Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 36 of 117
Found at i:6217811 original size:97 final size:97
Alignment explanation
Indices: 6217640--6217834 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 97
6217630 CTTCATATGA
* ** *
6217640 TACCTCACCCATTGGGCCTCAACAGGTTGGGTTATCATATATTAAAATCCTATCCACCATGGGAT
1 TACCTCACCCATTGGGCCTCAACAGGTTGGGTTACCATATAACAAAATCCTATCCACCATGAGAT
*
6217705 ACTTCACCCAGATGAATCGACATACCGAGTCC
66 ACTTCACCCAGATAAATCGACATACCGAGTCC
** * * * *
6217737 TACCTCACTTATTGGGCCTCAACAGGTTGGGTTGCCATATAACGAAAT-TTGATCCACTATGAGA
1 TACCTCACCCATTGGGCCTCAACAGGTTGGGTTACCATATAACAAAATCCT-ATCCACCATGAGA
* *
6217801 TACTTTACCCAGATAAATCGACATATCGAGTCC
65 TACTTCACCCAGATAAATCGACATACCGAGTCC
6217834 T
1 T
6217835 TAAAGGAGAT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 1 0.01
97 83 0.99
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (97 bp):
TACCTCACCCATTGGGCCTCAACAGGTTGGGTTACCATATAACAAAATCCTATCCACCATGAGAT
ACTTCACCCAGATAAATCGACATACCGAGTCC
Found at i:6223176 original size:31 final size:31
Alignment explanation
Indices: 6223109--6223180 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
6223099 TGGGAGAGTT
* *
6223109 TTTTTTTTTTTTTTAAATCATAGTCAAATTGG
1 TTTTTTTTTTTTTTAAATCATAATC-AAGTGG
*
6223141 -TTTTTTTTTTTTTAAATCATAATC-GGTGG
1 TTTTTTTTTTTTTTAAATCATAATCAAGTGG
*
6223170 ATTTTTTTTTT
1 TTTTTTTTTTT
6223181 AATTAGAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 10 0.28
31 23 0.64
ACGTcount: A:0.21, C:0.06, G:0.10, T:0.64
Consensus pattern (31 bp):
TTTTTTTTTTTTTTAAATCATAATCAAGTGG
Found at i:6231187 original size:18 final size:19
Alignment explanation
Indices: 6231164--6231206 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
6231154 ATGTGAATAG
6231164 AATTAATTTAATTTAATT-
1 AATTAATTTAATTTAATTC
*
6231182 AATTAA-TTAATTTCATTC
1 AATTAATTTAATTTAATTC
6231200 AATTAAT
1 AATTAAT
6231207 AAAAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTAATTTAATTTAATTC
Found at i:6231190 original size:22 final size:22
Alignment explanation
Indices: 6231164--6231206 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6231154 ATGTGAATAG
*
6231164 AATTAATTTAATTTAATTAATT
1 AATTAATTTAATTCAATTAATT
*
6231186 AATTAATTTCATTCAATTAAT
1 AATTAATTTAATTCAATTAAT
6231207 AAAAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTAATTTAATTCAATTAATT
Found at i:6231463 original size:16 final size:15
Alignment explanation
Indices: 6231442--6231471 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6231432 AATTAAAAAT
6231442 TTTAAATATAATTTAA
1 TTTAAATAT-ATTTAA
6231458 TTTAAATATATTTA
1 TTTAAATATATTTA
6231472 TTATTTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATATATTTAA
Found at i:6235680 original size:9 final size:9
Alignment explanation
Indices: 6235666--6235694 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6235656 CCCAAAGTAA
6235666 ATATAATAT
1 ATATAATAT
6235675 ATATAATAT
1 ATATAATAT
6235684 ATAT-ATAT
1 ATATAATAT
6235692 ATA
1 ATA
6235695 ACACTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATAATAT
Found at i:6245354 original size:20 final size:21
Alignment explanation
Indices: 6245322--6245360 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
6245312 TTGTTCTATT
6245322 TTTGGAATGG-AAAGTTATCA
1 TTTGGAATGGAAAAGTTATCA
6245342 TTTGGAA-GAGAAAAGTTAT
1 TTTGGAATG-GAAAAGTTAT
6245361 GTTCTTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 8 0.47
21 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (21 bp):
TTTGGAATGGAAAAGTTATCA
Found at i:6249628 original size:91 final size:91
Alignment explanation
Indices: 6249468--6249634 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 91
6249458 TCAGCATTTT
* * * * * *
6249468 TACGTTAGTAGTTAATCACAGTTTTATTGATGCACCATAGTTGATGCATTACATATTGAAGCATA
1 TACGTCAGTAGTTAATCACAGTTTGATTGATCCACCATAGTTGATGCAGTACATATTAAAACATA
6249533 TTAATATTTCTGTGCTTGCTAATTCG
66 TTAATATTTCTGTGCTTGCTAATTCG
* * *
6249559 TACGTCAGTATTTAATCACA-TTCTGATTGGTCCACCATCA-TTGATGCAGTACATATTAAAACG
1 TACGTCAGTAGTTAATCACAGTT-TGATTGATCCACCAT-AGTTGATGCAGTACATATTAAAACA
*
6249622 TGTTAATATTTCT
64 TATTAATATTTCT
6249635 CTTTATATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
90 2 0.03
91 61 0.95
92 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (91 bp):
TACGTCAGTAGTTAATCACAGTTTGATTGATCCACCATAGTTGATGCAGTACATATTAAAACATA
TTAATATTTCTGTGCTTGCTAATTCG
Found at i:6250147 original size:30 final size:31
Alignment explanation
Indices: 6250085--6250147 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
6250075 AATTCAAAAT
**
6250085 GTAAAAACAAAAAAAATAACTTAAAATTATAAA
1 GTAAAAACAAAAAAAAT-A-TTAAAAGGATAAA
*
6250118 GTAAAAATAAAAAAAAT-TTAAAAGGATAAA
1 GTAAAAACAAAAAAAATATTAAAAGGATAAA
6250148 ATTGGAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.41
33 16 0.59
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (31 bp):
GTAAAAACAAAAAAAATATTAAAAGGATAAA
Found at i:6251825 original size:18 final size:18
Alignment explanation
Indices: 6251785--6251826 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6251775 ACATGAATTA
*
6251785 TTAAAATATAAACACGTT
1 TTAAATTATAAACACGTT
*
6251803 ATAAATTATAAA-ACGTAT
1 TTAAATTATAAACACGT-T
6251821 TTAAAT
1 TTAAAT
6251827 ATTAAATACG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (18 bp):
TTAAATTATAAACACGTT
Found at i:6251952 original size:29 final size:29
Alignment explanation
Indices: 6251920--6251983 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
6251910 TAAATATAAA
* *
6251920 TAATATAAATATACATGAATAAATACCAT
1 TAATATAAATATACAAGAATAAACACCAT
** * *
6251949 TAATACGAATATACAAGAATAGACACGAT
1 TAATATAAATATACAAGAATAAACACCAT
6251978 TAATAT
1 TAATAT
6251984 TAATTTATAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (29 bp):
TAATATAAATATACAAGAATAAACACCAT
Found at i:6261081 original size:32 final size:31
Alignment explanation
Indices: 6261015--6261082 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
6261005 TATATTTTAT
* *
6261015 ATTTTTGTATAAATATGAATTATGATATTTA
1 ATTTTTGTATAAATATGAATTATGATAATGA
6261046 ATTTTTGTATAAGATATG-ATT-TGAATAAATGA
1 ATTTTTGTATAA-ATATGAATTATG-AT-AATGA
6261078 ATTTT
1 ATTTT
6261083 AATATTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 2 0.06
31 17 0.53
32 13 0.41
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTTTTGTATAAATATGAATTATGATAATGA
Found at i:6269454 original size:23 final size:19
Alignment explanation
Indices: 6269415--6269469 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
6269405 AAAATATATG
6269415 AAAATTATAAAATTTTAATTA
1 AAAATTATAAAATTTT-A-TA
6269436 AAAATATATATAAATTTTATA
1 AAAAT-TATA-AAATTTTATA
*
6269457 AAAATTAAAAAAT
1 AAAATTATAAAAT
6269470 ATAAATATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 12 0.39
22 5 0.16
23 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTATAAAATTTTATA
Found at i:6273616 original size:25 final size:24
Alignment explanation
Indices: 6273562--6273616 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6273552 TGTAAATATA
*
6273562 AAATTAAATAAATATAAAATATAT
1 AAATTAAATAAATATAAAATAAAT
*
6273586 ATAATTAAATAATTAATTAAAA-AAAT
1 A-AATTAAATAAAT-A-TAAAATAAAT
6273612 AAATT
1 AAATT
6273617 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 15 0.58
26 5 0.19
27 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATTAAATAAATATAAAATAAAT
