Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 211 of 310
Found at i:69160432 original size:49 final size:48
Alignment explanation
Indices: 69160379--69160475 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
69160369 ATAAAGAGGG
* *
69160379 TTTAAAATAAATAATATATATAATAGTTTA-ACTACATAATGTATATAAA
1 TTTAAAATAAATAATATATA-AA-AGTTTAGAATAAATAATGTATATAAA
*
69160428 TTTAAAATAAATAATATGTAAAAGTTTAGAATAAATAATGTATATAAA
1 TTTAAAATAAATAATATATAAAAGTTTAGAATAAATAATGTATATAAA
69160476 AAATCATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 19 0.43
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (48 bp):
TTTAAAATAAATAATATATAAAAGTTTAGAATAAATAATGTATATAAA
Found at i:69160455 original size:24 final size:25
Alignment explanation
Indices: 69160378--69160475 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
69160368 AATAAAGAGG
69160378 GTTTAAAATAAATAATATATATAATA
1 GTTTAAAATAAATAATATATATAA-A
* * *
69160404 GTTT-AACTACATAATGTATATAAA
1 GTTTAAAATAAATAATATATATAAA
*
69160428 -TTTAAAATAAATAATATGTA-AAA
1 GTTTAAAATAAATAATATATATAAA
* *
69160451 GTTTAGAATAAATAATGTATATAAA
1 GTTTAAAATAAATAATATATATAAA
69160476 AAATCATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 6 0.10
24 30 0.51
25 19 0.32
26 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (25 bp):
GTTTAAAATAAATAATATATATAAA
Found at i:69162584 original size:134 final size:134
Alignment explanation
Indices: 69162396--69162785 Score: 629
Period size: 134 Copynumber: 2.9 Consensus size: 134
69162386 TTCAGTCTAT
* *
69162396 TCCACTGCAACTTCAGAGAGACAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
1 TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
* *
69162461 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAGCTTCAGGAAGGCGAGATTCGTCGTCTTTGAT
66 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTCTTTGAT
69162526 CTGC
131 CTGC
* * *
69162530 TCCACTGCAATTTAAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACACTACTGCTTAGGGGGT
1 TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
* * *
69162595 TAAGGCTTGGTGGTTTGAATCTGCTTCACTGCAACTTTAGGAAGGCAAGATTCGTTGTCTTTGAT
66 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTCTTTGAT
69162660 CTGC
131 CTGC
* **
69162664 TCCACTGCAACTTCAGGAAGGCAAGATCCATAA-TTTCAGCCTATTACCCTACTGCTTAGGGGGT
1 TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
* * *
69162728 TAAGGCTTGGTGGCTTAAATCTGCTTCACTGTAACTTCAAGAAGGCAAGATTCGTCGT
66 TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGT
69162786 TGTGATTTCA
Statistics
Matches: 234, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
133 82 0.35
134 152 0.65
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (134 bp):
TCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGT
TAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGTCGTCTTTGAT
CTGC
Found at i:69170871 original size:19 final size:20
Alignment explanation
Indices: 69170847--69170889 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
69170837 GGTCTTTTCG
* *
69170847 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
69170866 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
69170886 TGAA
1 TGAA
69170890 TGCAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:69175148 original size:49 final size:48
Alignment explanation
Indices: 69175095--69175191 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
69175085 ATAAAGAGGG
* *
69175095 TTTAAAATAAATAATATATATAATAGTTTA-ACTACATAATGTATATAAA
1 TTTAAAATAAATAATATATA-AA-AGTTTAGAATAAATAATGTATATAAA
*
69175144 TTTAAAATAAATAATATGTAAAAGTTTAGAATAAATAATGTATATAAA
1 TTTAAAATAAATAATATATAAAAGTTTAGAATAAATAATGTATATAAA
69175192 AAATCATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 19 0.43
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (48 bp):
TTTAAAATAAATAATATATAAAAGTTTAGAATAAATAATGTATATAAA
Found at i:69175171 original size:24 final size:25
Alignment explanation
Indices: 69175094--69175191 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
69175084 AATAAAGAGG
69175094 GTTTAAAATAAATAATATATATAATA
1 GTTTAAAATAAATAATATATATAA-A
* * *
69175120 GTTT-AACTACATAATGTATATAAA
1 GTTTAAAATAAATAATATATATAAA
*
69175144 -TTTAAAATAAATAATATGTA-AAA
1 GTTTAAAATAAATAATATATATAAA
* *
69175167 GTTTAGAATAAATAATGTATATAAA
1 GTTTAAAATAAATAATATATATAAA
69175192 AAATCATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 6 0.10
24 30 0.51
25 19 0.32
26 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (25 bp):
GTTTAAAATAAATAATATATATAAA
Found at i:69183063 original size:18 final size:18
Alignment explanation
Indices: 69183015--69183072 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
69183005 AATAGTATAA
69183015 ATAAAATATAAAAAAT-T
1 ATAAAATATAAAAAATAT
* *
69183032 -TATAATTTACAAAAATAT
1 ATAAAATATA-AAAAATAT
*
69183050 ATAAAATATTAAAAATAT
1 ATAAAATATAAAAAATAT
69183068 A-AAAA
1 ATAAAA
69183073 AAGAAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.21
17 10 0.30
18 10 0.30
19 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAATATAAAAAATAT
Found at i:69191761 original size:17 final size:17
Alignment explanation
Indices: 69191734--69191776 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
69191724 ATTGTGTTAA
69191734 AAATT-ATTTAATT-GT
1 AAATTAATTTAATTAGT
69191749 GAAATTAATTTAATTAAGT
1 -AAATTAATTTAATT-AGT
69191768 AAATTAATT
1 AAATTAATT
69191777 AAATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 9 0.38
19 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
AAATTAATTTAATTAGT
Found at i:69195223 original size:5 final size:5
Alignment explanation
Indices: 69195213--69195245 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
69195203 AGAGTTGCCC
69195213 ATAAT ATAAT ATAAT ATAAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT AT
69195246 TGCAACTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:69195236 original size:11 final size:11
Alignment explanation
Indices: 69195213--69195242 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69195203 AGAGTTGCCC
69195213 ATAATAT-AAT
1 ATAATATAAAT
69195223 ATAATATAAAT
1 ATAATATAAAT
69195234 ATAATATAA
1 ATAATATAA
69195243 TATTGCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:69195236 original size:16 final size:16
Alignment explanation
Indices: 69195215--69195245 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
69195205 AGTTGCCCAT
69195215 AATATAATATAATATA
1 AATATAATATAATATA
69195231 AATATAATATAATAT
1 AATATAATATAATAT
69195246 TGCAACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATAATATAATATA
Found at i:69197595 original size:19 final size:19
Alignment explanation
Indices: 69197564--69197604 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
69197554 ATTTTTATGG
*
69197564 TTTTTTTATTTTTAAA-TA
1 TTTTTTTAATTTTAAATTA
69197582 TTTTTATTAATTTTAAATTA
1 TTTTT-TTAATTTTAAATTA
69197602 TTT
1 TTT
69197605 GTTCATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTTAATTTTAAATTA
Found at i:69203716 original size:21 final size:24
Alignment explanation
Indices: 69203681--69203723 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
69203671 ATCCACTGCA
69203681 CTCCCAGTCTCCTT-CCCTCCCTT
1 CTCCCAGTCTCCTTCCCCTCCCTT
69203704 CTCCCA-T-TCCTTCCCCTCCC
1 CTCCCAGTCTCCTTCCCCTCCC
69203724 CTATTAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.05, C:0.60, G:0.02, T:0.33
Consensus pattern (24 bp):
CTCCCAGTCTCCTTCCCCTCCCTT
Found at i:69206143 original size:44 final size:44
Alignment explanation
Indices: 69206060--69206146 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
69206050 TTGAAGTCAA
* * *
69206060 ATACAAATTGTGATAATTATATATCTAAAAATATTTATAATTTT
1 ATACAAATTGTGATAATTACACATCTAAAAATATATATAATTTT
* * *
69206104 ATACAAGTTGTGATGATTACACATTTAAAAAT-TAATATAATTT
1 ATACAAATTGTGATAATTACACATCTAAAAATAT-ATATAATTT
69206147 ACAATTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.43
Consensus pattern (44 bp):
ATACAAATTGTGATAATTACACATCTAAAAATATATATAATTTT
Found at i:69207401 original size:38 final size:36
Alignment explanation
Indices: 69207347--69207424 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 36
69207337 ATTGTTCAAT
* *
69207347 ATATTATTAAATTAATATTAAAA-TAATAATTAGTTA
1 ATATTATTAAATTAATAATAAAAGTAAT-ATTAATTA
*
69207383 ATATTATTATATGATAATAATAAAAGTAATATTAATTA
1 ATATTATTAAAT--TAATAATAAAAGTAATATTAATTA
69207421 ATAT
1 ATAT
69207425 GATGGTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 11 0.31
38 21 0.58
39 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (36 bp):
ATATTATTAAATTAATAATAAAAGTAATATTAATTA
Found at i:69207404 original size:30 final size:30
Alignment explanation
Indices: 69207351--69207427 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
69207341 TTCAATATAT
* * *
69207351 TATTAAATTAATATTAAAATAATAATTAGTTAA
1 TATT-AATTAATATGATAATAATAA-AAG-TAA
69207384 TATT-ATT-ATATGATAATAATAAAAGTAA
1 TATTAATTAATATGATAATAATAAAAGTAA
69207412 TATTAATTAATATGAT
1 TATTAATTAATATGAT
69207428 GGTATATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 7 0.18
29 5 0.13
30 20 0.51
31 3 0.08
33 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (30 bp):
TATTAATTAATATGATAATAATAAAAGTAA
Found at i:69208087 original size:23 final size:24
Alignment explanation
Indices: 69208060--69208109 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
69208050 TTTAATTAGT
69208060 AAATATA-TATTTTAAAATTTTAA
1 AAATATATTATTTTAAAATTTTAA
69208083 AAATATATTATTTTAAAATTTTAA
1 AAATATATTATTTTAAAATTTTAA
69208107 AAA
1 AAA
69208110 ATAAACACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATATATTATTTTAAAATTTTAA
Found at i:69209281 original size:38 final size:38
Alignment explanation
Indices: 69209234--69209317 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
