Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167875.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_143, 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: 66668
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
File 2 of 2
Found at i:47213 original size:17 final size:17
Alignment explanation
Indices: 47191--47243 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
47181 ATATTTATAC
47191 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
47208 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
47226 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
47242 TA
1 TA
47244 ACAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:47216 original size:22 final size:22
Alignment explanation
Indices: 47175--47241 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
47165 TTAATATTTA
* * *
47175 AAATTAATATTTATACTATATTT
1 AAATTAAT-TATATATTATAATT
*
47198 TAATTAATTATATATTATAATT
1 AAATTAATTATATATTATAATT
47220 AAATTAGATTAT-TATT-TAATT
1 AAATTA-ATTATATATTATAATT
47241 A
1 A
47242 TAACAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 6 0.16
22 20 0.53
23 12 0.32
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
AAATTAATTATATATTATAATT
Found at i:47947 original size:92 final size:92
Alignment explanation
Indices: 47858--48078 Score: 397
Period size: 92 Copynumber: 2.4 Consensus size: 92
47848 TTGTTTTATG
* *
47858 ACAAAACAAAATGTCATAATGTTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
1 ACAAAATAAAATGTCATAATATTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
47923 TGATCGATAAGAAACAATTATTTTACA
66 TGATCGATAAGAAACAATTATTTTACA
47950 ACAAAATAAAATGTCATAATATTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
1 ACAAAATAAAATGTCATAATATTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
48015 TGATCGATAAGAAACAATTATTTTACA
66 TGATCGATAAGAAACAATTATTTTACA
* * *
48042 ACAAAATAAAATGTCATAACAATTTGAAATAGATAAT
1 ACAAAATAAAATGTCATAATATTTTGAAATTGATAAT
48079 AGTTCAAATG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 124 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (92 bp):
ACAAAATAAAATGTCATAATATTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
TGATCGATAAGAAACAATTATTTTACA
Found at i:48099 original size:92 final size:92
Alignment explanation
Indices: 47858--48106 Score: 311
Period size: 92 Copynumber: 2.7 Consensus size: 92
47848 TTGTTTTATG
* *** * * * * *
47858 ACAAAACAAAATGTCATAATGTTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
1 ACAAAATAAAATGTCATAACAATTTGAAATAGATAATTATTCAAATAGACATAACTATTTCAACT
47923 TGATCGATAAGAAACAATTATTTTACA
66 TGATCGATAAGAAACAATTATTTTACA
* * * * * * *
47950 ACAAAATAAAATGTCATAATATTTTGAAATTGATAATTATTTAGATAGTCGTAACTATTTCAACT
1 ACAAAATAAAATGTCATAACAATTTGAAATAGATAATTATTCAAATAGACATAACTATTTCAACT
48015 TGATCGATAAGAAACAATTATTTTACA
66 TGATCGATAAGAAACAATTATTTTACA
* * *
48042 ACAAAATAAAATGTCATAACAATTTGAAATAGATAA-TAGTTCAAATGGACATGACTATTTGAAC
1 ACAAAATAAAATGTCATAACAATTTGAAATAGATAATTA-TTCAAATAGACATAACTATTTCAAC
48106 T
65 T
48107 GGTTCGGTAA
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 2 0.01
92 142 0.99
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (92 bp):
ACAAAATAAAATGTCATAACAATTTGAAATAGATAATTATTCAAATAGACATAACTATTTCAACT
TGATCGATAAGAAACAATTATTTTACA
Found at i:48279 original size:146 final size:144
Alignment explanation
Indices: 48095--48394 Score: 363
Period size: 144 Copynumber: 2.1 Consensus size: 144
48085 AATGGACATG
** *
48095 ACTATTTGAACTGGTTCGGTAAACTAATTAATTTTTTAAATCTT-TAACTTATTAATTTTTAGAA
1 ACTATTTGAACTACTTCGGTAAACAAATTAATTTTTTAAATCTTCT-ACTTATTAA-TTTTAGAA
* * * *
48159 TGTTAA-TATATTAGTATTATTTTACTCCAAATAAACTTGTATGAATAGAAACAATTATTTTATA
64 TATTAATTA-ATTAGAATTATTTTACTCC-AATAAACTTGTATGAACAGAAACAATTAGTTTATA
*
48223 ACAAAGCAAAAGATTATA
127 ACAAAACAAAAGATTATA
* *
48241 ACTATTTGAACTCACTT-GGTAAACAAATTTATTTTTTAAATCTTCTACTTATTAATTTTGGAAT
1 ACTATTTGAACT-ACTTCGGTAAACAAATTAATTTTTTAAATCTTCTACTTATTAATTTTAGAAT
* * * * *
48305 ATTAATTAATTAGAATTATTTTATTCCAATAAGCTTGTTTGAACAGAAACAATTGGTTTATGACA
65 ATTAATTAATTAGAATTATTTTACTCCAATAAACTTGTATGAACAGAAACAATTAGTTTATAACA
* * *
48370 AAATAAATGGTTATA
130 AAACAAAAGATTATA
*
48385 ATTATTTGAA
1 ACTATTTGAA
48395 ATAGATAATT
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
144 52 0.39
145 29 0.22
146 48 0.36
147 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (144 bp):
ACTATTTGAACTACTTCGGTAAACAAATTAATTTTTTAAATCTTCTACTTATTAATTTTAGAATA
TTAATTAATTAGAATTATTTTACTCCAATAAACTTGTATGAACAGAAACAATTAGTTTATAACAA
AACAAAAGATTATA
Found at i:48487 original size:179 final size:180
Alignment explanation
Indices: 48268--48606 Score: 436
Period size: 180 Copynumber: 1.9 Consensus size: 180
48258 GGTAAACAAA
* * * * *
48268 TTTATTTTTTAAATCTTCTACTTATTAATTTTGGAATATTAATTAA-TTAGAATTATTTTATTC-
1 TTTATTTTCTAAATATTATACTTATTAATTTTGAAATATTAATAAATTTA-AATTATTTTATTCA
* ** * *
48331 CAATAAGCTTGTTTGAACAGAAACAATTGGTTTATGACAAAA-TAAATGGTTATAAT-TATTTGA
65 AAATAAGCTTGCATGAACAGAAACAATTGGTTTATGACAAAACAAAAT-GTCATAATGT-TTTGA
*
48394 AATAGATAATTGTTCAAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGC
128 AATAGATAATTATTCAAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGC
*
48447 TTTATTTTCTAAA-ATTATACTTATTAATTTTTGAAATATTAATAAATTTATATTATTTTATTCA
1 TTTATTTTCTAAATATTATACTTATTAA-TTTTGAAATATTAATAAATTTAAATTATTTTATTCA
* * * * *
48511 AAATATGCTTGCATGAACATAACCAATTGTTTTATGATAAAACAAAATGTCATAATGTTTTGAAA
65 AAATAAGCTTGCATGAACAGAAACAATTGGTTTATGACAAAACAAAATGTCATAATGTTTTGAAA
* *
48576 TAGATAATTATTTAGATAGTCATAACTATTT
130 TAGATAATTATTCAAATAGTCATAACTATTT
48607 CAACTTGATC
Statistics
Matches: 136, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
178 12 0.09
179 40 0.29
180 79 0.58
181 5 0.04
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.44
Consensus pattern (180 bp):
TTTATTTTCTAAATATTATACTTATTAATTTTGAAATATTAATAAATTTAAATTATTTTATTCAA
AATAAGCTTGCATGAACAGAAACAATTGGTTTATGACAAAACAAAATGTCATAATGTTTTGAAAT
AGATAATTATTCAAATAGTCATAACTATTTGAATGTGTTCAGAAAATAGC
Found at i:49305 original size:22 final size:20
Alignment explanation
Indices: 49280--49380 Score: 68
Period size: 22 Copynumber: 4.9 Consensus size: 20
49270 CAATTAATCC
49280 TTAAATATTAATCTAATTCATT
1 TTAAATATTAATC-AATT-ATT
* *
49302 TTAAAT-TTAATAAAATAACATT
1 TTAAATATTAAT-CAAT--TATT
*
49324 TTTAA-ATTAATAACAATTATT
1 TTAAATATTAAT--CAATTATT
49345 TTAAATATTAA-CAATTATT
1 TTAAATATTAATCAATTATT
49364 ATTAAATA-TAAT-AATTA
1 -TTAAATATTAATCAATTA
49381 AAATTATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
19 16 0.25
20 7 0.11
21 15 0.23
22 23 0.35
23 4 0.06
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATATTAATCAATTATT
Found at i:49348 original size:20 final size:20
Alignment explanation
Indices: 49323--49377 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 20
49313 AAAATAACAT
49323 TTTTAAATTAATAACAATTA
1 TTTTAAATTAATAACAATTA
*
49343 TTTTAAA-TATTAACAATTA
1 TTTTAAATTAATAACAATTA
49362 TTATTAAATATAATAA
1 TT-TTAAAT-TAATAA
49378 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.43
20 12 0.40
22 5 0.17
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAATTAATAACAATTA
Found at i:49358 original size:19 final size:19
Alignment explanation
Indices: 49323--49372 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
49313 AAAATAACAT
*
49323 TTTTAAATTAATAACAATTA
1 TTTTAAA-TATTAACAATTA
49343 TTTTAAATATTAACAATTA
1 TTTTAAATATTAACAATTA
49362 TTATTAAATAT
1 TT-TTAAATAT
49373 AATAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTAAATATTAACAATTA
Found at i:49368 original size:13 final size:12
Alignment explanation
Indices: 49350--49402 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
49340 TTATTTTAAA
49350 TATTAACAATTAT
1 TATTAA-AATTAT
*
49363 TATTAAATATAAT
1 TATTAAA-ATTAT
*
49376 AATTAAAATTAT
1 TATTAAAATTAT
* *
49388 TAATATAATTAT
1 TATTAAAATTAT
49400 TAT
1 TAT
49403 ATTTTGTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 16 0.50
13 16 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:49541 original size:30 final size:29
Alignment explanation
Indices: 49507--49585 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
49497 CTTTATTAAC
*
49507 AAATATAATAATTAATATAGTAAAT-ATTA
1 AAATATTATAATTAATATA-TAAATAATTA
*
49536 TAAATATTATAAATT-ATAATATAATTAATTA
1 -AAATATTAT-AATTAAT-ATATAAATAATTA
*
49567 AAATATTATTATTAATATA
1 AAATATTATAATTAATATA
49586 ATTGTTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
29 6 0.14
30 25 0.60
31 11 0.26
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
AAATATTATAATTAATATATAAATAATTA
Found at i:49546 original size:21 final size:21
Alignment explanation
Indices: 49507--49546 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49497 CTTTATTAAC
*
49507 AAATATAATAATTAATATAGT
1 AAATATAATAAATAATATAGT
* *
