Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 40 of 133
Found at i:8860975 original size:42 final size:42
Alignment explanation
Indices: 8860929--8861082 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 42
8860919 GTATATAGCT
8860929 CAACATCACCAGCATATAGCCCAACTTCTCCATCATACAGCC
1 CAACATCACCAGCATATAGCCCAACTTCTCCATCATACAGCC
* * * * * *
8860971 CAACATC-CCCGTCATACAGCCCGACATCTCCTTCCTACAGCC
1 CAACATCACCAG-CATATAGCCCAACTTCTCCATCATACAGCC
* ** * * * *
8861013 CAACCTCACCCTCCTATAGCCCTACGTCTCCCTCATACAGCC
1 CAACATCACCAGCATATAGCCCAACTTCTCCATCATACAGCC
* * * *
8861055 CTACTTCACCAGCTTATAGCCCCACTTC
1 CAACATCACCAGCATATAGCCCAACTTC
8861083 CTGGCTATAG
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.03
42 83 0.93
43 3 0.03
ACGTcount: A:0.25, C:0.45, G:0.08, T:0.21
Consensus pattern (42 bp):
CAACATCACCAGCATATAGCCCAACTTCTCCATCATACAGCC
Found at i:8860998 original size:63 final size:63
Alignment explanation
Indices: 8860931--8861082 Score: 144
Period size: 63 Copynumber: 2.4 Consensus size: 63
8860921 ATATAGCTCA
*
8860931 ACATCACCAGCATATAGCCCAACTTCTCCATCATACAGCCCAACATC-CCCGTCATACAGCCCG
1 ACATCACCAGCATATAGCCCAACTTCACCATCATACAGCCCAACATCTCCC-TCATACAGCCCG
* ** * * * * * * * * *
8860994 ACATCTCCTTCCTACAGCCCAACCTCACCCTCCTATAGCCCTACGTCTCCCTCATACAGCCCT
1 ACATCACCAGCATATAGCCCAACTTCACCATCATACAGCCCAACATCTCCCTCATACAGCCCG
* * *
8861057 ACTTCACCAGCTTATAGCCCCACTTC
1 ACATCACCAGCATATAGCCCAACTTC
8861083 CTGGCTATAG
Statistics
Matches: 67, Mismatches: 21, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
63 64 0.96
64 3 0.04
ACGTcount: A:0.25, C:0.45, G:0.08, T:0.22
Consensus pattern (63 bp):
ACATCACCAGCATATAGCCCAACTTCACCATCATACAGCCCAACATCTCCCTCATACAGCCCG
Found at i:8861058 original size:21 final size:21
Alignment explanation
Indices: 8860941--8861055 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
8860931 ACATCACCAG
* * *
8860941 CATATAGCCCAACTTCTCCAT
1 CATACAGCCCAACATCTCCCT
8860962 CATACAGCCCAACATC-CCCGT
1 CATACAGCCCAACATCTCCC-T
* *
8860983 CATACAGCCCGACATCTCCTT
1 CATACAGCCCAACATCTCCCT
* * *
8861004 CCTACAGCCCAACCTCACCCT
1 CATACAGCCCAACATCTCCCT
* * * *
8861025 CCTATAGCCCTACGTCTCCCT
1 CATACAGCCCAACATCTCCCT
8861046 CATACAGCCC
1 CATACAGCCC
8861056 TACTTCACCA
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 2 0.03
21 72 0.95
22 2 0.03
ACGTcount: A:0.24, C:0.47, G:0.08, T:0.21
Consensus pattern (21 bp):
CATACAGCCCAACATCTCCCT
Found at i:8861124 original size:21 final size:21
Alignment explanation
Indices: 8861091--8861179 Score: 58
Period size: 21 Copynumber: 4.2 Consensus size: 21
8861081 TCCTGGCTAT
* *
8861091 AGTCCAACCTCACCAAGTTAC
1 AGTCCCACATCACCAAGTTAC
* *
8861112 AGTCCCACATCACCAAGCTAT
1 AGTCCCACATCACCAAGTTAC
* * *
8861133 AG-CCCTACCTCTCCAAGTTAT
1 AGTCCC-ACATCACCAAGTTAC
*
8861154 A-ACCCACAGTCAGCCAAG-TAC
1 AGTCCCACA-TCA-CCAAGTTAC
8861175 AGTCC
1 AGTCC
8861180 ATCTCTGGCA
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
20 5 0.10
21 40 0.77
22 7 0.13
ACGTcount: A:0.31, C:0.38, G:0.11, T:0.19
Consensus pattern (21 bp):
AGTCCCACATCACCAAGTTAC
Found at i:8863039 original size:28 final size:27
Alignment explanation
Indices: 8863003--8863066 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
8862993 GTTATTAAAT
*
8863003 TATTTTATTT-TTTAATTAAACATTTTA
1 TATTTTATTTATTTAAATAAA-ATTTTA
8863030 TAATTTTATTTATTTAAATAAAATTTTA
1 T-ATTTTATTTATTTAAATAAAATTTTA
*
8863058 TGTTTTATT
1 TATTTTATT
8863067 CATATCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 8 0.24
28 16 0.48
29 9 0.27
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTTATTTATTTAAATAAAATTTTA
Found at i:8863076 original size:29 final size:29
Alignment explanation
Indices: 8863004--8863076 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 29
8862994 TTATTAAATT
* *
8863004 ATTTTATTT-TTTAATTAAACATTTTATA
1 ATTTTATTTATCTAAATAAACATTTTATA
*
8863032 ATTTTATTTATTTAAATAAA-ATTTTAT-
1 ATTTTATTTATCTAAATAAACATTTTATA
*
8863059 GTTTTATTCATATCTAAA
1 ATTTTATT--TATCTAAA
8863077 ACGTTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.18
28 16 0.41
29 16 0.41
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTTATTTATCTAAATAAACATTTTATA
Found at i:8863191 original size:29 final size:28
Alignment explanation
Indices: 8863131--8863209 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
8863121 ATTTAGGTAT
8863131 TAATTAAAAGTTAAATG-TTTATTCAGACA
1 TAATTAAAA-TTAAA-GATTTATTCAGACA
** *
8863160 TAAATTAAAATTAAAGATTTATTTGGATA
1 T-AATTAAAATTAAAGATTTATTCAGACA
*
8863189 TAA-TAAAATATATAGATTTAT
1 TAATTAAAAT-TAAAGATTTAT
8863210 CTAACTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 6 0.14
28 13 0.30
29 16 0.37
30 8 0.19
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.41
Consensus pattern (28 bp):
TAATTAAAATTAAAGATTTATTCAGACA
Found at i:8863486 original size:23 final size:23
Alignment explanation
Indices: 8863460--8863505 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8863450 GGAGAAACTG
8863460 GTGAACGGAGGAACAAGAATGTC
1 GTGAACGGAGGAACAAGAATGTC
8863483 GTGAACGGAGGAACAAGAATGTC
1 GTGAACGGAGGAACAAGAATGTC
8863506 CTGGCCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.35, T:0.13
Consensus pattern (23 bp):
GTGAACGGAGGAACAAGAATGTC
Found at i:8865463 original size:2 final size:2
Alignment explanation
Indices: 8865456--8865485 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8865446 AGCCATTTTC
8865456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8865486 GTATTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8865513 original size:2 final size:2
Alignment explanation
Indices: 8865506--8865530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8865496 TAAGATTGCG
8865506 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
8865531 CCATTTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8872723 original size:23 final size:21
Alignment explanation
Indices: 8872642--8872723 Score: 51
Period size: 23 Copynumber: 3.7 Consensus size: 21
8872632 TTGGATTTAA
*
8872642 TTTATTAATTTTTAAAATAAAAT
1 TTTATTAAATTTT-AAAT-AAAT
*
8872665 TATATTAAA-TTTAAATAAAT
1 TTTATTAAATTTTAAATAAAT
* *
8872685 TATT-TGATCAAGTTTAAATCAAAT
1 T-TTAT--TAAATTTTAAAT-AAAT
8872709 TTTATTATAATTTTA
1 TTTATTA-AATTTTA
8872724 TTAAAAGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
22 7 0.15
23 22 0.48
24 6 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTATTAAATTTTAAATAAAT
Found at i:8887055 original size:15 final size:15
Alignment explanation
Indices: 8887035--8887074 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8887025 TGAGGTGAAA
8887035 GATATATTTGAGGAT
1 GATATATTTGAGGAT
*
8887050 GATATATTTGAGGGT
1 GATATATTTGAGGAT
*
8887065 GATACATTTG
1 GATATATTTG
8887075 TGGTAGGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.40
Consensus pattern (15 bp):
GATATATTTGAGGAT
Found at i:8887092 original size:18 final size:18
Alignment explanation
Indices: 8887060--8887111 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
8887050 GATATATTTG
8887060 AGGGTGATACATTTGTGGT
1 AGGG-GATACATTTGTGGT
*
8887079 AGGGGATGCATTTGTGGT
1 AGGGGATACATTTGTGGT
8887097 AGGGGATACATTTGT
1 AGGGGATACATTTGT
8887112 AGTAAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 27 0.87
19 4 0.13
ACGTcount: A:0.21, C:0.06, G:0.38, T:0.35
Consensus pattern (18 bp):
AGGGGATACATTTGTGGT
Found at i:8891644 original size:18 final size:19
Alignment explanation
Indices: 8891618--8891660 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8891608 CCTTCCATAA
*
8891618 TTTTCTTCTTCTC-TCTTT
1 TTTTTTTCTTCTCATCTTT
*
8891636 TTTTTTTCTTTTCATCTTT
1 TTTTTTTCTTCTCATCTTT
8891655 TATTTT
1 T-TTTT
8891661 CTCTCGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTTCTCATCTTT
Found at i:8896456 original size:16 final size:15
Alignment explanation
Indices: 8896437--8896661 Score: 91
Period size: 15 Copynumber: 15.3 Consensus size: 15
8896427 TAAGTAATAT
8896437 TATATTAATATTATAA
1 TATATTAATA-TATAA
*
8896453 TATATTAATAAATAA
1 TATATTAATATATAA
* *
8896468 TATACTATTAATATAA
1 TATATTAAT-ATATAA
* * *
8896484 TATGTTAATAAATCA
1 TATATTAATATATAA
* *
8896499 TAT-TATAATCTGTTAA
1 TATAT-TAATAT-ATAA
*
8896515 TA-AATAATAT-T--
1 TATATTAATATATAA
*
8896526 T-TATTAATAAATAAA
1 TATATTAATATAT-AA
* * *
8896541 TAAAATTAAGAAATAA
1 T-ATATTAATATATAA
*
8896557 TATATTAATAAAAATTAA
1 TATATTAAT--ATA-TAA
8896575 TATATTAAT-TAATAA
1 TATATTAATAT-ATAA
8896590 -ATATT-ATA-ATAA
1 TATATTAATATATAA
*
8896602 TATATTAATAAATAA
1 TATATTAATATATAA
*
8896617 TATATTATTA-ATAA
1 TATATTAATATATAA
*
8896631 -ATAAT-AT-TATAA
1 TATATTAATATATAA
* *
8896643 AATATTAATAAATAA
1 TATATTAATATATAA
8896658 TATA
1 TATA
8896662 AATAATAATA
Statistics
Matches: 158, Mismatches: 28, Indels: 47
0.68 0.12 0.20
Matches are distributed among these distances:
11 7 0.04
12 10 0.06
13 16 0.10
14 15 0.09
15 57 0.36
16 29 0.18
17 12 0.08
18 12 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (15 bp):
TATATTAATATATAA
Found at i:8896468 original size:23 final size:23
Alignment explanation
Indices: 8896442--8896675 Score: 150
Period size: 23 Copynumber: 10.1 Consensus size: 23
8896432 AATATTATAT
8896442 TAATATTATAATATATTAATAAA
1 TAATATTATAATATATTAATAAA
8896465 TAATATACTATTAATATAATATGTTAATAAA
1 TAATAT--TA-T-A-AT-ATA--TTAATAAA
* * *
8896496 TCATATTATAATCTGTTAATAAA
1 TAATATTATAATATATTAATAAA
* *
8896519 TAATATTTTATTAATAAATAAATAAAA
1 TAATA--TTA-TAATATATTAAT-AAA
* *
8896546 TTAAGA-AATAATATATTAATAAA
1 -TAATATTATAATATATTAATAAA
* *
8896569 -AATTAATATATTA-ATTAATAAA
1 TAA-TATTATAATATATTAATAAA
* *
8896591 TATTATAATAATATATTAATAAA
1 TAATATTATAATATATTAATAAA
8896614 T-A-A-TAT-AT-TATTAATAAA
1 TAATATTATAATATATTAATAAA
*
8896632 TAATATTATAAAATATTAATAAA
1 TAATATTATAATATATTAATAAA
8896655 TAATA-TA-AATA-A-TAATAAA
1 TAATATTATAATATATTAATAAA
8896674 TA
1 TA
8896676 GTTTTATTTT
Statistics