69209224 AACCGTTGAA
* * * *
69209234 ATTAAAAATAAGATTGTACAATAAATTTGTTAGCACTT
1 ATTAGAAATAAGATTGTAAAATAAATTCGTTACCACTT
*
69209272 ATTAGAAATAAGATTGTAAAATAAATTCGTTACCGCTT
1 ATTAGAAATAAGATTGTAAAATAAATTCGTTACCACTT
69209310 ATTAGAAA
1 ATTAGAAA
69209318 ATAAACCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (38 bp):
ATTAGAAATAAGATTGTAAAATAAATTCGTTACCACTT
Found at i:69212208 original size:27 final size:27
Alignment explanation
Indices: 69212170--69212223 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
69212160 AATCTAGGTG
69212170 AATTCTTTCTTGGGTATTGTTTCGCTT
1 AATTCTTTCTTGGGTATTGTTTCGCTT
69212197 AATTCTTTCTTGGGTATTGTTTCGCTT
1 AATTCTTTCTTGGGTATTGTTTCGCTT
69212224 CTTGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.56
Consensus pattern (27 bp):
AATTCTTTCTTGGGTATTGTTTCGCTT
Found at i:69220682 original size:26 final size:26
Alignment explanation
Indices: 69220628--69220687 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
69220618 GAATTTGAGC
* **
69220628 TCATAAATTAATTAAAATAAAATTTA
1 TCATAAATTAATAAAAATAAAATCAA
*
69220654 TCATAAATTGATAAAAATAAAATCAA
1 TCATAAATTAATAAAAATAAAATCAA
*
69220680 TCAAAAAT
1 TCATAAAT
69220688 GAAGTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
TCATAAATTAATAAAAATAAAATCAA
Found at i:69220701 original size:4 final size:4
Alignment explanation
Indices: 69220694--69220720 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
69220684 AAATGAAGTA
69220694 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
69220721 GAAGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:69220877 original size:19 final size:20
Alignment explanation
Indices: 69220836--69220877 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
69220826 AGATTGGGTT
*
69220836 ATTTTACATTTGAGTACTTA
1 ATTTTACATTTGAGTAATTA
*
69220856 ATTTTATATTTGA-TAATTA
1 ATTTTACATTTGAGTAATTA
69220875 ATT
1 ATT
69220878 GAGTTGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTTACATTTGAGTAATTA
Found at i:69232600 original size:17 final size:18
Alignment explanation
Indices: 69232561--69232600 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
69232551 AATGTTTGTC
*
69232561 AATAATAATTATGCATGT
1 AATAATAATTATGCATAT
*
69232579 TATAAT-ATTATGCATAT
1 AATAATAATTATGCATAT
69232596 AATAA
1 AATAA
69232601 ACTTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (18 bp):
AATAATAATTATGCATAT
Found at i:69240557 original size:24 final size:23
Alignment explanation
Indices: 69240529--69240575 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
69240519 GGAAAAGTGA
69240529 AAAGAAAATAAATTTGAAGTGTGC
1 AAAGAAAATAAATTTG-AGTGTGC
69240553 AAAGAAAATAAATTTGAGTGTGC
1 AAAGAAAATAAATTTGAGTGTGC
69240576 TTGGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAGAAAATAAATTTGAGTGTGC
Found at i:69243562 original size:18 final size:20
Alignment explanation
Indices: 69243533--69243582 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
69243523 ATATTTAGAT
69243533 AAATTA-TTAA-TTGATAA-
1 AAATTAGTTAATTTGATAAG
69243550 AAATTAGTTAATTTGATAAG
1 AAATTAGTTAATTTGATAAG
69243570 ATTAATTAGTTAA
1 A--AATTAGTTAA
69243583 GGACTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 7 0.25
20 1 0.04
22 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
AAATTAGTTAATTTGATAAG
Found at i:69244170 original size:42 final size:42
Alignment explanation
Indices: 69244032--69244170 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
69244022 TCATGTTTAC
* * * * * *
69244032 TTTCCGTTCAGCTATTACGAGCTTTTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTTCGTTTAACCCTTATGGG
* * *
69244074 TGTCTGTTCAGCTCTT-TGAGC-TTCTGTTTAACCTTTATGGG
1 TTTCTGTTCAGCTCTTACGAGCTTTC-GTTTAACCCTTATGGG
*
69244115 TTTCCGTTCAGCTCTTACGAGCTTTCGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTACGAGCTTTCGTTTAACCCTTATGGG
* *
69244157 TTTCTATTTAGCTC
1 TTTCTGTTCAGCTC
69244171 GCATGAGCTT
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
40 2 0.03
41 30 0.38
42 43 0.55
43 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTTCGTTTAACCCTTATGGG
Found at i:69244179 original size:42 final size:43
Alignment explanation
Indices: 69244090--69244180 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 43
69244080 TTCAGCTCTT
* * **
69244090 TGAGC-TTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCTTA
1 TGAGCTTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCGCA
* * *
69244132 CGAGCTTTC-GTTTAACCCTTATGGGTTTCTATTTAGCTCGCA
1 TGAGCTTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCGCA
69244174 TGAGCTT
1 TGAGCTT
69244181 CTATTCAGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (43 bp):
TGAGCTTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCGCA
Found at i:69249531 original size:14 final size:14
Alignment explanation
Indices: 69249514--69249558 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
69249504 TTTTGGTCGT
*
69249514 ACTTTTTGGCTTGC
1 ACTTTTTGGCTTAC
* *
69249528 ACTTTTTTGCTTAT
1 ACTTTTTGGCTTAC
69249542 AC-TTTTGGCTTAC
1 ACTTTTTGGCTTAC
69249555 ACTT
1 ACTT
69249559 GTTAGCTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (14 bp):
ACTTTTTGGCTTAC
Found at i:69252128 original size:35 final size:35
Alignment explanation
Indices: 69252079--69252148 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
69252069 ATTGTTAGAC
*
69252079 GTGCTATTGTTGCAAATAATTTTGAACTTAAACCT
1 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
69252114 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
1 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
69252149 AACACTATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (35 bp):
GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
Found at i:69254022 original size:30 final size:29
Alignment explanation
Indices: 69253948--69254075 Score: 186
Period size: 29 Copynumber: 4.4 Consensus size: 29
69253938 TATCTGTACC
*
69253948 ATGTGAAAAGGGATAG-TTGCGGCTATAGA
1 ATGTGAAAAGGGATAGCTT-CGGCTATCGA
*
69253977 ATGTGAAAAGGGATAGCTTCGTCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
69254006 ATTTAAAAAGGGGATAGCTTCGGCTATCGA
1 ATGTGAAAA-GGGATAGCTTCGGCTATCGA
*
69254036 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
69254065 ATGTGAAAAGG
1 ATGTGAAAAGG
69254076 TTAGGTATCC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 61 0.69
30 28 0.31
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:69254030 original size:59 final size:59
Alignment explanation
Indices: 69253948--69254075 Score: 179
Period size: 59 Copynumber: 2.2 Consensus size: 59
69253938 TATCTGTACC
* *
69253948 ATGTGAAAA-GGGATAGTTGCGGCTATAGAATGTGAAAAGGGATAGCTTCGTCTATCGA
1 ATGTAAAAAGGGGATAGTTGCGGCTATAGAATGTGAAAAGGGATAGCTTCGGCTATCGA
* * *
69254006 ATTTAAAAAGGGGATAGCTT-CGGCTATCGAATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTAAAAAGGGGATAG-TTGCGGCTATAGAATGTGAAAAGGGATAGCTTCGGCTATCGA
*
69254065 ATGTGAAAAGG
1 ATGTAAAAAGG
69254076 TTAGGTATCC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 7 0.11
59 52 0.85
60 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (59 bp):
ATGTAAAAAGGGGATAGTTGCGGCTATAGAATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:69254142 original size:32 final size:32
Alignment explanation
Indices: 69254068--69254172 Score: 149
Period size: 32 Copynumber: 3.2 Consensus size: 32
69254058 CTATCGAATG
* * * *
69254068 TGAAAAGGTTAGGTATC-CTTTATGTATACCACA
1 TGAAAAGGTTATGTA-CACTTTGTGTGTA-CACT
69254101 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
69254133 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
69254165 TGAAAAGG
1 TGAAAAGG
69254173 AAAGGTATAC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
32 44 0.66
33 23 0.34
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:69254185 original size:32 final size:33
Alignment explanation
Indices: 69254068--69254261 Score: 180
Period size: 33 Copynumber: 5.9 Consensus size: 33
69254058 CTATCGAATG
** * * * *
69254068 TGAAAAGGTTAGGTATCCTTTATGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATA
** * *
69254101 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCA-TA
** * *
69254133 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCA-TA
*
69254165 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATA
* *
69254198 TGAAAAGGAAAGGTATACTTTGTGTATACCTTA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATA
*
69254231 TGAAAAGGAAAGATATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCA
69254262 CTCAGAAAGA
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
32 58 0.41
33 85 0.59
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTGTACCATA
Found at i:69257855 original size:20 final size:20
Alignment explanation
Indices: 69257830--69257870 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69257820 CTTACCGAAG
69257830 AATAACTTTTGAATTATGTA
1 AATAACTTTTGAATTATGTA
69257850 AATAACTTTTGAATTATGTA
1 AATAACTTTTGAATTATGTA
69257870 A
1 A
69257871 TGCTCCTGCT
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:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
AATAACTTTTGAATTATGTA
Found at i:69263078 original size:6 final size:6
Alignment explanation
Indices: 69263050--69263119 Score: 70
Period size: 6 Copynumber: 11.5 Consensus size: 6
69263040 ATTGAATCCA
* * *
69263050 TTTATT TTTATAT TTT-CT CTTATT TTTATT TTTAGTT CTTATT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT
* *
69263099 TTTCTA TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTT
69263120 CTAGACTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
5 3 0.06
6 39 0.76
7 9 0.18
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:69263089 original size:19 final size:19
Alignment explanation
Indices: 69263051--69263122 Score: 89
