Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167866.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_135, 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: 68447
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
File 1 of 2
Found at i:827 original size:443 final size:446
Alignment explanation
Indices: 1--1121 Score: 2182
Period size: 443 Copynumber: 2.5 Consensus size: 446
*
1 TGTGGTGTTTATAAATGGCAACTAATAAAA-GGGCGAAGTACAACATGCTCCAAAGGCAAAGATT
1 TGTGGTGTTTGTAAATGGCAACTAATAAAAGGGGCGAAGTACAACATGCTCCAAAGGCAAAGATT
65 AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAATTTTC
66 AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAATTTTC
130 TATAGCGCCTCAAATTTTGGGGCAAACCTATGGAGCCAGATATCTCTAAAGATCTCAACCAAATG
131 TATAGCGCCTCAAATTTTGGGGCAAACCTATGGAGCCAGATATCTCTAAAGATCTCAACCAAATG
195 GTAAGCAAATTAAAAG-A-ATATATATATATATATATATTATGTAGCATCTCAATAAGATTTGGT
196 GTAAGCAAATTAAAAGAATATATATATATATATATATATTATGTAGCATCTCAATAAGATTTGGT
258 TAACCTTTTTCAACTAATAATAAAATTTTATAATCCAATCAAAATCCACTTTTTGTTGCTAATTA
261 TAACCTTTTTCAACTAATAATAAAATTTTATAATCCAATCAAAATCCACTTTTTGTTGCTAATTA
323 TCAACCTTTCCTCCATAATAAAATTCAAACAGCAAACCATAAGAGACGAGACTTAGAACAACAAA
326 TCAACCTTTCCTCCATAATAAAATTCAAACAGCAAACCATAAGAGACGAGACTTAGAACAACAAA
388 ACTGGGAATTTTTGATAGCCACTCTTGTCAGCTCCATAGCAAAATTTTCCACATTA
391 ACTGGGAATTTTTGATAGCCACTCTTGTCAGCTCCATAGCAAAATTTTCCACATTA
*
444 TGTGGTGTTTGTAAATGGCAACTAATAAAAGGGGTGAAGTACAACATGCTCCAAAGGCAAAGATT
1 TGTGGTGTTTGTAAATGGCAACTAATAAAAGGGGCGAAGTACAACATGCTCCAAAGGCAAAGATT
509 AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAA-TTTC
66 AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAATTTTC
573 TATAGCGCCTCAAATTTT-GGGCAAACCTATGGA-CCAGATATCTCTAAAGATCTCAACCAAATG
131 TATAGCGCCTCAAATTTTGGGGCAAACCTATGGAGCCAGATATCTCTAAAGATCTCAACCAAATG
636 GTAAGCAAATTAAAAGAATATATATATATATATATATATTATGTAGCATCTCAATAAGATTTGGT
196 GTAAGCAAATTAAAAGAATATATATATATATATATATATTATGTAGCATCTCAATAAGATTTGGT
701 TAACCTTTTTCAACTAATAATAAAATTTTATAATCCAATCAAAATCCACTTTTTGTTGCTAATTA
261 TAACCTTTTTCAACTAATAATAAAATTTTATAATCCAATCAAAATCCACTTTTTGTTGCTAATTA
766 TCAACCTTTCCTCCATAATAAAATTCAAACAGCAAACCATAAGAGACGAGACTTAGAACAACAAA
326 TCAACCTTTCCTCCATAATAAAATTCAAACAGCAAACCATAAGAGACGAGACTTAGAACAACAAA
831 ACTGGGAATTTTTGATAGCCACTCTTGTCAGCTCCATAGCAAAATTTTCCACATTA
391 ACTGGGAATTTTTGATAGCCACTCTTGTCAGCTCCATAGCAAAATTTTCCACATTA
887 TGTGGTGTTTGTAAATGGCAACTAATAAAAGGGGCGAAGTACAACATGCTCCAAAGGCAAAGATT
1 TGTGGTGTTTGTAAATGGCAACTAATAAAAGGGGCGAAGTACAACATGCTCCAAAGGCAAAGATT
952 AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAATTTTC
66 AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAATTTTC
1017 TATAGCGCCTCAAATTTTGGGGCAAACCTATGGAGCCAGATATCTCTAAAGATCTCAACCAAATG
131 TATAGCGCCTCAAATTTTGGGGCAAACCTATGGAGCCAGATATCTCTAAAGATCTCAACCAAATG
1082 GTAAGCAAATTAAAAGAATATATATATATATATATATATT
196 GTAAGCAAATTAAAAGAATATATATATATATATATATATT
1122 TCAACCCTAA
Statistics
Matches: 669, Mismatches: 3, Indels: 9
0.98 0.00 0.01
Matches are distributed among these distances:
441 46 0.07
442 16 0.02
443 407 0.61
444 115 0.17
445 15 0.02
446 70 0.10
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (446 bp):
TGTGGTGTTTGTAAATGGCAACTAATAAAAGGGGCGAAGTACAACATGCTCCAAAGGCAAAGATT
AGCTCTAAAACAGTGTTCTTCCCATGCTGACCAGAAGATTTCATCAGCAGTACCCAAAAATTTTC
TATAGCGCCTCAAATTTTGGGGCAAACCTATGGAGCCAGATATCTCTAAAGATCTCAACCAAATG
GTAAGCAAATTAAAAGAATATATATATATATATATATATTATGTAGCATCTCAATAAGATTTGGT
TAACCTTTTTCAACTAATAATAAAATTTTATAATCCAATCAAAATCCACTTTTTGTTGCTAATTA
TCAACCTTTCCTCCATAATAAAATTCAAACAGCAAACCATAAGAGACGAGACTTAGAACAACAAA
ACTGGGAATTTTTGATAGCCACTCTTGTCAGCTCCATAGCAAAATTTTCCACATTA
Found at i:3045 original size:106 final size:105
Alignment explanation
Indices: 2858--3068 Score: 377
Period size: 106 Copynumber: 2.0 Consensus size: 105
2848 AGTTTCTTTA
2858 CTTCAAGAACATATCCACAGGCAGCAAGTGAAAAAAGAGAGGAGAAAACAAGAGAAGGGGCTTCC
1 CTTCAAGAACATATCCACAGGCAGCAAGTGAAAAAAGAGAGGAGAAAACAAGAGAAGGGGCTTCC
* * *
2923 TCACAAACCACTAGCTGACAATTAAATATTAGTTCTGGTTG
66 TCACAAACCACCAGCTGACAATT-AATATCAGTTCTAGTTG
2964 CTTCAAGAACATATCCACAGGCAGCAAGTGAAAAAAGAGAGGAGAAAACAAGAGAAGGGGCTTCC
1 CTTCAAGAACATATCCACAGGCAGCAAGTGAAAAAAGAGAGGAGAAAACAAGAGAAGGGGCTTCC
*
3029 TCGCAAACCACCAGCTGACAATTAATATCAGTTCTAGTTG
66 TCACAAACCACCAGCTGACAATTAATATCAGTTCTAGTTG
3069 ACCAAACACA
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
105 15 0.15
106 86 0.85
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (105 bp):
CTTCAAGAACATATCCACAGGCAGCAAGTGAAAAAAGAGAGGAGAAAACAAGAGAAGGGGCTTCC
TCACAAACCACCAGCTGACAATTAATATCAGTTCTAGTTG
Found at i:12643 original size:163 final size:163
Alignment explanation
Indices: 12369--12677 Score: 537
Period size: 163 Copynumber: 1.9 Consensus size: 163
12359 TGTTAAAACC
* *
12369 TTCAACCATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGTTCTGTGGCAGTAGACCAGAAAGTA
1 TTCAACCATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCAGTAGACCAGAAACTA
* **
12434 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCT
66 TCAATTCAAGGTGGTTCATTCTTACAGGATAATGAGAACAAAAGGATCAAATCAGACTGGTTGCT
12499 TCTGATTATATTACTTGTCATTCTATAAACACT
131 TCTGATTATATTACTTGTCATTCTATAAACACT
*
12532 TTCAACCATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCGGTAGACCAGAAACTA
1 TTCAACCATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCAGTAGACCAGAAACTA
* * *
12597 TCAATTCAAGGTGGTTCCTTGTTACAGTATAATGAGAACAAAAGGATCAAATCAGACTGGTTGCT
66 TCAATTCAAGGTGGTTCATTCTTACAGGATAATGAGAACAAAAGGATCAAATCAGACTGGTTGCT
12662 TCTGATTATATTACTT
131 TCTGATTATATTACTT
12678 ATGTTTTATT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 137 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (163 bp):
TTCAACCATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCAGTAGACCAGAAACTA
TCAATTCAAGGTGGTTCATTCTTACAGGATAATGAGAACAAAAGGATCAAATCAGACTGGTTGCT
TCTGATTATATTACTTGTCATTCTATAAACACT
Found at i:17087 original size:49 final size:50
Alignment explanation
Indices: 17030--17127 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
17020 ACTATTGGAA
**
17030 TACCATCCAAA-CCATACTACCCAAACCGACTTTTAGGATGCCCTAATCT
1 TACCATCCAAATCCATACTACCCAAACCGACTTAGAGGATGCCCTAATCT
* * *
17079 TACCATCCAAATCCATACTACCTAAATCGGCTTAGAGGATGCCCTAATC
1 TACCATCCAAATCCATACTACCCAAACCGACTTAGAGGATGCCCTAATC
17128 CAACCTGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 11 0.26
50 32 0.74
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.24
Consensus pattern (50 bp):
TACCATCCAAATCCATACTACCCAAACCGACTTAGAGGATGCCCTAATCT
Found at i:17876 original size:12 final size:12
Alignment explanation
Indices: 17861--17885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17851 TAACAACATT
17861 TAATATATATTA
1 TAATATATATTA
17873 TAATATATATTA
1 TAATATATATTA
17885 T
1 T
17886 TACTATTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATATATATTA
Found at i:18189 original size:21 final size:21
Alignment explanation
Indices: 18165--18208 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18155 AACTTATTTG
18165 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
18186 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
18207 TT
1 TT
18209 GTTCTAATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:18270 original size:23 final size:23
Alignment explanation
Indices: 18227--18270 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18217 AGTACTAATA
* *
18227 ATATTTATTATTATAACTATAGT
1 ATATTTATTATTAAAAATATAGT
18250 ATATTTA-TATTTAAAAATATA
1 ATATTTATTA-TTAAAAATATA
18271 ACATCACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTTATTATTAAAAATATAGT
Found at i:18450 original size:20 final size:20
Alignment explanation
Indices: 18425--18504 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
18415 AATTATTAAT
* *
18425 ATTATAATTTATATTATTAC
1 ATTATAATTAATATAATTAC
* *
18445 ATTATAATAAATATAATTAT
1 ATTATAATTAATATAATTAC
*
18465 ATTATAATTAATTATAA-TAT
1 ATTATAATTAA-TATAATTAC
18485 ATT-TAATATAAATATAATTA
1 ATTATAAT-T-AATATAATTA
18505 ATGTTAGTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.08
20 38 0.75
21 9 0.18
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATAATTAATATAATTAC
Found at i:18465 original size:15 final size:15
Alignment explanation
Indices: 18415--18506 Score: 77
Period size: 15 Copynumber: 6.2 Consensus size: 15
18405 TTATATATCA
*
18415 AATTATTAATATTA-T
1 AATTA-TAATATAATT
*
18430 AATT-T-ATATTATT
1 AATTATAATATAATT
18443 ACATTATAATA-AATAT
1 A-ATTATAATATAAT-T
*
18459 AATTATATTATAATT
1 AATTATAATATAATT
*
18474 AATTATAATATATTT
1 AATTATAATATAATT
18489 AA-TATAAATATAATT
1 AATTAT-AATATAATT
18504 AAT
1 AAT
18507 GTTAGTATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.09
13 3 0.05
14 6 0.09
15 41 0.64
16 8 0.12
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTATAATATAATT
Found at i:18481 original size:30 final size:29
Alignment explanation
Indices: 18427--18506 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
