Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005168.1 Hibiscus syriacus cultivar Beakdansim tig00011662_pilon, 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: 818383
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:703981 original size:22 final size:22
Alignment explanation
Indices: 703956--704003 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
703946 GAGAGAATAG
703956 GAATGATATAAAATTTATAGAA
1 GAATGATATAAAATTTATAGAA
703978 GAATGATATAAAATTTATAGAA
1 GAATGATATAAAATTTATAGAA
704000 GAAT
1 GAAT
704004 TGCAAGTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (22 bp):
GAATGATATAAAATTTATAGAA
Found at i:705013 original size:79 final size:79
Alignment explanation
Indices: 704943--705092 Score: 173
Period size: 79 Copynumber: 1.9 Consensus size: 79
704933 TAGTAAATTG
* *
704943 CATTCATTTTAAAAATTA-AAAAAAATTAT-AG-TATATATATAATATTAT-TTTATATATAAAC
1 CATTCATATTAAAAACTATAAAAAAATTATAAGTTATATATATAA-ATTATGTTTATAT-T-AAC
705004 TATATATATATAAACTA
63 TATATATATATAAACTA
* * * * **
705021 TATTTATATTATAAACTATATAATTATTATAAGTTATATATATAAATTATGTTTATATTAACTAT
1 CATTCATATTAAAAACTATAAAAAAATTATAAGTTATATATATAAATTATGTTTATATTAACTAT
705086 ATATATA
66 ATATATA
705093 AATTACGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
78 13 0.22
79 21 0.35
80 8 0.13
81 18 0.30
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (79 bp):
CATTCATATTAAAAACTATAAAAAAATTATAAGTTATATATATAAATTATGTTTATATTAACTAT
ATATATATAAACTA
Found at i:705034 original size:33 final size:32
Alignment explanation
Indices: 704974--705042 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 32
704964 AAAATTATAG
*
704974 TATATATATAATATTATTTTATATATAAACTA
1 TATATATATAATACTATTTTATATATAAACTA
705006 TATATATATAA-ACTATATTTATATTATAAACTA
1 TATATATATAATACTAT-TTTATA-TATAAACTA
705039 TATA
1 TATA
705043 ATTATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 4 0.12
32 17 0.50
33 13 0.38
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (32 bp):
TATATATATAATACTATTTTATATATAAACTA
Found at i:705048 original size:18 final size:17
Alignment explanation
Indices: 704992--705052 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
704982 TAATATTATT
704992 TTATATATAAACTATATA
1 TTAT-TATAAACTATATA
*
705010 -TA-TATAAACTATATT
1 TTATTATAAACTATATA
705025 TATATTATAAACTATATAA
1 T-TATTATAAACTATAT-A
705044 TTATTATAA
1 TTATTATAA
705053 GTTATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 12 0.32
17 4 0.11
18 20 0.54
19 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATTATAAACTATATA
Found at i:705104 original size:26 final size:27
Alignment explanation
Indices: 705055--705115 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
705045 TATTATAAGT
* * *
705055 TATATATATAAATTATGTTTATATTAAC
1 TATATATATAAATTACG-TCATATAAAC
705083 TATATATATAAATTACG-CATATAAAC
1 TATATATATAAATTACGTCATATAAAC
705109 TATATAT
1 TATATAT
705116 GTATAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 14 0.47
28 16 0.53
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (27 bp):
TATATATATAAATTACGTCATATAAAC
Found at i:705155 original size:41 final size:40
Alignment explanation
Indices: 705102--705201 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
705092 AAATTACGCA
*
705102 TATAAACTATATATGTATA-A-ACTATAAAAAGTATATAGTT
1 TATAAACTATATATATATATATA-TATAAAAA-TATATAGTT
* *
705142 TATAAACTAATATATATATATATATATATATATATATAGTT
1 TATAAACT-ATATATATATATATATATAAAAATATATAGTT
* *
705183 TATAAATTATA-ATTTATAT
1 TATAAACTATATATATATAT
705202 TAATATAGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 7 0.13
40 11 0.21
41 26 0.50
42 7 0.13
43 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (40 bp):
TATAAACTATATATATATATATATATAAAAATATATAGTT
Found at i:705156 original size:2 final size:2
Alignment explanation
Indices: 705151--705273 Score: 75
Period size: 2 Copynumber: 64.5 Consensus size: 2
705141 TTATAAACTA
* *
705151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT TT AT AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
705193 A- AT TT AT AT -T A- AT AT AGT AT AT AT AT GT AT GT GT A- AGT A-
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
* * *
705232 AT AT A- AA AT A- AT CT AT AG AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
705271 AT A
1 AT A
705274 GTTTATAGAA
Statistics
Matches: 94, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
1 9 0.10
2 81 0.86
3 4 0.04
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Found at i:705426 original size:15 final size:18
Alignment explanation
Indices: 705406--705448 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
705396 CTATGTATGG
*
705406 TATATATAAACTATA-TA
1 TATATATAACCTATAGTA
705423 TATATATAACCTATAGTA
1 TATATATAACCTATAGTA
*
705441 TATGTATA
1 TATATATA
705449 TATACAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATATAACCTATAGTA
Found at i:705448 original size:24 final size:24
Alignment explanation
Indices: 705421--705474 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
705411 ATAAACTATA
*
705421 TATATATATAACCTATAGTATATG-
1 TATATATACAACCTAT-GTATATGC
* *
705445 TATATATACAATCTATTTATATGC
1 TATATATACAACCTATGTATATGC
705469 TATATA
1 TATATA
705475 AACTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (24 bp):
TATATATACAACCTATGTATATGC
Found at i:705515 original size:21 final size:21
Alignment explanation
Indices: 705491--705557 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
705481 ATATATAACC
*
705491 TATAGTTTATAAACTATAGTT
1 TATAATTTATAAACTATAGTT
* * *
705512 TATACTTTAT-AACATATAATA
1 TATAATTTATAAAC-TATAGTT
*
705533 TATAATTTATAAATTATAGTT
1 TATAATTTATAAACTATAGTT
705554 TATA
1 TATA
705558 TTAATGTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.08
21 32 0.86
22 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TATAATTTATAAACTATAGTT
Found at i:705522 original size:14 final size:14
Alignment explanation
Indices: 705471--705515 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
705461 TTATATGCTA
*
705471 TATAAACTATA-TA
1 TATAAACTATAGTT
*
705484 TATAACCTATAGTT
1 TATAAACTATAGTT
705498 TATAAACTATAGTT
1 TATAAACTATAGTT
705512 TATA
1 TATA
705516 CTTTATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (14 bp):
TATAAACTATAGTT
Found at i:705654 original size:43 final size:40
Alignment explanation
Indices: 705576--705666 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 40
705566 AATTATCTTA
* *
705576 ACTATAATTTATATTAATATAGTATATAGTTTATAAATTAT
1 ACTAT-ATTAATATTAATATAGTATATAGTTTATAAACTAT
*
705617 ACTATATTAATATTAATTATATTAAGTATAGTTTATAAACTAT
1 ACTATATTAATATTAA-TATAGT-A-TATAGTTTATAAACTAT
705660 ACTATAT
1 ACTATAT