Period size: 18 Copynumber: 3.9 Consensus size: 19
69263041 TTGAATCCAT
69263051 TTATTTTTATATTTTC--TC
1 TTATTTTTAT-TTTTCTATC
*
69263069 TTATTTTTATTTTTAGT-TC
1 TTATTTTTATTTTT-CTATC
69263088 TTATTTTTATTTTTCTAT-
1 TTATTTTTATTTTTCTATC
69263106 TTATTTTTATTTTTCTA
1 TTATTTTTATTTTTCTA
69263123 GACTTTTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.08
18 28 0.57
19 17 0.35
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (19 bp):
TTATTTTTATTTTTCTATC
Found at i:69263130 original size:18 final size:18
Alignment explanation
Indices: 69263089--69263140 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
69263079 TTTTAGTTCT
**
69263089 TATTTTTATTTTTCTATT
1 TATTTTTATTTTTCTAAC
69263107 TATTTTTATTTTTCTAGAC
1 TATTTTTATTTTTCTA-AC
* *
69263126 T-TTTTCACTTTTCTA
1 TATTTTTATTTTTCTA
69263141 TTTTGAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (18 bp):
TATTTTTATTTTTCTAAC
Found at i:69266738 original size:27 final size:26
Alignment explanation
Indices: 69266694--69266769 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
69266684 TTGTTAGCTC
69266694 ACACTTTTAGCTTGTACTTTTGGCTT
1 ACACTTTTAGCTTGTACTTTTGGCTT
* *
69266720 ACACTTTTTGACTTTTACTTTTGGCTT
1 ACACTTTTAG-CTTGTACTTTTGGCTT
*
69266747 ACACTTGTTGGCTTGCT-CTTTTG
1 ACACTT-TTAGCTTG-TACTTTTG
69266770 CACAGAGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 9 0.21
27 30 0.70
28 4 0.09
ACGTcount: A:0.13, C:0.20, G:0.16, T:0.51
Consensus pattern (26 bp):
ACACTTTTAGCTTGTACTTTTGGCTT
Found at i:69266757 original size:14 final size:13
Alignment explanation
Indices: 69266694--69266760 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
69266684 TTGTTAGCTC
*
69266694 ACACTTTTAGCTT
1 ACACTTTTGGCTT
**
69266707 GTACTTTTGGCTT
1 ACACTTTTGGCTT
*
69266720 ACACTTTTTGACTT
1 ACAC-TTTTGGCTT
**
69266734 TTACTTTTGGCTT
1 ACACTTTTGGCTT
69266747 ACACTTGTTGGCTT
1 ACACTT-TTGGCTT
69266761 GCTCTTTTGC
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
13 24 0.59
14 17 0.41
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (13 bp):
ACACTTTTGGCTT
Found at i:69267923 original size:15 final size:15
Alignment explanation
Indices: 69267905--69267956 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
69267895 TTTTAATATT
*
69267905 ATATCTTTTAAATAA
1 ATATATTTTAAATAA
* *
69267920 ATATAATTATTCAATTA
1 ATAT-ATT-TTAAATAA
*
69267937 ATATATCTTAAATAA
1 ATATATTTTAAATAA
69267952 ATATA
1 ATATA
69267957 ATTATTAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 15 0.52
16 4 0.14
17 10 0.34
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATTTTAAATAA
Found at i:69267939 original size:17 final size:17
Alignment explanation
Indices: 69267912--69267965 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
69267902 ATTATATCTT
69267912 TTAAATAAATATAATTA
1 TTAAATAAATATAATTA
* * *
69267929 TTCAATTAATAT-A-TC
1 TTAAATAAATATAATTA
69267944 TTAAATAAATATAATTA
1 TTAAATAAATATAATTA
69267961 TTAAA
1 TTAAA
69267966 GTCTATTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 11 0.38
16 2 0.07
17 16 0.55
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATAAATATAATTA
Found at i:69276649 original size:19 final size:20
Alignment explanation
Indices: 69276625--69276666 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
69276615 AAAGAAGTAA
*
69276625 AAAAAGAG-AGGAGGGGAAG
1 AAAAAGAGAAGGAGGAGAAG
*
69276644 AAAAAGGGAAGGAGGAGAAG
1 AAAAAGAGAAGGAGGAGAAG
69276664 AAA
1 AAA
69276667 GAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAAGGAGGAGAAG
Found at i:69281084 original size:4 final size:4
Alignment explanation
Indices: 69281075--69281099 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
69281065 AGCAAACGTG
69281075 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
69281100 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:69288577 original size:63 final size:64
Alignment explanation
Indices: 69288473--69288601 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 64
69288463 GCGAGCATCT
* * * * * *
69288473 TGATCGGTATCGATCTTGCATGTATTGCGGATATACTGCAGCTCTTTGTGAGCGTCCTGTTATA
1 TGATCGGTATCGATCTTGCATGTATTGCAGACATACCGCAGCTCTTTATGAGCGTCCCGATATA
* * *
69288537 TGAT-GGTATTGATCTTGTATGTATTGCAGACATACCGCAGCTCTTTATGAGTGTCCCGATATA
1 TGATCGGTATCGATCTTGCATGTATTGCAGACATACCGCAGCTCTTTATGAGCGTCCCGATATA
69288600 TG
1 TG
69288602 GCTCTTAATG
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
63 52 0.93
64 4 0.07
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (64 bp):
TGATCGGTATCGATCTTGCATGTATTGCAGACATACCGCAGCTCTTTATGAGCGTCCCGATATA
Found at i:69289105 original size:22 final size:23
Alignment explanation
Indices: 69289080--69289125 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
69289070 CAACCAAATC
69289080 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
69289102 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
69289125 A
1 A
69289126 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:69289131 original size:23 final size:23
Alignment explanation
Indices: 69289087--69289131 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
69289077 ATCAATTCAA
*
69289087 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
69289110 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
69289132 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:69292624 original size:51 final size:49
Alignment explanation
Indices: 69292546--69292659 Score: 183
Period size: 51 Copynumber: 2.3 Consensus size: 49
69292536 CTTTTAACAA
* *
69292546 AATTATTTAATCAAAACCTATTGATGAATGGTCAAAATTGATTAGCACTT
1 AATTATTTAATCAAAACCTATTGATGAATGATCAAAATTGA-TAACACTT
*
69292596 AAGTTATTTAATCAAAACCTATTGATGAATGATCATAATTGATAACACTT
1 AA-TTATTTAATCAAAACCTATTGATGAATGATCAAAATTGATAACACTT
69292646 AATTATTTAATCAA
1 AATTATTTAATCAA
69292660 TTTAACAAGT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
49 12 0.20
50 11 0.18
51 37 0.62
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (49 bp):
AATTATTTAATCAAAACCTATTGATGAATGATCAAAATTGATAACACTT
Found at i:69298817 original size:25 final size:24
Alignment explanation
Indices: 69298789--69298866 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 24
69298779 ATGCTCTTTC
*
69298789 GAGCTATAATCGGTAAGCTCCTCCT
1 GAGCTATAA-CGGTAAGCTCCTACT
* *
69298814 GAGCTGATGAACAGTAAGCT-CTATT
1 GAGCT-AT-AACGGTAAGCTCCTACT
* *
69298839 GAGCTAAAACGGTAAGCTCC-AAT
1 GAGCTATAACGGTAAGCTCCTACT
69298862 GAGCT
1 GAGCT
69298867 GAAAACAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 17 0.39
24 2 0.05
25 13 0.30
26 10 0.23
27 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (24 bp):
GAGCTATAACGGTAAGCTCCTACT
Found at i:69298857 original size:23 final size:24
Alignment explanation
Indices: 69298813--69298877 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
69298803 AAGCTCCTCC
* * *
69298813 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCCAA
*
69298838 TGAGCT-AAAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCCAA
69298861 TGAGCTGAAAACAGTAA
1 TGAGCTGAAAACAGTAA
69298878 AATCTTACGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 18 0.53
24 10 0.29
25 6 0.18
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCCAA
Found at i:69313114 original size:5 final size:5
Alignment explanation
Indices: 69313106--69313134 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
69313096 CCATCTATCC
69313106 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
69313135 GCAAGTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:69317701 original size:22 final size:23
Alignment explanation
Indices: 69317663--69317708 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
69317653 AAAAATTTAA
69317663 ATTTTCAAAAAATTATAAAAAAT
1 ATTTTCAAAAAATTATAAAAAAT
*
69317686 ATTTTTAAAAAA-TATAAAAAAT
1 ATTTTCAAAAAATTATAAAAAAT
69317708 A
1 A
69317709 AATAAATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTTCAAAAAATTATAAAAAAT
Found at i:69326175 original size:24 final size:24
Alignment explanation
Indices: 69326138--69326195 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
69326128 AAAAAGGAAG
*
69326138 AAAGA-AGAGAAAACCCCGTGTCA
1 AAAGATAGACAAAACCCCGTGTCA
**
69326161 AAAGATAGACAAAACTTCGTGTCA
1 AAAGATAGACAAAACCCCGTGTCA
*
69326185 ATAGATAGACA
1 AAAGATAGACA
69326196 TTTCTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (24 bp):
AAAGATAGACAAAACCCCGTGTCA
Found at i:69329262 original size:16 final size:16
Alignment explanation
Indices: 69329241--69329271 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69329231 CATATTAGAG
69329241 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
69329257 CATATATATTTGAAA
1 CATATAAATTTGAAA
69329272 ACTTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:69329459 original size:17 final size:18
Alignment explanation
Indices: 69329439--69329473 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
69329429 TTTTTAAAAA
69329439 TATAAAT-TTTGGAATTT
1 TATAAATATTTGGAATTT
*
69329456 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
69329474 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
TATAAATATTTGGAATTT
Found at i:69330742 original size:14 final size:14
Alignment explanation
Indices: 69330723--69330770 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
69330713 TAAGGATTAC
69330723 AAATTTGAAATTGA
1 AAATTTGAAATTGA
69330737 AAATTTGAAGATTGA
1 AAATTTGAA-ATTGA
* *
69330752 AAATATAAAATTGA
1 AAATTTGAAATTGA
69330766 AAATT
1 AAATT
69330771 GGGGATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.33
Consensus pattern (14 bp):
AAATTTGAAATTGA
Found at i:69330751 original size:7 final size:7
Alignment explanation
Indices: 69330727--69330800 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
