Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 80 of 89
Found at i:19217106 original size:27 final size:27
Alignment explanation
Indices: 19217050--19217115 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
19217040 TCTTAACTCA
*
19217050 TTAAATATATTTTATTATTAACTTAAT
1 TTAAAAATATTTTATTATTAACTTAAT
* * **
19217077 TTAAAAATATTTTATTTTTATCTTTGT
1 TTAAAAATATTTTATTATTAACTTAAT
*
19217104 TTAATAATATTT
1 TTAAAAATATTT
19217116 AAAATATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAAAAATATTTTATTATTAACTTAAT
Found at i:19217222 original size:29 final size:29
Alignment explanation
Indices: 19217158--19217217 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
19217148 AAATATATGT
*
19217158 TAAAA-ATATTTTTAAATTAAGACAAAAA
1 TAAAATATTTTTTTAAATTAAGACAAAAA
* *
19217186 TAAAATATTTTTTTAATTTAAGATAAATAA
1 TAAAATATTTTTTTAAATTAAGACAAA-AA
19217216 TA
1 TA
19217218 TATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 18 0.67
30 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAATATTTTTTTAAATTAAGACAAAAA
Found at i:19219714 original size:20 final size:20
Alignment explanation
Indices: 19219686--19219758 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
19219676 TAGTATAGTA
*
19219686 GTATTGATACCATGTTAAGG
1 GTATCGATACCATGTTAAGG
* * *
19219706 GTATCGATACCAAG-AAACTGT
1 GTATCGATACCATGTTAA--GG
* *
19219727 CTATTGATACCATGTTAAGG
1 GTATCGATACCATGTTAAGG
19219747 GTATCGATACCA
1 GTATCGATACCA
19219759 AGAAACTATC
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
19 2 0.05
20 23 0.59
21 12 0.31
22 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (20 bp):
GTATCGATACCATGTTAAGG
Found at i:19219739 original size:41 final size:41
Alignment explanation
Indices: 19219687--19219765 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
19219677 AGTATAGTAG
19219687 TATTGATACCATGTTAAGGGTATCGATACCAAGAAACTGTC
1 TATTGATACCATGTTAAGGGTATCGATACCAAGAAACTGTC
19219728 TATTGATACCATGTTAAGGGTATCGATACCAAGAAACT
1 TATTGATACCATGTTAAGGGTATCGATACCAAGAAACT
19219766 ATCTGCTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (41 bp):
TATTGATACCATGTTAAGGGTATCGATACCAAGAAACTGTC
Found at i:19219972 original size:22 final size:19
Alignment explanation
Indices: 19219946--19219991 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
19219936 ACAAATGATA
19219946 ATGTTGTGACAAGATGAAATGG
1 ATGTTGTGA-AA-ATGAAAT-G
*
19219968 ATGTTGTGAAAATGGAATG
1 ATGTTGTGAAAATGAAATG
19219987 ATGTT
1 ATGTT
19219992 AGTATGGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (19 bp):
ATGTTGTGAAAATGAAATG
Found at i:19220614 original size:233 final size:233
Alignment explanation
Indices: 19220207--19220668 Score: 861
Period size: 233 Copynumber: 2.0 Consensus size: 233
19220197 TCAGAATGGT
19220207 CTTACTTTTATGTCTTATCTGCCCGACAAAGTTTACTAAGGGTGCCCTATGCTATCTCTAGTTAA
1 CTTACTTTTATGTCTTATCTGCCCGACAAAGTTTACTAAGGGTGCCCTATGCTATCTCTAGTTAA
*
19220272 GGGACTCGATAGATTGAAGATGCCTTGGCAAACCAATTGGTGTTAGCTAGTGCAGGGATCCTATT
66 GGGACTCGACAGATTGAAGATGCCTTGGCAAACCAATTGGTGTTAGCTAGTGCAGGGATCCTATT
*
19220337 GGTCCAGATAACATGATATGTCTCGGTAATACCTTTTTGTGGCAACATTAACATCTAACCTCTCG
131 GGTCCAGATAACATGATATGTCTCGGCAATACCTTTTTGTGGCAACATTAACATCTAACCTCTCG
*
19220402 ATCATGCACTACTCTTTTTAGTCGACTGAAATCCCAGC
196 ATCATGCACTACTATTTTTAGTCGACTGAAATCCCAGC
19220440 CTTACTTTTATGTCTTATCTGCCCGACAAAGTTTACTAAGGGTGCCCTATGCTATCTCTAGTTAA
1 CTTACTTTTATGTCTTATCTGCCCGACAAAGTTTACTAAGGGTGCCCTATGCTATCTCTAGTTAA
** *
19220505 GGGACTCGACAGATTGAAGATGCCTTGGCAAACCGGTTGGTGTTAGCTATTGCAGGGATCCTATT
66 GGGACTCGACAGATTGAAGATGCCTTGGCAAACCAATTGGTGTTAGCTAGTGCAGGGATCCTATT
*
19220570 TGTCCAGATAACATGATATGTCTCGGCAATACCTTTTTGTGGCAACATTAACATCTAACCTCTCG
131 GGTCCAGATAACATGATATGTCTCGGCAATACCTTTTTGTGGCAACATTAACATCTAACCTCTCG
19220635 ATCATGCACTACTATTTTTAGTCGACTGAAATCC
196 ATCATGCACTACTATTTTTAGTCGACTGAAATCC
19220669 TAGACTTATC
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
233 222 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (233 bp):
CTTACTTTTATGTCTTATCTGCCCGACAAAGTTTACTAAGGGTGCCCTATGCTATCTCTAGTTAA
GGGACTCGACAGATTGAAGATGCCTTGGCAAACCAATTGGTGTTAGCTAGTGCAGGGATCCTATT
GGTCCAGATAACATGATATGTCTCGGCAATACCTTTTTGTGGCAACATTAACATCTAACCTCTCG
ATCATGCACTACTATTTTTAGTCGACTGAAATCCCAGC
Found at i:19223147 original size:24 final size:24
Alignment explanation
Indices: 19223120--19223188 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
19223110 AGTTGGTTCT
*
19223120 TCTTTATTGGTAGGCTGGTGAACC
1 TCTTCATTGGTAGGCTGGTGAACC
*
19223144 TCTTCATTGG-ATGGTTGGTGAACC
1 TCTTCATTGGTA-GGCTGGTGAACC
*
19223168 TCTTCATTCGCT-GGCTGGTGA
1 TCTTCATT-GGTAGGCTGGTGA
19223189 GCATCTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (24 bp):
TCTTCATTGGTAGGCTGGTGAACC
Found at i:19223195 original size:24 final size:24
Alignment explanation
Indices: 19223132--19223188 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
19223122 TTTATTGGTA
*
19223132 GGCTGGTGAACCTCTTCATTGGAT
1 GGCTGGTGAACCTCTTCATTCGAT
* *
19223156 GGTTGGTGAACCTCTTCATTCGCT
1 GGCTGGTGAACCTCTTCATTCGAT
19223180 GGCTGGTGA
1 GGCTGGTGA
19223189 GCATCTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (24 bp):
GGCTGGTGAACCTCTTCATTCGAT
Found at i:19236505 original size:29 final size:29
Alignment explanation
Indices: 19236459--19236538 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
19236449 ATTGTACTGT
19236459 GACCAAAGAGGTCGCCATGCACACCCAAC
1 GACCAAAGAGGTCGCCATGCACACCCAAC
* *
19236488 GACCAAAGAGGTCACCATGCACGCCCAAC
1 GACCAAAGAGGTCGCCATGCACACCCAAC
*
19236517 GACCAAGGAGGTCGCCATGCAC
1 GACCAAAGAGGTCGCCATGCAC
19236539 TCGGGGCGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.33, C:0.36, G:0.24, T:0.07
Consensus pattern (29 bp):
GACCAAAGAGGTCGCCATGCACACCCAAC
Found at i:19236630 original size:36 final size:36
Alignment explanation
Indices: 19236583--19236690 Score: 207
Period size: 36 Copynumber: 3.0 Consensus size: 36
19236573 ATCGTGCCAT
19236583 GCACTCGGGGCGACCAAGGATCGGTTCATGCATGGG
1 GCACTCGGGGCGACCAAGGATCGGTTCATGCATGGG
19236619 GCACTCGGGGCGACCAAGGATCGGTTCATGCATGGG
1 GCACTCGGGGCGACCAAGGATCGGTTCATGCATGGG
*
19236655 GCACTCGGGGCGACCAAGGATCGGTTCTTGCATGGG
1 GCACTCGGGGCGACCAAGGATCGGTTCATGCATGGG
19236691 AGATTGGGGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.18
Consensus pattern (36 bp):
GCACTCGGGGCGACCAAGGATCGGTTCATGCATGGG
Found at i:19236737 original size:29 final size:29
Alignment explanation
Indices: 19236705--19236788 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
19236695 TGGGGAGATC
19236705 GTAGGTCGCCATGGAGTCCCGGCGACATG
1 GTAGGTCGCCATGGAGTCCCGGCGACATG
*
19236734 GTAGGTCGCCATGGAGTCCCAGCGACATG
1 GTAGGTCGCCATGGAGTCCCGGCGACATG
*
19236763 GTAGGTCACCATGGAGTCCCGGCGAC
1 GTAGGTCGCCATGGAGTCCCGGCGAC
19236789 CAAGCTGTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.17
Consensus pattern (29 bp):
GTAGGTCGCCATGGAGTCCCGGCGACATG
Found at i:19236839 original size:17 final size:17
Alignment explanation
Indices: 19236817--19236850 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19236807 GCCCAAGCTT
19236817 TAACCCTATCCCTCATC
1 TAACCCTATCCCTCATC
19236834 TAACCCTATCCCTCATC
1 TAACCCTATCCCTCATC
19236851 ATGCATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (17 bp):
TAACCCTATCCCTCATC
Found at i:19237368 original size:21 final size:21
Alignment explanation
Indices: 19237343--19237386 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19237333 AATCTAGTTA
19237343 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
19237364 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
19237385 AT
1 AT
19237387 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:19238204 original size:26 final size:25
Alignment explanation
Indices: 19238175--19238239 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
19238165 AAATCATATT
*
19238175 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* *
19238201 ATTAGATT-AATAATAATTATTAAATC
1 ATT--ATTAAATAATAAATATCAAATC
19238227 ATTATT-AATAATA
1 ATTATTAAATAATA
19238240 TTAGTAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
26 18 0.53
27 3 0.09
28 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:19241271 original size:17 final size:18
Alignment explanation
Indices: 19241245--19241279 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19241235 AATGATTAGT
19241245 AATTATTAATAATAATGA
1 AATTATTAATAATAATGA
19241263 AATTA-TAATAATAATGA
1 AATTATTAATAATAATGA
19241280 TTTACTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATTATTAATAATAATGA
Found at i:19241496 original size:12 final size:12
Alignment explanation
Indices: 19241475--19241512 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
19241465 AATAATCATT
19241475 ATAATG-ATTTA
1 ATAATGAATTTA
19241486 ATAATGAATTTA
1 ATAATGAATTTA
19241498 ATAATGAATTTA
1 ATAATGAATTTA
19241510 ATA
1 ATA
19241513 TTTAATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.23
12 20 0.77
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATAATGAATTTA
Found at i:19241564 original size:26 final size:26
Alignment explanation
Indices: 19241534--19241806 Score: 253
Period size: 26 Copynumber: 10.7 Consensus size: 26
19241524 GATGATTTAG
*
19241534 TAATGATATGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
19241560 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
19241586 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
*
19241612 TAATTATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * * *
19241638 TAATGATTT-A-AATATTTAATGAT-T
1 TAATGATTTGATAATA-ATCATTATAA
* * *
19241662 TGATGATTT-AGTAATTAT--TTGATAG
1 TAATGATTTGA-TAATAATCATT-ATAA
* *
19241687 TAATTATTTGATAGTAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
*
19241713 TAATGATTTAATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* *
19241739 TAATCA-TT-ATAATAATAATTTAATAA
1 TAATGATTTGATAATAATCA-TT-ATAA
* * *
19241765 TAATGATTTGATAGTAATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
*
19241790 TAATGATTAG-TAATAAT
1 TAATGATTTGATAATAAT
19241807 GAAATTATTA
Statistics
Matches: 206, Mismatches: 28, Indels: 28
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.00
24 30 0.15
25 34 0.17
26 127 0.62
27 6 0.03
28 8 0.04
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.44
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:19241662 original size:139 final size:138
Alignment explanation
Indices: 19241449--19241788 Score: 403
Period size: 139 Copynumber: 2.5 Consensus size: 138
19241439 TCAATTAACC
* * *
19241449 ATAAAAATGATTTGATAATAATCA-T-T-ATAATGATTTAATAATGA-ATT-TAATAATGAATTT
1 ATAATAATGATTTGATAATAATCATTATAATAATAATTTAATAATAATATTATAATAATG-ATTT
*
19241509 -AATATTTAATGATTTGATGATTTAGTAATGATATGATAATAATCA-TT-ATAATAATGATTTGA
65 AAATATTTAATGATTTGATGATTTAGTAATGATATGATAATAATCATTTGATAATAATCA-TT-A
19241571 TAATAATCATT
128 TAATAATCATT
* *
19241582 ATAATAATGATTTGATAATAATCATTATAATAATTATTTAGTAATAATCATTATAATAATGATTT
1 ATAATAATGATTTGATAATAATCATTATAATAATAATTTAATAATAAT-ATTATAATAATGATTT
* * * * *
19241647 AAATATTTAATGATTTGATGATTTAGTAATTATTTGATAGTAATTATTTGATAGTAATCATTATA
65 AAATATTTAATGATTTGATGATTTAGTAATGATATGATAATAATCATTTGATAATAATCATTATA
*
19241712 ATAATGATT
130 ATAATCATT
* *
19241721 -TAATAATAATCATT-ATAATAATCATTATAATAATAATTTAATAATAATGATTTGATAGTAATG