Matches: 166, Mismatches: 23, Indels: 48
0.70 0.10 0.20
Matches are distributed among these distances:
18 11 0.07
19 12 0.07
20 4 0.02
21 9 0.05
22 20 0.12
23 52 0.31
24 10 0.06
25 7 0.04
26 11 0.07
27 5 0.03
28 7 0.04
29 5 0.03
31 13 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (23 bp):
TAATATTATAATATATTAATAAA
Found at i:8896478 original size:18 final size:18
Alignment explanation
Indices: 8896455--8896675 Score: 146
Period size: 18 Copynumber: 11.7 Consensus size: 18
8896445 TATTATAATA
*
8896455 TATTAATAAATAATATAC
1 TATTAATAAATAATATAT
*
8896473 TATTAAT--ATAATATGT
1 TATTAATAAATAATATAT
* * *
8896489 TAATAA-ATCATATTATAAT
1 TATTAATA-AATAATAT-AT
* *
8896508 CTGTTAATAAATAATATTT
1 -TATTAATAAATAATATAT
*
8896527 TATTAATAAATAA-ATAA
1 TATTAATAAATAATATAT
* *
8896544 AATTAAGAAATAATATAT
1 TATTAATAAATAATATAT
*
8896562 TAATAA-AAATTAATATAT
1 TATTAATAAA-TAATATAT
8896580 TAATTAATAAATATTATAATAAT
1 T-ATTAATAAATA--AT-AT-AT
8896603 ATATTAATAAATAATATAT
1 -TATTAATAAATAATATAT
8896622 TATTAATAAATAATATTAT
1 TATTAATAAATAATA-TAT
*
8896641 AAAATATTAATAAATAATATAAA
1 ----TATTAATAAATAATAT-AT
*
8896664 TAATAATAAATA
1 TATTAATAAATA
8896676 GTTTTATTTT
Statistics
Matches: 161, Mismatches: 21, Indels: 41
0.72 0.09 0.18
Matches are distributed among these distances:
16 12 0.07
17 16 0.10
18 56 0.35
19 24 0.15
20 15 0.09
21 5 0.03
22 3 0.02
23 29 0.18
24 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
TATTAATAAATAATATAT
Found at i:8896557 original size:35 final size:34
Alignment explanation
Indices: 8896511--8896675 Score: 87
Period size: 35 Copynumber: 4.9 Consensus size: 34
8896501 TTATAATCTG
* * *
8896511 TTAATAAATAATATTTTATTAATAAATAAATAAAA
1 TTAAGAAATAATATATTAATAA-AAATAAATAAAA
* *
8896546 TTAAGAAATAATATATTAATAAAAATTAAT-ATA
1 TTAAGAAATAATATATTAATAAAAATAAATAAAA
** * * *
8896579 TTAATTAATAA-ATATT-ATAATAATATAT-TAA
1 TTAAGAAATAATATATTAATAAAAATAAATAAAA
*
8896610 -TAA-ATAAT-ATATTATTAATAAATAATATTATAAAATA
1 TTAAGA-AATAATA-TATTAATAAA-AATA-AAT-AAA-A
* *
8896647 TTAATAAATAATATA--AATAATAATAAATA
1 TTAAGAAATAATATATTAATAAAAATAAATA
8896676 GTTTTATTTT
Statistics
Matches: 101, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
29 1 0.01
30 7 0.07
31 14 0.14
32 9 0.09
33 16 0.16
34 12 0.12
35 23 0.23
36 6 0.06
37 1 0.01
38 8 0.08
39 4 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (34 bp):
TTAAGAAATAATATATTAATAAAAATAAATAAAA
Found at i:8896565 original size:8 final size:8
Alignment explanation
Indices: 8896554--8896623 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
8896544 AATTAAGAAA
8896554 TAATATAT
1 TAATATAT
*
8896562 TAATAAAAAT
1 TAAT--ATAT
8896572 TAATATAT
1 TAATATAT
*
8896580 TAAT-TAA
1 TAATATAT
8896587 TAA-ATAT
1 TAATATAT
8896594 T-ATA-A-
1 TAATATAT
8896599 TAATATAT
1 TAATATAT
*
8896607 TAATA-AA
1 TAATATAT
8896614 TAATATAT
1 TAATATAT
8896622 TA
1 TA
8896624 TTAATAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
5 1 0.02
6 5 0.10
7 16 0.33
8 19 0.40
10 7 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAATATAT
Found at i:8896609 original size:45 final size:43
Alignment explanation
Indices: 8896552--8896675 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 43
8896542 AAAATTAAGA
*
8896552 AATAATATATTAATAAAAATTAATATATTAATTAATAAATATTAT
1 AATAATATATTAATAAAAA-TAATATATT-ATTAATAAATAATAT
8896597 AATAATATATTAAT--AAATAATATATTATTAATAAATAATAT
1 AATAATATATTAATAAAAATAATATATTATTAATAAATAATAT
* * * *
8896638 TATAAAATATTAAT--AAATAATATAAATAATAATAAATA
1 AATAATATATTAATAAAAATAATAT-ATTATTAATAAATA
8896676 GTTTTATTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
41 35 0.48
42 21 0.29
43 3 0.04
45 14 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (43 bp):
AATAATATATTAATAAAAATAATATATTATTAATAAATAATAT
Found at i:8896719 original size:19 final size:18
Alignment explanation
Indices: 8896692--8896779 Score: 60
Period size: 19 Copynumber: 4.9 Consensus size: 18
8896682 TTTTAATTAT
*
8896692 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
*
8896711 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* *
8896729 TTATTAA-AATATAATTAT-
1 TT-TTAATATTA-AATAATA
8896747 TTTTGAATATT-AAT-A-A
1 TTTT-AATATTAAATAATA
*
8896763 TTTTAATAATAAATAAT
1 TTTTAATATTAAATAAT
8896780 TTCAATATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
15 5 0.09
16 8 0.15
17 6 0.11
18 14 0.26
19 21 0.39
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:8900451 original size:2 final size:2
Alignment explanation
Indices: 8900444--8900478 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8900434 TTACTCGAGA
8900444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8900479 GATTGATAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8902456 original size:3 final size:3
Alignment explanation
Indices: 8902448--8902523 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
8902438 GTTTTGGCAT
8902448 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8902496 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8902524 CTTTATATTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8903853 original size:34 final size:33
Alignment explanation
Indices: 8903815--8903880 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
8903805 TTTTTAAAAA
*
8903815 ATAAATGCATGATATGTATGAATAT-AATAAAATG
1 ATAAATGCATGACA-GTAT-AATATGAATAAAATG
*
8903849 ATAAATGTATGACAGTATAATATGAATAAAAT
1 ATAAATGCATGACAGTATAATATGAATAAAAT
8903881 ATGACTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.17
33 12 0.41
34 12 0.41
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.32
Consensus pattern (33 bp):
ATAAATGCATGACAGTATAATATGAATAAAATG
Found at i:8904018 original size:7 final size:7
Alignment explanation
Indices: 8903994--8904148 Score: 80
Period size: 7 Copynumber: 23.4 Consensus size: 7
8903984 GGTTAGGGTT
8903994 TTTAGGG
1 TTTAGGG
**
8904001 TTTACAG
1 TTTAGGG
8904008 -TTAGGG
1 TTTAGGG
8904014 TTTAGGG
1 TTTAGGG
*
8904021 TTT-TGG
1 TTTAGGG
*
8904027 TTTAGGA
1 TTTAGGG
8904034 TTTAGGG
1 TTTAGGG
*
8904041 -CTAGGG
1 TTTAGGG
*
8904047 TTTAAGG
1 TTTAGGG
*
8904054 TTCT--GT
1 TT-TAGGG
8904060 TTTA-GG
1 TTTAGGG
8904066 TTTAGGG
1 TTTAGGG
*
8904073 -TTAGAG
1 TTTAGGG
8904079 TTTAGGG
1 TTTAGGG
***
8904086 TTTAAAA
1 TTTAGGG
*
8904093 TTT-GGA
1 TTTAGGG
8904099 TTTAGGG
1 TTTAGGG
*
8904106 TTTAAGG
1 TTTAGGG
8904113 TTTAGGG
1 TTTAGGG
*
8904120 TTT-GGAT
1 TTTAGG-G
*
8904127 TTTA--A
1 TTTAGGG
8904132 TTTAGGG
1 TTTAGGG
8904139 TTTAGGG
1 TTTAGGG
8904146 TTT
1 TTT
8904149 GGATTTGGAT
Statistics
Matches: 110, Mismatches: 26, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
5 5 0.05
6 33 0.30
7 71 0.65
8 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:8904065 original size:20 final size:19
Alignment explanation
Indices: 8904042--8904115 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
8904032 GATTTAGGGC
*
8904042 TAGGGTTTAAGGTTCTGTTT
1 TAGGGTTTAAGGTT-TGATT
* *
8904062 TA-GGTTTAGGGTTAGAGTT
1 TAGGGTTTAAGGTTTGA-TT
**
8904081 TAGGGTTTAAAATTTGGATT
1 TAGGGTTTAAGGTTT-GATT
8904101 TAGGGTTTAAGGTTT
1 TAGGGTTTAAGGTTT
8904116 AGGGTTTGGA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
18 1 0.02
19 14 0.33
20 25 0.60
21 2 0.05
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (19 bp):
TAGGGTTTAAGGTTTGATT
Found at i:8904103 original size:27 final size:28
Alignment explanation
Indices: 8904073--8904142 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
8904063 AGGTTTAGGG
8904073 TTAGAGTTTAGGGTTTAAAATTTGGA-T
1 TTAGAGTTTAGGGTTTAAAATTTGGATT
* * ***
8904100 TTAGGGTTTAAGGTTTAGGGTTTGGATT
1 TTAGAGTTTAGGGTTTAAAATTTGGATT
8904128 TTA-A-TTTAGGGTTTA
1 TTAGAGTTTAGGGTTTA
8904143 GGGTTTGGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 10 0.29
27 21 0.60
28 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (28 bp):
TTAGAGTTTAGGGTTTAAAATTTGGATT
Found at i:8904160 original size:26 final size:26
Alignment explanation
Indices: 8904079--8904167 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
8904069 AGGGTTAGAG
*** *
8904079 TTTAGGGTTTAAAATTTGGATTTAGGG
1 TTTAGGGTTTAGGGTTTGGATTT-GGA
* **
8904106 TTTAAGGTTTAGGGTTTGGATTTTAA
1 TTTAGGGTTTAGGGTTTGGATTTGGA
8904132 TTTAGGGTTTAGGGTTTGGATTTGGA
1 TTTAGGGTTTAGGGTTTGGATTTGGA
*
8904158 TTTGGGGTTT
1 TTTAGGGTTT
8904168 CAGTTTGGGA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 32 0.63
27 19 0.37
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (26 bp):
TTTAGGGTTTAGGGTTTGGATTTGGA
Found at i:8906995 original size:46 final size:47
Alignment explanation
Indices: 8906862--8907128 Score: 274
Period size: 47 Copynumber: 5.7 Consensus size: 47
8906852 TTCCTATGAA
* * * * *
8906862 ATCAAACTTTAAAAAATCTATCTAGAAAAGGACTTCTACAAAATAAGC
1 ATCAAACTTTAAAAAATCTGTCTGGAAAAAG-CTCCTATAAAATAAGC
* * *
8906910 ATCAAACTTTTAAAAAATTTTGTTTGGAAAAGGCTCCTATAAAATAAGC
1 ATCAAAC-TTTAAAAAA-TCTGTCTGGAAAAAGCTCCTATAAAATAAGC
* *
8906959 ATCAAACTTT-AAAAATCTGTTTGGAAAAAGCTCCTATATAAT-AGAC
1 ATCAAACTTTAAAAAATCTGTCTGGAAAAAGCTCCTATAAAATAAG-C
* *
8907005 ATCAAACTTTAAAAAATCTATCT-GAAAAAGGCTCCTATAAAATAGGC
1 ATCAAACTTTAAAAAATCTGTCTGGAAAAA-GCTCCTATAAAATAAGC
* * * *
8907052 A-CAAAACTTTATATAATCTGTCTGGAAAAAGCTTCTATAAAATAGGC
1 ATC-AAACTTTAAAAAATCTGTCTGGAAAAAGCTCCTATAAAATAAGC
* * *
8907099 TTCAAACTTTAAAAAATTTGTAT-GAAAAAG
1 ATCAAACTTTAAAAAATCTGTCTGGAAAAAG
8907129 GTTGATTTTT
Statistics
Matches: 188, Mismatches: 22, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 49 0.26
47 78 0.41
48 18 0.10
49 30 0.16
50 11 0.06
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (47 bp):
ATCAAACTTTAAAAAATCTGTCTGGAAAAAGCTCCTATAAAATAAGC
Found at i:8907090 original size:94 final size:93
Alignment explanation
Indices: 8906862--8907129 Score: 315
Period size: 94 Copynumber: 2.8 Consensus size: 93
8906852 TTCCTATGAA
* * * *
8906862 ATCAAACTTTAAAAAATCTATCTAGAAAAGGACTTCTACAAAATA-AGCATCAAACTTTTAAAAA