69330717 GATTACAAAT
69330727 TTGAA-A
1 TTGAAGA
*
69330733 TTGAAAA
1 TTGAAGA
69330740 TTTGAAGA
1 -TTGAAGA
*
69330748 TTGAAAA
1 TTGAAGA
*
69330755 TAT-AAAA
1 T-TGAAGA
*
69330762 TTGAAAA
1 TTGAAGA
**
69330769 TTGGGGA
1 TTGAAGA
69330776 TTGAAGA
1 TTGAAGA
69330783 TTGAAGA
1 TTGAAGA
*
69330790 TTGAGGA
1 TTGAAGA
69330797 TTGA
1 TTGA
69330801 GAATTTAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
6 6 0.11
7 43 0.77
8 7 0.12
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (7 bp):
TTGAAGA
Found at i:69330785 original size:21 final size:21
Alignment explanation
Indices: 69330761--69330800 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69330751 AAAATATAAA
*
69330761 ATTGAAAATTGGGGATTGAAG
1 ATTGAAAATTGAGGATTGAAG
*
69330782 ATTGAAGATTGAGGATTGA
1 ATTGAAAATTGAGGATTGA
69330801 GAATTTAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (21 bp):
ATTGAAAATTGAGGATTGAAG
Found at i:69330791 original size:14 final size:14
Alignment explanation
Indices: 69330727--69330793 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
69330717 GATTACAAAT
69330727 TTGAA-ATTGAAAA
1 TTGAAGATTGAAAA
69330740 TTTGAAGATTGAAAA
1 -TTGAAGATTGAAAA
*
69330755 TAT-AAAATTGAAAA
1 T-TGAAGATTGAAAA
** *
69330769 TTGGGGATTGAAGA
1 TTGAAGATTGAAAA
69330783 TTGAAGATTGA
1 TTGAAGATTGA
69330794 GGATTGAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
13 1 0.02
14 33 0.77
15 9 0.21
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.31
Consensus pattern (14 bp):
TTGAAGATTGAAAA
Found at i:69336538 original size:69 final size:69
Alignment explanation
Indices: 69336427--69336562 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 69
69336417 CACGGCATCT
** *
69336427 CCGTGTTGCAACACCGCATCCAGAATCAAAGAAATTGAGAAAACTATCTCGATTTTGTGACAGAG
1 CCGTGTTGCAACACCGCATCCAGAATCAAAGAAATAAAGAAAACTATCTCGATTTTATGACAGAG
69336492 CATG
66 CATG
* * *
69336496 CCGTGTTGCGACACCGCATCTAGAA-CTGAAGAAATAAAGAAAACTATCTCGATTTTATGACAGA
1 CCGTGTTGCAACACCGCATCCAGAATC-AAAGAAATAAAGAAAACTATCTCGATTTTATGACAGA
69336560 GCA
65 GCA
69336563 CCTCTATGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 1 0.02
69 59 0.98
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (69 bp):
CCGTGTTGCAACACCGCATCCAGAATCAAAGAAATAAAGAAAACTATCTCGATTTTATGACAGAG
CATG
Found at i:69340912 original size:21 final size:21
Alignment explanation
Indices: 69340886--69340927 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
69340876 GAATTATGTG
69340886 AATATTTGAATGTATATTGAT
1 AATATTTGAATGTATATTGAT
69340907 AATATTTGAATGTATATTGAT
1 AATATTTGAATGTATATTGAT
69340928 TGAAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
AATATTTGAATGTATATTGAT
Found at i:69346091 original size:46 final size:46
Alignment explanation
Indices: 69346039--69346305 Score: 356
Period size: 46 Copynumber: 5.8 Consensus size: 46
69346029 AGTGTGCTCT
* *
69346039 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
69346085 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
69346131 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
69346177 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
69346223 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
69346270 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
69346306 TATGACATCA
Statistics
Matches: 202, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 160 0.79
47 42 0.21
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:69351542 original size:11 final size:11
Alignment explanation
Indices: 69351494--69351593 Score: 74
Period size: 11 Copynumber: 9.6 Consensus size: 11
69351484 TTTATTTTTT
69351494 TATTTTTAAAA
1 TATTTTTAAAA
*
69351505 CACTTTTTAAAA
1 TA-TTTTTAAAA
69351517 -A-TTTT-AAA
1 TATTTTTAAAA
69351525 -A-TTTTAAAA
1 TATTTTTAAAA
69351534 TATTTTTAAAA
1 TATTTTTAAAA
69351545 TACTTTTT-AAA
1 TA-TTTTTAAAA
**
69351556 T-TTTTTTTAA
1 TATTTTTAAAA
*
69351566 -A-TTTTAAAC
1 TATTTTTAAAA
69351575 TATTTTTAAAA
1 TATTTTTAAAA
69351586 TACTTTTT
1 TA-TTTTT
69351594 TTTTAATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
8 8 0.11
9 17 0.23
10 4 0.05
11 25 0.34
12 19 0.26
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:69351572 original size:18 final size:18
Alignment explanation
Indices: 69351517--69351584 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
69351507 CTTTTTAAAA
* *
69351517 ATTTTAAAATTTTAAAAT
1 ATTTTTAAATTTTAAACT
*
69351535 ATTTTTAAAATACTTTTTAAATT
1 ATTTTT--AA-A--TTTTAAACT
*
69351558 TTTTTTAAATTTTAAACT
1 ATTTTTAAATTTTAAACT
69351576 ATTTTTAAA
1 ATTTTTAAA
69351585 ATACTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 21 0.52
20 3 0.08
21 3 0.08
23 13 0.32
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTAAATTTTAAACT
Found at i:69351580 original size:41 final size:40
Alignment explanation
Indices: 69351494--69351593 Score: 146
Period size: 41 Copynumber: 2.5 Consensus size: 40
69351484 TTTATTTTTT
*
69351494 TATTTTTAAAACACTTTTTAAAAATTTTAAAATTTTAAAA
1 TATTTTTAAAATACTTTTTAAAAATTTTAAAATTTTAAAA
** * *
69351534 TATTTTTAAAATACTTTTTAAATTTTTTTTAAATTTTAAAC
1 TATTTTTAAAATACTTTTTAAA-AATTTTAAAATTTTAAAA
69351575 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATACTTTTT
69351594 TTTTAATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 21 0.39
41 33 0.61
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (40 bp):
TATTTTTAAAATACTTTTTAAAAATTTTAAAATTTTAAAA
Found at i:69351604 original size:41 final size:41
Alignment explanation
Indices: 69351494--69351619 Score: 123
Period size: 41 Copynumber: 3.0 Consensus size: 41
69351484 TTTATTTTTT
* *** *
69351494 TATTTTTAAAACAC-TTTTTAAAAATTTTAAAATTTTAAAA
1 TATTTTTAAAATACTTTTTTTTTAATTTTTAAATTTTAAAA
* *
69351534 TATTTTTAAAATACTTTTTAAATTT--TTTTTAAATTTTAAAC
1 TATTTTTAAAATACTTTTT--TTTTAATTTTTAAATTTTAAAA
*
69351575 TATTTTTAAAATACTTTTTTTTTAATTTTTTTAATTTTTAAAA
1 TATTTTTAAAATACTTTTTTTTTAA--TTTTTAAATTTTAAAA
69351618 TA
1 TA
69351620 AATTTTTGGT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
39 3 0.04
40 13 0.19
41 37 0.54
43 16 0.23
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (41 bp):
TATTTTTAAAATACTTTTTTTTTAATTTTTAAATTTTAAAA
Found at i:69351626 original size:32 final size:33
Alignment explanation
Indices: 69351552--69351626 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
69351542 AAATACTTTT
69351552 TAAATTTTTTTTAAATTTTAAACTATTTTTAAAA
1 TAAATTTTTTTTAAATTTTAAAC-ATTTTTAAAA
** * **
69351586 TACTTTTTTTTTAATTTTTTTA-ATTTTTAAAA
1 TAAATTTTTTTTAAATTTTAAACATTTTTAAAA
69351618 TAAATTTTT
1 TAAATTTTT
69351627 GGTATTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
32 17 0.50
34 17 0.50
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (33 bp):
TAAATTTTTTTTAAATTTTAAACATTTTTAAAA
Found at i:69351639 original size:31 final size:32
Alignment explanation
Indices: 69351576--69351639 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
69351566 ATTTTAAACT
** ** *
69351576 ATTTTTAAAATACTTTTTTTTTAATTTTTTTA
1 ATTTTTAAAATAAATTTTTGGTAATTTATTTA
69351608 ATTTTTAAAATAAATTTTTGGT-ATTTATTTA
1 ATTTTTAAAATAAATTTTTGGTAATTTATTTA
69351639 A
1 A
69351640 AAAACAGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (32 bp):
ATTTTTAAAATAAATTTTTGGTAATTTATTTA
Found at i:69358724 original size:22 final size:22
Alignment explanation
Indices: 69358682--69358725 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
69358672 ATTCATTATT
* * *
69358682 TTTTTAAAAAAATTTATAAAAA
1 TTTTTAAAAAAAATAAAAAAAA
69358704 TTTTTAAAAAAAATAAAAAAAA
1 TTTTTAAAAAAAATAAAAAAAA
69358726 AAGATTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTTTAAAAAAAATAAAAAAAA
Found at i:69358725 original size:23 final size:23
Alignment explanation
Indices: 69358681--69358726 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
69358671 AATTCATTAT
* ** *
69358681 TTTTTTAAAAAAATTTATAAAAA
1 TTTTTAAAAAAAATAAAAAAAAA
69358704 TTTTTAAAAAAAATAAAAAAAAA
1 TTTTTAAAAAAAATAAAAAAAAA
69358727 AGATTAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TTTTTAAAAAAAATAAAAAAAAA
Found at i:69360912 original size:132 final size:135
Alignment explanation
Indices: 69360517--69360952 Score: 399
Period size: 132 Copynumber: 3.2 Consensus size: 135
69360507 TTTAAGCCTA
* * * * *
69360517 TACCTTAGATGGGGATCTGATAGGGAAG-AGTAGTCATAGGCTACACAATGTAAATTCCTATACT
1 TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATA----ACACCATATAAATTCCTATACT
*
69360581 TTTCAATGAA--TGTGAATGCACTCTGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
62 TTTCAA-GAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
69360644 CTTATGCCCT
126 CTTATGCCCT
* * * *
69360654 TACCTTTGATGGGGATTTGATAGGGAAG-AGTAGTCATAAGCTACCCGATGTCAATTTCTA-ACC
1 TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATAA-C-A-CC-ATATAAATTCCTATA-C
* * * * * * * * * * * *
69360717 TTTTAAATAATTTGTGACTGCACAATGGCAGATTCTCGGTAGTGGGATTTAATAG-TTCGATTGT
61 TTTTCAAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACT-GCTTCCATTGT
*
69360781 GCTT-TACACCTT
125 GCTTATGC-CC-T
* * * * * *
69360793 TGCCATAGATGGAGATTTGATAGGGAAGAACT-GTGATAA-A-C-TATAAATTCCTATGCTTTTC
1 TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATAACACCATATAAATTCCTATACTTTTC
* *
69360854 AAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAATTAGGAGTTGCTGCTTCCATTGTGCTTAT
66 AAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGCTTAT
69360919 GCCCT
131 GCCCT
69360924 TACCTTTGATGGGGATTTGATAGGGAAGA
1 TACCTTTGATGGGGATTTGATAGGGAAGA
69360953 GTTGTCATAG
Statistics
Matches: 237, Mismatches: 48, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
131 27 0.11
132 64 0.27
133 3 0.01
134 2 0.01
135 1 0.00
136 5 0.02
137 56 0.24
138 45 0.19
139 32 0.14
140 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (135 bp):
TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATAACACCATATAAATTCCTATACTTTTC
AAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGCTTAT
GCCCT
Found at i:69360998 original size:270 final size:263
Alignment explanation
Indices: 69360567--69361288 Score: 882
Period size: 270 Copynumber: 2.7 Consensus size: 263
69360557 CTACACAATG
* *
69360567 TAAATTCCTATACTTTTCAATGAA--TGTGAATGCACTCTGGCAGGTTTTCTGAAGTAGGAGTTA
1 TAAATTCCTATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTA
* *
69360630 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTAGTCATAAGC
66 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGC
* * * * ** **
69360695 TACCCGATGTCAATTTCTAACCTTTTAAATAATTTGTGACTGCACAATGGCAGATTCTCGGTAGT
131 TACCCAATGTGAATTTCTAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCTCGAAAGT
* *
69360760 GGGATTTAATAGTTCGATTGTGC-TTTACACCTTTGCCA-TAGATGGAGATTTGATAGGGAAGAA
196 AGGA--T--T--TTC---TGTGCTTTTACACATTT-CCATTAGATGGAGATTTGATAGGGAAGAA
* *
69360823 CTGTGATAAACTA
251 CCGTAATAAACTA
* *
69360836 TAAATTCCTATGCTTTTCAA-GAATTTGTGAATGCACTATGGCAGGTTTTCTGAATTAGGAGTTG
1 TAAATTCCTATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTA
*
69360900 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGT
66 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGC
* *
69360965 TACCCAATGTGAA-TTCATAAGCTTTTCAATAATTTGTGAAAGCACAATGTCAGACTCTCGAAAG
131 TACCCAATGTGAATTTC-TAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCTCGAAAG
* * *
69361029 TAGGATTTTCTGTGCTTTTACACATTTTCATTAGGTGGAGATTTGATAGGGAAGAACCGTAATAG
195 TAGGATTTTCTGTGCTTTTACACATTTCCATTAGATGGAGATTTGATAGGGAAGAACCGTAATAA
69361094 ACTA
260 ACTA
* * * * *
69361098 TAAATTCCTAATATGGTTTTCAATG-ATTTGTGAATGCACTGTGACAGATTTTCTGAAGTAGGAT
1 TAAATTCC---TATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAG
* * * * * *
69361162 TTATTGGTTCCGTTGTGCTTTATGCTCTTACCTTTGATGGGAATTTGATAGGGAAGAGTTGTAAT
63 TTACTGCTTCCATTGTGC-TTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCAT
* * ** * * *
69361227 TGGCTACCCAAAGTGAATTTCTAAGCTTCACAATAATTTGTGAAGGCACAACGGCTGATTCT
127 AGGCTACCCAATGTGAATTTCTAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCT
69361289 TAGAAGTGGG
Statistics
Matches: 395, Mismatches: 47, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
261 7 0.02
262 52 0.13
264 3 0.01
265 59 0.15
266 93 0.24
267 3 0.01
268 4 0.01
269 22 0.06
270 152 0.38
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (263 bp):
TAAATTCCTATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTA
CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGC
TACCCAATGTGAATTTCTAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCTCGAAAGT
AGGATTTTCTGTGCTTTTACACATTTCCATTAGATGGAGATTTGATAGGGAAGAACCGTAATAAA
CTA
Found at i:69361001 original size:138 final size:138
Alignment explanation
Indices: 69360517--69361275 Score: 509
Period size: 138 Copynumber: 5.6 Consensus size: 138
69360507 TTTAAGCCTA
* *
69360517 TACCTTAGATGGGGATCTGATAGGGAAGAGTAGTCATAGGCTACACAATGTAAATTCCTATA-CT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTA-AGCT
*
69360581 TTTCAATGAA--TGTGAATGCACTCTGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
65 TTTCAAT-AATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
69360644 CTTATGCCCT
129 CTTATGCCCT
* * * * * *
69360654 TACCTTTGATGGGGATTTGATAGGGAAGAGTAGTCATAAGCTACCCGATGTCAATTTCTAACCTT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
* * * * * * * * * * *
69360719 TTAAATAATTTGTGACTGCACAATGGCAGATTCTCGGTAGTGGGATTTAATAG-TTCGATTGTGC
66 TTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACT-GCTTCCATTGTGC
*
69360783 TT-TACACCTT
130 TTATGC-CC-T
* * * * * *
69360793 TGCCATAGATGGAGATTTGATAGGGAAGA--A--C-T-GTGATA---AACTATAAATTCCTATGC
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAG-GCTACCCAA-TGTAAATTCCTAAGC
* * *
69360849 TTTTCAAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAATTAGGAGTTGCTGCTTCCATTGTG
64 TTTTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
69360914 CTTATGCCCT
129 CTTATGCCCT
* * * * *
69360924 TACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGTTACCCAATGTGAATTCATAAGCTT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
* * * ** *
69360989 TTCAATAATTTGTGAAAGCACAATGTCAGACTCTC-GAAAGTAGGA--T--T--TT-C--TGTGC
66 TTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTG-AAGTAGGAGTTACTGCTTCCATTGTGC
* * *
69361044 TTTTACACATT
130 TTATGC-C-CT
* * * * *** * *
69361055 TTCATTAGGTGGAGATTTGATAGGGAAGAACCGTAATA-G--A--C--TATAAATTCCTAATATG
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCT-A-A-G
* * * * * * * * *
69361113 GTTTTCAATGATTTGTGAATGCACTGTGACAGATTTTCTGAAGTAGGATTTATTGGTTCCGTTGT
63 CTTTTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGT
*
69361178 GCTTTATGCTCT
128 GC-TTATGCCCT
* * * * * * * *
69361190 TACCTTTGATGGGAATTTGATAGGGAAGAGTTGTAATTGGCTACCCAAAGTGAATTTCTAAGCTT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
** *
69361255 CACAATAATTTGTGAAGGCAC
66 TTCAATAATTTGTGAATGCAC
69361276 AACGGCTGAT
Statistics
Matches: 468, Mismatches: 111, Indels: 84
0.71 0.17 0.13
Matches are distributed among these distances:
124 8 0.02
125 1 0.00
126 2 0.00
127 39 0.08
128 2 0.00
129 10 0.02
130 2 0.00
131 60 0.13
132 66 0.14
133 4 0.01
134 6 0.01
135 31 0.07
136 14 0.03
137 70 0.15
138 94 0.20
139 49 0.10
140 2 0.00
141 1 0.00
142 7 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (138 bp):
TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
TTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGCT
TATGCCCT
Found at i:69363679 original size:37 final size:37
Alignment explanation
Indices: 69363577--69363661 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
69363567 TGATATTTAG
* * ** *
69363577 CTAAGTTACTTAAGAGGCTAATAGTATTTCTACTCGA
1 CTAAGTGACTTAAGAAGCTACCAGTGTTTCTACTCGA
*
69363614 CTAAGTGACTTAATAAGCTACCAGTGTTTCTACTCGA
1 CTAAGTGACTTAAGAAGCTACCAGTGTTTCTACTCGA
69363651 CTAAGTGACTT
1 CTAAGTGACTT
69363662 GAGAGGTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (37 bp):
CTAAGTGACTTAAGAAGCTACCAGTGTTTCTACTCGA
Found at i:69363780 original size:46 final size:46
Alignment explanation
Indices: 69363696--69363784 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
69363686 TTAACTTAGC
* *
69363696 GAGTAGTATCCCCAAGGGGCAACAATGTTTCTGCTATCAATTTAAT
1 GAGTAGTATCCCCAAGGGGCAACAATGTTACTACTATCAATTTAAT
* ** * *
69363742 GAGTAGTATCCCCAAGGGGTAGTAGTGTTACTATTATCAATTT
1 GAGTAGTATCCCCAAGGGGCAACAATGTTACTACTATCAATTT
69363785 TGTAAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (46 bp):
GAGTAGTATCCCCAAGGGGCAACAATGTTACTACTATCAATTTAAT
Found at i:69365213 original size:39 final size:40
Alignment explanation
Indices: 69365168--69365260 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 40
69365158 AAAATTTATA
* *
69365168 TTTAATAAAATAAAATATTTATTATATTTAT-TA-ATGTTT
1 TTTAATAAAATAAAACATTTATTATAATTATGTAGA-GTTT
*
69365207 TTTAATATAATAAAACATTTATTATAATTATGGTAGAGTTT
1 TTTAATAAAATAAAACATTTATTATAATTAT-GTAGAGTTT
69365248 TTTAATATAAATA
1 TTTAATA-AAATA
69365261 CATTTTAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 28 0.61
41 13 0.28
42 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATAATTATGTAGAGTTT
Found at i:69366089 original size:32 final size:33
Alignment explanation
Indices: 69366023--69366093 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
69366013 TTAATTTTAA
* * *
69366023 TTTTTT-AATATTATTTAATATTTTTATTTCAT
1 TTTTTTAAATATTAATTAATATTTTTATATAAT
69366055 TTTTTTAAAT-TTAATTAATATTTGTT-TATAAT
1 TTTTTTAAATATTAATTAATATTT-TTATATAAT
69366087 TTTTTTA
1 TTTTTTA
69366094 TAACAGCCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 29 0.85
33 5 0.15
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (33 bp):
TTTTTTAAATATTAATTAATATTTTTATATAAT
Found at i:69367820 original size:24 final size:24
Alignment explanation
Indices: 69367788--69367836 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
69367778 ATCCCCATCA
*
69367788 CCTTATGGGGGATTCAAACACCTC
1 CCTTATGGGGGATGCAAACACCTC
* * *
69367812 CCTTGTGGGTGATGCAAACATCTC
1 CCTTATGGGGGATGCAAACACCTC
69367836 C
1 C
69367837 GCAATCTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (24 bp):
CCTTATGGGGGATGCAAACACCTC
Found at i:69369456 original size:22 final size:22
Alignment explanation
Indices: 69369430--69369478 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
69369420 ATATCCAAAC
69369430 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
69369452 CATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
69369474 AATAA
1 AATAA
69369479 GGAGAATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:69371275 original size:125 final size:127
Alignment explanation
Indices: 69371037--69371298 Score: 309
Period size: 125 Copynumber: 2.1 Consensus size: 127
69371027 GAGTATGAGC
* *
69371037 TTGCCTTCTATTTCATTTAGAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATACTTAGAT
* * * *
69371102 CAAACGGAAAATGGAAACCAAGTACGTTAAGGCACGACTACTCAAATTTCTAAATACGGAATA
65 CAAACGAAAAATCGAAACCAAGTACGTTAAGGCACAACTACTCAAATTTCTAAATACCGAATA
* * * *
69371165 TTGTCTTTATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATT-AGTTACTTAGAT
1 TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGAT-ATTCAGATACTTAGAT
* * * ** *
69371227 CAAACTAAAAATCGAAACCCAGTACGTT-AGGACACAATTTA-TTGAATTTCTAAGTACCGAATA
65 CAAACGAAAAATCGAAACCAAGTACGTTAAGG-CACAA-CTACTCAAATTTCTAAATACCGAATA
69371290 TTGCCTTTA
1 TTGCCTTTA
69371299 CTTGAAAAAT
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
124 3 0.03
125 72 0.63
126 8 0.07
127 25 0.22
128 6 0.05
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATACTTAGATC
AAACGAAAAATCGAAACCAAGTACGTTAAGGCACAACTACTCAAATTTCTAAATACCGAATA