1 ATAATAATGAT--TTGATAATAATCATTATAATAATAATTTAATAATAAT-A-TT-ATAATAATG
19241784 ATTTA
61 ATTTA
19241789 GTAATGATTA
Statistics
Matches: 178, Mismatches: 16, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
133 23 0.13
134 1 0.01
135 1 0.01
136 15 0.08
138 16 0.09
139 93 0.52
140 8 0.04
141 21 0.12
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (138 bp):
ATAATAATGATTTGATAATAATCATTATAATAATAATTTAATAATAATATTATAATAATGATTTA
AATATTTAATGATTTGATGATTTAGTAATGATATGATAATAATCATTTGATAATAATCATTATAA
TAATCATT
Found at i:19241741 original size:15 final size:14
Alignment explanation
Indices: 19241544--19241793 Score: 132
Period size: 14 Copynumber: 18.4 Consensus size: 14
19241534 TAATGATATG
19241544 ATAATAATCA-TT-
1 ATAATAATCATTTA
* *
19241556 ATAATAATGATTTG
1 ATAATAATCATTTA
19241570 ATAATAATCA-TT-
1 ATAATAATCATTTA
* *
19241582 ATAATAATGATTTG
1 ATAATAATCATTTA
19241596 ATAATAATCA-TT-
1 ATAATAATCATTTA
*
19241608 ATAATAATTATTTA
1 ATAATAATCATTTA
*
19241622 GTAATAATCA-TT-
1 ATAATAATCATTTA
*
19241634 ATAATAATGATTTAA
1 ATAATAATCATTT-A
* *
19241649 ATATTTAATGATTTGA
1 ATA-ATAATCATTT-A
* * *
19241665 TGATTTAGTAATTATTTG
1 --A--TAATAATCATTTA
* * *
19241683 ATAGTAATTATTTG
1 ATAATAATCATTTA
*
19241697 ATAGTAATCA-TT-
1 ATAATAATCATTTA
*
19241709 ATAATAATGATTTA
1 ATAATAATCATTTA
19241723 ATAATAATCA-TT-
1 ATAATAATCATTTA
19241735 ATAATAATCA-TT-
1 ATAATAATCATTTA
*
19241747 ATAATAATAATTTA
1 ATAATAATCATTTA
* *
19241761 ATAATAATGATTTG
1 ATAATAATCATTTA
* *
19241775 ATAGTAATGATTTA
1 ATAATAATCATTTA
*
19241789 GTAAT
1 ATAAT
19241794 GATTAGTAAT
Statistics
Matches: 195, Mismatches: 25, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
12 64 0.33
13 22 0.11
14 84 0.43
15 3 0.02
16 11 0.06
18 1 0.01
19 8 0.04
20 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (14 bp):
ATAATAATCATTTA
Found at i:19241806 original size:49 final size:51
Alignment explanation
Indices: 19241712--19242102 Score: 234
Period size: 48 Copynumber: 7.5 Consensus size: 51
19241702 AATCATTATA
* * * * *
19241712 ATAATGATTTAATAATAATCATTATAATAATCATTA-TAATAATAATTTAATA-
1 ATAATGATTTGATAGTAATGATT-TAGTAATGATTAGTAATAAT-A-TTAATAT
19241764 ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT
1 ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAAT---ATTA--A-T-AT
* * *
19241822 ATTTAATGATTTGATAGTAATGA-TTAGTAAT-AAT-GAAATTATTATTAATAT
1 A--TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA-TAATATTAATAT
* *
19241873 TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTT
1 ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAAT---ATTA--A-T-A--T
* * * * * *
19241933 TTAATGATTTGATAGTAATGA-TTAGTAAT-AAT-GAAATTATTATTACTTT
1 ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA-TAATATTAATAT
* * * * *
19241982 TTAATGATTTGATAGTAATGA-TTAGTAAT-AATAAT-TTATTATTAATAT
1 ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATATTAATAT
* * * * *
19242030 TTAATGATTTGATAGTAATGA-TTAGTAAT-AATAAT-TTATTATTAATAT
1 ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATATTAATAT
*
19242078 TTAATGATTTGATAGTAATGATTTA
1 ATAATGATTTGATAGTAATGATTTA
19242103 CGTCTTGAAC
Statistics
Matches: 289, Mismatches: 24, Indels: 55
0.79 0.07 0.15
Matches are distributed among these distances:
48 79 0.27
49 55 0.19
50 8 0.03
51 17 0.06
52 32 0.11
53 4 0.01
54 6 0.02
55 9 0.03
56 2 0.01
57 8 0.03
58 12 0.04
59 16 0.06
60 41 0.14
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (51 bp):
ATAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATATTAATAT
Found at i:19241880 original size:35 final size:35
Alignment explanation
Indices: 19241839--19241941 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 35
19241829 GATTTGATAG
19241839 TAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
* * * *
19241874 TAATGATT--TGAT-AT----TAATGATT--TA-G
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
*
19241899 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
19241934 TAATGATT
1 TAATGATT
19241942 TGATAGTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 20
0.63 0.12 0.26
Matches are distributed among these distances:
25 8 0.16
26 2 0.04
27 3 0.06
28 8 0.16
32 8 0.16
33 3 0.06
34 1 0.02
35 16 0.33
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.48
Consensus pattern (35 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:19242040 original size:48 final size:48
Alignment explanation
Indices: 19241896--19242514 Score: 512
Period size: 48 Copynumber: 12.4 Consensus size: 48
19241886 ATTAATGATT
* *
19241896 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
* * *
19241945 TAGTAATGATTAGTAATAATGAAATTATTATTACTTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
19241994 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
19242042 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
** * *
19242090 TAGTAATGATTTACGTCTTGAACAATGAATAATGTT-TGGTTCA-ATTCACCAT-ATTT--
1 TAGTAATGA-TTA-G---T----AAT-AATAAT-TTATTATTAATATTTA--ATGATTTGA
* * * * * *
19242146 TCGTTACATAACTAGTAATGA-AA-TTATAATT-ATGATTTAGTAATGA-TTAA
1 TAG-TA-ATGATTAGTAATAATAATTTATTATTAAT-A-TT--TAATGATTTGA
* * * * *
19242196 TAATAATGAAATTATTATTAAT-ATTTAATGATTTGATA-TTAATGA-TT--
1 TAGTAATG--ATTAGTAATAATAATTT-ATTA-TTAATATTTAATGATTTGA
* * *
19242243 TAGTAATGATTAATAATAATGAAATTATTATTCATATTTAATGATTTGATATTAATGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTT-A--A--TG--ATT--TGA
* *
19242301 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
*
19242352 TAGTAATGATTAGTAATAATGGAA-TTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT--AATTTATTATTAATATTTAATGATTTGA
19242401 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
19242449 TAGTAATGATTAGTAATAATAATTTATTACTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
19242497 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
19242515 GATTAGTAAT
Statistics
Matches: 484, Mismatches: 35, Indels: 102
0.78 0.06 0.16
Matches are distributed among these distances:
45 18 0.04
46 8 0.02
47 16 0.03
48 170 0.35
49 159 0.33
50 14 0.03
51 8 0.02
52 3 0.01
53 9 0.02
54 3 0.01
55 2 0.00
56 4 0.01
57 12 0.02
58 17 0.04
59 5 0.01
60 36 0.07
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.46
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
Found at i:19242239 original size:14 final size:14
Alignment explanation
Indices: 19242220--19242303 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 14
19242210 TTATTAATAT
19242220 TTAATGATTTGATA
1 TTAATGATTTGATA
19242234 TTAATGATTTAGTAATGA
1 TTAATGATTT-G--AT-A
* * *
19242252 TTAATAATAATGAAA
1 TTAATGAT-TTGATA
* *
19242267 TT-ATTA-TTCATA
1 TTAATGATTTGATA
19242279 TTTAATGATTTGATA
1 -TTAATGATTTGATA
19242294 TTAATGATTT
1 TTAATGATTT
19242304 AGTAATGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 26 0.49
15 9 0.17
16 1 0.02
17 2 0.04
18 9 0.17
19 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:19242254 original size:60 final size:60
Alignment explanation
Indices: 19242177--19242569 Score: 433
Period size: 60 Copynumber: 7.1 Consensus size: 60
19242167 AATTATAATT
19242177 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
*
19242237 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTCATATTTAATGATTTGATATTA
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
* *
19242297 ATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATG--ATT-
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
* * * *
19242349 -TGA--TAGTAATGATTAGTAATAATGGAATTATTATTAATTTTTAATGATTTGATAGTA
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
*
19242406 ATGA--T--T-A-G--TAATAATAAT----TTATTATTAATATTTAATGATTTGATAGTA
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
*
19242454 ATGA--T--T-A-G--TAATAATAAT----TTATTACTAATATTTAATGATTTGATATTA
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
* * *
19242502 ATGATTTAGTAATGATTAGTAATAATGAAATTATAATTAATATTTAATGATTTGATAGTA
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
19242562 ATGATTTA
1 ATGATTTA
19242570 CGACTTGAAC
Statistics
Matches: 297, Mismatches: 15, Indels: 42
0.84 0.04 0.12
Matches are distributed among these distances:
48 79 0.27
49 34 0.11
50 4 0.01
51 3 0.01
52 11 0.04
53 5 0.02
54 4 0.01
55 3 0.01
56 13 0.04
57 1 0.00
58 4 0.01
59 3 0.01
60 133 0.45
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (60 bp):
ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
Found at i:19242289 original size:407 final size:396
Alignment explanation
Indices: 19241781--19242509 Score: 1296
Period size: 407 Copynumber: 1.8 Consensus size: 396
19241771 TTTGATAGTA
*
19241781 ATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
*
19241846 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTA
66 TAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTA
19241911 ATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTAT
131 ATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTAT
*
19241976 TACTTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG
196 TAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG
*
19242041 ATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGATTTACGT
261 ATAGTAATGATTAGTAATAATAATTTATTACTAATATTTAATGATTTGATAGTAATGATTTACGT
19242106 CTTGAACAATGAATAATGTTTGGTTCAATTCACCATATTTTCGTTACATAACTAGTAATGAAATT
326 CTTGAACAATGAATAATGTTTGGTTCAATTCACCATATTTTCGTTACATAACTAGTAATGAAATT
19242171 ATAATT
391 ATAATT
19242177 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGAT
1 ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTT-A--A--TG--ATT--TGA-
*
19242242 TTAGTAATGATTAATAATAATGAAATTATTATTCATATTTAATGATTTGATATTAATGATTTAGT
56 -TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGT
19242307 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAAT
120 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAAT
*
19242372 GGAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATAT
185 GAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATAT
*
19242437 TTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTACTAATATTTAATGATTTGATATTA
250 TTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTACTAATATTTAATGATTTGATAGTA
19242502 ATGATTTA
315 ATGATTTA
19242510 GTAATGATTA
Statistics
Matches: 315, Mismatches: 7, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
396 44 0.14
397 1 0.00
399 1 0.00
401 2 0.01
403 3 0.01
405 3 0.01
407 261 0.83
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (396 bp):
ATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
TAATAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTA
ATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTAT
TAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG
ATAGTAATGATTAGTAATAATAATTTATTACTAATATTTAATGATTTGATAGTAATGATTTACGT
CTTGAACAATGAATAATGTTTGGTTCAATTCACCATATTTTCGTTACATAACTAGTAATGAAATT
ATAATT
Found at i:19242360 original size:49 final size:49
Alignment explanation
Indices: 19242303--19242567 Score: 345
Period size: 49 Copynumber: 5.2 Consensus size: 49
19242293 ATTAATGATT
19242303 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
19242352 TAGTAATGATTAGTAATAATGGAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
19242401 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* * *