1 ATCAAACTTT-AAAAATCTGTCTGGAAAAAG-CTTCTATAAAATAGA-CATCAAAC-TTTAAAAA
* *
8906926 ATTTTGTTTGGAAAAGGCTCCTATAAAATAAGC
62 A-TTTGTATGAAAAAGGCTCCTATAAAATAAGC
* * * *
8906959 ATCAAACTTTAAAAATCTGTTTGGAAAAAGCTCCTATATAATAGACATCAAACTTTAAAAAATCT
1 ATCAAACTTTAAAAATCTGTCTGGAAAAAGCTTCTATAAAATAGACATCAAACTTTAAAAAATTT
* * *
8907024 ATCTGAAAAAGGCTCCTATAAAATAGGC
66 GTATGAAAAAGGCTCCTATAAAATAAGC
* * *
8907052 A-CAAAACTTTATATAATCTGTCTGGAAAAAGCTTCTATAAAATAGGCTTCAAACTTTAAAAAAT
1 ATC-AAACTTTA-AAAATCTGTCTGGAAAAAGCTTCTATAAAATAGACATCAAACTTTAAAAAAT
8907116 TTGTATGAAAAAGG
64 TTGTATGAAAAAGG
8907130 TTGATTTTTC
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.01
93 35 0.24
94 66 0.45
95 18 0.12
96 17 0.12
97 10 0.07
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (93 bp):
ATCAAACTTTAAAAATCTGTCTGGAAAAAGCTTCTATAAAATAGACATCAAACTTTAAAAAATTT
GTATGAAAAAGGCTCCTATAAAATAAGC
Found at i:8909609 original size:19 final size:19
Alignment explanation
Indices: 8909585--8909629 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
8909575 AAAAGATATC
* *
8909585 AACATAGCTCTAATTCCAT
1 AACATAGCTCCAATGCCAT
*
8909604 AACATAGCTCCAATGCCTT
1 AACATAGCTCCAATGCCAT
8909623 AACATAG
1 AACATAG
8909630 ATCCTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (19 bp):
AACATAGCTCCAATGCCAT
Found at i:8913108 original size:23 final size:23
Alignment explanation
Indices: 8913082--8913142 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
8913072 AAGATTTTTA
8913082 TTTTTTCAATTTTT-TTCATTCAT
1 TTTTTTCAATTTTTGTT-ATTCAT
* * *
8913105 TTTTTTTAGTTTTTGTTTTTCAT
1 TTTTTTCAATTTTTGTTATTCAT
8913128 TTTTTT--ATTTTTGTT
1 TTTTTTCAATTTTTGTT
8913143 TTTGTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.24
23 23 0.70
24 2 0.06
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTTCAATTTTTGTTATTCAT
Found at i:8913123 original size:27 final size:27
Alignment explanation
Indices: 8913093--8913163 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
8913083 TTTTTCAATT
8913093 TTTTTCATTCATTTT-TTTTAGTTTTTG
1 TTTTTCATT-ATTTTATTTTAGTTTTTG
* *
8913120 TTTTTCATTTTTTTATTTTTGTTTTTG
1 TTTTTCATTATTTTATTTTAGTTTTTG
*
8913147 TTTTTCATT-TTTCATTT
1 TTTTTCATTATTTTATTT
8913164 CTAATGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 11 0.28
27 29 0.73
ACGTcount: A:0.10, C:0.07, G:0.06, T:0.77
Consensus pattern (27 bp):
TTTTTCATTATTTTATTTTAGTTTTTG
Found at i:8913130 original size:21 final size:21
Alignment explanation
Indices: 8913100--8913145 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
8913090 ATTTTTTTCA
8913100 TTCATTTTTTTTAGTTTTTGTTT
1 TTCA-TTTTTTTA-TTTTTGTTT
8913123 TTCATTTTTTTATTTTTGTTT
1 TTCATTTTTTTATTTTTGTTT
8913144 TT
1 TT
8913146 GTTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 8 0.35
23 4 0.17
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (21 bp):
TTCATTTTTTTATTTTTGTTT
Found at i:8913151 original size:21 final size:22
Alignment explanation
Indices: 8913104--8913151 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
8913094 TTTTCATTCA
8913104 TTTTTTTTAGTTTTTGTTTTTC
1 TTTTTTTTAGTTTTTGTTTTTC
* *
8913126 ATTTTTTTA-TTTTTGTTTTTG
1 TTTTTTTTAGTTTTTGTTTTTC
8913147 TTTTT
1 TTTTT
8913152 CATTTTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.83
Consensus pattern (22 bp):
TTTTTTTTAGTTTTTGTTTTTC
Found at i:8913697 original size:25 final size:26
Alignment explanation
Indices: 8913678--8913829 Score: 169
Period size: 25 Copynumber: 6.1 Consensus size: 26
8913668 AATATATAAT
*
8913678 AAATGACATAATTAAAATAT-GAATG
1 AAATGACATAATTAAAATATAGCATG
*
8913703 AAATGACATAATTAAAATAT-GTATG
1 AAATGACATAATTAAAATATAGCATG
**
8913728 AAATGACA-AATTTGCAATA-AGCATG
1 AAATGACATAA-TTAAAATATAGCATG
**
8913753 AAATGACAT-ATTTCAATATA-CATG
1 AAATGACATAATTAAAATATAGCATG
8913777 AAATGACATAATTAAAATAT-GCATG
1 AAATGACATAATTAAAATATAGCATG
8913802 AAAT-ATCATAATTAAAATAT-GCATG
1 AAATGA-CATAATTAAAATATAGCATG
8913827 AAA
1 AAA
8913830 CGTAAAACAC
Statistics
Matches: 113, Mismatches: 7, Indels: 14
0.84 0.05 0.10
Matches are distributed among these distances:
24 23 0.20
25 90 0.80
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (26 bp):
AAATGACATAATTAAAATATAGCATG
Found at i:8913826 original size:74 final size:75
Alignment explanation
Indices: 8913678--8913829 Score: 195
Period size: 74 Copynumber: 2.0 Consensus size: 75
8913668 AATATATAAT
* **
8913678 AAATGACATAATTAAAATATGAATGAAATGACATAATTAAAATATGTATGAAATGACAAATTTGC
1 AAATGACATAATTAAAATATGAATGAAATGACATAATTAAAATATGCATGAAATGACAAATTTAA
8913743 AATAAGCATG
66 AATAAGCATG
**
8913753 AAATGACAT-ATTTCAATAT-ACATGAAATGACATAATTAAAATATGCATGAAAT-ATCATAA-T
1 AAATGACATAATTAAAATATGA-ATGAAATGACATAATTAAAATATGCATGAAATGA-CA-AATT
*
8913814 TAAAATATGCATG
63 TAAAATAAGCATG
8913827 AAA
1 AAA
8913830 CGTAAAACAC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
73 2 0.03
74 55 0.81
75 11 0.16
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (75 bp):
AAATGACATAATTAAAATATGAATGAAATGACATAATTAAAATATGCATGAAATGACAAATTTAA
AATAAGCATG
Found at i:8914523 original size:43 final size:48
Alignment explanation
Indices: 8914435--8914525 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 48
8914425 TTCTTTCCTT
*
8914435 TTTTTTTGAAACAAGAAATAAATCAAATTTAAAACAAAACTTTTTTTC
1 TTTTTTTGAAACAAGAAATAAATAAAATTTAAAACAAAACTTTTTTTC
*
8914483 TTTTTTT-AAAC-A-AAA-AAATAAAATTTAAAACACAACTTTTTTT
1 TTTTTTTGAAACAAGAAATAAATAAAATTTAAAACAAAACTTTTTTT
8914526 TTAATTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 26 0.63
45 3 0.07
46 1 0.02
47 4 0.10
48 7 0.17
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (48 bp):
TTTTTTTGAAACAAGAAATAAATAAAATTTAAAACAAAACTTTTTTTC
Found at i:8914942 original size:7 final size:7
Alignment explanation
Indices: 8914932--8915081 Score: 70
Period size: 7 Copynumber: 22.7 Consensus size: 7
8914922 CTTGGGGGTT
8914932 GGTTTAG
1 GGTTTAG
8914939 GGTTTA-
1 GGTTTAG
*
8914945 -GCTTAG
1 GGTTTAG
8914951 GG-TTACG
1 GGTTTA-G
* *
8914958 GTTTTTAT
1 G-GTTTAG
8914966 GGTTTAG
1 GGTTTAG
8914973 GG-TTAG
1 GGTTTAG
*
8914979 GTTTTAG
1 GGTTTAG
*
8914986 AG-TTAG
1 GGTTTAG
8914992 GGTTTAG
1 GGTTTAG
8914999 GG-TTA-
1 GGTTTAG
**
8915004 GGTTTTT
1 GGTTTAG
*
8915011 TGTTTA-
1 GGTTTAG
8915017 GGTTTAG
1 GGTTTAG
8915024 GG-TTAG
1 GGTTTAG
*
8915030 AGTTTA-
1 GGTTTAG
*
8915036 GGTTTAC
1 GGTTTAG
*
8915043 GATTTAG
1 GGTTTAG
* *
8915050 GATTTAT
1 GGTTTAG
8915057 GG-TTAG
1 GGTTTAG
8915063 GGTTTAG
1 GGTTTAG
**
8915070 AATTTAG
1 GGTTTAG
8915077 GGTTT
1 GGTTT
8915082 GAGATTTAGG
Statistics
Matches: 106, Mismatches: 24, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
5 6 0.06
6 38 0.36
7 58 0.55
8 1 0.01
9 3 0.03
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:8914990 original size:13 final size:13
Alignment explanation
Indices: 8914968--8915034 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
8914958 GTTTTTATGG
8914968 TTTAGGGTTAGGT
1 TTTAGGGTTAGGT
* *
8914981 TTTAGAGTTAGGG
1 TTTAGGGTTAGGT
8914994 TTTAGGGTTAGGT
1 TTTAGGGTTAGGT
** *
8915007 TTTTTGTTTAGG-
1 TTTAGGGTTAGGT
8915019 TTTAGGGTTAGAGT
1 TTTAGGGTTAG-GT
8915033 TT
1 TT
8915035 AGGTTTACGA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
12 8 0.19
13 32 0.76
14 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (13 bp):
TTTAGGGTTAGGT
Found at i:8914999 original size:26 final size:24
Alignment explanation
Indices: 8914966--8915039 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 24
8914956 CGGTTTTTAT
8914966 GGTTTAGGGTTAGGTTTTAGAGTTA
1 GGTTTAGGGTTAGGTTTTAG-GTTA
* *
8914991 GGGTTTAGGGTTAGGTTTTTTGTTTA
1 -GGTTTAGGGTTAGG-TTTTAGGTTA
8915017 GGTTTAGGGTTAGAG-TTTAGGTT
1 GGTTTAGGGTTAG-GTTTTAGGTT
8915040 TACGATTTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 6 0.14
25 13 0.31
26 18 0.43
27 5 0.12
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.47
Consensus pattern (24 bp):
GGTTTAGGGTTAGGTTTTAGGTTA
Found at i:8915021 original size:6 final size:6
Alignment explanation
Indices: 8914961--8915094 Score: 65
Period size: 6 Copynumber: 20.5 Consensus size: 6
8914951 GGTTACGGTT
* * **
8914961 TTTATGG TTTAGG GTTAGG TTTTAGAG -TTAGGG TTTAGG GTTAGG TTTTTTG
1 TTTA-GG TTTAGG TTTAGG -TTTAG-G TTTA-GG TTTAGG TTTAGG -TTTAGG
* *
8915013 TTTAGG TTTAGG GTTAGAG TTTAGG TTTACGA TTTAGG ATTTATGG -TTAGGG
1 TTTAGG TTTAGG TTTAG-G TTTAGG TTTA-GG TTTAGG -TTTA-GG TTTA-GG
* *
8915065 TTTAGAA TTTAGGG TTTGAGA TTTAGG TTT
1 TTTAG-G TTTA-GG TTT-AGG TTTAGG TTT
8915095 TGGATTTGGG
Statistics
Matches: 97, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
6 49 0.51
7 43 0.44
8 5 0.05
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (6 bp):
TTTAGG
Found at i:8915048 original size:13 final size:12
Alignment explanation
Indices: 8915012--8915094 Score: 60
Period size: 13 Copynumber: 6.3 Consensus size: 12
8915002 TAGGTTTTTT
*
8915012 GTTTAGGTTTAG
1 GTTTAGATTTAG
*
8915024 GGTTAGAGTTTAG
1 GTTTAGA-TTTAG
8915037 GTTTACGATTTAG
1 GTTTA-GATTTAG
*
8915050 GATTTATG-GTTAGG
1 G-TTTA-GATTTA-G
8915064 GTTTAGAATTTAGG
1 GTTTAG-ATTTA-G
8915078 GTTTGAGATTTAG
1 GTTT-AGATTTAG
8915091 GTTT
1 GTTT
8915095 TGGATTTGGG
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
12 6 0.10
13 27 0.47
14 23 0.40
15 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (12 bp):
GTTTAGATTTAG
Found at i:8915078 original size:14 final size:14
Alignment explanation
Indices: 8915059--8915160 Score: 65
Period size: 14 Copynumber: 7.6 Consensus size: 14
8915049 GGATTTATGG
8915059 TTAGGGTTTAGAAT
1 TTAGGGTTTAGAAT
8915073 TTAGGGTTT-GAGAT
1 TTAGGGTTTAGA-AT
* *
8915087 TTA-GGTTTTGGAT
1 TTAGGGTTTAGAAT
*
8915100 TTGGGGTTTA-AGAT
1 TTAGGGTTTAGA-AT
* *
8915114 TTAAGG-TTAG--G
1 TTAGGGTTTAGAAT
*
8915125 TTAGGATTT-GAAT
1 TTAGGGTTTAGAAT
*
8915138 TTAGGGTTTGGAAT
1 TTAGGGTTTAGAAT
*
8915152 TTAGAGTTT
1 TTAGGGTTT
8915161 GGGGTTTAAG
