Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 142 of 221
Found at i:43600848 original size:84 final size:86
Alignment explanation
Indices: 43600469--43601128 Score: 292
Period size: 84 Copynumber: 7.7 Consensus size: 86
43600459 CAACTGCTTC
* * ** * **
43600469 ACTGCAACTTCAGAGAGATAAGGT-TG-GTTTCTTCTGTCTACTCCACTACTGCTT-AGGGAGAT
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTACAACTTCAGGGAGAT
*
43600531 AAGACAT-GATGCGATCTGCTCT
64 AAGACTTGGATGCGATCTGCTCT
* * * *
43600553 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
* * *
43600618 GA-TTGGTTTC-TTCTG-TCT
66 GACTTGGATGCGATCTGCTCT
* * * * * *** * * * * *
43600636 GCTCCACTACTACTGAGGGAGATAAGA-C--TGGATGCGATCTTCTCTACTGCAAGTTCAGAGAG
1 ACTGCA--ACT--TCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAG
* ***
43600698 ATAAGATCTGTGGTTTTAATCTGCT-T
62 ATAAGA-CT-TGGATGCGATCTGCTCT
* * * * *
43600724 CACTGTAACTTCA-AGGAGATAGGA---GTGGTTTCTTCTATCTGCTCCATTACTACTT-AGGGA
1 -ACTGCAACTTCAGA-GAGATAAGATCTGTGG-TT-TT-AATCTGCTCCACTACAACTTCAGGGA
*
43600784 GATAAGACTT-GATGCGATCTGTTCT
61 GATAAGACTTGGATGCGATCTGCTCT
* * *
43600809 ACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
* * ** *
43600874 GA-TTGGTTTCTTCTTTCTGCTCC
66 GACTTGG---ATGCGATCTGCTCT
* * * * * * * * *
43600897 ACTACTACTT-AGGGAGATAAGA-CT-T-GATGTGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
* *** *
43600958 GATCTGTGGTTTTAATCTGCTCC
66 GA-CT-TGGATGCGATCTGCTCT
* * * * ** * * **
43600981 ACTGCAACTTTAGGGAGATAGGAT-TG-GTTTCTTCTGTCTGCTCTATTACTGCTT-AGGGAGAT
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTACAACTTCAGGGAGAT
43601043 AAGACTT-GATGCGATCTGCTCT
64 AAGACTTGGATGCGATCTGCTCT
** * *
43601065 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATA
43601129 GATTGGTTTC
Statistics
Matches: 424, Mismatches: 111, Indels: 81
0.69 0.18 0.13
Matches are distributed among these distances:
83 7 0.02
84 208 0.49
85 77 0.18
86 19 0.04
87 62 0.15
88 47 0.11
89 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (86 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
GACTTGGATGCGATCTGCTCT
Found at i:43601655 original size:24 final size:24
Alignment explanation
Indices: 43601623--43601678 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
43601613 GATTGCCCCT
*
43601623 ACTGTAATCTTCAAATTTCAATCC
1 ACTGTAATCTTCAAAGTTCAATCC
* *
43601647 ACTGTAATCTTCAACGTTCAATCT
1 ACTGTAATCTTCAAAGTTCAATCC
43601671 ACTGTAAT
1 ACTGTAAT
43601679 TTTGAGACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTTCAATCC
Found at i:43602629 original size:6 final size:6
Alignment explanation
Indices: 43602615--43602669 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
43602605 CACCTTGGCC
* *
43602615 TTTCTTT TTTCTT TTCTTTT TTTCTT TTTC-- CTTCTT TTTCTT TTTCTT
1 TTTC-TT TTTCTT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
43602663 TTT-TT TT
1 TTTCTT TT
43602670 GTTTTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 3 0.07
5 4 0.10
6 25 0.61
7 9 0.22
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:43602652 original size:16 final size:15
Alignment explanation
Indices: 43602619--43602667 Score: 68
Period size: 16 Copynumber: 3.4 Consensus size: 15
43602609 TTGGCCTTTC
43602619 TTTTTTC-TTTT-CT
1 TTTTTTCTTTTTCCT
43602632 TTTTTTCTTTTTCCT
1 TTTTTTCTTTTTCCT
43602647 TCTTTTTCTTTTT-CT
1 T-TTTTTCTTTTTCCT
43602662 TTTTTT
1 TTTTTT
43602668 TTGTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.21
14 9 0.27
15 6 0.18
16 11 0.33
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTCCT
Found at i:43602668 original size:16 final size:16
Alignment explanation
Indices: 43602614--43602675 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
43602604 TCACCTTGGC
43602614 CTTTCTTTTTTC-TTTT
1 CTTT-TTTTTTCTTTTT
43602630 C--TTTTTTTCTTTTT
1 CTTTTTTTTTCTTTTT
* *
43602644 CCTTCTTTTTCTTTTT
1 CTTTTTTTTTCTTTTT
*
43602660 CTTTTTTTTTGTTTTT
1 CTTTTTTTTTCTTTTT
43602676 TTGAACATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.18
14 6 0.15
16 26 0.67