705667 AATTTATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 10 0.23
41 10 0.23
42 1 0.02
43 23 0.52
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (40 bp):
ACTATATTAATATTAATATAGTATATAGTTTATAAACTAT
Found at i:705729 original size:31 final size:31
Alignment explanation
Indices: 705648--705774 Score: 112
Period size: 31 Copynumber: 3.9 Consensus size: 31
705638 TTAAGTATAG
* * * *
705648 TTTATAAACTATACTATATAATTTATA-AAAT
1 TTTATAAACTATATTTTAT-ATTAATATTAAT
* *
705679 ATTTATAAAATATAGTTTATATTAATATTAAT
1 -TTTATAAACTATATTTTATATTAATATTAAT
*
705711 TTTATAGACTATATTTTATATTAATATTAAT
1 TTTATAAACTATATTTTATATTAATATTAAT
705742 TACAAATTATAAACTATATTATTATATTAATAT
1 T-----TTATAAACTATATT-TTATATTAATAT
705775 AAGTTAATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
31 35 0.44
32 19 0.24
36 13 0.16
37 12 0.15
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (31 bp):
TTTATAAACTATATTTTATATTAATATTAAT
Found at i:705762 original size:29 final size:28
Alignment explanation
Indices: 705726--705830 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 28
705716 AGACTATATT
705726 TTATATTAATATTAATTACAAATTATAAA
1 TTATATTAATATTAATTA-AAATTATAAA
* * *
705755 CTATATTATTA-T-ATT--AA-TATAAG
1 TTATATTAATATTAATTAAAATTATAAA
* *
705778 TTAATATTAATATTAATTATAATATATAAT
1 TT-ATATTAATATTAATTAAAAT-TATAAA
705808 TTATATTAATATTAATTATAAAT
1 TTATATTAATATTAATTA-AAAT
705831 AGTTTATCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
23 6 0.10
24 10 0.16
25 1 0.02
26 3 0.05
27 3 0.05
28 3 0.05
29 25 0.41
30 10 0.16
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TTATATTAATATTAATTAAAATTATAAA
Found at i:705775 original size:23 final size:22
Alignment explanation
Indices: 705749--705819 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
705739 AATTACAAAT
705749 TATAAACTATATTATTATATTAA
1 TATAAA-TATATTATTATATTAA
* *
705772 TATAAGT-TAATATTAATATTAA
1 TATAAATATATTATT-ATATTAA
*
705794 T-TATAATATATAATTTATATTAA
1 TATA-AATATATTA-TTATATTAA
705817 TAT
1 TAT
705820 TAATTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
21 8 0.21
22 11 0.29
23 16 0.42
24 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
TATAAATATATTATTATATTAA
Found at i:705787 original size:6 final size:6
Alignment explanation
Indices: 705761--705823 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
705751 TAAACTATAT
*
705761 TATT-A TATTAA TA-TAA -GTTAA TATTAA TATTAA T-TATAA TATATAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TAT-TAA TAT-TAA
705807 T-TT-A TATTAA TATTAA T
1 TATTAA TATTAA TATTAA T
705824 TATAAATAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
4 2 0.04
5 14 0.29
6 27 0.55
7 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:705806 original size:53 final size:52
Alignment explanation
Indices: 705728--705828 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 52
705718 ACTATATTTT
705728 ATATTAATATTAATTACAAATTATAAACTATATTATTATATTAA-TATAAGTTA
1 ATATTAATATTAATTACAAATTATAAACTATATTA--ATATTAATTATAAGTTA
* **
705781 ATATTAATATTAATTA-TAATATATAATTTATATTAATATTAATTATAA
1 ATATTAATATTAATTACAAAT-TATAAACTATATTAATATTAATTATAA
705829 ATAGTTTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 7 0.16
52 8 0.19
53 28 0.65
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (52 bp):
ATATTAATATTAATTACAAATTATAAACTATATTAATATTAATTATAAGTTA
Found at i:705827 original size:142 final size:144
Alignment explanation
Indices: 705525--705829 Score: 319
Period size: 142 Copynumber: 2.1 Consensus size: 144
705515 ACTTTATAAC
* *
705525 ATATAATATATAATTTATAAATTATAGTTTATATTAATGTTAATTATCTTAACTATAATTTATAT
1 ATATAATAT-TAA-TTATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAATTTATAT
* * ** * *
705590 TAATATAGTATATAGTTTATAAATTATACTATATTAATATTAATTATATTAAGTATAGTTTATAA
64 TAATATAATATACAAATTATAAACTATACTATATTAATATTAATTATATTAAGTATAG-ATATAA
*
705655 ACTATACTATATAATTT
128 ACTATAATATATAATTT
* *
705672 ATA-AA-A-TATTTATAAAATATAGTTTATATTAATATTAATT-T-TATAGACTATATTTTATAT
1 ATATAATATTAATTATAAAATATAGTTTATATTAATATTAATTATCT-TA-ACTATAATTTATAT
705732 TAATATTAAT-TACAAATTATAAACTATA-T-TATT-ATATTAA-TATAAGTTAA-TATTA-ATA
64 TAATA-TAATATACAAATTATAAACTATACTATATTAATATTAATTAT-A-TTAAGTA-TAGATA
* *
705790 TTAATTATAATATATAATTT
125 TAAACTATAATATATAATTT
705810 ATATTAATATTAATTATAAA
1 ATA-TAATATTAATTATAAA
705830 TAGTTTATCA
Statistics
Matches: 134, Mismatches: 14, Indels: 25
0.77 0.08 0.14
Matches are distributed among these distances:
138 25 0.19
139 10 0.07
140 13 0.10
141 5 0.04
142 70 0.52
143 5 0.04
145 1 0.01
146 2 0.01
147 3 0.02
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (144 bp):
ATATAATATTAATTATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAATTTATATTA
ATATAATATACAAATTATAAACTATACTATATTAATATTAATTATATTAAGTATAGATATAAACT
ATAATATATAATTT
Found at i:706585 original size:25 final size:25
Alignment explanation
Indices: 706564--706639 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
706554 TTTAACACCT
706564 AATGTAACATGAATTAATAACATGC
1 AATGTAACATGAATTAATAACATGC
*
706589 ATTGTAACATGAATTAATAACATGC
1 AATGTAACATGAATTAATAACATGC
* *
706614 AATATCACATGAATTAATAACATGC
1 AATGTAACATGAATTAATAACATGC
706639 A
1 A
706640 GTTATTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (25 bp):
AATGTAACATGAATTAATAACATGC
Found at i:706586 original size:13 final size:13
Alignment explanation
Indices: 706568--706637 Score: 83
Period size: 13 Copynumber: 5.5 Consensus size: 13
706558 ACACCTAATG
706568 TAACATGAATTAA
1 TAACATGAATTAA
* *
706581 TAACATGCATT-G
1 TAACATGAATTAA
706593 TAACATGAATTAA
1 TAACATGAATTAA
706606 TAACATGCAA-T-A
1 TAACATG-AATTAA
*
706618 TCACATGAATTAA
1 TAACATGAATTAA
706631 TAACATG
1 TAACATG
706638 CAGTTATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 2 0.04
12 18 0.38
13 25 0.53
14 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (13 bp):
TAACATGAATTAA
Found at i:706773 original size:18 final size:18
Alignment explanation
Indices: 706736--706817 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
706726 ATTTAATACC
*
706736 TAAACTATACT-ATATATA
1 TAAACTATATTCATAT-TA
* *
706754 TATACTATGTTCATATTA
1 TAAACTATATTCATATTA
*
706772 TAAACTATATTTATATTA
1 TAAACTATATTCATATTA
*
706790 TAAACTATA-TAATTATTA
1 TAAACTATATTCA-TATTA
*
706808 TAAGCTATAT
1 TAAACTATAT
706818 ATATAAATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.04
18 47 0.89
19 4 0.08
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAACTATATTCATATTA
Found at i:706818 original size:18 final size:19
Alignment explanation
Indices: 706766--706875 Score: 93
Period size: 18 Copynumber: 5.8 Consensus size: 19