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
11 5 0.07
12 2 0.03
13 22 0.33
14 38 0.57
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTAGAAT
Found at i:8915215 original size:53 final size:53
Alignment explanation
Indices: 8915165--8915266 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
8915155 GAGTTTGGGG
* * *
8915165 TTTAAGATTTTAATTT-TGATTTGGAGTTTATGGTTTAGATTTGGGATTTGGA
1 TTTAAGATTTGAATTTGGGATTTGGAGTTTAGGGTTTAGATTTGGGATTTGGA
* * * * *
8915217 TTTAGGGTTTGAATTTGGGGTTTGGAGTTTCGGGTTTGGATTTGGGATTT
1 TTTAAGATTTGAATTTGGGATTTGGAGTTTAGGGTTTAGATTTGGGATTT
8915267 TGGCATCTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 13 0.32
53 28 0.68
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (53 bp):
TTTAAGATTTGAATTTGGGATTTGGAGTTTAGGGTTTAGATTTGGGATTTGGA
Found at i:8915259 original size:27 final size:27
Alignment explanation
Indices: 8915059--8915266 Score: 119
Period size: 27 Copynumber: 7.8 Consensus size: 27
8915049 GGATTTATGG
*
8915059 TTAGGGTTTAGAATTTAGGG-TTT-GAGAT
1 TTAGGGTTT-GGATTT-GGGATTTGGAG-T
* * *
8915087 TTAGGTTTTGGATTTGGGGTTT-AAGAT
1 TTAGGGTTTGGATTTGGGATTTGGAG-T
* * * *
8915114 TTAAGGTTAGG--TTAGGATTT-GAAT
1 TTAGGGTTTGGATTTGGGATTTGGAGT
* *
8915138 TTAGGGTTTGGAATTT-AGAGTTTGGGGT
1 TTAGGGTTTGG-ATTTGGGA-TTTGGAGT
* * ** *
8915166 TTAAGATTTTAATTT-TGATTTGGAGT
1 TTAGGGTTTGGATTTGGGATTTGGAGT
* *
8915192 TTATGGTTTAGATTTGGGATTTGGA-T
1 TTAGGGTTTGGATTTGGGATTTGGAGT
* *
8915218 TTAGGGTTTGAATTTGGGGTTTGGAGT
1 TTAGGGTTTGGATTTGGGATTTGGAGT
*
8915245 TTCGGGTTTGGATTTGGGATTT
1 TTAGGGTTTGGATTTGGGATTT
8915267 TGGCATCTCA
Statistics
Matches: 139, Mismatches: 33, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
24 10 0.07
25 8 0.06
26 45 0.32
27 59 0.42
28 17 0.12
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (27 bp):
TTAGGGTTTGGATTTGGGATTTGGAGT
Found at i:8915269 original size:14 final size:12
Alignment explanation
Indices: 8915196--8915262 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 12
8915186 TGGAGTTTAT
*
8915196 GGTTTAGATTTG
1 GGTTTGGATTTG
8915208 GGATTTGGATTTAG
1 GG-TTTGGATTT-G
*
8915222 GGTTTGAATTTGG
1 GGTTTGGATTT-G
8915235 GGTTTGGAGTTTCG
1 GGTTTGGA-TTT-G
8915249 GGTTTGGATTTG
1 GGTTTGGATTTG
8915261 GG
1 GG
8915263 ATTTTGGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
12 5 0.11
13 27 0.57
14 15 0.32
ACGTcount: A:0.13, C:0.01, G:0.40, T:0.45
Consensus pattern (12 bp):
GGTTTGGATTTG
Found at i:8917651 original size:20 final size:20
Alignment explanation
Indices: 8917588--8917652 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
8917578 TTTTATTGAG
*
8917588 TTTGACCAATTTTGA-TAAA
1 TTTGACCAATTTTGACTAGA
** * *
8917607 GTTTGACTGATTTTAACTTTG-
1 -TTTGACCAATTTTGAC-TAGA
8917628 TTTGACCAATTTTGACTAGA
1 TTTGACCAATTTTGACTAGA
8917648 TTTGA
1 TTTGA
8917653 TTTGAGTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
22 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTGACCAATTTTGACTAGA
Found at i:8917663 original size:40 final size:40
Alignment explanation
Indices: 8917587--8917667 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
8917577 TTTTTATTGA
*
8917587 GTTTGACCAATTTTGATAAAGTTTGACTGATTTTAACTTT
1 GTTTGACCAATTTTGATAAAGTTTGACTGATGTTAACTTT
* *
8917627 GTTTGACCAATTTTGACTAGA-TTTGATTTGA-GTTAACTTT
1 GTTTGACCAATTTTGA-TAAAGTTTGA-CTGATGTTAACTTT
8917667 G
1 G
8917668 AGACATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 30 0.83
41 6 0.17
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (40 bp):
GTTTGACCAATTTTGATAAAGTTTGACTGATGTTAACTTT
Found at i:8919674 original size:12 final size:12
Alignment explanation
Indices: 8919647--8919686 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
8919637 CATGTGCAGG
**
8919647 TTTTTCTTTTCC
1 TTTTTCTTTTTA
8919659 TTTTTCTTTTTA
1 TTTTTCTTTTTA
*
8919671 TTTTTATTTTTA
1 TTTTTCTTTTTA
8919683 TTTT
1 TTTT
8919687 CAATTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:8919692 original size:7 final size:7
Alignment explanation
Indices: 8919682--8919716 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
8919672 TTTTATTTTT
8919682 ATTTTCA
1 ATTTTCA
8919689 ATTTTCA
1 ATTTTCA
8919696 ATTTTCA
1 ATTTTCA
8919703 ATTTTCA
1 ATTTTCA
*
8919710 AATTTCA
1 ATTTTCA
8919717 TTTGATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTTTCA
Found at i:8919897 original size:21 final size:19
Alignment explanation
Indices: 8919856--8919927 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 19
8919846 TCTATTTTTT
*
8919856 TTGCATGATTATT-AATTAA
1 TTGCATGA-TATTGTATTAA
*
8919875 TTGCATGATATTTTATCTTAA
1 TTGCATGATATTGTA--TTAA
*
8919896 TTACATGATAATTGTATTAA
1 TTGCATGAT-ATTGTATTAA
8919916 TTGCATGATATT
1 TTGCATGATATT
8919928 ATTGCATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.09
19 12 0.27
20 12 0.27
21 12 0.27
22 5 0.11
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (19 bp):
TTGCATGATATTGTATTAA
Found at i:8919979 original size:21 final size:20
Alignment explanation
Indices: 8919856--8919998 Score: 82
Period size: 20 Copynumber: 7.7 Consensus size: 20
8919846 TCTATTTTTT
8919856 TTGCATGAT-TATTA-ATTAA
1 TTGCATGATATATTATATT-A
* *
8919875 TTGCATGATATTTTATCTTAA
1 TTGCATGATATATTATATT-A
* *
8919896 TTACATGATA-ATTGTATTAA
1 TTGCATGATATATTATATT-A
8919916 TTGCATG-------ATATTA
1 TTGCATGATATATTATATTA
*
8919929 TTGCAT-A-AT-TTATAGTAA
1 TTGCATGATATATTATA-TTA
8919947 TTGCATGATATATTATATTA
1 TTGCATGATATATTATATTA
8919967 TTGCATGAT-TA-TATTATTA
1 TTGCATGATATATTA-TATTA
*
8919986 TTGCATTATATAT
1 TTGCATGATATAT
8919999 AATGCTACGA
Statistics
Matches: 99, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
13 7 0.07
14 4 0.04
17 3 0.03
18 10 0.10
19 25 0.25
20 32 0.32
21 18 0.18
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.49
Consensus pattern (20 bp):
TTGCATGATATATTATATTA
Found at i:8924795 original size:21 final size:20
Alignment explanation
Indices: 8924742--8924795 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
8924732 TTAATAAAAG
8924742 TATTATTTTTA-ATATAAAT
1 TATTATTTTTATATATAAAT
8924761 TA-TATCTTAATTATATATAAAT
1 TATTAT-TT--TTATATATAAAT
8924783 ATATTATTTTTAT
1 -TATTATTTTTAT
8924796 TAAATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
18 3 0.10
19 4 0.14
21 7 0.24
22 8 0.28
23 4 0.14
24 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATATATAAAT
Found at i:8924862 original size:16 final size:18
Alignment explanation
Indices: 8924835--8924870 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8924825 TAATAATTTT
8924835 ATTAATATAAATA-TAAA
1 ATTAATATAAATATTAAA
8924852 ATTAA-ATAAATATTAAA
1 ATTAATATAAATATTAAA
8924869 AT
1 AT
8924871 ATATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAATATAAATATTAAA
Found at i:8926091 original size:11 final size:12
Alignment explanation
Indices: 8926077--8926174 Score: 51
Period size: 13 Copynumber: 8.1 Consensus size: 12
8926067 TTATTTTGTA
8926077 TTTTATATTT-T
1 TTTTATATTTAT
*
8926088 TTTTATCTTTAT
1 TTTTATATTTAT
8926100 TTTTAT-TTTAT
1 TTTTATATTTAT
* *
8926111 ATTATATATATAT
1 -TTTTATATTTAT
*
8926124 ATTTTCT-TTGTAT
1 -TTTTATATT-TAT
* *
8926137 CTTATGTATTTAT
1 -TTTTATATTTAT
*
8926150 TATT-TATTTAT
1 TTTTATATTTAT
*
8926161 TATTACTATTTAT
1 TTTTA-TATTTAT
8926174 T
1 T
8926175 AATATATATA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
11 25 0.36
12 15 0.22
13 27 0.39
14 2 0.03
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATATTTAT
Found at i:8926092 original size:23 final size:21
Alignment explanation
Indices: 8926065--8926108 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
8926055 CCAATTTTGC
*
8926065 TTTTATTTTGTATTTTATATTTT
1 TTTTATCTT-TATTTT-TATTTT
8926088 TTTTATCTTTATTTTTATTTT
1 TTTTATCTTTATTTTTATTTT
8926109 ATATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTATCTTTATTTTTATTTT
Found at i:8926098 original size:17 final size:17
Alignment explanation
Indices: 8926065--8926110 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
8926055 CCAATTTTGC
8926065 TTTTATTTTGTAT-TTTAT
1 TTTTA-TTT-TATCTTTAT
8926083 ATTTT-TTTTATCTTTAT
1 -TTTTATTTTATCTTTAT
8926100 TTTTATTTTAT
1 TTTTATTTTAT
8926111 ATTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
19 4 0.16
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTTATCTTTAT
Found at i:8926132 original size:35 final size:35
Alignment explanation
Indices: 8926065--8926132 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
8926055 CCAATTTTGC
* * * *
8926065 TTTTATTTTGTATTTTATATTTTTTTTATCTTTAT
1 TTTTATTTTATATTATATATTATATTTATCTTTAT
8926100 TTTTATTTTATATTATATATATATATTT-TCTTT
1 TTTTATTTTATATTATATAT-TATATTTATCTTT
8926133 GTATCTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 23 0.82
36 5 0.18
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (35 bp):
TTTTATTTTATATTATATATTATATTTATCTTTAT
Found at i:8926266 original size:26 final size:25
Alignment explanation
Indices: 8926237--8926349 Score: 90
Period size: 26 Copynumber: 4.9 Consensus size: 25
8926227 CTATTAATAT
8926237 TTATATATATATATTTATTTATCTAG
1 TTATATAT-TATATTTATTTATCTAG
*
8926263 TTATATATT-TATTATTATTTATCTAT
1 TTATATATTATA-T-TTATTTATCTAG
8926289 TTATATATTATA---ATTTATCTA-
1 TTATATATTATATTTATTTATCTAG
*
8926310 TTAT-TATT-T-TTAATTTATCT-G
1 TTATATATTATATTTATTTATCTAG
8926331 TTA-A-ATT-T-TTTATTTATCT
1 TTATATATTATATTTATTTATCT
8926350 GATTATTTTC
Statistics
Matches: 77, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.01
20 18 0.23
21 15 0.19
22 9 0.12
24 2 0.03
25 2 0.03
26 28 0.36
27 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATATATTATATTTATTTATCTAG
Found at i:8926270 original size:22 final size:21
Alignment explanation
Indices: 8926242--8926355 Score: 90
Period size: 22 Copynumber: 5.1 Consensus size: 21
8926232 AATATTTATA
8926242 TATATATATTTATTTATCTAGT
1 TATATATATTTATTTATCTA-T
8926264 TATATATTTATTATTATTTATCTAT
1 TATATA--TA-T-TTATTTATCTAT