19242449 TAGTAATGATTAGTAATAAT-AATTTATTACTAATATTTAATGATTTGATATTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATG--ATT--TGA
* *
19242506 TTTAGTAATGATTAGTAATAATGAAATTATAATTAATATTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
19242557 TAGTAATGATT
1 TAGTAATGATT
19242568 TACGACTTGA
Statistics
Matches: 192, Mismatches: 12, Indels: 24
0.84 0.05 0.11
Matches are distributed among these distances:
48 58 0.30
49 81 0.42
51 4 0.02
52 1 0.01
53 5 0.03
55 5 0.03
56 1 0.01
57 4 0.02
59 22 0.11
60 11 0.06
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:19242441 original size:21 final size:22
Alignment explanation
Indices: 19242417--19242514 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 22
19242407 TGATTAGTAA
19242417 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
* *
19242438 TAATGATTTGATAGTAATGATT
1 TAATAATTTGATATTAATGATT
* *
19242460 AGTAATAATAATTTATTACTAAT-ATT
1 --TAATAAT--TTGA-TATTAATGATT
*
19242486 TAATGATTTGATATTAATGATT
1 TAATAATTTGATATTAATGATT
*
19242508 TAGTAAT
1 TAATAAT
19242515 GATTAGTAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
21 20 0.34
22 15 0.25
24 12 0.20
26 6 0.10
27 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:19242673 original size:21 final size:20
Alignment explanation
Indices: 19242649--19242737 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 20
19242639 GAAATTATAA
19242649 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * * *
19242670 TAATAATAATGAAATTATTAT
1 TAATATTTA-GTAATGATTAG
* * *
19242691 TAATATTTAATGATTTGA-TAT
1 TAATATTTAGT-A-ATGATTAG
19242712 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
19242733 TAATA
1 TAATA
19242738 ATGAAATTAT
Statistics
Matches: 49, Mismatches: 14, Indels: 11
0.66 0.19 0.15
Matches are distributed among these distances:
20 7 0.14
21 34 0.69
22 8 0.16
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (20 bp):
TAATATTTAGTAATGATTAG
Found at i:19242766 original size:60 final size:61
Alignment explanation
Indices: 19242649--19242780 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 61
19242639 GAAATTATAA
19242649 TAATGATTTAGTAATGATTAGTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAG--ATAATAATGAAATTATTATTAATATTTAATGATTTGATAT
19242712 TAATGATTTAGTAATGATTAG-TAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGATAATAATGAAATTATTATTAATATTTAATGATTTGATAT
19242772 TAATGATTT
1 TAATGATTT
19242781 GTTAAGGTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
60 48 0.70
63 21 0.30
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (61 bp):
TAATGATTTAGTAATGATTAGATAATAATGAAATTATTATTAATATTTAATGATTTGATAT
Found at i:19244785 original size:21 final size:21
Alignment explanation
Indices: 19244741--19244787 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
19244731 ACAACTAATA
*
19244741 AACTATTCTTTAATATAAATT
1 AACTATTCTTTAATATAAAGT
*
19244762 AACTATTCTTTAATATAACGT
1 AACTATTCTTTAATATAAAGT
19244783 AACTA
1 AACTA
19244788 ATAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (21 bp):
AACTATTCTTTAATATAAAGT
Found at i:19244821 original size:27 final size:28
Alignment explanation
Indices: 19244770--19244835 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
19244760 TTAACTATTC
*
19244770 TTTAATATAACGTAACTAATAAAAT-TT
1 TTTAATATAACGTAACTAATAAAATGAT
*
19244797 TTTAATATAACTTAAACTAAT-AAATGAT
1 TTTAATATAACGT-AACTAATAAAATGAT
19244825 TTTAATTATAA
1 TTTAA-TATAA
19244836 TTTATTACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.47
28 13 0.38
29 5 0.15
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (28 bp):
TTTAATATAACGTAACTAATAAAATGAT
Found at i:19245102 original size:18 final size:18
Alignment explanation
Indices: 19245095--19245139 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
19245085 TTTATAATAA
* *
19245095 TAAACTAATTAACTAATT
1 TAAAATAATAAACTAATT
* *
19245113 TATAACAATAAACTAATT
1 TAAAATAATAAACTAATT
19245131 TAAAATAAT
1 TAAAATAAT
19245140 TATTCTTTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATAATAAACTAATT
Found at i:19245110 original size:26 final size:26
Alignment explanation
Indices: 19245081--19245130 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
19245071 TTGTTTTACC
*
19245081 CTAATTTATAATAATAAACTAATTAA
1 CTAATTTATAACAATAAACTAATTAA
19245107 CTAATTTATAACAATAAACTAATT
1 CTAATTTATAACAATAAACTAATT
19245131 TAAAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
CTAATTTATAACAATAAACTAATTAA
Found at i:19245331 original size:18 final size:20
Alignment explanation
Indices: 19245308--19245344 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19245298 AACAATCTAA
19245308 TAATTT-AA-AATTAAAAAC
1 TAATTTAAATAATTAAAAAC
19245326 TAATTTAAATAATTAAAAA
1 TAATTTAAATAATTAAAAA
19245345 ACGTATTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATTTAAATAATTAAAAAC
Found at i:19245397 original size:15 final size:15
Alignment explanation
Indices: 19245379--19245417 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19245369 CTTTCTTCTT
19245379 CTCTCTTTTCCCTTG
1 CTCTCTTTTCCCTTG
* *
19245394 CTCTCTTCTCCCTTT
1 CTCTCTTTTCCCTTG
*
19245409 CTTTCTTTT
1 CTCTCTTTT
19245418 ATGTTTCATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.38, G:0.03, T:0.59
Consensus pattern (15 bp):
CTCTCTTTTCCCTTG
Found at i:19245402 original size:22 final size:21
Alignment explanation
Indices: 19245366--19245408 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
19245356 TGTTATGCTC
* *
19245366 TCCCTTTCTTCTTCTCTCTTT
1 TCCCTTGCTTCTTCTCCCTTT
19245387 TCCCTTGCTCTCTTCTCCCTTT
1 TCCCTTGCT-TCTTCTCCCTTT
19245409 CTTTCTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (21 bp):
TCCCTTGCTTCTTCTCCCTTT
Found at i:19245752 original size:29 final size:29
Alignment explanation
Indices: 19245710--19245765 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
19245700 AAAGAATGTT
19245710 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
19245739 GGACGCCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
19245766 GCTGTCACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.39, T:0.14
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:19246193 original size:156 final size:159
Alignment explanation
Indices: 19245967--19246282 Score: 602
Period size: 156 Copynumber: 2.0 Consensus size: 159
19245957 GTATGACTGA
19245967 GCTCAACTACAAAATCATCAAAAATGTGTAAAATAATAAAGCCGCCATGTTTTCCCACCTCATCT
1 GCTCAACTACAAAATCATCAAAAATGTGTAAAATAATAAAGCCGCCATGTTTTCCCACCTCATCT
19246032 GGTCGCCAATGAGACCGAAATGCCTGTAGGAACTTTCA-A-TAT-CGACCATATTTTAGATTCCA
66 GGTCGCCAATGAGACCGAAATGCCTGTAGGAACTTTCACATTATCCGACCATATTTTAGATTCCA
19246094 AATAAAGCTTCGAAATTTTCCCTGCCACG
131 AATAAAGCTTCGAAATTTTCCCTGCCACG
19246123 GCTCAACTACAAAATCATCAAAAATGTGTAAAATAATAAAGCCGCCATGTTTTCCCACCTCATCT
1 GCTCAACTACAAAATCATCAAAAATGTGTAAAATAATAAAGCCGCCATGTTTTCCCACCTCATCT
19246188 GGTCGCCAATGAGACCGAAATGCCTGTAGGAACTTTCACATTATCCCGACCATATTTTAGATTCC
66 GGTCGCCAATGAGACCGAAATGCCTGTAGGAACTTTCACATTAT-CCGACCATATTTTAGATTCC
19246253 AAATAAAGCTTCGAAATTTTCCCTGCCACG
130 AAATAAAGCTTCGAAATTTTCCCTGCCACG
19246283 CGTCCCATAT
Statistics
Matches: 156, Mismatches: 0, Indels: 4
0.98 0.00 0.03
Matches are distributed among these distances:
156 103 0.66
157 1 0.01
158 3 0.02
160 49 0.31
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (159 bp):
GCTCAACTACAAAATCATCAAAAATGTGTAAAATAATAAAGCCGCCATGTTTTCCCACCTCATCT
GGTCGCCAATGAGACCGAAATGCCTGTAGGAACTTTCACATTATCCGACCATATTTTAGATTCCA
AATAAAGCTTCGAAATTTTCCCTGCCACG
Found at i:19249814 original size:4 final size:4
Alignment explanation
Indices: 19249805--19249899 Score: 52
Period size: 4 Copynumber: 22.8 Consensus size: 4
19249795 AAAGGGTTAA
* * * *
19249805 AAAT AAAT AAAT AAATT AAAT CATAT TAAC AAAA AGAAT AAATT AAA-
1 AAAT AAAT AAAT AAA-T AAAT -AAAT AAAT AAAT A-AAT AAA-T AAAT
* *
19249852 AAAT AAAAT AAA- AAATT AAAGG AAAT AAAT AAAC AAAT AAAT -AAT AAA
1 AAAT -AAAT AAAT AAA-T AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAA
19249900 AAGAGTGAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
3 9 0.13
4 37 0.53
5 24 0.34
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:19251144 original size:6 final size:6
Alignment explanation
Indices: 19251133--19251205 Score: 53
Period size: 6 Copynumber: 12.0 Consensus size: 6
19251123 ATCATCAGAA
** *
19251133 AAAAAT AAAAAT ATTAAT AAAAGA- AAAAAT --AAAT AAAATT AATATAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AA-A-AAT
*
19251181 ATAATAT AAAAAT AAAAAT AAAAAT
1 A-AAAAT AAAAAT AAAAAT AAAAAT
19251206 CATTTTTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
4 4 0.08
5 1 0.02
6 37 0.71
7 5 0.10
8 4 0.08
9 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (6 bp):
AAAAAT
Found at i:19251364 original size:37 final size:37
Alignment explanation
Indices: 19251200--19251612 Score: 309
Period size: 35 Copynumber: 11.4 Consensus size: 37
19251190 AAATAAAAAT
* **
19251200 AAAAATCATTTTTAAAACTATATATTATATATGCTTTC
1 AAAAAT-ATTTTCAAAACTATATATTATATATATTTTC
* * *
19251238 AGAAATTATTTTCAAAACCATATA--ATATATACTTTC
1 A-AAAATATTTTCAAAACTATATATTATATATATTTTC
* *
19251274 AAAAATGTTTTTAAAA-T-TATA-TA-ATATATTTTC
1 AAAAATATTTTCAAAACTATATATTATATATATTTTC
* *
19251307 AAAAA-ATTTCCAAAAC--TATATTATATACATTTTC
1 AAAAATATTTTCAAAACTATATATTATATATATTTTC
*
19251341 AAAAATATTTTTAAAACTATATATTATATATATTTTTTC
1 AAAAATATTTTCAAAACTATATATTATATATA--TTTTC
*
19251380 AAAAATGTTTTCAAAAC--TATA-TA-ATATATTTTC
1 AAAAATATTTTCAAAACTATATATTATATATATTTTC
* *
19251413 AAAAAATGTTTTCAAAACTATA-A-TATATATATATTC
1 -AAAAATATTTTCAAAACTATATATTATATATATTTTC
* * *
19251449 AAAAATGTTTTCAAAACTA-A-ATAATATATATTCTC
1 AAAAATATTTTCAAAACTATATATTATATATATTTTC
* *
19251484 GAAAACTATTTTCAAAACT-TATA--ATATATATTCTC
1 -AAAAATATTTTCAAAACTATATATTATATATATTTTC
* * *
19251519 AAAAACTGATTTTTAAAA-AATATATATATTATATGTTTTC
1 AAAAA-T-ATTTTCAAAACTATATAT-TA-TATATATTTTC
*
19251559 AAAAA-ACCGTTTTCTAAAA-TTTATA-TAT-TATATTTTTC
1 AAAAATA---TTTTC-AAAACTATATATTATATATA-TTTTC
19251597 AAAAATATTTTCAAAA
1 AAAAATATTTTCAAAA
19251613 AATAAGCTCC
Statistics
Matches: 311, Mismatches: 33, Indels: 65
0.76 0.08 0.16
Matches are distributed among these distances:
32 11 0.04
33 25 0.08
34 38 0.12
35 75 0.24
36 60 0.19
37 21 0.07
38 27 0.09
39 28 0.09
40 18 0.06
41 8 0.03
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (37 bp):
AAAAATATTTTCAAAACTATATATTATATATATTTTC
Found at i:19251401 original size:106 final size:105
Alignment explanation
Indices: 19251220--19251612 Score: 363
Period size: 108 Copynumber: 3.7 Consensus size: 105
19251210 TTTAAAACTA
** * * *
19251220 TATATTATATATGCTTTCAGAAATTATTTTCAAAACCATATA-ATATATA-CTTTCAAAAATGTT
1 TATATTATATATATTTTCA-AAAATATTTTCAAAACTATATATATATATATTTTTCAAAAATGTT
* *
19251283 TTTAAAATTATATAATATATTTTCAAAAAA-TTTCCAAAAC
65 TTCAAAACTATATAATATATTTTCAAAAAAGTTTCCAAAAC
* *
19251323 TATATTATATACATTTTCAAAAATATTTTTAAAACTATATATTATATATATTTTTTCAAAAATGT
1 TATATTATATATATTTTCAAAAATATTTTCAAAACTATATA-TATATATA-TTTTTCAAAAATGT
*
19251388 TTTCAAAACTATATAATATATTTTCAAAAAATGTTTTCAAAAC
64 TTTCAAAACTATATAATATATTTTCAAAAAA-GTTTCCAAAAC
* * * * * * *
19251431 TATAATATATATATATTCAAAAATGTTTTCAAAACTAAATA-ATATATA-TTCTCGAAAACTATT