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (16 bp):
CTTTTTTTTTCTTTTT
Found at i:43606302 original size:40 final size:40
Alignment explanation
Indices: 43606111--43606295 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
43606101 TCGAATGATG
* * * *
43606111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
43606151 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
43606191 TCTGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43606230 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43606271 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43606296 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 32 0.27
40 77 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43606317 original size:79 final size:79
Alignment explanation
Indices: 43606164--43606328 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
43606154 AGACTAAGAT
* * **
43606164 CCGAAGGCATTTGTGCGAGATACTAATTCTGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43606229 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
43606243 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43606306 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43606322 CCGAAGG
1 CCGAAGG
43606329 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43608656 original size:19 final size:19
Alignment explanation
Indices: 43608632--43608671 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
43608622 ACCAATCTTC
43608632 AAGTTGTTTTGGTAGTTCT
1 AAGTTGTTTTGGTAGTTCT
43608651 AAGTTGTTTTGGTAGTTCT
1 AAGTTGTTTTGGTAGTTCT
43608670 AA
1 AA
43608672 CCTTGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (19 bp):
AAGTTGTTTTGGTAGTTCT
Found at i:43611615 original size:43 final size:41
Alignment explanation
Indices: 43611565--43611647 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 41
43611555 AAGAAAATGA
*
43611565 ATAAAATTATAAAAATATAAAAGATATATATGTGTGTATATAC
1 ATAAAATTATAAAAATATAAAA-A-ATATATGTATGTATATAC
** *
43611608 ATAAAATTATGGAAATATGAAAAATATATGTATGTATATA
1 ATAAAATTATAAAAATATAAAAAATATATGTATGTATATA
43611648 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 16 0.44
42 1 0.03
43 19 0.53
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35
Consensus pattern (41 bp):
ATAAAATTATAAAAATATAAAAAATATATGTATGTATATAC
Found at i:43611871 original size:31 final size:31
Alignment explanation
Indices: 43611836--43611915 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
43611826 AAGTTATAAA
* **
43611836 ATATAAAGAATGTATAAGTATATATATGTAT
1 ATATAAACAATGTATAAAAATATATATGTAT
* * *
43611867 ATATAGACAATGTATAAAAATGTATATGTGT
1 ATATAAACAATGTATAAAAATATATATGTAT
*
43611898 ATATATAC-AT-TATAAAAA
1 ATATAAACAATGTATAAAAA
43611916 CGCATGTATG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.19
30 2 0.05
31 32 0.76
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (31 bp):
ATATAAACAATGTATAAAAATATATATGTAT
Found at i:43623750 original size:40 final size:39
Alignment explanation
Indices: 43623696--43623774 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
43623686 AATAATTTTA
*
43623696 AAATCAAGTGAAAATGATTTCAAC-CAGGTCAAAATGATTT
1 AAATCAAGTGAAAATCATTTCAACACA--TCAAAATGATTT
* *
43623736 AAATCAAGTTAAAATCATTTTAACACATCAAAATGATTT
1 AAATCAAGTGAAAATCATTTCAACACATCAAAATGATTT
43623775 TCAAAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 12 0.34
40 21 0.60
41 2 0.06
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (39 bp):
AAATCAAGTGAAAATCATTTCAACACATCAAAATGATTT
Found at i:43623774 original size:19 final size:20
Alignment explanation
Indices: 43623706--43623775 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
43623696 AAATCAAGTG
*
43623706 AAAATGATTTCAAC-CAGGTC
1 AAAATGATTTTAACACA-GTC
* *
43623726 AAAATGATTTAAATCA-AGTT
1 AAAATGATTTTAA-CACAGTC
*
43623746 AAAATCATTTTAACACA-TC
1 AAAATGATTTTAACACAGTC
43623765 AAAATGATTTT
1 AAAATGATTTT
43623776 CAAAAAAGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.32
20 26 0.63
21 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAATGATTTTAACACAGTC
Found at i:43623831 original size:21 final size:19
Alignment explanation
Indices: 43623805--43623856 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
43623795 CCAAGGCAAA
43623805 AAGTATCGATACCTTTTGG
1 AAGTATCGATACCTTTTGG
* *
43623824 CCAAGTATTGATA-ATTTTGG
1 --AAGTATCGATACCTTTTGG
*
43623844 AATTATCGATACC
1 AAGTATCGATACC
43623857 CTTAGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 9 0.36
20 6 0.24
21 10 0.40
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
AAGTATCGATACCTTTTGG
Found at i:43627883 original size:19 final size:19
Alignment explanation
Indices: 43627859--43627896 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
43627849 AGTTTAGGCC
43627859 AGATTCCGGAGGTCACATT
1 AGATTCCGGAGGTCACATT
*
43627878 AGATTCTGGAGGTCACATT
1 AGATTCCGGAGGTCACATT
43627897 GATCACCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (19 bp):
AGATTCCGGAGGTCACATT
Found at i:43637329 original size:20 final size:20
Alignment explanation
Indices: 43637304--43637361 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
43637294 TTTTGATGTG
*
43637304 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
43637324 TTAAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTTGA
* *
43637344 TTACAATCATTTTCACTT
1 TTAAAATCATTTTAACTT
43637362 TATTGGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:43649744 original size:16 final size:16
Alignment explanation
Indices: 43649723--43649761 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
43649713 ATTAAAATTT
43649723 AATAGAATCTTGTCAA
1 AATAGAATCTTGTCAA
*
43649739 AATAGAGTCTTGTCAA
1 AATAGAATCTTGTCAA
43649755 AATAGAA
1 AATAGAA
43649762 GTTCTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (16 bp):
AATAGAATCTTGTCAA
Found at i:43660627 original size:3 final size:3
Alignment explanation
Indices: 43660608--43660669 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
43660598 TTACAAAAAT
* * * * *
43660608 ATA ATA ACA ATA GTA ATA ATC ATA ATA ATA ATA ATA ATA TTA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
43660656 GTA ATA GTA ATA AT
1 ATA ATA ATA ATA AT
43660670 GAAGATTAGA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:43662201 original size:8 final size:8
Alignment explanation
Indices: 43662185--43662251 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
43662175 TTCAAATTTC
*
43662185 AATTGTAA
1 AATTTTAA
43662193 AATTTTAA
1 AATTTTAA
43662201 AATTTTAGA
1 AATTTTA-A
*
43662210 TATTTTAA
1 AATTTTAA
***
43662218 AAAGCTAA
1 AATTTTAA
*
43662226 TATTTTAA
1 AATTTTAA
43662234 AATTTTAGA
1 AATTTTA-A
*
43662243 TATTTTAA
1 AATTTTAA
43662251 A
1 A
43662252 CAGCTAACAT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
8 30 0.68
9 14 0.32
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:43662216 original size:17 final size:17
Alignment explanation
Indices: 43662194--43662251 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
43662184 CAATTGTAAA
43662194 ATTTTAAAATTTTAGAT
1 ATTTTAAAATTTTAGAT
***
43662211 ATTTTAAAAAGCTA-AT
1 ATTTTAAAATTTTAGAT
43662227 ATTTTAAAATTTTAGAT
1 ATTTTAAAATTTTAGAT
43662244 ATTTTAAA
1 ATTTTAAA
43662252 CAGCTAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.38
17 21 0.62
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
ATTTTAAAATTTTAGAT
Found at i:43662230 original size:16 final size:16
Alignment explanation
Indices: 43662209--43662269 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
43662199 AAAATTTTAG
43662209 ATATTTTAAAAAGCTA
1 ATATTTTAAAAAGCTA
***
43662225 ATATTTTAAAATTTTA
1 ATATTTTAAAAAGCTA
*
43662241 GATATTTTAAACAGCTA
1 -ATATTTTAAAAAGCTA
*
43662258 ACATTTTAAAAA
1 ATATTTTAAAAA
43662270 ATTTCAATTG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (16 bp):
ATATTTTAAAAAGCTA
Found at i:43662234 original size:33 final size:33
Alignment explanation
Indices: 43662194--43662268 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
43662184 CAATTGTAAA
*
43662194 ATTTTAAAATTTTAGATATTTTAAAAAGCTAAT
1 ATTTTAAAATTTTAGATATTTTAAAAAGCTAAC
*