8926289 T-TATATATTATAATTTATCTAT
1 TATATATATT-T-ATTTATCTAT
* *
8926311 TAT-TATTTTTAATTTATCTGT
1 TATATATATTT-ATTTATCTAT
* *
8926332 TAAAT-TTTTTATTTATCTGAT
1 TATATATATTTATTTATCT-AT
8926353 TAT
1 TAT
8926356 TTTCATTTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
20 9 0.12
21 23 0.29
22 25 0.32
23 1 0.01
24 6 0.08
25 3 0.04
26 11 0.14
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (21 bp):
TATATATATTTATTTATCTAT
Found at i:8926340 original size:20 final size:21
Alignment explanation
Indices: 8926253--8926355 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
8926243 ATATATATTT
8926253 ATTTATCTAGTTATATATTTATTA
1 ATTTATCT-GTTATA-ATTT-TTA
* *
8926277 TTATTTATCTATT-TATATATTATA
1 --ATTTATCTGTTATA-AT-TTTTA
* *
8926301 ATTTATCTATTATTATTTTTA
1 ATTTATCTGTTATAATTTTTA
*
8926322 ATTTATCTGTTA-AATTTTTT
1 ATTTATCTGTTATAATTTTTA
8926342 ATTTATCTGATTAT
1 ATTTATCTG-TTAT
8926356 TTTCATTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
20 15 0.23
21 18 0.27
22 13 0.20
23 1 0.02
24 7 0.11
25 4 0.06
26 8 0.12
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTATCTGTTATAATTTTTA
Found at i:8926356 original size:42 final size:40
Alignment explanation
Indices: 8926301--8926403 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 40
8926291 ATATATTATA
* *
8926301 ATTTATCTATTATTATT-TTTAATTTATCTGTTAAATTTTTT
1 ATTTATCTATTATT-TTATTTAA-CTATCTATTAAATTTTTT
*
8926342 ATTTATCTGATTATTTTCATTTAACTATCTATTAATTTTTTT
1 ATTTATCT-ATTATTTT-ATTTAACTATCTATTAAATTTTTT
*
8926384 ATTTGAT-TTTTATTTT-TTTA
1 ATTT-ATCTATTATTTTATTTA
8926404 TTTTTTTCGG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
39 4 0.07
41 17 0.31
42 26 0.48
43 7 0.13
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (40 bp):
ATTTATCTATTATTTTATTTAACTATCTATTAAATTTTTT
Found at i:8926960 original size:15 final size:16
Alignment explanation
Indices: 8926940--8926972 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8926930 GGTTTTTAGA
*
8926940 AGGAAGGGAGAGA-AG
1 AGGAAGGAAGAGAGAG
8926955 AGGAAGGAAGAGAGAG
1 AGGAAGGAAGAGAGAG
8926971 AG
1 AG
8926973 AGGGAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (16 bp):
AGGAAGGAAGAGAGAG
Found at i:8926978 original size:19 final size:19
Alignment explanation
Indices: 8926938--8926975 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8926928 CGGGTTTTTA
*
8926938 GAAGGAAGGGAGAGAAGAG
1 GAAGGAAGAGAGAGAAGAG
8926957 GAAGGAAGAGAGAG-AGAG
1 GAAGGAAGAGAGAGAAGAG
8926975 G
1 G
8926976 GAAAGAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (19 bp):
GAAGGAAGAGAGAGAAGAG
Found at i:8927398 original size:56 final size:56
Alignment explanation
Indices: 8927346--8927455 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
8927336 AAAAAAATAT
*
8927346 TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTAAAAAATAAATTTTCAAAAAAGG
1 TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTAAAAAATAAATTTTCAAAAAAGG
*
8927402 TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTAAAAAATAAATTTTCAAAAAA
8927456 TGGAATATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (56 bp):
TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTAAAAAATAAATTTTCAAAAAAGG
Found at i:8927518 original size:96 final size:95
Alignment explanation
Indices: 8927366--8927551 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 95
8927356 AAGTTGAAAG
*
8927366 TATCAATTTTCCTAAAAAATAAATTTTCAAAAAAGGTTTTGAGAAAAAATTGAAAGTATCAATTT
1 TATCAATTTTCCTAAAAAATAAATTTTCAAAAAAAGTTTTGAGAAAAAATTGAAAGTATCAATTT
8927431 TCCTTAAAAATAAATTTTCAAAAAATGGAA
66 TCCTTAAAAATAAATTTTCAAAAAATGGAA
* * *
8927461 TATCAATTTT-CT-TAAAATAAATTTTCAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAA
1 TATCAATTTTCCTAAAAAATAAATTTTC---AAAAAAAGTTTTGAGAAAAAATTGAAAGTATCAA
* *
8927524 TTTTTCTTAAAAATAAATTTTTAAAAAA
63 TTTTCCTTAAAAATAAATTTTCAAAAAA
8927552 GAGATTTGAG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
93 13 0.16
94 2 0.02
95 10 0.12
96 57 0.70
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.35
Consensus pattern (95 bp):
TATCAATTTTCCTAAAAAATAAATTTTCAAAAAAAGTTTTGAGAAAAAATTGAAAGTATCAATTT
TCCTTAAAAATAAATTTTCAAAAAATGGAA
Found at i:8927550 original size:57 final size:56
Alignment explanation
Indices: 8927461--8927642 Score: 206
Period size: 57 Copynumber: 3.2 Consensus size: 56
8927451 AAAAATGGAA
*
8927461 TATCAA-TTTTCTTAAAATAAATTTTCAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAG
1 TATCAATTTTTCTTAAAATAAATTTT--TAAAAAAAAGTTTTGAGGAAAAGTTGAAAG
* * * *
8927518 TATCAATTTTTCTTAAAAATAAATTTTTAAAAAAGAGATTTGAGAAAAAGTTAAAAG
1 TATCAATTTTTCTT-AAAATAAATTTTTAAAAAAAAGTTTTGAGGAAAAGTTGAAAG
* * * * * *
8927575 TATCAATTTTTCTCGAAATTAAAGTTTCTAAAAAATA-TTTTGGGGAGAAGTTGAAAG
1 TATCAATTTTTCT-TAAAATAAA-TTTTTAAAAAAAAGTTTTGAGGAAAAGTTGAAAG
8927632 TATCAATTTTT
1 TATCAATTTTT
8927643 TCTGTACAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
57 77 0.72
58 18 0.17
59 12 0.11
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (56 bp):
TATCAATTTTTCTTAAAATAAATTTTTAAAAAAAAGTTTTGAGGAAAAGTTGAAAG
Found at i:8935532 original size:21 final size:20
Alignment explanation
Indices: 8935508--8935566 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
8935498 ATACTATGCT
8935508 TGAAATAAAAAAATGAAAAAA
1 TGAAA-AAAAAAATGAAAAAA
*
8935529 TGAAAAGAAAAAAATAAAAAAA
1 TG-AAA-AAAAAAATGAAAAAA
* *
8935551 AGAAAAAAAAAGTGAA
1 TGAAAAAAAAAATGAA
8935567 TGAAAAAGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.28
21 5 0.16
22 18 0.56
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (20 bp):
TGAAAAAAAAAATGAAAAAA
Found at i:8935539 original size:22 final size:21
Alignment explanation
Indices: 8935509--8935561 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
8935499 TACTATGCTT
* * *
8935509 GAAATAAAAAAATGAAAAAAT
1 GAAAAAAAAAAATAAAAAAAA
8935530 GAAAAGAAAAAAATAAAAAAAA
1 GAAAA-AAAAAAATAAAAAAAA
8935552 GAAAAAAAAA
1 GAAAAAAAAA
8935562 GTGAATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.08
Consensus pattern (21 bp):
GAAAAAAAAAAATAAAAAAAA
Found at i:8936664 original size:87 final size:87
Alignment explanation
Indices: 8936557--8937230 Score: 838
Period size: 87 Copynumber: 7.8 Consensus size: 87
8936547 CAAGGAGTCA
* * *
8936557 TTTACTTTT-CAAAGTCGTTGAGCCTTTGATTAGAGGAGCCTTGTTTATTTTTCAAAGTCATTGA
1 TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
*
8936621 GCCTCTGATTAGAGAAGCTTTG
66 GCCTCTGATTAGAGGAGCTTTG
* * *
8936643 TTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCGTTGTTTATTTTTTAAAGTCGTTGA
1 TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
**
8936708 GCCTCTGATTAGAGGAGC--CA
66 GCCTCTGATTAGAGGAGCTTTG
* * * * *
8936728 TTTATTTTTCAAAAGTCATCGAG-CTTCTGATTAGATGAGCCTTGTTTATTTTTCAAAGTCGTTG
1 TTTATTTTTCCAAAGTCGTTGAGCCTT-TGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTG
* * *
8936792 AGTCTCTGATTAGAAGAG-TCTTA
65 AGCCTCTGATTAGAGGAGCT-TTG
* * * *
8936815 TTTATTTTTCCAAAGTCGTTGAGCCTCTAATTAGATGAGCTTTGTTTATTTTTCAAAGTCATTGA
1 TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
* *
8936880 TCCTCTAATTAGAGGAGC--TG
66 GCCTCTGATTAGAGGAGCTTTG
* * *
8936900 TTTATTTTT-CAAAGTCGTTGAGCCTTTGATTAAAGGA--ATCGTTTATTTTTCAAAGTCGTTGA
1 TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
*
8936962 GCCTCTGATTAGAGGAGC--CG
66 GCCTCTGATTAGAGGAGCTTTG
* *
8936982 TTTATCTTT-CAAAGTCGTTGAG-CTTCTGATTAGAGGAGCTTTGTTTAGCTTTTCAAAGTCGTT
1 TTTATTTTTCCAAAGTCGTTGAGCCTT-TGATTAGAGGAGCTTTGTTTA-TTTTTCAAAGTCGTT
*
8937045 GAGCCTTTGATTAGAGGAGCTTTG
64 GAGCCTCTGATTAGAGGAGCTTTG
* * *
8937069 TTTATATTTCCAAAGTCGTTGAGCCTTCGATTAGAGGAGCTTTTTTTATCTTTTCAAAGTCGTTG
1 TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTGTTTAT-TTTTCAAAGTCGTTG
*
8937134 AGCCTCTGATTAGAGGAGCTTTA
65 AGCCTCTGATTAGAGGAGCTTTG
* * *
8937157 TTTA-TCTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTTGTTTATGTTTTTCAAAGTTGT
1 TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGC-TTTGTTTA--TTTTTCAAAGTCGT
8937221 TGAGCCTCTG
63 TGAGCCTCTG
8937231 CTTATAAGAG
Statistics
Matches: 510, Mismatches: 59, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
81 3 0.01
82 70 0.14
84 32 0.06
85 113 0.22
86 8 0.02
87 177 0.35
88 81 0.16
89 25 0.05
90 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (87 bp):
TTTATTTTTCCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
GCCTCTGATTAGAGGAGCTTTG
Found at i:8936672 original size:44 final size:43
Alignment explanation
Indices: 8936557--8937230 Score: 846
Period size: 44 Copynumber: 15.7 Consensus size: 43
8936547 CAAGGAGTCA
* * *
8936557 TTTACTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCCTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
8936600 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGAAGCTTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
*
8936643 TTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCGTTG
1 TTTATTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* **
8936687 TTTATTTTTTAAAGTCGTTGAGCCTCTGATTAGAGGAGC--CA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* * * * *
8936728 TTTATTTTTCAAAAGTCATCGAGCTTCTGATTAGATGAGCCTTG
1 TTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* * *
8936772 TTTATTTTTCAAAGTCGTTGAGTCTCTGATTAGAAGAG-TCTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCT-TTG
* *
8936815 TTTATTTTTCCAAAGTCGTTGAGCCTCTAATTAGATGAGCTTTG
1 TTTATTTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* * *
8936859 TTTATTTTTCAAAGTCATTGATCCTCTAATTAGAGGAGC--TG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* * * *
8936900 TTTATTTTTCAAAGTCGTTGAGCCTTTGATTAAAGGA--ATCG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
*
8936941 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--CG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
8936982 TTTATCTTTCAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