706756 TACTATGTTC
*
706766 ATATTATAAACTATAT-TT
1 ATATTATAAACTATATAAT
706784 ATATTATAAACTATATAAT
1 ATATTATAAACTATATAAT
*
706803 -TATTATAAGCTATATATAT
1 ATATTATAAACTATATA-AT
* *** *
706822 AAATTAT-GTTTGTATGAACT
1 ATATTATAAACTATAT-AA-T
706842 ATATATATAAACTATAT-AT
1 ATAT-TATAAACTATATAAT
706861 ATATTATAAACTATA
1 ATATTATAAACTATA
706876 AAAAGTATAT
Statistics
Matches: 73, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
18 42 0.58
19 13 0.18
20 11 0.15
21 3 0.04
22 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (19 bp):
ATATTATAAACTATATAAT
Found at i:706886 original size:18 final size:17
Alignment explanation
Indices: 706844--706886 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
706834 TATGAACTAT
* *
706844 ATATATAAACTATATAT
1 ATATATAAACTATAAAA
706861 ATATTATAAACTATAAAA
1 ATA-TATAAACTATAAAA
706879 AGTATATA
1 A-TATATA
706887 GGTTATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 17 0.77
19 2 0.09
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (17 bp):
ATATATAAACTATAAAA
Found at i:706909 original size:25 final size:24
Alignment explanation
Indices: 706847--706942 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
706837 GAACTATATA
*
706847 TATAAACTATATATATATTATAAAC
1 TATAAA-TATATATAGATTATAAAC
* *
706872 TATAAAAAGTATATAGGTTATAAAC
1 TATAAATA-TATATAGATTATAAAC
* * *
706897 TATAATTTATATATATATATATATA-
1 TATAA-ATATATATAGAT-TATAAAC
* *
706922 TATATATATATATAAATTATA
1 TATAAATATATATAGATTATA
706943 TATGTATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
23 4 0.07
24 11 0.19
25 36 0.63
26 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (24 bp):
TATAAATATATATAGATTATAAAC
Found at i:706911 original size:2 final size:2
Alignment explanation
Indices: 706904--707059 Score: 82
Period size: 2 Copynumber: 81.0 Consensus size: 2
706894 AACTATAATT
*
706904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
706945 TG TA TA AA CTA TA TA AA GTA TA TA -A TT TA TA AA T- TA TA -A TT
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
706986 TA TA T- TA -A TA TA GTA TA TA TA TG TA TG TA TA -A CTA -A TA CA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
707026 -A GTA -A TC TA TA GA T- TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
707060 GTTTATAGAA
Statistics
Matches: 115, Mismatches: 23, Indels: 32
0.68 0.14 0.19
Matches are distributed among these distances:
1 11 0.10
2 98 0.85
3 6 0.05
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:706960 original size:66 final size:64
Alignment explanation
Indices: 706890--707059 Score: 163
Period size: 66 Copynumber: 2.6 Consensus size: 64
706880 GTATATAGGT
706890 TATAAACTATAATTTATATATATATATATATATATATATATATATAAATTATATATGTATAAACT
1 TATAAA-TATAATTTATATAT-TATATATATATATATATATATATAAATTATATATGTATAAACT
706955 A
64 A
* * * *
706956 TATAAAGTATATAATTTATAAATTATA-ATTTATAT-TA-ATATAGTATATATATGTATGTAT-A
1 TAT-AA--ATATAATTTATATATTATATATATATATATATATATA-TAAAT-TATATATGTATAA
707017 ACTA
61 ACTA
* * *
707021 -ATACAA-GTAATCTATAGATTATATATATATATATATATA
1 TATA-AATATAATTTATATATTATATATATATATATATATA
707060 GTTTATAGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
61 14 0.16
62 8 0.09
63 3 0.03
64 11 0.13
65 11 0.13
66 20 0.23
67 6 0.07
68 13 0.15
69 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (64 bp):
TATAAATATAATTTATATATTATATATATATATATATATATATAAATTATATATGTATAAACTA
Found at i:707325 original size:35 final size:36
Alignment explanation
Indices: 707255--707328 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
707245 ACAATAGTTA
* *
707255 ATATATGTAACCTATAGTATATGTATACATGTAAACT
1 ATATATGTAACCTATAGTACATGTATA-ATATAAACT
* *
707292 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACCTATAGTACATGTATAATATAAACT
707327 AT
1 AT
707329 GTATAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 9 0.27
37 24 0.73
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (36 bp):
ATATATGTAACCTATAGTACATGTATAATATAAACT
Found at i:707337 original size:20 final size:20
Alignment explanation
Indices: 707314--707389 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
707304 TATAGTACAT
* *
707314 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
707334 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
*
707354 GCATA-AT--ACGTATATATA
1 GTATATATAAAC-TATATATA
*
707372 -TATATATATA-TATATATA
1 GTATATATAAACTATATATA
707390 AACTATATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.10
18 18 0.38
19 2 0.04
20 23 0.48
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:707369 original size:2 final size:2
Alignment explanation
Indices: 707364--707407 Score: 54
Period size: 2 Copynumber: 21.5 Consensus size: 2
707354 GCATAATACG
*
707364 TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA GTA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
707407 T
1 T
707408 TAATTATAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 1 0.03
2 33 0.89
3 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:707415 original size:19 final size:19
Alignment explanation
Indices: 707364--707407 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
707354 GCATAATACG
*
707364 TATATATATA-TATATATA
1 TATATATAAACTATATATA
707382 TATATATAAACTATATAGTA
1 TATATATAAACTATATA-TA
707402 T-TATAT
1 TATATAT
707408 TAATTATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 11 0.48
20 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATATAAACTATATATA
Found at i:707444 original size:22 final size:22
Alignment explanation
Indices: 707419--707491 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
707409 AATTATAGTC
*
707419 TATAAACCATACACTATATTAA
1 TATAAACCATAAACTATATTAA
** * * *
707441 TATAAATTATATTAATTATAGT-C
1 TATAAACCATA--AACTATATTAA
*
707464 TATAAACCATATACTATATTAA
1 TATAAACCATAAACTATATTAA
707486 TATAAA
1 TATAAA
707492 TTATATTAAC
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
23 9 0.25
24 6 0.17
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.38
Consensus pattern (22 bp):
TATAAACCATAAACTATATTAA
Found at i:707452 original size:45 final size:45
Alignment explanation
Indices: 707401--707520 Score: 204
Period size: 45 Copynumber: 2.7 Consensus size: 45
707391 ACTATATAGT
707401 ATTATATTAATTATAGTCTATAAACCATACACTATATTAATATAA
1 ATTATATTAATTATAGTCTATAAACCATACACTATATTAATATAA
*
707446 ATTATATTAATTATAGTCTATAAACCATATACTATATTAATATAA
1 ATTATATTAATTATAGTCTATAAACCATACACTATATTAATATAA
* * *
707491 ATTATATTAACTATAGTTTATAAACTATAC
1 ATTATATTAATTATAGTCTATAAACCATAC
707521 TATATAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.42
Consensus pattern (45 bp):
ATTATATTAATTATAGTCTATAAACCATACACTATATTAATATAA
