Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004397.1 Hibiscus syriacus cultivar Beakdansim tig00009641_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: 93270
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3732 original size:28 final size:29
Alignment explanation
Indices: 3688--3750 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
3678 CTAAAAAAAC
*
3688 ATTT-TTTTAAATATAT-AGAAATTCA-TA
1 ATTTATTTTAAATATATAAAAAATT-ATTA
3715 ATTTATTTTAAA-ATTATAAAAAATTATTA
1 ATTTATTTTAAATA-TATAAAAAATTATTA
3744 ATTTATT
1 ATTTATT
3751 CATTCATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 5 0.16
28 11 0.35
29 15 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
ATTTATTTTAAATATATAAAAAATTATTA
Found at i:3994 original size:13 final size:15
Alignment explanation
Indices: 3964--3993 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3954 CTTGAAATTC
3964 AATATGTTTTTTAAA
1 AATATGTTTTTTAAA
3979 AATA-GTTTTTTAAA
1 AATATGTTTTTTAAA
3993 A
1 A
3994 TTTTTACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
AATATGTTTTTTAAA
Found at i:14622 original size:38 final size:38
Alignment explanation
Indices: 14571--14644 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
14561 TGAACAGAAT
*
14571 TTCTTACGTTTAAAATTTGAAATTTAGAGGCATTTGGC
1 TTCTTACGTTTAAAATTTGAAATTTAGAGACATTTGGC
* * *
14609 TTCTTACGTTTAAATTTTGGAGTTTAGAGACATTTG
1 TTCTTACGTTTAAAATTTGAAATTTAGAGACATTTG
14645 TCCGGTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (38 bp):
TTCTTACGTTTAAAATTTGAAATTTAGAGACATTTGGC
Found at i:15363 original size:19 final size:18
Alignment explanation
Indices: 15339--15376 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15329 AAAAAATACA
15339 AATAAAAGA-ATATTATTAT
1 AATAAAA-ATATATT-TTAT
15358 AATAAAAATATATTTTAT
1 AATAAAAATATATTTTAT
15376 A
1 A
15377 TAATTCACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AATAAAAATATATTTTAT
Found at i:17497 original size:31 final size:31
Alignment explanation
Indices: 17437--17497 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
17427 AATCAATATC
**
17437 CAAGTGACCAAAACTTAATAAAATGATAATG
1 CAAGTGACCAAAACTTAATAAAACAATAATG
17468 CAAGTGACCAAAACTTAATAAAACAATAAT
1 CAAGTGACCAAAACTTAATAAAACAATAAT
17498 TTAAAATACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (31 bp):
CAAGTGACCAAAACTTAATAAAACAATAATG
Found at i:17509 original size:31 final size:31
Alignment explanation
Indices: 17441--17516 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
17431 AATATCCAAG
** * *
17441 TGACCAAAACTTAATAAAATGATAATGCAAG
1 TGACCAAAACTTAATAAAACAATAATGAAAA
*
17472 TGACCAAAACTTAATAAAACAATAATTTAAAA
1 TGACCAAAACTTAATAAAACAATAA-TGAAAA
17504 T-ACCAAAACTTAA
1 TGACCAAAACTTAA
17517 GTTTGTTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (31 bp):
TGACCAAAACTTAATAAAACAATAATGAAAA
Found at i:18271 original size:15 final size:15
Alignment explanation
Indices: 18251--18282 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18241 CAATCAAAAA
18251 ATGAATTAACGTCGC
1 ATGAATTAACGTCGC
*
18266 ATGAATTAACGTTGC
1 ATGAATTAACGTCGC
18281 AT
1 AT
18283 CGCATGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (15 bp):
ATGAATTAACGTCGC
Found at i:18287 original size:20 final size:20
Alignment explanation
Indices: 18262--18302 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18252 TGAATTAACG
18262 TCGCATGAATTAACGTTGCA
1 TCGCATGAATTAACGTTGCA
18282 TCGCATGAATTAACGTTGCA
1 TCGCATGAATTAACGTTGCA
18302 T
1 T
18303 GGGACATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (20 bp):
TCGCATGAATTAACGTTGCA
Found at i:18359 original size:29 final size:29
Alignment explanation
Indices: 18326--18426 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
18316 CCCAAAAAAT
* *
18326 AGGTCTCCATGCCCTCCGGGCGACCAAGG
1 AGGTCGCCATGCACTCCGGGCGACCAAGG
*
18355 AGGTCGCCATGCACTCCGGGCGATCAAGG
1 AGGTCGCCATGCACTCCGGGCGACCAAGG
* * * *
18384 AGGTCGTCATGCA-TGCCAGGC-AACATGG
1 AGGTCGCCATGCACT-CCGGGCGACCAAGG
18412 TAGGTCGCCATGCAC
1 -AGGTCGCCATGCAC
18427 GCCCCGCGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.10
29 55 0.90
ACGTcount: A:0.21, C:0.32, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCGGGCGACCAAGG
Found at i:18838 original size:18 final size:18
Alignment explanation
Indices: 18815--18850 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18805 TTATTAGTTT
18815 GTTAGTTTAGGGTTAGGG
1 GTTAGTTTAGGGTTAGGG
18833 GTTAGTTTAGGGTTAGGG
1 GTTAGTTTAGGGTTAGGG
18851 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (18 bp):
GTTAGTTTAGGGTTAGGG
Found at i:19140 original size:15 final size:16
Alignment explanation
Indices: 19112--19145 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
19102 GTTTGTTACT
19112 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
19128 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
19143 TTA
1 TTA
19146 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:21331 original size:60 final size:60
Alignment explanation
Indices: 21263--21488 Score: 400
Period size: 60 Copynumber: 3.8 Consensus size: 60
21253 AATCATTACT
*
21263 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTAATATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
* *
21323 AAATCATTAAATATTAATAATAATTTCATTATAACTAATCATTACT-AATCATTACTATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
*
21382 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
*
21442 AAATCAATAAATATTAATAATAATTTCATTATTACTAATCATTACTA
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
21489 TCAAATCATT
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
59 57 0.36
60 103 0.64
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (60 bp):
AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATC
Found at i:21365 original size:49 final size:51
Alignment explanation
Indices: 21310--21583 Score: 209
Period size: 49 Copynumber: 5.2 Consensus size: 51
21300 ATCATTATTA
21310 AATCATTA-A-TATCAAATCATTAAATATTAATAATAATTTCATTATAACT
1 AATCATTATACTATCAAATCATTAAATATTAATAATAATTTCATTATAACT
*
21359 AATCATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATC---A-T--T-A-TACTATCAAATCATTAAATATTAATAATAATTTCATTATAACT
* * * * * * * * *
21418 AATCATTACTA-AATC-ATTACTATCAAATCAATAAATATTAATAATAATTTCATTATT
1 AATCATTA-TACTATCAAAT-C-ATTAAAT--ATTAATAATAAT-TTCA-TT-ATAACT
* * * *
21475 ACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTA-TACTATCAAATCATTAAATATTAATAATAATTTCATTATAACT
* *
21527 AATCA-T-TACTATCAAATCATTAAATATTAATAATAATTTTATTATTACT
1 AATCATTATACTATCAAATCATTAAATATTAATAATAATTTCATTATAACT
21576 AATCATTA
1 AATCATTA
21584 CTAAATCATT
Statistics
Matches: 178, Mismatches: 26, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
49 51 0.29
50 3 0.02
51 4 0.02
52 18 0.10
53 4 0.02
54 12 0.07
55 14 0.08
56 4 0.02
57 18 0.10
58 5 0.03
59 45 0.25
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (51 bp):
AATCATTATACTATCAAATCATTAAATATTAATAATAATTTCATTATAACT
Found at i:21371 original size:10 final size:10
Alignment explanation
Indices: 21356--21439 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 10
21346 TTTCATTATA
21356 ACTAATCATT
1 ACTAATCATT
21366 ACTAATCATT
1 ACTAATCATT
21376 ACTATCAAATCATT
1 AC--T--AATCATT
21390 A--AAT-ATT
1 ACTAATCATT
* *
21397 AATAATAATT
1 ACTAATCATT
* *
21407 --TCATTATT
1 ACTAATCATT
21415 ACTAATCATT
1 ACTAATCATT
21425 ACTAAATCATT
1 ACT-AATCATT
21436 ACTA
1 ACTA
21440 TCAAATCAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
7 4 0.07
8 9 0.15
9 3 0.05
10 25 0.42
11 10 0.17
12 1 0.02
14 8 0.13
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.40
Consensus pattern (10 bp):
ACTAATCATT
Found at i:21424 original size:119 final size:117
Alignment explanation
Indices: 21263--22071 Score: 658
Period size: 119 Copynumber: 7.1 Consensus size: 117
21253 AATCATTACT
21263 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTAATATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATT-ATATCAAATC
21328 ATTAAATATTAATAATAATTTCATTATAACTAATCATTACTAATCATTACTATC
65 ATTAAATATTAATAATAATTTCATTAT-ACTAATCATTACTAATCATTACTATC
*
21382 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTA-TATCAAATC
*
21447 AATAAATATTAATAATAATTTC-----A-T--T-ATTACTAATCATTACTATC
65 ATTAAATATTAATAATAATTTCATTATACTAATCATTACTAATCATTACTATC
