Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 121 of 160
Found at i:22571487 original size:16 final size:16
Alignment explanation
Indices: 22571468--22571613 Score: 62
Period size: 16 Copynumber: 9.2 Consensus size: 16
22571458 TCTTTTGTAT
22571468 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
22571484 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
22571500 TGTATTAATA-TATGTA
1 TTTATTATTATTAT-TA
* *
22571516 TATCTGTATTTATT-TT-
1 TTTAT-TA-TTATTATTA
* ** *
22571532 TTTTTTATTTAGAATAGA
1 TTTATTA-TTATTAT-TA
22571550 TTTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
22571565 TTTA-TA-TAGTTATATA
1 TTTATTATTA-TTAT-TA
22571581 TTTATTATTA-TATTA
1 TTTATTATTATTATTA
22571596 -TTATTATTATTATT-
1 TTTATTATTATTATTA
22571610 TTTA
1 TTTA
22571614 ATATATTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 33
0.68 0.10 0.22
Matches are distributed among these distances:
13 2 0.02
14 11 0.11
15 30 0.30
16 39 0.39
17 9 0.09
18 8 0.08
19 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:22571593 original size:14 final size:14
Alignment explanation
Indices: 22571563--22571619 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
22571553 ATATGTATTT
22571563 TATTTATATAGTTATA
1 TATTTAT-TA-TTATA
22571579 TATTTATTATTATA
1 TATTTATTATTATA
22571593 T-TATTATTATTAT-
1 TAT-TTATTATTATA
*
22571606 TATTT-TTAATATA
1 TATTTATTATTATA
22571619 T
1 T
22571620 TTTTGGGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 6 0.16
13 5 0.14
14 17 0.46
15 2 0.05
16 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTTATTATTATA
Found at i:22571604 original size:17 final size:17
Alignment explanation
Indices: 22571551--22571608 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
22571541 TAGAATAGAT
22571551 TTATATGTATT-TTATT-
1 TTATAT-TATTATTATTA
22571567 TATATAGTTATATATTTATTA
1 T-TATA-TTAT-TA-TTATTA
22571588 TTATATTATTATTATTA
1 TTATATTATTATTATTA
22571605 TTAT
1 TTAT
22571609 TTTTAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.03
17 17 0.47
18 4 0.11
19 4 0.11
20 9 0.25
21 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:22572538 original size:6 final size:6
Alignment explanation
Indices: 22572524--22572688 Score: 54
Period size: 6 Copynumber: 26.7 Consensus size: 6
22572514 CCGCTCCAGG
* *
22572524 TTTTT- TTTTTA -TTTTA TTTTCA TTTATT- TGTTTA TTTGTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA -TT-TTTA TTTTTA
** ** * *
22572572 TTTTTTA TTTATTA -GATTA GGTTTA TTTAATA TTCTTTTTA TCTTTA
1 -TTTTTA TTT-TTA TTTTTA TTTTTA TTT-TTA -T-TTT-TA TTTTTA
* * * * *
22572619 -TTTTA TTTTTA TTTTT- CTTTTA CTTTTC TTTATTT TTTTTA TTTCTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
* *
22572666 TTTATTT TTTTTA TTTCTA TTTT
1 TTT-TTA TTTTTA TTTTTA TTTT
22572689 CTTTAAATAA
Statistics
Matches: 119, Mismatches: 24, Indels: 33
0.68 0.14 0.19
Matches are distributed among these distances:
5 23 0.19
6 60 0.50
7 26 0.22
8 6 0.05
9 4 0.03
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:22572557 original size:8 final size:7
Alignment explanation
Indices: 22572524--22572581 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
22572514 CCGCTCCAGG
22572524 TTTT-TT
1 TTTTATT
22572530 TTTTATT
1 TTTTATT
22572537 TTATT-TT
1 TT-TTATT
*
22572544 CATTTATT
1 -TTTTATT
22572552 TGTTTATT
1 T-TTTATT
22572560 TGTTTA-T
1 T-TTTATT
22572567 TTTTATT
1 TTTTATT
22572574 TTTTATT
1 TTTTATT
22572581 T
1 T
22572582 ATTAGATTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
6 8 0.18
7 19 0.43
8 17 0.39
ACGTcount: A:0.14, C:0.02, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:22572655 original size:28 final size:28
Alignment explanation
Indices: 22572620--22572681 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
22572610 TTATCTTTAT
*
22572620 TTTATTTTTATT-TTTCT-TTTACTTTTC
1 TTTATTTTTTTTATTTCTATTTA-TTTTC
*
22572647 TTTATTTTTTTTATTTCTATTTATTTTT
1 TTTATTTTTTTTATTTCTATTTATTTTC
22572675 TTTATTT
1 TTTATTT
22572682 CTATTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 11 0.35
28 16 0.52
29 4 0.13
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTATTTTTTTTATTTCTATTTATTTTC
Found at i:22572658 original size:47 final size:48
Alignment explanation
Indices: 22572602--22572692 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
22572592 GTTTATTTAA
22572602 TATTCTTTTTATCTT-TATTTTATTTTTATT-TTTCT-TTTACTTTTCTT
1 TATTCTTTTTAT-TTCTA-TTTATTTTTATTATTTCTATTTACTTTTCTT
* * *
22572649 TATTTTTTTTATTTCTATTTATTTTTTTTATTTCTATTTTCTTT
1 TATTCTTTTTATTTCTATTTATTTTTATTATTTCTATTTACTTT
22572693 AAATAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
46 13 0.34
47 18 0.47
48 7 0.18
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (48 bp):
TATTCTTTTTATTTCTATTTATTTTTATTATTTCTATTTACTTTTCTT
Found at i:22572669 original size:19 final size:19
Alignment explanation
Indices: 22572604--22572687 Score: 84
Period size: 19 Copynumber: 4.4 Consensus size: 19
22572594 TTATTTAATA
*
22572604 TTCTTTTTATCTTTATTTTAT
1 TTCTATTTAT-TTT-TTTTAT
* *
22572625 TTTTA-TT-TTTCTTTTACT
1 TTCTATTTATTTTTTTTA-T
*
22572643 TT-TCTTTATTTTTTTTAT
1 TTCTATTTATTTTTTTTAT
22572661 TTCTATTTATTTTTTTTAT
1 TTCTATTTATTTTTTTTAT
22572680 TTCTATTT
1 TTCTATTT
22572688 TCTTTAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 6 0.11
18 10 0.19
19 32 0.60
20 2 0.04
21 3 0.06
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (19 bp):
TTCTATTTATTTTTTTTAT
Found at i:22572775 original size:57 final size:57
Alignment explanation
Indices: 22572696--22572987 Score: 410
Period size: 57 Copynumber: 5.0 Consensus size: 57
22572686 TTTCTTTAAA
22572696 TAAAAATCAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTCC-AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
***
22572757 TAAAAATAAATTT-C-AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
*
22572813 TGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTCCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
22572873 TAAAAATAAATTTCC-AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTCCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCT
**
22572930 TAAAAATAAATTTCCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATAAATTTCCAAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
22572988 CTACACAAGA
Statistics
Matches: 211, Mismatches: 10, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
55 1 0.00
56 46 0.22
57 53 0.25
58 21 0.10
59 37 0.18
60 45 0.21
61 8 0.04
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (57 bp):
TAAAAATAAATTTCCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:22572828 original size:117 final size:118
Alignment explanation
Indices: 22572696--22572987 Score: 461
Period size: 116 Copynumber: 2.5 Consensus size: 118
22572686 TTTCTTTAAA
22572696 TAAAAATCAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
1 TAAAAATCAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
* *
22572761 AATAAATTT-CAAAAAGGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCT
66 AATAAATTTCCAAAAAAGATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCT
*
22572813 TGAAAATCAAAATTTCC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
1 TAAAAATCAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
*
22572877 AATAAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCT
66 AATAAATTTCCAAAAAAGATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCT
***
22572930 TAAAAAT--AAATTTCCAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATCAAAATTTCCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
22572988 CTACACAAGA
Statistics
Matches: 163, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
115 9 0.06
116 95 0.58
117 59 0.36
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (118 bp):
TAAAAATCAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
AATAAATTTCCAAAAAAGATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCT
Found at i:22579118 original size:2 final size:2
Alignment explanation
Indices: 22579111--22579150 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
22579101 TGAAAGTTTA
*
22579111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22579151 GCACAAGGAG
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22579472 original size:23 final size:24
Alignment explanation
Indices: 22579442--22579490 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
22579432 AATAGTCCAA
22579442 AAAATATAAGAACTACATT-ATAT
1 AAAATATAAGAACTACATTAATAT
* *
22579465 AAAATATAAGAATTATATTAATAT
1 AAAATATAAGAACTACATTAATAT
22579489 AA
1 AA
22579491 GTGAATTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATATAAGAACTACATTAATAT
Found at i:22579481 original size:18 final size:17
Alignment explanation
Indices: 22579458--22579491 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22579448 TAAGAACTAC
22579458 ATTATATAAAATATAAGA
1 ATTATAT-AAATATAAGA
*
22579476 ATTATATTAATATAAG
1 ATTATATAAATATAAG
22579492 TGAATTCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTATATAAATATAAGA
Found at i:22579981 original size:2 final size:2
Alignment explanation
Indices: 22579974--22580000 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22579964 TTTTCTAATT
22579974 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
22580001 AATTATCGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22584911 original size:19 final size:19
Alignment explanation
Indices: 22584850--22584911 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
22584840 ACTAAGCTAC
22584850 AAATATATAAATTAT-TTCAA
1 AAATATATAAATT-TCTTC-A
22584870 AACATATATAAA--TCTT-A
1 AA-ATATATAAATTTCTTCA
*
22584887 ATAATATATACATTTCTTCA
1 A-AATATATAAATTTCTTCA
22584907 AAATA
1 AAATA
22584912 AGATACCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
17 10 0.29
18 2 0.06
19 10 0.29
20 4 0.11
21 9 0.26
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATATAAATTTCTTCA
Found at i:22585276 original size:59 final size:59
Alignment explanation
Indices: 22585210--22585368 Score: 186
Period size: 58 Copynumber: 2.7 Consensus size: 59
22585200 TCAACAAATT
* *
22585210 TCAACAAACAT-ATAACCAAAACCTAAACAAATTTCAACAAATATAA-AACTAACAAACAC
1 TCAACAAACATGGTAACCAAAACC-AAACAAATTTCAACAAATA-AATAACTAACAAAAAC
* *
22585269 TCAACAAA-TTGGTAACCAAAATCCAAA-TAATTTCAACAAATAAATAACTAACAAAAAC
1 TCAACAAACATGGTAACCAAAA-CCAAACAAATTTCAACAAATAAATAACTAACAAAAAC
*
22585327 TCAAC--ACATTGGTAACCAAAGCCAAAACAAATTTCAACAAAT
1 TCAACAAACA-TGGTAACCAAAACC-AAACAAATTTCAACAAAT