Found at i:707512 original size:16 final size:15
Alignment explanation
Indices: 707433--707505 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
707423 AACCATACAC
707433 TATATTAATATAAAT
1 TATATTAATATAAAT
* *
707448 TATATTAAT-TATAG
1 TATATTAATATAAAT
* * * * *
707462 TCTATAAACCATATAC
1 TATATTAA-TATAAAT
707478 TATATTAATATAAAT
1 TATATTAATATAAAT
707493 TATATTAACTATA
1 TATATTAA-TATA
707506 GTTTATAAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
14 9 0.20
15 21 0.48
16 14 0.32
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:707547 original size:21 final size:21
Alignment explanation
Indices: 707472--707540 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
707462 TCTATAAACC
707472 ATATACTATATTAA--TATAAA
1 ATATACTATA-TAATTTATAAA
* * *
707492 TTATATTAACTATAGTTTATAAA
1 ATATACT-A-TATAATTTATAAA
*
707515 CTATACTATATAATTTATAAA
1 ATATACTATATAATTTATAAA
707536 ATATA
1 ATATA
707541 GTTTATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
20 5 0.13
21 19 0.50
22 3 0.08
23 11 0.29
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (21 bp):
ATATACTATATAATTTATAAA
Found at i:707606 original size:36 final size:34
Alignment explanation
Indices: 707560--707630 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 34
707550 AATATCAATT
*
707560 TTATAGACTATATTTTATATTAATATTAATTACAAA
1 TTATAAACTATA--TTATATTAATATTAATTACAAA
*
707596 TTATAAACTATATTATATTAATATTAATTATAAA
1 TTATAAACTATATTATATTAATATTAATTACAAA
707630 T
1 T
707631 AGTTTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 22 0.67
36 11 0.33
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (34 bp):
TTATAAACTATATTATATTAATATTAATTACAAA
Found at i:707617 original size:34 final size:35
Alignment explanation
Indices: 707529--707630 Score: 108
Period size: 31 Copynumber: 3.0 Consensus size: 35
707519 ACTATATAAT
* *
707529 TTATAAAATATAGTTTATATTAATATCAATT-----
1 TTATAAACTATA-TTTATATTAATATTAATTACAAA
*
707560 TTATAGACTATATTTTATATTAATATTAATTACAAA
1 TTATAAACTATA-TTTATATTAATATTAATTACAAA
*
707596 TTATAAACTATA-TTATATTAATATTAATTATAAA
1 TTATAAACTATATTTATATTAATATTAATTACAAA
707630 T
1 T
707631 AGTTTATTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
31 27 0.45
34 22 0.37
36 11 0.18
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (35 bp):
TTATAAACTATATTTATATTAATATTAATTACAAA
Found at i:708150 original size:103 final size:102
Alignment explanation
Indices: 707949--708150 Score: 221
Period size: 103 Copynumber: 2.0 Consensus size: 102
707939 GTTCTTTGAA
* * * * *
707949 AAAACCTTCATTTGATCTTCAAAAAACCAAATCCCAAACATTTTTCTATTTTTTTGGATCAAACA
1 AAAACCCTCATTCGATCTTCAAAAAACCAAAACCCAAACATTTCTCTATTTTTTTAGATCAAACA
* * *
708014 AACAAAATTTCTTAACTTGTTCATCCTTGTTCATACC
66 AACAAAATTTCTTAACATGTTCATCCATATTCATACC
* * *
708051 AAAACCCTCATTCGATCTTCATAAACACCAAAACCCATACGATTTCT-TGTTTTTTTAGATCAAA
1 AAAACCCTCATTCGATCTTCA-AAAAACCAAAACCCAAAC-ATTTCTCTATTTTTTTAGATCAAA
* **
708115 C-ACCAAAAATTT-TCTCCCATGTTCATCCATATTCAT
64 CAAAC-AAAATTTCT-TAACATGTTCATCCATATTCAT
708151 CCCAGTTCAT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
102 22 0.27
103 55 0.67
104 5 0.06
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.36
Consensus pattern (102 bp):
AAAACCCTCATTCGATCTTCAAAAAACCAAAACCCAAACATTTCTCTATTTTTTTAGATCAAACA
AACAAAATTTCTTAACATGTTCATCCATATTCATACC
Found at i:708364 original size:6 final size:6
Alignment explanation
Indices: 708355--708424 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
708345 CTCAACCCCG
* * * * *
708355 AACCCA AACCCA AACCCA AACCCA GACCCA AATCTA GACCCA TACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * *
708403 AACCCG AACCCA CACCTA AACC
1 AACCCA AACCCA AACCCA AACC
708425 TACACCCGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.43, C:0.47, G:0.04, T:0.06
Consensus pattern (6 bp):
AACCCA
Found at i:708448 original size:17 final size:18
Alignment explanation
Indices: 708416--708453 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
708406 CCGAACCCAC
708416 ACCTAAACCTACACCCGA
1 ACCTAAACCTACACCCGA
*
708434 ACCTGAACC-ACACCCGA
1 ACCTAAACCTACACCCGA
708451 ACC
1 ACC
708454 CGAATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.47, G:0.08, T:0.08
Consensus pattern (18 bp):
ACCTAAACCTACACCCGA
Found at i:710958 original size:23 final size:24
Alignment explanation
Indices: 710932--710985 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
710922 TTATTTTTTC
710932 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
710955 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
710979 TTTACAT
1 TTTACAT
710986 TTAATCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:711855 original size:25 final size:25
Alignment explanation
Indices: 711823--711907 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
711813 CGTTAAGATT
711823 TTTTTTAAAAATAATTTAAATAATA
1 TTTTTTAAAAATAATTTAAATAATA
** * *
711848 TTTTTTAAACAA-AATCAAAAATTAGA
1 TTTTTTAAA-AATAAT-TTAAATAATA
** *
711874 TTTTAAAAAAATAATTTCAATAATA
1 TTTTTTAAAAATAATTTAAATAATA
711899 TTTTTTAAA
1 TTTTTTAAA
711908 CAAAATAAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 6
0.70 0.21 0.10
Matches are distributed among these distances:
25 26 0.59
26 18 0.41
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (25 bp):
TTTTTTAAAAATAATTTAAATAATA
Found at i:711861 original size:28 final size:28
Alignment explanation
Indices: 711830--711915 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
711820 ATTTTTTTTA
711830 AAAATAATTTAAATAATATTTTTTAAAC
1 AAAATAATTTAAATAATATTTTTTAAAC
**
711858 AAAATCAA---AAAT--TAGATTTTAAA-
1 AAAAT-AATTTAAATAATATTTTTTAAAC
*
711881 AAAATAATTTCAATAATATTTTTTAAAC
1 AAAATAATTTAAATAATATTTTTTAAAC
711909 AAAATAA
1 AAAATAA
711916 AAAAAATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
22 2 0.04
23 5 0.11
24 9 0.20
25 3 0.07
26 4 0.09
27 9 0.20
28 12 0.26
29 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (28 bp):
AAAATAATTTAAATAATATTTTTTAAAC
Found at i:713162 original size:54 final size:54
Alignment explanation
Indices: 713070--713573 Score: 633
Period size: 54 Copynumber: 9.4 Consensus size: 54
713060 CTATGTGTAC
* *
713070 TATAAGCACTAAGTGTACAACCCACGA-AATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCAC-ATAATTCATCATATGTTGATGAACAACCG
* *
713124 TATAGGCACTAAGTGTGCAACCCACATGATTC-TCCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACATAATTCAT-CATATGTTGATGAACAACCG
* * *
713178 TATAGGCACTACGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
* * * *
713232 TATAGGCACTAAGTGTACATCCCACAGAATCCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