21491 AAATCATTAAATATTAATAATAATTTCATTATTACTAATC---ATT--A-C----TATCAAATCA
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTATATCAAATCA
* *
21546 TTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTATTAT-
66 TTAAATATTAATAATAATTTCATTA-TACTAATCATTACT-AATCATTACTATC
* * * * * * * * **
21599 AATTTCATTACTAGTTATGTAACGAA-AATATGATTAATTGAACCAAACATT-GT---TCATGGT
1 AA-ATCATTA--A-ATAT-TAA-TAATAATTTCATT-ATT--ACTAATCATTATTAAATCATTAT
* * * *
21659 -TCAAGT--TGTAAATCATTACT-ATCAA-ATCA-T-TACTAAATCATTAATATCAAATCATTAA
57 ATCAAATCAT-TAAAT-ATTAATAAT-AATTTCATTATACT-AATCA-T--TA-CTAATCATT-A
*
21717 ATAT-
113 CTATC
* * * * *
21721 TAAT-AATAATTTATTATTACTAA--TC---ATTACTAATC---ATT--A-C----TATCAAATC
1 AAATCATTAA-ATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTATATCAAATC
* * *
21770 ATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTAGTATA
65 ATTAAATATTAATAATAATTTCATTA-TACTAATCATTACT-AATCATTACTATC
* *
21825 AAATCATTAAATATTAATAATAAATT-ATTATTACTAATCATTACT-AATCATTACTATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTA-TATCAAATC
* * *
21888 ATTAAAAATTAATACTAATTTCATTATTACTAATCATTACTAAATCATTAATATC
65 ATTAAATATTAATAATAATTTCATTA-TACTAATCATTACT-AATCATTACTATC
* *
21943 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATT-ATATCAAATC
*
22008 ATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTACTATC
65 ATTAAATATTAATAATAATTTCATTA-TACTAATCATTACT-AATCATTACTATC
22063 AAATCATTA
1 AAATCATTA
22072 TTATTAAATC
Statistics
Matches: 566, Mismatches: 54, Indels: 139
0.75 0.07 0.18
Matches are distributed among these distances:
98 29 0.05
103 6 0.01
104 36 0.06
105 15 0.03
106 6 0.01
107 8 0.01
108 22 0.04
109 81 0.14
110 1 0.00
111 6 0.01
112 5 0.01
113 12 0.02
114 5 0.01
115 1 0.00
116 6 0.01
117 8 0.01
118 96 0.17
119 105 0.19
120 88 0.16
121 23 0.04
122 7 0.01
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.41
Consensus pattern (117 bp):
AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTATATCAAATCA
TTAAATATTAATAATAATTTCATTATACTAATCATTACTAATCATTACTATC
Found at i:21584 original size:49 final size:49
Alignment explanation
Indices: 21422--21586 Score: 303
Period size: 49 Copynumber: 3.3 Consensus size: 49
21412 ATTACTAATC
*
21422 ATTACTAAATCATTACTATCAAATCAATAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
21472 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
21521 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTTATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
21570 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
21587 AATCATTATT
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
49 107 0.95
50 6 0.05
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:21687 original size:14 final size:14
Alignment explanation
Indices: 21668--21715 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
21658 TTCAAGTTGT
21668 AAATCATTACTATC
1 AAATCATTACTATC
21682 AAATCATTAC--T-
1 AAATCATTACTATC
*
21693 AAATCATTAATATC
1 AAATCATTACTATC
21707 AAATCATTA
1 AAATCATTA
21716 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:21695 original size:25 final size:25
Alignment explanation
Indices: 21667--21715 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
21657 GTTCAAGTTG
*
21667 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
21692 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
21716 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:21751 original size:10 final size:10
Alignment explanation
Indices: 21736--21762 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21726 ATAATTTATT
21736 ATTACTAATC
1 ATTACTAATC
21746 ATTACTAATC
1 ATTACTAATC
21756 ATTACTA
1 ATTACTA
21763 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:21808 original size:13 final size:11
Alignment explanation
Indices: 21790--22332 Score: 136
Period size: 11 Copynumber: 44.6 Consensus size: 11
21780 AATAATAATT
21790 TCATTATTACTAA
1 TCATTATTA--AA
21803 TCATTATTAAA
1 TCATTATTAAA
21814 TCATTAGTATAAA
1 TCATTA-T-TAAA
*
21827 --ATCATTAAA
1 TCATTATTAAA
21836 T-ATTAATAATAAA
1 TCATT-AT--TAAA
*
21849 TTATTATTACTAA
1 TCATTATTA--AA
*
21862 TCATTACT-AA
1 TCATTATTAAA
21872 TCATTACTATCAAA
1 TCATTA-T-T-AAA
*
21886 TCATTA-AAAA
1 TCATTATTAAA
* * * *
21896 TTAATACTAATT
1 TCATTATTAA-A
21908 TCATTATTACTAA
1 TCATTATTA--AA
*
21921 TCATTACTAAA
1 TCATTATTAAA
21932 TCATTAATATCAAA
1 TCATT-AT-T-AAA
*
21946 TCATTA-AAAA
1 TCATTATTAAA
* * * *
21956 TTAATAATAATT
1 TCATTATTAA-A
21968 TCATTATTACTAA
1 TCATTATTA--AA
*
21981 TCATTACTAAA
1 TCATTATTAAA
21992 TCATTAATATCAAA
1 TCATT-AT-T-AAA
22006 TCATTA--AATA
1 TCATTATTAA-A
* * * *
22016 TTAATAATAATT
1 TCATTATTAA-A
22028 TCATTATTACTAA
1 TCATTATTA--AA
22041 TCATTATTAAA
1 TCATTATTAAA
22052 TCATTACTATCAAA
1 TCATTA-T-T-AAA
22066 TCATTATTATTAAA
1 TC---ATTATTAAA
22080 TCATTATTATAA
1 TCATTATTA-AA
*
22092 TGATTATTATAATGA
1 TCATTA-T-TAA--A
*
22107 TTATTATTAAA
1 TCATTATTAAA
22118 TCATTATTATAA
1 TCATTATTA-AA
*
22130 TGATTATTATCAAA
1 TCATTA-T-T-AAA
*
22144 TCATTACTAAA
1 TCATTATTAAA
22155 TCATCAAATCATTAAA
1 TCAT----T-ATTAAA
22171 T-A-T-TTAAA
1 TCATTATTAAA
22179 TCATTATTAAA
1 TCATTATTAAA
*
22190 TTATTATTATAA
1 TCATTATTA-AA
*
22202 TGATTATTACTAAA
1 TCATTA-T--TAAA
22216 TCATTATTATAA
1 TCATTATTA-AA
*
22228 TGATTATTATCAAA
1 TCATTA-T-T-AAA
22242 TCATTATTATAA
1 TCATTATTA-AA
*
22254 TGATTATTATCATA
1 TCATTATTA--A-A
*
22268 TCATTACTAAA
1 TCATTATTAAA
* * * *
22279 TCATCAAATCAT
1 TCAT-TATTAAA
* *
22291 TAAATATTAAA
1 TCATTATTAAA
22302 TTCATTATTAAA
1 -TCATTATTAAA
22314 TTCATTATTAAA
1 -TCATTATTAAA
22326 TCATTAT
1 TCATTAT
22333 AATGATTATT
Statistics
Matches: 400, Mismatches: 62, Indels: 138
0.67 0.10 0.23
Matches are distributed among these distances:
8 6 0.01
9 7 0.02
10 32 0.08
11 95 0.24
12 93 0.23
13 69 0.17
14 74 0.19
15 13 0.03
16 7 0.02
17 4 0.01
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.43
Consensus pattern (11 bp):
TCATTATTAAA
Found at i:21833 original size:118 final size:118
Alignment explanation
Indices: 21683--22071 Score: 670
Period size: 118 Copynumber: 3.3 Consensus size: 118
21673 ATTACTATCA
21683 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTATTATTACTAATCAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTATTATTACTAATCAT
21748 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
66 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* * * *
21801 AATCATTATTAAATCATTAGTATAAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTATTATTACTAATCAT
* *
21866 TACTAATCATTACTATCAAATCATTAAAAATTAATACTAATTTCATTATTACT
66 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
*
21919 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTT-ATTATTACTAATCA
*
21984 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
65 TTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
22039 AATCATTATTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTAATATCAAATCATTA
22072 TTATTAAATC
Statistics
Matches: 253, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 157 0.62
119 19 0.08
120 77 0.30
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (118 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTATTATTACTAATCAT
TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:21845 original size:60 final size:60
Alignment explanation
Indices: 21683--22071 Score: 651
Period size: 60 Copynumber: 6.5 Consensus size: 60
21673 ATTACTATCA
21683 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
*
21742 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* * * *
21801 AATCATTATTAAATCATTAGTATAAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* * *
21860 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATACTAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
*
21919 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
21979 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
22039 AATCATTATTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTAATATCAAATCATTA
22072 TTATTAAATC
Statistics
Matches: 310, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
58 72 0.23
59 65 0.21
60 173 0.56
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:21869 original size:10 final size:10
Alignment explanation
Indices: 21854--21880 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21844 ATAAATTATT