Found at i:6279254 original size:17 final size:18
Alignment explanation
Indices: 6279232--6279276 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
6279222 AAAAAATATA
6279232 TAATAATTAAATTAGT-T
1 TAATAATTAAATTAGTAT
*
6279249 TAATAATT-CATTAGTAT
1 TAATAATTAAATTAGTAT
6279266 TAATTAATTAA
1 TAA-TAATTAA
6279277 CATAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
TAATAATTAAATTAGTAT
Found at i:6280828 original size:17 final size:18
Alignment explanation
Indices: 6280808--6280846 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6280798 TTAATTTATT
*
6280808 ATTTAAAT-CATTTTAAA
1 ATTTAAATGAATTTTAAA
*
6280825 ATTTAAATGAATTTTTAA
1 ATTTAAATGAATTTTAAA
6280843 ATTT
1 ATTT
6280847 GGACGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTTAAATGAATTTTAAA
Found at i:6281615 original size:2 final size:2
Alignment explanation
Indices: 6281604--6281637 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6281594 TTAAATTTAA
6281604 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6281638 GATCAGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6297569 original size:18 final size:19
Alignment explanation
Indices: 6297538--6297573 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6297528 TAATAATTTA
*
6297538 AAAAATATACAAATATAAT
1 AAAAATATAAAAATATAAT
6297557 AAAAATA-AAAAATATAA
1 AAAAATATAAAAATATAA
6297574 ATATGATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATATAAAAATATAAT
Found at i:6297628 original size:20 final size:21
Alignment explanation
Indices: 6297605--6297651 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
6297595 TAATAATTAT
6297605 TATATATATTTA-ATAAAATA
1 TATATATATTTATATAAAATA
*
6297625 TATA-ATTTTTATATAAAATA
1 TATATATATTTATATAAAATA
6297645 TA-ATATA
1 TATATATA
6297652 AATATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATATATATTTATATAAAATA
Found at i:6299272 original size:24 final size:24
Alignment explanation
Indices: 6299244--6299291 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6299234 TAATAATTTA
*
6299244 AAATATAATAT-AATAATATGACAT
1 AAATATAATATGAA-AATATAACAT
6299268 AAATATAATATGAAAATATAACAT
1 AAATATAATATGAAAATATAACAT
6299292 GAAAGTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATATAATATGAAAATATAACAT
Found at i:6306301 original size:15 final size:16
Alignment explanation
Indices: 6306271--6306304 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6306261 GTATCTTAAA
*
6306271 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
6306287 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
6306302 ATT
1 ATT
6306305 TTTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:6307203 original size:11 final size:11
Alignment explanation
Indices: 6307183--6307215 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
6307173 TTTACATATA
6307183 ATTATTATAAT
1 ATTATTATAAT
*
6307194 ATTATAATAAT
1 ATTATTATAAT
6307205 ATTATTATAAT
1 ATTATTATAAT
6307216 CAAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTATTATAAT
Found at i:6310227 original size:59 final size:59
Alignment explanation
Indices: 6310153--6310271 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
6310143 TGTGTGATCC
* *
6310153 AGATGATGACCCAGACAACATTTGGTATGTTCACTATGCTGCCTTTTATTTGAAAAACT
1 AGATGATGACCCAGACAACATTTGGTATGTTCACTATACTACCTTTTATTTGAAAAACT
6310212 AGATGATGACCCAGACAACATTTGGTATGTTCACTATACTACCTTTTATTTGAAAAACT
1 AGATGATGACCCAGACAACATTTGGTATGTTCACTATACTACCTTTTATTTGAAAAACT
6310271 A
1 A
6310272 TGCATAGTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (59 bp):
AGATGATGACCCAGACAACATTTGGTATGTTCACTATACTACCTTTTATTTGAAAAACT
Found at i:6317728 original size:31 final size:31
Alignment explanation
Indices: 6317690--6317750 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
6317680 TAGATGGATC
*
6317690 CTTATACTTATATGAAATTTAAAATTTAATT
1 CTTATACTCATATGAAATTTAAAATTTAATT
6317721 CTTATACTCATATGAAATTTAAAATTTAAT
1 CTTATACTCATATGAAATTTAAAATTTAAT
6317751 CCTTCTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (31 bp):
CTTATACTCATATGAAATTTAAAATTTAATT
Found at i:6317797 original size:19 final size:21
Alignment explanation
Indices: 6317764--6317809 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
6317754 TCTAATATAA
*
6317764 AAAATATTTTGAATTTTTTAG
1 AAAATATTTTGAATTGTTTAG
6317785 AAAAT-TTTT-AATTGTTT--
1 AAAATATTTTGAATTGTTTAG
6317802 AAAATATT
1 AAAATATT
6317810 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 5 0.22
18 2 0.09
19 7 0.30
20 4 0.17
21 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
AAAATATTTTGAATTGTTTAG
Found at i:6317853 original size:20 final size:21
Alignment explanation
Indices: 6317830--6317875 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6317820 AATTGTCACA
6317830 ATATTTTCTCACAATATTC-T
1 ATATTTTCTCACAATATTCAT
* * *
6317850 ATATTTTGTCACCATTTTCAT
1 ATATTTTCTCACAATATTCAT
6317871 ATATT
1 ATATT
6317876 ATTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTTTCTCACAATATTCAT
Found at i:6320341 original size:21 final size:22
Alignment explanation
Indices: 6320302--6320347 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6320292 GATTCAAAAT
*
6320302 TTTAATAAAAATCATAAATAAA
1 TTTAATAAAAATCAAAAATAAA
* *
6320324 TTTAAT-AAAATTAAAAATATA
1 TTTAATAAAAATCAAAAATAAA
6320345 TTT
1 TTT
6320348 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAATAAAAATCAAAAATAAA
Found at i:6321361 original size:29 final size:28
Alignment explanation
Indices: 6321328--6321400 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
6321318 TTTATATATA
6321328 ATTATTATTTAAATTTAAATCATATTATT
1 ATTA-TATTTAAATTTAAATCATATTATT
* ** * *
6321357 TTTATATTTTTATATTATATTATATTATT
1 ATTATATTTAAAT-TTAAATCATATTATT
6321386 ATTATATTTTAAATT
1 ATTATA-TTTAAATT
6321401 ATTAGATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 7 0.21
29 22 0.65
30 5 0.15
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTATATTTAAATTTAAATCATATTATT
Found at i:6321376 original size:13 final size:14
Alignment explanation
Indices: 6321352--6321395 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 14
6321342 TTAAATCATA
*
6321352 TTATTTTTATATTT
1 TTATTATTATATTT
6321366 TTA-TATTATATTAT
1 TTATTATTATATT-T
6321380 ATTATTATTATATTT
1 -TTATTATTATATTT
6321395 T
1 T
6321396 AAATTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
15 4 0.15
16 9 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATTATATTT
Found at i:6321401 original size:18 final size:18
Alignment explanation
Indices: 6321327--6321404 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
6321317 ATTTATATAT
*
6321327 AATTATTATT-TAAATTTA
1 AATTATTATTAT-ATTTTA
*
6321345 AATCA-TATTAT-TTTTA
1 AATTATTATTATATTTTA
* * *
6321361 TATTTTTA-TATTATATTA
1 AATTATTATTA-TATTTTA
*
6321379 TATTATTATTATATTTTA
1 AATTATTATTATATTTTA
6321397 AATTATTA
1 AATTATTA
6321405 GATTAAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
16 8 0.17
17 7 0.15
18 29 0.63
19 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTATTATTATATTTTA
Found at i:6325481 original size:14 final size:14
Alignment explanation
Indices: 6325456--6325497 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6325446 CAATCGCTCC
6325456 TTTTTTTA--ATAA
1 TTTTTTTATTATAA
6325468 TTTTTTTATTATAA
1 TTTTTTTATTATAA
**
6325482 TTAATTTATTATAA
1 TTTTTTTATTATAA
6325496 TT
1 TT