Found at i:69371337 original size:3 final size:3
Alignment explanation
Indices: 69371329--69371522 Score: 64
Period size: 3 Copynumber: 64.3 Consensus size: 3
69371319 AAGTAATGAA
* *
69371329 AAT AAT AAT AAT AGA- AAC AAT AGT AAT AA- AAGT AAT AAT AA- AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * * **
69371373 AGAA AAT AAC AAT GAT ACATT AAT AAT AAT -AT ATGT GCT AAT AAT AAT
1 A-AT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* ** * * * * *
69371421 AAC AAT ACG AA- AAA AAT AAT ACT -AT ATT AAT AAA AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
69371467 AGGTT AAT AAT AAT AAT AAT AAT AAGGT AA- AA- AAT AAT AAT GA- AAT
1 A--AT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT
*
69371513 AAT AAA AAT A
1 AAT AAT AAT A
69371523 CTATTGCGTT
Statistics
Matches: 140, Mismatches: 33, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
2 15 0.11
3 110 0.79
4 8 0.06
5 7 0.05
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:69371380 original size:15 final size:16
Alignment explanation
Indices: 69371322--69371381 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
69371312 GACATGAAAG
69371322 TAAT-GAAAATAATAA
1 TAATAGAAAATAATAA
* *
69371337 TAATAG-AAACAATAG
1 TAATAGAAAATAATAA
*
69371352 TAATA-AAAGTAATAA
1 TAATAGAAAATAATAA
69371367 TAAAATAGAAAATAA
1 T--AATAGAAAATAA
69371382 CAATGATACA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 23 0.68
16 1 0.03
17 4 0.12
18 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (16 bp):
TAATAGAAAATAATAA
Found at i:69371456 original size:23 final size:23
Alignment explanation
Indices: 69371430--69371487 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
69371420 TAACAATACG
*
69371430 AAAAA-AATAATACTATATTAAT
1 AAAAATAATAATACTAGATTAAT
* *
69371452 AAAAATAATAATAGTAGGTTAAT
1 AAAAATAATAATACTAGATTAAT
*
69371475 AATAATAATAATA
1 AAAAATAATAATA
69371488 ATAAGGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (23 bp):
AAAAATAATAATACTAGATTAAT
Found at i:69371518 original size:21 final size:23
Alignment explanation
Indices: 69371455--69371520 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
69371445 TATTAATAAA
* * * *
69371455 AATAATAATAGTAGGTTAATAAT
1 AATAATAATAATAAGTAAAAAAT
69371478 AATAATAATAATAAGGTAAAAAAT
1 AATAATAATAATAA-GTAAAAAAT
*
69371502 AATAATGA-AATAA-TAAAAA
1 AATAATAATAATAAGTAAAAA
69371521 TACTATTGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 6 0.16
23 17 0.46
24 14 0.38
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (23 bp):
AATAATAATAATAAGTAAAAAAT
Found at i:69371603 original size:3 final size:3
Alignment explanation
Indices: 69371595--69371627 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
69371585 GTAAAAGTAC
69371595 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69371628 CACTCTCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:69372084 original size:13 final size:13
Alignment explanation
Indices: 69372062--69372110 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
69372052 GGCGATGGAG
*
69372062 TTAGTAGGGTGGT
1 TTAGTGGGGTGGT
69372075 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
* *
69372088 TTAGT-AGTTGGT
1 TTAGTGGGGTGGT
69372100 TTAGTGGGGTG
1 TTAGTGGGGTG
69372111 TTAATTGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:69372102 original size:25 final size:26
Alignment explanation
Indices: 69372062--69372110 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
69372052 GGCGATGGAG
69372062 TTAGTAGGGTGGTTTAGTGGGGTGGT
1 TTAGTAGGGTGGTTTAGTGGGGTGGT
*
69372088 TTAGTA-GTTGGTTTAGTGGGGTG
1 TTAGTAGGGTGGTTTAGTGGGGTG
69372111 TTAATTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (26 bp):
TTAGTAGGGTGGTTTAGTGGGGTGGT
Found at i:69372605 original size:132 final size:132
Alignment explanation
Indices: 69372369--69373107 Score: 789
Period size: 132 Copynumber: 5.6 Consensus size: 132
69372359 AGATTTTTAG
* * *
69372369 CTTCGATCTACT-CAGCTACTGCTTAGGGAGATAAGATCTACAATCTTCGGCCTGCT-CACTGGT
1 CTTCGATCTGCTCCA-CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCT
* * * * *
69372432 GCTCAGAGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCCCAGGAAAATAAGATTCGC
65 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAGGAAGATAAGATTCAC
*
69372497 TAT
130 TGT
* * ** * *
69372500 CTTCGATCTGTTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAGCTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
* *
69372565 CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACC
66 CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAGGAAGATAAGATTCACT
69372630 GT
131 GT
* * * *
69372632 CTTCGATCTACTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCT-CACTACTA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
* * * * *
69372696 CTCAGAGAGTTAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATGAGATTCACT
66 CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAGGAAGATAAGATTCACT
69372761 GT
131 GT
* * **
69372763 CTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
* ** *
69372828 CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGC-TCCATTGT-CGCTACATGG-AGATAAGATTT
66 CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC-CT-CA-GGAAGATAAGATTC
69372890 A-TCGT
128 ACT-GT
* * **
69372895 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGCAA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
* * * * * *
69372960 CTTTAGGGAGATAAGGCTGGTGGCTTAAATTTGC-T-CC-ATTGCCGCTACA-TAGAGATAAGAT
66 C-TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACT-AC-CT-CAGGA-AGATAAGAT
** **
69373021 TTTCCAT
126 TCACTGT
* * ** * * * **
69373028 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCATTGCAA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
69373093 CTTCAGGGAGATAAG
66 C-TCAGGGAGATAAG
69373108 ACTTGTATCT
Statistics
Matches: 523, Mismatches: 72, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
130 1 0.00
131 172 0.33
132 225 0.43
133 125 0.24
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAGGAAGATAAGATTCACT
GT
Found at i:69372829 original size:44 final size:44
Alignment explanation
Indices: 69372781--69372974 Score: 144
Period size: 44 Copynumber: 4.4 Consensus size: 44
69372771 TGATCCACCA
* *
69372781 CTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTG
1 CTGCTTAGGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTG
* * ** * * *
69372825 CTGCTCAGGGAGATAAG-GCTAGT-GGCTTAAATCTGCTCCATTG
1 CTGCTTAGGGAGATAAGATCTA-TAATCTTCAGTCTGCTCCACTG
* * * ** *
69372868 -TCGCTACATGGAGATAAGATTTATCGTCTTC-GATCTGCTCCACTA
1 CT-GCT-TAGGGAGATAAGATCTATAATCTTCAG-TCTGCTCCACTG
* *
69372913 CTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTG
1 CTGCTTAGGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTG
**
69372957 CAACTTTAGGGAGATAAG
1 CTGC-TTAGGGAGATAAG
69372975 GCTGGTGGCT
Statistics
Matches: 114, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.01
43 19 0.17
44 60 0.53
45 33 0.29
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (44 bp):
CTGCTTAGGGAGATAAGATCTATAATCTTCAGTCTGCTCCACTG
Found at i:69372836 original size:263 final size:263
Alignment explanation
Indices: 69372369--69372989 Score: 872
Period size: 263 Copynumber: 2.4 Consensus size: 263
69372359 AGATTTTTAG
* * *
69372369 CTTCGATCTACT-CAGCTACTGCTTAGGGAGATAAGATCTACAATCTTCGGCCTGCTCACTGGTG
1 CTTCGATCTACTCCA-CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTA
* * *
69372433 CTCAGAGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCCCAGGAAAATAAGATTCGCT
65 CTCAGAGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCACT
* ** *
69372498 ATCTTCGATCTGTTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAGCTCCACTGT
130 ATCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAGCTCCACTGC
*
69372563 TGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC-CT-C-GGGAAGATAAGAT
195 TGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGC-TCCATACT-CGCTACAGGG-AGATAAGAT
69372625 TCACCGT
257 TCACCGT
* *
69372632 CTTCGATCTACTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTACTAC
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTAC
* * * * * *
69372697 TCAGAGAGTTAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATGAGATTCACTG
66 TCAGAGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCACTA
*
69372762 TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCT
131 TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAGCTCCACTGCT
** * * *
69372827 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGCTACATGGAGATAAGATTTAT
196 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATACTCGCTACAGGGAGATAAGATTCAC
69372892 CGT
261 CGT
* * * *
69372895 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGCAA
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCT-CACTGCTA
* * *
69372960 CTTTAGGGAGATAAGGCTGGTGGCTTAAAT
65 C-TCAGAGAGATAAGGCTAGTGGCTTAAAT
69372990 TTGCTCCATT
Statistics
Matches: 317, Mismatches: 35, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
261 1 0.00
262 7 0.02
263 274 0.86
264 11 0.03
265 24 0.08
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (263 bp):
CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTAC
TCAGAGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCACTA
TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAGCTCCACTGCT
GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATACTCGCTACAGGGAGATAAGATTCAC
CGT
Found at i:69373084 original size:177 final size:178
Alignment explanation
Indices: 69372901--69373250 Score: 488
Period size: 177 Copynumber: 2.0 Consensus size: 178
69372891 TCGTCTTCGA
** * ** *
69372901 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGCAACTTTA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-CTACAATCTTCAACCTGCTCCACTGCAACTTCA