22585369 CTATAATAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
56 1 0.01
57 4 0.05
58 46 0.53
59 33 0.38
60 2 0.02
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (59 bp):
TCAACAAACATGGTAACCAAAACCAAACAAATTTCAACAAATAAATAACTAACAAAAAC
Found at i:22589772 original size:24 final size:25
Alignment explanation
Indices: 22589734--22589784 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
22589724 TGTTTTTAAA
*
22589734 TTTTCCTAGGTTTTTTTTTGAATTT
1 TTTTCCTAGGTTTTTTCTTGAATTT
*
22589759 TTTTTCTAGG-TTTTTCTTGAATTT
1 TTTTCCTAGGTTTTTTCTTGAATTT
22589783 TT
1 TT
22589785 CGATGAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.69
Consensus pattern (25 bp):
TTTTCCTAGGTTTTTTCTTGAATTT
Found at i:22590190 original size:18 final size:18
Alignment explanation
Indices: 22590169--22590214 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22590159 TCCTTTTAAT
22590169 TTTTATTTTCTAATTTTA
1 TTTTATTTTCTAATTTTA
* **
22590187 TTTTATTTTTTCTTTTTA
1 TTTTATTTTCTAATTTTA
22590205 TTTTGATTTT
1 TTTT-ATTTT
22590215 TATTTTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTATTTTCTAATTTTA
Found at i:22590215 original size:18 final size:17
Alignment explanation
Indices: 22590150--22590220 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 17
22590140 AATCGTAGGT
* *
22590150 TTTTCTTTTTCCTTTTAA
1 TTTTATTTTT-CTTTTTA
22590168 TTTT-TATTTTCTAATTTTA
1 TTTTAT-TTTTCT--TTTTA
22590187 TTTTATTTTTTCTTTTTA
1 TTTTA-TTTTTCTTTTTA
*
22590205 TTTTGATTTTTATTTT
1 TTTT-ATTTTTCTTTT
22590221 AACAATTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
17 3 0.07
18 26 0.58
19 9 0.20
20 6 0.13
21 1 0.02
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTCTTTTTA
Found at i:22596978 original size:14 final size:15
Alignment explanation
Indices: 22596958--22596999 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
22596948 AAGGGTGAAG
22596958 GAAAGAAAAAAA-ATA
1 GAAAGAAAAAAAGA-A
22596973 -AAAGAATAAAAAGAA
1 GAAAGAA-AAAAAGAA
22596988 GAAAGAAAAAAA
1 GAAAGAAAAAAA
22597000 TGAATGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 7 0.29
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
GAAAGAAAAAAAGAA
Found at i:22597992 original size:27 final size:27
Alignment explanation
Indices: 22597962--22598029 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
22597952 GTTTATGAAA
* * * *
22597962 AGCAATTTTTGGCCTTTGTTTATAGGG
1 AGCAATTTTTAGACTATATTTATAGGG
*
22597989 AGCAATTTTTAGACTATATTTATGGGG
1 AGCAATTTTTAGACTATATTTATAGGG
*
22598016 AGCAATTTTCAGAC
1 AGCAATTTTTAGAC
22598030 AAGAACTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (27 bp):
AGCAATTTTTAGACTATATTTATAGGG
Found at i:22599631 original size:41 final size:41
Alignment explanation
Indices: 22599547--22599708 Score: 139
Period size: 41 Copynumber: 3.9 Consensus size: 41
22599537 TATATATGTA
* * * * * *
22599547 TATATATTT-TGCACCTGCATGGCTGTTCTCTATTTCTGCG
1 TATATTTTTCTGCATCTGAATGGCTGTTCCCTGTTTATGCG
* * *
22599587 TATATTTTTCTACATCTGAATGGATGTTTCCTGTTTATGCG
1 TATATTTTTCTGCATCTGAATGGCTGTTCCCTGTTTATGCG
* *
22599628 TATATATATTTTTTTGCATCT-ACATGGCTGTTCCCTGTTTCTGCG
1 ----TATATTTTTCTGCATCTGA-ATGGCTGTTCCCTGTTTATGCG
* * *
22599673 CATATTGTTCTGCATCTGCATGGCTGTTCCCTGTTT
1 TATATTTTTCTGCATCTGAATGGCTGTTCCCTGTTT
22599709 GTTCCCTGTT
Statistics
Matches: 97, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
40 8 0.08
41 54 0.56
44 1 0.01
45 34 0.35
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (41 bp):
TATATTTTTCTGCATCTGAATGGCTGTTCCCTGTTTATGCG
Found at i:22599640 original size:45 final size:45
Alignment explanation
Indices: 22599587--22599677 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
22599577 TATTTCTGCG
* *
22599587 TATATTTTTCTACATCTGA-ATGGATGTTTCCTGTTTATGCGTATA
1 TATATTTTTCTACATCT-ACATGGATGTTCCCTGTTTATGCGCATA
* * * *
22599632 TATATTTTTTTGCATCTACATGGCTGTTCCCTGTTTCTGCGCATA
1 TATATTTTTCTACATCTACATGGATGTTCCCTGTTTATGCGCATA
22599677 T
1 T
22599678 TGTTCTGCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (45 bp):
TATATTTTTCTACATCTACATGGATGTTCCCTGTTTATGCGCATA
Found at i:22599689 original size:86 final size:85
Alignment explanation
Indices: 22599545--22599708 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
22599535 TATATATATG
* * * *
22599545 TATATATATTTTGCACCTGCATGGCTGTTCTCTATTTCTGCGTATATTTTTCTACATCTGAATGG
1 TATATATATTTTGCACCTACATGGCTGTTCCCTATTTCTGCGCATATTGTTCTACATCTGAATGG
*
22599610 ATGTTTCCTGTTTATGCGTA
66 ATGTTCCCTGTTTATGCGTA
* * * * *
22599630 TATATATTTTTTTGCATCTACATGGCTGTTCCCTGTTTCTGCGCATATTGTTCTGCATCTGCATG
1 TATATA-TATTTTGCACCTACATGGCTGTTCCCTATTTCTGCGCATATTGTTCTACATCTGAATG
*
22599695 GCTGTTCCCTGTTT
65 GATGTTCCCTGTTT
22599709 GTTCCCTGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 6 0.09
86 61 0.91
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (85 bp):
TATATATATTTTGCACCTACATGGCTGTTCCCTATTTCTGCGCATATTGTTCTACATCTGAATGG
ATGTTCCCTGTTTATGCGTA
Found at i:22599758 original size:52 final size:52
Alignment explanation
Indices: 22599656--22599760 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
22599646 TCTACATGGC
* * *
22599656 TGTTCCCTGTTTCTGCGCATATTGTTCTGCATCTGCATGGCTGTTCCCTGTT
1 TGTTCCCTGTTTCTGCGCATATTGTTCTACATATGCATGGCGGTTCCCTGTT
* *
22599708 TGTTCCCTGTTTCTGC-CTATATTTTTTTTACATATGCATGGCGGTT-CCTGTT
1 TGTTCCCTGTTTCTGCGC-ATA-TTGTTCTACATATGCATGGCGGTTCCCTGTT
22599760 T
1 T
22599761 CTGCATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.02
52 26 0.57
53 19 0.41
ACGTcount: A:0.10, C:0.24, G:0.19, T:0.48
Consensus pattern (52 bp):
TGTTCCCTGTTTCTGCGCATATTGTTCTACATATGCATGGCGGTTCCCTGTT
Found at i:22600353 original size:18 final size:18
Alignment explanation
Indices: 22600326--22600410 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 18
22600316 CCTTTATTCT
22600326 TGATACATTTGAGGTGAA
1 TGATACATTTGAGGTGAA
*
22600344 TGATATATTTGA---GAA
1 TGATACATTTGAGGTGAA
*
22600359 TGATACATTT-ATGGTGGGA
1 TGATACATTTGA-GGT-GAA
* *
22600378 -GATACATTTGTGGTAAA
1 TGATACATTTGAGGTGAA
22600395 TGATACATTTGAGGTG
1 TGATACATTTGAGGTG
22600411 GATAATAACC
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
14 1 0.02
15 12 0.23
17 1 0.02
18 36 0.69
19 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (18 bp):
TGATACATTTGAGGTGAA
Found at i:22600767 original size:6 final size:6
Alignment explanation
Indices: 22600756--22600786 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
22600746 CCAAAATTCA
22600756 CACCAT CACCAT CACCAT CACCAT CACCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT C
22600787 TGGACTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CACCAT
Found at i:22604228 original size:25 final size:27
Alignment explanation
Indices: 22604199--22604248 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
22604189 TCAAAAATTA
22604199 AAAATTTTCAAA-CT-TATATTTTAAT
1 AAAATTTTCAAACCTATATATTTTAAT
22604224 AAAATTTTCAAACCTATATATTTTA
1 AAAATTTTCAAACCTATATATTTTA
22604249 TTTTTTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.52
26 2 0.09
27 9 0.39
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATTTTCAAACCTATATATTTTAAT
Found at i:22612588 original size:117 final size:114
Alignment explanation
Indices: 22612374--22612819 Score: 659
Period size: 117 Copynumber: 3.9 Consensus size: 114
22612364 TCTTGTGTGG
* ** *
22612374 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAA-TTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAACTTTATTTCCAAGGAAAA
*
22612437 TTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTGAAAATTTATTTTTAA
65 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTG-AAATTTATTTTTAA
*
22612488 GGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAACTTT-ATTTCCAAGGAAA
* *
22612553 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTAATTTTAA
64 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAATTTATTTTTAA
22612605 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTCCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTT-ATTTCCAAGGAAAA
* *
22612670 TTGGTACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAATTTATTTTTAA
65 TTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGAAATTTATTTTTAA
* *
22612722 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAAATTTATTT-TAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAACTTTATTTCCAAGGAAAA
22612785 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
65 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
22612820 TGATTTTTTT
Statistics
Matches: 305, Mismatches: 17, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
112 1 0.00
113 6 0.02
114 31 0.10
115 45 0.15
116 62 0.20
117 152 0.50
118 7 0.02
119 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (114 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTCCAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTATTTTTAA
Found at i:22612726 original size:174 final size:175
Alignment explanation
Indices: 22612374--22612822 Score: 701
Period size: 174 Copynumber: 2.6 Consensus size: 175
22612364 TCTTGTGTGG
* *
22612374 GGAAAATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTGGAAATTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTTGGAAATTTAATTTTAAGGAAAAT
* **
22612438 TGATACTTTCAACTTTTCCCCAAAAATA-GTTTTTGAAAATTTATTTTTAAGGAAAATTGATACT
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCCAAGGAAAATTGATACT
* * *
22612502 TTCAATTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
130 TTCAACTTTTCCTCAAAAACACTTTTTTTGAAACTTTGATTTCCAA
22612548 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTAATTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTAATTTTAAGGAAAATT
* * *
22612613 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTCCAAGGAAAATTGGTACT
66 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-ATTTCCAAGGAAAATTGATACT
* **
22612678 TTCAACTTTTCCTCAAAAACCCTTTTTTTGAAA-TTT-ATTTTTAA
130 TTCAACTTTTCCTCAAAAACACTTTTTTTGAAACTTTGATTTCCAA
*
22612722 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTT-ATTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTAATTTTAAGGAAAAT
22612786 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGA
65 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGA
22612823 TTTTTTTATT
Statistics
Matches: 255, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
173 2 0.01
174 177 0.69
175 28 0.11
176 48 0.19
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (175 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTAATTTTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCCAAGGAAAATTGATACTT
TCAACTTTTCCTCAAAAACACTTTTTTTGAAACTTTGATTTCCAA
Found at i:22612820 original size:57 final size:57
Alignment explanation
Indices: 22612374--22612822 Score: 618
Period size: 57 Copynumber: 7.8 Consensus size: 57
22612364 TCTTGTGTGG
* *
22612374 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA-TTTTAA
* *
22612431 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-GTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA-TTTTAA
* * * *
22612488 GGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTT-ATTT-TAA
* *
22612548 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTAATTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-ATTTTAA
* * *
22612605 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-ATTT-TAA
* * **
22612664 GGAAAATTGGTACTTTCAACTTTTCCTCAAAAACCCTTTTTTTG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAAATTTA-TTTTAA
*
22612722 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTAA
22612779 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGA
22612823 TTTTTTTATT
Statistics
Matches: 349, Mismatches: 34, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
57 177 0.51
58 72 0.21
59 57 0.16
60 43 0.12
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTAA
Found at i:22612894 original size:27 final size:27
Alignment explanation
Indices: 22612834--22612905 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
22612824 TTTTTTATTT
* * *
22612834 AAAGAAAATAGAATAGAATAAAAGTAAAA
1 AAAGAAAA-AG-ATAAAACAAAAATAAAA
22612863 AAAGAAAAAG-TAAAACAAAAATAAAA
1 AAAGAAAAAGATAAAACAAAAATAAAA
*
22612889 ATAAGATAAAGATAAAA
1 A-AAGAAAAAGATAAAA
22612906 AAGATTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 14 0.38
27 8 0.22
28 7 0.19
29 8 0.22
ACGTcount: A:0.75, C:0.01, G:0.11, T:0.12
Consensus pattern (27 bp):
AAAGAAAAAGATAAAACAAAAATAAAA
Found at i:22613959 original size:4 final size:4
Alignment explanation
Indices: 22613935--22614005 Score: 52
Period size: 4 Copynumber: 16.5 Consensus size: 4
22613925 ATAATATAAT
* * * * *
22613935 AATA AATA TATA ATTA TATA AATAA AATA CATATA AATA TTAACA AAAA
1 AATA AATA AATA AATA AATA AAT-A AATA -A-ATA AATA --AATA AATA
22613984 AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AA
22614006 GATATACATA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 41 0.77
5 6 0.11
6 6 0.11
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:22614053 original size:9 final size:9
Alignment explanation
Indices: 22614020--22614059 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
22614010 TACATATGTT
22614020 AATACATAA
1 AATACATAA
22614029 TAATA-A-AA
1 -AATACATAA
22614037 AATA-ATAA
1 AATACATAA
22614045 AATACATAA
1 AATACATAA
22614054 AATACA
1 AATACA
22614060 AAAGGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.18
8 8 0.29
9 11 0.39
10 4 0.14
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (9 bp):
AATACATAA
Found at i:22615335 original size:98 final size:97
Alignment explanation
Indices: 22615160--22615344 Score: 237
Period size: 98 Copynumber: 1.9 Consensus size: 97
22615150 TTTGTTAATG
* * ** *
22615160 AGAAGCTTTTTGGTTGTGAATTTTTTAAGTTTAATGCCTCCATTGAGGAGGAGCTTTCTAGTCAT
1 AGAAGCTTTTTGGTTGAGAATTTTTGAAGTTTAACACCTCCATTAAGGAGGAGCTTTCTAGT-AT
* *
22615225 GAATTTTTTAAAGTTTCAACACCGTTGCTGAAA
65 GAAATTTCTAAAGTTTCAACACCGTTGCTGAAA
* * * *
22615258 AGAAGCTTTTTGGTTGAGGATTTTTGAAGTTTCAACACCTCTATTAAGGATGAGCTTTTTAGT-T
1 AGAAGCTTTTTGGTTGAGAATTTTTGAAGTTT-AACACCTCCATTAAGGAGGAGCTTTCTAGTAT
22615322 GCAAATTTCTAAAGTTTCAACAC
65 G-AAATTTCTAAAGTTTCAACAC
22615345 ATCGGTTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
97 2 0.03
98 48 0.65
99 24 0.32
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (97 bp):
AGAAGCTTTTTGGTTGAGAATTTTTGAAGTTTAACACCTCCATTAAGGAGGAGCTTTCTAGTATG
AAATTTCTAAAGTTTCAACACCGTTGCTGAAA
Found at i:22618786 original size:6 final size:6
Alignment explanation
Indices: 22618777--22618828 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
22618767 AAGTTTTCTT
* *
22618777 TTTTTC TTTTTA TTTTTA TTTTTTA TTTTGA TATTTTA -TTTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
22618825 TTTT
1 TTTT
22618829 ATTAATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.25
6 20 0.50
7 10 0.25
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:22618792 original size:13 final size:13
Alignment explanation
Indices: 22618783--22618823 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
22618773 TCTTTTTTTC
22618783 TTTTTATTTTTAT
1 TTTTTATTTTTAT
*
22618796 TTTTTATTTTGAT
1 TTTTTATTTTTAT
*
22618809 ATTTTA-TTTTAT
1 TTTTTATTTTTAT
22618821 TTT
1 TTT
22618824 ATTTTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:22627755 original size:18 final size:18
Alignment explanation
Indices: 22627720--22627773 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 18
22627710 AGGAATTATT
22627720 TAAATAATAAGAAAAATG-A
1 TAAA-AATAA-AAAAATGAA
22627739 TAAAAATAAAAATAATGAA
1 TAAAAATAAAAA-AATGAA
22627758 TAACAAATAAAAAAAT
1 TAA-AAATAAAAAAAT
22627774 AGCTATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.09
18 9 0.28
19 11 0.34
20 9 0.28
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (18 bp):
TAAAAATAAAAAAATGAA
Found at i:22628097 original size:3 final size:3
Alignment explanation
Indices: 22628089--22628118 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22628079 AAAATATGAA
22628089 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22628119 TTCACAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22639770 original size:13 final size:13
Alignment explanation
Indices: 22639738--22639771 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22639728 CCCTCTCATT
22639738 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
**
22639751 ATTAAAAAGAAAA
1 AAGAAAAAGAAAA
22639764 AAGAAAAA
1 AAGAAAAA
22639772 TGTGTGATAT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:22640769 original size:41 final size:41
Alignment explanation
Indices: 22640712--22640793 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
22640702 AGGAGCCTTC
22640712 TTTAAAGTCTCATAGCCACTGGTTAAAAAAACCTTCTTTAA
1 TTTAAAGTCTCATAGCCACTGGTTAAAAAAACCTTCTTTAA
* * * * *
22640753 TTTAAAGTTTCATAGCCTCTGGTTAGAGAAGCCTTCTTTAA
1 TTTAAAGTCTCATAGCCACTGGTTAAAAAAACCTTCTTTAA
22640794 AGTTTCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (41 bp):
TTTAAAGTCTCATAGCCACTGGTTAAAAAAACCTTCTTTAA
Found at i:22640800 original size:36 final size:36
Alignment explanation
Indices: 22640674--22641158 Score: 334
Period size: 36 Copynumber: 13.6 Consensus size: 36
22640664 TAAAAGAGCT
* * * *
22640674 TTCTTTAAAGTTT-ATTGCCTTTTGTTAGAGGAGCC
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * * * * *
22640709 TTCTTTAAAGTCTCATAGCCACTGGTTAAAAAAACC
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
*
22640745 TTCTTTAATTTAAAGTTTCATAGCCTCTGGTTAGAGAAGCC
1 TTC-----TTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * *
22640786 TTCTTTAAAGTTTCATTA-TCTCTGGTTAGAGAAGCT
1 TTCTTTAAAGTTTCA-TAGCCTCTAGTTAGAGAAGCC
* * * *
22640822 TTCTTTAAAGTTTCATTGCCTCTAGATGGAGAAACC
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * * *
22640858 TTCTTTAAAGTTTAATTGGCTTTAGTTAGA-AAGCC
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * * *
22640893 TTTTTTAAAGTTTCATAACCTTTGGTTAGAGAAG--
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * *
22640927 ---TTTAAAGTTTCATTGCCTTTAGTTAGA-AGAGCT
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGA-AGCC
* * * *
22640960 TTGTTTAAAGTTTCATTGCCTCTAGTTAAAGGAG-C
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
** * * *
22640995 TT-TCCAAAGTTTCATAGCCTCTGGTTGGAGAAGCT
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * * *
22641030 TTCTATAAAGTTTCATTGCCTTTAGTTAGAAAAGCC
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
* * *
22641066 TTTTTTAAAGTTTCATAACCTTTAGTTAGAGGAA-CC
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGA-GAAGCC
* * *
22641102 TTCTTTAAAGTCTGATAGCCTCTAGTTAAATG-AG-C
1 TTCTTTAAAGTTTCATAGCCTCTAGTTAGA-GAAGCC
* *
22641137 -TATTTAAAGTTTCATTGCCTCT
1 TTCTTTAAAGTTTCATAGCCTCT
22641159 TATTAAATGA
Statistics
Matches: 356, Mismatches: 74, Indels: 41
0.76 0.16 0.09
Matches are distributed among these distances:
30 1 0.00
31 26 0.07
34 42 0.12
35 47 0.13
36 205 0.58
37 4 0.01
41 31 0.09
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (36 bp):
TTCTTTAAAGTTTCATAGCCTCTAGTTAGAGAAGCC
Found at i:22641092 original size:106 final size:106
Alignment explanation
Indices: 22640753--22641156 Score: 341
Period size: 106 Copynumber: 3.8 Consensus size: 106
22640743 CCTTCTTTAA
* * * * * * *
22640753 TTTAAAGTTTCATAGCCTCTGGTTAGAGAAGCCTTCTT-TAAAGTTTCATTATCTCTGGTTAGAG
1 TTTAAAGTTTCATTGCCTTTAGTTAAAGGAGCCTT-TTCCAAAGTTTCA-TACCTCTGGTTAGAG
* * * *
22640817 AAGCTTTCTTTAAAGTTTCATTGCCTCTAGATGGAGAAA-CCTTC
64 AAGCTTTC-TTAAAGTTTCATTGCCTTTAGTTAGA-AAAGCCTTT
* * ** *
22640861 TTTAAAGTTTAATTGGCTTTAGTTAGAA--AGCCTTTTTTAAAGTTTCATAACCTTTGGTTAGAG
1 TTTAAAGTTTCATTGCCTTTAGTTA-AAGGAGCCTTTTCCAAAGTTTCAT-ACCTCTGGTTAGAG
*
22640924 AAG---T-TTAAAGTTTCATTGCCTTTAGTTAGAAGAG-CTTT
64 AAGCTTTCTTAAAGTTTCATTGCCTTTAGTTAGAAAAGCCTTT
* *
22640962 GTTTAAAGTTTCATTGCCTCTAGTTAAAGGAG-C-TTTCCAAAGTTTCATAGCCTCTGGTTGGAG
1 -TTTAAAGTTTCATTGCCTTTAGTTAAAGGAGCCTTTTCCAAAGTTTCATA-CCTCTGGTTAGAG
22641025 AAGCTTTCTATAAAGTTTCATTGCCTTTAGTTAGAAAAGCCTTT
64 AAGCTTTCT-TAAAGTTTCATTGCCTTTAGTTAGAAAAGCCTTT
** * * * * * * *
22641069 TTTAAAGTTTCATAACCTTTAGTTAGAGGAACCTTCTT-TAAAGTCTGATAGCCTCTAGTTAAAT
1 TTTAAAGTTTCATTGCCTTTAGTTAAAGGAGCCTT-TTCCAAAGTTTCATA-CCTCTGGTTAGA-
*
22641133 G-AGCTAT-TTAAAGTTTCATTGCCT
63 GAAGCTTTCTTAAAGTTTCATTGCCT
22641157 CTTATTAAAT
Statistics
Matches: 245, Mismatches: 33, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
100 1 0.00
101 34 0.14
102 46 0.19
103 2 0.01
104 2 0.01
105 1 0.00
106 73 0.30
107 37 0.15
108 45 0.18
109 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (106 bp):
TTTAAAGTTTCATTGCCTTTAGTTAAAGGAGCCTTTTCCAAAGTTTCATACCTCTGGTTAGAGAA
GCTTTCTTAAAGTTTCATTGCCTTTAGTTAGAAAAGCCTTT
Found at i:22641587 original size:3 final size:3
Alignment explanation
Indices: 22641579--22641607 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22641569 ACCTTTAAAT
22641579 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22641608 TGTTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22642739 original size:19 final size:19