18417 TTATTAATAT
*
18427 TATAATT-TATATTATTACATTATAATAAA
1 TATAATTATATATAATTA-ATTATAATAAA
*
18456 TATAATTATATTATAATTAATTATAATATA
1 TATAATTATA-TATAATTAATTATAATAAA
* *
18486 TTTAATATAAATATAATTAAT
1 TATAAT-TATATATAATTAAT
18507 GTTAGTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 7 0.16
30 27 0.61
31 10 0.23
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TATAATTATATATAATTAATTATAATAAA
Found at i:18569 original size:19 final size:19
Alignment explanation
Indices: 18527--18570 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
18517 AAATATTCAT
*
18527 TAAT-TAAATAATATTATA
1 TAATATAAATAATATTAGA
* *
18545 TTATATAAATATTATTAGA
1 TAATATAAATAATATTAGA
18564 TAATATA
1 TAATATA
18571 TTTTAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATATAAATAATATTAGA
Found at i:18573 original size:57 final size:57
Alignment explanation
Indices: 18469--18597 Score: 140
Period size: 57 Copynumber: 2.2 Consensus size: 57
18459 AATTATATTA
**
18469 TAATTAATTATAATATATTTAATATAAATATAATTAATGTTAGTATTTAAATATT-CAT
1 TAATTAA-TATAATATATTTAATATAAATATAATTAATAATAGTATTTAAATATTAC-T
* *
18527 TAATTAA-ATAATATTATATT-ATATAAATATTATTAGATAATA-TATTTTAATATTACT
1 TAATTAATATAATA-TAT-TTAATATAAATATAATTA-ATAATAGTATTTAAATATTACT
18584 TAATTATATATAAT
1 TAATTA-ATATAAT
18598 CTAAATTAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
56 6 0.10
57 35 0.57
58 15 0.25
59 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (57 bp):
TAATTAATATAATATATTTAATATAAATATAATTAATAATAGTATTTAAATATTACT
Found at i:18628 original size:18 final size:18
Alignment explanation
Indices: 18563--18641 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
18553 ATATTATTAG
18563 ATAATATATTT-TAATATT
1 ATAATATATTTATAATA-T
* *
18581 ACTTAAT-TATATATAATCT
1 A--TAATATATTTATAATAT
*
18600 A-AATTAGATTTATAATAT
1 ATAA-TATATTTATAATAT
18618 ATAATATATTTAT-ATAT
1 ATAATATATTTATAATAT
18635 ATTAATA
1 A-TAATA
18642 ATTATTATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 24 0.50
19 8 0.17
20 8 0.17
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (18 bp):
ATAATATATTTATAATAT
Found at i:19370 original size:23 final size:24
Alignment explanation
Indices: 19331--19375 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
19321 AATATAAGTA
19331 TAATATATAATATTTATAATTATT
1 TAATATATAATATTTATAATTATT
19355 TAATA-ATAAT-TATTATAATTA
1 TAATATATAATAT-TTATAATTA
19376 GTGTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 14 0.70
24 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATATATAATATTTATAATTATT
Found at i:19464 original size:27 final size:29
Alignment explanation
Indices: 19408--19464 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
19398 TATTTAATTA
* *
19408 TAATATATAATCTAATATATTATATTTAT
1 TAATATACAATCTAATATATTATATATAT
19437 TAATATACAAT-TAAT-TATTACTA-ATAT
1 TAATATACAATCTAATATATTA-TATATAT
19464 T
1 T
19465 GGATAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 9 0.36
28 6 0.24
29 10 0.40
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATATACAATCTAATATATTATATATAT
Found at i:19770 original size:20 final size:20
Alignment explanation
Indices: 19747--19800 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
19737 ATAAATAATT
19747 TTATAATTTTATAATATTAA
1 TTATAATTTTATAATATTAA
* * * *
19767 TTATAATATTAGAAGATTTA
1 TTATAATTTTATAATATTAA
*
19787 TAAT-ATTTTATAAT
1 TTATAATTTTATAAT
19801 TAATTAATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTATAATTTTATAATATTAA
Found at i:19810 original size:18 final size:18
Alignment explanation
Indices: 19750--19822 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 18
19740 AATAATTTTA
* *
19750 TAATTTTATAATATTAATT
1 TAATATTATAAAATTAA-T
* * *
19769 ATAATATTAGAAGATTTA-
1 -TAATATTATAAAATTAAT
* *
19787 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
19805 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
19823 GATAAATTAA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 12 0.29
18 16 0.39
20 13 0.32
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:20532 original size:13 final size:13
Alignment explanation
Indices: 20514--20556 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
20504 ATATTTATAA
20514 ATTATACTAATAT
1 ATTATACTAATAT
20527 ATTATACT-ATAT
1 ATTATACTAATAT
20539 AATTATA-TAATAT
1 -ATTATACTAATAT
20552 ATTAT
1 ATTAT
20557 TTATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:20577 original size:27 final size:25
Alignment explanation
Indices: 20498--20578 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 25
20488 ATAATCTAAT
* *
20498 TATATCATATTTATAAATTATACTAA
1 TATATTATATTTATTAATTATA-TAA
*
20524 TATATTATA-CTATATAATTATATAA
1 TATATTATATTTAT-TAATTATATAA
20549 TATATTATTTATTTATTAATTATATAA
1 TATATTA--TATTTATTAATTATATAA
20576 TAT
1 TAT
20579 TAATAACCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.28
26 15 0.32
27 16 0.34
28 3 0.06
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTTATTAATTATATAA
Found at i:20642 original size:19 final size:19
Alignment explanation
Indices: 20601--20653 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
20591 TATATTTAAG
20601 TTATTTATAATTA-TTATAT
1 TTATTT-TAATTATTTATAT
20620 TTATTTTAATTATTTAT-T
1 TTATTTTAATTATTTATAT
*
20638 ATTATTTTAATGATTT
1 -TTATTTTAATTATTT
20654 GAAATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 24 0.77
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTTTAATTATTTATAT
Found at i:20653 original size:28 final size:29
Alignment explanation
Indices: 20595--20653 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
20585 CCATTATATA
* *
20595 TTTAAGTTATTTATAATTATTATATTTAT
1 TTTAAGTTATTTATAATTATTATAATGAT
* *
20624 TTTAA-TTATTTATTATTATTTTAATGAT
1 TTTAAGTTATTTATAATTATTATAATGAT
20652 TT
1 TT
20654 GAAATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTAAGTTATTTATAATTATTATAATGAT
Found at i:20910 original size:24 final size:24
Alignment explanation
Indices: 20883--20931 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
20873 TTTGAACGTG
20883 TTATAAATAATATATTA-TA-AATTA
1 TTAT-AATAATA-ATTATTACAATTA
20907 TTATAATAATAATTATTACAATTA
1 TTATAATAATAATTATTACAATTA
20931 T
1 T
20932 CTTAATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATAATAATTATTACAATTA
Found at i:21201 original size:13 final size:13
Alignment explanation
Indices: 21160--21229 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
21150 TATAACCTTT
21160 TATTA-ATTAAT-
1 TATTATATTAATA
*
21171 TATTCAAATTAATA
1 TATT-ATATTAATA
21185 -ATTATATTAATA
1 TATTATATTAATA
21197 TATTATAATT-ATAA
1 TATTAT-ATTAAT-A
*
21211 TATAATATTAAATA
1 TATTATATT-AATA
21225 TATTA
1 TATTA
21230 ATAAAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 4 0.08
12 9 0.19
13 19 0.40
14 14 0.29
15 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:21206 original size:19 final size:19
Alignment explanation
Indices: 21182--21246 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
21172 ATTCAAATTA
21182 ATAATTATATTAATATATT
1 ATAATTATATTAATATATT
*
21201 ATAATTATAAT-ATAATATT
1 ATAATTATATTAAT-ATATT
* *
21220 A-AA-TATATTAATAAAAT
1 ATAATTATATTAATATATT
21237 ATTAATTATA
1 A-TAATTATA
21247 ATTTATCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 18 0.49
20 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTATATTAATATATT
Found at i:21267 original size:39 final size:35
Alignment explanation
Indices: 21182--21267 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 35
21172 ATTCAAATTA
* *
21182 ATAATTATATTAATATATTATAATTATAATATAAT
1 ATAATTATATTAATAAAATATAATTATAATATAAT
* *
21217 ATTAAATATATTAATAAAATATTAATTATAATTTATCAT
1 A-TAATTATATTAATAAAATA-TAATTATAA--TATAAT
21256 ATAATTAATATT
1 ATAATT-ATATT
21268 GTCTGAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
35 1 0.02
36 16 0.39
37 9 0.22
38 4 0.10
39 11 0.27
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (35 bp):
ATAATTATATTAATAAAATATAATTATAATATAAT
Found at i:21295 original size:14 final size:14
Alignment explanation
Indices: 21278--21330 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
21268 GTCTGAATAA
21278 TAATTAATTATATT
1 TAATTAATTATATT
*
21292 TAATTAATT-TAAGT
1 TAATTAATTAT-ATT
21306 TAATTAATTA-ATT
1 TAATTAATTATATT
21319 TATATT-ATTATA
1 TA-ATTAATTATA
21331 AAGTATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 9 0.27
14 24 0.73
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TAATTAATTATATT
Found at i:21384 original size:22 final size:21
Alignment explanation
Indices: 21359--21399 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
21349 AATATTAATT
*
21359 AATAATAATTATAATCTTTAAA
1 AATAATAATAATAAT-TTTAAA
21381 AATAATAATAATAATTTTA
1 AATAATAATAATAATTTTA
21400 TCCAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATAATAATAATTTTAAA
Found at i:21532 original size:20 final size:20
Alignment explanation
Indices: 21505--21717 Score: 75