43662227 ATTTTAAAATTTTAGATATTTTAAACAGCTAAC
1 ATTTTAAAATTTTAGATATTTTAAAAAGCTAAC
43662260 ATTTTAAAA
1 ATTTTAAAA
43662269 AATTTCAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (33 bp):
ATTTTAAAATTTTAGATATTTTAAAAAGCTAAC
Found at i:43663709 original size:15 final size:15
Alignment explanation
Indices: 43663689--43663764 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
43663679 TTTATGGAAA
*
43663689 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
43663704 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
43663718 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
**
43663734 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
43663748 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
43663764 A
1 A
43663765 CCGAGATATT
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:43663730 original size:30 final size:30
Alignment explanation
Indices: 43663685--43663764 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
43663675 CATATTTATG
*
43663685 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* * *
43663715 GAAAGTCAAATATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
43663745 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
43663765 CCGAGATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:43668374 original size:15 final size:15
Alignment explanation
Indices: 43668354--43668429 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
43668344 TTTATGGAAA
43668354 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
43668369 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
43668383 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
43668399 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
43668413 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
43668429 A
1 A
43668430 CCGAGATATT
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:43668391 original size:30 final size:30
Alignment explanation
Indices: 43668350--43668429 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
43668340 CATATTTATG
*
43668350 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
43668380 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
43668410 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
43668430 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:43671511 original size:20 final size:20
Alignment explanation
Indices: 43671478--43671517 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43671468 TAATCGTAGA
43671478 CTTATTATTCTATTTTAATT
1 CTTATTATTCTATTTTAATT
43671498 CTTAGTTATT-TATTTTAATT
1 CTTA-TTATTCTATTTTAATT
43671518 GTTTTATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
CTTATTATTCTATTTTAATT
Found at i:43683372 original size:23 final size:22
Alignment explanation
Indices: 43683330--43683372 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43683320 TTTAAATCCA
*
43683330 AAAAATAGAAAACTATATTCTT
1 AAAAATAGAAAACTAAATTCTT
*
43683352 AAAAATAGAGAAATTAAATTC
1 AAAAATAGA-AAACTAAATTC
43683373 CAAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAAATAGAAAACTAAATTCTT
Found at i:43685579 original size:114 final size:113
Alignment explanation
Indices: 43685319--43685678 Score: 363
Period size: 114 Copynumber: 3.2 Consensus size: 113
43685309 CCGAACATTA
* *
43685319 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCAGCGTTTTTGAGA
1 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCGTTTTAGAGA
* * * * *
43685384 A-AG-TGCCACAAAAACCTAAGCTCAACGACGCTGTTTTCTAGGCTTTC
66 AGAGCCG-CAAAAAAACCTAAGCCCAACGACACCGTTTTCTAGGCTTTC
** * * *
43685431 GAGGG-TTTAGCGGCGTTTTTATCAATGCGCCGCTAATGTTCAGGGCTTTAGCGGCGCTTTTAAA
1 G-GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCG-TTTTAGA
*
43685495 GAAGAGCCGCAAAAAAACCTAAGCCCAACGACACCG-TTTCT-GAGCTTTTT
64 GAAGAGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTAG-GC-TTTC
* * * * ** * *
43685545 GGGGATTTAGTGGCATTTTTAAGGAAGCGTCGCTAATACTCATGGCCTTAGCGGCGTTTTTGGAG
1 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCG-TTTTAGAG
* * * * * *