Alignment explanation
Indices: 22642706--22642757 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
22642696 GTGAGTTTTA
*
22642706 ATTTTCTTTTTTTTTTATT
1 ATTTTCTTTTATTTTTATT
* *
22642725 GTTTTCTTTCA-TTTTATT
1 ATTTTCTTTTATTTTTATT
*
22642743 ATTTTATTTTATTTT
1 ATTTTCTTTTATTTT
22642758 ATTTTTTATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (19 bp):
ATTTTCTTTTATTTTTATT
Found at i:22642741 original size:18 final size:17
Alignment explanation
Indices: 22642718--22642775 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
22642708 TTTCTTTTTT
*
22642718 TTTTATTGTTTTCTTTCA
1 TTTTATT-TTTTATTTCA
*
22642736 TTTTATTATTTTATTTTA
1 TTTTATT-TTTTATTTCA
*
22642754 TTTTATTTTTTATGT-A
1 TTTTATTTTTTATTTCA
22642770 TTTTAT
1 TTTTAT
22642776 GTATTTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
16 7 0.19
17 7 0.19
18 22 0.61
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTTATTTCA
Found at i:22642775 original size:9 final size:9
Alignment explanation
Indices: 22642735--22642785 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
22642725 GTTTTCTTTC
22642735 ATTTTAT-T
1 ATTTTATGT
*
22642743 ATTTTATTTT
1 ATTTTA-TGT
22642753 ATTTTAT-T
1 ATTTTATGT
22642761 -TTTTATGT
1 ATTTTATGT
22642769 ATTTTATGT
1 ATTTTATGT
22642778 ATTTTATG
1 ATTTTATG
22642786 ATATCATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.15
8 8 0.21
9 18 0.46
10 7 0.18
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (9 bp):
ATTTTATGT
Found at i:22642780 original size:25 final size:25
Alignment explanation
Indices: 22642736--22642784 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22642726 TTTTCTTTCA
*
22642736 TTTTATTATTTTATTTTATTTTATT
1 TTTTATTATTTTATTGTATTTTATT
22642761 TTTTATGTATTTTA-TGTATTTTAT
1 TTTTAT-TATTTTATTGTATTTTAT
22642785 GATATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (25 bp):
TTTTATTATTTTATTGTATTTTATT
Found at i:22642782 original size:43 final size:43
Alignment explanation
Indices: 22642701--22642816 Score: 105
Period size: 43 Copynumber: 2.7 Consensus size: 43
22642691 CATTGGTGAG
* * * * *
22642701 TTTTAATTTTCTTTT-TTTTTTATTGTTTTCTTTCATTTTATTA
1 TTTT-ATTTTATTTTATTTTTTATTATTTTATGTCATTTTATGA
22642744 TTTTATTTTATTTTATTTTTTATGTATTTTATGT-ATTTTATGA
1 TTTTATTTTATTTTATTTTTTAT-TATTTTATGTCATTTTATGA
* *
22642787 TATCATTATTA-TTTATTTCTTTATT-TTTTA
1 TTTTATT-TTATTTTATTT-TTTATTATTTTA
22642817 AAGAAATAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 14 0.23
43 33 0.53
44 15 0.24
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (43 bp):
TTTTATTTTATTTTATTTTTTATTATTTTATGTCATTTTATGA
Found at i:22643902 original size:19 final size:18
Alignment explanation
Indices: 22643855--22643906 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
22643845 GTGAGTTTTA
* *
22643855 ATTTTCTTTTTTTTTATT
1 ATTTTCATTTCTTTTATT
*
22643873 GTTTTCATTTCATTTTATT
1 ATTTTCATTTC-TTTTATT
22643892 ATTTT-ATTTTCTTTT
1 ATTTTCA-TTTCTTTT
22643907 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (18 bp):
ATTTTCATTTCTTTTATT
Found at i:22643941 original size:42 final size:40
Alignment explanation
Indices: 22643855--22643961 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 40
22643845 GTGAGTTTTA
* * *
22643855 ATTTTCTTTTTTTTTATTGTTTTCATTTCATTTTATTATTTT
1 ATTTTCTTTTCTTTTATT-TTTT-ATGTCATTTTATTATATT
22643897 ATTTTCTTTTCTTTTATTTTTTATGT-ATTTTATGATATCATT
1 ATTTTCTTTTCTTTTATTTTTTATGTCATTTTAT--TAT-ATT
22643939 ATTATT-TATTTC-TTTATTTTTTA
1 ATT-TTCT-TTTCTTTTATTTTTTA
22643962 AAGAAATAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
39 7 0.12
40 3 0.05
41 7 0.12
42 34 0.60
43 6 0.11
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (40 bp):
ATTTTCTTTTCTTTTATTTTTTATGTCATTTTATTATATT
Found at i:22644587 original size:16 final size:17
Alignment explanation
Indices: 22644566--22644600 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22644556 AAATAATAAG
*
22644566 AAAAATAGTGAA-AATA
1 AAAAATAATGAATAATA
22644582 AAAAATAATGAATAATA
1 AAAAATAATGAATAATA
22644599 AA
1 AA
22644601 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AAAAATAATGAATAATA
Found at i:22644983 original size:3 final size:3
Alignment explanation
Indices: 22644975--22645000 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22644965 TTCGTAGAAT
22644975 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
22645001 TTCATAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:22646289 original size:31 final size:31
Alignment explanation
Indices: 22646254--22646312 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22646244 GTAAATGATT
22646254 TTTGTACTCACACGAAATTTAAAATTTAATC
1 TTTGTACTCACACGAAATTTAAAATTTAATC
*** *
22646285 TTTGTACTTGTACGAAATTTGAAATTTA
1 TTTGTACTCACACGAAATTTAAAATTTA
22646313 GTCTCTCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (31 bp):
TTTGTACTCACACGAAATTTAAAATTTAATC
Found at i:22646509 original size:16 final size:15
Alignment explanation
Indices: 22646484--22646525 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
22646474 TATTATTATC
22646484 ATTT-ATATTAATAA
1 ATTTAATATTAATAA
22646498 ATTATAATATTAAT-A
1 ATT-TAATATTAATAA
22646513 ATTTAA-ATTAATA
1 ATTTAATATTAATA
22646526 TATCAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 5 0.20
16 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAATATTAATAA
Found at i:22647459 original size:31 final size:31
Alignment explanation
Indices: 22647421--22647500 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
22647411 TTTATTAAAG
* **
22647421 GAATTAAATTTCAAATTTCTTATGAGTACATA
1 GAATTAAATTTCAAATTTCTCACAAGTACA-A
22647453 G-ATTAAATTTCAAATTTCTCACAAGTACAA
1 GAATTAAATTTCAAATTTCTCACAAGTACAA
22647483 GAATTAAATTTCAAATTT
1 GAATTAAATTTCAAATTT
22647501 TGTATAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.05
31 41 0.93
32 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (31 bp):
GAATTAAATTTCAAATTTCTCACAAGTACAA
Found at i:22647744 original size:110 final size:109
Alignment explanation
Indices: 22647524--22647748 Score: 328
Period size: 110 Copynumber: 2.1 Consensus size: 109
22647514 GGACTATTTG
* * *
22647524 AATAATTTAACAACTAATTTTATCAATCACAATTGTTACTTAATAAGTCAATGTATATCAGCAAA
1 AATAATTCAACAACTAATTTCATCAATCACAATTGTTACTTAATAAATCAATGTATATCAGCAAA
* *
22647589 ATTAACACCATGTCAATAAATTCAACGATCACATTAGCATTTTT
66 ATCAACACCATGTCAATAAATTCAACGAGCACATTAGCATTTTT
22647633 AATAATTCAACAACTAATTTCATCAATC-CTAATTGTTACTTAATAAATCAATGCTATATCAGCA
1 AATAATTCAACAACTAATTTCATCAATCAC-AATTGTTACTTAATAAATCAATG-TATATCAGCA
* * **
22647697 AAATCAACACCATGTTACTAAATTCAGTG-GCAACATTAGCATTTTT
64 AAATCAACACCATGTCAATAAATTCAACGAGC-ACATTAGCATTTTT
22647743 AATAAT
1 AATAAT
22647749 AAAAAATTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
108 1 0.01
109 49 0.47
110 54 0.52
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (109 bp):
AATAATTCAACAACTAATTTCATCAATCACAATTGTTACTTAATAAATCAATGTATATCAGCAAA
ATCAACACCATGTCAATAAATTCAACGAGCACATTAGCATTTTT
Found at i:22665357 original size:18 final size:19
Alignment explanation
Indices: 22665330--22665365 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22665320 ATACAAATTA
*
22665330 AACATTTTG-ATGGCTTTC
1 AACATATTGAATGGCTTTC
22665348 AACATATTGAATGGCTTT
1 AACATATTGAATGGCTTT
22665366 AATCCTTGAT
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:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (19 bp):
AACATATTGAATGGCTTTC
Found at i:22667675 original size:16 final size:17
Alignment explanation
Indices: 22667640--22667678 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
22667630 TATTAAGGAG
*
22667640 AGTAAAAAAATGTATGAC
1 AGTAAAAAAATCTA-GAC
22667658 AGTAAAAAAATCTA-AC
1 AGTAAAAAAATCTAGAC
22667674 AGTAA
1 AGTAA
22667679 TTCAAGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (17 bp):
AGTAAAAAAATCTAGAC
Found at i:22668675 original size:26 final size:27
Alignment explanation
Indices: 22668639--22668705 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 27
22668629 AAATTTTATC
22668639 ATTTTATTTAAATAA-ATTTATTTTTT
1 ATTTTATTTAAATAATATTTATTTTTT
* *
22668665 ATTTTACTTAAATAATTTTTATTTTTT
1 ATTTTATTTAAATAATATTTATTTTTT
22668692 ATTTATATTTAAAT
1 ATTT-TATTTAAAT
22668706 GTCTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 14 0.39
27 14 0.39
28 8 0.22
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTATTTAAATAATATTTATTTTTT
Found at i:22668712 original size:27 final size:27
Alignment explanation
Indices: 22668639--22668715 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
22668629 AAATTTTATC
* *
22668639 ATTTTATTTAAATAA-ATTTATTTTTT
1 ATTTTACTTAAATAATCTTTATTTTTT
*
22668665 ATTTTACTTAAATAATTTTTATTTTTT
1 ATTTTACTTAAATAATCTTTATTTTTT
* *
22668692 ATTTATATTTAAAT-GTCTTTATTT
1 ATTT-TACTTAAATAATCTTTATTT
22668716 CAAATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 14 0.32
27 22 0.50
28 8 0.18
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
ATTTTACTTAAATAATCTTTATTTTTT
Found at i:22668837 original size:30 final size:29
Alignment explanation
Indices: 22668793--22668863 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 29
22668783 GATATAAATT
22668793 AAAA-ATAAAAATTTATTT--G-GATAAAA
1 AAAATATAAAAATTTATTTAAGTG-TAAAA
*
22668819 AAAATA-AAAAATTTATTTAAGTGTAATA
1 AAAATATAAAAATTTATTTAAGTGTAAAA
22668847 AAAATATAAAAATTTAT
1 AAAATATAAAAATTTAT
22668864 CTAAATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 16 0.41
27 1 0.03
28 11 0.28
29 11 0.28
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATATAAAAATTTATTTAAGTGTAAAA
Found at i:22672244 original size:18 final size:18
Alignment explanation
Indices: 22672223--22672260 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22672213 TATTTAACAA
22672223 TTTT-AATTTATTATTAAT
1 TTTTAAATTT-TTATTAAT
*
22672241 TTTTAAATTTTTATTTAT
1 TTTTAAATTTTTATTAAT
22672259 TT
1 TT
22672261 AATTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTAAATTTTTATTAAT
Found at i:22672671 original size:2 final size:2
Alignment explanation
Indices: 22672664--22672691 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22672654 CATTTGTTTC
22672664 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
22672692 TTGTGATTTA
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):
AT
Found at i:22673764 original size:2 final size:2
Alignment explanation
Indices: 22673759--22673787 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22673749 AAAAAAATCA