8937025 TTTAGCTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTG
1 TTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
8937069 TTTATATTTCCAAAGTCGTTGAGCCT-TCGATTAGAGGAGCTTTT
1 TTTAT-TTTTCAAAGTCGTTGAGCCTCT-GATTAGAGGAGCTTTG
*
8937113 TTTATCTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTA
1 TTTAT-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
* *
8937157 TTTATCTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TTTG
*
8937201 TTTATGTTTTTCAAAGTTGTTGAGCCTCTG
1 TTTA--TTTTTCAAAGTCGTTGAGCCTCTG
8937231 CTTATAAGAG
Statistics
Matches: 552, Mismatches: 59, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
41 118 0.21
42 25 0.05
43 175 0.32
44 211 0.38
45 2 0.00
46 21 0.04
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
Found at i:8938972 original size:20 final size:20
Alignment explanation
Indices: 8938947--8938984 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8938937 ACAAATTTTC
8938947 AATTTTCATAATAATTTCCT
1 AATTTTCATAATAATTTCCT
*
8938967 AATTTTTATAATAATTTC
1 AATTTTCATAATAATTTC
8938985 ATAAATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTCATAATAATTTCCT
Found at i:8939080 original size:20 final size:20
Alignment explanation
Indices: 8939055--8939109 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
8939045 AGCCACATAC
*
8939055 CAATTTCAAAAATTTAGTAT
1 CAATTTCAAAAATTCAGTAT
*
8939075 CAATTTCACAAAA-TCGGTAT
1 CAATTTCA-AAAATTCAGTAT
*
8939095 CAATTTAAAAAATTC
1 CAATTTCAAAAATTC
8939110 TACAATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
CAATTTCAAAAATTCAGTAT
Found at i:8939911 original size:20 final size:20
Alignment explanation
Indices: 8939888--8939937 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8939878 GAATAATTAA
8939888 ATAAAATTAATTATTAAATT
1 ATAAAATTAATTATTAAATT
* *
8939908 ATAAAATTAATTTTTTAATT
1 ATAAAATTAATTATTAAATT
8939928 A-AAAA-TAATT
1 ATAAAATTAATT
8939938 TTTTTGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 5 0.18
19 4 0.14
20 19 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAAAATTAATTATTAAATT
Found at i:8939936 original size:18 final size:18
Alignment explanation
Indices: 8939884--8939941 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
8939874 AATAGAATAA
* * *
8939884 TTAAATAAAATTAATTAT
1 TTAATTAAAAATAATTTT
*
8939902 TAAATTATAAAATTAATTTT
1 TTAATTA-AAAA-TAATTTT
8939922 TTAATTAAAAATAATTTT
1 TTAATTAAAAATAATTTT
8939940 TT
1 TT
8939942 TGGGAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 14 0.42
19 7 0.21
20 12 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATTAAAAATAATTTT
Found at i:8944984 original size:2 final size:2
Alignment explanation
Indices: 8944977--8945001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8944967 CACCACGGCA
8944977 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 T
8945002 GGCTTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8964958 original size:7 final size:7
Alignment explanation
Indices: 8964932--8964969 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
8964922 GTACGAGATA
8964932 TTTTAAT
1 TTTTAAT
* *
8964939 TTATAAA
1 TTTTAAT
8964946 TTTTAAT
1 TTTTAAT
8964953 TTTTAA-
1 TTTTAAT
8964959 TTTTAAT
1 TTTTAAT
8964966 TTTT
1 TTTT
8964970 GTTTAATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTAAT
Found at i:8964969 original size:14 final size:14
Alignment explanation
Indices: 8964931--8964969 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
8964921 TGTACGAGAT
*
8964931 ATTTTAATTTATAA
1 ATTTTAATTTTTAA
8964945 ATTTTAATTTTT-A
1 ATTTTAATTTTTAA
8964958 ATTTTAATTTTT
1 ATTTTAATTTTT
8964970 GTTTAATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTAATTTTTAA
Found at i:8972273 original size:32 final size:32
Alignment explanation
Indices: 8972224--8972286 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
8972214 GCTCAAGTTC
*
8972224 TTTTTTCTTAGGATTGATTTATTTTTGGATTA
1 TTTTTTCTAAGGATTGATTTATTTTTGGATTA
* *
8972256 TTTTTTCTCAAGG-TTGATTTGTTTTTTGATT
1 TTTTTTCT-AAGGATTGATTTATTTTTGGATT
8972287 GTAGTCTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.63
Consensus pattern (32 bp):
TTTTTTCTAAGGATTGATTTATTTTTGGATTA
Found at i:8979144 original size:172 final size:173
Alignment explanation
Indices: 8978858--8979202 Score: 595
Period size: 172 Copynumber: 2.0 Consensus size: 173
8978848 AACTTTAAAG
* * *
8978858 GCATATTACAATCACATAACACACTTGAAGCATTTCGTCACCTAAGGCAAGATTCATACTAAGAC
1 GCATATTACAATCACATAACACACATGAAGCACTTCATCACCTAAGGCAAGATTCATACTAAGAC
8978923 ATATAAAAAAAATATAAATGAGACAAGATTGTCTAAAACAAAAGTTCATAGTTTTTAATAACTAT
66 ATATAAAAAAAATATAAATGAGACAAGATTGTCTAAAACAAAAGTTCATAGTTTTTAATAACTAT
*
8978988 TAACACAAAGATGAAATACTT-AAAATTCATGAAACCTGAAAT
131 TAACACAAAGATGAAATACTTAAAAAGTCATGAAACCTGAAAT
*
8979030 GCATATTACAATCACATAACACACATGAAGCACTTCATCACTTAAGGCAAGATTCATACTAAGAC
1 GCATATTACAATCACATAACACACATGAAGCACTTCATCACCTAAGGCAAGATTCATACTAAGAC
* *
8979095 ATAT-AAAAAAATCTAAATGAGACAAGATTGTCTAAAAACAAAAGTTCATAGTTTTTAATATCTA
66 ATATAAAAAAAATATAAATGAGACAAGATTGTCT-AAAACAAAAGTTCATAGTTTTTAATAACTA
*
8979159 TTAACACAAAGATGAAATGCTTAAAAAGTCATGAAACCTGAAAT
130 TTAACACAAAGATGAAATACTTAAAAAGTCATGAAACCTGAAAT
8979203 ATTCATTTAA
Statistics
Matches: 163, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
171 28 0.17
172 115 0.71
173 20 0.12
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (173 bp):
GCATATTACAATCACATAACACACATGAAGCACTTCATCACCTAAGGCAAGATTCATACTAAGAC
ATATAAAAAAAATATAAATGAGACAAGATTGTCTAAAACAAAAGTTCATAGTTTTTAATAACTAT
TAACACAAAGATGAAATACTTAAAAAGTCATGAAACCTGAAAT
Found at i:8980008 original size:2 final size:2
Alignment explanation
Indices: 8980001--8980025 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8979991 AATCAAAGAC
8980001 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8980026 GTTCTTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8983682 original size:20 final size:21
Alignment explanation
Indices: 8983644--8983682 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8983634 TCTAAGACAA
*
8983644 CACTAAAAGTCTTGGAACAGC
1 CACTAAAAGTCTTGAAACAGC
*
8983665 CACT-AAAGTTTTGAAACA
1 CACTAAAAGTCTTGAAACA
8983683 TCATTCCTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (21 bp):
CACTAAAAGTCTTGAAACAGC
Found at i:8987597 original size:27 final size:27
Alignment explanation
Indices: 8987556--8987621 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 27
8987546 TTTTTTTATC
*
8987556 ATTACTATCATTATTTT-TGTATTACTAT
1 ATTA-TATTATTATTTTGT-TATTACTAT
*
8987584 ATTATATTATTATTTTGTTATTATTAT
1 ATTATATTATTATTTTGTTATTACTAT
8987611 ATGTTATATTA
1 A--TTATATTA
8987622 CATTAGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 20 0.61
28 5 0.15
29 8 0.24
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (27 bp):
ATTATATTATTATTTTGTTATTACTAT
Found at i:8987622 original size:42 final size:41
Alignment explanation
Indices: 8987565--8987680 Score: 100
Period size: 42 Copynumber: 2.9 Consensus size: 41
8987555 CATTACTATC
*
8987565 ATTATTTTTGTATTACTATATTATATTATTATT-TTGTTATT
1 ATTATTGTT-TATTACTATATTATATTATTATTATTGTTATT
* *
8987606 ATTATATGTTATATTAC-ATTAGTATATT-CTATTATTGTTATT
1 ATTAT-TGTT-TATTACTA-TATTATATTATTATTATTGTTATT
* *
8987648 GTTGTTGTTTATTA-T-TATTATTATTATT-TTATT
1 ATTATTGTTTATTACTATATTA-TATTATTATTATT
8987681 CTTTCATTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
38 4 0.07
39 9 0.15
40 6 0.10
41 14 0.23
42 28 0.46
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.64
Consensus pattern (41 bp):
ATTATTGTTTATTACTATATTATATTATTATTATTGTTATT
Found at i:8988168 original size:22 final size:24
Alignment explanation
Indices: 8988135--8988178 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8988125 TTTTGGGAAA
8988135 TTTTGGTATTTTTTCT-AAAAATT
1 TTTTGGTATTTTTTCTGAAAAATT
8988158 TTTTGGT-TTTTTTCTGAAAAA
1 TTTTGGTATTTTTTCTGAAAAA
8988179 ATCTAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (24 bp):
TTTTGGTATTTTTTCTGAAAAATT
Found at i:8988547 original size:19 final size:18
Alignment explanation
Indices: 8988519--8988558 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
8988509 CAGGTCTTTC
8988519 TTTTTTATTTTAATTTTA
1 TTTTTTATTTTAATTTTA
*
8988537 TTTTTTGATTTTCATTTTA
1 TTTTTT-ATTTTAATTTTA
8988556 TTT
1 TTT
8988559 ACTCTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTTATTTTAATTTTA
Found at i:8993653 original size:8 final size:8
Alignment explanation
Indices: 8993640--8993665 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8993630 ATGACCTACT
8993640 TTGCATCA
1 TTGCATCA
8993648 TTGCATCA
1 TTGCATCA
8993656 TTGCATCA
1 TTGCATCA
8993664 TT
1 TT
8993666 ATTTATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (8 bp):
TTGCATCA
Found at i:8993776 original size:55 final size:55
Alignment explanation
Indices: 8993678--8993801 Score: 144
Period size: 55 Copynumber: 2.3 Consensus size: 55
8993668 TTATCACTCA
* ** * *
8993678 TATTCGATCTTGGCTCAATCCAAATTATTTTTCAGACTAATGGTTTCAT-T-TTGGT
1 TATTTGATCTTGGCTCAATCCAAATTATTTGCCAAACTAATGG-TTC-TGTCTCGGT
* * *
8993733 TATTTGATCTTGGCTCAGTCCAGATTATTTGCCAAACTTATGGTTCTGTCTCGGT
1 TATTTGATCTTGGCTCAATCCAAATTATTTGCCAAACTAATGGTTCTGTCTCGGT
8993788 TATTTGATCTTGGC
1 TATTTGATCTTGGC
8993802 CTAGTCTAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.02
54 4 0.07
55 54 0.92
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (55 bp):
TATTTGATCTTGGCTCAATCCAAATTATTTGCCAAACTAATGGTTCTGTCTCGGT
Found at i:8993816 original size:55 final size:55
Alignment explanation
Indices: 8993678--8993838 Score: 141
Period size: 55 Copynumber: 2.9 Consensus size: 55
8993668 TTATCACTCA
* * * * * * * *
8993678 TATTCGATCTTGGCTCAATCCAAATTATTTTTCAGACTAATGGTTTCAT-T-TTGGT
1 TATTTGATCTTGGCTCAGTCCAGATTATTCTCCAAACTTATGG-TTC-TGTCTCGGT
8993733 TATTTGATCTTGGCTCAGTCCAGATTATT-TGCCAAACTTATGGTTCTGTCTCGGT
1 TATTTGATCTTGGCTCAGTCCAGATTATTCT-CCAAACTTATGGTTCTGTCTCGGT
* * * * *