49528 AAATATTATAAATATTATA
1 AAATATAATAAATAATATA
49547 AATTATAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATATAATAAATAATATAGT
Found at i:49565 original size:15 final size:15
Alignment explanation
Indices: 49532--49588 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
49522 TATAGTAAAT
* *
49532 ATTATAAATATTATAA
1 ATTAT-AATATAATTA
49548 ATTATAATATAATTA
1 ATTATAATATAATTA
49563 ATTA-AA-AT-ATT-
1 ATTATAATATAATTA
49574 ATTATTAATATAATT
1 ATTA-TAATATAATT
49589 GTTATATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 4 0.11
12 3 0.09
13 4 0.11
14 4 0.11
15 15 0.43
16 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATAATATAATTA
Found at i:49706 original size:20 final size:22
Alignment explanation
Indices: 49678--49719 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
49668 TTTGACATAT
*
49678 AATATTATATT-T-ATATATAA
1 AATAATATATTCTAATATATAA
49698 AATAATATATTCTAATATATAA
1 AATAATATATTCTAATATATAA
49720 TTAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATATATTCTAATATATAA
Found at i:49818 original size:30 final size:30
Alignment explanation
Indices: 49775--49849 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
49765 ATACATATTT
49775 AATATA-T-TAATTACTAATTATAGT-TTA-A
1 AATATATTATAATTAC-AA-TATAGTATTATA
*
49803 AATATATTATAATTACAATATATTATTATA
1 AATATATTATAATTACAATATAGTATTATA
49833 AATATATATATATATTA
1 AATATAT-TATA-ATTA
49850 TACTGTATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 11 0.28
29 6 0.15
30 15 0.38
31 4 0.10
32 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATATTATAATTACAATATAGTATTATA
Found at i:49824 original size:16 final size:15
Alignment explanation
Indices: 49802--49893 Score: 55
Period size: 16 Copynumber: 5.9 Consensus size: 15
49792 TTATAGTTTA
49802 AAATATATTATAATT
1 AAATATATTATAATT
*
49817 ACAATATATTATTA-T
1 A-AATATATTATAATT
49832 AAATATATATATATATT
1 AAATATAT-TATA-ATT
* *
49849 ATACTGTATTATTAATT
1 A-AATATATTA-TAATT
* *
49866 -TATA-ATTATATTT
1 AAATATATTATAATT
49879 ATAATATATATATAA
1 A-AATATAT-TATAA
49894 ACTTAATAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
13 4 0.07
14 11 0.19
15 10 0.18
16 14 0.25
17 11 0.19
18 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (15 bp):
AAATATATTATAATT
Found at i:49831 original size:19 final size:19
Alignment explanation
Indices: 49804--49851 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
49794 ATAGTTTAAA
*
49804 ATATATTATAATTACAATAT
1 ATATATTATAAATA-AATAT
*
49824 AT-TATTATAAATATATAT
1 ATATATTATAAATAAATAT
49842 ATATATTATA
1 ATATATTATA
49852 CTGTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 17 0.68
20 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATATTATAAATAAATAT
Found at i:49846 original size:14 final size:14
Alignment explanation
Indices: 49775--49839 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 14
49765 ATACATATTT
49775 AATATATTAATTACTA
1 AATATATT-ATTA-TA
* *
49791 ATTATAGT-TTA-A
1 AATATATTATTATA
*
49803 AATATATTATAATTA
1 AATATATTATTA-TA
49818 CAATATATTATTATA
1 -AATATATTATTATA
49833 AATATAT
1 AATATAT
49840 ATATATATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 7 0.18
13 2 0.05
14 10 0.26
15 3 0.08
16 17 0.44
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (14 bp):
AATATATTATTATA
Found at i:49859 original size:76 final size:76
Alignment explanation
Indices: 49726--49893 Score: 173
Period size: 76 Copynumber: 2.2 Consensus size: 76
49716 ATAATTAAAT
* * * * *
49726 AAATATATTATTATTACATATAATTGTTTTAATTTTATAATACATATTTAATA-TATTAA-TTAC
1 AAATATATTATAATTACATATAATTATTATAAATATATAATACATATTTAATATTATTAATTTA-
49789 TAATTATAGTTTA
65 TAATTATA-TTTA
* *
49802 AAATATATTATAATTACA-ATATATTATTATAAATATAT-ATATATATTATACTGTATTATTAAT
1 AAATATATTATAATTACATATA-ATTATTATAAATATATAATACATATT-TA--ATATTATTAAT
49865 TTATAATTATATTTA
62 TTATAATTATATTTA
*
49880 TAATATATATATAA
1 AAATATAT-TATAA
49894 ACTTAATAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
75 11 0.14
76 31 0.40
78 13 0.17
79 19 0.25
80 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (76 bp):
AAATATATTATAATTACATATAATTATTATAAATATATAATACATATTTAATATTATTAATTTAT
AATTATATTTA
Found at i:49886 original size:11 final size:12
Alignment explanation
Indices: 49828--49893 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 12
49818 CAATATATTA
*
49828 TTATAAATATAT
1 TTATAATTATAT
*
49840 ATATATATTATACT
1 TTATA-ATTATA-T
* *
49854 GTATTATTA-AT
1 TTATAATTATAT
49865 TTATAATTATAT
1 TTATAATTATAT
49877 TTATAA-TATAT
1 TTATAATTATAT
*
49888 ATATAA
1 TTATAA
49894 ACTTAATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
11 18 0.41
12 13 0.30
13 9 0.20
14 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
TTATAATTATAT
Found at i:49938 original size:32 final size:31
Alignment explanation
Indices: 49805--49943 Score: 82
Period size: 29 Copynumber: 4.5 Consensus size: 31
49795 TAGTTTAAAA
* * *
49805 TATATTATAATTACAATATATTATTATAAATA-
1 TATAATAT-ATTATAATA-ATTATTATTAATAC
* * *
49837 TATATATATATTATACT--GTATTATTAAT-T
1 TATA-ATATATTATAATAATTATTATTAATAC
49866 TATAATTATATT-T-ATAA-TATATATATAA-AC
1 TATAA-TATATTATAATAATTAT-TAT-TAATAC
49896 T-TAATAATATTATCAATAATTATTATTAATAC
1 TATAAT-ATATTAT-AATAATTATTATTAATAC
49928 TATAATATATT-TAATA
1 TATAATATATTATAATA
49944 GTTAAATCAT
Statistics
Matches: 85, Mismatches: 7, Indels: 32
0.69 0.06 0.26
Matches are distributed among these distances:
27 1 0.01
28 6 0.07
29 30 0.35
30 9 0.11
31 4 0.05
32 25 0.29
33 10 0.12
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.49
Consensus pattern (31 bp):
TATAATATATTATAATAATTATTATTAATAC
Found at i:50006 original size:23 final size:23
Alignment explanation
Indices: 49956--49999 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
49946 TAAATCATTT
49956 ATAATTATAATAAAAAATATTAA
1 ATAATTATAATAAAAAATATTAA
*
49979 ATAATT-TACTAAAAAA-ATTAA
1 ATAATTATAATAAAAAATATTAA
50000 TATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATTATAATAAAAAATATTAA
Found at i:50188 original size:12 final size:12
Alignment explanation
Indices: 50171--50195 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50161 TTATTATAGC
50171 TTATTTAAATTA
1 TTATTTAAATTA
50183 TTATTTAAATTA
1 TTATTTAAATTA
50195 T
1 T
50196 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTTAAATTA
Found at i:50749 original size:16 final size:17
Alignment explanation
Indices: 50728--50760 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50718 TAACAATTTG
50728 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
50744 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
50761 TGAACTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:50844 original size:181 final size:180
Alignment explanation
Indices: 50218--51352 Score: 816
Period size: 181 Copynumber: 6.3 Consensus size: 180
50208 ATTTAACATG
* * * **
50218 ACTATTTGAACTTGTTCGGTAAACAT-ATTCATTTTTTAAATCTCTTAATTATTAATTTTCAAAA
1 ACTATTTGAACTAGTTTGGTAAACATAATT-ATTTTTTAAATCTCTTACTTATTAATTTTTGAAA
* ** * *
50282 TATTAATAACTT-GATATTATTTTATTTCGAATATGCTTATATGAATTGAAATA-ATTTTTTTAT
65 TATTAATAAATTAG-TATTATTTTATTTCGAATAAACTTATATGAA-T-AAAAACATTGTTTTAT
* * ** * * * *
50345 GACAAAAGAAAATGTCATAATGATTTAAAATAGATAACTATTCAAATAGTTATG
127 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * ** * * * * * **
50399 ACTGTTTGATCTAGTTCAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAA
1 ACTATTTGAACTAGTTTGGTAAACATAATT-ATTTTTTAAATCTCTTACTTATTAATTTTTGAAA
* * * * * * * * * *
50464 TATTAATAAATTTGTATTATTTTAATCCAAATAAGCTTGA-ATAAATAGAAACTATTATCTTATA
65 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTT-ATATGAATAAAAAC-ATTGTTTTATG
* * * ** * * *
50528 ACAGAATAAAAAGTCATAATGATTTAAAATAAATAATTACTT-AAATAGTC-TT
128 ACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTA-TTCAAATAGTCATA
* * * * * *
50580 A--ATTTGAACCAATTTGATAAACAGATTTATTTTTTAAA-AT-TT--TTATTAATTTTTGAAAT
1 ACTATTTGAACTAGTTTGGTAAACATAATTATTTTTTAAATCTCTTACTTATTAATTTTTGAAAT
* * * *
50639 ATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATACGAACAAAAACATTAGTTTTATGAC
66 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTATATGAATAAAAACATT-GTTTTATGAC
*
50704 AAAACAAAAAGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
130 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * *
50755 ATTATTTGAACTGGTTAGGTAAACATAATTAGTTTTTAATTCTCTTACTTATTAATTTTTGAAAT
1 ACTATTTGAACTAGTTTGGTAAACATAATTATTTTTTAAATCTCTTACTTATTAATTTTTGAAAT
* * * * * * *
50820 TTTAGTAAATTTA-TTTTATTTTA-TTCTAAATAAGC-TAGTATGAATTGAAAATATTGTTTTAT
66 ATTAATAAA-TTAGTATTATTTTATTTC-GAATAAACTTA-TATGAA-TAAAAACATTGTTTTAT
* * ** * * **
50882 GACAAAACAAATGGTTATAATGATTTGAAATAGATAATTATTTATATAGTTTTA
127 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * **
50936 ACTATTTGAAGTAGTTCGGTAAACA-ATTTTATTTTTTAAATCTCTTAGTTGTTAATTTTCAAAA