22673759 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22673788 TTTAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22674994 original size:2 final size:2
Alignment explanation
Indices: 22674987--22675020 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22674977 AATTAAGTGT
22674987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22675021 ATGAGAACAT
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):
TA
Found at i:22680497 original size:51 final size:50
Alignment explanation
Indices: 22680442--22680814 Score: 287
Period size: 51 Copynumber: 7.5 Consensus size: 50
22680432 AAAGCTATTA
* * * * *
22680442 AGCCTTTGTTTAAATGAGCTTTTTTTCAAAATGA-ATTTTTTTAAGTTATCC
1 AGCCTTTGTTTAAAAGAG--TTTTTCCAATATGAGATTTTTTAAAGTTGTCC
* * *
22680493 AGCCTTTGTTTAAAAGAGTTTTTCCTAAGATTAGATTTTTTAAAGTTGTCA
1 AGCCTTTGTTTAAAAGAGTTTTTCC-AATATGAGATTTTTTAAAGTTGTCC
* * * *
22680544 AACCTTTGTTTAAATGAGTTTCTCCCATATGAGATTTTTTAAA-TTGT-C
1 AGCCTTTGTTTAAAAGAGTTTTTCCAATATGAGATTTTTTAAAGTTGTCC
* * *
22680592 AACCTTTGTTT-AAAGAAGCTTTTT-CTATATGAGAATTTTTAAAGTTGTCC
1 AGCCTTTGTTTAAAAG-AG-TTTTTCCAATATGAGATTTTTTAAAGTTGTCC
* * * * * *
22680642 AGCCTTTGTTTAAAAGAGTTTTTCCTAAGATTATATATTTTAAAATTGTCA
1 AGCCTTTGTTTAAAAGAGTTTTTCC-AATATGAGATTTTTTAAAGTTGTCC
* * * * *
22680693 AACCTTTGTTTAAATGAGTTTCTCCCATATGAGATTTTTTAAA-TTGTCA
1 AGCCTTTGTTTAAAAGAGTTTTTCCAATATGAGATTTTTTAAAGTTGTCC
* * * * * * *
22680742 AACCTATGTTTAAAGGAGCTTTCTT--TATATGAGAATTTTTAAAATTAGT-G
1 AGCCTTTGTTTAAAAGAG-TTT-TTCCAATATGAGATTTTTTAAAGTT-GTCC
* *
22680792 AGCCTTTATTTAAAAGAATTTTT
1 AGCCTTTGTTTAAAAGAGTTTTT
22680815 TTTAAGATAA
Statistics
Matches: 263, Mismatches: 46, Indels: 29
0.78 0.14 0.09
Matches are distributed among these distances:
47 3 0.01
48 32 0.12
49 64 0.24
50 65 0.25
51 99 0.38
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (50 bp):
AGCCTTTGTTTAAAAGAGTTTTTCCAATATGAGATTTTTTAAAGTTGTCC
Found at i:22680630 original size:49 final size:49
Alignment explanation
Indices: 22680495--22680787 Score: 257
Period size: 49 Copynumber: 5.9 Consensus size: 49
22680485 AGTTATCCAG
* *
22680495 CCTTTGTTTAAAAGAGTTT-TTCCTAAGATTAG-ATTTTTTAAAGTTGTCAAA
1 CCTTTGTTT-AAAGAGTTTCTT-CT-ATATGAGAATTTTTTAAA-TTGTCAAA
* *
22680546 CCTTTGTTTAAATGAGTTTCTCCCATATGAG-ATTTTTTAAATTGTC-AA
1 CCTTTGTTTAAA-GAGTTTCTTCTATATGAGAATTTTTTAAATTGTCAAA
* *
22680594 CCTTTGTTTAAAGAAGCTTT-TTCTATATGAGAA-TTTTTAAAGTTGTCCAG
1 CCTTTGTTTAAAG-AG-TTTCTTCTATATGAGAATTTTTTAAA-TTGTCAAA
* *
22680644 CCTTTGTTTAAAAGAGTTT-TTCCTA-A-GATTATATATTTTAAAATTGTCAAA
1 CCTTTGTTT-AAAGAGTTTCTT-CTATATGA-GA-AT-TTTTTAAATTGTCAAA
* *
22680695 CCTTTGTTTAAATGAGTTTCTCCCATATGAG-ATTTTTTAAATTGTCAAA
1 CCTTTGTTTAAA-GAGTTTCTTCTATATGAGAATTTTTTAAATTGTCAAA
* *
22680744 CCTATGTTTAAAGGAGCTTTCTT-TATATGAGAATTTTTAAAATT
1 CCTTTGTTTAAA-GAG-TTTCTTCTATATGAGAATTTTTTAAATT
22680788 AGTGAGCCTT
Statistics
Matches: 203, Mismatches: 20, Indels: 39
0.77 0.08 0.15
Matches are distributed among these distances:
47 1 0.00
48 35 0.17
49 57 0.28
50 55 0.27
51 43 0.21
52 10 0.05
53 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (49 bp):
CCTTTGTTTAAAGAGTTTCTTCTATATGAGAATTTTTTAAATTGTCAAA
Found at i:22680656 original size:149 final size:149
Alignment explanation
Indices: 22680444--22680840 Score: 541
Period size: 149 Copynumber: 2.6 Consensus size: 149
22680434 AGCTATTAAG
* * * * *
22680444 CCTTTGTTTAAATGAGCTTTTTTTCAAAATGA-ATTTTTTTAAGTTATCCAGCCTTTGTTTAAAA
1 CCTTTGTTTAAA-GAGC--TTTTTCTATATGAGAATTTTTAAAGTTGTCCAGCCTTTGTTTAAAA
22680508 GAGTTTTTCCTAAGATTAGATTTTTTAAAGTTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATA
63 GAGTTTTTCCTAAGATTAGATTTTTTAAAGTTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATA
22680573 TGAGATTTTTTAAATTGTC-AA
128 TGAGATTTTTTAAATTGTCAAA
22680594 CCTTTGTTTAAAGAAGCTTTTTCTATATGAGAATTTTTAAAGTTGTCCAGCCTTTGTTTAAAAGA
1 CCTTTGTTTAAAG-AGCTTTTTCTATATGAGAATTTTTAAAGTTGTCCAGCCTTTGTTTAAAAGA
* * *
22680659 GTTTTTCCTAAGATTATATATTTTAAAATTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATATG
65 GTTTTTCCTAAGATTAGATTTTTTAAAGTTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATATG
22680724 AGATTTTTTAAATTGTCAAA
130 AGATTTTTTAAATTGTCAAA
* * * *
22680744 CCTATGTTTAAAGGAGCTTTCTT-TATATGAGAATTTTTAAAATTAGT-GAGCCTTTATTTAAAA
1 CCTTTGTTTAAA-GAGCTTT-TTCTATATGAGAATTTTTAAAGTT-GTCCAGCCTTTGTTTAAAA
* ** * * *
22680807 GAATTTTTTTTAAGATAAGACTTTTAAAAGTTGT
63 GAGTTTTTCCTAAGATTAGATTTTTTAAAGTTGT
22680841 TGAGCCTCTA
Statistics
Matches: 220, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
148 11 0.05
149 111 0.50
150 93 0.42
151 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (149 bp):
CCTTTGTTTAAAGAGCTTTTTCTATATGAGAATTTTTAAAGTTGTCCAGCCTTTGTTTAAAAGAG
TTTTTCCTAAGATTAGATTTTTTAAAGTTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATATGA
GATTTTTTAAATTGTCAAA
Found at i:22680787 original size:50 final size:49
Alignment explanation
Indices: 22680529--22680787 Score: 258
Period size: 49 Copynumber: 5.2 Consensus size: 49
22680519 AAGATTAGAT
* * *
22680529 TTTTTAAAGTTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATATGAG-A
1 TTTTTAAAATTGTCAAACCTTTGTTTAAAGGAGTTTCT-TCATATGAGAA
* *
22680578 TTTTTTAAATTGTC-AACCTTTGTTTAAAGAAGCTTT-TTCTATATGAGAA
1 TTTTTAAAATTGTCAAACCTTTGTTTAAAGGAG-TTTCTTC-ATATGAGAA
* * * * * * *
22680627 TTTTTAAAGTTGTCCAGCCTTTGTTTAAAAGAGTTT-TTCCTAAGATTATA
1 TTTTTAAAATTGTCAAACCTTTGTTTAAAGGAGTTTCTTCATATGA-GA-A
* *
22680677 TATTTTAAAATTGTCAAACCTTTGTTTAAATGAGTTTCTCCCATATGAG-A
1 T-TTTTAAAATTGTCAAACCTTTGTTTAAAGGAGTTTCT-TCATATGAGAA
* * *
22680727 TTTTTTAAATTGTCAAACCTATGTTTAAAGGAGCTTTCTTTATATGAGAA
1 TTTTTAAAATTGTCAAACCTTTGTTTAAAGGAG-TTTCTTCATATGAGAA
22680777 TTTTTAAAATT
1 TTTTTAAAATT
22680788 AGTGAGCCTT
Statistics
Matches: 172, Mismatches: 27, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
47 1 0.01
48 28 0.16
49 71 0.41
50 35 0.20
51 31 0.18
52 1 0.01
53 5 0.03
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (49 bp):
TTTTTAAAATTGTCAAACCTTTGTTTAAAGGAGTTTCTTCATATGAGAA
Found at i:22680936 original size:16 final size:17
Alignment explanation
Indices: 22680908--22680946 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
22680898 GAAAAGAGTT
22680908 TTCAAATTTTCAAAAAA
1 TTCAAATTTTCAAAAAA
*
22680925 TTCAAA-TTTCAAAAAC
1 TTCAAATTTTCAAAAAA
22680941 TTCAAA
1 TTCAAA
22680947 AAAATCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (17 bp):
TTCAAATTTTCAAAAAA
Found at i:22682184 original size:22 final size:23
Alignment explanation
Indices: 22682127--22682186 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
22682117 TTGACAAACT
* *
22682127 AGAGAAAAAAAAGATAAAGGACAA
1 AGAGAAAAAAAA-ATAAAGAAAAA
*
22682151 AGA-ACAAGAAAAAT-AAGAAAAA
1 AGAGA-AAAAAAAATAAAGAAAAA
22682173 AGAGAAAAAAAAAT
1 AGAGAAAAAAAAAT
22682187 TAGGTTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 17 0.57
23 4 0.13
24 9 0.30
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (23 bp):
AGAGAAAAAAAAATAAAGAAAAA
Found at i:22682931 original size:14 final size:13
Alignment explanation
Indices: 22682900--22682938 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
22682890 GTGAAATGGT
22682900 AAAAA-AATTTTA
1 AAAAATAATTTTA
*
22682912 AAAAATAATGTTTC
1 AAAAATAAT-TTTA
22682926 AAAAATAATTTTA
1 AAAAATAATTTTA
22682939 GAGACTCTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 12 0.52
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:22684181 original size:27 final size:26
Alignment explanation
Indices: 22684151--22684206 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
22684141 TTTTTTAAAA
* *
22684151 TTCAAAAAATACAAAATGAAAATTATT
1 TTCAAAAAAT-CAAAATAAAAAATATT
*
22684178 TTCAAAAAATGAAAATAAAAAATATT
1 TTCAAAAAATCAAAATAAAAAATATT
22684204 TTC
1 TTC
22684207 TATAACCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (26 bp):
TTCAAAAAATCAAAATAAAAAATATT
Found at i:22685933 original size:17 final size:17
Alignment explanation
Indices: 22685903--22685936 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22685893 TCACTCCTAT
**
22685903 ATTCAAATGTATTTTAC
1 ATTCAAATAAATTTTAC
22685920 ATTCAAATAAATTTTAC
1 ATTCAAATAAATTTTAC
22685937 TATTTCAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTCAAATAAATTTTAC
Found at i:22686879 original size:16 final size:16
Alignment explanation
Indices: 22686844--22686881 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22686834 TTTGTTTTAT
* *
22686844 ATATATATATACATAT
1 ATATATATATACACAC
22686860 ATATATATATACACAC
1 ATATATATATACACAC
22686876 ATATAT
1 ATATAT
22686882 TGGTATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATATATATACACAC
Found at i:22686881 original size:2 final size:2
Alignment explanation
Indices: 22686841--22686870 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22686831 CATTTTGTTT
*
22686841 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22686871 CACACATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22697039 original size:85 final size:84
Alignment explanation
Indices: 22696888--22697048 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
22696878 TTTTAATAAT
*
22696888 AAAAAAAAACTCAACAAAGTCACTAGAAATCCAAAGGCATAAGGTCAAAAGCTTCACAACAAAGG
1 AAAAAAAAACTCAACAAAGTCACTAGAAATCCAAAGGCATAACGTCAAAAGCTTCACAACAAAGG
22696953 TTGACATTGCTTGAAAAAA
66 TTGACATTGCTTGAAAAAA
* * *
22696972 AAAAAAAAGACTCAACATAA-TCACTAG-AGTACCACAAGG-ATAACGTTAAAAGCTTCACACCA
1 AAAAAAAA-ACTCAACA-AAGTCACTAGAAAT-CCA-AAGGCATAACGTCAAAAGCTTCACAACA
*
22697034 GAGGTTGACATTGCT
62 AAGGTTGACATTGCT
22697049 CCAAGCAATG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
84 10 0.15
85 52 0.76
86 6 0.09
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (84 bp):
AAAAAAAAACTCAACAAAGTCACTAGAAATCCAAAGGCATAACGTCAAAAGCTTCACAACAAAGG
TTGACATTGCTTGAAAAAA
Found at i:22697422 original size:54 final size:56
Alignment explanation
Indices: 22697324--22697436 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 56
22697314 AGCAAATTCG
**
22697324 ATTAAGTTGAAGGCTTTGGAAGTTGTAAACATATATAAGGAAATGATATGATAAACT
1 ATTAAGTTGAAGGCTTTGG-AGTTGTAAACATATATAACCAAATGATATGATAAACT
22697381 ATTAAGTTGAAGGCTTT-G-GTTGTAAACATATATAACCAAATGATATGATAAACT
1 ATTAAGTTGAAGGCTTTGGAGTTGTAAACATATATAACCAAATGATATGATAAACT
22697435 AT
1 AT
22697437 CTCACGGCAC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
54 36 0.67
56 1 0.02
57 17 0.31
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (56 bp):
ATTAAGTTGAAGGCTTTGGAGTTGTAAACATATATAACCAAATGATATGATAAACT
Found at i:22700012 original size:86 final size:87