1 TATATTATATATATTTTCAAAAATATTTTCAAAACTATATATATATATATTTTTC-AAAAATGTT
* ** *
19251494 TTCAAAACT-TATAATATATATTCTCAAAAACTGATTTTTAAAAAA
65 TTCAAAACTATATAATATAT-TT-TCAAAAA---AGTTTCCAAAAC
* *
19251539 TATATATATTATATGTTTTCAAAAA-ACCGTTTTCTAAAA-TTTATATAT-TATATTTTTCAAAA
1 TATAT-TA-TATATATTTTCAAAAATA---TTTTC-AAAACTATATATATATATATTTTTCAAAA
*
19251601 ATATTTTCAAAA
60 ATGTTTTCAAAA
19251613 AATAAGCTCC
Statistics
Matches: 240, Mismatches: 30, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
102 19 0.08
103 16 0.07
104 21 0.09
105 18 0.08
106 55 0.23
108 56 0.23
109 3 0.01
110 14 0.06
112 28 0.12
113 10 0.04
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (105 bp):
TATATTATATATATTTTCAAAAATATTTTCAAAACTATATATATATATATTTTTCAAAAATGTTT
TCAAAACTATATAATATATTTTCAAAAAAGTTTCCAAAAC
Found at i:19252306 original size:85 final size:85
Alignment explanation
Indices: 19252158--19252736 Score: 818
Period size: 85 Copynumber: 6.8 Consensus size: 85
19252148 GCTGTCATCA
* * *
19252158 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTAACAGATATCCCTTCTCGCCTTGAGTTATGCT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
19252223 GTAAATTTGATATGCCCTTG
66 GTAAATTTGATATGCCCTTG
* * * *
19252243 AGCTGAATGTAATCGAACTCGAAAGCTTTTGTTGACAGATAGCCCTTATCGCCTTGAGCTATGCT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
**
19252308 GTAAATTTGATATATCCTTG
66 GTAAATTTGATATGCCCTTG
* * ** * * *
19252328 AGATGCATGTAATAAAACTCGAAGGTTTTTGTTGACATATAACCCTTCTCACCTTGAGCTATTCT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
19252393 GTAAATTTGATATGCCCTTG
66 GTAAATTTGATATGCCCTTG
* * *
19252413 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGATAGATAACTCTTCTCGCCTTGAGCTATGTT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
19252478 GTAAATTTGATATGCCCTTG
66 GTAAATTTGATATGCCCTTG
* * * * *
19252498 AGCTGAATGTAATTGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGACTTGTGCTATACT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
* * *
19252563 ATAAATTTTATATTCCCTTG
66 GTAAATTTGATATGCCCTTG
* * *
19252583 AGCTGAATGTAATCGAACTTGAAGGTTTTTGTTGACAGATAGCCATTCTCGCCTTGAGCTATGCT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
19252648 GTAAAATTTGATATGCCCTTG
66 GT-AAATTTGATATGCCCTTG
* * * * * *
19252669 AGCTGAATGTAATCAAACTTGAAGG-TTTTGTTGACATATAACCCTTTTCGCCTTGAGCAATGTT
1 AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
19252733 GTAA
66 GTAA
19252737 CTTCAACTGA
Statistics
Matches: 435, Mismatches: 58, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
84 2 0.00
85 393 0.90
86 40 0.09
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (85 bp):
AGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
GTAAATTTGATATGCCCTTG
Found at i:19256716 original size:7 final size:6
Alignment explanation
Indices: 19256687--19256716 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19256677 TTGTAATTGC
19256687 TAAAAT TAAAAT TAAAAT TAAAATT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAA-T TAAAA
19256717 ATTCATTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:19256849 original size:4 final size:4
Alignment explanation
Indices: 19256840--19256940 Score: 52
Period size: 4 Copynumber: 24.8 Consensus size: 4
19256830 AAATGGTTAA
* *
19256840 AAAT AAAT AAAT AAAAT CATAT TAAT AGAA- AGAAT AAATT AAA- AAAT
1 AAAT AAAT AAAT -AAAT -AAAT AAAT A-AAT A-AAT AAA-T AAAT AAAT
* *
19256887 AAAAT AAA- AAAT AAATTT AAA- AGA- AAAT AAAT AAAC AAAT AAAT AAAT
1 -AAAT AAAT AAAT AAA--T AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
19256935 -AAT AAA
1 AAAT AAA
19256941 AAGAGTGAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
3 13 0.17
4 42 0.55
5 18 0.23
6 4 0.05
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:19256889 original size:12 final size:11
Alignment explanation
Indices: 19256844--19256940 Score: 59
Period size: 12 Copynumber: 7.6 Consensus size: 11
19256834 GGTTAAAAAT
19256844 AAATAAATAAA
1 AAATAAATAAA
*
19256855 ATCATATTAATAGAA
1 A--A-ATAAATA-AA
19256870 AGAATAAATTAAA
1 A-AATAAA-TAAA
19256883 AAATAAAATAAA
1 AAAT-AAATAAA
19256895 AAATAAATTTAAAAGA
1 AAATAAA--T--AA-A
19256911 AAATAAATAAA
1 AAATAAATAAA
19256922 CAAATAAATAAA
1 -AAATAAATAAA
*
19256934 TAATAAA
1 AAATAAA
19256941 AAGAGTGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 24
0.71 0.04 0.24
Matches are distributed among these distances:
11 11 0.16
12 24 0.34
13 12 0.17
14 10 0.14
15 5 0.07
16 8 0.11
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:19258085 original size:18 final size:19
Alignment explanation
Indices: 19258050--19258086 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19258040 CACGAAATGT
19258050 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
19258070 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
19258087 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:19264772 original size:44 final size:42
Alignment explanation
Indices: 19264716--19264839 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 42
19264706 TTTGTGCTTC
* * *
19264716 ATGCACCGATGCATTTAACAATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCA-TAAACAATGCACCGATGCATCCC-TTGAAT
* * * * *
19264760 ATGTATCGATGCATCACCATGATGCACCGATACATGCCTTGAAT
1 ATGCATCGATGCATAAACA--ATGCACCGATGCATCCCTTGAAT
*
19264804 ATGCATCGATGCATAAGACCATGCACCGATGCATCC
1 ATGCATCGATGCATAA-ACAATGCACCGATGCATCC
19264840 GTCGGGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
43 18 0.28
44 31 0.48
45 15 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCATCGATGCATAAACAATGCACCGATGCATCCCTTGAAT
Found at i:19266407 original size:21 final size:21
Alignment explanation
Indices: 19266381--19266424 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19266371 ACTCCGGGAG
*
19266381 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
19266402 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
19266423 CT
1 CT
19266425 CCTCCTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:19267505 original size:19 final size:19
Alignment explanation
Indices: 19267481--19267519 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
19267471 TCGAATGCAT
19267481 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
19267500 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
19267519 T
1 T
19267520 GAATACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:19267644 original size:64 final size:65
Alignment explanation
Indices: 19267467--19267629 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
19267457 GAATTAATTG
* * * *
19267467 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATACTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTCAA
* ** ** *
19267532 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-CTTTCA
19267595 A
65 A
19267596 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
19267630 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATACTTTCAA
Found at i:19267716 original size:22 final size:22
Alignment explanation
Indices: 19267685--19267742 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
19267675 TTTTACACTG
*
19267685 ATGCACCGATGCATCCTCCATC
1 ATGCATCGATGCATCCTCCATC
19267707 ATGCATCGATGCATCCTCCATC
1 ATGCATCGATGCATCCTCCATC
19267729 ATGCATCGATGCAT
1 ATGCATCGATGCAT
19267743 GATACGCTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (22 bp):
ATGCATCGATGCATCCTCCATC
Found at i:19268699 original size:19 final size:19
Alignment explanation
Indices: 19268675--19268719 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19268665 ACATTGGACC
19268675 AAAAAAT-TCAGAAAAAAGA
1 AAAAAATGTCA-AAAAAAGA
* *
19268694 AAAAAATGTTAATAAAAGA
1 AAAAAATGTCAAAAAAAGA
19268713 AAAAAAT
1 AAAAAAT
19268720 AAATAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (19 bp):
AAAAAATGTCAAAAAAAGA
Found at i:19268818 original size:34 final size:32
Alignment explanation
Indices: 19268759--19268891 Score: 176
Period size: 34 Copynumber: 4.0 Consensus size: 32
19268749 AATAAAAATC
* *
19268759 ATTTTTAAAACTATATATTATATTTTCAAAAA
1 ATTTTCAAAACTATATAATATATTTTCAAAAA
* *
19268791 ATTTCCAAAACTATATTATATACATTTTCAAAAA
1 ATTTTCAAAACTATA-TA-ATATATTTTCAAAAA
19268825 ATGTTTTCAAAACTATATAATATATTTTCAAAAAA
1 A--TTTTCAAAACTATATAATATATTTTC-AAAAA
19268860 TATTTTCAAAACTATATAATATATTTTCAAAA
1 -ATTTTCAAAACTATATAATATATTTTCAAAA
19268892 CTATAATATA
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.15
33 6 0.07
34 49 0.55
35 7 0.08
36 14 0.16
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (32 bp):
ATTTTCAAAACTATATAATATATTTTCAAAAA
Found at i:19268837 original size:68 final size:68
Alignment explanation
Indices: 19268760--19268891 Score: 196
Period size: 68 Copynumber: 1.9 Consensus size: 68
19268750 ATAAAAATCA
* *
19268760 TTTTTAAAACTATATATTATATTTTC-AAAAA-ATTTCCAAAACTATATTATATACATTTTCAAA
1 TTTTCAAAACTATATAATATATTTTCAAAAAATATTTCCAAAACTATA-TA-ATACATTTTCAAA
19268823 AAATG
64 AAATG
* *
19268828 TTTTCAAAACTATATAATATATTTTCAAAAAATATTTTCAAAACTATATAATATATTTTCAAAA
1 TTTTCAAAACTATATAATATATTTTCAAAAAATATTTCCAAAACTATATAATACATTTTCAAAA
19268892 CTATAATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 37 0.64
69 7 0.12
70 14 0.24
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (68 bp):
TTTTCAAAACTATATAATATATTTTCAAAAAATATTTCCAAAACTATATAATACATTTTCAAAAA
ATG
Found at i:19268854 original size:21 final size:21
Alignment explanation
Indices: 19268828--19268906 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
19268818 TCAAAAAATG
19268828 TTTTCAAAACTATATAATATA
1 TTTTCAAAACTATATAATATA
19268849 TTTTC--AA--A-A-AATAT-
1 TTTTCAAAACTATATAATATA
19268863 T-TTCAAAACTATATAATATA
1 TTTTCAAAACTATATAATATA
19268883 TTTTCAAAACTATAATATATATA
1 TTTTCAAAACTAT-ATA-ATATA
19268906 T
1 T
19268907 ATATATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
13 3 0.06
14 1 0.02
15 7 0.15
16 1 0.02
17 2 0.04
18 1 0.02
19 7 0.15
20 1 0.02
21 16 0.33
22 3 0.06
23 6 0.12
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTCAAAACTATATAATATA
Found at i:19268864 original size:13 final size:13
Alignment explanation
Indices: 19268846--19268870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19268836 ACTATATAAT
19268846 ATATTTTCAAAAA
1 ATATTTTCAAAAA
19268859 ATATTTTCAAAA
1 ATATTTTCAAAA
19268871 CTATATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTTTCAAAAA
Found at i:19269020 original size:14 final size:14
Alignment explanation
Indices: 19269001--19269027 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19268991 ACTATATATT
19269001 ATATTTTCAAAAAA
1 ATATTTTCAAAAAA
19269015 ATATTTTCAAAAA
1 ATATTTTCAAAAA
19269028 TGTTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATTTTCAAAAAA
Found at i:19269240 original size:6 final size:6
Alignment explanation
Indices: 19269229--19269254 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19269219 TTTAGTAGGG
19269229 AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AA
19269255 TTAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:19274347 original size:33 final size:33
Alignment explanation
Indices: 19274300--19274403 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
19274290 ACAAAGTTTA
* *
19274300 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
*