1 ACTATTTGAACTAGTTTGGTAAACATA-ATTATTTTTTAAATCTCTTACTTATTAATTTTTGAAA
* * * * * * *
51000 TATTATTAGATTAGTTTTATTTTATTTCAAATAAGCTTGTATAAATAGAAATA-ATTGTTTTATG
65 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTTATATGAATA-AAA-ACATTGTTTTATG
* * * * * * * * ** *
51064 ACAAAACAAAATGTTATAGCAATTGGAAGTATACAACTGCTCTAATAGTCATA
128 ACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * *
51117 ACTATTTGAATTGGTTTTGTAAA-TTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAA
1 ACTATTTGAACTAGTTTGGTAAACAT-AATTATTTTTTAAATCTCTTACTTATTAATTTTTGAAA
* * * * * **
51181 GATTAATAAATTAGTATTATTTTATTCCGAATAAGCTTGTATGATAAAAAAAACAATTGTCATAT
65 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTTATATG--AATAAAAAC-ATTGTTTTAT
* * * * * *
51246 GACCAAATAAAAGGTCAGAACAATTTGAAATAGATAATTATTGAAATGGCCATA
127 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * *
51300 ATTATTTGAACTAATTTGGTAAACAT-ATTCACTTTTTAAATCAT-TTACTTATT
1 ACTATTTGAACTAGTTTGGTAAACATAATT-ATTTTTTAAATC-TCTTACTTATT
51353 TGATTTTGTT
Statistics
Matches: 748, Mismatches: 171, Indels: 68
0.76 0.17 0.07
Matches are distributed among these distances:
173 6 0.01
174 98 0.13
175 2 0.00
176 2 0.00
177 29 0.04
178 10 0.01
179 21 0.03
180 13 0.02
181 339 0.45
182 136 0.18
183 90 0.12
184 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (180 bp):
ACTATTTGAACTAGTTTGGTAAACATAATTATTTTTTAAATCTCTTACTTATTAATTTTTGAAAT
ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTATATGAATAAAAACATTGTTTTATGACA
AAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
Found at i:51072 original size:362 final size:359
Alignment explanation
Indices: 50218--51224 Score: 1052
Period size: 362 Copynumber: 2.8 Consensus size: 359
50208 ATTTAACATG
* *
50218 ACTATTTGAACTTGTTCGGTAAAC-ATATTCATTTTTTAAATCTCTTAATTATTAATTTTCAAAA
1 ACTATTTGAACTAGTTCGGTAAACAAT-TTTATTTTTTAAATCTCTT-ATTATTAATTTTCAAAA
* * *
50282 TATTAATA-ACTT-GATATTATTTTATTTCGAATATGCTTATATGAATTGAAATAATTTTTTTAT
64 TATTAATAGA-TTAG-TATTATTTTATTTCGAATAAGCTTATATGAATAGAAATAATTGTTTTAT
* ** * * * * *
50345 GACAAAAGAAAATGTCATAATGATTTAAAATAGATAACTATTCAAATAGTTATGACTGTTTGATC
127 GACAAAACAAAATGTCATAACAATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAAC
* * * **
50410 TAGTTCAGTAAACATATTTAATTTTTTACATT-TTTTACTTATTAATTGTCAAAATATTAATAAA
192 TGGTT-AGTAAACATATTT-ATTTTTTA-ATTCTCTTACTTATTAATTTTTGAAATATTAATAAA
* * * * * * *
50474 TTTGTATTATTTTAATCCAAATAAGCTTGAATAAATAGAAACTATTATCTTATAACAGAATAAAA
254 TTTATATTATTTTATTCCAAATAAGCTTGTATGAATAGAAAATATTATCTTATAACAAAACAAAA
50539 AGTCATAATGATTTAAAATAAATAATTACTTAAATAGTCTT
319 AGTCATAATGATTTAAAATAAATAATTACTTAAATAGTCTT
* * * * * **
50580 A--ATTTGAACCAATTTGATAAACAGA-TTTATTTTTTAAA-AT-TT-TTATTAATTTTTGAAAT
1 ACTATTTGAACTAGTTCGGTAAACA-ATTTTATTTTTTAAATCTCTTATTATTAATTTTCAAAAT
* * * *
50639 ATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATACGAACA-AAA-ACATTAGTTTTATG
65 ATTAATAGATTAGTATTATTTTATTTCGAATAAGCTTATATGAATAGAAATA-ATT-GTTTTATG
* * *
50702 ACAAAACAAAAAGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAACT
128 ACAAAACAAAATGTCATAACAATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACT
* * * *
50767 GGTTAGGTAAACATAATTAGTTTTTAATTCTCTTACTTATTAATTTTTGAAATTTTAGTAAATTT
193 GGTTA-GTAAACATATTTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATATTAATAAATTT
* * * * * * * **
50832 ATTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGACAAAACAAATGGT
257 ATATTATTTTATTCCAAATAAGCTTGTATGAATAGAAAATATTATCTTATAACAAAACAAAAAGT
* * * * * *
50897 TATAATGATTTGAAATAGATAATTATTTATATAGTTTT
322 CATAATGATTTAAAATAAATAATTACTTAAATAGTCTT
* *
50935 AACTATTTGAAGTAGTTCGGTAAACAATTTTATTTTTTAAATCTCTTAGTTGTTAATTTTCAAAA
1 -ACTATTTGAACTAGTTCGGTAAACAATTTTATTTTTTAAATCTCTTA-TTATTAATTTTCAAAA
* * * * *
51000 TATTATTAGATTAGTTTTATTTTATTTCAAATAAGCTTGTATAAATAGAAATAATTGTTTTATGA
64 TATTAATAGATTAGTATTATTTTATTTCGAATAAGCTTATATGAATAGAAATAATTGTTTTATGA
* * * * * * ** * *
51065 CAAAACAAAATGTTATAGCAATTGGAAGTATACAACTGCTCTAATAGTCATAACTATTTGAATTG
129 CAAAACAAAATGTCATAACAATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTG
* * * *
51130 GTTTTGTAAA-TTGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAAGATTAATAAA-TT
194 G-TTAGTAAACAT-ATTTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATATTAATAAATTT
*
51193 AGTATTATTTTATTCCGAATAAGCTTGTATGA
257 A-TATTATTTTATTCCAAATAAGCTTGTATGA
51225 TAAAAAAAAC
Statistics
Matches: 523, Mismatches: 101, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
354 4 0.01
355 124 0.24
356 127 0.24
357 3 0.01
358 32 0.06
359 2 0.00
360 30 0.06
361 4 0.01
362 188 0.36
363 8 0.02
364 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (359 bp):
ACTATTTGAACTAGTTCGGTAAACAATTTTATTTTTTAAATCTCTTATTATTAATTTTCAAAATA
TTAATAGATTAGTATTATTTTATTTCGAATAAGCTTATATGAATAGAAATAATTGTTTTATGACA
AAACAAAATGTCATAACAATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTGGT
TAGTAAACATATTTATTTTTTAATTCTCTTACTTATTAATTTTTGAAATATTAATAAATTTATAT
TATTTTATTCCAAATAAGCTTGTATGAATAGAAAATATTATCTTATAACAAAACAAAAAGTCATA
ATGATTTAAAATAAATAATTACTTAAATAGTCTT
Found at i:51737 original size:176 final size:174
Alignment explanation
Indices: 51373--51896 Score: 451
Period size: 176 Copynumber: 2.9 Consensus size: 174
51363 CAGTAAATAG
* * * *
51373 ATTTATTTTCTTAAATCTCTTTCATATTAATTTTTCAAATGTTAATAAATTAGTATTAATTTATT
1 ATTTATTTTC-TAAATCTC--T--TATTAAGTTTTCAAATATTATTAAATTAGTATTATTTTATT
* * * * * *
51438 CTGAATAAGCTTGTATGAACTGAAATAATTATTTTATGACT-AAACAAAAGATCAAAATGATATG
61 CTAAATAAGCTTGTATGAAC-AAAACAATTGTTTTATGA-TAAAACAAAAG-TCATAATGATTTG
* * **
51502 AAATAGATAATTATTCTAATAA-TTTTAACTATTTGAACTGATTCAGTAAACAA
123 AAATAGATAATTATTC--ATAAGTCTTAACTATTTGAACCGATTCAACAAACAA
* *
51555 ATTTATTTTCTAAATCTCTTATTAA-TTTTCAAAATATTATTAAATTAGTATTATTTTAATCCAA
1 ATTTATTTTCTAAATCTCTTATTAAGTTTTC-AAATATTATTAAATTAGTATTATTTTATTCTAA
* * *
51619 ATAAGCTTGTATGAACAAAACAATTGTTTTACGTTAAAAGAAAATGTCATAATGATTTGAAATAG
65 ATAAGCTTGTATGAACAAAACAATTGTTTTATGATAAAACAAAA-GTCATAATGATTTGAAATAG
* * ****
51684 ATAATCATTCATAGAGTCTTAACTATTTGAACCGGTTCAACAATTGC
129 ATAATTATTCATA-AGTCTTAACTATTTGAACCGATTCAACAAACAA
* * * * * *
51731 ATTTATTTTTTAATTTTTTTTAGTTATTAAGTTTTGAAATATTATTAAATAAGTATTATTTTATT
1 ATTTATTTTCTAA----ATCT-CTTATTAAGTTTTCAAATATTATTAAATTAGTATTATTTTATT
** * * * * * *
51796 CTAAATAAAATAGTATGAACAGAATCAATTGTTTGATGATAAAATAAAAGGTTATAACGATTTGA
61 CTAAATAAGCTTGTATGAACA-AAACAATTGTTTTATGATAAAACAAAA-GTCATAATGATTTGA
* * **
51861 AATAAATAATTATTCAAATAGTCAAAACTATTTGAA
124 AATAGATAATTATTCATA-AGTCTTAACTATTTGAA
51897 ATGGTTTGAT
Statistics
Matches: 281, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
174 3 0.01
175 2 0.01
176 85 0.30
177 50 0.18
179 1 0.00
180 2 0.01
181 59 0.21
182 79 0.28
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (174 bp):
ATTTATTTTCTAAATCTCTTATTAAGTTTTCAAATATTATTAAATTAGTATTATTTTATTCTAAA
TAAGCTTGTATGAACAAAACAATTGTTTTATGATAAAACAAAAGTCATAATGATTTGAAATAGAT
AATTATTCATAAGTCTTAACTATTTGAACCGATTCAACAAACAA
Found at i:52613 original size:11 final size:10
Alignment explanation
Indices: 52579--52628 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
52569 TTTATTAATA
52579 ATAATTA-AT
1 ATAATTATAT
*
52588 ATTAATTGTATT
1 A-TAATTATA-T
52600 ATAATTATTAT
1 ATAATTA-TAT
52611 ATAATTA-AT
1 ATAATTATAT
52620 ATAATTATA
1 ATAATTATA
52629 ATAGTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 10 0.29
10 6 0.18
11 14 0.41
12 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
ATAATTATAT
Found at i:53177 original size:180 final size:180
Alignment explanation
Indices: 52797--53207 Score: 462
Period size: 180 Copynumber: 2.3 Consensus size: 180
52787 AATAAATAGA
* *
52797 TAATCTCCTGCTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTATTCTAATTAGGCTT
1 TAATCTCCTGCTTATTAATTTTTGAAATATTAATAAAATAGTATTATTTTATTCTAATTAAGCTT
* * * *
52862 GTATGATGAACAACAATTGTCTTATGACAAAACAAAAGTTCAAAATGATTTGAAATAGATAATTG
66 GTATGATGAACAACAATTATCTTATGACAAAACAAAAGGTCAAAACGATTTAAAATAGATAATTG
* *
52927 TTCAAATGCCATAACTATTTGAACTGATTCAATAAAATGATTTATGTTTT
131 TTCAAATGCCATAACTATTTAAACTGATTCAATAAAATAATTTATGTTTT
* ** * * * * *
52977 AAATCTCCAACTTCTTAATTTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGA-TAAGCT
1 TAATCTCCTGCTTATTAATTTTTGAAATATTAATAAAATAGTATTATTTTATTCT-AATTAAGCT
* * * *
53041 TTTATGAAATG-A-AACAATTATTTTATGATAAAACAAAAGGTCATAACGATTTTAAAAT-GATA
65 TGTATG--ATGAACAACAATTATCTTATGACAAAACAAAAGGTCAAAACGA-TTTAAAATAGATA
* * * *
53103 ATTGTTTAAATAGTCATAACTATTTAAACTTG-TTTAGTAAACA-AATTTAT-TTTT
127 ATTGTTCAAAT-GCCATAACTATTTAAAC-TGATTCAATAAA-ATAATTTATGTTTT
*
53157 TAAT-TCCTTGCTTATTAATTTTTG-AATGTTAATAAAATAGTATTATTTTAT
1 TAATCTCC-TGCTTATTAATTTTTGAAATATTAATAAAATAGTATTATTTTAT
53208 GACTAAACAA
Statistics
Matches: 193, Mismatches: 30, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
179 27 0.14