21854 ATTACTAATC
1 ATTACTAATC
21864 ATTACTAATC
1 ATTACTAATC
21874 ATTACTA
1 ATTACTA
21881 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:21964 original size:178 final size:178
Alignment explanation
Indices: 21683--22071 Score: 656
Period size: 178 Copynumber: 2.2 Consensus size: 178
21673 ATTACTATCA
* *
21683 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTATTATTACTAATCAT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTATTATTACTAATCAT
* * *
21748 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAA
66 TACTAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
*
21813 ATCATTAGTATAAAATCATTAAATATTAATAATAAATT-ATTATTACT
131 ATCATTAATATAAAATCATTAAATATTAATAATAAATTCATTATTACT
*
21860 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATACTAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTT-ATTATTACTAATCA
21924 TTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
65 TTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
* *
21989 AAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
129 AAATCATTAATATAAAATCATTAAATATTAATAATAAATTCATTATTACT
*
22039 AATCATTATTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCATTA
22072 TTATTAAATC
Statistics
Matches: 198, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
176 36 0.18
177 29 0.15
178 93 0.47
179 18 0.09
180 22 0.11
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (178 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTATTATTACTAATCAT
TACTAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
ATCATTAATATAAAATCATTAAATATTAATAATAAATTCATTATTACT
Found at i:22070 original size:38 final size:38
Alignment explanation
Indices: 22028--22273 Score: 199
Period size: 38 Copynumber: 6.5 Consensus size: 38
22018 AATAATAATT
* *
22028 TCATTATTACTAATCATTATTA-AATCATTACTATCAAA
1 TCATTATTA-TAATCATTATTATAATGATTATTATCAAA
22066 TCATTATTATTAAATCATTATTATAATGATTATTAT--AA
1 TCATTATTA-T-AATCATTATTATAATGATTATTATCAAA
*
22104 TGATTATTATTAAATCATTATTATAATGATTATTATCAAA
1 TCATTATTA-T-AATCATTATTATAATGATTATTATCAAA
* * * * * *
22144 TCATTACTA-AATCATCA-AATCATTAAATATT-T-AAA
1 TCATTATTATAATCATTATTAT-AATGATTATTATCAAA
*
22179 TCATTATTA-AATTATTATTATAATGATTATTA-CTAAA
1 TCATTATTATAATCATTATTATAATGATTATTATC-AAA
* *
22216 TCATTATTATAATGATTATTATCAAATCATTATTAT--AA
1 TCATTATTATAATCATTATTAT--AATGATTATTATCAAA
*
22254 TGATTATTATCATATCATTA
1 TCATTATTAT-A-ATCATTA
22274 CTAAATCATC
Statistics
Matches: 171, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
35 24 0.14
36 5 0.03
37 26 0.15
38 69 0.40
39 12 0.07
40 35 0.20
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (38 bp):
TCATTATTATAATCATTATTATAATGATTATTATCAAA
Found at i:22123 original size:26 final size:26
Alignment explanation
Indices: 22030--22273 Score: 215
Period size: 26 Copynumber: 9.7 Consensus size: 26
22020 TAATAATTTC
* *
22030 ATTATTACT-AATCATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
22054 ATTACTATCAAATCATTATTATTAA--
1 ATTATTATTAAATCATTATTA-TAATG
* *
22079 ATCATTATTATAATGATTATTATAATG
1 ATTATTATTA-AATCATTATTATAATG
22106 ATTATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * *
22132 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
22157 ATCAAATCATT-AA--A-TATT-TAA--
1 AT--TATTATTAAATCATTATTATAATG
* *
22178 ATCATTATTAAATTATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
22204 ATTATTACTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
22230 ATTATTATCAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
22256 ATTATTATCATATCATTA
1 ATTATTATTAAATCATTA
22274 CTAAATCATC
Statistics
Matches: 180, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.03
20 2 0.01
21 2 0.01
22 1 0.01
23 9 0.05
24 10 0.06
25 26 0.14
26 110 0.61
27 15 0.08
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATG
Found at i:22216 original size:98 final size:97
Alignment explanation
Indices: 22060--22247 Score: 324
Period size: 98 Copynumber: 1.9 Consensus size: 97
22050 AATCATTACT
* *
22060 ATCAAATCATTATTATTAAATCATTATTATAATGATTATTATAATGATTATTATTAAATCATTAT
1 ATCAAATCATTAATATTAAATCATTATTATAATGATTATTATAATGATTATTACTAAATCATTAT
22125 TATAATGATTATTATCAAATCATTACTAAATC
66 TATAATGATTATTATCAAATCATTACTAAATC
*
22157 ATCAAATCATTAAATATTTAAATCATTATTA-AATTATTATTATAATGATTATTACTAAATCATT
1 ATCAAATCATT-AATA-TTAAATCATTATTATAATGATTATTATAATGATTATTACTAAATCATT
22221 ATTATAATGATTATTATCAAATCATTA
64 ATTATAATGATTATTATCAAATCATTA
22248 TTATAATGAT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
97 11 0.13
98 61 0.71
99 14 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (97 bp):
ATCAAATCATTAATATTAAATCATTATTATAATGATTATTATAATGATTATTACTAAATCATTAT
TATAATGATTATTATCAAATCATTACTAAATC
Found at i:22223 original size:124 final size:121
Alignment explanation
Indices: 22068--22332 Score: 442
Period size: 124 Copynumber: 2.2 Consensus size: 121
22058 CTATCAAATC
* *
22068 ATTATTATTAAATCATTATTATAATGATTATTATAATGATTATTATTAAATCATTATTATAATGA
1 ATTATTATTAAATCATTATTATAATCATTATTATAATGATTATTATCAAATCATTATTATAATGA
22133 TTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAA-TCATTATTAA
66 TTATTATCAAATCATTACTAAATCATCAAATCATTAAATA-TTAAATTCATTATTAA
*
22189 ATTATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTATTATAA
1 ATTATTATTA-AATCATTATTA-T-AATCATTATTATAATGATTATTATCAAATCATTATTATAA
*
22254 TGATTATTATCATATCATTACTAAATCATCAAATCATTAAATATTAAATTCATTATTAA
63 TGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAATTCATTATTAA
22313 ATTCATTATTAAATCATTAT
1 ATT-ATTATTAAATCATTAT
22333 AATGATTATT
Statistics
Matches: 134, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
121 10 0.07
122 10 0.07
123 6 0.04
124 101 0.75
125 7 0.05
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (121 bp):
ATTATTATTAAATCATTATTATAATCATTATTATAATGATTATTATCAAATCATTATTATAATGA
TTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAATTCATTATTAA
Found at i:22312 original size:12 final size:12
Alignment explanation
Indices: 22295--22332 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
22285 AATCATTAAA
22295 TATTAAATTCAT
1 TATTAAATTCAT
22307 TATTAAATTCAT
1 TATTAAATTCAT
22319 TATTAAA-TCAT
1 TATTAAATTCAT
22330 TAT
1 TAT
22333 AATGATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTAAATTCAT
Found at i:25229 original size:9 final size:9
Alignment explanation
Indices: 25215--25244 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
25205 TTTAAACAAC
25215 AATAAATTA
1 AATAAATTA
25224 AATAAATTA
1 AATAAATTA
25233 AATAAATTA
1 AATAAATTA
25242 AAT
1 AAT
25245 TTATATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAAATTA
Found at i:25522 original size:28 final size:28
Alignment explanation
Indices: 25491--25544 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
25481 ATAATCTAAT
*
25491 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
25519 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
25545 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:25551 original size:28 final size:28
Alignment explanation
Indices: 25487--25551 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
25477 TTATATAATC
*
25487 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
25515 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
25543 TAATTTATA
1 TAATATATA
25552 CTAACAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:25554 original size:21 final size:21
Alignment explanation
Indices: 25521--25569 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
25511 TTAATATAAT
25521 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* * *
25542 ATAATTTATACTAACAAATTA
1 ATAACTTAAACTAACAAACTA
25563 ATTAACT
1 A-TAACT
25570 AAATTTTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:26631 original size:17 final size:16
Alignment explanation
Indices: 26609--26642 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
26599 TAAAAACAGT
26609 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
26626 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
26642 A
1 A
26643 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:27161 original size:24 final size:24
Alignment explanation
Indices: 27117--27163 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27107 ATAAAGAACC
*