6325498 CAATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 8 0.31
14 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTTTATTATAA
Found at i:6325504 original size:15 final size:14
Alignment explanation
Indices: 6325472--6325506 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
6325462 TAATAATTTT
6325472 TTTATTATAATTAA
1 TTTATTATAATTAA
6325486 TTTATTATAATTCAA
1 TTTATTATAATT-AA
6325501 TTTATT
1 TTTATT
6325507 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTATAATTAA
Found at i:6327907 original size:20 final size:19
Alignment explanation
Indices: 6327884--6327927 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
6327874 TAAATAAAGA
*
6327884 TAAAATAATAAATTTATAAT
1 TAAAATAATAAAATTAT-AT
6327904 TAAAATAATAAAATTATAT
1 TAAAATAATAAAATTATAT
6327923 TAAAA
1 TAAAA
6327928 ATTAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATAATAAAATTATAT
Found at i:6327928 original size:20 final size:20
Alignment explanation
Indices: 6327884--6327976 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 20
6327874 TAAATAAAGA
*
6327884 TAAAATAATAAATTTATAAT
1 TAAAATAATAAAATTATAAT
6327904 TAAAATAATAAAATTAT-AT
1 TAAAATAATAAAATTATAAT
*
6327923 TAAAA-ATTAAAAATT-TAAT
1 TAAAATAAT-AAAATTATAAT
* * *
6327942 TAAACTCAT-AAATTATTCAAA
1 TAAAATAATAAAATTA-T-AAT
*
6327963 TAAAATATTAAAAT
1 TAAAATAATAAAAT
6327977 GCTCGAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.14
19 19 0.33
20 18 0.32
21 8 0.14
22 4 0.07
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATAAAATTATAAT
Found at i:6327943 original size:19 final size:19
Alignment explanation
Indices: 6327885--6327945 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
6327875 AAATAAAGAT
*
6327885 AAAATAATAAATTTATAATT-
1 AAAATAATAAA-AT-TAATTA
6327905 AAAATAATAAAATTATATTA
1 AAAATAATAAAATTA-ATTA
*
6327925 AAAATTAA-AAATTTAATTA
1 AAAA-TAATAAAATTAATTA
6327944 AA
1 AA
6327946 CTCATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.06
19 10 0.28
20 21 0.58
21 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATAAAATTAATTA
Found at i:6335686 original size:17 final size:17
Alignment explanation
Indices: 6335664--6335698 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6335654 AGATTCTAAG
6335664 TAGCATTTATCATAATC
1 TAGCATTTATCATAATC
6335681 TAGCATTTATCATAATC
1 TAGCATTTATCATAATC
6335698 T
1 T
6335699 CCAAATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (17 bp):
TAGCATTTATCATAATC
Found at i:6339776 original size:2 final size:2
Alignment explanation
Indices: 6339769--6339808 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6339759 TAAAAATAAT
6339769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6339809 GTATTAGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6342986 original size:20 final size:20
Alignment explanation
Indices: 6342963--6343016 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
6342953 TATATTTATA
6342963 TTATATAAAATATTAATAAT
1 TTATATAAAATATTAATAAT
** *
6342983 TTATATATTCATATT-ATATT
1 TTATATA-AAATATTAATAAT
6343003 TTATATAAAA-ATTA
1 TTATATAAAATATTA
6343017 CGTGTTATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 3 0.11
19 1 0.04
20 18 0.67
21 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATATAAAATATTAATAAT
Found at i:6344711 original size:2 final size:2
Alignment explanation
Indices: 6344704--6344728 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6344694 TTTCTTGTTC
6344704 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
6344729 ATGTGCACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6344923 original size:22 final size:23
Alignment explanation
Indices: 6344840--6344923 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 23
6344830 TCTAATGATG
* *
6344840 TAATATAATAATATAAATAAAAAT
1 TAATA-AAAAATATAAATAAAATT
* *
6344864 TAA-AAAATATATAATTTAAAATTT
1 TAATAAAAAATATAA-ATAAAA-TT
* *
6344888 TAATAATAATTATAAAT-AAATT
1 TAATAAAAAATATAAATAAAATT
6344910 TAATAAAAAATATA
1 TAATAAAAAATATA
6344924 TTTTATATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
22 22 0.47
23 9 0.19
24 8 0.17
25 8 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATAAAAAATATAAATAAAATT
Found at i:6344978 original size:32 final size:36
Alignment explanation
Indices: 6344942--6345021 Score: 87
Period size: 39 Copynumber: 2.2 Consensus size: 36
6344932 TTTTATATCC
6344942 ATATAAATAATA-AT-AA-TTAAT-TTTTATATAAA
1 ATATAAATAATATATAAATTTAATCTTTTATATAAA
*
6344974 ATATAATATAAATATATAAATTTTAATCTTTTATATAAT
1 ATATAA-AT-AATATATAAA-TTTAATCTTTTATATAAA
*
6345013 ATAAAAATA
1 ATATAAATA
6345022 TGAATATTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 6 0.15
33 2 0.05
34 4 0.10
35 2 0.05
36 2 0.05
37 1 0.03
38 7 0.18
39 15 0.38
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (36 bp):
ATATAAATAATATATAAATTTAATCTTTTATATAAA
Found at i:6345014 original size:37 final size:36
Alignment explanation
Indices: 6344942--6345016 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 36
6344932 TTTTATATCC
6344942 ATATAAATAATAATAATTAATTTTTATATAAAATATA
1 ATATAAATAATAATAATTAATTTTTATAT-AAATATA
*
6344979 ATATAAATATATAA-ATTTTAATCTTTTATAT-AATATA
1 ATATAAATA-ATAATA-ATTAAT-TTTTATATAAATATA
6345016 A
1 A
6345017 AAATATGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 17 0.50
38 9 0.26
39 8 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (36 bp):
ATATAAATAATAATAATTAATTTTTATATAAATATA
Found at i:6351744 original size:23 final size:24
Alignment explanation
Indices: 6351718--6351763 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6351708 CGATAATATG
6351718 ATAT-AAAATAATATAAATAAAAA
1 ATATAAAAATAATATAAATAAAAA
* *
6351741 ATATAAAAATGATATAATTAAAA
1 ATATAAAAATAATATAAATAAAA
6351764 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
ATATAAAAATAATATAAATAAAAA
Found at i:6351745 original size:13 final size:14
Alignment explanation
Indices: 6351710--6351747 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6351700 TTTAAATACG
*
6351710 ATAATATGATATAAA
1 ATAATAT-AAATAAA
6351725 ATAATATAAATAAA
1 ATAATATAAATAAA
6351739 A-AATATAAA
1 ATAATATAAA
6351748 AATGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 7 0.32
15 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
ATAATATAAATAAA
Found at i:6351780 original size:24 final size:22
Alignment explanation
Indices: 6351743--6351804 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 22
6351733 AATAAAAAAT
6351743 ATAAAAATGATATAATTAAAATTTTA
1 ATAAAAAT--TATAATT-AAA-TTTA
6351769 ATAAAAATTATAATTAAATTTA
1 ATAAAAATTATAATTAAATTTA
6351791 ATAAATATATTATA
1 ATAAA-A-ATTATA
6351805 TTTTCAGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.26
23 4 0.12
24 13 0.38
26 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAAATTATAATTAAATTTA
Found at i:6351797 original size:26 final size:25
Alignment explanation
Indices: 6351743--6351800 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
6351733 AATAAAAAAT
6351743 ATAAAAATGATATAATTAAAATTTTA
1 ATAAAAAT-ATATAATTAAAATTTTA
6351769 ATAAAAAT-TATAATT-AAA-TTTA
1 ATAAAAATATATAATTAAAATTTTA
*
6351791 ATAAATATAT
1 ATAAAAATAT
6351801 TATATTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 11 0.37
23 4 0.13
24 7 0.23
26 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAAAAATATATAATTAAAATTTTA
Found at i:6364381 original size:22 final size:24
Alignment explanation