180 123 0.64
181 37 0.19
182 6 0.03
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (180 bp):
TAATCTCCTGCTTATTAATTTTTGAAATATTAATAAAATAGTATTATTTTATTCTAATTAAGCTT
GTATGATGAACAACAATTATCTTATGACAAAACAAAAGGTCAAAACGATTTAAAATAGATAATTG
TTCAAATGCCATAACTATTTAAACTGATTCAATAAAATAATTTATGTTTT
Found at i:53590 original size:177 final size:176
Alignment explanation
Indices: 53202--53626 Score: 454
Period size: 180 Copynumber: 2.4 Consensus size: 176
53192 AATAGTATTA
* * * *
53202 TTTTATGACTAAACAAA-AGTCAGAATGATTTGAAATAGATAATTATTATAATAGTCTTAACTAT
1 TTTTATGACAAAACAAAGA-TCATAACGATTT-AAATAGATAATTATTA-AATAGTCATAACTAT
* * *
53266 TTGAACTAGTTCAACAAATATATTTATTTTTTAAATCTCTTACATATTAATTCTTAGAATATTAT
63 TTGAACTAGTTCAACAAATAGATATAGTTTTTAAATCTCTT--ATATTAATTCTTAGAATATTAT
* * *
53331 TAATTTAGTAATATTTTACTCTAAATAAATTTGTATGGATAGAAACAATTG
126 AAAATTAGTAATATTTTACTCTAAATAAATTTGTATGAATAGAAACAATTG
*
53382 TTTTATGACAAAACAAAGATCATATCGATTTAAGATAGATAATTATTCAAATAGTCATAACTATT
1 TTTTATGACAAAACAAAGATCATAACGATTTAA-ATAGATAATTATT-AAATAGTCATAACTATT
* * * **
53447 TGAA-TTGGTCTAATAAATAGATATAGTTTTTAAATCTC-T-TATTAATT-TTCATTATATTAAT
64 TGAACTAGTTC-AACAAATAGATATAGTTTTTAAATCTCTTATATTAATTCTT-AGAATATT-AT
* * * * *
53508 AAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTG
126 AAAATTAGTAATATTTTACTCTAAATAAATTTGTATGAATAGAAACAATTG
* * *
53559 TTTTATTG-CAAAACAAAGGGTC-TAACGATTTAAA-ATATAATTATTTAAATAGTCATAATTA-
1 TTTTA-TGACAAAACAAA-GATCATAACGATTTAAATAGATAATTA-TTAAATAGTCATAACTAT
53620 TTGAACT
63 TTGAACT
53627 CACTCAGTAA
Statistics
Matches: 210, Mismatches: 25, Indels: 25
0.81 0.10 0.10
Matches are distributed among these distances:
174 5 0.02
175 25 0.12
176 17 0.08
177 69 0.33
178 5 0.02
179 7 0.03
180 80 0.38
181 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (176 bp):
TTTTATGACAAAACAAAGATCATAACGATTTAAATAGATAATTATTAAATAGTCATAACTATTTG
AACTAGTTCAACAAATAGATATAGTTTTTAAATCTCTTATATTAATTCTTAGAATATTATAAAAT
TAGTAATATTTTACTCTAAATAAATTTGTATGAATAGAAACAATTG
Found at i:54068 original size:181 final size:180
Alignment explanation
Indices: 53202--54351 Score: 874
Period size: 181 Copynumber: 6.4 Consensus size: 180
53192 AATAGTATTA
* * * *
53202 TTTTATGACTAAACAAAA-GTCAGAATGATTTGAAATAGATAATTATT-ATAATAGTCTTAACTA
1 TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCA-AATAGTCATAACTA
* * * * * * *
53265 TTTGAACTAGTTCAACAAATATATTTATTTTTTAAATCTCTTACATATTAATTCTTAGAATATTA
65 TTTGAACTTGTTTAATAAATAAATTTATTTTTTAAA-CTCTTACTTATTAATTTTTGGAATATTA
* * * * ** *
53330 TTAATTTAGTAATATTTTACTCT-AAATAAATTTGTATGGATAGAAACAATTG
129 ATAAATTAGTATTATTTTA-TTTGAAATAAGCTTGTATGAATAGAAACAATTG
* *
53382 TTTTATGACAAAAC-AAAGATCATATCGATTT-AAGATAGATAATTATTCAAATAGTCATAACTA
1 TTTTATGACAAAACAAAAGGTCATAACGATTTGAA-ATAGATAATTATTCAAATAGTCATAACTA
* * * * ****
53445 TTTGAA-TTGGTCTAATAAATAGATATAGTTTTTAAA-TC-T-CTTATTAATTTTCATTATATTA
65 TTTGAACTT-GTTTAATAAATAAATTTATTTTTTAAACTCTTACTTATTAATTTTTGGAATATTA
**
53506 ATAAAATTAGTATTATTTTATTTTG-AATAATTTTGTATGAATAGAAACAATTG
129 AT-AAATTAGTATTATTTTA-TTTGAAATAAGCTTGTATGAATAGAAACAATTG
* * * *
53559 TTTTATTG-CAAAACAAAGGGTC-TAACGATTT-AAA-ATATAATTATTTAAATAGTCATAATTA
1 TTTTA-TGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTA
*** * * * * * * *
53620 -TTGAACTCACTCAGTAAACAAATTTATTTTTTAAAATAATTTTACTTATTAATTTTTGAAATTC
65 TTTGAACTTGTTTAATAAATAAATTTATTTTTT--AA-ACTCTTACTTATTAATTTTTGGAA-TA
* * * **
53684 TTAATAAA-TATTATTATGTTATTTTTG-AATATAGCTTTTAAAAATATGAAACAATTG
126 TTAATAAATTAGTATTAT-TT-TATTTGAAATA-AGCTTGTATGAATA-GAAACAATTG
* * * *
53741 GTTTATGAC-AAACAAGAAGGTCATAATGATTTGGAATAGAATTAATTGTTCAAAT-GATCAATA
1 TTTTATGACAAAACAA-AAGGTCATAACGATTTGAAATAG-A-TAATTATTCAAATAG-TC-ATA
* * * * * * * *
53804 A-TATTTTCAAACATGTTCAA-AAATAAATTTA-TTTATATA-TTTTAATTATTAATCCTTTGGA
61 ACTA-TTT-GAACTTGTTTAATAAATAAATTTATTTTTTAAACTCTTACTTATTAAT-TTTTGGA
* * *
53865 ATATTAGTAAAATTTA-TATTATTTTATTTGAAATAAGCTTGTATGAACAGAAACAATTA
123 ATATTAAT-AAA-TTAGTATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTG
* *
53924 TTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
1 TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
* ** * * * *
53989 TTGAACTTTTTTGGTAAATAGATTCATTTTTTAAAGCTCTTACTCATTAATTTTTGGAATAGTAA
66 TTGAACTTGTTTAATAAATAAATTTATTTTTTAAA-CTCTTACTTATTAATTTTTGGAATATTAA
* * * * * * * *
54054 TAAGTTAGTATTATTCTATTTCAAATAAGCCTATATGAATTGATATAATTG
130 TAAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTG
* ** * * *
54105 TTTTACGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAGATAGTTATTACTAT
1 TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
* ** * * * * *
54170 TTAAACTTGTTTCGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAA
66 TTGAACTTGTTTAATAAATAAATTTATTTTTTAAA-CTCTTACTTATTAATTTTTGGAATATTAA
* * ** ** * * * *
54235 TAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAATAATTA
130 TAAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTG
* * * * *
54286 TTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAACAATTGTTTC-AATAGTCATAACTA
1 TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATT-ATTCAAATAGTCATAACTA
54350 TT
65 TT
54352 CAAAATTATT
Statistics
Matches: 768, Mismatches: 156, Indels: 91
0.76 0.15 0.09
Matches are distributed among these distances:
174 20 0.03
175 25 0.03
176 21 0.03
177 66 0.09
178 10 0.01
179 21 0.03
180 120 0.16
181 283 0.37
182 37 0.05
183 55 0.07
184 41 0.05
185 17 0.02
186 9 0.01
187 17 0.02
188 8 0.01
189 12 0.02
190 6 0.01
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
TTGAACTTGTTTAATAAATAAATTTATTTTTTAAACTCTTACTTATTAATTTTTGGAATATTAAT
AAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAATAGAAACAATTG
Found at i:54699 original size:181 final size:177
Alignment explanation
Indices: 54378--55016 Score: 599
Period size: 181 Copynumber: 3.5 Consensus size: 177
54368 ACAGATTTGA
* * * * * * *
54378 AATAAGCTTGTATGAATAGAAAA-AATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAC
1 AATAAGCTTATATGAACA-AAAACAATTGTTTTATGA-AAAACAAAAGGTCATAACAATTTGAAA
* ** *
54442 TAGATAATTGTTCCAATAACCATAATTATTTGAACTTGTTTGGTAGCC--AGATTCATTTTTTAA
64 TAGATAATTGTTCAAATAGTCATAATTATTTGAACTTG--T--AAGCCAAAGATTCATTTTTTAA
* * * *
54505 ATCTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATGTTACTCTG
125 ATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTAT-TTATTCCG
* * *
54559 AATAAGCTTGTATGAACAAAAACAATTGTTTTGTGAGAAAACAAAAGGTCATAACGATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGA-AAAACAAAAGGTCATAACAATTTGAAAT
* * * **
54624 AGATAATTGTTCAAATAGTCATAATTTTTTGCACTTGTCAAGCCAAGAGATACATTTTCCAAATC
65 AGATAATTGTTCAAATAGTCATAATTATTTGAACTTGT-AAGCCAA-AGATTCATTTTTTAAATC
* * *
54689 -CATTACTTATTAATTTTTAAAATATTAACAAATTAGCATTACTTTATTCCG
128 TC-TTACTTATTAATTTTTGAAATATTAATAAATTAGAATTA-TTTATTCCG
* * * * * *
54740 AATAAGATTATATGAATAAAAACCATCGTTTTATGATAAAACAAATGGTCATAACGATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGA-AAAACAAAAGGTCATAACAATTTGAAAT
* * * * * * * ** * *
54805 AAATATTTGGTCAAATAG-CTATAACTAATTGAACTAGTATGGTAAACAAATTTATTTTTTAAAT
65 AGATAATTGTTCAAATAGTC-ATAATTATTTGAACTTGTA-AGCCAA-AGATTCATTTTTTAAAT
* * *
54869 CTCTTACATATTAATTTTTGAAATATTAATAACTTA-ATATTATTTTATTCCA
127 CTCTTACTTATTAATTTTTGAAATATTAATAAATTAGA-ATTA-TTTATTCCG
* * * * *
54921 AACAAACTTATATGAACAAAAACATTTGTTTTATGACAAA-AAAAGGTAATAACAATTTGAAATA
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGAAAAACAAAAGGTCATAACAATTTGAAATA
*
54985 GATAATTATTCAAATAGTCATAATTATTTGAA
66 GATAATTGTTCAAATAGTCATAATTATTTGAA
55017 ATAGTTTTGT
Statistics
Matches: 372, Mismatches: 75, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
178 4 0.01
179 46 0.12
180 11 0.03
181 309 0.83
182 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (177 bp):
AATAAGCTTATATGAACAAAAACAATTGTTTTATGAAAAACAAAAGGTCATAACAATTTGAAATA
GATAATTGTTCAAATAGTCATAATTATTTGAACTTGTAAGCCAAAGATTCATTTTTTAAATCTCT
TACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTATTCCG
Found at i:54807 original size:482 final size:482
Alignment explanation
Indices: 53890--54807 Score: 1131
Period size: 482 Copynumber: 1.9 Consensus size: 482
53880 ATATTATTTT
* *
53890 ATTTGAAATAAGCTTGTATGAACAGAAACAATTATTTTATGGCAAAACAAAAGGTCATAACAATT
1 ATTTGAAATAAGCTTGTATGAACAGAAAAAATTATTTTATGACAAAACAAAAGGTCATAACAATT
** * *
53955 TGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTTTTTGGTAAATAGATTCATTTTT
66 TGAAATAGATAATTATTCAAATAACCATAACTATTTGAACTTGTTTGGTAAACAGATTCATTTTT
* * * *
54020 TAAAGCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGTATTATTCTATTTCAAATAAGCC
131 TAAAGCTCTCACTCATTAATTTTTGGAATAGTAATAAATTAGAATTATTCTATCTCAAATAAGCC
*** * *
54085 TATATGAATTGATATAATTGTTTTACGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATT
196 TATATGAACAAAAACAATTGTTTTACGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATT
* * * *** * * ** ** **
54150 ATTCAGATAGTTATTACTATTTAAACTTGTTTCGTAAACATATTTATTTTTTAAATCTTTTACTT
261 ATTCAAATAGTCATAACTATTTAAACTTGTCAAGCAAACAGATACATTTTCCAAATCCATTACTT
* * * * *
54215 ATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGAACAAAAA
326 ATTAATTGTTAAAATATTAACAAATTAACATTACTTTAATCCAAATAAGATAATATGAACAAAAA
* *
54280 TAATTATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAACAATTGTTTCAATAGTCAT
391 CAATCATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAACAATTGTTTCAATAGTCAT
54345 AACTATTCAAAATTATTCGGTAAACAG
456 AACTATTCAAAATTATTCGGTAAACAG
* * * *
54372 ATTTGAAATAAGCTTGTATGAATAGAAAAAATTATTTTATGACAATACAAAAGGTTATAGCAATT
1 ATTTGAAATAAGCTTGTATGAACAGAAAAAATTATTTTATGACAAAACAAAAGGTCATAACAATT
* * * * **
54437 TGAACTAGATAATTGTTCCAATAACCATAATTATTTGAACTTGTTTGGTAGCCAGATTCATTTTT
66 TGAAATAGATAATTATTCAAATAACCATAACTATTTGAACTTGTTTGGTAAACAGATTCATTTTT
* * * *
54502 TAAATCTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATGT-TA-CTCTGAATAAG
131 TAAAGCTCTCACTCATTAATTTTTGGAATAGTAATAAATTAGAATTAT-TCTATCTC-AAATAAG
* * **
54565 CTTGTATGAACAAAAACAATTGTTTTGTGA-GAAAACAAAAGGTCATAACGATTTGAAATAGATA
194 CCTATATGAACAAAAACAATTGTTTTACGATG-AAACAAAAGGTCATAACGATTTGAAATAGATA
* * * ** * *
54629 ATTGTTCAAATAGTCATAATTTTTTGCACTTGTCAAGCCAAGAGATACATTTTCCAAATCCATTA
258 ATTATTCAAATAGTCATAACTATTTAAACTTGTCAAGCAAACAGATACATTTTCCAAATCCATTA
* * * * * *
54694 CTTATTAATTTTTAAAATATTAACAAATTAGCATTACTTTATTCCGAATAAGATTATATGAATAA
323 CTTATTAATTGTTAAAATATTAACAAATTAACATTACTTTAATCCAAATAAGATAATATGAACAA
* * * * * *
54759 AAACCATCGTTTTATGATAAAACAAATGGTCATAACGATTTGAAATAAA
388 AAACAATCATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAA
54808 TATTTGGTCA
Statistics
Matches: 360, Mismatches: 73, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
481 3 0.01
482 356 0.99
483 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (482 bp):
ATTTGAAATAAGCTTGTATGAACAGAAAAAATTATTTTATGACAAAACAAAAGGTCATAACAATT
TGAAATAGATAATTATTCAAATAACCATAACTATTTGAACTTGTTTGGTAAACAGATTCATTTTT
TAAAGCTCTCACTCATTAATTTTTGGAATAGTAATAAATTAGAATTATTCTATCTCAAATAAGCC
TATATGAACAAAAACAATTGTTTTACGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATT
ATTCAAATAGTCATAACTATTTAAACTTGTCAAGCAAACAGATACATTTTCCAAATCCATTACTT
ATTAATTGTTAAAATATTAACAAATTAACATTACTTTAATCCAAATAAGATAATATGAACAAAAA
CAATCATTTTATGACAAAACAAAAGGTCATAACAATTTAAAATAAACAATTGTTTCAATAGTCAT
AACTATTCAAAATTATTCGGTAAACAG
Found at i:55001 original size:16 final size:17
Alignment explanation
Indices: 54980--55012 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54970 TAACAATTTG
54980 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
54996 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
55013 TGAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:55020 original size:19 final size:18
Alignment explanation
Indices: 54975--55021 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
54965 GGTAATAACA
54975 ATTTGAAATAG-ATAATT
1 ATTTGAAATAGTATAATT
*
54992 A-TTCAAATAGTCATAATT
1 ATTTGAAATAGT-ATAATT
55010 ATTTGAAATAGT
1 ATTTGAAATAGT
55022 TTTGTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 7 0.28
19 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTGAAATAGTATAATT
Found at i:55301 original size:181 final size:180
Alignment explanation
Indices: 55038--57104 Score: 1502
Period size: 181 Copynumber: 11.5 Consensus size: 180
55028 AACAAAATTG
* * * * * * *
55038 TTATGACTTTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGATTAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC-ATTCACATAAGCTTATTTGAAATAAAAT
* * * *
55103 AATATTAATTTATTAATATTTTGACAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTACC
65 AATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTACT
* * * *
55168 AAACAAGTTTAAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATAA
130 AAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
** * * * *
55219 TTGCGACCTTTTATTTTGTAATAAAATAATTGTTTCAGTTAACATAAGCTTATTTGAAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCA-TTCACATAAGCTTATTTGAAATAAAAT
* *** *
55284 AGCT-CTAATTTATTAATATACCAAAAATT-ATGAGT-AAGAGAATTTAAAAAATGAATCTA--T
65 A-ATACTAATTTATTAATATTTTAAAAATTAATAAGTGAA-AG-ATTTAAAAAAT-AAT-TATGT
** * * * *
55344 TTACCGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTGCAAAACA
125 TTACTAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * ***
55400 TTATGACCATTTGTTTTGTCATAAAATAATTAGTTAT-GTTCATGCAAGCTTATTTGAAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATT-GTT-TCATTCACATAAGCTTATTTGAAATAAAA
* * ** * * * *
55464 TAATA-TAAATTTATTAAAACTCCAAAAATTAATAAAT-AAAAATTTAAAAAATAAATATGTTTT
64 TAATACT-AATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTA
* * * * * *
55527 TTGAACACGTTC-AATAGTTATGACTATTTGAACAATTTTCTATTTCAAATCG
128 CTAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
** * * * * * *
55579 TTATGACAATTTATTATGTCATAAACCAATTATTTCTATTCATACAAGCTTATTTGAAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC-ATTCACATAAGCTTATTTGAAATAAAAT
* * *
55644 AATATTAATTTATTAATATTTCT-AAAATTAATAAG-GAAAATATTTAAATAATAAATT-TGTTT
65 AATACTAATTTATTAATATTT-TAAAAATTAATAAGTG-AAAGATTTAAAAAAT-AATTATGTTT
* * * * * * * *
55706 ATTGAGCAAGTTCAAATAGTTATTATTATTTGAACAATTATATATTTCAAATCT
127 ACTAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * *
55760 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC-ATTCACATAAGCTTATTTGAAATAAAAT
* * * *
55825 AATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATT-TGTTTAC
65 AATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAAT-AATTATGTTTAC
* * * * * * ** * *
55889 TGAACAAGTTTAAATAGTCATGTCCATTTGAGTTGTTATTTATTTCAAATCG
129 TAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * * * * * * ** *
55941 TTATGACATTTTGTTTTATTATAAAATAATTGTTTCTATTTATACAAAATTA-TTCAGAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC-ATTCACATAAGCTTATTTGA-AATAAAA
* * * * *
56005 TAATACTAATTTATTACTATTTTGAAAATTAATAA--G---GATTT-AAAAATAAATGTGTTTTC
64 TAATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTAC
** * * * *
56064 TAAAGTAGTTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATTA
129 TAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* ** * * * * * * * * * *
56116 TTCTGATTTTTTGTTTAGTCAAAAAATAATTGTTTTAGTTCATACATGCTTATTCGAAATATAGT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCA-TTCACATAAGCTTATTTGAAATAAAAT
* * * *
56181 AATACTAATTTATTAAAATTTTAAAAATTAATAA--GAAA-TTTTAAAAAGT--TT-TATTTACT
65 AATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTACT
* * * *
56240 GAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCA
130 AAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * *** * *
56291 TTATGACCTTTTATTTTATCATAAAACAACCATTTCAGT-ACATAAAAG-TT-TTTCCAAAATAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCATTCACAT--AAGCTTATTT--GAAATAA
* ** * * * * * * *
56353 AATAATATTGCTTTATTAATATTTCAAAAATTAAGAAGTTG-GAGTTTTTAAAAATAAATAAGTT
62 AATAATACTAATTTATTAATATTTTAAAAATTAATAAG-TGAAAGATTTAAAAAATAATTATGTT
** * * * *
56417 TA-TCAAATTA-TTCAAATAATTATGGCAATTTGAATAATTATCTATTTCAAATCG
126 TACT-AAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * *
56471 TTATGAACTTTTGTTTTGTCATAAAACAATTGTTT--TTCATCATACAAGCCTA-TTCAGAATAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCATTCA-CAT--AAGCTTATTTGA-AATAA
* * * * *
56533 AATAATACAAATTTACTAATATTTCAAAAATTAAT-A---AAAGATTTAAAAAGTTAA-TCTGTT
62 AATAATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAA-ATAATTATGTT
* *
56593 TACTAAATC-AGTTCAAATAGTTATGACTATTTGAATAATTATATATTTCAAATCT
126 TACTAAA-CAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * *
56648 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGAAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC-ATTCACATAAGCTTATTTGAAATAAAAT
** * * * * *
56713 AATACTAATACAATAATATTCTAAAAATTAATAACTAAAAGATTTAAAAAATAAATATGTTTACT
65 AATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTACT
* * * * * * * * **
56778 AAACTAGTTCAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATTG
130 AAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* ** * *
56829 TTATGACCTTTT-TTTTGTCATAAAACAAAAT-TTTCATTTCTTAGTAA-CTTATTCGGAAT-AA
1 TTATGACCTTTTGTTTTGTCATAAAAC-AATTGTTTCA-TTCACA-TAAGCTTATTTGAAATAAA
* * * * * * * *
56890 GTAAAACAAATTTATTAATATTTCAAGACTTAATAAG-CAAGAGATTTAAAAAACAAATTCA-G-
63 ATAATACTAATTTATTAATATTTTAAAAATTAATAAGTGAA-AGATTTAAAAAA-TAATT-ATGT
*
56952 TTAGCCT-AACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCA
125 TTA--CTAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
** * * * * * *
57009 TTATGTTCTTTTATTTTGTCATAAAATAAATGTTT-TTGTACATATAAG-TT-TGTTCAGAATAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAT-T-CACATAAGCTTAT-TTGA-AATAA
* *
57071 AATAATATTAATTTATTAATATTTTGAAAATTAA
62 AATAATACTAATTTATTAATATTTTAAAAATTAA