43685610 AAGCGCCACAAAAAAACCTAAGCCCAACGACGCC-ATTTCGAGAGATTTC
65 AAGAGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTAG-GCTTTC
*
43685659 GGGGATCTAGCGGCGTTTTT
1 GGGGATTTAGCGGCGTTTTT
43685679 TGTGTAGCGC
Statistics
Matches: 203, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
112 48 0.24
113 21 0.10
114 130 0.64
115 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (113 bp):
GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCGTTTTAGAGA
AGAGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTAGGCTTTC
Found at i:43685762 original size:74 final size:72
Alignment explanation
Indices: 43685592--43685765 Score: 181
Period size: 73 Copynumber: 2.4 Consensus size: 72
43685582 ACTCATGGCC
* *
43685592 TTAGCGGCGTTTTTGGAGAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTCGAGAGATT
1 TTAGCGGCGTTTTTTGA-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTCGAGAGATT
43685657 TCGGGGAT
65 TCGGGGAT
* ** * * * *
43685665 CTAGCGGCGTTTTTTGTGTAGCGCCGCAATAAAAA-CTAAGCCCAACGACGCCGTTTTC-TGTGC
1 TTAGCGGCGTTTTTTG-AAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCC-ATTTCGAGAGA
*
43685728 TTTTGGTGGAT
63 TTTCGG-GGAT
*
43685739 TTAGCGGTGTTTTTATGAAAGCGCCGC
1 TTAGCGGCGTTTTT-TGAAAGCGCCGC
43685766 TAATGCTCAG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
73 47 0.57
74 33 0.40
75 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTTGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTCGAGAGATTT
CGGGGAT
Found at i:43686066 original size:18 final size:18
Alignment explanation
Indices: 43686043--43686086 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
43686033 GTTATGCTTT
43686043 AGGGGTTAGGGGATTTAG
1 AGGGGTTAGGGGATTTAG
43686061 AGGGGTTAGGGGATTTAG
1 AGGGGTTAGGGGATTTAG
43686079 AGGGGTTA
1 AGGGGTTA
43686087 AGGGTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (18 bp):
AGGGGTTAGGGGATTTAG
Found at i:43686950 original size:30 final size:32
Alignment explanation
Indices: 43686914--43686974 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
43686904 TTATTATTGG
*
43686914 ATAAAAAAAT-ACATTT-TTATACCAAATTTT
1 ATAAAAAAATAAAATTTATTATACCAAATTTT
*
43686944 ATAAAAAGATAAAATTTATTATACCAAATTT
1 ATAAAAAAATAAAATTTATTATACCAAATTT
43686975 CATCCGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 9 0.33
31 5 0.19
32 13 0.48
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (32 bp):
ATAAAAAAATAAAATTTATTATACCAAATTTT
Found at i:43687233 original size:21 final size:21
Alignment explanation
Indices: 43687207--43687252 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
43687197 GTTAGGGTAA
*
43687207 TTTAGGGTTTAGGGGTTATGC
1 TTTAGGGGTTAGGGGTTATGC
43687228 TTTAGGGGTTAGGGGTTATGC
1 TTTAGGGGTTAGGGGTTATGC
43687249 TTTA
1 TTTA
43687253 AGGATTAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (21 bp):
TTTAGGGGTTAGGGGTTATGC
Found at i:43687273 original size:31 final size:29
Alignment explanation
Indices: 43687236--43687306 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 29
43687226 GCTTTAGGGG
*
43687236 TTAGGGGTTATGCTTTAAGGATTAAGGGGAT
1 TTAGGGGTTATGCGTTAAGGATT--GGGGAT
* * *
43687267 TTAGGGGTTATGGGTTAGGGATTTGGGAT
1 TTAGGGGTTATGCGTTAAGGATTGGGGAT
43687296 TTAGGGGTTAT
1 TTAGGGGTTAT
43687307 TAATTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 16 0.44
31 20 0.56
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.38
Consensus pattern (29 bp):
TTAGGGGTTATGCGTTAAGGATTGGGGAT
Found at i:43689029 original size:16 final size:16
Alignment explanation
Indices: 43689008--43689119 Score: 83
Period size: 16 Copynumber: 7.0 Consensus size: 16
43688998 AAGGGAAAAA
43689008 GCTGGAATATATACTT
1 GCTGGAATATATACTT
*
43689024 GCTGGAATATATTCCAGTT
1 GCTGGAATATA-T--ACTT
43689043 GCT-GAA-ATATACTT
1 GCTGGAATATATACTT
*
43689057 GCTGG-A-ATATA-TG
1 GCTGGAATATATACTT
**
43689070 GC-CAAATATATACTT
1 GCTGGAATATATACTT
*
43689085 GCTGGAATATATTCCAGTT
1 GCTGGAATATA-T--ACTT
43689104 GCTGGAATATATACTT
1 GCTGGAATATATACTT
43689120 TACTAAAATC
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