Period size: 20 Copynumber: 10.9 Consensus size: 20
21495 AATTTATAAA
21505 TAAT-TATTATAATTATTAT
1 TAATATATTATAATTATTAT
21524 TAATATATT-TAATATATTATT
1 TAATATATTATAAT-TATTA-T
* *
21545 TGATA-AATATTAA-TATTAT
1 TAATATATTA-TAATTATTAT
*
21564 ATAATTATATT-T-ATTAATAT
1 -TAA-TATATTATAATTATTAT
** * *
21584 TAATA-AAAAT-ATTAATAC
1 TAATATATTATAATTATTAT
*
21602 TAATTTATTATAATTA--AT
1 TAATATATTATAATTATTAT
*
21620 TAAT-TATAATAATTATTAAT
1 TAATATATTATAATTATT-AT
*
21640 T-ATA-ATTATAAATTAATAT
1 TAATATATTAT-AATTATTAT
21659 T--TAT-TTAATAATTATATAT
1 TAATATATT-ATAATTAT-TAT
* *
21678 TAAATATAATATATTTAATTA-
1 T-AATATATTATAATT-ATTAT
*
21699 TAATAT-TATATAGTTATTA
1 TAATATAT-TATAATTATTA
21718 AAAAATTAAT
Statistics
Matches: 148, Mismatches: 20, Indels: 52
0.67 0.09 0.24
Matches are distributed among these distances:
17 11 0.07
18 28 0.19
19 35 0.24
20 48 0.32
21 8 0.05
22 15 0.10
23 3 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
TAATATATTATAATTATTAT
Found at i:21560 original size:29 final size:29
Alignment explanation
Indices: 21535--21588 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
21525 AATATATTTA
21535 ATAT-ATTAT-TTGATAAATATTAATATT
1 ATATAATTATATTGATAAATATTAATATT
* *
21562 ATATAATTATATTTATTAATATTAATA
1 ATATAATTATATTGATAAATATTAATA
21589 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 5 0.22
29 14 0.61
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATATAATTATATTGATAAATATTAATATT
Found at i:21639 original size:16 final size:17
Alignment explanation
Indices: 21606--21656 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
21596 TAATACTAAT
*
21606 TTATTATAATTAATTAA
1 TTATAATAATTAATTAA
21623 TTATAATAATT-ATTAA
1 TTATAATAATTAATTAA
* *
21639 TTATAATTATAAATTAA
1 TTATAATAATTAATTAA
21656 T
1 T
21657 ATTTATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAATAATTAATTAA
Found at i:21695 original size:15 final size:16
Alignment explanation
Indices: 21648--21709 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 16
21638 ATTATAATTA
*
21648 TAAAT-TAATATTTAT
1 TAAATATAATATATAT
* *
21663 TTAATA-ATTATATAT
1 TAAATATAATATATAT
21678 TAAATATAATATAT-T
1 TAAATATAATATATAT
*
21693 TAATTATAATATTATAT
1 TAAATATAATA-TATAT
21710 AGTTATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 27 0.73
16 9 0.24
17 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATATAATATATAT
Found at i:21811 original size:53 final size:52
Alignment explanation
Indices: 21614--21817 Score: 148
Period size: 53 Copynumber: 3.7 Consensus size: 52
21604 ATTTATTATA
* * *
21614 ATTAATTAATTATAATAATTATTAATTATAATTATA-AATTA-ATATTTATTTAAT
1 ATTAA-TAATTATAAT-A-TAATAA-TATAATTATATTATTATATAGTTATTTAAT
* * * *
21668 AATT-ATATATTA-AATATAATATATTTAATTATAATATTATATAGTTATTAAAAA
1 -ATTAATA-ATTATAATATAATA-ATATAATTATATTATTATATAGTTATT-TAAT
* *
21722 ATTAATAATTATGACTATTTATAATAATAGTTATTATATTCTTATATTAGCTTATTTAAT
1 ATTAATAATTAT-A--A--TATAATAATA-TAATTATATTATTATA-TAG-TTATTTAAT
21782 ATTAATAATTATAATATAATAA-ATAATTATATTATT
1 ATTAATAATTATAATATAATAATATAATTATATTATT
21818 TAATTAATTA
Statistics
Matches: 120, Mismatches: 14, Indels: 32
0.72 0.08 0.19
Matches are distributed among these distances:
51 13 0.11
52 6 0.05
53 31 0.26
54 11 0.09
55 12 0.10
57 2 0.02
58 2 0.02
59 21 0.17
60 17 0.14
61 5 0.04
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (52 bp):
ATTAATAATTATAATATAATAATATAATTATATTATTATATAGTTATTTAAT
Found at i:21827 original size:17 final size:17
Alignment explanation
Indices: 21783--21840 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
21773 TTATTTAATA
*
21783 TTAA-TAATTATAATAT
1 TTAATTAATTATATTAT
* *
21799 AATAAATAATTATATTAT
1 -TTAATTAATTATATTAT
*
21817 TTAATTAATTATTTTAT
1 TTAATTAATTATATTAT
*
21834 TTTATTA
1 TTAATTA
21841 GAATGAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 23 0.68
18 11 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATTAATTATATTAT
Found at i:22021 original size:18 final size:19
Alignment explanation
Indices: 21995--22045 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
21985 TTTGTTACTG
*
21995 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
22013 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
22031 TAATATTA-ATAAATA
1 TAAAATTATATAAATA
22046 GTATAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:22304 original size:23 final size:24
Alignment explanation
Indices: 22278--22331 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
22268 AAAATAATAC
* *
22278 TAATTTAATAATA-TTTTGAAAAT
1 TAATTTAATAATAGATTTAAAAAT
*
22301 TAA-TAAATAATAGATTTAAAAAT
1 TAATTTAATAATAGATTTAAAAAT
22324 TAAATTTA
1 T-AATTTA
22332 TTTACCTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 8 0.33
23 12 0.50
24 2 0.08
25 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TAATTTAATAATAGATTTAAAAAT
Found at i:25790 original size:182 final size:173
Alignment explanation
Indices: 25473--25982 Score: 508
Period size: 174 Copynumber: 2.9 Consensus size: 173
25463 CTAATAATCT
* * * * *
25473 AAAAATTAATTTGTTTACTGAACAA-TTTTAAATAATTATGACTATTTGAACAATTATTTATTTG
1 AAAAATAAATTTGTTTACTGAACAAGTTTAAAATAGTTATGACTATTT-AATAATTATTTATTTC
* * * * * *
25537 AAATCACTATAACCTTTTATTTTGTC-TAAAATAAAATTTTCTATTCATACAAGCTTATTTC-GA
65 AAATTACTATGACATTTTATTTTGTCATAAAAT-AATTTTTTTGTTCATACAAGCTTA-TTCGGA
*
25600 ATAAAATAATACAAATTTATTAATATTAAGACAGTTAATAAGTAAAAGATTTA
128 ATAAAATAATACTAATTTATTAATATT-------TTAATAAGTAAAAGATTTA
* *
25653 AAAAATAAATTTGTTTACTGAACAAGTTTAAAATCGTTATGACTATTTAAGTAATTTTTTATTTC
1 AAAAATAAATTTGTTTACTGAACAAGTTTAAAATAGTTATGACTATTTAA-TAATTATTTATTTC
* * * * * *
25718 AACTTGCTATGACTTTTTGTTTTGTCATAAAATAATTGTTTTTGTTCATACAAGTTTATTCGGAT
65 AAATTACTATGACATTTTATTTTGTCATAAAATAATT-TTTTTGTTCATACAAGCTTATTCGGAA
* *
25783 TAAAATAATATTAATTTATTAATATTTTGATAAGTAAAAGATTTA
129 TAAAATAATACTAATTTATTAATATTTTAATAAGTAAAAGATTTA
* * * * * * * *
25828 AAAAATAAATATGTTTACGGAATAAG-TTCAAATAGTGATGACCATTTAAATAATTATCTATTTT
1 AAAAATAAATTTGTTTACTGAACAAGTTTAAAATAGTTATGACTATTT-AATAATTATTTATTTC
* * * * * * *
25892 AAATTATTATGACATTTTCTTTTGTAATAAAAGAATTATTTTAGTTCATACAAACTTA-TCTGAA
65 AAATTACTATGACATTTTATTTTGTCATAAAATAATT-TTTTTGTTCATACAAGCTTATTCGGAA
*
25956 GTAAAATAATACTAACTTATTAATATT
129 -TAAAATAATACTAATTTATTAATATT
25983 CTGAAAATTA
Statistics
Matches: 277, Mismatches: 46, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
173 4 0.01
174 99 0.36
175 43 0.16
180 26 0.09
181 56 0.20
182 49 0.18
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (173 bp):
AAAAATAAATTTGTTTACTGAACAAGTTTAAAATAGTTATGACTATTTAATAATTATTTATTTCA
AATTACTATGACATTTTATTTTGTCATAAAATAATTTTTTTGTTCATACAAGCTTATTCGGAATA
AAATAATACTAATTTATTAATATTTTAATAAGTAAAAGATTTA
Found at i:26144 original size:180 final size:173
Alignment explanation
Indices: 25580--26145 Score: 411
Period size: 174 Copynumber: 3.2 Consensus size: 173
25570 AAATTTTCTA
* * *
25580 TTCATACAAGCTTATTTCGAATAAAATAATACAAATTTATTAATATTAAGACAGTTAATAAGTAA
1 TTCATACAAGCTTATTTCGAATAAAATAATACTAACTTATTAATATT----C---TGATAAGTAA
* * * * * ** * * ** * *
25645 AAGATTTAAAAAATAAATTTGTTTACTGAACAAGTTTAAAATCGTTATGACTATTTAAGTAATTT
59 AAGAATTAAAAAATAAATATGTTTACCGAATAAG-TTCAAATAATGATGACCACCTAAATAATTA
* ** ** ** * *
25710 TTTATTTCAACTTGCTATGACTTTTTGTTTTGTCATAAAATAATTGTTTTTG
123 TCTATCACAAAATATTATGAC-TTTTGTTTTGTCATAAAACAATTGTTTTAG
* * * * * *
25762 TTCATACAAGTTTA-TTCGGATTAAAATAATATTAATTTATTAATATTTTGATAAGTAAAAGATT
1 TTCATACAAGCTTATTTC-GAATAAAATAATACTAACTTATTAATATTCTGATAAGTAAAAGAAT
* * ** **
25826 TAAAAAATAAATATGTTTACGGAATAAGTTCAAATAGTGATGACCATTTAAATAATTATCTATTT
65 TAAAAAATAAATATGTTTACCGAATAAGTTCAAATAATGATGACCACCTAAATAATTATCTATCA
* * * * * *
25891 TAAATTATTATGACATTTTCTTTTGTAATAAAAGAATTATTTTAG
130 CAAAATATTATGAC-TTTTGTTTTGTCATAAAACAATTGTTTTAG
* *
25936 TTCATACAAACTTATCT-GAAGTAAAATAATACTAACTTATTAATATTCTGAAAATTAATTGAGT
1 TTCATACAAGCTTATTTCGAA-TAAAATAATACTAACTTATTAATATTCTG---A-T-A---AGT
* * * * * *
26000 AAGAGAATTAAAAAA-AAA-ATTTTTGCCGAATAAGTTCAAATAATTATGACTACCTGAATAATT
57 AAAAGAATTAAAAAATAAATATGTTTACCGAATAAGTTCAAATAATGATGACCACCTAAATAATT
* * *
26063 ATCTATCACAAAATATTATGACTTTATGTTTTGTCATAAAACAATCGGTTTCG
122 ATCTATCACAAAATATTATGACTTT-TGTTTTGTCATAAAACAATTGTTTTAG
* *
26116 TTCATGCAAGCTTATTTCGAAAAAAATAAT
1 TTCATACAAGCTTATTTCGAATAAAATAAT
26146 TTATTAATTA
Statistics
Matches: 312, Mismatches: 59, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
173 2 0.01
174 103 0.33
175 41 0.13
177 1 0.00
178 1 0.00
179 4 0.01
180 96 0.31
181 9 0.03
182 55 0.18
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (173 bp):
TTCATACAAGCTTATTTCGAATAAAATAATACTAACTTATTAATATTCTGATAAGTAAAAGAATT
AAAAAATAAATATGTTTACCGAATAAGTTCAAATAATGATGACCACCTAAATAATTATCTATCAC
AAAATATTATGACTTTTGTTTTGTCATAAAACAATTGTTTTAG
Found at i:26210 original size:26 final size:26
Alignment explanation
Indices: 26172--26248 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
26162 ATATCAATTA
* *
26172 TTAACTAATTATTACAATAATAATAT