** * *
713286 TATAGGCACTAAGTGTGCAATGCATGA-AATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCA-CATAATTCATCATATGTTGATGAACAACCG
* * * **
713340 TATAAGCACTAAGTGT-TAACCCACGTAATTCATCATATGTTGATGAACAACTA
1 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
* * *
713393 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGACGAATAACCA
1 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
* * * *
713447 AATAGACACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCT
1 TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
* * **
713501 TATAGGCACTATATGTGTG-AA-CCACATAATTCATAATATGTTTATGAATGACCG
1 TATAGGCACTA-A-GTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
*
713555 TATAGGCACTACGTGTGCA
1 TATAGGCACTAAGTGTGCA
713574 TCTCAACAAA
Statistics
Matches: 393, Mismatches: 48, Indels: 19
0.85 0.10 0.04
Matches are distributed among these distances:
52 5 0.01
53 48 0.12
54 330 0.84
55 5 0.01
56 5 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
Found at i:713573 original size:269 final size:269
Alignment explanation
Indices: 713070--713573 Score: 748
Period size: 269 Copynumber: 1.9 Consensus size: 269
713060 CTATGTGTAC
*
713070 TATAAGCACTAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
1 TATAAGCACTAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACAACCATATAGGCACTA
* * *** * *
713135 AGTGTGCAACCCACATGATTCTCCATATGTTGATGAACAACTGTATAGGCACTACGTGTGCAACC
66 AGTGTGCAACCCACATAATTCTCCATATGTTGACGAACAACCAAATAGACACTAAGTGTGCAACC
713200 CACAAAATTCATCATATGTTGATGAACAACTGTATAGGCACTAAGTGTACATCCCACAGAATCCA
131 CACAAAATTCATCATATGTTGATGAACAACTGTATAGGCACTAAGTGTACA-CCCACAGAATCCA
*
713265 TCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAATGCATGAAATTCATCATATGTTGA
195 TAATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAATGCATGAAATTCATCATATGTTGA
713330 TGAACAACTG
260 TGAACAACTG
* * *
713340 TATAAGCACTAAGTGT-TAACCCACGTAATTCATCATATGTTGATGAACAACTATATAGGCACTA
1 TATAAGCACTAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACAACCATATAGGCACTA
*
713404 AGTGTGCAACCCACATAATTCAT-CATATGTTGACGAATAACCAAATAGACACTAAGTGTGCAAC
66 AGTGTGCAACCCACATAATTC-TCCATATGTTGACGAACAACCAAATAGACACTAAGTGTGCAAC
*
713468 CCACAAAATTCATCATATGTTGATGAACAACCT-TATAGGCACTATATGTGTGA-A-CCACATAA
130 CCACAAAATTCATCATATGTTGATGAACAA-CTGTATAGGCACTA-A-GTGT-ACACCCACAGAA
* * ** *
713530 TTCATAATATGTTTATGAATGACCGTATAGGCACTACGTGTGCA
191 TCCATAATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCA
713574 TCTCAACAAA
Statistics
Matches: 210, Mismatches: 19, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
269 184 0.88
270 20 0.10
271 5 0.02
272 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (269 bp):
TATAAGCACTAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACAACCATATAGGCACTA
AGTGTGCAACCCACATAATTCTCCATATGTTGACGAACAACCAAATAGACACTAAGTGTGCAACC
CACAAAATTCATCATATGTTGATGAACAACTGTATAGGCACTAAGTGTACACCCACAGAATCCAT
AATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAATGCATGAAATTCATCATATGTTGAT
GAACAACTG
Found at i:720348 original size:54 final size:54
Alignment explanation
Indices: 720093--720355 Score: 352
Period size: 54 Copynumber: 4.9 Consensus size: 54
720083 CTATGTGTAC
* * *
720093 TATATGCACTAAGAGTGCAACCCACGAAATTCATCATATGTTGATGAACAATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * *
720147 TATACGTACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
720201 TATAGGCACTAAGTGTGCAGCCCACGAAATTCATTATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
* *
720255 TATAGGCACTAGGTGTGCAACCCAC-ATAATTCATCATATGTTGATGAACAATCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCG
* * * *
720309 TATAGGCACTATA-TGTACGAA-CCACGAAATTTATAATATGTTTATGA
1 TATAGGCACTA-AGTGTGC-AACCCACGAAATTCATCATATGTTGATGA
720356 CATGTGCATA
Statistics
Matches: 186, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 182 0.98
55 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
Found at i:723584 original size:105 final size:105
Alignment explanation
Indices: 723402--723612 Score: 395
Period size: 105 Copynumber: 2.0 Consensus size: 105
723392 CTTGGTGTTG
*
723402 GTATTTGTTTTATTGAGACCATTATTCGATGGTGAATGAATGATGCATTATGATTCTGCTTAGTC
1 GTATTTGTTTTATTGAGACCATTATTCGATGGTGAATGAATAATGCATTATGATTCTGCTTAGTC
*
723467 TATTTTGTTCATTGTTTTAATATTTTCCTTGATATTGTAA
66 TATTTTGTTCATTATTTTAATATTTTCCTTGATATTGTAA
*
723507 GTATTTGTTTTATTGAGACTATTATTCGATGGTGAATGAATAATGCATTATGATTCTGCTTAGTC
1 GTATTTGTTTTATTGAGACCATTATTCGATGGTGAATGAATAATGCATTATGATTCTGCTTAGTC
723572 TATTTTGTTCATTATTTTAATATTTTCCTTGATATTGTAA
66 TATTTTGTTCATTATTTTAATATTTTCCTTGATATTGTAA
723612 G
1 G
723613 AGCTTTCAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.50
Consensus pattern (105 bp):
GTATTTGTTTTATTGAGACCATTATTCGATGGTGAATGAATAATGCATTATGATTCTGCTTAGTC
TATTTTGTTCATTATTTTAATATTTTCCTTGATATTGTAA
Found at i:725871 original size:21 final size:20
Alignment explanation
Indices: 725843--725881 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
725833 CATTGCAAGA
*
725843 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
725863 ATTTAATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
725882 GACCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:734959 original size:33 final size:33
Alignment explanation
Indices: 734917--734980 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
734907 AGAGATGCGT
* *
734917 GAGAGACTAAAGTGTCTGGAAAGTCACATACGC
1 GAGAGACTAAAGTATCTAGAAAGTCACATACGC
734950 GAGAGACTAAAGTATCTAGAAAGTCACATAC
1 GAGAGACTAAAGTATCTAGAAAGTCACATAC
734981 AAACTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (33 bp):
GAGAGACTAAAGTATCTAGAAAGTCACATACGC
Found at i:752406 original size:44 final size:45
Alignment explanation
Indices: 752286--752411 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
752276 TATAAAATCC
*
752286 CTTACCATTTATTCCATAAGCTCGCAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
752331 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
752378 CTTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
752412 ATATGCTTAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 24 0.32
45 10 0.14
46 2 0.03
47 38 0.51
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:758025 original size:6 final size:6
Alignment explanation
Indices: 758014--758038 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
758004 ACACTTATAT
758014 CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC C
758039 TATGGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:760384 original size:47 final size:45
Alignment explanation
Indices: 760312--760437 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
760302 TATAAAATCC
