCCTCTAC
1 TTTTCAAGATAAG-ATTTTTAAAGTTGTTAAGCCTCTAC
7696043 CAAGAGGAAC
Statistics
Matches: 176, Mismatches: 36, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
39 6 0.03
40 24 0.14
41 1 0.01
43 1 0.01
46 1 0.01
48 4 0.02
49 73 0.41
50 65 0.37
51 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (49 bp):
TTTTCAAGATAAGATTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCT
Found at i:7696007 original size:89 final size:89
Alignment explanation
Indices: 7695848--7696024 Score: 239
Period size: 89 Copynumber: 2.0 Consensus size: 89
7695838 AGTTATTGAG
* * * * * *
7695848 CCTCTTCTTAGAGGAGCTTTTTTAAGATGAGATTTTTAAAGTTGTTAAGTCTCTGCTTAGTGAAG
1 CCTCTACTTAGAGGAACTTTTTCAAGATGAGATTTTTAAAGTCGTTAAGCCTCTGCTTAGAGAAG
*
7695913 CTTTTTCAAGATAAGGATTTTTAT
66 CTTTTTCAAGATAAGAATTTTTAT
* * *
7695937 CCTCTACTTAGAGGAACTTTTTCAAGATGATATTTTTAAAGTCGTTGAGCCTTTG-TTGAGAGAA
1 CCTCTACTTAGAGGAACTTTTTCAAGATGAGATTTTTAAAGTCGTTAAGCCTCTGCTT-AGAGAA
*
7696001 GGTTTTTCAAGATAAGAATTTTTA
65 GCTTTTTCAAGATAAGAATTTTTA
7696025 AAATTATTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
88 2 0.03
89 74 0.97
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (89 bp):
CCTCTACTTAGAGGAACTTTTTCAAGATGAGATTTTTAAAGTCGTTAAGCCTCTGCTTAGAGAAG
CTTTTTCAAGATAAGAATTTTTAT
Found at i:7697530 original size:3 final size:3
Alignment explanation
Indices: 7697524--7697548 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7697514 AAAAAACTTT
7697524 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7697549 GTGTAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7698674 original size:17 final size:17
Alignment explanation
Indices: 7698648--7698685 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
7698638 CCCAATTTTA
7698648 TTTTTATTGTT-TTATT
1 TTTTTATTGTTCTTATT
7698664 TTTTATATTGTTCTTATT
1 TTTT-TATTGTTCTTATT
7698682 TTTT
1 TTTT
7698686 CATTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTATTGTTCTTATT
Found at i:7700236 original size:7 final size:7
Alignment explanation
Indices: 7700224--7700256 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7700214 ATTTACTTAT
7700224 TTATTTA
1 TTATTTA
7700231 TTATTTA
1 TTATTTA
7700238 TTATTT-
1 TTATTTA
7700244 TTATTTA
1 TTATTTA
7700251 TTATTT
1 TTATTT
7700257 CCATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:7700249 original size:13 final size:14
Alignment explanation
Indices: 7700224--7700256 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
7700214 ATTTACTTAT
7700224 TTATTTATTATTTA
1 TTATTTATTATTTA
7700238 TTATTT-TTATTTA
1 TTATTTATTATTTA
7700251 TTATTT
1 TTATTT
7700257 CCATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTATTATTTA
Found at i:7709925 original size:33 final size:33
Alignment explanation
Indices: 7709877--7709947 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
7709867 AAGATAAGAT
* *
7709877 TTTAAACCCAGTTTAG-TTGACACCCAAATAATA
1 TTTAAACCCAATTTAGCTAGA-ACCCAAATAATA
* *
7709910 TTTAAACTCAATTTAGCTAGAACCCAAATGATA
1 TTTAAACCCAATTTAGCTAGAACCCAAATAATA
7709943 TTTAA
1 TTTAA
7709948 GCTTAATCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (33 bp):
TTTAAACCCAATTTAGCTAGAACCCAAATAATA
Done.