1 TTAATTAAATATTACAATAATAATAT
*
26198 TTAATTAAATATTTACTAAATTATAATAT
1 TTAATTAAATA-TTAC--AATAATAATAT
26227 TT-ATT--ATATTA-ATATAATAATA
1 TTAATTAAATATTACA-ATAATAATA
26249 CATGTTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.02
23 8 0.19
25 3 0.07
26 12 0.28
27 4 0.09
28 3 0.07
29 12 0.28
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAATTAAATATTACAATAATAATAT
Found at i:26574 original size:34 final size:38
Alignment explanation
Indices: 26534--26604 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 38
26524 ACAAGTTTAT
*
26534 AATTAAATA-TAA-CTATAATAAATTTA-AT-AATAAA
1 AATTAAATATTAATATATAATAAATTTATATGAATAAA
*
26568 AATTAAATATTAATATATAATTAATTTATATGAATAA
1 AATTAAATATTAATATATAATAAATTTATATGAATAA
26605 TTATTAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 9 0.29
35 3 0.10
36 12 0.39
37 2 0.06
38 5 0.16
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (38 bp):
AATTAAATATTAATATATAATAAATTTATATGAATAAA
Found at i:26622 original size:16 final size:16
Alignment explanation
Indices: 26583--26634 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
26573 AATATTAATA
26583 TATAATTAATTTA-TAT
1 TATAATTAA-TTAGTAT
*
26599 GAATAATT-ATTAGTTAT
1 -TATAATTAATTAG-TAT
26616 TATAATTAATTAGTAT
1 TATAATTAATTAGTAT
26632 TAT
1 TAT
26635 TTATAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.10
16 13 0.43
17 14 0.47
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATAATTAATTAGTAT
Found at i:26625 original size:20 final size:20
Alignment explanation
Indices: 26602--26640 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26592 TTTATATGAA
*
26602 TAATTATTAGTTA-TTATAAT
1 TAATTAGTA-TTATTTATAAT
26622 TAATTAGTATTATTTATAA
1 TAATTAGTATTATTTATAA
26641 ATTATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TAATTAGTATTATTTATAAT
Found at i:26683 original size:13 final size:15
Alignment explanation
Indices: 26653--26703 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
26643 TATAATATTT
26653 TAATTTATATATTAA
1 TAATTTATATATTAA
*
26668 TAATTTATTATAATAA
1 TAATTTA-TATATTAA
*
26684 TAATATATTATATT-A
1 TAATTTA-TATATTAA
26699 TAATT
1 TAATT
26704 ATTATTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTTATATATTAA
Found at i:26741 original size:52 final size:54
Alignment explanation
Indices: 26641--26797 Score: 138
Period size: 52 Copynumber: 3.0 Consensus size: 54
26631 TTATTTATAA
* * *
26641 ATTATAATATTTTAATTTATATATTAATAATTTATTATAATAATAATATATTAT
1 ATTATAATATATTAATTTATATATTAAAAATTAATTATAATAATAATATATTAT
26695 ATTATAAT-TATT-ATTTCATATA-TAAAAATTAATTATAATTAA-AATAT-TT-T
1 ATTATAATATATTAATTT-ATATATTAAAAATTAATTATAA-TAATAATATATTAT
* * *
26745 ATT-TAATGATA-TAAATTATATTATT-ATAATATATTTATAATAAT-ATA-ATTAT
1 ATTATAAT-ATATTAATTTATA-TATTAAAAAT-TAATTATAATAATAATATATTAT
26797 A
1 A
26798 AATATAATTA
Statistics
Matches: 86, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
49 4 0.05
50 8 0.09
51 21 0.24
52 34 0.40
53 11 0.13
54 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (54 bp):
ATTATAATATATTAATTTATATATTAAAAATTAATTATAATAATAATATATTAT
Found at i:26768 original size:22 final size:22
Alignment explanation
Indices: 26703--26804 Score: 58
Period size: 22 Copynumber: 4.8 Consensus size: 22
26693 ATATTATAAT
*
26703 TATTATT-TCATATATAAAA-A
1 TATTATTATAATATATAAAATA
*
26723 T-TAATTAT-A-AT-TAAAATA
1 TATTATTATAATATATAAAATA
* *
26741 TTTTATT-TAATGATATAAATTA
1 TATTATTATAAT-ATATAAAATA
*
26763 TATTATTATAATATATTTATAATAA
1 TATTATTATAATATA--TAAAAT-A
*
26788 TATAATTATAA-ATATAA
1 TATTATTATAATATATAA
26805 TTAAATGTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.08
18 5 0.08
19 10 0.16
20 2 0.03
21 2 0.03
22 17 0.27
23 4 0.06
24 7 0.11
25 11 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
TATTATTATAATATATAAAATA
Found at i:26779 original size:37 final size:37
Alignment explanation
Indices: 26676--26780 Score: 90
Period size: 37 Copynumber: 2.8 Consensus size: 37
26666 AATAATTTAT
* *
26676 TATAATAA-TAATATATTATATTATAATTATTATTTCATA
1 TATAAAAATTAAT-TATTATAATAT-ATT-TTATTTCATA
* *
26715 TATAAAAATTAATTATAATTAAAATATTTTATTT-A-A
1 TATAAAAATTAATTATTA-TAATATATTTTATTTCATA
*
26751 TGATATAAATTATATTATTATAATATATTT
1 T-ATAAAAATTA-ATTATTATAATATATTT
26781 ATAATAATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
36 2 0.04
37 19 0.35
38 12 0.22
39 14 0.25
40 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (37 bp):
TATAAAAATTAATTATTATAATATATTTTATTTCATA
Found at i:26866 original size:30 final size:28
Alignment explanation
Indices: 26824--26918 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 28
26814 GTACTTAAAC
26824 AATAAT-TTAATTATAAATATTATTATTA
1 AATAATATTAATTATAAATATTATTA-TA
*
26852 AATATTTATTAATTATAAACTA-TATTATA
1 AATA-ATATTAATTATAAA-TATTATTATA
* * *
26881 ACTAATATAAATTAATAAATATTAATA-A
1 AATAATATTAATT-ATAAATATTATTATA
26909 AATAAATATT
1 AAT-AATATT
26919 TATAATGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.30
29 20 0.37
30 16 0.30
31 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AATAATATTAATTATAAATATTATTATA
Found at i:26870 original size:17 final size:16
Alignment explanation
Indices: 26830--26870 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 16
26820 AAACAATAAT
26830 TTAATTATAAATATTA
1 TTAATTATAAATATTA
26846 TT-A-T-TAAATATTTA
1 TTAATTATAAATA-TTA
26860 TTAATTATAAA
1 TTAATTATAAA
26871 CTATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.29
14 6 0.29
15 2 0.10
16 3 0.14
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATTATAAATATTA
Found at i:26914 original size:15 final size:15
Alignment explanation
Indices: 26894--26923 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26884 AATATAAATT
26894 AATAAATATTAATAA
1 AATAAATATTAATAA
*
26909 AATAAATATTTATAA
1 AATAAATATTAATAA
26924 TGATTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAATATTAATAA
Found at i:27028 original size:19 final size:21
Alignment explanation
Indices: 26996--27034 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
26986 CTAATATTAA
26996 ATATATTTATATAATCATATG
1 ATATATTTATATAATCATATG
*
27017 ATAT-TTTA-ATAATTATAT
1 ATATATTTATATAATCATAT
27035 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
ATATATTTATATAATCATATG
Found at i:27235 original size:22 final size:21
Alignment explanation
Indices: 27197--27246 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
27187 TAAGATTATT
*
27197 ATAATATTATTAATAATTTAA
1 ATAATATTAATAATAATTTAA
* **
27218 ATAATTATTAATAGTAATTTTT
1 ATAA-TATTAATAATAATTTAA
27240 ATAATAT
1 ATAATAT
27247 AAGATTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAATATTAATAATAATTTAA
Found at i:27523 original size:18 final size:18
Alignment explanation
Indices: 27496--27531 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27486 ATAAAAATCA
*
27496 AAGATAAAAAATTAAAAG
1 AAGATAAAAAATGAAAAG
*
27514 AAGATCAAAAATGAAAAG
1 AAGATAAAAAATGAAAAG
27532 GGACGACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (18 bp):
AAGATAAAAAATGAAAAG
Found at i:27947 original size:24 final size:25
Alignment explanation
Indices: 27897--27949 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
27887 AAAGTTTATG
*
27897 AAAATATAAATAAAGAAAGAAATAA
1 AAAATATAAATAAAGAAAGAAAGAA
*
27922 AAAATA-AAATAAATAAA-ATAAGAA
1 AAAATATAAATAAAGAAAGA-AAGAA
27946 AAAA
1 AAAA
27950 ATTAAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 18 0.72
25 6 0.24
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (25 bp):
AAAATATAAATAAAGAAAGAAAGAA
Found at i:27973 original size:32 final size:33
Alignment explanation
Indices: 27897--28063 Score: 96
Period size: 34 Copynumber: 5.1 Consensus size: 33
27887 AAAGTTTATG
*
27897 AAAATATAAATAAAGAAAGAAATAAAAAATAAAA
1 AAAATATAAAT-AAGAAAAAAATAAAAAATAAAA
* * *
27931 TAAATA-AAATAAGAAAAAAAT-TAAAGTAAAA
1 AAAATATAAATAAGAAAAAAATAAAAAATAAAA
* * *
27962 AAAAGATAAATAAAGTACAAAAA-AGAAAA-AAAA
1 AAAATATAAAT-AAG-AAAAAAATAAAAAATAAAA
** ** *
27995 TCAATACCAATAA-AAAATAAA-CAAAAATACAATA
1 AAAATATAAATAAGAAAA-AAATAAAAAATA-AA-A
**
28029 AAAATATAAA-AAGTAAGTAAATAAAAAATAAAA
1 AAAATATAAATAAG-AAAAAAATAAAAAATAAAA
28062 AA
1 AA
28064 GGCAAAAATT
Statistics
Matches: 98, Mismatches: 24, Indels: 23
0.68 0.17 0.16
Matches are distributed among these distances:
30 3 0.03
31 19 0.19
32 17 0.17
33 24 0.24
34 26 0.27
35 9 0.09
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (33 bp):
AAAATATAAATAAGAAAAAAATAAAAAATAAAA
Found at i:27977 original size:20 final size:20
Alignment explanation
Indices: 27919--27987 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
27909 AAGAAAGAAA
* *
27919 TAAAAAATAAAATAAATAAAA
1 TAAAAAA-AAGATAAATAAAG
27940 TAAGAAAAAA-AT---TAAAG
1 TAA-AAAAAAGATAAATAAAG
27957 TAAAAAAAAGATAAATAAAG
1 TAAAAAAAAGATAAATAAAG
*
27977 TACAAAAAAGA
1 TAAAAAAAAGA
27988 AAAAAAATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
20 17 0.41
21 5 0.12
22 4 0.10
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.16