57105 GAAATAAGTT
Statistics
Matches: 1493, Mismatches: 314, Indels: 157
0.76 0.16 0.08
Matches are distributed among these distances:
173 4 0.00
174 7 0.00
175 236 0.16
176 27 0.02
177 121 0.08
178 26 0.02
179 167 0.11
180 279 0.19
181 583 0.39
182 40 0.03
183 3 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (180 bp):
TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCATTCACATAAGCTTATTTGAAATAAAATA
ATACTAATTTATTAATATTTTAAAAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTACTA
AACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCA
Found at i:55718 original size:360 final size:356
Alignment explanation
Indices: 55038--57104 Score: 1554
Period size: 360 Copynumber: 5.8 Consensus size: 356
55028 AACAAAATTG
* * * * *
55038 TTATGACTTTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGATTAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTG-TTCTATTCATACAAGCTTATTTGAAATAAAAT
* * * * *
55103 AATATTAATTTATTAATATTTTGACAATTAATAAGTGAAAGATTTAAAAAATAATTATGTTTACC
65 AATA-TAATTTATTAATATTTTAAAAATTAATAAAT-AAAGATTTAAAAAATAAATATGTTTACT
* * * * * ** *
55168 AAACAAGTTTAAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATAATTGCGACCTTTTAT
128 GAACAAG-TTCAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTAT
* * * * * *
55233 TTTGTAATAAAATAATTGTTTC-AGTTAACATAAGCTTATTTGAAATAAAATAGCT-CTAATTTA
192 TTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTGAAATAAAATA-ATACTAATTTA
** * * * * * * * *
55296 TTAATATACCAAAAATT-ATGAGTAAGAGAATTTAAAAAATGAATCTATTTACCGAACAAGTTCA
255 TTAATATTTCTAAAATTAATAAGGAA-A-AATTT-AAAAATAAATATGTTTATCAAACAAGTTCA
* * * *
55360 AATAGTTATGACTATCTAAATAATTATCTATTGCAAAACA
317 AATAGTTATGACTATTTAAACAATTATCTATTTCAAATCA
* * * * *
55400 TTATGACCATTTGTTTTGTCATAAAATAATTAGTTATGTTCATGCAAGCTTATTTGAAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATT-GTTCTATTCATACAAGCTTATTTGAAATAAAAT
* * ** * **
55465 AATATAAATTTATTAAAACTCCAAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTTTTTG
65 AATAT-AATTTATTAATATTTTAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTACTG
* * * * * *
55530 AACACGTTCAATAGTTATGACTATTTGAACAATTTTCTATTTCAAATCGTTATGACAATTTATTA
129 AACAAGTTCAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTATTT
* * *
55595 TGTCATAAACCAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAATTTATTAA
194 TGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAA
* ** *
55660 TATTTCTAAAATTAATAAGGAAAATATTTAAATAATAAATTTGTTTATTGAGCAAGTTCAAATAG
259 TATTTCTAAAATTAATAAGGAAAA-ATTTAAA-AATAAATATGTTTATCAAACAAGTTCAAATAG
* * * * *
55725 TTATTATTATTTGAACAATTATATATTTCAAATCT
322 TTATGACTATTTAAACAATTATCTATTTCAAATCA
* * * *
55760 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTG-TTCTATTCATACAAGCTTATTTGAAATAAAAT
* * * * *
55825 AATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATTTGTTTACT
65 AATA-TAATTTATTAATATTTTAAAAATTAATAA-ATAAAGATTTAAAAAATAAATATGTTTACT
* * * * * ** * * *
55890 GAACAAGTTTAAATAGTCATGTCCATTTGAGTTGTTATTTATTTCAAATCGTTATGACATTTTGT
128 GAACAAG-TTCAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTAT
* * * * ** *
55955 TTTATTATAAAATAATTGTTTCTATTTATACAAAATTA-TTCAGAATAAAATAATACTAATTTAT
192 TTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGA-AATAAAATAATACTAATTTAT
* * **
56019 TACTATTT-TGAAAATTAATAAGG----ATTTAAAAATAAATGTGTTT-TCTAAAGTAGTTCAAA
256 TAATATTTCT-AAAATTAATAAGGAAAAATTTAAAAATAAATATGTTTATC-AAACAAGTTCAAA
* *
56078 TAGTTAAGACTA-TTAGAACAATTATCTATTTCAAATTA
319 TAGTTATGACTATTTA-AACAATTATCTATTTCAAATCA
* ** * * * * * * * *
56116 TTCTGATTTTTTGTTTAGTCAAAAAATAATTGTTTTAGTTCATACATGCTTATTCGAAATATAGT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTCTA-TTCATACAAGCTTATTTGAAATAAAAT
* * * * * *
56181 AATACTAATTTATTAAAATTTTAAAAATTAAT-AAGAAA-TTTTAAAAAGT---TTTATTTACTG
65 AATA-TAATTTATTAATATTTTAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTACTG
* * * *
56241 AATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTATT
129 AACAAGTTC-AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTATT
* *** * * * * **
56306 TTATCATAAAACAACCATTTC-AGTACATAAAAG-TT-TTTCCAAAATAAAATAATATTGCTTTA
193 TTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTT--GAAATAAAATAATACTAATTTA
* * * *** * **
56368 TTAATATTTCAAAAATTAAGAAGTTGGAGTTTTTAAAAATAAATAAGTTTATCAAATTA-TTCAA
255 TTAATATTTCTAAAATTAATAAG--GAAAAATTTAAAAATAAATATGTTTATCAAACAAGTTCAA
* * * * * *
56432 ATAATTATGGCAATTTGAATAATTATCTATTTCAAATCG
318 ATAGTTATGACTATTTAAACAATTATCTATTTCAAATCA
* * * *
56471 TTATGAACTTTTGTTTTGTCATAAAACAATTGTT-TTTCATCATACAAGCCTA-TTCAGAATAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTCTAT--TCATACAAGCTTATTTGA-AATAAA
* * * * * *
56534 ATAATACAAATTTACTAATATTTCAAAAATTAAT--A-AAAGATTTAAAAAGTTAATCTGTTTAC
63 ATAATA-TAATTTATTAATATTTTAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTAC
* * *
56596 TAAATC-AGTTCAAATAGTTATGACTATTTGAATAATTATATATTTCAAATCTTTATGATC-TTT
127 TGAA-CAAGTTC-AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGA-CATTT
* * * **
56659 TGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGAAATAAAATAATACTAATAC
189 TATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTT
* ** *
56724 AATAATA-TTCTAAAAATTAATAACTAAAAGATTTAAAAAATAAATATGTTTA-CTAAACTAGTT
254 ATTAATATTTCT-AAAATTAATAAGGAAAA-ATTT-AAAAATAAATATGTTTATC-AAACAAGTT
* * * * * * * **
56787 CAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATTG
315 CAAATAGTTATGACTATTTAAACAATTATCTATTTCAAATCA
* * * *
56829 TTATGACCTTTT-TTTTGTCATAAAACAAAATT-TTC-ATTTCTTAGTAA-CTTATTCGGAATAA
1 TTATGACCTTTTGTTTTGTCATAAAAC--AATTGTTCTA-TTCATA-CAAGCTTATTTGAAATAA
* * * * ** *
56890 GTAA-AACA-AATTTATTAATATTTCAAGACTTAATAAGCAAGAGATTTAAAAAACAAAT-TCAG
62 --AATAATATAATTTATTAATATTTTAAAAATTAATAAATAA-AGATTTAAAAAATAAATAT--G
*
56952 -TTAGCCT-AACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATGT
122 TTTA--CTGAACAAGTTC-AATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATG-
* * * * * * * *
57015 TC-TTTTATTTTGTCATAAAATAAATGTTTTTGTACATATAAG-TT-TGTTCAGAATAAAATAAT
183 ACATTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTAT-TTGA-AATAAAATAAT
*
57077 ATTAATTTATTAATATTT-TGAAAATTAA
246 ACTAATTTATTAATATTTCT-AAAATTAA
57105 GAAATAAGTT
Statistics
Matches: 1358, Mismatches: 279, Indels: 137
0.77 0.16 0.08
Matches are distributed among these distances:
349 7 0.01
350 116 0.09
351 1 0.00
352 1 0.00
353 13 0.01
354 16 0.01
355 115 0.08
356 179 0.13
357 175 0.13
358 59 0.04
359 20 0.01
360 271 0.20
361 186 0.14
362 198 0.15
363 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (356 bp):
TTATGACCTTTTGTTTTGTCATAAAACAATTGTTCTATTCATACAAGCTTATTTGAAATAAAATA
ATATAATTTATTAATATTTTAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTACTGAA
CAAGTTCAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACATTTTATTTTG
TCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATA
TTTCTAAAATTAATAAGGAAAAATTTAAAAATAAATATGTTTATCAAACAAGTTCAAATAGTTAT
GACTATTTAAACAATTATCTATTTCAAATCA
Found at i:56821 original size:888 final size:895
Alignment explanation
Indices: 55032--57043 Score: 2133
Period size: 888 Copynumber: 2.2 Consensus size: 895
55022 TTTGTAAACA
* ** * *
55032 AAATTGTTATGACTTTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAT
1 AAATTGTTATGACATTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAAATTATTCAGAA
* * *
55097 TAAAATAATATTAATTTATTAATATTTTGACAATTAATAAGTGAAAGATTTAAAAAATAATTATG
66 TAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAG-G--AGATTTAAAAAATAAATATG
* * *
55162 TTTACCAAACAAGTTTAAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATAATTGCGACC
128 TTTACCAAACAAGTTCAAATAGTCAAGACTATTAGAACAATTATCTATTTCAAATAATTGCGACC
* * *
55227 TTTTATTTTGTAATAAAATAATTGTTTCAGTTAACATAAGCTTATTTGAAATAAAATAGCTCTAA
193 TTTTATTTAGTAATAAAATAATTGTTTCAGTTAACAT-AGCTTATTCGAAATAAAATAGATCTAA
*
55292 TTTATTAATATACCAAAAATTATGAGTAAGAGAATTTAAAAAATGAATCTATTTACCGAACAAGT
257 TTTATTAAAATACCAAAAATTA-GAGTAAGAGAATTTAAAAAATGAATCTATTTACCGAACAAGT
* * *
55357 TCAAATAGTTATGACTATCTAAATAATTATCTATTGCAAAACATTATGACCATTTGTTTTGTCAT
321 TCAAATAGTTATGACTATCTAAACAATTATCTATTGCAAAACATTATGACCATTTATTTTATCAT
* ** * ** *
55422 AAAATAATTAGTTATGTTCATGCAAGCTTATTTGAAATAAAATAATATAAATTTATTAAAACTCC
386 AAAACAACCAGTTATGTACATAAAAGCTTATTTAAAATAAAATAATATAAATTTATTAAAACTCC
* * * * * * *
55487 AAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTTTTTGAACACGTTCAATAGTTATGACT
451 AAAAATTAAGAAATAAAAATTTAAAAAATAAATAAGTTTTATCAACACATTCAATAATTATGACA
* *
55552 ATTTGAACAATTTTCTATTTCAAATCGTTATGACAATTTATTATGTCATAAACCAATTATTTCTA
516 ATTTGAACAATTATCTATTTCAAATCGTTATGACAATTTATTATGTCATAAAACAATTATTTCTA
* * ** * *
55617 TTCATACAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCTAAAATTAATAAGGAA
581 TTCATACAAGCCTATTAGAAATAAAATAATACAAATTTACTAATATTTCAAAAATTAAT-A--AA
* * ** * *