13 4 0.05
14 17 0.23
15 4 0.05
16 21 0.28
17 5 0.07
18 4 0.05
19 20 0.27
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (16 bp):
GCTGGAATATATACTT
Found at i:43689057 original size:33 final size:34
Alignment explanation
Indices: 43689012--43689119 Score: 140
Period size: 28 Copynumber: 3.4 Consensus size: 34
43689002 GAAAAAGCTG
43689012 GAATATATACTTGCTGGAATATATTCCAGTTGCT
1 GAATATATACTTGCTGGAATATATTCCAGTTGCT
*
43689046 GAA-ATATACTTGCTGGAATATA-T---G--GCC
1 GAATATATACTTGCTGGAATATATTCCAGTTGCT
*
43689073 AAATATATACTTGCTGGAATATATTCCAGTTGCT
1 GAATATATACTTGCTGGAATATATTCCAGTTGCT
43689107 GGAATATATACTT
1 -GAATATATACTT
43689120 TACTAAAATC
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
27 4 0.06
28 19 0.31
29 2 0.03
32 2 0.03
33 19 0.31
34 5 0.08
35 11 0.18
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (34 bp):
GAATATATACTTGCTGGAATATATTCCAGTTGCT
Found at i:43690643 original size:88 final size:87
Alignment explanation
Indices: 43690510--43690817 Score: 409
Period size: 88 Copynumber: 3.6 Consensus size: 87
43690500 AAAAAATGCA
43690510 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATATTAGACAACTCAGTTTA
1 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATATTAGA-AACTCAGTTTA
43690575 CTTTACTTACATTACTTAAATAT
65 CTTTACTTACATTACTTAAATAT
* * *
43690598 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATATA-T-GAATA-T-GGTTTG
1 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATATTAGAA-ACTCAGTTTA
* * * *
43690659 C--TACATT-C-GTGC-AAAAAAT
65 CTTTAC-TTACATTACTTAAATAT
*
43690678 GCAATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATATTACATAACTCAGT
1 ---ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATATTAGA-AACTCAGT
43690743 TTACTTTACTTACATTACTTAAATAT
62 TTACTTTACTTACATTACTTAAATAT
*
43690769 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATATAT
1 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATAT
43690818 ATTTTTAAGT
Statistics
Matches: 189, Mismatches: 16, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
80 5 0.03
81 2 0.01
82 4 0.02
83 49 0.26
84 6 0.03
85 4 0.02
86 5 0.03
87 6 0.03
88 97 0.51
89 4 0.02
90 2 0.01
91 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (87 bp):
ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATATATTAGAAACTCAGTTTAC
TTTACTTACATTACTTAAATAT
Found at i:43690723 original size:83 final size:83
Alignment explanation
Indices: 43690475--43690729 Score: 322
Period size: 83 Copynumber: 3.0 Consensus size: 83
43690465 TTGTTGACTT
43690475 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
1 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
43690540 ATTACTTACCGAAATATA
66 ATTACTTACCGAAATATA
* * * * ** *
43690558 TTAGACA-ACTCAGTTTACTTTAC-TTACAT-TACTTAAAT--ATATATTCTTAAGTATATATTA
1 -T-GA-ATA-T-GGTTTGC--TACATT-CGTGCA-AAAAATGCA-ATATTCTTAAGCATATATTA
43690618 CATTACTTACATTACTTACCGAAATATA
56 CATTACTTACATTACTTACCGAAATATA
43690646 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
1 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
43690711 ATTACTTACCGAAATATA
66 ATTACTTACCGAAATATA
43690729 T
1 T
43690730 TACATAACTC
Statistics
Matches: 143, Mismatches: 14, Indels: 29
0.77 0.08 0.16
Matches are distributed among these distances:
82 9 0.06
83 51 0.36
84 7 0.05
85 5 0.03
86 5 0.03
87 7 0.05
88 50 0.35
89 9 0.06
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (83 bp):
TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
ATTACTTACCGAAATATA
Found at i:43690760 original size:171 final size:171
Alignment explanation
Indices: 43690475--43690817 Score: 668
Period size: 171 Copynumber: 2.0 Consensus size: 171
43690465 TTGTTGACTT
43690475 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
1 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
*
43690540 ATTACTTACCGAAATATATTAGACAACTCAGTTTACTTTACTTACATTACTTAAATATATATTCT
66 ATTACTTACCGAAATATATTACACAACTCAGTTTACTTTACTTACATTACTTAAATATATATTCT
43690605 TAAGTATATATTACATTACTTACATTACTTACCGAAATATA