Consensus pattern (20 bp):
TAAAAAAAAGATAAATAAAG
Found at i:28029 original size:22 final size:22
Alignment explanation
Indices: 27997--28062 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
27987 AAAAAAAATC
27997 AATACCAATAAAAAATAAACAA-A
1 AATA-CAATAAAAAATAAA-AAGA
28020 AATACAATAAAAATATAAAAAGTA
1 AATACAATAAAAA-ATAAAAAG-A
*
28044 AGTA-AATAAAAAATAAAAA
1 AATACAATAAAAAATAAAAA
28063 AGGCAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 18 0.46
23 17 0.44
24 4 0.10
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (22 bp):
AATACAATAAAAAATAAAAAGA
Found at i:28063 original size:23 final size:22
Alignment explanation
Indices: 28010--28064 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 22
28000 ACCAATAAAA
* *
28010 AATAAACAAAAATACAAT-AAA
1 AATAAAAAAGAATACAATAAAA
28031 AATATAAAAAGTAAGTA-AATAAAA
1 AATA-AAAAAG-AA-TACAATAAAA
28055 AATAAAAAAG
1 AATAAAAAAG
28065 GCAAAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 11 0.39
24 9 0.32
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (22 bp):
AATAAAAAAGAATACAATAAAA
Found at i:28188 original size:22 final size:23
Alignment explanation
Indices: 28144--28203 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
28134 AGAAAATTGA
*
28144 AAAAC-ATATAAGAAATAATAAG
1 AAAACAATATAAAAAATAATAAG
*
28166 AAAACAATATAAAAAATCA-AAG
1 AAAACAATATAAAAAATAATAAG
*
28188 ACAAAAAAT-TAAAAAA
1 A-AAACAATATAAAAAA
28204 GGGAAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAACAATATAAAAAATAATAAG
Found at i:28511 original size:17 final size:16
Alignment explanation
Indices: 28474--28504 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
28464 AAGTAATAAA
28474 AAAATAAAAAAAAGAC
1 AAAATAAAAAAAAGAC
28490 AAAATAAAAAAAAGA
1 AAAATAAAAAAAAGA
28505 AGAAAATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAATAAAAAAAAGAC
Found at i:29660 original size:8 final size:8
Alignment explanation
Indices: 29647--29716 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
29637 TACAAACAAT
29647 AAGATATA
1 AAGATATA
29655 AAGATATA
1 AAGATATA
*
29663 AA-ATACA
1 AAGATATA
*
29670 AACA-A-A
1 AAGATATA
29676 AA-ATATA
1 AAGATATA
29683 AA-ATATA
1 AAGATATA
*
29690 ACAAATA-A
1 A-AGATATA
29698 TAAGATATA
1 -AAGATATA
29707 AAGATATA
1 AAGATATA
29715 AA
1 AA
29717 AATCACAGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
5 1 0.02
6 4 0.08
7 16 0.30
8 27 0.51
9 5 0.09
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (8 bp):
AAGATATA
Found at i:29668 original size:29 final size:29
Alignment explanation
Indices: 29633--29717 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
29623 TTTTTATAAA
29633 AAAATACAAACAATAAGATATAAAGATAT
1 AAAATACAAACAATAAGATATAAAGATAT
*
29662 AAAATACAAACAA-AAAATATAAA-ATAT
1 AAAATACAAACAATAAGATATAAAGATAT
*
29689 ---A-ACAAATAATAAGATATAAAGATAT
1 AAAATACAAACAATAAGATATAAAGATAT
29714 AAAA
1 AAAA
29718 ATCACAGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 7 0.15
24 10 0.21
25 4 0.08
27 4 0.08
28 10 0.21
29 13 0.27
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.20
Consensus pattern (29 bp):
AAAATACAAACAATAAGATATAAAGATAT
Found at i:29687 original size:7 final size:7
Alignment explanation
Indices: 29645--29717 Score: 51
Period size: 7 Copynumber: 9.9 Consensus size: 7
29635 AATACAAACA
*
29645 ATAAGAT
1 ATAAAAT
29652 ATAAAGAT
1 ATAAA-AT
29660 ATAAAAT
1 ATAAAAT
*
29667 ACAAACA-
1 ATAAA-AT
29674 A-AAAAT
1 ATAAAAT
29680 ATAAAAT
1 ATAAAAT
29687 ATAACAAAT
1 AT-A-AAAT
*
29696 AATAAGAT
1 -ATAAAAT
29704 ATAAAGAT
1 ATAAA-AT
29712 ATAAAA
1 ATAAAA
29718 ATCACAGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
5 1 0.02
6 4 0.07
7 23 0.43
8 19 0.35
9 5 0.09
10 2 0.04
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.22
Consensus pattern (7 bp):
ATAAAAT
Found at i:29705 original size:17 final size:16
Alignment explanation
Indices: 29676--29717 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
29666 TACAAACAAA
29676 AAATATAAAATATAAC
1 AAATATAAAATATAAC
*
29692 AAATAATAAGATATAA-
1 AAAT-ATAAAATATAAC
*
29708 AGATATAAAA
1 AAATATAAAA
29718 ATCACAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 10 0.45
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (16 bp):
AAATATAAAATATAAC
Found at i:29983 original size:26 final size:26
Alignment explanation
Indices: 29926--29984 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
29916 GAAAAAAATT
29926 AAAAAAACAAGAAATAAAATGAAAAG
1 AAAAAAACAAGAAATAAAATGAAAAG
** * *
29952 GCAAAAATATGAAATAAAA-GAAAAAG
1 AAAAAAACAAGAAATAAAATG-AAAAG
29978 AAAAAAA
1 AAAAAAA
29985 GTTTTATAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.08
Consensus pattern (26 bp):
AAAAAAACAAGAAATAAAATGAAAAG
Found at i:30120 original size:17 final size:17
Alignment explanation
Indices: 30085--30131 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
30075 CAACAACAAT
30085 AAATAAAAAAGA-AAAAA
1 AAATAAAAAA-ATAAAAA
*
30102 AAGATAGAAAAATAAAAA
1 AA-ATAAAAAAATAAAAA
30120 AAATAAAAAAAT
1 AAATAAAAAAAT
30132 CCAAAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAATAAAAAAATAAAAA
Found at i:30238 original size:19 final size:19
Alignment explanation
Indices: 30216--30270 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
30206 TAAAATGAGA
*
30216 AAAAAAATTAAATCAAA-AC
1 AAAAAAA-TAAATAAAATAC
30235 AAAAAAGATAAATAAAATAC
1 AAAAAA-ATAAATAAAATAC
*
30255 AAAAAAAGAAA-AAAAT
1 AAAAAAATAAATAAAAT
30271 CGACACCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 18 0.56
20 9 0.28
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAATAAATAAAATAC
Found at i:30240 original size:20 final size:20
Alignment explanation
Indices: 30203--30261 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
30193 AAAAACGAAA
*
30203 AAATAAAATGAGAAAAAAAATT
1 AAATAAAAT-ACAAAAAAAA-T
* *
30225 AAATCAAA-ACAAAAAAGAT
1 AAATAAAATACAAAAAAAAT
30244 AAATAAAATACAAAAAAA
1 AAATAAAATACAAAAAAA
30262 GAAAAAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 8 0.26
20 16 0.52
22 7 0.23
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (20 bp):
AAATAAAATACAAAAAAAAT
Found at i:30299 original size:7 final size:7
Alignment explanation
Indices: 30278--30347 Score: 52
Period size: 7 Copynumber: 9.3 Consensus size: 7
30268 AATCGACACC
30278 AATAAGAA
1 AATAA-AA
*
30286 AAGAAAA
1 AATAAAA
30293 AATAAAA
1 AATAAAA
30300 AATAAAGA
1 AATAAA-A
*
30308 AA-AATAC
1 AATAA-AA
30315 AATAAAA
1 AATAAAA
30322 AATATCAAA
1 AATA--AAA
*
30331 AGTAAGAA
1 AATAA-AA
30339 AATAAAA
1 AATAAAA
30346 AA
1 AA
30348 AAATGAATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
7 28 0.56
8 16 0.32
9 6 0.12
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:30814 original size:8 final size:8
Alignment explanation
Indices: 30803--30855 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
30793 ATAAAAAGAC
30803 AAAATAAA
1 AAAATAAA
*
30811 AAAATAAG
1 AAAATAAA
30819 AAAATAAAA
1 AAAAT-AAA
*
30828 AAGAATCAA
1 AA-AATAAA
30837 AAAAT--A
1 AAAATAAA
30843 AAAATAAA
1 AAAATAAA
30851 AAAAT
1 AAAAT
30856 TTTGAACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 6 0.16
8 21 0.55
9 8 0.21
10 3 0.08
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (8 bp):
AAAATAAA
Found at i:30814 original size:16 final size:16
Alignment explanation
Indices: 30780--30855 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
30770 AAAATACAAC
*
30780 AAAAAATAGCAAAAT-
1 AAAAAATAACAAAATA
*
30795 -AAAAA-GACAAAATA
1 AAAAAATAACAAAATA
*
30809 AAAAAATAAGAAAATA
1 AAAAAATAACAAAATA
*
30825 AAAAAGA-ATCAAAA-A
1 AAAAA-ATAACAAAATA
*
30840 ATAAAAATAAAAAAAT
1 A-AAAAATAACAAAAT
30856 TTTGAACTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.13
14 5 0.11
15 8 0.17
16 26 0.57
17 1 0.02
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAAATAACAAAATA
Found at i:30840 original size:18 final size:17
Alignment explanation
Indices: 30803--30846 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
30793 ATAAAAAGAC
30803 AAAAT-AAAAAAATAAG
1 AAAATAAAAAAAATAAG
30819 AAAATAAAAAAGAATCAA-
1 AAAATAAAAAA-AAT-AAG
30837 AAAATAAAAA
1 AAAATAAAAA
30847 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.20
17 5 0.20
18 13 0.52
19 2 0.08
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAAATAAG
Found at i:30918 original size:16 final size:15
Alignment explanation
Indices: 30889--30965 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 15
30879 AAATATAAAT
30889 AAAAAATAAAAGAAA
1 AAAAAATAAAAGAAA
*
30904 AAAAAATTAAGAGAAA
1 AAAAAA-TAAAAGAAA
*
30920 ATATTAATATAAAAGCAAA
1 A-A--AAAATAAAAG-AAA
* * *
30939 ATAAAATAAAATACTA
1 AAAAAATAAAAGA-AA
30955 AAAAAATAAAA
1 AAAAAATAAAA
30966 AAGTAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.15
16 28 0.58
17 1 0.02
18 5 0.10
19 7 0.15
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAGAAA
Found at i:30972 original size:16 final size:16
Alignment explanation