* * * *
69372965 GGGAGATAAGGCTGGTGGCTTAAATTTGCTCCATTGCCGCTACATAGAGATAAGATTTTCCATCT
65 AGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCCATCT
* *
69373030 TCGATCTGCTCCACTATTGCTTAGGGAGATAAGATTTGT-AATTTTCAG
130 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATTTTCAG
* * *** *
69373078 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTACAATCTTCAACCTGCTCCACTGCAACTTCAA
*
69373143 GTAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCCATCTT
66 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCCATCTT
* *
69373208 TGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATT
131 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATT
69373251 CACCGATGTT
Statistics
Matches: 150, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
177 134 0.89
178 16 0.11
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (178 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGACTACAATCTTCAACCTGCTCCACTGCAACTTCAA
GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCCATCTT
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATTTTCAG
Found at i:69373127 original size:44 final size:44
Alignment explanation
Indices: 69372945--69373196 Score: 130
Period size: 44 Copynumber: 5.7 Consensus size: 44
69372935 CAATTTTCAG
* * * * **
69372945 TCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTAAA
1 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTAAA
* ** * ** * **
69372989 TTTGCTCCATTGCCGCTACATAGAGATAAGA-TTTTCCATCTTCGA
1 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGT--ATCTTAAA
* **** * * * *
69373034 TCTGCTCCACTATTGCTT-AGGGAGATAAGATTTGTAATTTTCAG
1 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGT-ATCTTAAA
*
69373078 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTAAA
* * * * * * **
69373122 CCTGCTCCACTGCAACTTCAAGTAGATAAGGCTGGTGGCTTAAA
1 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTAAA
* * **
69373166 TCTGCTCCATTGCCACTACATAGAGATAAGA
1 TCTGCTCCATTGCAACTTCAGGGAGATAAGA
69373197 TTTGCCATCT
Statistics
Matches: 150, Mismatches: 54, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
43 2 0.01
44 113 0.75
45 35 0.23
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTAAA
Found at i:69373237 original size:88 final size:88
Alignment explanation
Indices: 69372962--69373239 Score: 281
Period size: 88 Copynumber: 3.1 Consensus size: 88
69372952 CACTGCAACT
* * *
69372962 TTAGGGAGATAAGGCTGGTGGCTTAAATTTGCTCCATTGCCGCTACATAGAGATAAGATTTTCCA
1 TTAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCCA
* *
69373027 TCTTCGATCTGCTCCACTATTGC
66 TCTTTGATCTGCTCCACTACTGC
** * *** * * * * ** * *
69373050 TTAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTG-T
1 TTAGGGAGATAAGGCTGGT-GGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCC
* * **
69373114 ATC-TTGAACCTGCTCCACTGCAAC
65 ATCTTTG-ATCTGCTCCACTACTGC
* *
69373138 TTCAAGTAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCC
1 TT-AGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCC
*
69373203 ATCTTTGATTTGCTCCACTACTGC
65 ATCTTTGATCTGCTCCACTACTGC
69373227 TTAGGGAGATAAG
1 TTAGGGAGATAAG
69373240 ATCTGTGAAT
Statistics
Matches: 139, Mismatches: 46, Indels: 10
0.71 0.24 0.05
Matches are distributed among these distances:
87 2 0.01
88 75 0.54
89 59 0.42
90 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (88 bp):
TTAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAGATAAGATTTGCCA
TCTTTGATCTGCTCCACTACTGC
Found at i:69373686 original size:46 final size:46
Alignment explanation
Indices: 69373580--69373690 Score: 150
Period size: 46 Copynumber: 2.4 Consensus size: 46
69373570 ATGAGATAAA
* * *
69373580 ATTTGTGGTTTCTTCTATCCATCCCACTGCAACTAAGGGGTATAGG
1 ATTTGTAGCTTCTTCAATCCATCCCACTGCAACTAAGGGGTATAGG
* * * *
69373626 ATTTGTACCATCTTCAATCTATCCCACTGCAACTCAGGGGTATAGG
1 ATTTGTAGCTTCTTCAATCCATCCCACTGCAACTAAGGGGTATAGG
*
69373672 ATTTGTTGCTTCTTCAATC
1 ATTTGTAGCTTCTTCAATC
69373691 AATTGATCTG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (46 bp):
ATTTGTAGCTTCTTCAATCCATCCCACTGCAACTAAGGGGTATAGG
Found at i:69374131 original size:65 final size:65
Alignment explanation
Indices: 69374061--69374182 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 65
69374051 ATAACAATGG
* *
69374061 ATAAGAAAGAAAATAATTTGGAGCATAGCTCGAAACAAAT-AAGTTAATCAAAGATAGCAACTAC
1 ATAAGAAAGAAAATAATTAGGAGCATAGCTCGAAACAAATAAAG-TAATCAAAAATAGCAACTAC
69374125 A
65 A
* * * * * * *
69374126 ATAAGAAGGAAATTTATTAGGAGCGTATCTTGAAACGAATAAAGTAATCAAAAATAG
1 ATAAGAAAGAAAATAATTAGGAGCATAGCTCGAAACAAATAAAGTAATCAAAAATAG
69374183 TAAATTCAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 44 0.94
66 3 0.06
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.22
Consensus pattern (65 bp):
ATAAGAAAGAAAATAATTAGGAGCATAGCTCGAAACAAATAAAGTAATCAAAAATAGCAACTACA
Found at i:69374485 original size:9 final size:9
Alignment explanation
Indices: 69374473--69374506 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
69374463 CTTTTTCCTT
69374473 TTTTTTTTC
1 TTTTTTTTC
*
69374482 TTTTTTTTG
1 TTTTTTTTC
69374491 TGTTTTTTTC
1 T-TTTTTTTC
69374501 TTTTTT
1 TTTTTT
69374507 CTTTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:69374511 original size:23 final size:22
Alignment explanation
Indices: 69374471--69374513 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
69374461 TCCTTTTTCC
69374471 TTTTTTTTTTCTTTTTTTTGTG
1 TTTTTTTTTTCTTTTTTTTGTG
69374493 TTTTTTTCTTT-TTTCTTTTTG
1 TTTTTTT-TTTCTTT-TTTTTG
69374514 AAATTACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTTCTTTTTTTTGTG
Found at i:69383973 original size:19 final size:19
Alignment explanation
Indices: 69383936--69383973 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
69383926 ACCTGTTAGA
*
69383936 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
69383955 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
69383974 TAAATTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:69385779 original size:19 final size:19
Alignment explanation
Indices: 69385755--69385800 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
69385745 GTGAAAATCT
*
69385755 AATGCAAAT-AATGTAATG
1 AATGCAAATGAATGGAATG
*
69385773 CAATGCAAATGCATGGAATG
1 -AATGCAAATGAATGGAATG
69385793 AATGCAAA
1 AATGCAAA
69385801 AGAAAGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGGAATG
Found at i:69387701 original size:18 final size:16
Alignment explanation
Indices: 69387680--69387715 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
69387670 AATAGGACAG
69387680 ATAATAAAAATAATAGTA
1 ATAATAAAAA-AATA-TA
69387698 ATAATAAAAAAATATA
1 ATAATAAAAAAATATA
69387714 AT
1 AT
69387716 GGTAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
ATAATAAAAAAATATA
Found at i:69387734 original size:25 final size:21
Alignment explanation
Indices: 69387680--69387725 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
69387670 AATAGGACAG
*
69387680 ATAATAAAAATAATAGTAATA
1 ATAAAAAAAATAATAGTAATA
*
69387701 ATAAAAAAATATAATGGTAATA
1 ATAAAAAAA-ATAATAGTAATA
69387723 ATA
1 ATA
69387726 TTTAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
ATAAAAAAAATAATAGTAATA
Found at i:69387836 original size:21 final size:22
Alignment explanation
Indices: 69387794--69387847 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
69387784 AACAACATAT
*
69387794 TAATGATAATAGAAAATAATGA
1 TAATAATAATAGAAAATAATGA
*
69387816 TAATAATAATAG-AAGTAATGA
1 TAATAATAATAGAAAATAATGA
*
69387837 AAATAATAATA
1 TAATAATAATA
69387848 ATAGAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (22 bp):
TAATAATAATAGAAAATAATGA
Found at i:69387931 original size:3 final size:3
Alignment explanation
Indices: 69387760--69387912 Score: 61
Period size: 3 Copynumber: 50.7 Consensus size: 3
69387750 ATAATAGTGT
* * * *
69387760 TAA TAA TAA TAA TAA TAA TAA -ACA -AA CAA -CA TAT TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
69387803 TAGA AAA TAA TGA TAA TAA TAA TAGA -AG TAA TGAA -AA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA
* * * *
69387849 TAGA -AA CAA TAG TAA TAA -AA GTAA TAA TAA -AA TAGA AAA TAA CAA
1 TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TA-A TAA TAA TAA
*
69387894 TGA TACA TTAA TAA TAA TA
1 TAA TA-A -TAA TAA TAA TA
69387913 TACGTTCTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
2 10 0.09
3 89 0.79
4 12 0.11
5 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:69388030 original size:20 final size:20
Alignment explanation
Indices: 69387984--69388032 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
69387974 AATAGTAGGT
* *
69387984 TAATAATAATAGTAATAAAA
1 TAATAAAAATAATAATAAAA
*
69388004 -AGGTAAAAATAATAATAAAA
1 TA-ATAAAAATAATAATAAAA
69388024 TAATAAAAA
1 TAATAAAAA
69388033 CACTATTACG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (20 bp):
TAATAAAAATAATAATAAAA
Found at i:69419731 original size:47 final size:47
Alignment explanation
Indices: 69419646--69419959 Score: 504
Period size: 47 Copynumber: 6.6 Consensus size: 47
69419636 GTATATTTGA
69419646 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
69419695 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
69419742 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
69419789 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
69419836 ATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * *
69419883 ATAAATGTGAAAGTGTATATATGTGAT-AGGACCGAGTGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGG-CCTAATGGCCGATGTG
* *
69419930 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
69419960 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
46 3 0.01