55682 AATATTTAAATAATAAATTTGTTTATTGAGCAAGTTCAAATAGTTATTATTATTTGAACAATTAT
643 AAGATTTAAATAATAAATCTGTTTATAAAGCAAGTTCAAATAGTTATGACTATTTGAACAATTAT
55747 ATATTTCAAATCTTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTA
708 ATATTTCAAATCTTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTA
* ** * * * * *
55812 TTTGGAATAAAATAATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAAT
773 TTTGAAATAAAATAATACTAATACAATAATATTCTAAAAATTAATAACTAAAAGATTTAAAAAAT
* * * * * * ****
55877 AAATTTGTTTACTGAACAAGTTTAAATAGTCATGTCCATTTGAGTTGTTATTTATTTC
838 AAATATGTTTACTAAACAAGTTCAAATAGTCAAGGCCATATGAACAATTATTTATTTC
* * * * *
55935 AAATCGTTATGACATTTTGTTTTATTATAAAATAATTGTTTCTATTTATACAAAATTATTCAGAA
1 AAATTGTTATGACATTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAAATTATTCAGAA
* *
56000 TAAAATAATACTAATTTATTACTATTTTGAAAATTAATAA-G-GATTT-AAAAATAAATGTGTTT
66 TAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAGGAGATTTAAAAAATAAATATGTTT
* * ** * * **
56062 TCTAAAGTAGTTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATTATT-CTGATTTT
131 ACCAAACAAGTTCAAATAGTCAAGACTATTAGAACAATTATCTATTTCAAATAATTGC-GACCTT
* * * *
56126 TTGTTTAGTCAA-AAAATAATTGTTTTAGTTCATACAT-GCTTATTCGAAATATAGTA-ATACTA
195 TTATTTAGT-AATAAAATAATTGTTTCAGTT-A-ACATAGCTTATTCGAAATAAAATAGAT-CTA
*** * * * * *
56188 ATTTATTAAAATTTTAAAAATTA-A-TAAGA-AATTTTAAAAA-G-TTTTATTTACTGAATAAGT
256 ATTTATTAAAATACCAAAAATTAGAGTAAGAGAATTTAAAAAATGAATCTATTTACCGAACAAGT
* * * *
56248 TCAAATAGTTATGACTATTTGAACAATTATCTATT-TAAAATCATTATGACCTTTTATTTTATCA
321 TCAAATAGTTATGACTATCTAAACAATTATCTATTGCAAAA-CATTATGACCATTTATTTTATCA
* *** *
56312 TAAAACAACCATTTCA-GTACATAAAAG-TT-TTTCCAAAATAAAATAATATTGCTTTATTAATA
385 TAAAACAACCAGTT-ATGTACATAAAAGCTTATTT--AAAATAAAATAATATAAATTTATTAAAA
* * * ** ** * *
56374 TTTCAAAAATTAAGAAGTTGGAGTTTTTAAAAATAAATAAG-TTTATCAA-ATTATTCAAATAAT
447 CTCCAAAAATTAAGAA-ATAAAAATTTAAAAAATAAATAAGTTTTATCAACA-CATTC-AATAAT
* * * * *
56437 TATGGCAATTTGAATAATTATCTATTTCAAATCGTTATGA-ACTTTTGTTTTGTCATAAAACAAT
509 TATGACAATTTGAACAATTATCTATTTCAAATCGTTATGACA-ATTTATTATGTCATAAAACAAT
* *
56501 TGTTTTTCA-TCATACAAGCCTATTCAG-AATAAAATAATACAAATTTACTAATATTTCAAAAAT
573 TATTTCT-ATTCATACAAGCCTATT-AGAAATAAAATAATACAAATTTACTAATATTTCAAAAAT
* *
56564 TAAT-AAAAGATTTAAA-AAGTTAATCTGTTTACTAAATC-AGTTCAAATAGTTATGACTATTTG
636 TAATAAAAAGATTTAAATAA-TAAATCTGTTTA-TAAAGCAAGTTCAAATAGTTATGACTATTTG
*
56626 AATAATTATATATTTCAAATCTTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAC
699 AACAATTATATATTTCAAATCTTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCAC
56691 ACAAGTTTATTTGAAATAAAATAATACTAATACAATAATATTCTAAAAATTAATAACTAAAAGAT
764 ACAAGTTTATTTGAAATAAAATAATACTAATACAATAATATTCTAAAAATTAATAACTAAAAGAT
* * * * *
56756 TTAAAAAATAAATATGTTTACTAAACTAGTTCAAATATTTAAGGCTATATGAACAATTCTTTATT
829 TTAAAAAATAAATATGTTTACTAAACAAGTTCAAATAGTCAAGGCCATATGAACAATTATTTATT
56821 TC
894 TC
* * * * ** * *
56823 AAATTGTTATGACCTTTT-TTTTGTCATAAAACAAAAT-TTTC-ATTTCTTAGTAACTTATTCGG
1 AAATTGTTATGACATTTTGTTTTGTAATAAAAC-AATTGTTTCTA-TTCATACAAAATTATTCAG
* * * * * *
56885 AAT-AAGTAAAACAAATTTATTAATA-TTTCAAGACTTAATAAGCAAGAGATTTAAAAAACAAAT
64 AATAAAATAATACTAATTTATTAATATTTTGAA-AATTAATAAG---GAGATTTAAAAAATAAAT
* * * * * * *
56948 -TCAG-TTAGCCTAACAAGTTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATT
125 AT--GTTTA-CCAAACAAGTTCAAATAGTCAAGACTATTAGAACAATTATCTATTTCAAATAATT
** ** * * *
57011 ATGTTCTTTTATTTTGTCATAAAATAAATGTTT
187 GCGACCTTTTATTTAGTAATAAAATAATTGTTT
57044 TTGTACATAT
Statistics
Matches: 918, Mismatches: 160, Indels: 72
0.80 0.14 0.06
Matches are distributed among these distances:
885 5 0.01
886 27 0.03
887 33 0.04
888 235 0.26
889 6 0.01
890 8 0.01
891 137 0.15
892 145 0.16
893 82 0.09
894 5 0.01
895 1 0.00
896 2 0.00
897 127 0.14
898 8 0.01
899 4 0.00
901 1 0.00
903 92 0.10
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (895 bp):
AAATTGTTATGACATTTTGTTTTGTAATAAAACAATTGTTTCTATTCATACAAAATTATTCAGAA
TAAAATAATACTAATTTATTAATATTTTGAAAATTAATAAGGAGATTTAAAAAATAAATATGTTT
ACCAAACAAGTTCAAATAGTCAAGACTATTAGAACAATTATCTATTTCAAATAATTGCGACCTTT
TATTTAGTAATAAAATAATTGTTTCAGTTAACATAGCTTATTCGAAATAAAATAGATCTAATTTA
TTAAAATACCAAAAATTAGAGTAAGAGAATTTAAAAAATGAATCTATTTACCGAACAAGTTCAAA
TAGTTATGACTATCTAAACAATTATCTATTGCAAAACATTATGACCATTTATTTTATCATAAAAC
AACCAGTTATGTACATAAAAGCTTATTTAAAATAAAATAATATAAATTTATTAAAACTCCAAAAA
TTAAGAAATAAAAATTTAAAAAATAAATAAGTTTTATCAACACATTCAATAATTATGACAATTTG
AACAATTATCTATTTCAAATCGTTATGACAATTTATTATGTCATAAAACAATTATTTCTATTCAT
ACAAGCCTATTAGAAATAAAATAATACAAATTTACTAATATTTCAAAAATTAATAAAAAGATTTA
AATAATAAATCTGTTTATAAAGCAAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCA
AATCTTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGAAAT
AAAATAATACTAATACAATAATATTCTAAAAATTAATAACTAAAAGATTTAAAAAATAAATATGT
TTACTAAACAAGTTCAAATAGTCAAGGCCATATGAACAATTATTTATTTC
Found at i:57001 original size:16 final size:17
Alignment explanation
Indices: 56969--57001 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56959 AACAAGTTCA
56969 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
56987 AATAATTAT-CTATTT
1 AATAATTATACTATTT
57002 CAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:57345 original size:7 final size:7
Alignment explanation
Indices: 57324--57388 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
57314 TATCTTTATT
57324 ATTAACTA
1 ATTAA-TA
57332 A-TAATA
1 ATTAATA
57338 ATTAATA
1 ATTAATA
57345 ATT--TA
1 ATTAATA
*
57350 AATAATA
1 ATTAATA
57357 ATTAATA
1 ATTAATA
* *
57364 ATTTATT
1 ATTAATA
57371 ATTAATA
1 ATTAATA
*
57378 AGTAAATA
1 A-TTAATA
57386 ATT
1 ATT
57389 TATTAATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
5 4 0.09
6 3 0.07
7 31 0.69
8 7 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (7 bp):
ATTAATA
Found at i:57350 original size:22 final size:20
Alignment explanation
Indices: 57330--57410 Score: 84
Period size: 19 Copynumber: 4.2 Consensus size: 20
57320 TATTATTAAC
57330 TAATAATAATTAATAATTTA
1 TAATAATAATTAATAATTTA
57350 -AATAATAATTAATAATTTA
1 TAATAATAATTAATAATTTA
* *
57369 TTATTAATAAGTAAATAATTTA
1 -TAATAATAA-TTAATAATTTA
57391 T--TAAT-ATT-ATAA-TTA
1 TAATAATAATTAATAATTTA
57406 TAATA
1 TAATA
57411 TTTTAAGTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.08
16 4 0.08
17 3 0.06
18 1 0.02
19 23 0.43
21 8 0.15
22 10 0.19
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TAATAATAATTAATAATTTA
Found at i:58826 original size:29 final size:29
Alignment explanation
Indices: 58771--58826 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
58761 AAATTAGTTT
* *
58771 TATATTTAATTATAATTAATTATATAAAC
1 TATATTTAATTATAATCAATTAAATAAAC
* *
58800 TATATTTAATTATTATCATTTAAATAA
1 TATATTTAATTATAATCAATTAAATAA
58827 TTAAATGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (29 bp):
TATATTTAATTATAATCAATTAAATAAAC
Found at i:58908 original size:15 final size:15
Alignment explanation
Indices: 58888--58918 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58878 ATTATTATAT
58888 TAATATTTAATAATA
1 TAATATTTAATAATA
*
58903 TAATATTTATTAATA
1 TAATATTTAATAATA
58918 T
1 T
58919 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTTAATAATA
Found at i:58913 original size:25 final size:27
Alignment explanation
Indices: 58869--58938 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 27
58859 CTAATTAATG
58869 ATAATATGAATTATTATATTAATATTTA
1 ATAATAT-AATTATTATATTAATATTTA
58897 ATAATATAA-TATT-TATTAATATTTA
1 ATAATATAATTATTATATTAATATTTA
*
58922 AAAATAT-ATTAATTATA
1 ATAATATAATT-ATTATA
58939 ATCATATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 1 0.03
25 19 0.50
26 7 0.18
27 4 0.11
28 7 0.18
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
ATAATATAATTATTATATTAATATTTA
Found at i:59596 original size:22 final size:23
Alignment explanation
Indices: 59547--59598 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
59537 AATATTAATA
*
59547 AATTAATAGATAATAACAATATC
1 AATTATTAGATAATAACAATATC
* * *
59570 TATTATTA-ATAATAACTATTTC
1 AATTATTAGATAATAACAATATC
59592 AATTATT
1 AATTATT
59599 TCCAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTATTAGATAATAACAATATC
Found at i:59844 original size:11 final size:12
Alignment explanation
Indices: 59804--59845 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
59794 ATGCCTATCG
59804 AATAA-ATTATT
1 AATAATATTATT
59815 AATAATATTA-T
1 AATAATATTATT
*
59826 ATTAATATTATT
1 AATAATATTATT
59838 AAT-ATATT
1 AATAATATT
59846 TAATAATCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATAATATTATT
Found at i:59919 original size:26 final size:28
Alignment explanation
Indices: 59872--59940 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 28
59862 TATTAATTGG
59872 ATTATTAATATAATATAATTAA-TA-TTA
1 ATTATTAATA-AATATAATTAATTATTTA
*
59899 A-TATTAATAAATATTATTTAATTATTTA