Alignment explanation
Indices: 22699884--22700046 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 87
22699874 TTCTAGCAAT
*
22699884 AAAAAAGCACTCAACATAGTCACTAGAGATCCAAAGGCATAAGGTCAAAAGCTTCACAACAAAGG
1 AAAAAAGCACTCAACATAATCACTAGAGATCCAAAGGCATAAGGTCAAAAGCTTCACAACAAAGG
22699949 TTGACACTGCTTGAAAAAGGAA
66 TTGACACTGCTTGAAAAAGGAA
* * * *
22699971 AAAAAAG-ACTCGACATAATCGCTAGAG-TCCCACAAGG-ATAAGGTCAAAAGCTTCACACCAGA
1 AAAAAAGCACTCAACATAATCACTAGAGAT-CCA-AAGGCATAAGGTCAAAAGCTTCACAACAAA
*
22700033 GGTTGACATTGCTT
64 GGTTGACACTGCTT
22700047 CAAGTGCTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 1 0.01
86 56 0.82
87 11 0.16
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (87 bp):
AAAAAAGCACTCAACATAATCACTAGAGATCCAAAGGCATAAGGTCAAAAGCTTCACAACAAAGG
TTGACACTGCTTGAAAAAGGAA
Found at i:22704099 original size:143 final size:143
Alignment explanation
Indices: 22703835--22704110 Score: 355
Period size: 143 Copynumber: 1.9 Consensus size: 143
22703825 CCCTTTGGAG
*
22703835 GTGCAATCAAGATTTTTAATACATCAAAGTTCATAAAATAATATTTAAATATAATCTAAAGTTTT
1 GTGCAATCAAGATTTTTAATACATCAAAATTCATAAAATAATATTTAAATATAATCTAAAGTTTT
* * *
22703900 TCACAAACAACCAACTCCAAAAAGATCAAATTACGAAAGTACTCCTAAAGGATATTTTAGTAATT
66 TCACAAACAACCAACCCCAAAAAGATCAAATGACGAAAATACTCCTAAAGGATATTTTAGTAATT
22703965 TCACTTTTTTGAA
131 TCACTTTTTTGAA
** * * **
22703978 GTGCAATCAAGATTTTTAATACATCAAAATTCATGCAATAATATTTAACA-ATGATTTGGAGTTT
1 GTGCAATCAAGATTTTTAATACATCAAAATTCATAAAATAATATTTAA-ATATAATCTAAAGTTT
* *
22704042 TTCACGAAA-AACCAACCCCAAAAAGA-CCAATGGACGAAAATGA-TCCTAAAAGG-TATTTTTG
65 TTCAC-AAACAACCAACCCCAAAAAGATCAAAT-GACGAAAAT-ACTCCT-AAAGGATATTTTAG
*
22704103 TAGTTTCA
126 TAATTTCA
22704111 GCCTTCTTCA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
142 4 0.03
143 101 0.88
144 10 0.09
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (143 bp):
GTGCAATCAAGATTTTTAATACATCAAAATTCATAAAATAATATTTAAATATAATCTAAAGTTTT
TCACAAACAACCAACCCCAAAAAGATCAAATGACGAAAATACTCCTAAAGGATATTTTAGTAATT
TCACTTTTTTGAA
Found at i:22704646 original size:14 final size:14
Alignment explanation
Indices: 22704627--22704654 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22704617 TAAAGCTTAC
22704627 GACTCTATTGGAGG
1 GACTCTATTGGAGG
22704641 GACTCTATTGGAGG
1 GACTCTATTGGAGG
22704655 TCTCGAGGTC
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:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (14 bp):
GACTCTATTGGAGG
Found at i:22706594 original size:28 final size:25
Alignment explanation
Indices: 22706521--22706584 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
22706511 ATCAACTATT
*
22706521 AAAC-AAAAAAA-AA-AACAAAACA
1 AAACAAAAAAAATAAGAAAAAAACA
*
22706543 AAACAAGAAAAGATAAGAAAAAAACA
1 AAACAA-AAAAAATAAGAAAAAAACA
22706569 CAAACAAAAAAAATAA
1 -AAACAAAAAAAATAA
22706585 TTAATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 5 0.15
25 2 0.06
26 16 0.47
27 6 0.18
ACGTcount: A:0.81, C:0.11, G:0.05, T:0.03
Consensus pattern (25 bp):
AAACAAAAAAAATAAGAAAAAAACA
Found at i:22706596 original size:32 final size:29
Alignment explanation
Indices: 22706527--22706613 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 29
22706517 TATTAAACAA
*
22706527 AAAAAAAAACA-AAACAAAACAAGAAAAGAT
1 AAAAAAAAACACAAACAAAA-AA-AAAAAAT
* *
22706557 AAGAAAAAAACACAAACAAAAAAAATAATT
1 AA-AAAAAAACACAAACAAAAAAAAAAAAT
* * * *
22706587 AATAAAAAA-ATAAACAAAGAAACAAAA
1 AAAAAAAAACACAAACAAAAAAAAAAAA
22706614 GGGGTCGGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 13 0.28
29 6 0.13
30 8 0.17
31 11 0.24
32 8 0.17
ACGTcount: A:0.79, C:0.09, G:0.05, T:0.07
Consensus pattern (29 bp):
AAAAAAAAACACAAACAAAAAAAAAAAAT
Found at i:22707864 original size:57 final size:57
Alignment explanation
Indices: 22707666--22707995 Score: 412
Period size: 57 Copynumber: 5.7 Consensus size: 57
22707656 TTTTACGCAG
* * * * * **
22707666 GAAAAATTGATACTTTCAATTTTTTCTCAAAAATATTCTTTTGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATT-TTTAGAAAATTTATTTTTAA
* * * * **
22707724 GAAAAATTGATGCTTTCAA-TTTTTCCCCAAAAATCTTTTTTGAAAAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTT-CCCAAAAAT-ATTTTT--AGAAAA-TTTATTTTTAA
*
22707785 GAAAAATTGATACTTTCAACTTTTTCCCAAAAACATTTTTAGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAAATTTATTTTTAA
* *
22707842 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAAATTTATTTTTAA
* *
22707899 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTAGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAAATTTATTTTTAA
*
22707956 GAAAAAATGATACTTTCAAC-TTTTCCCTAAAAATATTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTT
22707996 TTGGATTTTA
Statistics
Matches: 244, Mismatches: 21, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
56 6 0.02
57 152 0.62
58 34 0.14
59 2 0.01
60 8 0.03
61 37 0.15
62 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAAATTTATTTTTAA
Found at i:22708056 original size:20 final size:19
Alignment explanation
Indices: 22708013--22708116 Score: 76
Period size: 17 Copynumber: 5.6 Consensus size: 19
22708003 TTATTTAAGG
* * *
22708013 AAAATAAAATAATAA-AAC
1 AAAATAAAAGAAAAATAAA
22708031 AAAATAAAAGAGAAAATAAA
1 AAAATAAAAGA-AAAATAAA
*
22708051 AAAAT-AAGGAAAAATAAAA
1 AAAATAAAAGAAAAAT-AAA
*
22708070 AAAAGTAAAACAAAAAT--A
1 AAAA-TAAAAGAAAAATAAA
* *
22708088 AAAATAAAATAAAGAT--A
1 AAAATAAAAGAAAAATAAA
22708105 AAAATAAAAGAA
1 AAAATAAAAGAA
22708117 TATTAAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
17 22 0.31
18 20 0.28
19 14 0.19
20 8 0.11
21 8 0.11
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAAAGAAAAATAAA
Found at i:22708139 original size:6 final size:6
Alignment explanation
Indices: 22708013--22708113 Score: 56
Period size: 6 Copynumber: 17.5 Consensus size: 6
22708003 TTATTTAAGG
* **
22708013 AAAAT- AAAATA ATAAA-A CAAAATA AAAGA-G AAAATA AAAA-A ATAAGGA
1 AAAATA AAAATA A-AAATA -AAAATA AAA-ATA AAAATA AAAATA A-AAATA
* * *
22708061 AAAAT- AAAA-A AAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
22708105 AAAATA AAA
1 AAAATA AAA
22708114 GAATATTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 23
0.68 0.10 0.21
Matches are distributed among these distances:
5 23 0.32
6 42 0.58
7 8 0.11
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:22708145 original size:27 final size:27
Alignment explanation
Indices: 22708083--22708151 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
22708073 AGTAAAACAA
* * *
22708083 AAATAAAAATAAAATAAAGATAAAAAT
1 AAATAAATATTAAATAAACATAAAAAT
*
22708110 AAA-AGAATATTAAATAAACCTAAAAAT
1 AAATA-AATATTAAATAAACATAAAAAT
22708137 AAATAAATATATAAA
1 AAATAAATAT-TAAA
22708152 ATATATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.03
27 29 0.83
28 5 0.14
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (27 bp):
AAATAAATATTAAATAAACATAAAAAT
Found at i:22708176 original size:13 final size:12
Alignment explanation
Indices: 22708158--22708187 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
22708148 TAAAATATAT
22708158 AAAAAGAGAAAAA
1 AAAAAGA-AAAAA
22708171 AAAAAGAAAAAA
1 AAAAAGAAAAAA
22708183 AAAAA
1 AAAAA
22708188 CCTGGAGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:22709515 original size:13 final size:14
Alignment explanation
Indices: 22709497--22709525 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22709487 GGCTTTTTTA
22709497 AATTTTTTTA-TTT
1 AATTTTTTTACTTT
22709510 AATTTTTTTACTTT
1 AATTTTTTTACTTT
22709524 AA
1 AA
22709526 CCATTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
AATTTTTTTACTTT
Found at i:22709633 original size:14 final size:14
Alignment explanation
Indices: 22709610--22709649 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22709600 TTTTTATAAT
*
22709610 AACAATAATAAATA
1 AACAAAAATAAATA
22709624 AACAAAAATAAATA
1 AACAAAAATAAATA
**
22709638 ATGAAAAATAAA
1 AACAAAAATAAA
22709650 GTTTACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (14 bp):
AACAAAAATAAATA
Found at i:22709735 original size:3 final size:3
Alignment explanation
Indices: 22709707--22709784 Score: 104
Period size: 3 Copynumber: 25.3 Consensus size: 3
22709697 CCTTGTAAAG
* *
22709707 TAA T-A TAA TAAA TAA CTAA AAGA TAA TAA TAA TAA TAA TAC TAA TAA
1 TAA TAA TAA T-AA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
22709754 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
22709785 GGTTTCTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 57 0.85
4 8 0.12
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:22709865 original size:21 final size:22
Alignment explanation
Indices: 22709818--22709858 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22709808 TTAAATTTGA
22709818 AAAAATAATAGGAAAAATAACC
1 AAAAATAATAGGAAAAATAACC
*
22709840 AAAAATAATA-TAAAAATAA
1 AAAAATAATAGGAAAAATAA
22709859 TGAAAAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAATAATAGGAAAAATAACC
Found at i:22709865 original size:22 final size:23
Alignment explanation
Indices: 22709815--22709865 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22709805 ATTTTAAATT
22709815 TGAAAAAATAATAGGAAAAATAA
1 TGAAAAAATAATAGGAAAAATAA
** *
22709838 -CCAAAAATAATA-TAAAAATAA
1 TGAAAAAATAATAGGAAAAATAA
22709859 TGAAAAA
1 TGAAAAA
22709866 GTGTAAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.18
Consensus pattern (23 bp):
TGAAAAAATAATAGGAAAAATAA
Found at i:22710314 original size:14 final size:14
Alignment explanation
Indices: 22710288--22710327 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
22710278 ATTTTTCTCA
*
22710288 AACAAAACA-AAAT
1 AACAAAAAATAAAT
22710301 AACAAAAAATAAAT
1 AACAAAAAATAAAT
*
22710315 AATAAAAAATAAA
1 AACAAAAAATAAA
22710328 GAAACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (14 bp):
AACAAAAAATAAAT
Found at i:22710904 original size:20 final size:20
Alignment explanation
Indices: 22710879--22710917 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22710869 TTCACATTCA
*
22710879 ATTTTTTATATTT-TTTTTTC
1 ATTTTTCAT-TTTATTTTTTC
22710899 ATTTTTCATTTTATTTTTT
1 ATTTTTCATTTTATTTTTT
22710918 TGTATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTTTCATTTTATTTTTTC
Found at i:22711697 original size:205 final size:203
Alignment explanation
Indices: 22711313--22711715 Score: 605
Period size: 205 Copynumber: 2.0 Consensus size: 203
22711303 ATGTTAAAAA
* *
22711313 AAACAAAATGAAAAAACAAAAAATCTCAAAAAATAATTTCCTAATCCTAAACCACATCATCACAC
1 AAACAAAATGAAAAAAAAAAAAATCTCAAAAAATAATTTCCTAATCCCAAACCACATCATCACAC
*