27117 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
27141 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
27164 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:30470 original size:19 final size:20
Alignment explanation
Indices: 30448--30491 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30438 GAGAAAAGGT
30448 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
30467 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
30487 AAAAG
1 AAAAG
30492 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:36861 original size:17 final size:16
Alignment explanation
Indices: 36839--36872 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
36829 TAAAAACAGT
36839 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
36856 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
36872 A
1 A
36873 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:37388 original size:24 final size:24
Alignment explanation
Indices: 37344--37390 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37334 ATAAAGAACC
*
37344 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
37368 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
37391 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:45704 original size:3 final size:3
Alignment explanation
Indices: 45696--45763 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
45686 CGGTTCTTTT
* *
45696 TTA TTA TTA TTA TTTA TATA TTTA TTA TTA TTT TTT TTA -TA TT- TATA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
45743 TTA TTA TT- TTA TTA ATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
45764 ATTTTTTACA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
2 5 0.09
3 40 0.74
4 8 0.15
5 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45721 original size:21 final size:21
Alignment explanation
Indices: 45695--45751 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
45685 CCGGTTCTTT
45695 TTTATTATTATTATTTATATA
1 TTTATTATTATTATTTATATA
* *
45716 TTTATTATTATTTTTTTTATA
1 TTTATTATTATTATTTATATA
45737 TTTA-TATTATTATTT
1 TTTATTATTATTATTT
45752 TATTAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTATTATTATTTATATA
Found at i:45744 original size:17 final size:20
Alignment explanation
Indices: 45718--45770 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
45708 TTTATATATT
45718 TATTATTATTTTTTTTA-T-A
1 TATTA-TATTTTTTTTATTAA
45737 T-TTATATTATTATTTTATTAA
1 TATTATATT-TT-TTTTATTAA
45758 TATTATATTTTTT
1 TATTATATTTTTT
45771 ACATATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.14
18 5 0.17
19 6 0.21
20 3 0.10
21 4 0.14
22 7 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTATATTTTTTTTATTAA
Found at i:46488 original size:22 final size:22
Alignment explanation
Indices: 46462--46519 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
46452 AAACTAAATT
46462 CGAAAAGAAAAAAACAGAGATAG
1 CGAAAAGAAAAAAA-AGAGATAG
* * *
46485 -GAAACAGAGAGAAAATAGATAG
1 CGAAA-AGAAAAAAAAGAGATAG
*
46507 CAAAAAGAAAAAA
1 CGAAAAGAAAAAA
46520 GAAAAAGAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.67, C:0.07, G:0.21, T:0.05
Consensus pattern (22 bp):
CGAAAAGAAAAAAAAGAGATAG
Found at i:47465 original size:16 final size:16
Alignment explanation
Indices: 47444--47480 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47434 TTTTTTATGC
*
47444 TTGTATTATTTAATAT
1 TTGTATTATCTAATAT
47460 TTGTATTATCTAATAT
1 TTGTATTATCTAATAT
47476 TTGTA
1 TTGTA
47481 ATCTGGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (16 bp):
TTGTATTATCTAATAT
Found at i:49442 original size:31 final size:32
Alignment explanation
Indices: 49406--49467 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
49396 ATTTTACATG
49406 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
49437 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
49468 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:51931 original size:26 final size:25
Alignment explanation
Indices: 51902--51979 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
51892 AATTTTTGAC
51902 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
51928 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
51948 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
51974 ATTCTT
1 ATTCTT
51980 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:51940 original size:20 final size:20
Alignment explanation
Indices: 51917--51991 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
51907 ATCTCTTTGA
51917 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
51937 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
51963 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
51982 CACCTTGAAA
1 GACCTTGAAA
51992 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:53811 original size:4 final size:4
Alignment explanation
Indices: 53802--53855 Score: 85
Period size: 4 Copynumber: 14.0 Consensus size: 4
53792 TAGATCGAGA
*
53802 ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
53848 ACAT ACAT
1 ACAT ACAT
53856 GATACATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
4 44 0.96
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:54198 original size:14 final size:14
Alignment explanation
Indices: 54178--54208 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
54168 TATTTTCTTT
54178 TAAAAAAAATA-AA
1 TAAAAAAAATATAA
54191 TAAAAAAAATATAA
1 TAAAAAAAATATAA
54205 TAAA
1 TAAA
54209 TAAAGTGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAAAAATATAA
Found at i:54524 original size:105 final size:102
Alignment explanation
Indices: 54337--54575 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
54327 TGAGAATTTT
* * *
54337 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
54402 AAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
54442 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
* * *
54506 ATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 A-AAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
54544 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
54576 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 5 0.04
105 78 0.66
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:54566 original size:36 final size:36
Alignment explanation
Indices: 54521--54640 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
54511 ACAAAGTTGA
**
54521 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
54557 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
54593 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
54627 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
54641 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:54929 original size:28 final size:28
Alignment explanation
Indices: 54892--54985 Score: 145
Period size: 29 Copynumber: 3.3 Consensus size: 28
54882 TCTTTTGAGG
54892 AAAAATCTTTGAGTTTGTTCCTCTTGAA-
1 AAAAATCTTTGAGTTTGTTCCT-TTGAAT
54920 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCC-TTTGAAT
*
54949 AAAAATCTTGGAGTTTGTTCCTTTGGAAT
1 AAAAATCTTTGAGTTTGTTCCTTT-GAAT
54978 AAAAATCT
1 AAAAATCT
54986 GAGTTGTTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
28 29 0.47
29 33 0.53
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (28 bp):
AAAAATCTTTGAGTTTGTTCCTTTGAAT
Found at i:55195 original size:67 final size:67
Alignment explanation
Indices: 55001--55470 Score: 879
Period size: 67 Copynumber: 7.0 Consensus size: 67
54991 GTTTCGTTTG
*
55001 AAAAATCTTTGAGTCTGTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
1 AAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
55066 AAC
65 AAC
*
55069 AAAAATCTTTGAGTTTGTTTTCTTTGGAAACAAAATTTTGTCTCTTTTAAGATAATTTCTTTTGA
1 AAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
55134 AAC
65 AAC
55137 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
55202 AC
66 AC
*
55204 AAAAATCTTTGAGTTTGTTTTCTTTGGAAACAAAATTTTGTCTCTTTTAAGATAATTTCTTTTGA
1 AAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGA
55269 AA-
65 AAC
55271 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
55336 AC
66 AC
55338 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
55403 AC
66 AC
55405 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
55470 A
66 A
55471 AATTCTTTGA
Statistics
Matches: 395, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