Indices: 6364331--6364382 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
6364321 AATCCCATTT
6364331 ATATAATTAAAATTTTACACTAATA
1 ATAT-ATTAAAATTTTACACTAATA
*
6364356 ATATATT-AAATTTTA-ACTCATA
1 ATATATTAAAATTTTACACTAATA
6364378 ATATA
1 ATATA
6364383 ATTATACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 8 0.31
24 3 0.12
25 4 0.15
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATATTAAAATTTTACACTAATA
Found at i:6364386 original size:23 final size:24
Alignment explanation
Indices: 6364331--6364386 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
6364321 AATCCCATTT
6364331 ATATAATTAAAATTTTACACTAATA
1 ATATAATT-AAATTTTACACTAATA
*
6364356 ATAT-ATTAAATTTTA-ACTCATA
1 ATATAATTAAATTTTACACTAATA
6364378 ATATAATTA
1 ATATAATTA
6364387 TACCAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.34
23 12 0.41
24 3 0.10
25 4 0.14
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAATTAAATTTTACACTAATA
Found at i:6365613 original size:9 final size:10
Alignment explanation
Indices: 6365585--6365622 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6365575 CTTGATAAAG
6365585 ATAAATTGTTT
1 ATAAATT-TTT
*
6365596 ATTAATTTTT
1 ATAAATTTTT
6365606 A-AAATTTTT
1 ATAAATTTTT
6365615 ATAAATTT
1 ATAAATTT
6365623 AGAATATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 10 0.42
11 6 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (10 bp):
ATAAATTTTT
Found at i:6366205 original size:8 final size:8
Alignment explanation
Indices: 6366179--6366231 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
6366169 GTTGATAAAC
6366179 AATTTATA
1 AATTTATA
*
6366187 AATTTGGTA
1 AATTT-ATA
6366196 AATTTATA
1 AATTTATA
*
6366204 AA--TAAA
1 AATTTATA
6366210 AATTTAATA
1 AATTT-ATA
6366219 AATTTATA
1 AATTTATA
6366227 AATTT
1 AATTT
6366232 CAATTAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 5 0.14
8 18 0.49
9 14 0.38
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (8 bp):
AATTTATA
Found at i:6366231 original size:17 final size:16
Alignment explanation
Indices: 6366179--6366231 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
6366169 GTTGATAAAC
*
6366179 AATTTATAAATTTGGTA
1 AATTTATAAATTT-ATA
*
6366196 AATTTATAAA--TAAA
1 AATTTATAAATTTATA
6366210 AATTTAATAAATTTATA
1 AATTT-ATAAATTTATA
6366227 AATTT
1 AATTT
6366232 CAATTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 6 0.20
15 6 0.20
17 18 0.60
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
AATTTATAAATTTATA
Found at i:6366906 original size:23 final size:23
Alignment explanation
Indices: 6366880--6366925 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6366870 TCTTCACTCG
*
6366880 TAGAATTAGCTCATTTTTCGTCA
1 TAGAATTAACTCATTTTTCGTCA
*
6366903 TAGAATTAACTCGTTTTTCGTCA
1 TAGAATTAACTCATTTTTCGTCA
6366926 AGGAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (23 bp):
TAGAATTAACTCATTTTTCGTCA
Found at i:6366939 original size:23 final size:23
Alignment explanation
Indices: 6366893--6366939 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6366883 AATTAGCTCA
*
6366893 TTTTTCGTCATAGAATTAACTCG
1 TTTTTCGTCATAGAAATAACTCG
*
6366916 TTTTTCGTCA-AGGAAATAATTCG
1 TTTTTCGTCATA-GAAATAACTCG
6366939 T
1 T
6366940 CCAACATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (23 bp):
TTTTTCGTCATAGAAATAACTCG
Found at i:6367487 original size:15 final size:16
Alignment explanation
Indices: 6367467--6367499 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6367457 TCAGATAAAA
6367467 AAATAAAAA-AAATTT
1 AAATAAAAATAAATTT
6367482 AAATAAAAATAAATTT
1 AAATAAAAATAAATTT
6367498 AA
1 AA
6367500 TTTTTATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAAAAATAAATTT
Found at i:6368713 original size:25 final size:25
Alignment explanation
Indices: 6368679--6368726 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
6368669 TTATTATATG
* *
6368679 TATATTATATTTTATATAAAAATTA
1 TATATCATATTTGATATAAAAATTA
6368704 TATATCATATTTGATATAAAAAT
1 TATATCATATTTGATATAAAAAT
6368727 ATAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATCATATTTGATATAAAAATTA
Found at i:6368772 original size:12 final size:13
Alignment explanation
Indices: 6368741--6368782 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
6368731 AATATAATTT
6368741 TTTTATTTTATTAAA
1 TTTT-TTTT-TTAAA
6368756 TTTTTTTTTTAAA
1 TTTTTTTTTTAAA
*
6368769 TTTTTTTTTAAAA
1 TTTTTTTTTTAAA
6368782 T
1 T
6368783 GTATTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 18 0.69
14 4 0.15
15 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTTTTTAAA
Found at i:6383505 original size:13 final size:13
Alignment explanation
Indices: 6383459--6383508 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
6383449 CCGTATAAAT
6383459 ATATGAATTCATA
1 ATATGAATTCATA
* *
6383472 ATAT--TTTACATG
1 ATATGAATT-CATA
*
6383484 ATTTGAATTCATA
1 ATATGAATTCATA
6383497 ATATGAATTCAT
1 ATATGAATTCAT
6383509 TATTAGGTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
11 2 0.07
12 6 0.21
13 18 0.64
14 2 0.07
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ATATGAATTCATA
Found at i:6392538 original size:23 final size:23
Alignment explanation
Indices: 6392512--6392558 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6392502 TTAATTAAAT
6392512 TACTACAA-TAATTTTAAAAATGA
1 TACTA-AATTAATTTTAAAAATGA
* *
6392535 TACTAAATTTATTTTTAAAATGA
1 TACTAAATTAATTTTAAAAATGA
6392558 T
1 T
6392559 TGCATAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (23 bp):
TACTAAATTAATTTTAAAAATGA
Found at i:6401150 original size:23 final size:21
Alignment explanation
Indices: 6401120--6401173 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
6401110 TATTTTTACT
6401120 TAAATAATTTTAAAAATACTAAA
1 TAAATAATTTT--AAATACTAAA
* *
6401143 TAAATAA-TTTACATATTAAA
1 TAAATAATTTTAAATACTAAA
6401163 TAAATAATTTT
1 TAAATAATTTT
6401174 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.54
21 3 0.11
22 3 0.11
23 7 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAAATACTAAA
Found at i:6401352 original size:16 final size:16
Alignment explanation
Indices: 6401329--6401373 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
6401319 TTTTTTTCTC
6401329 AAAATTAAATAATTTA
1 AAAATTAAATAATTTA
* *
6401345 ATAATTAAATATTTTA
1 AAAATTAAATAATTTA
*
6401361 AAAATTAATTAAT
1 AAAATTAAATAAT
6401374 GTTTTATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAAATAATTTA
Found at i:6401372 original size:27 final size:26
Alignment explanation
Indices: 6401342--6401396 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6401332 ATTAAATAAT
6401342 TTAATAATTAAATATTTTAAAAATTAA
1 TTAATAATTAAATA-TTTAAAAATTAA
** * *
6401369 TTAATGTTTTATTATTTAAAAATTAA
1 TTAATAATTAAATATTTAAAAATTAA
6401395 TT
1 TT
6401397 GATTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TTAATAATTAAATATTTAAAAATTAA
Found at i:6401393 original size:26 final size:26
Alignment explanation
Indices: 6401357--6401414 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
6401347 AATTAAATAT
6401357 TTTAAAAATTAATTAATGTTTTATTA
1 TTTAAAAATTAATTAATGTTTTATTA
* *
6401383 TTTAAAAATTAATTGATTTTTTATTA
1 TTTAAAAATTAATTAATGTTTTATTA
6401409 TTTAAA
1 TTTAAA
6401415 TCTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
TTTAAAAATTAATTAATGTTTTATTA
Found at i:6402857 original size:24 final size:24
Alignment explanation