Indices: 30941--30975 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30931 AAAGCAAAAT
*
30941 AAAATAAAATACTAAA
1 AAAATAAAAAACTAAA
*
30957 AAAATAAAAAAGTAAA
1 AAAATAAAAAACTAAA
30973 AAA
1 AAA
30976 TAGAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAACTAAA
Found at i:31452 original size:15 final size:16
Alignment explanation
Indices: 31429--31462 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31419 ATAATGAATA
*
31429 ATAAGAAAT-AAAGAT
1 ATAAAAAATCAAAGAT
31444 ATAAAAAATCAAAGAT
1 ATAAAAAATCAAAGAT
31460 ATA
1 ATA
31463 GTAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (16 bp):
ATAAAAAATCAAAGAT
Found at i:31578 original size:19 final size:18
Alignment explanation
Indices: 31556--31601 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
31546 GAAAAGGTAA
31556 AAAAAATAAAAT-AAAAAG
1 AAAAAA-AAAATGAAAAAG
*
31574 CAAAAAAAAAATGGAAAAG
1 -AAAAAAAAAATGAAAAAG
31593 AAAAAAAAA
1 AAAAAAAAA
31602 GTAAATAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.83, C:0.02, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAATGAAAAAG
Found at i:32086 original size:13 final size:12
Alignment explanation
Indices: 32070--32114 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
32060 AAAATTTATG
32070 AAAAAAATAAATA
1 AAAAAAATAAA-A
32083 AAAAAAATAAAA
1 AAAAAAATAAAA
*
32095 ATAAAAATAAAA
1 AAAAAAATAAAA
32107 AAGAAAAA
1 AA-AAAAA
32115 AATATTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:32102 original size:21 final size:22
Alignment explanation
Indices: 32091--32213 Score: 70
Period size: 27 Copynumber: 5.2 Consensus size: 22
32081 TAAAAAAAAT
32091 AAAAATAA-AAATAAAAAAGAA
1 AAAAATAATAAATAAAAAAGAA
* **
32112 AAAAATATTAAA-GCAAAAGAA
1 AAAAATAATAAATAAAAAAGAA
*
32133 AAAAGATAAATAAAGTACAAAAAAATA
1 AAAA-AT-AATAAA-TA-AAAAAGA-A
*
32160 AAAAATAATCAAAATTATAAACAGTAA
1 AAAAATAAT--AAA-TA-AAAAAG-AA
* * *
32187 GAAAATAAAAAATAAAAAATAA
1 AAAAATAATAAATAAAAAAGAA
32209 AAAAA
1 AAAAA
32214 GATAAAAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 19
0.68 0.14 0.17
Matches are distributed among these distances:
21 18 0.24
22 11 0.14
23 9 0.12
24 2 0.03
25 6 0.08
26 7 0.09
27 22 0.29
28 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAAATAATAAATAAAAAAGAA
Found at i:32114 original size:6 final size:6
Alignment explanation
Indices: 32072--32107 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
32062 AATTTATGAA
*
32072 AAAAAT AAATAAA AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAA
32108 AGAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:32220 original size:7 final size:7
Alignment explanation
Indices: 32071--32212 Score: 67
Period size: 7 Copynumber: 18.9 Consensus size: 7
32061 AAATTTATGA
32071 AAAAAAT
1 AAAAAAT
*
32078 AAATAA-
1 AAAAAAT
32084 AAAAAAT
1 AAAAAAT
32091 -AAAAAT
1 AAAAAAT
32097 -AAAAAT
1 AAAAAAT
*
32103 AAAAAAGA
1 AAAAAA-T
32111 AAAAAAT
1 AAAAAAT
* **
32118 ATTAAAGC
1 A-AAAAAT
32126 AAAAGAA-
1 AAAA-AAT
*
32133 AAAAGAT
1 AAAAAAT
32140 AAATAAAGT
1 AAA-AAA-T
32149 ACAAAAAAAT
1 ---AAAAAAT
32159 AAAAAAT
1 AAAAAAT
32166 AATCAAAATT
1 AA--AAAA-T
*
32176 ATAAACAGT
1 A-AAA-AAT
32185 AAGAAAAT
1 AA-AAAAT
32193 AAAAAAT
1 AAAAAAT
32200 AAAAAAT
1 AAAAAAT
32207 AAAAAA
1 AAAAAA
32213 AGATAAAAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
6 18 0.17
7 47 0.45
8 18 0.17
9 11 0.10
10 4 0.04
11 4 0.04
12 3 0.03
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:32529 original size:9 final size:8
Alignment explanation
Indices: 32511--32556 Score: 56
Period size: 9 Copynumber: 5.2 Consensus size: 8
32501 AAAAGATTTG
32511 AAATAAAAA
1 AAAT-AAAA
32520 AAATATAAA
1 AAATA-AAA
32529 AAATGAAAA
1 AAAT-AAAA
32538 AAATAAAA
1 AAATAAAA
32546 CAAATAAAA
1 -AAATAAAA
32555 AA
1 AA
32557 TGAAACCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.21
9 26 0.76
10 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:32532 original size:18 final size:18
Alignment explanation
Indices: 32511--32556 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
32501 AAAAGATTTG
32511 AAATAAAAAAAATATAAA-
1 AAATAAAAAAAATA-AAAC
*
32529 AAATGAAAAAAATAAAAC
1 AAATAAAAAAAATAAAAC
32547 AAATAAAAAA
1 AAATAAAAAA
32557 TGAAACCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (18 bp):
AAATAAAAAAAATAAAAC
Found at i:32576 original size:25 final size:24
Alignment explanation
Indices: 32509--32561 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
32499 ACAAAAGATT
* *
32509 TGAAATAAA-AAAAATATAAAAAA
1 TGAAAAAAATAAAAAAATAAAAAA
32532 TGAAAAAAATAAAACAAATAAAAAA
1 TGAAAAAAATAAAA-AAATAAAAAA
32557 TGAAA
1 TGAAA
32562 CCATATAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 8 0.31
24 4 0.15
25 14 0.54
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (24 bp):
TGAAAAAAATAAAAAAATAAAAAA
Found at i:32659 original size:20 final size:20
Alignment explanation
Indices: 32614--32660 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32604 GAAAAGTTAT
*
32614 TGAAAAATTATAAAATAAAA
1 TGAAAAATAATAAAATAAAA
**
32634 CAAAAAATAATAAAATAAAA
1 TGAAAAATAATAAAATAAAA
32654 TGAAAAA
1 TGAAAAA
32661 GGTTCACAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (20 bp):
TGAAAAATAATAAAATAAAA
Found at i:32790 original size:25 final size:24
Alignment explanation
Indices: 32758--32829 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 24
32748 AGAAAATATT
*
32758 AATATAAAAGATAA-AATAAAATAA
1 AATATAAAAAATAACAA-AAAATAA
32782 AATACTAAAAAATAACAAAAAATAA
1 AATA-TAAAAAATAACAAAAAATAA
32807 GAA-AGTAAGAAAATAA-AAAAAAT
1 -AATA-TAA-AAAATAACAAAAAAT
32830 GTAAAAAGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.10
25 27 0.64
26 11 0.26
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (24 bp):
AATATAAAAAATAACAAAAAATAA
Found at i:33245 original size:10 final size:8
Alignment explanation
Indices: 33215--33393 Score: 58
Period size: 8 Copynumber: 20.4 Consensus size: 8
33205 ATGAAAATTT
33215 AAATAAAA
1 AAATAAAA
*
33223 AAGAAATAAA
1 AA-ATA-AAA
33233 AAATAAACCA
1 AAATAAA--A
33243 AAATAAAA
1 AAATAAAA
33251 AAATAAAA
1 AAATAAAA
33259 AAA-AATAA
1 AAATAA-AA
*
33267 GAAA-AGAA
1 -AAATAAAA
* *
33275 TATTAAAGTA
1 AAATAAA--A
*
33285 AAACAAAA
1 AAATAAAA
33293 AAGATAAACA
1 AA-ATAAA-A
33303 AAATAGAAAAA
1 AAAT---AAAA
*
33314 AAAGAAAA
1 AAATAAAA
*
33322 AAATCAATAC
1 AAAT-AA-AA
*
33332 CAATAAAA
1 AAATAAAA
*
33340 ATAT-AAA
1 AAATAAAA
* *
33347 AAGTAAGA
1 AAATAAAA
*
33355 GAATAAAAA
1 AAAT-AAAA
33364 ATAATGAATAA
1 A-AAT-AA-AA
33375 AAATAAAA
1 AAATAAAA
33383 AAATAAAA
1 AAATAAAA
33391 AAA
1 AAA
33394 ATGAATAAAA
Statistics
Matches: 126, Mismatches: 25, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
7 8 0.06
8 52 0.41
9 23 0.18
10 33 0.26
11 7 0.06
12 3 0.02
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:33246 original size:17 final size:17
Alignment explanation
Indices: 33215--33271 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
33205 ATGAAAATTT
33215 AAATAAAAAAGAAATAAA
1 AAATAAAAAA-AAATAAA
**
33233 AAATAAACCAAAATAAAA
1 AAATAAAAAAAAAT-AAA
33251 AAATAAAAAAAAATAAGA
1 AAATAAAAAAAAATAA-A
33269 AAA
1 AAA
33272 GAATATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 27 0.82
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.11
Consensus pattern (17 bp):
AAATAAAAAAAAATAAA
Found at i:33262 original size:29 final size:29
Alignment explanation
Indices: 33215--33348 Score: 73
Period size: 29 Copynumber: 4.6 Consensus size: 29
33205 ATGAAAATTT
* *
33215 AAAT-AAAAAAGAAATAAAAAATAA-ACCA
1 AAATAAAAAAATAAAAAAAAAATAAGA-CA
*
33243 AAATAAAAAAAT-AAAAAAAAATAAGAAA
1 AAATAAAAAAATAAAAAAAAAATAAGACA
** *
33271 AGAATATTAAAGTAAAACAAAAAAGATAA-ACA
1 A-AATAAAAAAAT-AAA-AAAAAA-ATAAGACA
* *
33303 AAATAGAAAAAA-AAGAAAAAAATCAATAC-
1 AAATA-AAAAAATAAAAAAAAAAT-AAGACA
* *
33332 CAATAAAAATATAAAAA
1 AAATAAAAAAATAAAAA
33349 GTAAGAGAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
28 24 0.30
29 31 0.38
30 4 0.05
31 6 0.07
32 12 0.15
33 4 0.05
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (29 bp):
AAATAAAAAAATAAAAAAAAAATAAGACA
Found at i:33276 original size:11 final size:10
Alignment explanation
Indices: 33214--33324 Score: 50
Period size: 11 Copynumber: 10.8 Consensus size: 10
33204 TATGAAAATT
33214 TAAATAAAAAA
1 TAAA-AAAAAA
*
33225 GAAATAAAAAA
1 TAAA-AAAAAA
**
33236 TAAACCAAAA
1 TAAAAAAAAA
33246 T--AAAAAAA
1 TAAAAAAAAA
33254 TAAAAAAAAA
1 TAAAAAAAAA
33264 TAAGAAAAGAATA
1 TAA-AAAA-AA-A
**
33277 TTAAAGTAAAA
1 -TAAAAAAAAA
* *
33288 -CAAAAAAGA
1 TAAAAAAAAA
*
33297 T-AAACAAAA
1 TAAAAAAAAA
33306 TAGAAAAAAAA
1 TA-AAAAAAAA
*
33317 GAAAAAAA
1 TAAAAAAA
33325 TCAATACCAA
Statistics
Matches: 75, Mismatches: 16, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
8 6 0.08
9 12 0.16
10 21 0.28
11 26 0.35
12 4 0.05
13 3 0.04
14 3 0.04
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:33372 original size:14 final size:14
Alignment explanation