66 48 0.12
67 216 0.55
68 131 0.33
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (67 bp):
AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
AC
Found at i:55906 original size:67 final size:67
Alignment explanation
Indices: 55799--55940 Score: 155
Period size: 68 Copynumber: 2.1 Consensus size: 67
55789 ATTTCCTTTG
* ** *
55799 AAACAAAATTTTGTCTCTTGAGACAACTTCTTTCGAAAATAC-CCATCTTTGAGATTGTTTCTAT
1 AAACAAAATTTTGTCCCTTGAGACAACTTCTTTCGAAAATACAAAATCTTTAAGATTGTTTCTAT
55863 TA
66 TA
* * *
55865 AAAC-AAATTTTGTATCCCTTGAGACAA-TTTTTTCTAGAAATACAAAATCTTTAAGTTTGTTTC
1 AAACAAAATTTTG--TCCCTTGAGACAACTTCTTTCGA-AAATACAAAATCTTTAAGATTGTTTC
*
55928 TCTTA
63 TATTA
*
55933 AAATAAAA
1 AAACAAAA
55941 CTATCTTTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
65 8 0.13
66 11 0.18
67 18 0.29
68 22 0.35
69 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (67 bp):
AAACAAAATTTTGTCCCTTGAGACAACTTCTTTCGAAAATACAAAATCTTTAAGATTGTTTCTAT
TA
Found at i:55934 original size:68 final size:66
Alignment explanation
Indices: 55780--55940 Score: 157
Period size: 66 Copynumber: 2.4 Consensus size: 66
55770 AAATTTTTTT
* * * **
55780 TTTAAGTTTATTTC-CTTTGAAACAAAATTTTGTCTCTTGAGACAACTTCTTTCGAAAATACCCA
1 TTTAAGTTTGTTTCTC-TTAAAACAAAATTTTGTCCCTTGAGACAACTTCTTTCGAAAATACAAA
55844 TC
65 TC
* * * * *
55846 TTTGAGATTGTTTCTATTAAAAC-AAATTTTGTATCCCTTGAGACAA-TTTTTTCTAGAAATACA
1 TTTAAGTTTGTTTCTCTTAAAACAAAATTTTG--TCCCTTGAGACAACTTCTTTCGA-AAATAC-
55909 AAATC
62 AAATC
*
55914 TTTAAGTTTGTTTCTCTTAAAATAAAA
1 TTTAAGTTTGTTTCTCTTAAAACAAAA
55941 CTATCTTTGA
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
65 8 0.11
66 24 0.32
67 18 0.24
68 22 0.29
69 3 0.04
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (66 bp):
TTTAAGTTTGTTTCTCTTAAAACAAAATTTTGTCCCTTGAGACAACTTCTTTCGAAAATACAAAT
C
Found at i:56371 original size:28 final size:28
Alignment explanation
Indices: 56325--56401 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
56315 GAGACAGTTG
56325 CTTTTGAAACACATTATCTTTGAGTTTATTT
1 CTTTTGAAACA-A--ATCTTTGAGTTTATTT
* *
56356 -TTCTTGAAACAAATCTTTGGGTTTGTTT
1 CTT-TTGAAACAAATCTTTGAGTTTATTT
56384 CTTTTGAAACAAATCTTT
1 CTTTTGAAACAAATCTTT
56402 AATTTGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 29 0.69
29 2 0.05
30 3 0.07
31 8 0.19
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTTTATTT
Found at i:56411 original size:28 final size:28
Alignment explanation
Indices: 56340--56421 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
56330 GAAACACATT
* * *
56340 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
56368 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
56396 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
56422 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:56508 original size:40 final size:40
Alignment explanation
Indices: 56450--56769 Score: 198
Period size: 40 Copynumber: 7.5 Consensus size: 40
56440 CCAGCCGTCC
* * *
56450 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
* ** * *
56490 TCATCACGTATGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTATGAGCCGTGTCATCCCCAG---ACCAGATC-TCT
* * * * *
56533 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTCATC-CC--CAGA---CCAGATCTCT
56579 TCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCT
* * * *
56619 TCATCACGTATGAGCCGTGTCA-CCCTAGACGACCATATTTCC
1 TCATCACGTATGAGCCGTGTCATCCC--CA-GACCAGATCTCT
* * * * * *
56661 TCATTACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
1 TCATCACGTATGAGCCGTGTCATC-CC--CAGA---CC-AGATCTCT
*
56708 TCATCACGTATGAGCCGTGTCATCAGCC-GACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCATC-CCCAGACCAGATCTCT
56748 TCATCACGTATGAGCCGTGTCA
1 TCATCACGTATGAGCCGTGTCA
56770 CCCTTAGATA
Statistics
Matches: 217, Mismatches: 41, Indels: 44
0.72 0.14 0.15
Matches are distributed among these distances:
38 3 0.01
40 83 0.38
41 2 0.01
42 28 0.13
43 33 0.15
44 7 0.03
46 32 0.15
47 29 0.13
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (40 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
Found at i:56704 original size:129 final size:128
Alignment explanation
Indices: 56450--56859 Score: 642
Period size: 129 Copynumber: 3.2 Consensus size: 128
56440 CCAGCCGTCC
* *
56450 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
1 TCATCACGTAGGAGCCGTGTCATCCCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTC-ACC
*
56515 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
64 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
*
56579 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
1 TCATCACGTAGGAGCCGTGTCA-TCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
** **** *
56644 TAGACGACCATATTTCCTCATTACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
65 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
* *
56708 TCATCACGTATGAGCCGTGTCATCAGCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
1 TCATCACGTAGGAGCCGTGTCATC-CCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
*
56773 TTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAAGAACTCT
65 -TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
56838 TCATCACGTAGGAGCCGTGTCA
1 TCATCACGTAGGAGCCGTGTCA
56860 CCTTTAGACG
Statistics
Matches: 256, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
128 53 0.21
129 121 0.47
130 82 0.32
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (128 bp):
TCATCACGTAGGAGCCGTGTCATCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCT
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
Found at i:57062 original size:3 final size:3
Alignment explanation
Indices: 57054--57121 Score: 61
Period size: 3 Copynumber: 22.3 Consensus size: 3
57044 CGGGTCTTTT
*
57054 TTA TTA TTA TTA TTTA TATA TTTA TTA TTA TTA TTT TTA -TA TT- TATA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
57101 TTA TTA TT- TTA TTA ATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
57122 ATTTTTACAT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
2 5 0.09
3 40 0.74
4 8 0.15
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57079 original size:21 final size:21
Alignment explanation
Indices: 57053--57109 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
57043 CCGGGTCTTT
57053 TTTATTATTATTATTTATATA
1 TTTATTATTATTATTTATATA
*
57074 TTTATTATTATTATTTTTATA
1 TTTATTATTATTATTTATATA
57095 TTTA-TATTATTATTT
1 TTTATTATTATTATTT
57110 TATTAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTATTATTATTTATATA
Found at i:57084 original size:14 final size:13
Alignment explanation
Indices: 57053--57121 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 13
57043 CCGGGTCTTT
57053 TTTATTATTATTA
1 TTTATTATTATTA
57066 TTTATATATTTATTA
1 TTTAT-TA-TTATTA
*
57081 -TTATTATTTTTA
1 TTTATTATTATTA
57093 TATT-TATATTATTA
1 T-TTAT-TATTATTA
*
57107 TTTTATTAATATTA
1 -TTTATTATTATTA
57121 T
1 T
57122 ATTTTTACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
12 5 0.11
13 9 0.20
14 24 0.52
15 8 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:57087 original size:17 final size:16
Alignment explanation
Indices: 57057--57125 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
57047 GTCTTTTTTA
57057 TTATTATTATTTATATAT
1 TTATTATTA-TTAT-TAT
57075 TTATTATTATTATT-T
1 TTATTATTATTATTAT
*
57090 TTATATTTATATTATTATT
1 TTAT-TAT-TATTATTA-T
*
57109 TTATTAATATTA-TAT
1 TTATTATTATTATTAT
57124 TT
1 TT
57126 TTACATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
15 8 0.18
16 5 0.11
17 16 0.36
18 10 0.23
19 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:57127 original size:17 final size:16
Alignment explanation
Indices: 57074--57128 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
57064 TATTTATATA
*
57074 TTTATTATTATTATTT
1 TTTATTAATATTATTT
*
57090 TTATATTTATATTATTAT
1 TT-TATTAATATTATT-T
57108 TTTATTAATATTATATT
1 TTTATTAATATTAT-TT
57125 TTTA
1 TTTA
57129 CATATTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 2 0.06
17 27 0.82
18 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTAATATTATTT
Found at i:57845 original size:22 final size:22
Alignment explanation
Indices: 57819--57876 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
57809 AAACTAAATT
57819 CGAAAAGAAAAAAACAGAGATAG
1 CGAAAAGAAAAAAA-AGAGATAG