Indices: 6402814--6402874 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
6402804 AAAATTTTAA
* *
6402814 ATATTTTTTATTTTTATTTAAT-TT
1 ATATTATTTATATTTATTT-ATGTT
6402838 ATATTAATTTATATTT-TTTATGTT
1 ATATT-ATTTATATTTATTTATGTT
6402862 ATATTA-TTATATT
1 ATATTATTTATATT
6402875 AGGTTCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 7 0.21
23 3 0.09
24 15 0.45
25 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
ATATTATTTATATTTATTTATGTT
Found at i:6404915 original size:49 final size:49
Alignment explanation
Indices: 6404860--6404953 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
6404850 CAATATAGGG
* *
6404860 TTTGCTCACAATTTAGGGAGTTTTGAGAAATAAACCAAATTTTTTTGGT
1 TTTGCTCACAATTTAGAGAGTTTCGAGAAATAAACCAAATTTTTTTGGT
**
6404909 TTTGCTCACAATTTAGAGAGTTTCGAGAAATGGACCAAATTTTTT
1 TTTGCTCACAATTTAGAGAGTTTCGAGAAATAAACCAAATTTTTT
6404954 CCTTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (49 bp):
TTTGCTCACAATTTAGAGAGTTTCGAGAAATAAACCAAATTTTTTTGGT
Found at i:6422541 original size:24 final size:24
Alignment explanation
Indices: 6422514--6422584 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 24
6422504 TGAAGTAAAA
6422514 GATAATGATTTAATTAAAATAATT
1 GATAATGATTTAATTAAAATAATT
* *
6422538 GAT-A--A-TTAATGATAA-AA--
1 GATAATGATTTAATTAAAATAATT
6422555 GATAATGATTTAATTAAAATAATT
1 GATAATGATTTAATTAAAATAATT
6422579 GATAAT
1 GATAAT
6422585 TAATGATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 2 0.06
20 9 0.25
21 9 0.25
22 2 0.06
23 1 0.03
24 9 0.25
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (24 bp):
GATAATGATTTAATTAAAATAATT
Found at i:6422557 original size:41 final size:41
Alignment explanation
Indices: 6422509--6422594 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
6422499 ATATGTGAAG
6422509 TAAAAGATAATGATTTAATTAAAATAATTGATAATTAATGA
1 TAAAAGATAATGATTTAATTAAAATAATTGATAATTAATGA
6422550 TAAAAGATAATGATTTAATTAAAATAATTGATAATTAATGA
1 TAAAAGATAATGATTTAATTAAAATAATTGATAATTAATGA
6422591 TAAA
1 TAAA
6422595 TTTATATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (41 bp):
TAAAAGATAATGATTTAATTAAAATAATTGATAATTAATGA
Found at i:6422576 original size:17 final size:17
Alignment explanation
Indices: 6422515--6422577 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 17
6422505 GAAGTAAAAG
6422515 ATAATGATTTAATTAAA
1 ATAATGATTTAATTAAA
6422532 ATAATTGATAATTAATGATAAAA
1 ATAA-TGAT--TTAAT--T-AAA
6422555 GATAATGATTTAATTAAA
1 -ATAATGATTTAATTAAA
6422573 ATAAT
1 ATAAT
6422578 TGATAATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
17 9 0.23
18 7 0.18
19 1 0.03
20 5 0.13
21 5 0.13
22 1 0.03
23 7 0.18
24 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
ATAATGATTTAATTAAA
Found at i:6432590 original size:14 final size:16
Alignment explanation
Indices: 6432573--6432605 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6432563 TTAATTTTAA
6432573 AATAT-AAA-AATTAC
1 AATATAAAATAATTAC
6432587 AATATAAAATAATTAC
1 AATATAAAATAATTAC
6432603 AAT
1 AAT
6432606 TTTAAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 3 0.18
16 9 0.53
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (16 bp):
AATATAAAATAATTAC
Found at i:6436923 original size:29 final size:28
Alignment explanation
Indices: 6436879--6436948 Score: 72
Period size: 33 Copynumber: 2.4 Consensus size: 28
6436869 TAAATTTATT
6436879 TAATAT-AATTTTATTTTATAAATTATAAAAAA
1 TAATATAAATTTTA--TTAT-AA-TAT-AAAAA
6436911 TAAATATAAA-TTTATTATAATATAAAAA
1 T-AATATAAATTTTATTATAATATAAAAA
6436939 TAATATAAAT
1 TAATATAAAT
6436949 ACACTTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
27 8 0.23
28 6 0.17
29 3 0.09
30 2 0.06
31 4 0.11
32 1 0.03
33 9 0.26
34 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATATAAATTTTATTATAATATAAAAA
Found at i:6438931 original size:299 final size:299
Alignment explanation
Indices: 6438348--6438911 Score: 671
Period size: 299 Copynumber: 1.9 Consensus size: 299
6438338 ATTTAAAAAA
6438348 TAGCTTTGAATCAACAATAAAAAAACAAATTGGATTAAGAAAAGGTAAATAATTCAATAAAATAA
1 TAGCTTTGAATCAACAATAAAAAAACAAATTGGATTAAGAAAAGGTAAATAATTCAATAAAATAA
* * * * *
6438413 TTATTCCAATAATTCAAGTAAGACAAATTTATTTCTTAAAATTTGTACTTAGCAATTACCCTATA
66 TAATTCCAATAATTCAAATAAGACAAACTTATTTCTTAAAATTTGTACTCAGCAATTACCATATA
* * *
6438478 ATTTATTCAATCAAAATTTAATTTTTAAAGGAAGTACTTTAAAAGTAGAATTTTAATCAATGTAA
131 ATTTATTCAAGCAAAATTTAATTTTTAAAGGAAGTACATTAAAAGTAAAATTTTAATCAATGTAA
* * * * ** ** * * ** *
6438543 AAGAAATATTGCATATATTAAAATTTAAATTCAAAATCTATTAAATGATATTTTTTATAAGTGAT
196 AAGAAATATAGCAAAAAATAAAATAAAAATTCAAAATAAATTAAA-GAAACTCATGATAAGTGAT
*
6438608 TATAAAAATTAATTGAATTAAAATTAAATTCAGATAAACT
260 TATAAAAATTAATTGAAGTAAAATTAAATTCAGATAAACT
* * *
6438648 TAGCTTTTGAATCAACAAT-AAAAAACAAATTGGATTAGGAAAAGGTAAATAATTCCATAATATA
1 TAGC-TTTGAATCAACAATAAAAAAACAAATTGGATTAAGAAAAGGTAAATAATTCAATAAAATA
** *
6438712 ATAATTTTAATAATTCAAATAAGACAAACTT-TTTCTTAAAGTTTGTACTCA-CTAATTA-CATG
65 ATAATTCCAATAATTCAAATAAGACAAACTTATTTCTTAAAATTTGTACTCAGC-AATTACCAT-
**
6438774 ATAATTTATTCAAGCAAAATTTAATTTTTGGAGGAAGTACATTAAAAGTAAAATTTTAATCAATG
128 ATAATTTATTCAAGCAAAATTTAATTTTTAAAGGAAGTACATTAAAAGTAAAATTTTAATCAATG
** * * * *
6438839 T-ATGGATATGTAGTAGAAAAATAAAA-AAAAATTCAAAGA-AAAGTTAAA-AAACTCATGA-AT
193 TAAAAGAAATATAGCA-AAAAATAAAATAAAAATTCAAA-ATAAA-TTAAAGAAACTCATGATAA
6438899 GT-ATTATAAAAAT
255 GTGATTATAAAAAT
6438912 AATAATAATA
Statistics
Matches: 223, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
295 11 0.05
296 3 0.01
297 5 0.02
298 21 0.09
299 97 0.43
300 72 0.32
301 14 0.06
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (299 bp):
TAGCTTTGAATCAACAATAAAAAAACAAATTGGATTAAGAAAAGGTAAATAATTCAATAAAATAA
TAATTCCAATAATTCAAATAAGACAAACTTATTTCTTAAAATTTGTACTCAGCAATTACCATATA
ATTTATTCAAGCAAAATTTAATTTTTAAAGGAAGTACATTAAAAGTAAAATTTTAATCAATGTAA
AAGAAATATAGCAAAAAATAAAATAAAAATTCAAAATAAATTAAAGAAACTCATGATAAGTGATT
ATAAAAATTAATTGAAGTAAAATTAAATTCAGATAAACT
Found at i:6439047 original size:2 final size:2
Alignment explanation
Indices: 6439040--6439066 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6439030 AGGCTCACAA
6439040 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 A
6439067 ATCATATGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6439421 original size:23 final size:22
Alignment explanation
Indices: 6439391--6439435 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
6439381 TATAAAATAA
*
6439391 TAATAAAA-ATTATACATAAATT
1 TAATAAAATATTA-AAATAAATT
6439413 TAATAAAAATATTAAAATAAATT
1 TAAT-AAAATATTAAAATAAATT
6439436 GTAGCTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAATAAAATATTAAAATAAATT
Found at i:6442540 original size:21 final size:22
Alignment explanation
Indices: 6442514--6442563 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
6442504 TGATATATAA
* *
6442514 TATTAAATATATTTATTATT-T
1 TATTAAATATATATATAATTAT
*
6442535 TATTAAATTTATATATAATTAT
1 TATTAAATATATATATAATTAT
6442557 TATTAAA
1 TATTAAA
6442564 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTAAATATATATATAATTAT
Found at i:6443289 original size:11 final size:11
Alignment explanation
Indices: 6443267--6443325 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
6443257 GGGTGTGCTG
6443267 TTTTTTTT--T
1 TTTTTTTTAAT
6443276 TTTTTTTTAA-
1 TTTTTTTTAAT
*
6443286 TTTTATTT-AT
1 TTTTTTTTAAT
6443296 GTTTGTTTTTAAAT
1 -TTT-TTTTT-AAT