22711378 TAACTTAATTTTGTTTTCTTTTTCATTTTACATAAATCATATCATACAGTTCCACATTGAGGTAT
66 TAACTTAATTTTGTTTTCTTTATCATTTTACATAAATCATATCATACAGTTCCACATTGAGGTAT
* * *
22711443 TTGCTTTAAGACATCTTTTTTTTGAAAAGTTTTTCATGGATCCTGTAGAACTACAGATTTGGTCA
131 TTGCTTTAAGACATCTTTTTTTTGAAAAATTTTTCAT-GATCATGTAGAACTACAGATTTGCTCA
22711508 TCAACAAAC
195 TCAACAAAC
* * *
22711517 AAACAAGATGAAAAAATAAAAAAATCTC-AAAAATAATTTTTCTAATCCCAAACCACATTATCAC
1 AAACAAAATGAAAAAA-AAAAAAATCTCAAAAAATAA-TTTCCTAATCCCAAACCACATCATCAC
* *
22711581 ACTAACTTAATTTTGTTTTCTTTATCCTTTTACATAAATCATATCATACAGTTTCACATTGAGGT
64 ACTAACTTAATTTTGTTTTCTTTATCATTTTACATAAATCATATCATACAGTTCCACATTGAGGT
* * *
22711646 ATTTGCTTTAGGACAT-TTTTCTTTTGAGAAAATTTTCTTAT-ATCATGTAGAACTATAGATTTG
129 ATTTGCTTTAAGACATCTTTT-TTTTGA-AAAATTTT-TCATGATCATGTAGAACTACAGATTTG
22711709 CTCATCA
191 CTCATCA
22711716 TCCGTAAATG
Statistics
Matches: 180, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
204 27 0.15
205 143 0.79
206 7 0.04
207 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (203 bp):
AAACAAAATGAAAAAAAAAAAAATCTCAAAAAATAATTTCCTAATCCCAAACCACATCATCACAC
TAACTTAATTTTGTTTTCTTTATCATTTTACATAAATCATATCATACAGTTCCACATTGAGGTAT
TTGCTTTAAGACATCTTTTTTTTGAAAAATTTTTCATGATCATGTAGAACTACAGATTTGCTCAT
CAACAAAC
Found at i:22719093 original size:8 final size:8
Alignment explanation
Indices: 22719067--22719101 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
22719057 TTATTTTTTA
22719067 ATATAAAT
1 ATATAAAT
22719075 ATA-AAATT
1 ATATAAA-T
22719083 ATATAAAT
1 ATATAAAT
22719091 ATATAAAT
1 ATATAAAT
22719099 ATA
1 ATA
22719102 ATTAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 19 0.76
9 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAAAT
Found at i:22722681 original size:50 final size:51
Alignment explanation
Indices: 22722623--22723105 Score: 306
Period size: 50 Copynumber: 9.5 Consensus size: 51
22722613 AAATAAATAA
* * *
22722623 TTTTAAAATTATTGAACC-CTACTTAGAGGAGCTTTTTTCAATATGAGAAT
1 TTTTAAAATTGTTGAACCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
** * * *
22722673 TTTTAAAATTGATTGAAATTTTGCTTAAAGGAG-TCTTTTTCAATATGAGAA-
1 TTTTAAAATTG-TTGAACCTCTGCTTAGAGGAGCT-TTTTTCAAGATGAGAAT
* * * * *
22722724 TTTTAAAATCGTT-AAGCCTTTGCTTATAAGAGCTTTCTTCAAGATGAGAA-
1 TTTTAAAATTGTTGAA-CCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
* ** * * * * *
22722774 TTTTAAAAGTCGTT-ATGGCTCTGTTTTGAGGAACTTTTTTCAATATGAAAAT
1 TTTTAAAA-TTGTTGA-ACCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
* * * * * *
22722826 TTTTAAAGTCGTT-AAGCCTCTGCTTAGAGGAGTTTTTTTTCAAGATAATAGT
1 TTTTAAAATTGTTGAA-CCTCTGCTTAGAGGAG-CTTTTTTCAAGATGAGAAT
** * * *
22722878 TTTTAAAATTGTT-AAGCCTCTAATTAGATGAACTTTTTTCAAGATAAGAA-
1 TTTTAAAATTGTTGAA-CCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
* ** * * * * *
22722928 TTTTAAAGTCATTGAGCCTTTGCTTAGAGAAGCCTTGTTCAAGATGAGAAT
1 TTTTAAAATTGTTGAACCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
* * ** * * *
22722979 TTTTAAAGTTATTGAGTCTCTACTTAGAGGAGC-TTTCTCAAGA-GAGAAG
1 TTTTAAAATTGTTGAACCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
* * * * * *
22723028 TTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAG-ATTTTTCAATATGATAAT
1 TTTTAAAATTGTTGAACCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
* * *
22723078 TTTTAAAGTTGTTGAGCCTCTACTTAGA
1 TTTTAAAATTGTTGAACCTCTGCTTAGA
22723106 TGAGTCATTT
Statistics
Matches: 345, Mismatches: 74, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
49 43 0.12
50 120 0.35
51 109 0.32
52 73 0.21
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (51 bp):
TTTTAAAATTGTTGAACCTCTGCTTAGAGGAGCTTTTTTCAAGATGAGAAT
Found at i:22722712 original size:52 final size:49
Alignment explanation
Indices: 22722651--22722851 Score: 156
Period size: 51 Copynumber: 3.9 Consensus size: 49
22722641 CTACTTAGAG
* *
22722651 GAGCTTTTTTCAATATGAGAATTTTTAAAATTGATTGAA-ATTTTGCTTA-AA
1 GAGC-TTTTTCAATATGAGAA-TTTTAAAATCG-TT-AAGACTTTGCTTATAA
*
22722702 GGAGTCTTTTTCAATATGAGAATTTTAAAATCGTTAAGCCTTTGCTTATAA
1 -GAG-CTTTTTCAATATGAGAATTTTAAAATCGTTAAGACTTTGCTTATAA
* * * * * *
22722753 GAGCTTTCTTCAAGATGAGAATTTTAAAAGTCGTTATGGCTCTG-TTTTGAG
1 GAGCTTT-TTCAATATGAGAATTTTAAAA-TCGTTAAGACTTTGCTTAT-AA
* * * * *
22722804 GAACTTTTTTCAATATGAAAATTTTTAAAGTCGTTAAGCCTCTGCTTA
1 GAGC-TTTTTCAATATGAGAA-TTTTAAAATCGTTAAGACTTTGCTTA
22722852 GAGGAGTTTT
Statistics
Matches: 124, Mismatches: 16, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
49 6 0.05
50 36 0.29
51 50 0.40
52 31 0.25
53 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (49 bp):
GAGCTTTTTCAATATGAGAATTTTAAAATCGTTAAGACTTTGCTTATAA
Found at i:22722838 original size:102 final size:100
Alignment explanation
Indices: 22722708--22723105 Score: 302
Period size: 102 Copynumber: 3.9 Consensus size: 100
22722698 TAAAGGAGTC
* *
22722708 TTTTTCAATATGAGAATTTTAAAATCGTTAAGCCTTTGCTTATAAGAGCTTTCTTCAAGATGAGA
1 TTTTTCAATATGAAAATTTTAAAGTCGTTAAGCCTTTGCTTA-AAGAGCTTTCTTCAAGATGAGA
* * ** *
22722773 ATTTTAAAAGTCGTTATGGCTCTGTTTTGAGGAACT
65 ATTTTAAAAGTCGTTAAGCCTCTAATTAGAGGAACT
* * * * *
22722809 TTTTTCAATATGAAAATTTTTAAAGTCGTTAAGCCTCTGCTTAGAGGAGTTTTTTTTCAAGATAA
1 TTTTTCAATATGAAAA-TTTTAAAGTCGTTAAGCCTTTGCTTA-AAGAG-CTTTCTTCAAGATGA
* * * *
22722874 TAGTTTTTAAAA-TTGTTAAGCCTCTAATTAGATGAACT
63 GA-ATTTTAAAAGTCGTTAAGCCTCTAATTAGAGGAACT
* * * * * *
22722912 TTTTTCAAGAT-AAGAATTTTAAAGTCATTGAGCCTTTGCTTAGAGAAGCCTTGTTCAAGATGAG
1 TTTTTCAATATGAA-AATTTTAAAGTCGTTAAGCCTTTGCTTAAAG-AGCTTTCTTCAAGATGAG
* ** * * * *
22722976 AATTTTTAAAGTTATTGAGTCTCTACTTAGAGGAGC-
64 AATTTTAAAAGTCGTTAAGCCTCTAATTAGAGGAACT
* * * * * * * * *
22723012 TTTCTCAAGA-GAGAAGTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGATTT-TTCAATATGAT
1 TTTTTCAATATGA-AAATTTTAAAGTCGTTAAGCCTTTGCTTA-AAGAGCTTTCTTCAAGATGAG
* * * *
22723075 AATTTTTAAAGTTGTTGAGCCTCTACTTAGA
64 AATTTTAAAAGTCGTTAAGCCTCTAATTAGA
22723106 TGAGTCATTT
Statistics
Matches: 240, Mismatches: 48, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
99 38 0.16
100 45 0.19
101 50 0.21
102 55 0.23
103 44 0.18
104 8 0.03
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (100 bp):
TTTTTCAATATGAAAATTTTAAAGTCGTTAAGCCTTTGCTTAAAGAGCTTTCTTCAAGATGAGAA
TTTTAAAAGTCGTTAAGCCTCTAATTAGAGGAACT
Found at i:22723865 original size:3 final size:3
Alignment explanation
Indices: 22723857--22723908 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
22723847 TTTAAGCTTT
*
22723857 TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22723904 TTA TT
1 TTA TT
22723909 TATACATGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22724540 original size:3 final size:3
Alignment explanation
Indices: 22724534--22724588 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
22724524 CATCATCATC
22724534 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22724581 ATT -TT ATT
1 ATT ATT ATT
22724589 TTTAATTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:22725446 original size:15 final size:15
Alignment explanation
Indices: 22725404--22725462 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
22725394 ATAGATTCTC
22725404 TTATTTATTTTCTATT
1 TTATTTATTTT-TATT
*
22725420 TCATTTCA-TTTTATT
1 TTATTT-ATTTTTATT
22725435 TGT-TTTATTTTTATT
1 T-TATTTATTTTTATT
22725450 TTATTTATTTTTA
1 TTATTTATTTTTA
22725463 GATTTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 2 0.05
15 26 0.70
16 8 0.22
17 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (15 bp):
TTATTTATTTTTATT
Found at i:22725542 original size:3 final size:3
Alignment explanation
Indices: 22725536--22725589 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
22725526 TTTTTTTCTA
* *
22725536 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAG ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
22725585 AAT AA
1 AAT AA
22725590 AAATGTTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22735170 original size:64 final size:64
Alignment explanation
Indices: 22735069--22735419 Score: 275
Period size: 65 Copynumber: 5.4 Consensus size: 64
22735059 CTAGGCTTGG
* * * **
22735069 TTCAAATCATTTTATTTTTCTT-AC-CTGCGATTCGATCCTCGT-TCCTATTTCAATCTTGGCTC
1 TTCAAATCATTTTATTTTT-TTGACTC-GCGATTTGATCC-AGTCACCTATTTCAATCTCAGCTC
*
22735131 AA
63 GA
* * * * **
22735133 TTCATATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCACCTATTTCGATCTTGGCTCGA
1 TTCAAATCATTTTATTTTTTTGACTCGCGATTTGAT-CCAGTCACCTATTTCAATCTCAGCTCGA
* ** *
22735198 TCCAAAT-ATTTTATTTTTTTGACTCTTGATTTGATCGCAGTCACCTATTTCAATCTCAACTCG-
1 TTCAAATCATTTTATTTTTTTGACTCGCGATTTGATC-CAGTCACCTATTTCAATCTCAGCTCGA
* * * **
22735261 TTCTAGATCATTTTATTTTTTTGACTCG-TAGTTTAATCCTAGTCACCTATTTTGATCTCAGCTC
1 TTC-AAATCATTTTATTTTTTTGACTCGCGA-TTTGATCC-AGTCACCTATTTCAATCTCAGCTC
*
22735325 GG
63 GA
* * * * * *
22735327 TTCAGATCATTTTATTTTTTTGACTCGCGATTCGATCCCGATCACTTGTTTCGATCTC-GACTCG
1 TTCAAATCATTTTATTTTTTTGACTCGCGATTTGATCCAG-TCACCTATTTCAATCTCAG-CTCG
22735391 A
64 A
* ** *
22735392 TCCTGATAATTTTATTTTTTTGACTCGC
1 TTCAAATCATTTTATTTTTTTGACTCGC
22735420 AGTTCAATCT
Statistics
Matches: 237, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
63 5 0.02
64 82 0.35
65 146 0.62
66 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (64 bp):
TTCAAATCATTTTATTTTTTTGACTCGCGATTTGATCCAGTCACCTATTTCAATCTCAGCTCGA
Found at i:22735191 original size:65 final size:65
Alignment explanation
Indices: 22735112--22735453 Score: 328
Period size: 65 Copynumber: 5.3 Consensus size: 65
22735102 GATCCTCGTT
* * * *
22735112 CCTATTTCAATCTTGGCTCAATTCATATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCA
1 CCTATTTCGATCTCGGCTCGATTCAGATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCA
* * * ** * * *
22735177 CCTATTTCGATCTTGGCTCGATCCAAAT-ATTTTATTTTTTTGACTCTTGATTTGATCGCAGTCA
1 CCTATTTCGATCTCGGCTCGATTCAGATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCA
* ** ** * * *
22735241 CCTATTTCAATCTCAACTCG-TTCTAGATCATTTTATTTTTTTGACTCGTAGTTTAATCCTAGTC
1 CCTATTTCGATCTCGGCTCGATTC-AGATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATC
22735305 A
65 A
* * * * * *
22735306 CCTATTTTGATCTCAGCTCGGTTCAGATCATTTTATTTTTTTGACTCGCGATTCGATCCCGATCA
1 CCTATTTCGATCTCGGCTCGATTCAGATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCA
* * * * * * * ** *
22735371 CTTGTTTCGATCTCGACTCGATCCTGATAATTTTATTTTTTTGACTCGCAGTTCAATCTCAATCA
1 CCTATTTCGATCTCGGCTCGATTCAGATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCA
*
22735436 CCTATTTTGATCTCGGCT
1 CCTATTTCGATCTCGGCT
22735454 TAGGCTAGAT
Statistics