760312 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
760357 CTTACCATTTAAATTCTATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
760404 CTTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
760438 ATATGCTTAC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 38 0.52
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:760638 original size:59 final size:59
Alignment explanation
Indices: 760546--760674 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
760536 CGTAGTGCTA
* * **
760546 TCCCGAATATGACACCTAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGTCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
760605 TCCCGAATATGACACATAAGGTCGT-TCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGT-CCACCATATACACTAGGTATCCTTAAGTACAG
760664 TCCCGAATATG
1 TCCCGAATATG
760675 CAGCCTGCTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 1 0.02
59 60 0.98
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGTCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:773457 original size:17 final size:17
Alignment explanation
Indices: 773435--773467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
773425 GATACCCCTA
773435 TGGGGAGTATCGATACC
1 TGGGGAGTATCGATACC
*
773452 TGGGGAGTATTGATAC
1 TGGGGAGTATCGATAC
773468 TCTACCCCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (17 bp):
TGGGGAGTATCGATACC
Found at i:773502 original size:19 final size:20
Alignment explanation
Indices: 773456--773505 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
773446 GATACCTGGG
* *
773456 GAGTATTGATACTCTACCCCT
1 GAGTATCGATACTC-ACCCAT
773477 G-GTATCGATACTC-CCCAT
1 GAGTATCGATACTCACCCAT
773495 GAGTATCGATA
1 GAGTATCGATA
773506 TAAAAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 11 0.42
21 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (20 bp):
GAGTATCGATACTCACCCAT
Found at i:777656 original size:2 final size:2
Alignment explanation
Indices: 777649--777677 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
777639 TGAAATATTA
777649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
777678 AATGAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:777745 original size:18 final size:18
Alignment explanation
Indices: 777696--777749 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
777686 AAAATAGAAA
*
777696 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
777717 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
777736 AATA-TAATATAAAA
1 AATAGTAATATAAAA
777750 AAAAACCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:777750 original size:18 final size:19
Alignment explanation
Indices: 777700--777750 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
777690 TAGAAAAATA
*
777700 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
777720 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
777739 ATAATATAAAAA
1 ATAATATAAAAA
777751 AAAACCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:778549 original size:37 final size:37
Alignment explanation
Indices: 778508--778612 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
778498 GTGCTTGTGG
* *
778508 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
778545 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
778582 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
778613 GACGAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:779665 original size:106 final size:106
Alignment explanation
Indices: 779340--781215 Score: 2574
Period size: 106 Copynumber: 18.0 Consensus size: 106
779330 GCATTGTTCT
* * ** *
779340 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
779404 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
779446 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
779505 TCAGCTG-CCTCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * *
779547 G-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
779611 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
779652 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
779717 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGGGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
779758 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
779823 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
779864 GAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
779929 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
779970 GAGTCCAATATTCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
780023 CCTGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
780064 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
780129 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
780170 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
780235 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
780276 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
780335 TCAGCTG-CCTCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * *
780377 G-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
780441 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
780482 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
780547 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGGGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
780588 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
780653 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
780694 GAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
780759 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
780800 GAGTCCAATATTCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
780853 CCTGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
780894 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
780959 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
781000 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
781065 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTTCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
781106 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
781171 CCAGCGGTCTCTTCATCGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
781212 GAGT
1 GAGT
781216 GGCACGATAT
Statistics
Matches: 1579, Mismatches: 146, Indels: 90
0.87 0.08 0.05
Matches are distributed among these distances:
94 158 0.10
95 4 0.00
96 4 0.00
99 10 0.01
100 158 0.10
101 16 0.01
102 8 0.01
104 11 0.01
105 14 0.01
106 1191 0.75
107 5 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:780938 original size:830 final size:830
Alignment explanation
Indices: 779340--781212 Score: 3514
Period size: 830 Copynumber: 2.2 Consensus size: 830
779330 GCATTGTTCT
* * * ** * *