19274332 CGATAAATTCAAATACTTAAAAACTTTCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
19274365 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
19274398 CGATAA
1 CGATAA
19274404 TTGAAACAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 4 0.06
33 63 0.94
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:19274423 original size:21 final size:21
Alignment explanation
Indices: 19274398--19274439 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19274388 CTTCCAAGTT
19274398 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
19274419 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
19274440 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:19274831 original size:87 final size:87
Alignment explanation
Indices: 19274685--19274847 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
19274675 TATGTTATAT
19274685 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
19274750 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
19274772 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
19274837 AGCGCTTATAT
66 AGCGCTTATAT
19274848 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:19278573 original size:120 final size:120
Alignment explanation
Indices: 19278360--19278606 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
19278350 TATTTCTTCC
* *
19278360 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGTT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
*
19278425 AATAAAACCGGTATACTTATATCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
19278480 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * *
19278545 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
19278600 ATTCTGG
1 ATTCTGG
19278607 GTTCCGATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:19278742 original size:303 final size:303
Alignment explanation
Indices: 19278195--19279389 Score: 2232
Period size: 303 Copynumber: 4.0 Consensus size: 303
19278185 TTAAAATTAG
*
19278195 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
19278260 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* * * *
19278325 CACTTTTTGATAAGGTATCGACACATATTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
* * *
19278390 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGTTAATAAAACCGGTATACTTATATCGGTTATA
196 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
19278455 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
19278498 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
19278563 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
19278628 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
19278693 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
19278758 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
19278801 CGACAC-AAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
19278864 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
19278929 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
19278994 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
19279059 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
19279102 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
19279167 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* * *
19279232 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAAAATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
* * * *
19279297 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
19279362 TTACAAAATTATCTATTACATTATAATT
261 TTACAAAATTATCTAGTACATTATAATT
19279390 TTGGGTTCCG
Statistics
Matches: 874, Mismatches: 16, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
301 258 0.30
302 86 0.10
303 530 0.61
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTAGACATAAAGTACCAACACAATATT
AAAAAGTGTCAACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:19278890 original size:118 final size:120
Alignment explanation
Indices: 19278663--19278907 Score: 413
Period size: 118 Copynumber: 2.1 Consensus size: 120
19278653 TTTTTCTTCC
*
19278663 ATTCTAGACATAAAGTACCAACACAATATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCAACACAATATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
19278728 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* * *
19278783 ATTCTGGACATAAAGTACCGACACAA-ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCAACACAATATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
* * *
19278847 CAT-AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
19278901 ATTCTGG
1 ATTCTGG
19278908 GTTCCGATGT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
118 56 0.47
119 38 0.32
120 24 0.20
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCAACACAATATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:19279177 original size:120 final size:120
Alignment explanation
Indices: 19278964--19279210 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
19278954 TTTTTCTTCC
* *
19278964 ATTCTAGACATAAAGTACCAACACAATATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCAACACAAAATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
19279029 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* * *
19279084 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCAACACAAAATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
* * *
19279149 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
19279204 ATTCTGG
1 ATTCTGG
19279211 GTTCCGATGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCAACACAAAATTAAAAAGTGTCAACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:19279397 original size:183 final size:183
Alignment explanation
Indices: 19279084--19279672 Score: 1038
Period size: 183 Copynumber: 3.2 Consensus size: 183
19279074 GTACATTATA
19279084 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
19279149 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
19279214 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
19279267 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
19279332 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
19279397 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
* *
19279450 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
19279515 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTTTTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
* * * *
19279580 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCAACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
19279634 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGT
19279673 GAAAACTTTG
Statistics
Matches: 392, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 313 0.80
184 75 0.19
186 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:19280890 original size:3 final size:3
Alignment explanation
Indices: 19280882--19280929 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
19280872 ACTTGTTTGG
* * * * *
19280882 ATC ATC ATC ATC ATC ATC ATC ATC GTC GTC GTC ATC TTC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
19280930 TACATCGTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:19280930 original size:12 final size:12
Alignment explanation
Indices: 19280883--19280952 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
19280873 CTTGTTTGGA
* *
19280883 TCATCATCATCA
1 TCATCGTCATCT
* *
19280895 TCATCATCATCG
1 TCATCGTCATCT
*
19280907 TCGTCGTCATCT
1 TCATCGTCATCT
19280919 TCATCGTCATCT
1 TCATCGTCATCT
* *
19280931 ACATCGTCAGCT
1 TCATCGTCATCT
*
19280943 TCATCTTCAT
1 TCATCGTCAT
19280953 TGACCGCTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:19280952 original size:6 final size:6
Alignment explanation
Indices: 19280883--19280939 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
19280873 CTTGTTTGGA
* * * * *
19280883 TCATCA TCATCA TCATCA TCATCG TCGTCG TCATCT TCATCG TCATC-
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
19280930 TACATCG TCA
1 T-CATCG TCA
19280940 GCTTCATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
5 1 0.02
6 42 0.95
7 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (6 bp):
TCATCG
Found at i:19282851 original size:179 final size:179
Alignment explanation
Indices: 19282551--19283500 Score: 1243
Period size: 179 Copynumber: 5.1 Consensus size: 179
19282541 TTTTATATAT
* * * *
19282551 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAAC
19282616 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
19282681 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
19282730 GGATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAAC
*
19282795 TACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* *
19282860 GATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATC
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
*
19282909 GGATCGACACTTTTTATATATTGATCGACACTTTATTGTTGTACCCTGTTTGCCATTCATTCTGG
1 GGATCGACAC--TTTAT-TGTTG--C-AC-C---A-TGTT-TA---------CCATTCATTCTGG
*
19282974 ACCAAAAATATTGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAA
45 ACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAA
* *
19283039 CCAGTATACTTGTACCGGTTAGATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGT
110 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGT
19283104 TTATG
175 TTATG
* *
19283109 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAAC
*
19283174 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
19283239 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATC
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
* * * * * *****
19283288 GGAGCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGG
1 GGATCGACAC---TT-TAT-T-G-TTG-CAC--CA-TGTT-TA-CC--ATT--CATTC-TGGACC
** *
19283353 ACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAA
48 AAAAAT---ATCGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAA
* * *
19283418 CTGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGT
110 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGT
19283483 TTATG
175 TTATG
19283488 GGATCGACACTTT
1 GGATCGACACTTT
19283501 TTATATATGG
Statistics
Matches: 688, Mismatches: 41, Indels: 67
0.86 0.05 0.08
Matches are distributed among these distances:
179 334 0.49
181 5 0.01
182 6 0.01
183 3 0.00
184 2 0.00
185 3 0.00
186 3 0.00
187 3 0.00
188 1 0.00
189 5 0.01
190 8 0.01
191 2 0.00
192 2 0.00
193 1 0.00
194 4 0.01
195 1 0.00
196 6 0.01
197 10 0.01
198 5 0.01
200 284 0.41
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (179 bp):
GGATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAAC
TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATG
Found at i:19283076 original size:200 final size:200
Alignment explanation
Indices: 19282731--19283121 Score: 701
Period size: 200 Copynumber: 2.0 Consensus size: 200
19282721 ATGTTTATGG
19282731 GATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACT
1 GATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACT
*
19282796 ACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
66 ACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCGGTTAG
19282861 ATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATCGGATCGACACTTTTTAT
131 ATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATCGGATCGACACTTTTTAT
19282926 ATATT
196 ATATT
* * * *