* * *
57842 -GAAACAGAGAGAAAATAGATAG
1 CGAAA-AGAAAAAAAAGAGATAG
*
57864 CAAAAAGAAAAAA
1 CGAAAAGAAAAAA
57877 GAAAAAGAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.67, C:0.07, G:0.21, T:0.05
Consensus pattern (22 bp):
CGAAAAGAAAAAAAAGAGATAG
Found at i:58817 original size:16 final size:16
Alignment explanation
Indices: 58798--58834 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
58788 TTTTTTATGC
*
58798 TTGTATTATTTAATAT
1 TTGTATTATCTAATAT
58814 TTGTATTATCTAATAT
1 TTGTATTATCTAATAT
58830 TTGTA
1 TTGTA
58835 ATCTGGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (16 bp):
TTGTATTATCTAATAT
Found at i:61223 original size:23 final size:23
Alignment explanation
Indices: 61176--61224 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
61166 AATAACATAT
**
61176 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
61199 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
61222 TAG
1 TAG
61225 ACATTTAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:61457 original size:20 final size:20
Alignment explanation
Indices: 61411--61457 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
61401 ATTGGTAGCG
61411 CTTTACCGGTTTTATCATTT
1 CTTTACCGGTTTTATCATTT
** *
61431 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTATCAT-TT
61452 -TTTACC
1 CTTTACC
61458 TATTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTATCATTT
Found at i:61699 original size:182 final size:181
Alignment explanation
Indices: 61412--62033 Score: 793
Period size: 182 Copynumber: 3.4 Consensus size: 181
61402 TTGGTAGCGC
* * * * * * *
61412 TTTACCGGTTTTATCATTTCGATACCGGTTTTGTCATATTTTTACCTATTATATTGTTATTGATC
1 TTTACCGGTTTTATCATTTCGAGACCGATTTTATCATATTTTTACATGTTATATTGCTATGGATC
* * *
61477 GATACATTTTCATAAAGTATCGACACTTTTTAGACGCTATAACTTCTTCTCTTTTAAATT-ACGA
66 GATACATTTT-ATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AA
*
61541 AAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTT
129 AAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCAGTAGCTT
* ** * * *
61594 TTTACCGGTTTTATCATTTTGAGACATATTTTGTCATATTCTTACATGTTATATTACTATGGATC
1 TTTACCGGTTTTATCATTTCGAGACCGATTTTATCATATTTTTACATGTTATATTGCTATGGATC
61659 GATACATTTGTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAA
66 GATACATTT-TATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAA
** * *
61724 AGTGTCGATACTTATATTAACGTATCGACACTTTCAATATATCTAATAG-TT
130 AGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCAGTAGCTT
* * * * *
61775 CTTTACCGGTTTTATCATTTCGTGACCGGTTTTATCATACTTATACATGTTATATTGTTATGGAT
1 -TTTACCGGTTTTATCATTTCGAGACCGATTTTATCATATTTTTACATGTTATATTGCTATGGAT
* * *
61840 CGATACGTTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCTAA
65 CGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAA
* * * * **
61905 AAGTGTCGATACTTAT-TTAAATCTAATAGATACTTTCGATATATCCAGTAGCGG
129 AAGTGTCGATACTTATATT-AAT-TTATCGACACTTTCAATATATCCAGTAGCTT
* * * *
61959 TTTACCGGTTTTATCATAAT-GAAACTGATTTTATCATATTTTTACATGTTATATTGCTATGGAG
1 TTTACCGGTTTTATCAT-TTCGAGACCGATTTTATCATATTTTTACATGTTATATTGCTATGGAT
62023 CGATACATTTT
65 CGATACATTTT
62034 TCATTTGTAT
Statistics
Matches: 379, Mismatches: 53, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
181 4 0.01
182 289 0.76
183 85 0.22
184 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
TTTACCGGTTTTATCATTTCGAGACCGATTTTATCATATTTTTACATGTTATATTGCTATGGATC
GATACATTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAA
GTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCAGTAGCTT
Found at i:62658 original size:6 final size:6
Alignment explanation
Indices: 62647--62681 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
62637 CAGTTGCCAT
62647 TTTTAA TTTTAA TTTTTAA TTTTAA TTTTTAA TTT
1 TTTTAA TTTTAA -TTTTAA TTTTAA -TTTTAA TTT
62682 ATTCTCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:62663 original size:7 final size:7
Alignment explanation
Indices: 62645--62681 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
62635 CCCAGTTGCC
62645 ATTTTTA
1 ATTTTTA
62652 A-TTTTA
1 ATTTTTA
62658 ATTTTTA
1 ATTTTTA
62665 A-TTTTA
1 ATTTTTA
62671 ATTTTTA
1 ATTTTTA
62678 ATTT
1 ATTT
62682 ATTCTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTA
Found at i:62663 original size:13 final size:13
Alignment explanation
Indices: 62645--62681 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
62635 CCCAGTTGCC
62645 ATTTTTAATTTTA
1 ATTTTTAATTTTA
62658 ATTTTTAATTTTA
1 ATTTTTAATTTTA
62671 ATTTTTAATTT
1 ATTTTTAATTT
62682 ATTCTCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:64763 original size:14 final size:15
Alignment explanation
Indices: 64729--64763 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
64719 ATTCAACCAT
64729 ACAAAAATTCTAAAG
1 ACAAAAATTCTAAAG
64744 ACAAAAATTCTAAAG
1 ACAAAAATTCTAAAG
64759 A-AAAA
1 ACAAAA
64764 TATAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (15 bp):
ACAAAAATTCTAAAG
Found at i:64884 original size:31 final size:30
Alignment explanation
Indices: 64848--64925 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 30
64838 CCAACTGAAA
64848 TTAAATGAATATAATAATTTTTCCTAAGAAT
1 TTAAAT-AATATAATAATTTTTCCTAAGAAT
*
64879 TTAAAT--TAAAATAATTTTTCCTAAGAAT
1 TTAAATAATATAATAATTTTTCCTAAGAAT
* *
64907 TCAAAT--TAAAATAATTTTT
1 TTAAATAATATAATAATTTTT
64926 ATTCAACCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 39 0.87
31 6 0.13
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (30 bp):
TTAAATAATATAATAATTTTTCCTAAGAAT
Found at i:64893 original size:28 final size:28
Alignment explanation
Indices: 64860--64925 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
64850 AAATGAATAT
*
64860 AATAATTTTTCCTAAGAATTTAAATTAA
1 AATAATTTTTCCTAAGAATTCAAATTAA
64888 AATAATTTTTCCTAAGAATTCAAATTAA
1 AATAATTTTTCCTAAGAATTCAAATTAA
64916 AATAATTTTT
1 AATAATTTTT
64926 ATTCAACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (28 bp):
AATAATTTTTCCTAAGAATTCAAATTAA
Found at i:67190 original size:105 final size:105
Alignment explanation
Indices: 67054--67301 Score: 460
Period size: 105 Copynumber: 2.4 Consensus size: 105
67044 TTTGTCGGAT
*
67054 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
*
67119 GGAACATGTTCTTCTCATTACGAACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
67159 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
*
67224 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAG
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
67264 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGAT
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGAT
67302 CGGTTTATCC
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 139 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:68478 original size:51 final size:53
Alignment explanation
Indices: 68283--68530 Score: 178
Period size: 52 Copynumber: 4.6 Consensus size: 53
68273 TTTTTAGTTG
* * * * **
68283 TCAAGGAACCCCTAAGAATTAGGCTTAGTTTCCTTTTAAAAACTCATTGAAAATCATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTT-C-TTT-CAAATTCATTTCAAA--A-CA
* * * ** ** ** * *
68342 TCAAGAAACCCTTGAAAATCAAACTTAGTTTC-TAAAAACACATTTGAAAATA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
* * *
68394 TCAAGAAATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTT-AAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
* * * *
68446 TTAAGAAACCCCT-AAAATTAGGTTTAGCTTCTTTCAAGTTCATTTCAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
* * *
68498 TCGAGAAACCCCTGAAAATCAGGCTTAGTTTCT
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCT
68531 AAAAGTCTTC
Statistics
Matches: 150, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
51 27 0.18
52 59 0.39
53 26 0.17
55 12 0.08
56 1 0.01
58 1 0.01
59 24 0.16
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
Found at i:68699 original size:74 final size:75
Alignment explanation
Indices: 68600--68775 Score: 187
Period size: 75 Copynumber: 2.3 Consensus size: 75
68590 AGGGAAACTA
* * * * * *
68600 TCTCAAGCGAGATAAATTTTGGTTTTAAGAAAAATAAT-TTTGAGTGAAATG-AATAATCTTGTT
1 TCTCAAGCGAGACAAAATAT-GTTTTAAGAAAAATAATCTGT-AATGAAACGAAAT-ATCTTGTT
* *
68663 TTGAG-TAAAATG
63 GTGAGAAAAAATG
* * *
68675 TCTTAAGCGAGACAAAATATGTTTTAAGAACAATAATCTGTAATGAAACGAAATGTCTTGTTGTG
1 TCTCAAGCGAGACAAAATATGTTTTAAGAAAAATAATCTGTAATGAAACGAAATATCTTGTTGTG