Indices: 33355--33404 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
33345 AAAAGTAAGA
33355 GAATAAAAAATAAT
1 GAATAAAAAATAAT
*
33369 GAAT-AAAAATAAAA
1 GAATAAAAAAT-AAT
*
33383 AAATAAAAAA-AAT
1 GAATAAAAAATAAT
33396 GAATAAAAA
1 GAATAAAAA
33405 TTTCAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 16 0.53
14 9 0.30
15 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
GAATAAAAAATAAT
Found at i:33403 original size:10 final size:9
Alignment explanation
Indices: 33333--33405 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 9
33323 AATCAATACC
33333 AATAAAAAT
1 AATAAAAAT
33342 -ATAAAAAGT
1 AATAAAAA-T
* *
33351 AA-GAGAAT
1 AATAAAAAT
*
33359 AAAAAATAAT
1 AATAAA-AAT
33369 GAATAAAAAT
1 -AATAAAAAT
33379 AA-AAAAAT
1 AATAAAAAT
*
33387 AAAAAAAAT
1 AATAAAAAT
33396 GAATAAAAAT
1 -AATAAAAAT
33406 TTCAAAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
8 18 0.35
9 13 0.25
10 15 0.29
11 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (9 bp):
AATAAAAAT
Found at i:33414 original size:28 final size:28
Alignment explanation
Indices: 33342--33405 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
33332 CAATAAAAAT
* *
33342 ATAAAAAGTAAGAGAATAAAAAATAATGA
1 ATAAAAA-TAAAAAAATAAAAAATAATGA
33371 ATAAAAATAAAAAAATAAAAAA-AATGA
1 ATAAAAATAAAAAAATAAAAAATAATGA
33398 ATAAAAAT
1 ATAAAAAT
33406 TTCAAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 13 0.39
28 13 0.39
29 7 0.21
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (28 bp):
ATAAAAATAAAAAAATAAAAAATAATGA
Found at i:33918 original size:8 final size:8
Alignment explanation
Indices: 33902--33943 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
33892 ATATTAATGT
*
33902 AAAAGAAA
1 AAAATAAA
33910 AAAATAAA
1 AAAATAAA
* *
33918 ATAGTAAA
1 AAAATAAA
33926 AAAATAAA
1 AAAATAAA
33934 AAAATAAA
1 AAAATAAA
33942 AA
1 AA
33944 GGAAGAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:33934 original size:24 final size:23
Alignment explanation
Indices: 33902--33959 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
33892 ATATTAATGT
* *
33902 AAAAGAAAAAAATAAAATAGTAAA
1 AAAATAAAAAAATAAAA-AGGAAA
*
33926 AAAATAAAAAAATAAAAAGGAAG
1 AAAATAAAAAAATAAAAAGGAAA
33949 AAAATAAAAAA
1 AAAATAAAAAA
33960 TTAGCTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.10
Consensus pattern (23 bp):
AAAATAAAAAAATAAAAAGGAAA
Found at i:34127 original size:23 final size:21
Alignment explanation
Indices: 34076--34127 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
34066 AATGAAAGAT
34076 AAAAAATAAAATAGAAAGTCA
1 AAAAAATAAAATAGAAAGTCA
34097 ATAGAAAATATAAATA-AAAGTACA
1 A-A-AAAATA-AAATAGAAAGT-CA
34121 CAAAAAA
1 -AAAAAA
34128 AAGTGTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
22 1 0.04
23 15 0.58
24 8 0.31
25 1 0.04
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (21 bp):
AAAAAATAAAATAGAAAGTCA
Found at i:34508 original size:31 final size:30
Alignment explanation
Indices: 34438--34508 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
34428 CAAAAATTAA
* *
34438 CAATAAAAATAAAAAGAAAAATAAAATAAG
1 CAATAAAAAGAAAAAGAAAAATAAAAAAAG
* *
34468 TATTCAAAAAGAGAAAA-AAAAATAAAAAAATG
1 CAAT-AAAAAGA-AAAAGAAAAATAAAAAAA-G
34500 CAATAAAAA
1 CAATAAAAA
34509 AGTAAAGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
30 2 0.06
31 23 0.72
32 7 0.22
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (30 bp):
CAATAAAAAGAAAAAGAAAAATAAAAAAAG
Found at i:34997 original size:22 final size:21
Alignment explanation
Indices: 34972--35024 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
34962 GAAAATGCAT
34972 AAAAAGTAAAAAAAA-AAAACCG
1 AAAAAGTAAAAAAAAGAAAA--G
34994 -AAAAGCTAAAAAAAAGGAAAAG
1 AAAAAG-TAAAAAAAA-GAAAAG
35016 AAAAAGTAA
1 AAAAAGTAA
35025 GTAAATAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 5 0.19
24 4 0.15
ACGTcount: A:0.75, C:0.06, G:0.13, T:0.06
Consensus pattern (21 bp):
AAAAAGTAAAAAAAAGAAAAG
Found at i:35836 original size:23 final size:21
Alignment explanation
Indices: 35760--35886 Score: 76
Period size: 23 Copynumber: 5.7 Consensus size: 21
35750 AATAAAGATT
* *
35760 TAAAAAATCAAATATAAAAAATA
1 TAAAAAAT-AAA-AAAAAAAAAA
* *
35783 TAAGTAAAATACAAAAAAAATAA
1 TAA--AAAATAAAAAAAAAAAAA
**
35806 T-ACCAATAAGAAAAAAAAACAA
1 TAAAAAATAA-AAAAAAAAA-AA
* *
35828 TAAAAAATAAACAAAAATATAA
1 TAAAAAATAAA-AAAAAAAAAA
* *
35850 TAAAAATATAAAAAGTAAGAAAA
1 TAAAAA-ATAAAAA-AAAAAAAA
35873 TAAAAAATAAAAAA
1 TAAAAAATAAAAAA
35887 GATAGAAATT
Statistics
Matches: 80, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
20 4 0.05
21 8 0.10
22 22 0.28
23 39 0.49
24 2 0.03
25 5 0.06
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (21 bp):
TAAAAAATAAAAAAAAAAAAA
Found at i:35843 original size:22 final size:20
Alignment explanation
Indices: 35760--35886 Score: 74
Period size: 22 Copynumber: 5.7 Consensus size: 20
35750 AATAAAGATT
*
35760 TAAAAAATCAAATATAAAAAATA
1 TAAAAAAT-AAA-A-AAAAAAAA
*
35783 TAAGTAAAATACAAAAAAAATAA
1 TAA--AAAATA-AAAAAAAAAAA
* * *
35806 TACCAATAAGAAAAAAAAACAA
1 TA--AAAAATAAAAAAAAAAAA
*
35828 TAAAAAATAAACAAAAATATAA
1 TAAAAAATAAA-AAAAA-AAAA
*
35850 TAAAAATATAAAAAGTAAGAAAA
1 TAAAAA-ATAAAAA--AAAAAAA
35873 TAAAAAATAAAAAA
1 TAAAAAATAAAAAA
35887 GATAGAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
20 8 0.10
21 5 0.06
22 30 0.36
23 29 0.35
24 4 0.05
25 8 0.10
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (20 bp):
TAAAAAATAAAAAAAAAAAA
Found at i:35854 original size:20 final size:19
Alignment explanation
Indices: 35769--35854 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 19
35759 TTAAAAAATC
*
35769 AAATATAAAAAATATAAGTA
1 AAATAAAAAAAATATAA-TA
35789 AAATACAAAAAAA-ATAATA
1 AAATA-AAAAAAATATAATA
* * *
35808 CCAATAAGAAAAAAAAACAATAAA
1 -AAAT-A-AAAAAAATATAAT--A
35832 AAATAAACAAAAATATAATA
1 AAATAAA-AAAAATATAATA
35852 AAA
1 AAA
35855 ATATAAAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
19 2 0.04
20 16 0.31
21 16 0.31
22 14 0.27
23 3 0.06
24 1 0.02
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (19 bp):
AAATAAAAAAAATATAATA
Found at i:35855 original size:53 final size:53
Alignment explanation
Indices: 35773--35886 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 53
35763 AAAATCAAAT
** **
35773 ATAAAAAATATAAGTAAAATACAAAAAAAATAATACCAA-TAAGAAAAAAAAACA
1 ATAAAAAATATAACAAAAATACAAAAAAAAT-ATAAAAAGTAAGAAAAAAAAA-A
* * *
35827 ATAAAAAATA-AACAAAAATATAATAAAAATATAAAAAGTAAGAAAATAAAAA
1 ATAAAAAATATAACAAAAATACAAAAAAAATATAAAAAGTAAGAAAAAAAAAA
35879 ATAAAAAA
1 ATAAAAAA
35887 GATAGAAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 14 0.27
53 28 0.54
54 10 0.19
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (53 bp):
ATAAAAAATATAACAAAAATACAAAAAAAATATAAAAAGTAAGAAAAAAAAAA
Found at i:35862 original size:8 final size:7
Alignment explanation
Indices: 35760--35886 Score: 69
Period size: 7 Copynumber: 17.0 Consensus size: 7
35750 AATAAAGATT
35760 TAAAAAA
1 TAAAAAA
* *
35767 TCAAATA
1 TAAAAAA
35774 TAAAAAA
1 TAAAAAA
* *
35781 T-ATAAG
1 TAAAAAA
35787 TAAAATACA
1 TAAAA-A-A
*
35796 AAAAAAA
1 TAAAAAA
*
35803 TAATACCAA
1 TAA-A-AAA
35812 TAAGAAAA
1 TAA-AAAA
*
35820 AAAAACAA
1 TAAAA-AA
35828 TAAAAAA
1 TAAAAAA
35835 TAAACAAA
1 TAAA-AAA
*
35843 -AATATAA
1 TAA-AAAA
35850 TAAAAATA
1 TAAAAA-A
*
35858 TAAAAAG
1 TAAAAAA
35865 TAAGAAAA
1 TAA-AAAA
35873 TAAAAAA
1 TAAAAAA
35880 TAAAAAA
1 TAAAAAA
35887 GATAGAAATT
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
6 4 0.04
7 44 0.49
8 32 0.36
9 10 0.11
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:35887 original size:23 final size:22
Alignment explanation
Indices: 35826--35894 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 22
35816 AAAAAAAAAC
* *
35826 AATAAAAAATAAACAAA-AATAT
1 AATAAAAAATAAA-AAAGAAGAA
35848 AAT-AAAAATATAAAAAGTAAGAA
1 AATAAAAAATA-AAAAAG-AAGAA
35871 AATAAAAAATAAAAAAGATAGAA
1 AATAAAAAATAAAAAAGA-AGAA
35894 A
1 A
35895 TTGAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 10 0.25
22 6 0.15
23 17 0.43
24 7 0.17
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (22 bp):
AATAAAAAATAAAAAAGAAGAA
Found at i:35895 original size:22 final size:22
Alignment explanation
Indices: 35826--35895 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 22
35816 AAAAAAAAAC
* *
35826 AATAAAAAATAAACAAAAATA-T
1 AATAAAAAATAAA-AAAGATAGA
35848 AAT-AAAAATATAAAAAG-TAAGAA
1 AATAAAAAATA-AAAAAGAT-AG-A
35871 AATAAAAAATAAAAAAGATAGA
1 AATAAAAAATAAAAAAGATAGA
35893 AAT
1 AAT
35896 TGAATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
20 1 0.03
21 11 0.28
22 9 0.22
23 11 0.28
24 8 0.20
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (22 bp):
AATAAAAAATAAAAAAGATAGA
Found at i:36544 original size:15 final size:16
Alignment explanation
Indices: 36508--36549 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
36498 GCAAAAACAA
36508 AAAATAAAAAAGTAAG
1 AAAATAAAAAAGTAAG
*
36524 AAAATAAAAAA-TTAG
1 AAAATAAAAAAGTAAG
*