6443310 TTTTTTTTAAT
1 TTTTTTTTAAT
6443321 TTTTT
1 TTTTT
6443326 GTATGGCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
9 9 0.22
10 7 0.17
11 11 0.27
12 9 0.22
13 3 0.07
14 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTTTTTAAT
Found at i:6451874 original size:17 final size:17
Alignment explanation
Indices: 6451839--6451874 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6451829 AATGAAAATT
* *
6451839 AATATATTTTTATTAAA
1 AATATATATTTATAAAA
6451856 AATATATATTTATAAAA
1 AATATATATTTATAAAA
6451873 AA
1 AA
6451875 AATTATCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATATTTATAAAA
Found at i:6451908 original size:22 final size:22
Alignment explanation
Indices: 6451866--6451909 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6451856 AATATATATT
**
6451866 TATAAAAAAAATTATCCAAATA
1 TATAAAAAAAATTATAAAAATA
6451888 TATAAGAAAAAATTA-AAAAATA
1 TATAA-AAAAAATTATAAAAATA
6451910 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (22 bp):
TATAAAAAAAATTATAAAAATA
Found at i:6452669 original size:13 final size:13
Alignment explanation
Indices: 6452651--6452713 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
6452641 ATGACAATTT
*
6452651 ATAATATGATATA
1 ATAATATAATATA
6452664 ATAATATAATATA
1 ATAATATAATATA
6452677 A-AA-ATAATATAA
1 ATAATATAATAT-A
* *
6452689 ATAAATATTATGAAA
1 AT-AATATAAT-ATA
6452704 ATAATATAAT
1 ATAATATAAT
6452714 TTAAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
11 7 0.17
12 4 0.10
13 13 0.32
14 9 0.22
15 7 0.17
16 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:6452684 original size:16 final size:15
Alignment explanation
Indices: 6452663--6452693 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
6452653 AATATGATAT
6452663 AATAATATAATATAAA
1 AATAATATAA-ATAAA
6452679 AATAATATAAATAAA
1 AATAATATAAATAAA
6452694 TATTATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATATAAATAAA
Found at i:6452685 original size:11 final size:12
Alignment explanation
Indices: 6452659--6452713 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 12
6452649 TTATAATATG
6452659 ATATAATAATATA
1 ATATAATAA-ATA
6452672 ATATAA-AAATA
1 ATATAATAAATA
6452683 ATATAAATAAATA
1 ATAT-AATAAATA
* *
6452696 TTATGA-AAATA
1 ATATAATAAATA
6452707 ATATAAT
1 ATATAAT
6452714 TTAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
11 16 0.46
12 5 0.14
13 14 0.40
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
ATATAATAAATA
Found at i:6452687 original size:24 final size:23
Alignment explanation
Indices: 6452659--6452713 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
6452649 TTATAATATG
6452659 ATATAATAATATAATATAAAAATA
1 ATATAATAA-ATAATATAAAAATA
* *
6452683 ATATAAATAAATATTATGAAAATA
1 ATAT-AATAAATAATATAAAAATA
6452707 ATATAAT
1 ATATAAT
6452714 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 20 0.71
25 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATAATAAATAATATAAAAATA
Found at i:6452713 original size:48 final size:47
Alignment explanation
Indices: 6452646--6452764 Score: 113
Period size: 48 Copynumber: 2.6 Consensus size: 47
6452636 TAAATATGAC
* * *
6452646 AATTT-ATAATATGATATAATAATATAA-TATAAAAATAA-TATAAATA
1 AATTTAATAAAATAATATAAT-ATAAAATTATAAAAA-AATTATAAATA
* *
6452692 AATATT-ATGAAAATAATATAATTTAAAATTTTAAAAAAATTATAAATA
1 AAT-TTAAT-AAAATAATATAATATAAAATTATAAAAAAATTATAAATA
*
6452740 AATTTAATAAAATAA-AAAATATAAA
1 AATTTAATAAAATAATATAATATAAA
6452765 TTTTATATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
46 11 0.18
47 19 0.31
48 31 0.51
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (47 bp):
AATTTAATAAAATAATATAATATAAAATTATAAAAAAATTATAAATA
Found at i:6452759 original size:21 final size:21
Alignment explanation
Indices: 6452721--6452760 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6452711 AATTTAAAAT
* *
6452721 TTTAAAAAAATTATAAATAAA
1 TTTAAAAAAATAAAAAATAAA
*
6452742 TTTAATAAAATAAAAAATA
1 TTTAAAAAAATAAAAAATA
6452761 TAAATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTAAAAAAATAAAAAATAAA
Found at i:6452789 original size:25 final size:24
Alignment explanation
Indices: 6452756--6452820 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
6452746 ATAAAATAAA
*
6452756 AAATATAAATTTTATAT-TTTTAT
1 AAATATAAATTTTATATATATTAT
*
6452779 ATTAATATAAATTATA-ATATATTAT
1 A--AATATAAATTTTATATATATTAT
6452804 AAATATAATATTTTATA
1 AAATATAA-ATTTTATA
6452821 CCATACGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 8 0.24
24 7 0.21
25 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATATAAATTTTATATATATTAT
Found at i:6452808 original size:23 final size:23
Alignment explanation
Indices: 6452730--6452816 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 23
6452720 TTTTAAAAAA
**
6452730 ATTAT-AA-ATAAATTTAATAAA
1 ATTATAAATATAAATTTAATATT
* * *
6452751 ATAAAAAATATAAATTTTATATT
1 ATTATAAATATAAATTTAATATT
*
6452774 TTTATATTAATATAAATTATAATA-T
1 ATTATA--AATATAAATT-TAATATT
6452799 ATTATAAATATAATATTT
1 ATTATAAATATAA-ATTT
6452817 TATACCATAC
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
21 3 0.06
22 2 0.04
23 22 0.44
24 3 0.06
25 16 0.32
26 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTATAAATATAAATTTAATATT
Found at i:6452812 original size:16 final size:17
Alignment explanation
Indices: 6452784--6452820 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
6452774 TTTATATTAA
6452784 TATAAATTATAATATAT
1 TATAAATTATAATATAT
*
6452801 TATAAA-TATAATATTT
1 TATAAATTATAATATAT
6452817 TATA
1 TATA
6452821 CCATACGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAAATTATAATATAT
Found at i:6454156 original size:24 final size:24
Alignment explanation
Indices: 6454124--6454178 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
6454114 ATTCAACATA
*
6454124 AATTTTTTTAATGATAATTATAAT
1 AATTTTTTTAATCATAATTATAAT
6454148 AATTTTTTTAATCATAATTATAAT
1 AATTTTTTTAATCATAATTATAAT
6454172 AATTTTT
1 AATTTTT
6454179 ATTATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
AATTTTTTTAATCATAATTATAAT
Found at i:6455032 original size:18 final size:17
Alignment explanation
Indices: 6455009--6455043 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6454999 AATAATGATA
6455009 TATTTTAAATATCAAAAT
1 TATTTT-AATATCAAAAT
*
6455027 TATTTTACTATCAAAAT
1 TATTTTAATATCAAAAT
6455044 AAAACTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTTTAATATCAAAAT
Found at i:6472343 original size:23 final size:21
Alignment explanation
Indices: 6472291--6472349 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
6472281 TAATATCATT
*
6472291 TTATTAATAAAAATATATTTA
1 TTATTAATAAAATTATATTTA
6472312 TT-TT-A-AAAATTGATATTTA
1 TTATTAATAAAATT-ATATTTA
*
6472331 TTCATTAATAAAATAATAT
1 TT-ATTAATAAAATTATAT
6472350 CATCGGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.16
19 10 0.32
20 2 0.06
21 4 0.13
22 5 0.16
23 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATTAATAAAATTATATTTA
Found at i:6474005 original size:22 final size:23
Alignment explanation
Indices: 6473971--6474022 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
6473961 ATAATTATTT
* *
6473971 TATATAAATATATTTAAAT-ATA
1 TATAAAAATATATTAAAATAATA
6473993 T-TAAAAATCATATTAAAATAATA
1 TATAAAAAT-ATATTAAAATAATA
6474016 TATAAAA
1 TATAAAA
6474023 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 4 0.16