8993788 TATTTGATCTTGGC-CTAGTCTAGGTTATTCTTCAAACTTGTGGTTTTGTCT
1 TATTTGATCTTGGCTC-AGTCCAGATTATTCTCCAAACTTATGGTTCTGTCT
8993839 TAATTATCCG
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
53 1 0.01
54 6 0.07
55 81 0.91
56 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.45
Consensus pattern (55 bp):
TATTTGATCTTGGCTCAGTCCAGATTATTCTCCAAACTTATGGTTCTGTCTCGGT
Found at i:8993907 original size:55 final size:55
Alignment explanation
Indices: 8993849--8994168 Score: 288
Period size: 55 Copynumber: 5.8 Consensus size: 55
8993839 TAATTATCCG
* * *
8993849 ATCTTAGCTCAATCTAGATCATTTTTTTA-ACTTGTAGTTTCATCCTGATCATCTG
1 ATCTTAGCTCAGTCTAGATCA-TTTTTTAGACTTGTGGTTTCATCCTGATCATCTA
* * * * *
8993904 ATCTT-GACTTAGTTTAGATCATTTTTCAGACTTGTGGTTTCATTCTGGTCATCTA
1 ATCTTAG-CTCAGTCTAGATCATTTTTTAGACTTGTGGTTTCATCCTGATCATCTA
* * * ** * * *
8993959 ATTTTAGTTCAGTCCAGATCATTTTCCA-AGCTTATGGTTTCATCCCGATCATCCA
1 ATCTTAGCTCAGTCTAGATCATTTTTTAGA-CTTGTGGTTTCATCCTGATCATCTA
* * * * * *
8994014 ATCTTAGCTCAGTCCAAATTATTTTCTAGACTTGTGGTTTCATCTTGGTCATCTA
1 ATCTTAGCTCAGTCTAGATCATTTTTTAGACTTGTGGTTTCATCCTGATCATCTA
* * * * **
8994069 ATCTTGGCTCATTCTAGATCATTTTTTAGAATTGTGATTTCATCCTGATCATCCG
1 ATCTTAGCTCAGTCTAGATCATTTTTTAGACTTGTGGTTTCATCCTGATCATCTA
* * * *
8994124 ATC-TCGTCTCAGTCTAGATCACTTTTTAGACTTATGATTTCATCC
1 ATCTTAG-CTCAGTCTAGATCATTTTTTAGACTTGTGGTTTCATCC
8994169 CAGTAATTTA
Statistics
Matches: 213, Mismatches: 46, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
54 10 0.05
55 201 0.94
56 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.43
Consensus pattern (55 bp):
ATCTTAGCTCAGTCTAGATCATTTTTTAGACTTGTGGTTTCATCCTGATCATCTA
Found at i:8994135 original size:110 final size:107
Alignment explanation
Indices: 8993849--8994204 Score: 322
Period size: 110 Copynumber: 3.2 Consensus size: 107
8993839 TAATTATCCG
* *
8993849 ATCTTAGCTCAATCTAGATCATTTTTTTAACTTGT-AGTTTCATCCTGATCATCTGATCTTGACT
1 ATCTTAGCTCAATCTAGATCA-TTTTTTAACTTGTGA-TTTCATCCTGATCATCCGATCTAG-CT
* *
8993913 TAGTTTAGATCATTTTTCAGACTTGTGGTTTCAT-TCTGGTCATCTA
63 CAGTCTAGATCATTTTT-AGACTTGTGGTTTCATCT-TGGTCATCTA
* * * * ** * * * *
8993959 ATTTTAGTTCAGTCCAGATCATTTTCCAAGCTTATGGTTTCATCCCGATCATCCAATCTTAGCTC
1 ATCTTAGCTCAATCTAGATCATTTTTTAA-CTTGTGATTTCATCCTGATCATCCGATC-TAGCTC
* * *
8994024 AGTCCAAATTATTTTCTAGACTTGTGGTTTCATCTTGGTCATCTA
64 AGTCTAGATCATTTT-TAGACTTGTGGTTTCATCTTGGTCATCTA
* * * *
8994069 ATCTTGGCTCATTCTAGATCATTTTTTAGAATTGTGATTTCATCCTGATCATCCGATCTCGTCTC
1 ATCTTAGCTCAATCTAGATCATTTTTTA-ACTTGTGATTTCATCCTGATCATCCGATCTAG-CTC
* * *** * *
8994134 AGTCTAGATCACTTTTTAGACTTATGATTTCATCCCAGTAATTTA
64 AGTCTAGATCA-TTTTTAGACTTGTGGTTTCATCTTGGTCATCTA
*
8994179 ATCTT-GACTCAATCTAAATCATTTTT
1 ATCTTAG-CTCAATCTAGATCATTTTT
8994205 CAGACTCATA
Statistics
Matches: 195, Mismatches: 42, Indels: 18
0.76 0.16 0.07
Matches are distributed among these distances:
109 9 0.05
110 177 0.91
111 9 0.05
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (107 bp):
ATCTTAGCTCAATCTAGATCATTTTTTAACTTGTGATTTCATCCTGATCATCCGATCTAGCTCAG
TCTAGATCATTTTTAGACTTGTGGTTTCATCTTGGTCATCTA
Found at i:8995610 original size:58 final size:58
Alignment explanation
Indices: 8995345--8995635 Score: 327
Period size: 58 Copynumber: 4.9 Consensus size: 58
8995335 TTGTGCAGGA
* * * *
8995345 AAAATTGATACTATCAACTTTTCCTCAAAATTTTTTTTTTG-AAACTTTAATTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAAC-TTATTTTCAAGG
* * *
8995403 AAAATTGATACTTTCAACTTTTTCTCAAAAA-ATTCGTTTTTTGAAAACTTATTTTTAATG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-T--TTTTTTGAAAACTTATTTTCAAGG
* * *
8995463 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTGAAAACTTATTTTCAAGG
* ** *
8995522 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATCTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTTCAAGG
* * *
8995580 AAAATTTATACTTTCAACTTTTCCTCAAAAAATATTATTCTTGAAAATTTTATTTT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATT-TTTTTGAAAA-CTTATTTT
8995636 ATATGTTTTT
Statistics
Matches: 198, Mismatches: 25, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
58 72 0.36
59 61 0.31
60 52 0.26
61 13 0.07
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTTCAAGG
Found at i:8995735 original size:27 final size:29
Alignment explanation
Indices: 8995682--8995735 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
8995672 AAATATTTTT
* * *
8995682 AAAAAATAAACAAGCACATAAATAATAAA
1 AAAAAAAAAAAAACCACATAAATAATAAA
8995711 AAAAAAAAAAAAACCACA-AAA-AATA
1 AAAAAAAAAAAAACCACATAAATAATA
8995736 GGTTCTGGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
28 3 0.14
29 15 0.68
ACGTcount: A:0.78, C:0.11, G:0.02, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAAAAACCACATAAATAATAAA
Found at i:8997700 original size:13 final size:13
Alignment explanation
Indices: 8997679--8997709 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8997669 AAAAAATGAT
8997679 AAATATGAAATAA
1 AAATATGAAATAA
*
8997692 AAATCTGAAATAA
1 AAATATGAAATAA
8997705 AAATA
1 AAATA
8997710 AATAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (13 bp):
AAATATGAAATAA
Found at i:9006551 original size:24 final size:24
Alignment explanation
Indices: 9006531--9006579 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
9006521 ATGAAATATT
*
9006531 ATATT-ATAATTGTAAATAAATTA
1 ATATTAATAATTGAAAATAAATTA
9006554 ATATTAATAATTGAAAATATAATTA
1 ATATTAATAATTGAAAATA-AATTA
9006579 A
1 A
9006580 AAAAAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
ATATTAATAATTGAAAATAAATTA
Found at i:9007408 original size:26 final size:26
Alignment explanation
Indices: 9007372--9007425 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
9007362 ACGTCCAAAC
9007372 TTAAGTTTTCTATCCTACACTCATCA
1 TTAAGTTTTCTATCCTACACTCATCA
* *
9007398 TTAAGTTTTCTATCTTACGCTCATCA
1 TTAAGTTTTCTATCCTACACTCATCA
9007424 TT
1 TT
9007426 CACAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.46
Consensus pattern (26 bp):
TTAAGTTTTCTATCCTACACTCATCA
Found at i:9008061 original size:35 final size:35
Alignment explanation
Indices: 9008015--9008085 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9008005 TTCACCTAAT
9008015 AAGATTGGAGATGAAAATGTTGCACAACAATTTGG
1 AAGATTGGAGATGAAAATGTTGCACAACAATTTGG
9008050 AAGATTGGAGATGAAAATGTTGCACAACAATTTGG
1 AAGATTGGAGATGAAAATGTTGCACAACAATTTGG
9008085 A
1 A
9008086 GTGATTCGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (35 bp):
AAGATTGGAGATGAAAATGTTGCACAACAATTTGG
Found at i:9009686 original size:37 final size:37
Alignment explanation
Indices: 9009632--9009702 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
9009622 ACCATGTGTT
*
9009632 TTTTTAATAAAACTTTTTTAAAAAAATTTCCTAATTA
1 TTTTTAATAAAAATTTTTTAAAAAAATTTCCTAATTA
* *
9009669 TTTTTAA-AAATAATTTTTTCAAATAATTTCCTAA
1 TTTTTAATAAA-AATTTTTTAAAAAAATTTCCTAA
9009703 GAAGTTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.49
Consensus pattern (37 bp):
TTTTTAATAAAAATTTTTTAAAAAAATTTCCTAATTA
Found at i:9015338 original size:12 final size:12
Alignment explanation
Indices: 9015321--9015373 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
9015311 TTGATTTTGC
*
9015321 TTGATTTTAACT
1 TTGATTTTAATT
9015333 TTGATTTTAATT
1 TTGATTTTAATT
9015345 TT-A-TTTAATT
1 TTGATTTTAATT
*
9015355 TTAATTTTAATT
1 TTGATTTTAATT
9015367 TTGATTT
1 TTGATTT
9015374 ATTTTTAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.24
11 2 0.05
12 26 0.70
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (12 bp):
TTGATTTTAATT
Found at i:9015377 original size:22 final size:22
Alignment explanation
Indices: 9015326--9015380 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
9015316 TTTGCTTGAT
* *
9015326 TTTAACTTTGATTTTAATTTTA
1 TTTAATTTTAATTTTAATTTTA
9015348 TTTAATTTTAATTTTAATTTTGA
1 TTTAATTTTAATTTTAATTTT-A
*
9015371 TTTATTTTTA
1 TTTAATTTTA
9015381 GTATAGGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTAATTTTAATTTTAATTTTA
Found at i:9015380 original size:6 final size:6
Alignment explanation
Indices: 9015324--9015373 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
9015314 ATTTTGCTTG
* * *
9015324 ATTTTA ACTTTG ATTTTA ATTTT- A-TTTA ATTTTA ATTTTA ATTTTG
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
9015370 ATTT
1 ATTT
9015374 ATTTTTAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 3 0.08
5 2 0.05
6 32 0.86
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:9016002 original size:14 final size:14
Alignment explanation
Indices: 9015979--9016008 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9015969 TTTTTGGGAG
9015979 TTTTGAATTTTTTT
1 TTTTGAATTTTTTT
*
9015993 TTTTGGATTTTTTT
1 TTTTGAATTTTTTT
9016007 TT
1 TT
9016009 GGTTTGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (14 bp):
TTTTGAATTTTTTT
Found at i:9016578 original size:22 final size:26
Alignment explanation
Indices: 9016546--9016607 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 26
9016536 TGCTTTTTTG
*
9016546 ATTTTTATTTTATTTTCTA-A-TT-T
1 ATTTTTGTTTTATTTTCTATATTTAT
*
9016569 -TTTTTGTTTTATTTTTTATATTTAT
1 ATTTTTGTTTTATTTTCTATATTTAT
9016594 ATTTTTGTTTTATT
1 ATTTTTGTTTTATT
9016608 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 16 0.48
23 1 0.03
24 2 0.06
25 1 0.03
26 13 0.39
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (26 bp):
ATTTTTGTTTTATTTTCTATATTTAT
Found at i:9016585 original size:29 final size:26
Alignment explanation
Indices: 9016539--9016615 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
9016529 TTTCTTTTGC
*
9016539 TTTTTTGATTTT-TATTTTATTTTCTAAT
1 TTTTTTG-TTTTATTTTTTATTTT-T-AT
*
9016567 TTTTTTTGTTTTATTTTTTATATTTAT
1 TT-TTTTGTTTTATTTTTTATTTTTAT
* *
9016594 ATTTTTGTTTTATTATTTATTT
1 TTTTTTGTTTTATTTTTTATTT
9016616 ATTTTAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 18 0.43
27 3 0.07
28 7 0.17
29 14 0.33
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (26 bp):