36539 AGAATAAAAAA
1 AAAATAAAAAA
36550 ATATAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAGTAAG
Found at i:36962 original size:6 final size:6
Alignment explanation
Indices: 36947--36997 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
36937 AAAATAAACC
* *
36947 AAAATAA AAAATA AAAATA AAAAT- AAAATA AGAAA-A AAAATT AAAGTA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA
36995 AAA
1 AAA
36998 CAAAAAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
5 8 0.21
6 22 0.58
7 8 0.21
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:36969 original size:19 final size:18
Alignment explanation
Indices: 36947--37117 Score: 80
Period size: 17 Copynumber: 9.1 Consensus size: 18
36937 AAAATAAACC
*
36947 AAAATAAAAAATAAAAATA
1 AAAAT-AAAAATAAAAAAA
*
36966 AAAAT-AAAATAAGAAAA
1 AAAATAAAAATAAAAAAA
* *
36983 AAAATTAAAGTAAAACAAA
1 AAAATAAAAATAAAA-AAA
*
37002 AAAGATAAACAA-AATACAAA
1 AAA-ATAAA-AATAA-AAAAA
37022 AAAATGAAAAA-AAATCAAAA
1 AAAAT-AAAAATAAA--AAAA
* * *
37042 CCAATTAAAAAGAAAAAAA
1 -AAAATAAAAATAAAAAAA
* *
37061 ACAATAAAAATAGAAAAA
1 AAAATAAAAATAAAAAAA
** *
37079 GTAA-GAAAATAAAAAATA
1 AAAATAAAAATAAAAAA-A
*
37097 ATGAATGAAAAATAAAAAAA
1 A-AAAT-AAAAATAAAAAAA
37117 A
1 A
37118 TACAAAAATT
Statistics
Matches: 116, Mismatches: 22, Indels: 27
0.70 0.13 0.16
Matches are distributed among these distances:
17 25 0.22
18 24 0.21
19 23 0.20
20 25 0.22
21 19 0.16
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (18 bp):
AAAATAAAAATAAAAAAA
Found at i:36984 original size:29 final size:28
Alignment explanation
Indices: 36952--37022 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
36942 AAACCAAAAT
*
36952 AAAAAATAAAAATAAAAATAAAATAAGA-A
1 AAAAAATAAAAAT-AAAACAAAA-AAGATA
* *
36981 AAAAAATTAAAGTAAAACAAAAAAGATA
1 AAAAAATAAAAATAAAACAAAAAAGATA
37009 AACAAAATACAAAA
1 AA-AAAATA-AAAA
37023 AAATGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.12
28 11 0.32
29 16 0.47
30 3 0.09
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (28 bp):
AAAAAATAAAAATAAAACAAAAAAGATA
Found at i:37020 original size:20 final size:20
Alignment explanation
Indices: 36997--37041 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
36987 TTAAAGTAAA
*
36997 ACAAAAAAGAT-AAACAAAAT
1 ACAAAAAA-ATGAAAAAAAAT
37017 ACAAAAAAATGAAAAAAAAT
1 ACAAAAAAATGAAAAAAAAT
37037 -CAAAA
1 ACAAAA
37042 CCAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.78, C:0.09, G:0.04, T:0.09
Consensus pattern (20 bp):
ACAAAAAAATGAAAAAAAAT
Found at i:37061 original size:20 final size:20
Alignment explanation
Indices: 37038--37078 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
37028 AAAAAAAATC
* *
37038 AAAACCAATTAAAA-AGAAA
1 AAAAACAATAAAAATAGAAA
37057 AAAAACAATAAAAATAGAAA
1 AAAAACAATAAAAATAGAAA
37077 AA
1 AA
37079 GTAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAACAATAAAAATAGAAA
Found at i:37087 original size:30 final size:29
Alignment explanation
Indices: 37051--37122 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
37041 ACCAATTAAA
37051 AAGAAAAAAAACAATAA-AAATAGAAAAAGT
1 AAGAAAAAAAACAATAATAAAT-GAAAAA-T
*
37081 AAGAAAATAAAA-AATAATGAATGAAAAAT
1 AAGAAAA-AAAACAATAATAAATGAAAAAT
*
37110 AA-AAAAAATACAA
1 AAGAAAAAAAACAA
37123 AAATTGAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 3 0.08
28 6 0.16
29 3 0.08
30 18 0.49
31 7 0.19
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.12
Consensus pattern (29 bp):
AAGAAAAAAAACAATAATAAATGAAAAAT
Found at i:37699 original size:17 final size:17
Alignment explanation
Indices: 37677--37733 Score: 80
Period size: 17 Copynumber: 3.3 Consensus size: 17
37667 ATACAATATT
37677 ACAAAAGAAAAAAATAA
1 ACAAAAGAAAAAAATAA
37694 ACAAAA-ACAAAAAATAA
1 ACAAAAGA-AAAAAATAA
*
37711 AAAAAAGAAAAAAATATA
1 ACAAAAGAAAAAAATA-A
37729 ACAAA
1 ACAAA
37734 TATTAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 28 0.80
18 6 0.17
ACGTcount: A:0.82, C:0.07, G:0.04, T:0.07
Consensus pattern (17 bp):
ACAAAAGAAAAAAATAA
Found at i:37904 original size:15 final size:14
Alignment explanation
Indices: 37876--37909 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
37866 AAAAGCAAGA
*
37876 AAAAATAAATATAT
1 AAAAATAAAAATAT
37890 AAAAATACAAAATAT
1 AAAAATA-AAAATAT
37905 AAAAA
1 AAAAA
37910 AAATTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAATAT
Found at i:38172 original size:32 final size:28
Alignment explanation
Indices: 38120--38202 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 28
38110 AAAAAATAAC
38120 AATAAAAATA-AAAATAAGATAAAAGAATGT
1 AATAAAAA-AGAAAA-AAGATAAAAGAA-GT
* *
38150 ATTAAAACAAGAGGAAAAAGATAAAATAAGT
1 AATAAAA-AAGA--AAAAAGATAAAAGAAGT
38181 AATAAAAAAGAAAAAA-ATAAAA
1 AATAAAAAAGAAAAAAGATAAAA
38203 AATAAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 6 0.13
28 5 0.11
30 11 0.24
31 10 0.22
32 11 0.24
33 3 0.07
ACGTcount: A:0.72, C:0.01, G:0.11, T:0.16
Consensus pattern (28 bp):
AATAAAAAAGAAAAAAGATAAAAGAAGT
Found at i:38197 original size:22 final size:21
Alignment explanation
Indices: 38164--38231 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
38154 AAACAAGAGG
* **
38164 AAAAAGATAAAATAAGTAATA
1 AAAAAGAAAAAATAAAAAATA
38185 AAAAAGAAAAAAATAAAAAATA
1 AAAAAG-AAAAAATAAAAAATA
38207 AAAAA-ACACAAAATAAAAAA-A
1 AAAAAGA-A-AAAATAAAAAATA
38228 AAAA
1 AAAA
38232 GTAAGGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.02
21 12 0.29
22 28 0.68
ACGTcount: A:0.82, C:0.03, G:0.04, T:0.10
Consensus pattern (21 bp):
AAAAAGAAAAAATAAAAAATA
Found at i:38201 original size:15 final size:15
Alignment explanation
Indices: 38181--38231 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
38171 TAAAATAAGT
*
38181 AATAAAAAAGAAAAA
1 AATAAAAAATAAAAA
38196 AATAAAAAATAAAAA
1 AATAAAAAATAAAAA
* *
38211 AACACAAAATAAAAA
1 AATAAAAAATAAAAA
38226 AA-AAAA
1 AATAAAA
38232 GTAAGGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 3 0.09
15 29 0.91
ACGTcount: A:0.86, C:0.04, G:0.02, T:0.08
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:38248 original size:7 final size:7
Alignment explanation
Indices: 38181--38231 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
38171 TAAAATAAGT
38181 AATAAAA
1 AATAAAA
*
38188 AAGAAAAA
1 AA-TAAAA
38196 AATAAAA
1 AATAAAA
38203 AATAAAA
1 AATAAAA
38210 AA-ACACAA
1 AATA-A-AA
38218 AATAAAA
1 AATAAAA
38225 AA-AAAA
1 AATAAAA
38231 A
1 A
38232 GTAAGGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 6 0.16
7 20 0.53
8 11 0.29
9 1 0.03
ACGTcount: A:0.86, C:0.04, G:0.02, T:0.08
Consensus pattern (7 bp):
AATAAAA
Found at i:38615 original size:19 final size:19
Alignment explanation
Indices: 38593--38632 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
38583 TATAAAATGC
38593 AAACAAAAAATAAAAAATA
1 AAACAAAAAATAAAAAATA
* *
38612 AAACAAATAATAAGAAATA
1 AAACAAAAAATAAAAAATA
38631 AA
1 AA
38633 GATATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (19 bp):
AAACAAAAAATAAAAAATA
Found at i:38662 original size:23 final size:24
Alignment explanation
Indices: 38623--38667 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
38613 AACAAATAAT
*
38623 AAGAAATAAAGATATAAAAAATCC
1 AAGAAATAAAAATATAAAAAATCC
38647 AAGAAA-AAAAATATAAAAAAT
1 AAGAAATAAAAATATAAAAAAT
38668 GAAAATGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (24 bp):
AAGAAATAAAAATATAAAAAATCC
Found at i:39123 original size:11 final size:10
Alignment explanation
Indices: 39109--39189 Score: 63
Period size: 11 Copynumber: 7.3 Consensus size: 10
39099 ATGAATATAT
39109 AAATAAAAAA
1 AAATAAAAAA
39119 GAAATAAAAAA
1 -AAATAAAAAA
*
39130 TAAACCAAAATAA
1 -AAA-TAAAA-AA
39143 AAATAAAAATA
1 AAATAAAAA-A
39154 AAATAAGATAAA
1 AAATAA-A-AAA
*
39166 AGATAAAAAA
1 AAATAAAAAA
*
39176 AAGTACAAAAA
1 AAATA-AAAAA
39187 AAA
1 AAA
39190 GGAAAAAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
10 7 0.12
11 32 0.56
12 14 0.25
13 4 0.07
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:39156 original size:17 final size:17
Alignment explanation
Indices: 39109--39177 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
39099 ATGAATATAT
39109 AAATAAAAA-AGAAATAA
1 AAATAAAAATA-AAATAA
**
39126 AAA-ATAAACCAAAATAA
1 AAATA-AAAATAAAATAA
39143 AAATAAAAATAAAAT-A
1 AAATAAAAATAAAATAA
*
39159 AGATAAAAGATAAAA-AA
1 AAATAAAA-ATAAAATAA
39176 AA
1 AA
39178 GTACAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
16 9 0.21
17 31 0.74
18 2 0.05
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:39718 original size:11 final size:10
Alignment explanation
Indices: 39695--39738 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
39685 GAAAAACTAT
39695 AAAATAGAAA
1 AAAATAGAAA
39705 AAAATAGCAAA
1 AAAATAG-AAA
*
39716 AAAAAAGATAA
1 AAAATAGA-AA
39727 AAAATAAGAAA
1 AAAAT-AGAAA
39738 A
1 A
39739 TAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 8 0.28
11 18 0.62
12 3 0.10
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAATAGAAA
Done.