47 230 0.92
48 2 0.01
49 15 0.06
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:69420128 original size:37 final size:37
Alignment explanation
Indices: 69420078--69420222 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
69420068 CTGAGCTCTA
* *
69420078 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
69420115 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
69420152 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
69420189 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
69420223 AGCTAAAGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:69422491 original size:14 final size:14
Alignment explanation
Indices: 69422472--69422501 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69422462 TTATATCGAG
69422472 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
69422486 ACCAATCCAATTCA
1 ACCAATCCAAATCA
69422500 AC
1 AC
69422502 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:69424774 original size:10 final size:10
Alignment explanation
Indices: 69424759--69424789 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
69424749 CTGCTGGAGT
69424759 TGAAGAGAAA
1 TGAAGAGAAA
69424769 TGAAGAGAAA
1 TGAAGAGAAA
69424779 TGAAGAGAAA
1 TGAAGAGAAA
69424789 T
1 T
69424790 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (10 bp):
TGAAGAGAAA
Found at i:69430358 original size:13 final size:13
Alignment explanation
Indices: 69430340--69430365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69430330 AAGTAATTGA
69430340 ACACGGGCGTGTC
1 ACACGGGCGTGTC
69430353 ACACGGGCGTGTC
1 ACACGGGCGTGTC
69430366 CCTGTTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:69431982 original size:29 final size:29
Alignment explanation
Indices: 69431950--69432015 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
69431940 TATCAAAATA
69431950 ATTTTTTCAGAACACATCACGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
* * * * **
69431979 ATTTTTGCATATCCCATCTTGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
69432008 ATTTTTTC
1 ATTTTTTC
69432016 TAAAACAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (29 bp):
ATTTTTTCAGAACACATCACGTCAAATTT
Found at i:69435656 original size:33 final size:33
Alignment explanation
Indices: 69435619--69435686 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
69435609 ATTAATCTAA
69435619 AACTTAACAGGGTGGTTAACTTTATATTAACTG
1 AACTTAACAGGGTGGTTAACTTTATATTAACTG
* *
69435652 AACTTAATAGGGTGGTTAATTTTATATTAACTG
1 AACTTAACAGGGTGGTTAACTTTATATTAACTG
69435685 AA
1 AA
69435687 ATAGTAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (33 bp):
AACTTAACAGGGTGGTTAACTTTATATTAACTG
Found at i:69437973 original size:38 final size:38
Alignment explanation
Indices: 69437922--69437999 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
69437912 TTTCATTAGA
69437922 AATTTTGAGTATTGTTTTAAGAGTTATTCTTATTGCTT
1 AATTTTGAGTATTGTTTTAAGAGTTATTCTTATTGCTT
69437960 AATTTTGAGTATTGTTTTAAGAGTTATTCTTATTGCTT
1 AATTTTGAGTATTGTTTTAAGAGTTATTCTTATTGCTT
69437998 AA
1 AA
69438000 AGGCCACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (38 bp):
AATTTTGAGTATTGTTTTAAGAGTTATTCTTATTGCTT
Found at i:69437993 original size:21 final size:21
Alignment explanation
Indices: 69437931--69437994 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
69437921 AAATTTTGAG
69437931 TATTGTTTTAAGAGTTATTCT
1 TATTGTTTTAAGAGTTATTCT
* **
69437952 TATTG-CTT-A-A-TT-TTGAG
1 TATTGTTTTAAGAGTTATT-CT
69437969 TATTGTTTTAAGAGTTATTCT
1 TATTGTTTTAAGAGTTATTCT
69437990 TATTG
1 TATTG
69437995 CTTAAAGGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
16 2 0.06
17 7 0.23
18 3 0.10
19 2 0.06
20 3 0.10
21 12 0.39
22 2 0.06
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (21 bp):
TATTGTTTTAAGAGTTATTCT
Found at i:69451081 original size:17 final size:17
Alignment explanation
Indices: 69451059--69451091 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69451049 ATTTATTTTT
69451059 ATCCAATTATGTTAACC
1 ATCCAATTATGTTAACC
*
69451076 ATCCAATTCTGTTAAC
1 ATCCAATTATGTTAAC
69451092 TATTATTAAC
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:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
ATCCAATTATGTTAACC
Found at i:69451168 original size:32 final size:32
Alignment explanation
Indices: 69451104--69451168 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
69451094 TTATTAACTT
* * **
69451104 TGTCATAAAAAAATGACGTGGCAATTTTAAAA
1 TGTCATAAAAAAATGACATGACAATTCAAAAA
* *
69451136 TGTCATAGAAAAATGACATTACAATTCAAAAA
1 TGTCATAAAAAAATGACATGACAATTCAAAAA
69451168 T
1 T
69451169 TGACATGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTCATAAAAAAATGACATGACAATTCAAAAA
Found at i:69463146 original size:47 final size:47
Alignment explanation
Indices: 69463092--69463197 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
69463082 TCAATTGATA
* * * * *
69463092 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAATTTATCTCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTTATCCCAG
69463139 AGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTTATCCCAG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTTATCCCAG
69463186 AGTACCTATACC
1 AGTACCTATACC
69463198 CCTTCTCATA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTTATCCCAG
Found at i:69471298 original size:45 final size:45
Alignment explanation
Indices: 69471214--69471299 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
69471204 GCTATACTCC
* *
69471214 AAAATTAGTAAGACCATAGCTAAAAGATGTTATGACATCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATA
* *
69471259 AAAATGAGTAAGACCA-AGGCTAAAAGATGCTGTGGCATCAT
1 AAAATGAGTAAGACCATA-GCTAAAAGATGCTATGACATCAT
69471300 ATGAAAGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATA
Found at i:69471472 original size:74 final size:73
Alignment explanation
Indices: 69471351--69471570 Score: 269
Period size: 74 Copynumber: 3.0 Consensus size: 73
69471341 CTGAAAGGTA
* ** *
69471351 CTATGACATCCTTTGATAGTCTGCCGAGACAATAAACACAGGGTTATATTGTGTAAGACCATAGC
1 CTATGGCATCCTTTGATAGTCCACCGAGACAGTAAACACA-GGTTATATTGTGTAAGACCATAGC
*
69471416 TAAAAGACG
65 TGAAAGACG
* * * *
69471425 CTATGGCATTCTTTGATAGTCCACCGGGACAGTAAACACTAGGTTATATTATGTAAGACCATAGT
1 CTATGGCATCCTTTGATAGTCCACCGAGACAGTAAACAC-AGGTTATATTGTGTAAGACCATAGC
69471490 TGAAAGACG
65 TGAAAGACG
* * ** * * *
69471499 TTATGGCATCCTTTGATAGTTCATTGAAACAGAAAACACGGGGTTATATTGTGTAAGACCATAGC
1 CTATGGCATCCTTTGATAGTCCACCGAGACAGTAAACAC-AGGTTATATTGTGTAAGACCATAGC
69471564 TGAAAGA
65 TGAAAGA
69471571 TGTTACAACA
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
74 123 0.99
75 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (73 bp):
CTATGGCATCCTTTGATAGTCCACCGAGACAGTAAACACAGGTTATATTGTGTAAGACCATAGCT
GAAAGACG
Found at i:69471634 original size:27 final size:27
Alignment explanation
Indices: 69471604--69471674 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
69471594 GTCAGGGCAC
* *
69471604 TAAACACAAGATAGTCTAATGAGACAT
1 TAAACACAAGATAGTCCAACGAGACAT
* *
69471631 TAAACATAAGATGGTCCAACGAGACAT
1 TAAACACAAGATAGTCCAACGAGACAT
*
69471658 TAAACACAAAATAGTCC
1 TAAACACAAGATAGTCC
69471675 GCTGGGACAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAACACAAGATAGTCCAACGAGACAT
Found at i:69473068 original size:27 final size:27
Alignment explanation
Indices: 69473011--69473225 Score: 252
Period size: 27 Copynumber: 8.0 Consensus size: 27
69473001 CAACTTGTAA
* ** *
69473011 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
69473038 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69473065 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69473092 AGTTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
69473119 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
69473146 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
69473173 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
69473200 AATTACCGAGATACCCTTGTGGGGTA
1 AATTACCGAAATACCCCTGTAGGGTA
69473226 AAATGACTGT
Statistics
Matches: 160, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 158 0.99
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:69482915 original size:50 final size:49
Alignment explanation
Indices: 69482783--69483202 Score: 388
Period size: 50 Copynumber: 8.7 Consensus size: 49
69482773 TGGGTTAAGT
* *
69482783 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC--CTTATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTA-CG
*
69482831 AAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTTACG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTTACG
* * * *
69482882 TGCTGATTCCATGTCCCAGACATGGTCTTACACTGGCTATC--CTTATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTA-CG
*
69482930 AAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTTACG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTTACG
* * * * *
69482981 TGCTGATTCCATGTCCCAGACATGGTCTTACACTAGCTCTTGCAT-ATCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATCTTACG
** * * *
69483031 TGCTTATGCCATGTCCCAGACATGATCTTACACT-G---ACATGTCT-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT-TACG
* *
69483076 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTAAAG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTTACG
* * * * * *
69483124 -GCCGATG-CATGTCCCGGACAT-ATCTTACACTGGCACTCATCTCA-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTACG
69483169 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
69483203 GGCACACAAA
Statistics
Matches: 309, Mismatches: 40, Indels: 45
0.78 0.10 0.11
Matches are distributed among these distances:
44 12 0.04
45 17 0.06
46 50 0.16
47 18 0.06
48 16 0.05
49 75 0.24
50 105 0.34
51 5 0.02
52 11 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTACG
Done.