19282931 GATCGACACTTTATTGTTGTACCCTGTTTGCCATTCATTCTGGACCAAAAATATTGACACAAACT
1 GATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACT
*
19282996 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCAGTATACTTGTACCGGTTAG
66 ACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCGGTTAG
* * *
19283061 ATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTT
131 ATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATCGGATCGACACTTT
19283122 ATTGTTGCAC
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
200 182 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (200 bp):
GATCGACACTTTATTGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAAAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCGGTTAG
ATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATCGGATCGACACTTTTTAT
ATATT
Found at i:19283102 original size:379 final size:379
Alignment explanation
Indices: 19282422--19283500 Score: 1901
Period size: 379 Copynumber: 2.8 Consensus size: 379
19282412 AACATTAAAC
* * * *
19282422 AGTGTCGATACA-TATTATATACCA-ATTCTCCCATAAAACTGGTATGCTTATACCGGTTAGATT
1 AGTGTCGATACATTATT-TAGA-CATATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATT
* * * * *
19282485 GAAAAATTACCTAATACATTAAACTTTTGGGTTTCGATATTTATGGGATCGACACTTTTTATATA
64 GAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATA
* *
19282550 TGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAA
129 TGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAA
19282615 CTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTT
194 CTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTT
19282680 AGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTAT
259 AGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTAT
19282745 TGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACTACAAA
324 TGTTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACTACAAA
*
19282801 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
* *
19282866 AAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATCGGATCGACACTTTTTATATATT
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
* *
19282931 GATCGACACTTTATTGTTGTACCCTGTTTGCCATTCATTCTGGACCAAAAATATTGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
19282996 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCAGTATACTTGTACCGGTTAG
196 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
*
19283061 ATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTATTG
261 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTATTG
* *
19283126 TTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAA
326 TTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACTACAAA
*
19283180 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
*
19283245 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGAGCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
19283310 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
* *
19283375 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTAG
196 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
*
19283440 ATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
261 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTT
19283501 TTATATATGG
Statistics
Matches: 666, Mismatches: 32, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
378 2 0.00
379 660 0.99
380 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (379 bp):
AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTATTG
TTGCACCATGTTTACCATTCATTCTGGACCAAAAATATCGACACAAACTACAAA
Found at i:19283452 original size:200 final size:200
Alignment explanation
Indices: 19283109--19283543 Score: 825
Period size: 200 Copynumber: 2.2 Consensus size: 200
19283099 GATGTTTATG
19283109 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
19283174 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTA
19283239 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGAGCGACACTTTTTA
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGAGCGACACTTTTTA
19283304 TATAT
196 TATAT
19283309 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
19283374 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTA
66 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTA
* * *
19283439 GATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGAGCGACACTTTTTA
19283504 TATAT
196 TATAT
*
19283509 GGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
1 GGATCGACACTTTATTGTTGCACCCTGTTTGCCAT
19283544 ATTGTAAATT
Statistics
Matches: 230, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 230 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTA
GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGAGCGACACTTTTTA
TATAT
Found at i:19283788 original size:18 final size:18
Alignment explanation
Indices: 19283765--19283825 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
19283755 TCTCATTCAT
*
19283765 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
19283783 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
19283802 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
19283821 AATTA
1 AATTA
19283826 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:19283801 original size:19 final size:19
Alignment explanation
Indices: 19283777--19283825 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
19283767 TTATATTCAC
19283777 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
19283796 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
19283815 ATACAAAATTA
1 ATACAAAATTA
19283826 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:19285654 original size:33 final size:33
Alignment explanation
Indices: 19285617--19285682 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
19285607 CATCTTAATA
*
19285617 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
19285650 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
19285683 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:19285741 original size:21 final size:21
Alignment explanation
Indices: 19285716--19285780 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
19285706 CCCCTTATGC
*
19285716 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
*
19285737 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
* *
19285758 CTATCAAGTTTTTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
19285779 CT
1 CT
19285781 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTATCTTCGACT
Found at i:19292893 original size:21 final size:21
Alignment explanation
Indices: 19292867--19292906 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19292857 CCCCCTTTGA
*
19292867 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
19292888 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
19292907 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:19297532 original size:20 final size:19
Alignment explanation
Indices: 19297477--19297523 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
19297467 TCCGGTATCG
19297477 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
19297496 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
19297517 TTTTACC
1 TTTTACC
19297524 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:19297918 original size:181 final size:181
Alignment explanation
Indices: 19297444--19297916 Score: 694
Period size: 181 Copynumber: 2.6 Consensus size: 181
19297434 CATACTTACG
*
19297444 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
19297509 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
19297574 AGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTATCGATCATTATAT
131 AGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTATCGATCATTATAT
* *
19297625 AAAATATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
19297690 TATCATATTTTTACCTGGTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** * * * *
19297755 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTATCGATCATTATA-T
* * * * * **
19297807 AAAGTACCGACACTTTTAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
19297872 TGTCATAGTTTTACCTGTTATATTATTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTT
19297917 AATTTGGATC
Statistics
Matches: 261, Mismatches: 30, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
181 164 0.63
182 97 0.37
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTATCGATCATTATAT
Found at i:19300598 original size:20 final size:20
Alignment explanation
Indices: 19300575--19300626 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
19300565 AACGCGATCC
19300575 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
19300595 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
19300615 CCAAAATCGCAA
1 CCAGAATCGCAA
19300627 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:19300643 original size:21 final size:20
Alignment explanation
Indices: 19300616--19300714 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
19300606 AATCAGTTTC
19300616 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
19300637 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
19300658 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
19300678 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
19300699 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
19300715 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:19300743 original size:20 final size:20
Alignment explanation
Indices: 19300681--19300874 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
19300671 CGATTTTCCA
* ** *
19300681 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
19300701 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
19300721 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
19300741 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
19300761 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
19300781 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
19300801 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
19300821 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
19300841 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
19300862 AAATCGCAACGCG
1 AAATCGCAACGCG
19300875 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:19300765 original size:60 final size:60
Alignment explanation
Indices: 19300681--19300874 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
19300671 CGATTTTCCA
* ** * *
19300681 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
19300741 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
19300801 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
19300862 AAATCGCAACGCG
1 AAATCGCAACGCG
19300875 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:19301292 original size:33 final size:33
Alignment explanation
Indices: 19301253--19301323 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
19301243 TTCACTTAGA
*
19301253 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
19301286 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
19301319 TTTCA
1 TTTCA
19301324 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:19301462 original size:14 final size:14
Alignment explanation
Indices: 19301443--19301497 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
19301433 AGAATGACTG