24 5 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATAAAAATATATTAAAATAATA
Found at i:6476309 original size:11 final size:11
Alignment explanation
Indices: 6476293--6476318 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6476283 AATTAGTATA
6476293 AATTTTTTATT
1 AATTTTTTATT
6476304 AATTTTTTATT
1 AATTTTTTATT
6476315 AATT
1 AATT
6476319 ATAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATTTTTTATT
Found at i:6476325 original size:6 final size:6
Alignment explanation
Indices: 6476314--6476338 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6476304 AATTTTTTAT
6476314 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
6476339 TTTTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:6479714 original size:13 final size:12
Alignment explanation
Indices: 6479691--6479748 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
6479681 TGTTATACAG
*
6479691 TTAAAATTAAAT
1 TTAATATTAAAT
6479703 TTGAATATTAAAT
1 TT-AATATTAAAT
*
6479716 AT-ATATTAAAT
1 TTAATATTAAAT
*
6479727 TTAA-ATAAAATT
1 TTAATATTAAA-T
6479739 TTAA-ATTAAA
1 TTAATATTAAA
6479749 AATAAAAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 15 0.39
12 13 0.34
13 10 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (12 bp):
TTAATATTAAAT
Found at i:6479744 original size:18 final size:17
Alignment explanation
Indices: 6479721--6479769 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6479711 TAAATATATA
*
6479721 TTAAATTTAAATAAAATT
1 TTAAATTTAAATAAAA-G
*
6479739 TTAAATTAAAAATAAAAG
1 TTAAATT-TAAATAAAAG
6479757 TTAAA-TTAAATAA
1 TTAAATTTAAATAA
6479770 TATATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 12 0.44
19 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAATTTAAATAAAAG
Found at i:6479753 original size:19 final size:18
Alignment explanation
Indices: 6479729--6479771 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6479719 TATTAAATTT
*
6479729 AAATAAAATTTTAAATTAA
1 AAATAAAA-GTTAAATTAA
6479748 AAATAAAAGTTAAATTAA
1 AAATAAAAGTTAAATTAA
6479766 ATAATA
1 A-AATA
6479772 TATTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATAAAAGTTAAATTAA
Found at i:6479782 original size:18 final size:18
Alignment explanation
Indices: 6479761--6479796 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6479751 TAAAAGTTAA
6479761 ATTAAATAATATATTTTT
1 ATTAAATAATATATTTTT
* *
6479779 ATTAATTTATATATTTTT
1 ATTAAATAATATATTTTT
6479797 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTAAATAATATATTTTT
Found at i:6479805 original size:18 final size:18
Alignment explanation
Indices: 6479769--6479803 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6479759 AAATTAAATA
*
6479769 ATATATTTTTATTAATTT
1 ATATATTTTTATAAATTT
6479787 ATATATTTTT-TAAATTT
1 ATATATTTTTATAAATTT
6479804 TAATAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATATTTTTATAAATTT
Found at i:6479844 original size:19 final size:20
Alignment explanation
Indices: 6479822--6479863 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6479812 TAATTATTTT
* *
6479822 ATATTTAAATTTAT-TTAAC
1 ATATTAAAAATTATATTAAC
6479841 ATATTAAAAATTATATTAAC
1 ATATTAAAAATTATATTAAC
6479861 ATA
1 ATA
6479864 ATATAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTAAAAATTATATTAAC
Found at i:6480558 original size:2 final size:2
Alignment explanation
Indices: 6480553--6480589 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
6480543 TTATACATAC
* *
6480553 AT AT AT AT AT AT AC AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6480590 AAAACTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6480566 original size:14 final size:14
Alignment explanation
Indices: 6480544--6480589 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
6480534 AACATTTTTT
*
6480544 TATACATACATATA
1 TATATATACATATA
6480558 TATATATACATATA
1 TATATATACATATA
**
6480572 TATATATATGTATA
1 TATATATACATATA
6480586 TATA
1 TATA
6480590 AAAACTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (14 bp):
TATATATACATATA
Found at i:6480668 original size:15 final size:14
Alignment explanation
Indices: 6480633--6480675 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
6480623 TGTATGTTTC
*
6480633 ATGAAAAATTATTT
1 ATGAAAAATAATTT
6480647 ATGAAAAATAATTT
1 ATGAAAAATAATTT
*
6480661 TTGAAAAAT-ATTT
1 ATGAAAAATAATTT
6480674 AT
1 AT
6480676 ATTTTTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (14 bp):
ATGAAAAATAATTT
Found at i:6486169 original size:25 final size:24
Alignment explanation
Indices: 6486135--6486194 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
6486125 TTGAAAATAG
6486135 TAAAAAAAATTATTATAATTATGA
1 TAAAAAAAATTATTATAATTATGA
* *
6486159 TAAAAACAAATTATTGTGATTATGA
1 TAAAAA-AAATTATTATAATTATGA
6486184 TCGAAAAAAAA
1 T--AAAAAAAA
6486195 AAAAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 6 0.19
25 17 0.55
26 3 0.10
27 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (24 bp):
TAAAAAAAATTATTATAATTATGA
Found at i:6489678 original size:1 final size:1
Alignment explanation
Indices: 6489672--6489702 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
6489662 TGAATTTCCC
6489672 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6489703 GTAAATGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6490028 original size:14 final size:15
Alignment explanation
Indices: 6489999--6490030 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6489989 TGTTTCTCTT
6489999 AAAATTTTTTGTAAG
1 AAAATTTTTTGTAAG
6490014 AAAATTTTTTG-AAG
1 AAAATTTTTTGTAAG
6490028 AAA
1 AAA
6490031 GCACAGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (15 bp):
AAAATTTTTTGTAAG
Found at i:6497433 original size:31 final size:31
Alignment explanation
Indices: 6497397--6497475 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
6497387 AACACTATAA
* * * *
6497397 AACATAAAAATAAGATATTTGGACAATACAT
1 AACATAAAAATAACATAGTTGAACAACACAT
*
6497428 AACATAAAAATAACATAGTTGAACAGCACAT
1 AACATAAAAATAACATAGTTGAACAACACAT
*
6497459 CACATAAAAATGAACAT
1 AACATAAAAAT-AACAT
6497476 GTAAAAAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 36 0.88
32 5 0.12
ACGTcount: A:0.56, C:0.14, G:0.09, T:0.22
Consensus pattern (31 bp):
AACATAAAAATAACATAGTTGAACAACACAT
Found at i:6498756 original size:19 final size:20
Alignment explanation
Indices: 6498732--6498775 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
6498722 TGATATATTC
*
6498732 AATATTTTATTTTTTA-AAT
1 AATATTTAATTTTTTATAAT
*
6498751 AATA-TTAATTTTTTATATT
1 AATATTTAATTTTTTATAAT
6498770 AATATT
1 AATATT
6498776 CTTAATAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 10 0.48
19 10 0.48
20 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATATTTAATTTTTTATAAT
Found at i:6500307 original size:14 final size:14
Alignment explanation
Indices: 6500287--6500320 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6500277 TATAATTTTA
6500287 TATTATAAT-TAAT
1 TATTATAATATAAT
6500300 TAATTATAATATAAT
1 T-ATTATAATATAAT
6500315 TATTAT
1 TATTAT
6500321 CGATAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 13 0.68
15 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATAATATAAT
Found at i:6501988 original size:15 final size:15
Alignment explanation
Indices: 6501968--6502004 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6501958 AAATTTATGA
*
6501968 ATTTATTGTATTTTT
1 ATTTATTATATTTTT
6501983 ATTTATTATATTTTT