Matches: 224, Mismatches: 50, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
63 2 0.01
64 50 0.22
65 169 0.75
66 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (65 bp):
CCTATTTCGATCTCGGCTCGATTCAGATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCA
Found at i:22735245 original size:129 final size:129
Alignment explanation
Indices: 22735071--22735453 Score: 384
Period size: 130 Copynumber: 3.0 Consensus size: 129
22735061 AGGCTTGGTT
* * * *
22735071 CAAATCATTTTATTTTTCTT-AC-CTGCGATTCGATCCTCG-T-TCCTATTTCAATCTTGGCTCA
1 CAAATCATTTTATTTTT-TTGACTC-GCGATTCGATCC-AGATCACCTATTTCAATCTCGACTC-
* * * *
22735132 ATTCATATCATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCACCTATTTCGATCTTGGCTCG
62 ATTCATATCATTTTATTTTTTTGACTCGCAGTTTAATCCCAATCACCTATTTTGATCTCGGCTCG
22735197 ATC
127 ATC
** * * *
22735200 CAAAT-ATTTTATTTTTTTGACTCTTGATTTGATCGCAG-TCACCTATTTCAATCTCAACTCGTT
1 CAAATCATTTTATTTTTTTGACTCGCGATTCGATC-CAGATCACCTATTTCAATCTCGACTCATT
* * * * * *
22735263 CTAGATCATTTTATTTTTTTGACTCGTAGTTTAATCCTAGTCACCTATTTTGATCTCAGCTCGGT
65 C-ATATCATTTTATTTTTTTGACTCGCAGTTTAATCCCAATCACCTATTTTGATCTCGGCTCGAT
*
22735328 T
129 C
* * * * *
22735329 CAGATCATTTTATTTTTTTGACTCGCGATTCGATCCCGATCACTTGTTTCGATCTCGACTCGA-T
1 CAAATCATTTTATTTTTTTGACTCGCGATTCGATCCAGATCACCTATTTCAATCTCGACTC-ATT
* * * *
22735393 CCTGATAATTTTATTTTTTTGACTCGCAGTTCAATCTCAATCACCTATTTTGATCTCGGCT
65 CAT-ATCATTTTATTTTTTTGACTCGCAGTTTAATCCCAATCACCTATTTTGATCTCGGCT
22735454 TAGGCTAGAT
Statistics
Matches: 206, Mismatches: 39, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
127 2 0.01
128 26 0.13
129 82 0.40
130 96 0.47
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.44
Consensus pattern (129 bp):
CAAATCATTTTATTTTTTTGACTCGCGATTCGATCCAGATCACCTATTTCAATCTCGACTCATTC
ATATCATTTTATTTTTTTGACTCGCAGTTTAATCCCAATCACCTATTTTGATCTCGGCTCGATC
Found at i:22735417 original size:130 final size:129
Alignment explanation
Indices: 22735141--22735492 Score: 372
Period size: 130 Copynumber: 2.7 Consensus size: 129
22735131 AATTCATATC
* * * * * * * *
22735141 ATTTTATTTTTTTGACTCGCGGTTTGATCCCAATCACCTATTTCGATCTTGGCTCGATCCAAATA
1 ATTTTATTTTTTTGACTCGCAGTTTAATCCTAATCACCTATTTTGATCTCGGCTCGGTTCAGATA
** * * * *
22735206 TTTTATTTTTTTGACTCTTGATTTGATCGCAGTCACCTATTTCAATCTCAACTCGTTCTAGATC
66 TTTTATTTTTTTGACTCGCGATTCGATCCCAGTCACCTATTTCAATCTCAACTCGTCCTAGATA
* * *
22735270 ATTTTATTTTTTTGACTCGTAGTTTAATCCTAGTCACCTATTTTGATCTCAGCTCGGTTCAGATC
1 ATTTTATTTTTTTGACTCGCAGTTTAATCCTAATCACCTATTTTGATCTCGGCTCGGTTCAGAT-
* * * *
22735335 ATTTTATTTTTTTGACTCGCGATTCGATCCC-GATCACTTGTTTCGATCTCGACTCGATCCT-GA
65 ATTTTATTTTTTTGACTCGCGATTCGATCCCAG-TCACCTATTTCAATCTCAACTCG-TCCTAGA
22735398 TA
128 TA
* * *
22735400 ATTTTATTTTTTTGACTCGCAGTTCAAT-CTCAATCACCTATTTTGATCTCGGCTTAGGCT-AGA
1 ATTTTATTTTTTTGACTCGCAGTTTAATCCT-AATCACCTATTTTGATCTCGGC-TCGGTTCAGA
* * *
22735463 TTATTTTATTTTTCTAAC-CGCGACTCGATC
64 -TATTTTATTTTTTTGACTCGCGATTCGATC
22735493 TCGGTCACAT
Statistics
Matches: 187, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
129 67 0.36
130 112 0.60
131 8 0.04
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (129 bp):
ATTTTATTTTTTTGACTCGCAGTTTAATCCTAATCACCTATTTTGATCTCGGCTCGGTTCAGATA
TTTTATTTTTTTGACTCGCGATTCGATCCCAGTCACCTATTTCAATCTCAACTCGTCCTAGATA
Found at i:22735469 original size:65 final size:64
Alignment explanation
Indices: 22735263--22735475 Score: 198
Period size: 65 Copynumber: 3.3 Consensus size: 64
22735253 TCAACTCGTT
* * * * *
22735263 CTAGATCATTTTATTTTTTTGACTCGTAGTTTAATCCTAGTCACCTATTTTGATCTCAGC-TCGG
1 CTAGATCATTTTATTTTTTTGACTCGCAGTTCAATCC-AATCACCTATTTTGATCTCGGCTTAGG
* * * * * * * *
22735327 TTCAGATCATTTTATTTTTTTGACTCGC-GATTCGATCCCGATCACTTGTTTCGATCTCGACTCG
1 CT-AGATCATTTTATTTTTTTGACTCGCAG-TTCAAT-CCAATCACCTATTTTGATCTCGGCT-T
**
22735391 ATC
62 AGG
*
22735394 CT-GATAATTTTATTTTTTTGACTCGCAGTTCAATCTCAATCACCTATTTTGATCTCGGCTTAGG
1 CTAGATCATTTTATTTTTTTGACTCGCAGTTCAATC-CAATCACCTATTTTGATCTCGGCTTAGG
*
22735458 CTAGATTATTTTATTTTT
1 CTAGATCATTTTATTTTT
22735476 CTAACCGCGA
Statistics
Matches: 114, Mismatches: 27, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
64 6 0.05
65 104 0.91
66 3 0.03
67 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.46
Consensus pattern (64 bp):
CTAGATCATTTTATTTTTTTGACTCGCAGTTCAATCCAATCACCTATTTTGATCTCGGCTTAGG
Found at i:22736688 original size:25 final size:24
Alignment explanation
Indices: 22736623--22736692 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
22736613 TTTTTATGTA
**
22736623 TTTTATTTTTATAAATTTTCTTAT
1 TTTTATTTTTATTTATTTTCTTAT
*
22736647 TTTT-TTATTTCATTTTATTTGTGTTAT
1 TTTTATT-TTT-A-TTTATTT-TCTTAT
22736674 TTTTATTTTTATTTATTTT
1 TTTTATTTTTATTTATTTT
22736693 TAGATTCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
23 2 0.05
24 8 0.21
25 8 0.21
26 6 0.16
27 12 0.32
28 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTATTTATTTTCTTAT
Found at i:22736692 original size:15 final size:15
Alignment explanation
Indices: 22736612--22736694 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
22736602 TTCCATTTAC
*
22736612 ATTTTTATGTATTTT
1 ATTTTTATTTATTTT
**
22736627 ATTTTTATAAATTTT
1 ATTTTTATTTATTTT
* * *
22736642 CTTATTTTTTTATTTC
1 ATT-TTTATTTATTTT
* *
22736658 A-TTTTATTTGTGTT
1 ATTTTTATTTATTTT
*
22736672 ATTTTTATTTTTATTT
1 ATTTTTATTTAT-TTT
22736688 ATTTTTA
1 ATTTTTA
22736695 GATTCTTTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
14 9 0.18
15 25 0.49
16 17 0.33
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
ATTTTTATTTATTTT
Found at i:22738076 original size:18 final size:18
Alignment explanation
Indices: 22738045--22738079 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22738035 AATAAAATGG
22738045 AATAACAAAAAAAGAAAT
1 AATAACAAAAAAAGAAAT
22738063 AATAA-AAAATAAAGAAA
1 AATAACAAAA-AAAGAAA
22738080 CAAAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (18 bp):
AATAACAAAAAAAGAAAT
Found at i:22738496 original size:14 final size:15
Alignment explanation
Indices: 22738473--22738509 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
22738463 CTAATCAACT
22738473 CATT-ACAAAT-TTA
1 CATTGACAAATGTTA
*
22738486 CATTGACAAATGTTT
1 CATTGACAAATGTTA
22738501 CATTGACAA
1 CATTGACAA
22738510 TGAAGATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.19
14 6 0.29
15 11 0.52
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (15 bp):
CATTGACAAATGTTA
Found at i:22739576 original size:2 final size:2
Alignment explanation
Indices: 22739569--22739611 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
22739559 TCCATAAGTA
* * *
22739569 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AG AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22739611 A
1 A
22739612 AATTTGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:22741284 original size:142 final size:142
Alignment explanation
Indices: 22740979--22741285 Score: 320
Period size: 143 Copynumber: 2.2 Consensus size: 142
22740969 GATTTCTCCA
** * * *
22740979 TAAATATTATTTTATAAATTTTAATGTTTTAAAAATCTTGATTGCACTTAAAAATTATGAAATTA
1 TAAATATTATTTTATAAATTTTAATGCATTAAAAATCTTGATTGCACTCAAAAATAATAAAATTA
* * * * **
22741044 CTAAAATACCTTTTAAAAGATATTTTTATAATTTGACCTTTTGGGGTCAGTTTTTTGTGAAACAT
66 CTAAAATA-CTTTTAAAAGACATTTTTATAATTTGACCTTTTAGGGTCAATTTTATGAAAAACAT
* *
22741109 TCTAGATTATATT
130 TCTAGATCATAAT
* * *
22741122 TAAATATTATTTCATGAATTTTAATGCATTAAAGATCTTGATTGCACCTCAAAAA-AAGTAAAAT
1 TAAATATTATTTTATAAATTTTAATGCATTAAAAATCTTGATTGCA-CTCAAAAATAA-TAAAAT
** * * *
22741186 TACTAAAATA-TTTTTTATGACATTTTTGTAATTTG-GCTTTCTCAGGGTCAATTTTCAT-AAAA
64 TACTAAAATACTTTTAAAAGACATTTTTATAATTTGACCTTT-T-AGGGTCAATTTT-ATGAAAA
22741248 AGC-TT-TAGATCATAAT
126 A-CATTCTAGATCATAAT
22741264 TAAATATTATTTTATAAATTTT
1 TAAATATTATTTTATAAATTTT
22741286 GGTCCATTAA
Statistics
Matches: 135, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
141 4 0.03
142 50 0.37
143 57 0.42
144 24 0.18
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (142 bp):
TAAATATTATTTTATAAATTTTAATGCATTAAAAATCTTGATTGCACTCAAAAATAATAAAATTA
CTAAAATACTTTTAAAAGACATTTTTATAATTTGACCTTTTAGGGTCAATTTTATGAAAAACATT
CTAGATCATAAT
Found at i:22742742 original size:20 final size:20
Alignment explanation
Indices: 22742581--22742748 Score: 130
Period size: 20 Copynumber: 8.5 Consensus size: 20
22742571 AAACCTAGCT
* * *
22742581 TAAACCCTAAAAT-GAACCT
1 TAAACCCTAAAGTCAAACCC
22742600 TAAACCC-AAAGTCAAACCC
1 TAAACCCTAAAGTCAAACCC
* *
22742619 TAAAACCCCAAAGTTAAACCC
1 T-AAACCCTAAAGTCAAACCC
* *
22742640 TAAACCTTAAAGTCAAATCC
1 TAAACCCTAAAGTCAAACCC
* * *
22742660 TAAATCCTCAAGTCAAACCT
1 TAAACCCTAAAGTCAAACCC
*
22742680 TAAAACCC-AAAATC-AACCAC
1 T-AAACCCTAAAGTCAAACC-C
* * *
22742700 TAAACCCTAGA-CCAAACTC
1 TAAACCCTAAAGTCAAACCC
* *
22742719 TAAACCCTAAAGTCAAAACA
1 TAAACCCTAAAGTCAAACCC
22742739 TAAACCCTAA
1 TAAACCCTAA
22742749 CCTTAGCCAA
Statistics
Matches: 116, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
18 4 0.03
19 34 0.29
20 61 0.53
21 17 0.15
ACGTcount: A:0.48, C:0.31, G:0.04, T:0.17
Consensus pattern (20 bp):
TAAACCCTAAAGTCAAACCC
Found at i:22742763 original size:18 final size:18
Alignment explanation
Indices: 22742740--22742784 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
22742730 GTCAAAACAT
* *
22742740 AAACCCTAACCTTAGCCA
1 AAACCCTAAACTTACCCA
*
22742758 AAACCCTAAACTTACCCT
1 AAACCCTAAACTTACCCA
22742776 AAACCCTAA
1 AAACCCTAA
22742785 TCCTAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.18
Consensus pattern (18 bp):
AAACCCTAAACTTACCCA
Found at i:22742888 original size:18 final size:17
Alignment explanation
Indices: 22742863--22742906 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
22742853 TCCAAACCTT
22742863 AACCTTAACCTACATCA
1 AACCTTAACCTACATCA
* *
22742880 AAGCCTTAAACTTACCTCA
1 AA-CCTT-AACCTACATCA
22742899 AACCTTAA
1 AACCTTAA
22742907 ATCTCACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.25
Consensus pattern (17 bp):
AACCTTAACCTACATCA
Found at i:22742907 original size:18 final size:18
Alignment explanation
Indices: 22742863--22742907 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
22742853 TCCAAACCTT
22742863 AACCTT-AACCTACATCA
1 AACCTTAAACCTACATCA
* *
22742880 AAGCCTTAAACTTACCTCA
1 AA-CCTTAAACCTACATCA
22742899 AACCTTAAA
1 AACCTTAAA
22742908 TCTCACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 11 0.46
19 11 0.46
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.24
Consensus pattern (18 bp):
AACCTTAAACCTACATCA
Done.