19301443 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
19301457 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
19301476 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
19301490 TCGCAACG
1 TCGCAACG
19301498 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:19301510 original size:33 final size:33
Alignment explanation
Indices: 19301443--19301513 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
19301433 AGAATGACTG
***
19301443 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
19301476 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
19301509 TCGCA
1 TCGCA
19301514 TTGCGATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:19301561 original size:33 final size:33
Alignment explanation
Indices: 19301514--19301627 Score: 185
Period size: 33 Copynumber: 3.5 Consensus size: 33
19301504 CAAAATCGCA
* *
19301514 TTGCGA-TTTCATTTCGCGTTACGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
19301546 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
19301579 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
19301612 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
19301628 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 6 0.08
33 69 0.92
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:19301568 original size:19 final size:18
Alignment explanation
Indices: 19301509--19301605 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 18
19301499 GAAACCAAAA
*
19301509 TCGCATTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
* *
19301527 TCGCGTTACGA-TTC-TG
1 TCGCGTTGCGATTTCATT
19301543 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
19301560 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
19301574 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATT
19301593 TCGCGTTGCGATT
1 TCGCGTTGCGATT
19301606 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
14 17 0.27
15 1 0.02
16 7 0.11
17 8 0.13
18 9 0.15
19 20 0.32
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:19301582 original size:14 final size:14
Alignment explanation
Indices: 19301563--19301619 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
19301553 TTTCATTTCG
19301563 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
19301577 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
19301594 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
19301610 CGTTGCGATT
1 CGTTGCGATT
19301620 TTCATTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 5 0.13
17 5 0.13
18 1 0.03
19 8 0.21
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:19303554 original size:185 final size:186
Alignment explanation
Indices: 19303324--19303705 Score: 748
Period size: 185 Copynumber: 2.1 Consensus size: 186
19303314 TAGATTGCTT
19303324 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19303389 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
19303454 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
19303509 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19303574 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
19303639 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
19303695 AGTAAATTTAT
1 AGTAAATTTAT
19303706 CCATTCAAGT
Statistics
Matches: 194, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
185 154 0.79
186 40 0.21
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:19303638 original size:93 final size:93
Alignment explanation
Indices: 19303324--19303703 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
19303314 TAGATTGCTT
*
19303324 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19303389 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
19303417 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19303481 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
19303509 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19303574 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
19303602 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
19303667 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
19303695 AGTAAATTT
1 AGTAAATTT
19303704 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:19303787 original size:19 final size:19
Alignment explanation
Indices: 19303747--19303875 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
19303737 TAGTTTACTT
* *
19303747 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
19303767 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
19303786 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
19303805 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
19303819 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
19303838 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
19303852 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
19303871 TCGCA
1 TCGCA
19303876 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:19303826 original size:33 final size:32
Alignment explanation
Indices: 19303783--19303875 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
19303773 CGCGAAACCA
**
19303783 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
19303815 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
19303848 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
19303876 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:19303873 original size:52 final size:52
Alignment explanation
Indices: 19303747--19303875 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
19303737 TAGTTTACTT
**
19303747 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
19303799 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
19303852 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
19303876 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:19303893 original size:19 final size:19
Alignment explanation
Indices: 19303871--19304005 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
19303861 GAAACCAAAA
*
19303871 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
19303890 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
19303906 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
19303923 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
19303939 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
19303956 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
19303975 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
19303995 TCGTGTTGCGA
1 TCGCGTTGCGA
19304006 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:19303912 original size:14 final size:14
Alignment explanation
Indices: 19303893--19303949 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
19303883 TTTCATTTCG
19303893 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
19303907 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
19303924 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
19303940 CGTTGCGATT
1 CGTTGCGATT
19303950 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:19303918 original size:33 final size:33
Alignment explanation
Indices: 19303876--19303968 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
19303866 CAAAATCGCA
*
19303876 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
19303909 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
19303942 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
19303969 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:19305862 original size:38 final size:38
Alignment explanation
Indices: 19305819--19305891 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
19305809 AATTGATTGT
*
19305819 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
19305857 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
19305892 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:19305878 original size:19 final size:19
Alignment explanation
Indices: 19305814--19305878 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
19305804 AGTTTAATTG
*
19305814 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
19305833 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
19305851 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
19305871 ATTGATTT
1 ATTGATTT
19305879 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:19305892 original size:14 final size:14
Alignment explanation
Indices: 19305873--19305908 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19305863 ATTGTTTAAT
19305873 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
19305887 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
19305901 TGATTTGT
1 TGATTTGT
19305909 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:19306031 original size:19 final size:19
Alignment explanation
Indices: 19306015--19306115 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
19306005 AAAAATGACT
19306015 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
19306034 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
19306052 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
19306066 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
19306085 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
19306105 ATCGCAATGCG
1 ATCGCAATGCG
19306116 TTTATAATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
13 1 0.01
14 9 0.12
16 4 0.05
18 10 0.14
19 30 0.41
20 19 0.26
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:19306174 original size:19 final size:19
Alignment explanation
Indices: 19306144--19306539 Score: 503
Period size: 19 Copynumber: 22.4 Consensus size: 19
19306134 GATTATCTCG
19306144 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306162 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306181 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
19306195 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306214 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306233 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306252 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
19306266 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306285 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
19306304 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
19306323 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306342 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
19306361 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
19306375 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306394 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
19306413 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
19306427 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
19306446 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
19306465 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
19306479 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
19306499 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
19306513 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
19306532 TTGCGATT
1 TTGCGATT
19306540 GTATTTTCCG
Statistics
Matches: 334, Mismatches: 12, Indels: 63
0.82 0.03 0.15
Matches are distributed among these distances:
14 41 0.12
16 39 0.12
17 36 0.11
18 9 0.03
19 197 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:19306228 original size:52 final size:50