TTTTTTGTTTTATTTTTTATTTTTAT
Found at i:9016605 original size:26 final size:24
Alignment explanation
Indices: 9016546--9016620 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 24
9016536 TGCTTTTTTG
* *
9016546 ATTTTTATTTTATTTTCTA-ATTT
1 ATTTTTGTTTTATTTTTTATATTT
9016569 -TTTTTGTTTTATTTTTTATATTTAT
1 ATTTTTGTTTTATTTTTTATA-TT-T
*
9016594 ATTTTTGTTTTA-TTATT-TATTT
1 ATTTTTGTTTTATTTTTTATATTT
9016616 ATTTT
1 ATTTT
9016621 AATTGTGATT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
22 22 0.49
23 3 0.07
24 4 0.09
25 5 0.11
26 11 0.24
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (24 bp):
ATTTTTGTTTTATTTTTTATATTT
Found at i:9016621 original size:29 final size:29
Alignment explanation
Indices: 9016539--9016621 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
9016529 TTTCTTTTGC
* *
9016539 TTTTTTGATT-TTTATTTTATTTTCTAATT
1 TTTTTTTATTATTTA-TTTATTTTATAATT
*
9016568 TTTTTTGTTTTATTT-TTTATATTTAT-ATT
1 TTTTTT-TATTATTTATTTAT-TTTATAATT
9016597 TTTGTTTTATTATTTATTTATTTTA
1 TTT-TTTTATTATTTATTTATTTTA
9016622 ATTGTGATTG
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
29 28 0.62
30 14 0.31
31 3 0.07
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (29 bp):
TTTTTTTATTATTTATTTATTTTATAATT
Found at i:9016737 original size:24 final size:23
Alignment explanation
Indices: 9016703--9016776 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 23
9016693 TACAATATAT
9016703 TTGCATGATATGATCTTATATTTA
1 TTGCATGATATGAT-TTATATTTA
*
9016727 TTGCATAATATGATTTTATATTTA
1 TTGCATGATATGA-TTTATATTTA
*
9016751 TTACATGATATGATTATATATTTA
1 TTGCATGATATGATT-TATATTTA
9016775 TT
1 TT
9016777 TATATGTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 2 0.04
24 42 0.93
25 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.53
Consensus pattern (23 bp):
TTGCATGATATGATTTATATTTA
Found at i:9016994 original size:22 final size:20
Alignment explanation
Indices: 9016953--9016993 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9016943 GCATGATTTG
9016953 TTGCATGATATATAATATTA
1 TTGCATGATATATAATATTA
*
9016973 TTGCATGATAT-TTATATTA
1 TTGCATGATATATAATATTA
9016992 TT
1 TT
9016994 ACATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TTGCATGATATATAATATTA
Found at i:9020939 original size:19 final size:20
Alignment explanation
Indices: 9020894--9020940 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
9020884 ACCTAAGTGC
9020894 ATAATTTTGAATATGAATAT
1 ATAATTTTGAATATGAATAT
* * *
9020914 TTGAATTTTGTATGTGAAT-T
1 AT-AATTTTGAATATGAATAT
9020934 ATAATTT
1 ATAATTT
9020941 ACGAATCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
ATAATTTTGAATATGAATAT
Found at i:9021241 original size:17 final size:17
Alignment explanation
Indices: 9021221--9021440 Score: 120
Period size: 17 Copynumber: 12.9 Consensus size: 17
9021211 CCTATGAACC
*
9021221 TAAAATTGTTGCGAATT
1 TAAAATTCTTGCGAATT
* *
9021238 TAAAGTTCTTGCGAACT
1 TAAAATTCTTGCGAATT
* *
9021255 TGAAATTCTTACGAATT
1 TAAAATTCTTGCGAATT
* * *
9021272 AAAAATTCTTGTGAAAT
1 TAAAATTCTTGCGAATT
* * * *
9021289 TGAATTTCTTGTGAATA
1 TAAAATTCTTGCGAATT
* * * *
9021306 TGAAATTTTTACGAATA
1 TAAAATTCTTGCGAATT
* *
9021323 TAAAATTCTCGCAAATT
1 TAAAATTCTTGCGAATT
* *
9021340 TGAAATTCTT-TGAATCT
1 TAAAATTCTTGCGAAT-T
* * *
9021357 TTAAATTATGGCGAATT
1 TAAAATTCTTGCGAATT
* * *
9021374 T-GAGTTCTTACGAATT
1 TAAAATTCTTGCGAATT
* *
9021390 TGAAAATTTTTGCGAATA
1 T-AAAATTCTTGCGAATT
* *
9021408 TGAAATTCTTGCAAATT
1 TAAAATTCTTGCGAATT
**
9021425 TGTAATTCTTGCGAAT
1 TAAAATTCTTGCGAAT
9021441 ATTCAATTTT
Statistics
Matches: 148, Mismatches: 51, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
16 14 0.09
17 119 0.80
18 15 0.10
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (17 bp):
TAAAATTCTTGCGAATT
Found at i:9021343 original size:85 final size:85
Alignment explanation
Indices: 9021222--9021440 Score: 199
Period size: 85 Copynumber: 2.6 Consensus size: 85
9021212 CTATGAACCT
* * * * * * * * * *
9021222 AAAATTGTTGCGAATTTAAAGTTCTTGCGAACTTGAAATTCTTACGAAT-TAAAAATTCTTGTGA
1 AAAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTT-CGAATCTAAAAATTATGGCGA
* **
9021286 AATTGAATTTCTTGTGAATATG
65 AATTG-AGTTCTTACGAATATG
* **
9021308 -AAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTTTGAATCTTTAAATTATGGCGAA
1 AAAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTTCGAATCTAAAAATTATGGCGAA
* *
9021372 TTTGAGTTCTTACGAATTTG
66 ATTGAGTTCTTACGAATATG
* * * *
9021392 AAAATTTTTGCGAATATGAAATTCTTGCAAATTTGTAATTCTTGCGAAT
1 AAAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTT-CGAAT
9021441 ATTCAATTTT
Statistics
Matches: 107, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
84 16 0.15
85 87 0.81
86 4 0.04
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (85 bp):
AAAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTTCGAATCTAAAAATTATGGCGAA
ATTGAGTTCTTACGAATATG
Found at i:9021425 original size:51 final size:50
Alignment explanation
Indices: 9021370--9021473 Score: 113
Period size: 51 Copynumber: 2.1 Consensus size: 50
9021360 AATTATGGCG
* *
9021370 AATTTG-AGTTCTTACGAAT-TTGAAAATTTTTGCGAATATGAAATTCTTGCA
1 AATTTGTAATTCTTACGAATATT--AAATTTTTGCAAATATG-AATTCTTGCA
* * * *
9021421 AATTTGTAATTCTTGCGAATATTCAATTTTTGCAAATTTGAGTTCTTGCA
1 AATTTGTAATTCTTACGAATATTAAATTTTTGCAAATATGAATTCTTGCA
9021471 AAT
1 AAT
9021474 CTTTTATTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
50 12 0.27
51 20 0.44
52 11 0.24
53 2 0.04
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (50 bp):
AATTTGTAATTCTTACGAATATTAAATTTTTGCAAATATGAATTCTTGCA
Found at i:9021437 original size:34 final size:33
Alignment explanation
Indices: 9021394--9021469 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 33
9021384 CGAATTTGAA
*
9021394 AATTTTTGCGAATATGAAATTCTTGCAAATTTG
1 AATTCTTGCGAATATGAAATTCTTGCAAATTTG
** *
9021427 TAATTCTTGCGAATATTCAATTTTTGCAAATTTG
1 -AATTCTTGCGAATATGAAATTCTTGCAAATTTG
*
9021461 AGTTCTTGC
1 AATTCTTGC
9021470 AAATCTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 8 0.22
34 29 0.78
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (33 bp):
AATTCTTGCGAATATGAAATTCTTGCAAATTTG
Found at i:9021459 original size:85 final size:85
Alignment explanation
Indices: 9021308--9021467 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 85
9021298 TGTGAATATG
* * *
9021308 AAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTTTGAATCTTTAAATTATGGCGAAT
1 AAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTTCGAATCATTAAATTATGGCAAAT
9021373 TTGAGTTCTTACGAATTTGA
66 TTGAGTTCTTACGAATTTGA
* * * * * * *
9021393 AAATTTTTGCGAATATGAAATTCTTGCAAATTTGTAATTCTTGCGAAT-ATTCAATTTTTGCAAA
1 AAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTT-CGAATCATTAAATTATGGCAAA
9021457 TTTGAGTTCTT
65 TTTGAGTTCTT
9021468 GCAAATCTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
85 60 0.94
86 4 0.06
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (85 bp):
AAATTTTTACGAATATAAAATTCTCGCAAATTTGAAATTCTTCGAATCATTAAATTATGGCAAAT
TTGAGTTCTTACGAATTTGA
Found at i:9021518 original size:50 final size:51
Alignment explanation
Indices: 9021394--9021518 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 51
9021384 CGAATTTGAA
*
9021394 AATTTTTGCGAATATGAAATTCTTGCAAATTTGTAATTCTTGCGAATATTC
1 AATTTTTGCGAATTTGAAATTCTTGCAAATTTGTAATTCTTGCGAATATTC
* * * * *
9021445 AATTTTTGCAAATTTG-AGTTCTTGCAAATCTT-TTATTCTTGTGAATA-TG
1 AATTTTTGCGAATTTGAAATTCTTGCAAAT-TTGTAATTCTTGCGAATATTC
* *
9021494 AGTTTTTGCGAATTTGAAAATCTTG
1 AATTTTTGCGAATTTGAAATTCTTG
9021519 TGAATTTGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
49 15 0.24
50 31 0.50
51 16 0.26
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (51 bp):
AATTTTTGCGAATTTGAAATTCTTGCAAATTTGTAATTCTTGCGAATATTC
Found at i:9021835 original size:24 final size:23
Alignment explanation
Indices: 9021776--9021854 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 23
9021766 AGGGGTAGTT
* *
9021776 ATATATTTATTTGCATGATTAT-
1 ATATATTTAATTGCATGATTTTA
* *
9021798 ATTTAATTTGATTGCATGATTGTTA
1 ATAT-ATTTAATTGCATGATT-TTA
*
9021823 ATATATTTAATTGTATGATTATTA
1 ATATATTTAATTGCATGATT-TTA
9021847 ATAT-TTTA
1 ATATATTTA
9021855 GTTGTCTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 3 0.07
23 18 0.39
24 22 0.48
25 3 0.07
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (23 bp):
ATATATTTAATTGCATGATTTTA
Found at i:9021869 original size:24 final size:24
Alignment explanation
Indices: 9021776--9021869 Score: 77
Period size: 23 Copynumber: 4.0 Consensus size: 24
9021766 AGGGGTAGTT
* *
9021776 ATATATTTATTTGCATGATTA-T-
1 ATATATTTAATTGTATGATTATTA
* * * *
9021798 ATTTAATTTGATTGCATGATTGTTA
1 ATAT-ATTTAATTGTATGATTATTA
9021823 ATATATTTAATTGTATGATTATTA
1 ATATATTTAATTGTATGATTATTA
* *
9021847 ATAT-TTTAGTTGTCTGATATATT
1 ATATATTTAATTGTATGAT-TATT
9021870 TGATTACATG
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
22 3 0.05
23 26 0.45
24 26 0.45
25 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (24 bp):
ATATATTTAATTGTATGATTATTA
Found at i:9022000 original size:19 final size:20
Alignment explanation
Indices: 9021964--9022004 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
9021954 GCATGATTTG
9021964 TTGCATGATATGTTATATTA
1 TTGCATGATATGTTATATTA
9021984 TTGCATGATAT-TTATATTA
1 TTGCATGATATGTTATATTA
9022003 TT
1 TT
9022005 ACATTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (20 bp):
TTGCATGATATGTTATATTA
Found at i:9026368 original size:21 final size:20
Alignment explanation
Indices: 9026344--9026400 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
9026334 ACAAACATTA
*
9026344 TTTAAATATTTAAAATTATTT
1 TTTAAATATTTAAAATT-TAT
**
9026365 TTTAAAATAAATAAAATTTAT
1 TTT-AAATATTTAAAATTTAT
9026386 TTTAAATTATTTAAA
1 TTTAAA-TATTTAAA
9026401 TGTGTAGCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAATATTTAAAATTTAT
Done.