68740 AGAAAAAATG
66 AGAAAAAATG
* *
68750 TCTCAAGCGAGACAAAGTCTGTTTTA
1 TCTCAAGCGAGACAAAATATGTTTTA
68776 GGGGAAACTA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
74 34 0.40
75 50 0.60
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (75 bp):
TCTCAAGCGAGACAAAATATGTTTTAAGAAAAATAATCTGTAATGAAACGAAATATCTTGTTGTG
AGAAAAAATG
Found at i:68856 original size:37 final size:36
Alignment explanation
Indices: 68750--68864 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 36
68740 AGAAAAAATG
* * * * * *
68750 TCTCAAGCGAGACAAAGTCTGTTTTAGGGGAAACTA
1 TCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTA
* * *
68786 TCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTG
1 TCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTA
68822 TCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAAACCTA
1 TCTCAAGGGAGAAAAAA-TTTGTTTCAAGGGAAA-CTA
68860 T-TCAA
1 TCTCAA
68865 AGATTTTGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 45 0.67
37 19 0.28
38 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (36 bp):
TCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTA
Found at i:69033 original size:37 final size:37
Alignment explanation
Indices: 68992--69185 Score: 154
Period size: 37 Copynumber: 5.4 Consensus size: 37
68982 CGAGACGATG
*
68992 TTTGTTTTGAGAGAAAAATATCTCAAGTGAAACAAAA
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
* * *
69029 TTTGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAAA
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
* * *** *
69066 TTTGTTTTTA-AGAAAAA-----CAACT--TTGAAAT
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
**
69095 TGTTGTTCCGA-AGAAAAATGTCTCAAGTGAAACAAAA
1 T-TTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
* * * *
69132 TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACGACAT
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAAC-AAAA
*
69170 TTTGTTTCGAGAGAAA
1 TTTGTTTTGAGAGAAA
69186 CAACACCCAA
Statistics
Matches: 120, Mismatches: 27, Indels: 19
0.72 0.16 0.11
Matches are distributed among these distances:
29 4 0.03
30 13 0.11
31 3 0.03
35 4 0.03
36 13 0.11
37 67 0.56
38 16 0.13
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (37 bp):
TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
Found at i:74434 original size:17 final size:17
Alignment explanation
Indices: 74382--74444 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
74372 ATATCATGCT
* *
74382 ATAATATTATATACAAA
1 ATAATAATATAAACAAA
* *
74399 GTAAT-ATATAATA-ATA
1 ATAATAATATAA-ACAAA
74415 ATAATAATATAAACAAA
1 ATAATAATATAAACAAA
74432 ATAA-ATATATAAA
1 ATAATA-ATATAAA
74445 ACATAAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
16 12 0.33
17 24 0.67
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAATAATATAAACAAA
Found at i:78505 original size:18 final size:19
Alignment explanation
Indices: 78484--78524 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
78474 AAAATGAGAG
* *
78484 AAATTCAGAAAA-TGTCAA
1 AAATTAAGAAAATTCTCAA
78502 AAA-TAAGAAAATTCTCAA
1 AAATTAAGAAAATTCTCAA
78520 AAATT
1 AAATT
78525 TTATACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 11 0.58
19 1 0.05
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATTAAGAAAATTCTCAA
Found at i:79547 original size:80 final size:77
Alignment explanation
Indices: 79416--79577 Score: 213
Period size: 80 Copynumber: 2.1 Consensus size: 77
79406 ACGGAATCCC
* * *
79416 TGCAAGTAATATGAAGGACAACTTCTCAATTTACATTGAGGTCAAATTTATAAC-AGATATTTAG
1 TGCAAGTAAAATGAAGGACAACTTCTCAATTTACATTCAGATCAAATTTATAACTA-ATATTTA-
79480 AGACCA-CTGCTAAT
64 AGA-CAGCTGCTAAT
79494 TGCAAGTAAAATGAAGGACTAAACTTCTCAAATTT-CATTCAGATCAAATTTATAACTAATATTT
1 TGCAAGTAAAATGAAGGAC--AACTTCTC-AATTTACATTCAGATCAAATTTATAACTAATATTT
*
79558 AAGACAGCTGCTCAT
63 AAGACAGCTGCTAAT
79573 TGCAA
1 TGCAA
79578 CATAATCTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
78 20 0.27
79 15 0.20
80 34 0.45
81 6 0.08
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (77 bp):
TGCAAGTAAAATGAAGGACAACTTCTCAATTTACATTCAGATCAAATTTATAACTAATATTTAAG
ACAGCTGCTAAT
Found at i:85148 original size:8 final size:8
Alignment explanation
Indices: 85135--85173 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
85125 TCATTTTCAG
85135 GAATTTGA
1 GAATTTGA
85143 GAATTT-A
1 GAATTTGA
* *
85150 GAGTTTGG
1 GAATTTGA
85158 GAATTTGA
1 GAATTTGA
85166 GAATTTGA
1 GAATTTGA
85174 AAGATTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (8 bp):
GAATTTGA
Found at i:85763 original size:127 final size:127
Alignment explanation
Indices: 85241--85771 Score: 927
Period size: 123 Copynumber: 4.2 Consensus size: 127
85231 CTATAATCGG
*
85241 TTCACTATTCATATGAAGGCGCGTTCCCGGGACGCGCCTTCCATTATTTCGTCAGAGAATATGTT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
*
85306 ATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
85368 TTCACTATTCACA-GAA---GCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
*
85429 ATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
85491 TTCACTATTCATATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTC-GAGAATA--TT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
85553 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
85615 TTCACTATTCAT-TGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
85679 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGAGACACTAGATATATCAGTACCTATTA-
65 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
85741 TTCACTATTCATATGAATGCGCGTTCCCGGG
1 TTCACTATTCATATGAAGGCGCGTTCCCGGG
85772 AATATAGAAA
Statistics
Matches: 388, Mismatches: 7, Indels: 19
0.94 0.02 0.05
Matches are distributed among these distances:
123 133 0.34
124 102 0.26
125 7 0.02
126 25 0.06
127 121 0.31
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (127 bp):
TTCACTATTCATATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:87404 original size:33 final size:32
Alignment explanation
Indices: 87358--87428 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
87348 TTATTTTAAT
* * * *
87358 AAAA-AATAATATTTACATAAATATTAATATA
1 AAAATAATAATATTTAAAAAAATACTAACATA
87389 AAAATAATAACTATTTAAAAAAATACTAACATA
1 AAAATAATAA-TATTTAAAAAAATACTAACATA
87422 AAAATAA
1 AAAATAA
87429 ATTTCTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 4 0.12
32 5 0.15
33 25 0.74
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (32 bp):
AAAATAATAATATTTAAAAAAATACTAACATA
Found at i:88610 original size:17 final size:19
Alignment explanation
Indices: 88588--88624 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
88578 ACATAGTATT
88588 AAATAA-AAATA-ATAGAA
1 AAATAAGAAATATATAGAA
88605 AAATAAGAAATATATAGAA
1 AAATAAGAAATATATAGAA
88624 A
1 A
88625 CATATAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 5 0.28
19 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (19 bp):
AAATAAGAAATATATAGAA
Found at i:90819 original size:68 final size:66
Alignment explanation
Indices: 90694--90885 Score: 213
Period size: 68 Copynumber: 2.8 Consensus size: 66
90684 TGTCTTAAAA
* * * * * * *
90694 AGACAGAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAAAC-TCAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCA
90759 AGGG
63 AGGG
* * * *
90763 AGACAAAATTTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAA
1 AGACAAAA-TTTGTTTCAAGGGAAACAAACTC-AAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
90828 GGG
64 GGG
* * *
90831 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAAACTCAAGATTTTGTGTTTCAAGAGAAAC
90886 ATTTTCAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
66 23 0.22
67 20 0.19
68 30 0.29
69 11 0.10
70 21 0.20
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (66 bp):
AGACAAAATTTGTTTCAAGGGAAACAAACTCAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAGG
G
Found at i:90875 original size:30 final size:31
Alignment explanation
Indices: 90841--90932 Score: 116
Period size: 30 Copynumber: 2.9 Consensus size: 31
90831 AGACGAAATT
* *
90841 TGTTTCAAGGGAAACAATCTC-AAGGTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTG
*
90871 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG---TTTTG
90905 TGTTTCAAGAG-AACAATTTCAAAGGTTT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTT
90933 CTTTTTGTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 21 0.39
31 4 0.07
33 13 0.24
34 16 0.30
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (31 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTG
Found at i:90909 original size:34 final size:36
Alignment explanation
Indices: 90866--90954 Score: 148
Period size: 34 Copynumber: 2.6 Consensus size: 36
90856 AATCTCAAGG
*
90866 TTTTGTGTTTCAAGAGAAACATTTTCAAAGG-TT-T
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
90900 TTTTGTGTTTCAAGAG-AACAATTTCAAAGGTTTCT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
90935 TTTTGTGTTTCAAGAGAAAC
1 TTTTGTGTTTCAAGAGAAAC
90955 TGTATCAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
33 13 0.25
34 18 0.35
35 17 0.33
36 3 0.06
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (36 bp):
TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
Found at i:90930 original size:33 final size:35
Alignment explanation
Indices: 90866--90952 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
90856 AATCTCAAGG
*
90866 TTTTGTGTTTCAAGAGAAACATTTTCAAAGG-TT-T
1 TTTTGTGTTTCAAGAG-AACAATTTCAAAGGTTTCT
90900 TTTTGTGTTTCAAGAGAACAATTTCAAAGGTTTCT
1 TTTTGTGTTTCAAGAGAACAATTTCAAAGGTTTCT
90935 TTTTGTGTTTCAAGAGAA
1 TTTTGTGTTTCAAGAGAA
90953 ACTGTATCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
33 13 0.26
34 18 0.36
35 19 0.38
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (35 bp):
TTTTGTGTTTCAAGAGAACAATTTCAAAGGTTTCT
Found at i:91042 original size:35 final size:36
Alignment explanation
Indices: 90994--91106 Score: 167
Period size: 35 Copynumber: 3.1 Consensus size: 36
90984 CAAGGATTGA
*
90994 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
91031 TGTTTTAAGA-AAACATGTCTTAAGAGAGAC-AAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
91066 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
91102 TGTTT
1 TGTTT
91107 AATGTAAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
35 25 0.37
36 21 0.31
37 22 0.32
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:91156 original size:30 final size:30
Alignment explanation
Indices: 91120--91178 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
91110 GTAAAACATA
*
91120 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
91150 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
91179 CTCAAATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:91211 original size:36 final size:35
Alignment explanation
Indices: 91161--91343 Score: 102
Period size: 35 Copynumber: 5.4 Consensus size: 35
91151 TCAAAGTTTA
** *
91161 TGTTTCAATAGAAACTGTCTCAA-ATGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGA-GAGAC-AAATT
91197 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAATT
** * * * *
91232 CATTTCAAGGGAAA-TGTTTTC-A-A-TG----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAATT
* * * *
91260 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAA-TT
91298 TGTTTCAAGGGAAACTA--TCAAGAGAGAC-AATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAATT
*
91330 TATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
91344 TGCTTTCAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
28 2 0.02
29 14 0.12
30 2 0.02
32 17 0.15
33 3 0.03
34 2 0.02
35 30 0.27
36 25 0.22
37 15 0.13
38 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAATT
Found at i:91368 original size:98 final size:98
Alignment explanation
Indices: 91066--91408 Score: 459
Period size: 98 Copynumber: 3.5 Consensus size: 98
91056 GAGACAAATT
* **
91066 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-AATGTAAAACATATTC-A-A-AG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-GGGAAAC-TATTCAAGAGAG
* * *
91127 --ATTTTGTTTCAAGGGAAACTGTTTTCAAAGTTTA
64 ACAATTTATTTCAAGGGAAA-TGTTTTCAATGTTTA
* **
91161 TGTTTCAATAGAAACTGTCTCAAATGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTAT-TCAAGAGAGA
*
91226 CAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
65 C-AATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
91261 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTA-TCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATTCAAGAGAGA
*
91325 CAATTTATTTCAAGGGAAATGCTTTCAATGTTTA
65 CAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
91359 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGT-TTCAAGGGAAA
91409 TGTTTTCAAT
Statistics
Matches: 222, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
94 3 0.01
95 45 0.20
96 4 0.02
97 15 0.07
98 66 0.30
99 11 0.05
100 44 0.20
101 34 0.15
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (98 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATTCAAGAGAGAC
AATTTATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:91390 original size:162 final size:163
Alignment explanation
Indices: 91197--91557 Score: 575
Period size: 162 Copynumber: 2.2 Consensus size: 163
91187 AGACAAAATT
* *
91197 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATT-ATGTTCAAGGGAAATGTTTTCAATGTTTA
*
91261 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTA-TCAAGAGAGA
65 TGTTTCAAGAGAAACT-TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACTCAAGAGAGA
*
91325 C-AATTTATTTCAAGGGAAATGCTTTCAATGTTTA
129 CAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* *
91359 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAATTATGTTCAAGGGAAATGTTTTCAATGTTTA
91424 TGTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
65 TGTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTA-CTCAAGAGAGA
*
91489 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
129 C-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* *
91525 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
91558 CTTTCTGTTT
Statistics
Matches: 184, Mismatches: 9, Indels: 9
0.91 0.04 0.04
Matches are distributed among these distances:
162 65 0.35
163 46 0.25
164 11 0.06
165 3 0.02
166 59 0.32
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (163 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTATGTTCAAGGGAAATGTTTTCAATGTTTAT
GTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACTCAAGAGAGACA
AATTCATTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:91407 original size:65 final size:65
Alignment explanation
Indices: 91298--91473 Score: 263
Period size: 65 Copynumber: 2.8 Consensus size: 65
91288 GACAAAATTT
* * * *
91298 TGTTTCAAGGGAAAC-TATCAAGAGAGAC--AA-TTTATTTCAAGGGAAATGCTTTCAATGTTTA
1 TGTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATGCTTTCAATGTTTA
*
91359 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACT-TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATGCTTTCAATGTTT
91423 A
65 A
91424 TGTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
91474 CTATCTCAAG
Statistics
Matches: 104, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
61 14 0.13
63 11 0.11
64 22 0.21
65 54 0.52
66 3 0.03
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:91474 original size:36 final size:36
Alignment explanation
Indices: 91424--91509 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
91414 TCAATGTTTA
* *
91424 TGTTTCAAGAGAAACT-TCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
91460 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
91496 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
91510 TGTTTTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 29 0.64
37 16 0.36
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:91489 original size:101 final size:103
Alignment explanation
Indices: 91359--91603 Score: 361
Period size: 101 Copynumber: 2.4 Consensus size: 103
91349 TCAATGTTTA
* * *
91359 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
*
91424 TGTTTCAAGAGAAACT-TCTCAAGGGAGACAAAATTT-
66 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTC
*
91460 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
* *
91524 ATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAACTTTC
65 ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTC
* * * *
91563 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTTGTT
91604 TTAAGAAAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
101 74 0.58
102 20 0.16
103 34 0.27
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (103 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTC
Done.