Alignment explanation
Indices: 19306122--19306507 Score: 460
Period size: 52 Copynumber: 7.3 Consensus size: 50
19306112 TGCGTTTATA
*
19306122 ATTTCGCATTGCGA-TT-ATCTCG-TTGCGATTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTCATTTCGATTGCGA-TTC-TTTCG--TTGCGATTTTC
19306173 ATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTCATTTCGATTGCGA--TTC-TTTCG--TTGCGATTTTC
19306225 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTCTTTCGTTGCGATTTTC
*
19306277 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTA
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGA--TTC-TTTCG--TTGCGATTTTC
*
19306334 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTCTTTCGTTGCGATTTTC
*
19306386 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTCTTTCGTTGCGATTTTC
*
19306438 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTCTTTCGTTGCGATTTTC
19306490 ATTTCCGCATTGCGATTT
1 ATTT-CGCATTGCGATTT
19306508 TCATGTTGGG
Statistics
Matches: 318, Mismatches: 4, Indels: 25
0.92 0.01 0.07
Matches are distributed among these distances:
51 26 0.08
52 202 0.64
53 10 0.03
54 15 0.05
55 16 0.05
57 49 0.15
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (50 bp):
ATTTCGCATTGCGATTTCATTTCGATTGCGATTCTTTCGTTGCGATTTTC
Found at i:19306229 original size:71 final size:71
Alignment explanation
Indices: 19306144--19306539 Score: 518
Period size: 71 Copynumber: 5.6 Consensus size: 71
19306134 GATTATCTCG
19306144 TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
19306208 TTCGCA
66 TTCGCA
19306214 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
19306279 TTCGCA
66 TTCGCA
* *
19306285 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
19306350 TTCATTTCGCA
61 TTCATTTCGCA
*
19306361 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATT
*
19306419 TTC-TCTCG--
61 TTCATTTCGCA
*
19306427 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
19306492 TTCCGCA
66 TT-CGCA
* *
19306499 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
19306540 GTATTTTCCG
Statistics
Matches: 297, Mismatches: 11, Indels: 39
0.86 0.03 0.11
Matches are distributed among these distances:
66 12 0.04
67 25 0.08
68 14 0.05
69 13 0.04
70 9 0.03
71 173 0.58
72 12 0.04
73 6 0.02
74 8 0.03
76 25 0.08
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:19308863 original size:12 final size:12
Alignment explanation
Indices: 19308846--19308870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19308836 TCTTCGGGGA
19308846 CTTTTTCTTCTT
1 CTTTTTCTTCTT
19308858 CTTTTTCTTCTT
1 CTTTTTCTTCTT
19308870 C
1 C
19308871 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:19309079 original size:24 final size:24
Alignment explanation
Indices: 19309045--19309091 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19309035 CTGAAACATC
19309045 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
19309069 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
19309092 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:19309791 original size:20 final size:20
Alignment explanation
Indices: 19309763--19310171 Score: 486
Period size: 20 Copynumber: 20.4 Consensus size: 20
19309753 AAATTTCAGT
* * * *
19309763 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
19309783 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
19309803 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
19309823 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
19309843 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
19309863 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
19309883 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
19309903 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
19309923 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
19309943 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
19309963 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
19309983 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
19310003 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
19310023 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
19310043 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
19310063 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
19310083 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
19310103 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
19310123 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
19310143 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
19310163 GTTGCGATT
1 GTTGCGATT
19310172 ATGGAAAATC
Statistics
Matches: 343, Mismatches: 36, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.02
20 331 0.97
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:19316696 original size:12 final size:12
Alignment explanation
Indices: 19316679--19316704 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19316669 GTAGAATCAT
19316679 ATATTACATGTC
1 ATATTACATGTC
19316691 ATATTACATGTC
1 ATATTACATGTC
19316703 AT
1 AT
19316705 CGTTCGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATTACATGTC
Found at i:19316937 original size:26 final size:26
Alignment explanation
Indices: 19316908--19316989 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 26
19316898 TTTCTTAATG
*
19316908 TATAAATACTTAAATTTAT-AATATTT
1 TATAAATA-TTAAATTAATAAATATTT
* *
19316934 TATATATATTAACTTAATAAATATTT
1 TATAAATATTAAATTAATAAATATTT
* *
19316960 T-T--ATATTAACTTATTAAATATATTT
1 TATAAATATTAAATTAAT-AA-ATATTT
19316985 TATAA
1 TATAA
19316990 TTAATTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
23 12 0.26
24 2 0.04
25 16 0.35
26 16 0.35
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
TATAAATATTAAATTAATAAATATTT
Found at i:19316945 original size:25 final size:27
Alignment explanation
Indices: 19316908--19316965 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
19316898 TTTCTTAATG
* *
19316908 TATAAATACTTAAATTTAT-AATATTT
1 TATATATACTTAAATTAATAAATATTT
*
19316934 TATATATA-TTAACTTAATAAATATTT
1 TATATATACTTAAATTAATAAATATTT
19316960 T-TATAT
1 TATATAT
19316966 TAACTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATATATACTTAAATTAATAAATATTT
Found at i:19316968 original size:23 final size:23
Alignment explanation
Indices: 19316938--19317014 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
19316928 ATATTTTATA
19316938 TATATTAACTTAATAAATATTTT
1 TATATTAACTTAATAAATATTTT
*
19316961 TATATTAACTTATTAAATATATTT
1 TATATTAACTTAATAAATAT-TTT
*
19316985 TATAATTAATTTAATTAAAT-TTTT
1 TAT-ATTAACTTAA-TAAATATTTT
*
19317009 TTTATT
1 TATATT
19317015 TTCATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 22 0.47
24 11 0.23
25 9 0.19
26 5 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TATATTAACTTAATAAATATTTT
Found at i:19317001 original size:26 final size:25
Alignment explanation
Indices: 19316927--19317010 Score: 102
Period size: 26 Copynumber: 3.4 Consensus size: 25
19316917 TTAAATTTAT
19316927 AATATTTTATATATATTAACTTAA-TA
1 AATATTTT-TATA-ATTAACTTAATTA
19316953 AATATTTTTAT-ATTAACTT-ATTA
1 AATATTTTTATAATTAACTTAATTA
*
19316976 AATATATTTTATAATTAATTTAATTA
1 AATAT-TTTTATAATTAACTTAATTA
*
19317002 AATTTTTTT
1 AATATTTTT
19317011 TATTTTCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.02
23 15 0.29
24 6 0.12
25 14 0.27
26 16 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
AATATTTTTATAATTAACTTAATTA
Found at i:19318913 original size:2 final size:2
Alignment explanation
Indices: 19318906--19318970 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
19318896 TTAGTTTTAA
19318906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19318947 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
19318971 CATTAAAGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19321173 original size:43 final size:43
Alignment explanation
Indices: 19321126--19321251 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 43
19321116 TATAGTGACG
* ** *
19321126 TTTTTATACAAACACCGCAACAGGTTAGGTTCTATAATGGCATT
1 TTTTTATACAAACACCGCAACA-GTCAAATTCTATAACGGCATT
** * *
19321170 TTTTTATACAAACGGCGCAACAGTCAAATTTTATAGCGGCA-T
1 TTTTTATACAAACACCGCAACAGTCAAATTCTATAACGGCATT
** * ***
19321212 TTTTTATACAAATGCCACAACAGTCATGCTCTATAACGGC
1 TTTTTATACAAACACCGCAACAGTCAAATTCTATAACGGC
19321252 GTTTCTGATA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 33 0.50
43 13 0.20
44 20 0.30
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (43 bp):
TTTTTATACAAACACCGCAACAGTCAAATTCTATAACGGCATT
Found at i:19332611 original size:23 final size:23
Alignment explanation
Indices: 19332581--19332627 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
19332571 TCATTACTTC
*
19332581 TGATGAGTCCACATGTTATGATG
1 TGATGAGTCCACATATTATGATG
19332604 TGATGAGTCCACATATTATGATG
1 TGATGAGTCCACATATTATGATG
19332627 T
1 T
19332628 TAGGATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (23 bp):
TGATGAGTCCACATATTATGATG
Found at i:19333778 original size:18 final size:19
Alignment explanation
Indices: 19333757--19333796 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
19333747 TCTTTAAGTG
19333757 TTTTATTTCCTTTAGG-TA
1 TTTTATTTCCTTTAGGTTA
*
19333775 TTTTATTTTCTTTAGGTTA
1 TTTTATTTCCTTTAGGTTA
19333794 TTT
1 TTT
19333797 CAAGCTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (19 bp):
TTTTATTTCCTTTAGGTTA
Found at i:19338343 original size:194 final size:194
Alignment explanation
Indices: 19338101--19338494 Score: 650
Period size: 194 Copynumber: 2.0 Consensus size: 194
19338091 CTTCTTCTTC
* *
19338101 ATCATCGTCTTCATCCACCTCTTCACTTGAGTCTTGATTACTCTCATTGGTGGATTTGAAGGAAA
1 ATCATCATCTTCATCCACCTCTTCACTTAAGTCTTGATTACTCTCATTGGTGGATTTGAAGGAAA
19338166 TACCTACCTCATTCTTATTGTTTTTTCTTTTCTTTATCTTCT-TCATCTTT-CTTCACCATCAAT
66 TACCTACCTCATTCTTATTGTTTTTTCTTTTCTTTATCTT-TATC-TCTTTCCTTCACCATCAAT
* *
19338229 TCATATGTGAGAAGAGAACTAATAAGCTCATCAA-GAGTGAGTGACTTGAGGTTCTTAGCTTCTA
129 TCACATGTGAGAAGAGAACTAATAAGCTCAT-AAGGAGTGAGTGACTTGAGGTTCTTAGCTTCGA
19338293 TA
193 TA
*
19338295 ATCATCATCTTCATCCACCTCTTCACTTAAGTCTTGATTGCTCTCATTGGTGGATTTGAAGGAAA
1 ATCATCATCTTCATCCACCTCTTCACTTAAGTCTTGATTACTCTCATTGGTGGATTTGAAGGAAA
** *
19338360 TGGCTACCTCATTCTTATTGTTTTTTCTTTTCTTTATCTTTATCTTTTTCCTTCACCATCAATTC
66 TACCTACCTCATTCTTATTGTTTTTTCTTTTCTTTATCTTTATCTCTTTCCTTCACCATCAATTC
* *
19338425 ACATGTGAGAAGAGAACTAATGAGTTCATAAGGAGTGAGTGACTTGAGGTTCTTAGCTTCGATA
131 ACATGTGAGAAGAGAACTAATAAGCTCATAAGGAGTGAGTGACTTGAGGTTCTTAGCTTCGATA
19338489 ATCATC
1 ATCATC
19338495 GCCTTCTTCA
Statistics
Matches: 187, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
193 7 0.04
194 180 0.96
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (194 bp):
ATCATCATCTTCATCCACCTCTTCACTTAAGTCTTGATTACTCTCATTGGTGGATTTGAAGGAAA
TACCTACCTCATTCTTATTGTTTTTTCTTTTCTTTATCTTTATCTCTTTCCTTCACCATCAATTC
ACATGTGAGAAGAGAACTAATAAGCTCATAAGGAGTGAGTGACTTGAGGTTCTTAGCTTCGATA
Found at i:19341654 original size:2 final size:2
Alignment explanation
Indices: 19341647--19341729 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
19341637 TGTGTAGTTA
19341647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19341689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19341730 CACAATAAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.