131 TAAGTATATATTACATTACTTACATTACTTACCGAAATATA
43690646 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
1 TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
*
43690711 ATTACTTACCGAAATATATTACATAACTCAGTTTACTTTACTTACATTACTTAAATATATATTCT
66 ATTACTTACCGAAATATATTACACAACTCAGTTTACTTTACTTACATTACTTAAATATATATTCT
43690776 TAAGTATATATTACATTACTTACATTACTTACCGAAATATA
131 TAAGTATATATTACATTACTTACATTACTTACCGAAATATA
43690817 T
1 T
43690818 ATTTTTAAGT
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 170 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (171 bp):
TGAATATGGTTTGCTACATTCGTGCAAAAAATGCAATATTCTTAAGCATATATTACATTACTTAC
ATTACTTACCGAAATATATTACACAACTCAGTTTACTTTACTTACATTACTTAAATATATATTCT
TAAGTATATATTACATTACTTACATTACTTACCGAAATATA
Found at i:43690816 original size:47 final size:47
Alignment explanation
Indices: 43690681--43690854 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 47
43690671 AAAAAATGCA
*
43690681 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
* * * * *
43690728 AT-TACATAACTCA-GT-TTACTTTACTTACATTACTT----AAATAT
1 ATATTCTTAAGT-ATATATTACATTACTTACATTACTTACCGAAATAT
43690769 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
*
43690816 ATATTTTTAAGTATATATTACATTACTTACATTACTTAC
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTAC
43690855 TAAAATATGT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
41 9 0.08
42 7 0.07
43 19 0.18
45 19 0.18
46 6 0.06
47 47 0.44
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
Found at i:43690951 original size:49 final size:49
Alignment explanation
Indices: 43690891--43690999 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 49
43690881 TAATATTATA
*
43690891 CATAACATACATAA-TACACATAACTTA-ATAATTTTAAAATATATCATTC
1 CATAACTTACATAACT-CA-ATAACTTACATAATTTTAAAATATATCATTC
* * *
43690940 CATAATTTACATAACTTAATAATTTACATAATTTTAAAATATATCATTC
1 CATAACTTACATAACTCAATAACTTACATAATTTTAAAATATATCATTC
43690989 CATAACTTACA
1 CATAACTTACA
43691000 AATTAATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
48 7 0.13
49 45 0.85
50 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (49 bp):
CATAACTTACATAACTCAATAACTTACATAATTTTAAAATATATCATTC
Found at i:43690963 original size:17 final size:17
Alignment explanation
Indices: 43690941--43691046 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
43690931 ATATCATTCC
43690941 ATAATTTACATAACTTA
1 ATAATTTACATAACTTA
*
43690958 ATAATTTACATAATTTTA
1 ATAATTTACATAA-CTTA
* **
43690976 A-AATATATCAT---TCC
1 ATAATTTA-CATAACTTA
*
43690990 ATAACTTACA-AA-TTA
1 ATAATTTACATAACTTA
43691005 AT-ATTATACATAACTTA
1 ATAATT-TACATAACTTA
43691022 CATAATTTACATAACTTA
1 -ATAATTTACATAACTTA
43691040 ATAATTT
1 ATAATTT
43691047 TAAAATATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
14 6 0.09
15 11 0.16
16 2 0.03
17 28 0.40
18 20 0.29
19 3 0.04
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATTTACATAACTTA
Found at i:43690970 original size:9 final size:9
Alignment explanation
Indices: 43690940--43691046 Score: 64
Period size: 9 Copynumber: 11.9 Consensus size: 9
43690930 TATATCATTC
43690940 CATAATTTA
1 CATAATTTA
*
43690949 CATAACTTA
1 CATAATTTA
43690958 -ATAATTTA
1 CATAATTTA
43690966 CATAATTTTAA
1 CATAA-TTT-A
* *
43690977 AATATATCATTC
1 CATA-AT--TTA
*
43690989 CATAACTTA
1 CATAATTTA
43690998 CA-AA-TTA
1 CATAATTTA
43691005 -AT-ATTATA
1 CATAATT-TA
*
43691013 CATAACTTA
1 CATAATTTA
43691022 CATAATTTA
1 CATAATTTA
*
43691031 CATAACTTA
1 CATAATTTA
43691040 -ATAATTT
1 CATAATTT
43691047 TAAAATATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
6 2 0.03
7 4 0.05
8 17 0.22
9 36 0.47
10 5 0.07
11 6 0.08
12 4 0.05
13 2 0.03
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (9 bp):
CATAATTTA
Found at i:43692680 original size:21 final size:21
Alignment explanation
Indices: 43692654--43692724 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
43692644 CTACAACTTA
*
43692654 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCGAGGG
* *
43692675 AAGCAGAGGCAGCAGTGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