1 ATTTATTATATTTTT
6501998 ATTTATT
1 ATTTATT
6502005 TTTGTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
ATTTATTATATTTTT
Found at i:6502107 original size:105 final size:105
Alignment explanation
Indices: 6501890--6502099 Score: 264
Period size: 105 Copynumber: 2.0 Consensus size: 105
6501880 TTTAATGTTA
* * ** *
6501890 TTTATTTTTTTTTATAAAAATTTAAAAATAAGGGAGATTATTCAATCTCTAAAGTTTAAGGTAAA
1 TTTATTTATTTTTATAAAAATTTAAAAACAAGGGAGATTACCCAATCTCTAAAGTTTAAGGCAAA
* ** * * *
6501955 TTGAAATTTATGAATTTATTGTATTTTTATTTATTATATT
66 TCGAAATTTACAAATTTATTGTACTTTCATTTATAATATT
* * * *
6501995 TTTATTTATTTTTGTAACAATTTAAAAACAAGGGAGATTACCCAATCTTTAAAG-TT-AGGCGAA
1 TTTATTTATTTTTATAAAAATTTAAAAACAAGGGAGATTACCCAATCTCTAAAGTTTAAGGCAAA
6502058 TCGAAATTTACAAATTTATTGTACTTTCATTTATAA-ATT
66 TCGAAATTTACAAATTTATTGTACTTTCATTTATAATATT
6502097 TTT
1 TTT
6502100 TAAATTTACA
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
102 6 0.07
103 35 0.39
104 2 0.02
105 47 0.52
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (105 bp):
TTTATTTATTTTTATAAAAATTTAAAAACAAGGGAGATTACCCAATCTCTAAAGTTTAAGGCAAA
TCGAAATTTACAAATTTATTGTACTTTCATTTATAATATT
Found at i:6502228 original size:23 final size:25
Alignment explanation
Indices: 6502201--6502255 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
6502191 TTAGAATTAT
6502201 AATAATTAATACATAAACTAT-ATC
1 AATAATTAATACATAAACTATAATC
* *
6502225 -ATAATTAATAGATAAATTATAATC
1 AATAATTAATACATAAACTATAATC
6502249 AATAATT
1 AATAATT
6502256 TTCATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 18 0.67
24 3 0.11
25 6 0.22
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (25 bp):
AATAATTAATACATAAACTATAATC
Found at i:6503213 original size:13 final size:13
Alignment explanation
Indices: 6503149--6503213 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
6503139 CAATTGATAC
*
6503149 ATATAAAAATTAA
1 ATATTAAAATTAA
6503162 ATAATAATAAAATATAA
1 AT-AT--TAAAAT-TAA
*
6503179 ATATT-TAATTAA
1 ATATTAAAATTAA
6503191 AT-TTATAAATTAA
1 ATATTA-AAATTAA
6503204 ATATTAAAAT
1 ATATTAAAAT
6503214 ATTTAAACTC
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.05
12 5 0.12
13 17 0.40
14 6 0.14
16 7 0.17
17 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATTAAAATTAA
Found at i:6509791 original size:76 final size:76
Alignment explanation
Indices: 6509711--6509873 Score: 220
Period size: 76 Copynumber: 2.1 Consensus size: 76
6509701 TTAAAAGAAT
** *
6509711 AACAATTAATTAATTTAAATA-TTTTATGAGAAAGAATTTAACTTATAGATATTTTAATTGATAT
1 AACAATTAATTAACCTAAATATTTTTATGAGAAAGAA-TTAACTTATAGATATTTTAATTGACAT
*
6509775 AGGAGTTTTTGA
65 AGGAGTTATTGA
* * *
6509787 AACAATTAATTAACCTAGATATTTTTATGGGAAAGAATTAAGTTATAGATATTTTAATTGACATA
1 AACAATTAATTAACCTAAATATTTTTATGAGAAAGAATTAACTTATAGATATTTTAATTGACATA
*
6509852 GGTGTTATTGA
66 GGAGTTATTGA
* *
6509863 AAAAAATAATT
1 AACAATTAATT
6509874 TTCTTAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
76 62 0.82
77 14 0.18
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (76 bp):
AACAATTAATTAACCTAAATATTTTTATGAGAAAGAATTAACTTATAGATATTTTAATTGACATA
GGAGTTATTGA
Found at i:6510690 original size:11 final size:11
Alignment explanation
Indices: 6510674--6510704 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
6510664 ATTTGGGTTT
6510674 AATTCAAATAA
1 AATTCAAATAA
6510685 AATTCAAATAA
1 AATTCAAATAA
6510696 AATTCAAAT
1 AATTCAAAT
6510705 TCGGTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (11 bp):
AATTCAAATAA
Found at i:6510855 original size:19 final size:20
Alignment explanation
Indices: 6510819--6510856 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6510809 AATCGAATTT
**
6510819 TTATATTTAATTTTTAAAAA
1 TTATATTTAATTAATAAAAA
6510839 TTAT-TTTAATTAATAAAA
1 TTATATTTAATTAATAAAA
6510857 TATCTCGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATTTAATTAATAAAAA
Found at i:6512649 original size:37 final size:38
Alignment explanation
Indices: 6512580--6512654 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 38
6512570 TAAGATACTC
* *
6512580 AAATTTGATTTACTCAATAAATCAAATTATTTAAATTT
1 AAATTTGATTCAATCAATAAATCAAATTATTTAAATTT
* *
6512618 AAATTTGATTCAAT-AAT-AATTAAATTAATTTATATTT
1 AAATTTGATTCAATCAATAAATCAAATT-ATTTAAATTT
6512655 TATTTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 8 0.25
37 12 0.38
38 12 0.38
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (38 bp):
AAATTTGATTCAATCAATAAATCAAATTATTTAAATTT
Found at i:6513307 original size:17 final size:18
Alignment explanation
Indices: 6513285--6513319 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6513275 GAGTCTTTGA
*
6513285 TATTTAATTAATT-AATT
1 TATTTAATGAATTGAATT
6513302 TATTTAATGAATTGAATT
1 TATTTAATGAATTGAATT
6513320 AAAGTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TATTTAATGAATTGAATT
Found at i:6515668 original size:24 final size:24
Alignment explanation
Indices: 6515621--6515669 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6515611 TTTTTATGAA
* * **
6515621 TTTTTTAATCATAATTATGGTAAT
1 TTTTTTAATAACAATTATAATAAT
6515645 TTTTTTAATAACAATTATAATAAT
1 TTTTTTAATAACAATTATAATAAT
6515669 T
1 T
6515670 ATTATTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTTTAATAACAATTATAATAAT
Found at i:6515931 original size:20 final size:20
Alignment explanation
Indices: 6515906--6515946 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6515896 GCAAGGAGAG
6515906 GGTTGGTCCTAAAAGAGAAA
1 GGTTGGTCCTAAAAGAGAAA
*
6515926 GGTTGGTCCTAGAAGAGAAA
1 GGTTGGTCCTAAAAGAGAAA
6515946 G
1 G
6515947 ATATATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (20 bp):
GGTTGGTCCTAAAAGAGAAA
Found at i:6523753 original size:29 final size:30
Alignment explanation
Indices: 6523719--6523797 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 30
6523709 TAATAAAATA
6523719 TTTAATATAAT-ATATAAATT-TAAAATTT-T
1 TTTAATATAATAAT-TAAATTAT-AAATTTAT
6523748 TTTAATATAATAATTAAATTATAAATTTAT
1 TTTAATATAATAATTAAATTATAAATTTAT
6523778 TAATTAATATAATAATTAAA
1 T--TTAATATAATAATTAAA
6523798 AGATTTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
29 23 0.51
30 5 0.11
32 17 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTAATATAATAATTAAATTATAAATTTAT
Found at i:6523912 original size:29 final size:29
Alignment explanation
Indices: 6523870--6523929 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
6523860 AATTAATAAA
* *
6523870 TTTATAATTCAAATATCATATTAAAAATT
1 TTTAAAATTCAAATATCACATTAAAAATT
* * *
6523899 TTTAAAATTTAAATCTCACATTAAATATT
1 TTTAAAATTCAAATATCACATTAAAAATT
6523928 TT
1 TT
6523930 ATTATCGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTAAAATTCAAATATCACATTAAAAATT
Found at i:6528437 original size:60 final size:60
Alignment explanation
Indices: 6528344--6528466 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 60
6528334 GAGCAGCAAT
6528344 CTGAGAACTTGAAATCTTTTCAACTTCAACAACATTTTGACAAGGCAAATTCTCTTTCAG
1 CTGAGAACTTGAAATCTTTTCAACTTCAACAACATTTTGACAAGGCAAATTCTCTTTCAG
* * * *
6528404 CTGAGCACTTGAAGT-TTTGTCGACTTCAACAACATTTTGACATGGCAAATTCTCTTTCAG
1 CTGAGAACTTGAAATCTTT-TCAACTTCAACAACATTTTGACAAGGCAAATTCTCTTTCAG
6528464 CTG
1 CTG
6528467 CATCAGATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 3 0.05
60 55 0.95
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (60 bp):
CTGAGAACTTGAAATCTTTTCAACTTCAACAACATTTTGACAAGGCAAATTCTCTTTCAG
Done.