1 ATTATTAATAAATA-TAATTAATTATTTA
*
59927 ATTATTACTAAATA
1 ATTATTAATAAATA
59941 AATCTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 4 0.11
26 14 0.39
27 3 0.08
28 4 0.11
29 11 0.31
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTATTAATAAATATAATTAATTATTTA
Found at i:60330 original size:27 final size:26
Alignment explanation
Indices: 60300--60422 Score: 80
Period size: 27 Copynumber: 4.7 Consensus size: 26
60290 TATATTCTAA
60300 TAATATATCATAATTATAATATATTTT
1 TAATATAT-ATAATTATAATATATTTT
**
60327 TAATTAATATATAA-TATAATAATATAGT
1 TAA-T-ATATATAATTATAAT-ATATTTT
*
60355 TAATAT-TAT-ATATATAACA-A-TTT
1 TAATATATATAAT-TATAATATATTTT
*
60378 TAATATA-ATAATTAT-ATTTATTTAT
1 TAATATATATAATTATAATATATTT-T
* *
60403 TATTATATAATAAATATAAT
1 TAATATAT-ATAATTATAAT
60423 CTAAAATAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
22 1 0.01
23 13 0.18
24 6 0.08
25 11 0.15
26 7 0.09
27 17 0.23
28 15 0.20
29 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (26 bp):
TAATATATATAATTATAATATATTTT
Found at i:61177 original size:14 final size:14
Alignment explanation
Indices: 61160--61226 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
61150 TTATCAAATG
61160 ATAATTATTAATAT
1 ATAATTATTAATAT
61174 ATAATTAATTGAAT-T
1 ATAATT-ATT-AATAT
*
61189 -TAA-TATAAATAT
1 ATAATTATTAATAT
61201 -TATATTATATAA-AT
1 ATA-ATTAT-TAATAT
61215 ATAATTATTAAT
1 ATAATTATTAAT
61227 TAATTATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
11 3 0.07
12 5 0.12
13 5 0.12
14 19 0.44
15 8 0.19
16 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (14 bp):
ATAATTATTAATAT
Found at i:61193 original size:21 final size:20
Alignment explanation
Indices: 61167--61238 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 20
61157 ATGATAATTA
61167 TTAATATATAATTAATTGAAT
1 TTAATATATAATTAATT-AAT
*
61188 TTAATATAAATATTATATT-AT
1 TTAATATATA-ATTA-ATTAAT
*
61209 ATAA-ATATAATT-ATTAA-
1 TTAATATATAATTAATTAAT
61226 TTAAT-TATAATTA
1 TTAATATATAATTA
61239 CTTATAACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
17 13 0.31
18 1 0.02
19 3 0.07
20 4 0.10
21 14 0.33
22 4 0.10
23 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
TTAATATATAATTAATTAAT
Found at i:61797 original size:21 final size:20
Alignment explanation
Indices: 61763--61813 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
61753 TGCTATTTAA
61763 TTAAATA-TTATTTAATTAT
1 TTAAATATTTATTTAATTAT
61782 TTAAATATTCTATTTAATTAT
1 TTAAATATT-TATTTAATTAT
*
61803 TTTAATATTTA
1 TTAAATATTTA
61814 ATATTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 19 0.66
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATATTTATTTAATTAT
Found at i:61874 original size:27 final size:25
Alignment explanation
Indices: 61839--61888 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
61829 GTTGATTTTA
*
61839 TTAATTAATATAATTATTAATTAAGT
1 TTAATTAATATAATAATT-ATTAAGT
61865 TTAATATAATATAATAATTATTAA
1 TTAAT-TAATATAATAATTATTAA
61889 TAAGAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTAATTAATATAATAATTATTAAGT
Found at i:61972 original size:17 final size:18
Alignment explanation
Indices: 61950--61994 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
61940 TTTTCAGAAG
61950 AATAATTAATTAA-TAAT
1 AATAATTAATTAATTAAT
*
61967 AATAATTAAATAATTAAT
1 AATAATTAATTAATTAAT
61985 AATAA-TAATT
1 AATAATTAATT
61995 TGCAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAATTAATTAAT
Found at i:62138 original size:20 final size:19
Alignment explanation
Indices: 62113--62150 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
62103 ATTAAAAATT
*
62113 ATTAATTAAAATGAATTAAG
1 ATTAATAAAAAT-AATTAAG
62133 ATTAATAAAAATAATTAA
1 ATTAATAAAAATAATTAA
62151 ATATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
ATTAATAAAAATAATTAAG
Found at i:62247 original size:14 final size:14
Alignment explanation
Indices: 62228--62257 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62218 TTAATCTATA
62228 TATTATTATAATAT
1 TATTATTATAATAT
62242 TATTATTATAATAT
1 TATTATTATAATAT
62256 TA
1 TA
62258 AGGATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTATAATAT
Found at i:62330 original size:14 final size:14
Alignment explanation
Indices: 62311--62337 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62301 TTAATTATTT
62311 AATAAATATAATAC
1 AATAAATATAATAC
62325 AATAAATATAATA
1 AATAAATATAATA
62338 TATAAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAATATAATAC
Found at i:62839 original size:18 final size:18
Alignment explanation
Indices: 62816--62853 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
62806 GCATTGTTTT
62816 ATTAAAA-ATAAATTATTA
1 ATTAAAATATAAA-TATTA
*
62834 ATTAAAATATTAATATTA
1 ATTAAAATATAAATATTA
62852 AT
1 AT
62854 ATTAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAAAATATAAATATTA
Found at i:63271 original size:38 final size:41
Alignment explanation
Indices: 63190--63273 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 41
63180 ATTATAACAC
* * * **
63190 TATTATAATTATTATATTATAATAATATTAATTATTGGTAA
1 TATTATAAATATTATATTATAATAATATTAAATAATGACAA
63231 TATTATAAATATTA-A-TATAATAA-ATTAAATAATGACAA
1 TATTATAAATATTATATTATAATAATATTAAATAATGACAA
63269 TATTA
1 TATTA
63274 ATTAGAAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 16 0.42
39 8 0.21
40 1 0.03
41 13 0.34
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (41 bp):
TATTATAAATATTATATTATAATAATATTAAATAATGACAA
Found at i:64412 original size:31 final size:29
Alignment explanation
Indices: 64374--64454 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
64364 TATTAAATAT
64374 ATTAATAATATTAATAATTTATTCAATAGCC
1 ATTAATAATATTAATAA-TTATT-AATAGCC
*
64405 ATTAATAATATTATTAATTATTAATA--C
1 ATTAATAATATTAATAATTATTAATAGCC
* * *
64432 AATAATTA-ATTAATGATTATTAA
1 ATTAATAATATTAATAATTATTAA
64455 AAAAATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 13 0.29
27 7 0.16
29 4 0.09
30 5 0.11
31 16 0.36
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTAATAATATTAATAATTATTAATAGCC
Found at i:64882 original size:163 final size:163
Alignment explanation
Indices: 64591--64892 Score: 401
Period size: 163 Copynumber: 1.9 Consensus size: 163
64581 CTATTTGAAC
*
64591 AATTATCTATTTAAAATCATTATGACCTTTTGTTTTATTATAAAACAATTGTTTCAGTTCAATAA
1 AATTATCTATTTAAAATCATTATGACCTTTTATTTTATTATAAAACAATTGTTTCAGTTCAATAA
* * * * * * **
64656 AACTTATCCAAAATAAAATAATATTACTTTATTACTATTTCAAAAATTGAGAAGTTGGAGATTTA
66 AACTTATCCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAAGAACTAAGAGATTTA
64721 AAAAATAAATCAGTTTATCGAATTAGTTCAAAT
131 AAAAATAAATCAGTTTATCGAATTAGTTCAAAT
* * * ** *
64754 AATTATTTATTTCAAATCGTTATGACCTTTTATTTTATTATAAAACAATTGTTT-TTTATC-GTA
1 AATTATCTATTTAAAATCATTATGACCTTTTATTTTATTATAAAACAATTGTTTCAGT-TCAATA
* * *
64817 CAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAACTAAGAGATT
65 -AAACTTATCCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAAGAACTAAGAGATT
*
64882 TAAGAAATAAA
129 TAAAAAATAAA
64893 GCTATTTACT
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
162 3 0.03
163 115 0.97
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (163 bp):
AATTATCTATTTAAAATCATTATGACCTTTTATTTTATTATAAAACAATTGTTTCAGTTCAATAA
AACTTATCCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAAGAACTAAGAGATTTA
AAAAATAAATCAGTTTATCGAATTAGTTCAAAT
Found at i:64929 original size:19 final size:19
Alignment explanation
Indices: 64905--64941 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64895 TATTTACTAA
*
64905 ACCAGTTTAAATAATTATG
1 ACCAGTTCAAATAATTATG
*
64924 ACCAGTTCAAATAGTTAT
1 ACCAGTTCAAATAATTAT
64942 TACTATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (19 bp):
ACCAGTTCAAATAATTATG
Found at i:65778 original size:13 final size:14
Alignment explanation
Indices: 65760--65792 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
65750 ATTTATTTAT
65760 AATTATA-TAGATA
1 AATTATATTAGATA
65773 AATTATATTAGATA
1 AATTATATTAGATA
65787 ATATTA
1 A-ATTA
65793 ATAATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATTATATTAGATA
Found at i:66294 original size:15 final size:16
Alignment explanation
Indices: 66265--66304 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
66255 TATAATACTT
66265 TAATTATTAATTC-AA
1 TAATTATTAATTCAAA
66280 TAATTATT-ATATCAAA
1 TAATTATTAAT-TCAAA
66296 TAA-TATTAA
1 TAATTATTAA
66305 CTTTAACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 14 0.64
16 6 0.27
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTATTAATTCAAA
Found at i:66642 original size:11 final size:13
Alignment explanation
Indices: 66608--66637 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66598 TCATTGTTAA
*
66608 ATTATATTTAAAT
1 ATTATAATTAAAT
66621 ATTATAATTAAAT
1 ATTATAATTAAAT
66634 ATTA
1 ATTA
66638 ATTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATAATTAAAT
Done.