779340 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
779405 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
779470 GTTGAAATTGACTCTGAATGAAATTTTATTGACAATCAGCTGCCTCTTCGTCGTGAAGTTGAGCT
131 GTTGAAATTGACTCTGAATGAAATTTTATTGACAATCAGCTGCCTCTTCGTCGTGAAGTTGAGCT
779535 TGTGTTGCCTTGGGTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
196 TGTGTTGCCTTGGGTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
779600 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCC
261 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCC
779665 TACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTT
326 TACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTT
779730 CGTCGTGAAGTTGAACTTGGGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCT
391 CGTCGTGAAGTTGAACTTGGGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCT
779795 CTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTG
456 CTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTG
779860 TCTGGAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTG
521 TCTGGAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTG
779925 ACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATTCTTCGTTG
586 ACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATTCTTCGTTG
779990 TGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCTGCGGTCCCTTCGTCGTGAAGTTGAACTTG
651 TGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCTGCGGTCCCTTCGTCGTGAAGTTGAACTTG
780055 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
716 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
780120 TGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
781 TGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
780170 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
780235 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
780300 GTTGAAATTGACTCTGAATGAAATTTTATTGACAATCAGCTGCCTCTTCGTCGTGAAGTTGAGCT
131 GTTGAAATTGACTCTGAATGAAATTTTATTGACAATCAGCTGCCTCTTCGTCGTGAAGTTGAGCT
780365 TGTGTTGCCTTGGGTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
196 TGTGTTGCCTTGGGTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
780430 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCC
261 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCC
780495 TACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTT
326 TACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTT
780560 CGTCGTGAAGTTGAACTTGGGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCT
391 CGTCGTGAAGTTGAACTTGGGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCT
780625 CTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTG
456 CTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTG
780690 TCTGGAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTG
521 TCTGGAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTG
780755 ACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATTCTTCGTTG
586 ACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATTCTTCGTTG
780820 TGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCTGCGGTCCCTTCGTCGTGAAGTTGAACTTG
651 TGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCTGCGGTCCCTTCGTCGTGAAGTTGAACTTG
780885 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
716 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
780950 TGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
781 TGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
781000 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
781065 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTT-TCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
66 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGT-GTTGTCTCGAGTCCAATATCCTTCGCTGTGA
* * * * * * *
781129 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCTCTTCATCGTGAAG
130 AGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTATTGACAATCAGCTGCCTCTTCGTCGTGAAG
* *
781194 TTGAACTTGTGTTGTCTTG
189 TTGAGCTTGTGTTGCCTTG
781213 AGTGGCACGA
Statistics
Matches: 1018, Mismatches: 18, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
829 1 0.00
830 964 0.95
831 2 0.00
832 1 0.00
834 3 0.00
835 1 0.00
836 46 0.05
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (830 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGACTCTGAATGAAATTTTATTGACAATCAGCTGCCTCTTCGTCGTGAAGTTGAGCT
TGTGTTGCCTTGGGTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCC
TACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTT
CGTCGTGAAGTTGAACTTGGGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCT
CTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTG
TCTGGAGTCCAAAATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTTATTG
ACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATTCTTCGTTG
TGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCTGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
TGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:782047 original size:22 final size:22
Alignment explanation
Indices: 782021--782095 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
782011 ATGTTTGGTC
782021 AAAGGTTTGGCATTTGATGCTT
1 AAAGGTTTGGCATTTGATGCTT
782043 AAAGGTTTGGCATTTGATG-TT
1 AAAGGTTTGGCATTTGATGCTT
* *
782064 CATAGGTTTGGCATTTGATGCTC
1 -AAAGGTTTGGCATTTGATGCTT
*
782087 AACGGTTTG
1 AAAGGTTTG
782096 ATGGGGTAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.04
22 44 0.94
23 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (22 bp):
AAAGGTTTGGCATTTGATGCTT
Found at i:782759 original size:16 final size:15
Alignment explanation
Indices: 782731--782780 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
782721 TTCTTGTTTC
*
782731 TCTTTT-TTCTTTGT
1 TCTTTTCTTTTTTGT
*
782745 TTTTTTGCTTTTTTGAT
1 TCTTTT-CTTTTTTG-T
782762 TCTTTTCTTTTTTGT
1 TCTTTTCTTTTTTGT
782777 TCTT
1 TCTT
782781 GATTGGATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 14 0.47
17 6 0.20
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.78
Consensus pattern (15 bp):
TCTTTTCTTTTTTGT
Found at i:783875 original size:55 final size:55
Alignment explanation
Indices: 783745--784244 Score: 545
Period size: 55 Copynumber: 9.1 Consensus size: 55
783735 TCAGATCAAT
* * * * *
783745 TTTGGAAGATGGCTCTGCTCCACTATTCTTTCAGGGGAGATCAGACTCAAGAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCA-GGGAGATAAGACTCAAAAAATC
** * * ** * *
783801 TTTAAAAGA-GAGGCCTGCTCCACTATTCTTTCAAAGAGATAAGACTCGAAAAATA
1 TTTGGAAGACG-GGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
**
783856 TTTGGAAGACGGGTCTGCTCCACTAATCTTTCAGGGAGATAAGACTCAAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* *
783911 ATTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAACTC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * *
783966 TTTGGAAGACGGGTCTACTCCACTCTTCTTTCAGGGATATAAGACTCGAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * * * * * *
784021 TTTGGAAGACGAGTTTACTCCACTATTCTTTCAGAGAGATAAGACTTAAAAAATAT
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAAT-C
* * * *
784077 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCATGGAGATAAAACACCAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * * * * * *
784132 CTTGGAAGACCGGTTTCCTCCACTCTTCTTTCAGAGAGATAAAACTAAAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
* * * * * * *
784187 TTTGGTAGATGTGTCTGCTCTACTCTTCTTTCATGGAGA-ATAGTCTCGAAAAATC
1 TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATA-AGACTCAAAAAATC
784242 TTT
1 TTT
784245 TGATCCACTT
Statistics
Matches: 371, Mismatches: 69, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
54 1 0.00
55 298 0.80
56 72 0.19
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (55 bp):
TTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAAAATC
Found at i:784131 original size:221 final size:219
Alignment explanation
Indices: 783745--784244 Score: 628
Period size: 221 Copynumber: 2.3 Consensus size: 219
783735 TCAGATCAAT
* *
783745 TTTGGAAGATGGCTCTGCTCCACTATTCTTTCAGGGGAGATCAGACTC-AAGAAATCTTTAAAAG
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGGA-AT-AGACTCGAA-AAATCTTTAAAAG
* *
783809 AGAGGCCTGCTCCACTATTCTTTCAAAGAGATAAGACTCGAAAAATATTTGGAAGACGGGTCTGC
63 AGAGGCCTACTCCACTATTCTTTCAAAGAGATAAGACTCAAAAAATATTTGGAAGACGGGTCTGC
* * * *
783874 TCCACTAATCTTTCAGGGAGATAAGACTCAAAAAATCATTGGAAGACGGGTCTGCTCCACTCTTC
128 TCCACTAATCTTTCAGGGAGATAAAACACAAAAAATCATTGGAAGACCGGTCTCCTCCACTCTTC
* * * *
783939 TTTCAGGGAGATAAGACTCAAAAACTC
193 TTTCAGAGAGATAAAACTAAAAAAATC
* * **
783966 TTTGGAAGACGGGTCTACTCCACTCTTCTTTCA-GGGATATAAGACTCGAAAAATCTTTGGAAGA
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGGA-AT-AGACTCGAAAAATCTTTAAAAGA
** * *
784030 CGA-GTTTACTCCACTATTCTTTCAGAGAGATAAGACTTAAAAAATATTTTGGAAGACGGGTCTG
64 -GAGGCCTACTCCACTATTCTTTCAAAGAGATAAGACTCAAAAAATA-TTTGGAAGACGGGTCTG
** * * * *
784094 CTCCACTCTTCTTTCATGGAGATAAAACACCAAAAATCCTTGGAAGACCGGTTTCCTCCACTCTT
127 CTCCACTAATCTTTCAGGGAGATAAAACACAAAAAATCATTGGAAGACCGGTCTCCTCCACTCTT
784159 CTTTCAGAGAGATAAAACTAAAAAAATC
192 CTTTCAGAGAGATAAAACTAAAAAAATC
* * * * *
784187 TTTGGTAGATGTGTCTGCTCTACTCTTCTTTCATGGAGAATAGTCTCGAAAAATCTTT
1 TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCA-GGGGAATAGACTCGAAAAATCTTT
784245 TGATCCACTT
Statistics
Matches: 239, Mismatches: 35, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
220 61 0.26
221 173 0.72
222 2 0.01
223 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (219 bp):
TTTGGAAGATGGGTCTGCTCCACTCTTCTTTCAGGGGAATAGACTCGAAAAATCTTTAAAAGAGA
GGCCTACTCCACTATTCTTTCAAAGAGATAAGACTCAAAAAATATTTGGAAGACGGGTCTGCTCC
ACTAATCTTTCAGGGAGATAAAACACAAAAAATCATTGGAAGACCGGTCTCCTCCACTCTTCTTT
CAGAGAGATAAAACTAAAAAAATC
Found at i:785095 original size:45 final size:44
Alignment explanation
Indices: 785002--785272 Score: 215
Period size: 45 Copynumber: 6.0 Consensus size: 44
784992 TACAAACAGG
* * * * * *
785002 TTGACTCCTCTATACAAGAAAGTCAAAAATCACAACATTGAAAGA
1 TTGACTTCTCT-TACGAGAAAGTCAATAATGACAACACTAAAAGA
* * *
785047 TTGATTTCTCTATAAGAGAAAGTCAATAATGACAACACTAAAATA
1 TTGACTTCTCT-TACGAGAAAGTCAATAATGACAACACTAAAAGA
* * * * * *
785092 TTGACTCCTCTTCCCGAGAAAGTAAAAAATGTCATCACTAAAAGA
1 TTGACTTCTCTT-ACGAGAAAGTCAATAATGACAACACTAAAAGA
* * *
785137 TCGAC-TCATCTTCTCGAGAAAGTTAATGAA-GACAACACTAAAAGA
1 TTGACTTC-TCTT-ACGAGAAAGTCAAT-AATGACAACACTAAAAGA
* * ** * *
785182 TTGACTTATCTCCACGAGAAAGTCAATAACAACACCACTAAAAGG
1 TTGACTTCTCT-TACGAGAAAGTCAATAATGACAACACTAAAAGA
* *
785227 TTGACTTCTCTTTACGAGAAAGTCAAGAATGACATCACT-AAAGA
1 TTGACTTCTC-TTACGAGAAAGTCAATAATGACAACACTAAAAGA
785271 TT
1 TT
785273 AACTATTCCT
Statistics
Matches: 179, Mismatches: 40, Indels: 15
0.76 0.17 0.06
Matches are distributed among these distances:
44 10 0.06
45 165 0.92
46 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (44 bp):
TTGACTTCTCTTACGAGAAAGTCAATAATGACAACACTAAAAGA
Found at i:807676 original size:15 final size:13
Alignment explanation
Indices: 807640--807682 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
807630 CACATAATAT
807640 AAATAA-AATGAA
1 AAATAATAATGAA
*
807652 AAATAGTAATGATA
1 AAATAATAATGA-A
807666 ATAATAATAATGAA
1 A-AATAATAATGAA
807680 AAA
1 AAA
807683 ACGTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.19
13 7 0.27
14 4 0.15
15 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.23
Consensus pattern (13 bp):
AAATAATAATGAA
Found at i:807699 original size:2 final size:2
Alignment explanation
Indices: 807694--807735 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
807684 CGTATAAAAC
807694 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
807736 AATGTCTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:807849 original size:29 final size:28
Alignment explanation
Indices: 807817--807910 Score: 95
Period size: 27 Copynumber: 3.4 Consensus size: 28
807807 ATATATATTC
* *
807817 AAAACTATATTATATATCTATTTTTTTTT
1 AAAACTATATTATATAT-TATTTTTTATA
* * *
807846 AAAACTATATTCTATATT-TGTTTTCTA
1 AAAACTATATTATATATTATTTTTTATA
807873 AAAACTATA-TACTATA-TATATTTTTATA
1 AAAACTATATTA-TATATTAT-TTTTTATA
807901 AAAACTATAT
1 AAAACTATAT
807911 GCTATAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.04
27 20 0.37
28 16 0.30
29 16 0.30
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (28 bp):
AAAACTATATTATATATTATTTTTTATA
Found at i:807877 original size:27 final size:25
Alignment explanation
Indices: 807827--807916 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 25
807817 AAAACTATAT
807827 TATATATCTAT-TTTTTTTT-AAAAC
1 TATAT-TCTATATTTTTTTTAAAAAC
807851 TATATTCTATATTTGTTTTCTAAAAAC
1 TATATTCTATATTT-TTTT-TAAAAAC
*
807878 TATATACTATATATATTTTTATAAAAAC
1 TATATTCTATAT-T-TTTTT-TAAAAAC
*
807906 TATATGCTATA
1 TATATTCTATA
807917 AAAACACGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.09
24 8 0.14
25 4 0.07
26 1 0.02
27 16 0.28
28 22 0.39
29 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTCTATATTTTTTTTAAAAAC
Found at i:814879 original size:18 final size:19
Alignment explanation
Indices: 814856--814893 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
814846 CATTGTAGGA
814856 ATTCATGGCCT-CACAAAG
1 ATTCATGGCCTCCACAAAG
*
814874 ATTCATGGCTTCCACAAAG
1 ATTCATGGCCTCCACAAAG
814893 A
1 A
814894 CCTTGATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (19 bp):
ATTCATGGCCTCCACAAAG
Done.