*
43692696 CAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
43692717 AAGCAGAG
1 AAGCAGAG
43692725 CAGAGCAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.48, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:43693124 original size:43 final size:42
Alignment explanation
Indices: 43693071--43693194 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
43693061 CATCAAACAA
* * *
43693071 TAGCGACGTTTGTGATCTAAGCGCCGTTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGAT-AAAGCGCCGCTAAAGAACATGACCTT
* * **
43693114 TAGCGGCGTTTTTGGAAAAAGCGCCGCTAAAGAACATGTTCTT
1 TAGCGGCGTTTGT-GATAAAGCGCCGCTAAAGAACATGACCTT
* * *
43693157 TTGCGGCGTTTGTTGGTGAAGCGCCGCTAAAGAACATG
1 TAGCGGCGTTTG-TGATAAAGCGCCGCTAAAGAACATG
43693195 GCATTTGGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 64 0.96
44 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (42 bp):
TAGCGGCGTTTGTGATAAAGCGCCGCTAAAGAACATGACCTT
Found at i:43693213 original size:33 final size:33
Alignment explanation
Indices: 43693165--43693227 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
43693155 TTTTGCGGCG
* *
43693165 TTTGTTGGTGAAGCGCCGCTAAAGAACATGGCA
1 TTTGGTGGTAAAGCGCCGCTAAAGAACATGGCA
43693198 TTTGGTGGTAAAGCGCCGCTAAAGAACATG
1 TTTGGTGGTAAAGCGCCGCTAAAGAACATG
43693228 TTCTTTAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (33 bp):
TTTGGTGGTAAAGCGCCGCTAAAGAACATGGCA
Found at i:43699223 original size:43 final size:42
Alignment explanation
Indices: 43699111--43699226 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
43699101 TTTATGATAG
*
43699111 AAACGCCGCTAAAGAACATGATCTTTAGCTGCACTTTAGCCAC
1 AAACACCGCTAAAGAACATGATCTTTAGC-GCACTTTAGCCAC
* * * * ** *
43699154 AAACACCACTAAAGATCATGTTCTTTAGCGACGCTTTCTCTAC
1 AAACACCGCTAAAGAACATGATCTTTAGCG-CACTTTAGCCAC
* *
43699197 AAACACCGCTAAAGAAAATGACCTTTAGCG
1 AAACACCGCTAAAGAACATGATCTTTAGCG
43699227 GCGTTTTTGG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
AAACACCGCTAAAGAACATGATCTTTAGCGCACTTTAGCCAC
Found at i:43703516 original size:92 final size:96
Alignment explanation
Indices: 43703411--43703583 Score: 282
Period size: 92 Copynumber: 1.8 Consensus size: 96
43703401 CGCAAATTTT
* *
43703411 TTTCATTTTGAACAAAACGATACCGTTTTGCTATTCT-AAAATTTTTT-TATT-TTTTT-ATAAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATATTATTTTTAATAAA
43703472 TTGATTTATTTTTTGCATAAAAACGCCACTA
66 TTGATTTATTTTTTGCATAAAAACGCCACTA
* *
43703503 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTAATAAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATATTATTTTTAATAAA
43703568 TTGATTTATTTTTTGC
66 TTGATTTATTTTTTGC
43703584 GGCGTTTTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 34 0.47
93 10 0.14
94 3 0.04
95 5 0.07
96 21 0.29
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (96 bp):
TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATATTATTTTTAATAAA
TTGATTTATTTTTTGCATAAAAACGCCACTA
Found at i:43705051 original size:14 final size:14
Alignment explanation
Indices: 43705032--43705065 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
43705022 AACCTTAAAT
* *
43705032 CCCTAACTTTTAAC
1 CCCTAACATCTAAC
43705046 CCCTAACATCTAAC
1 CCCTAACATCTAAC
43705060 CCCTAA
1 CCCTAA
43705066 ACCCCTAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:43705075 original size:15 final size:15
Alignment explanation
Indices: 43705042--43705083 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
43705032 CCCTAACTTT
**
43705042 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
43705056 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
43705071 TAACCCTTAAACC
1 TAACCCCTAAACC
43705084 TAATTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:43705100 original size:24 final size:26
Alignment explanation
Indices: 43705063--43705112 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
43705053 ATCTAACCCC
43705063 TAAACCCCTAACCCTTAAACC-TAAT
1 TAAACCCCTAACCCTTAAACCATAAT
*
43705088 TAAATCCC-AACCCTTAAACCATAAT
1 TAAACCCCTAACCCTTAAACCATAAT
43705113 CCCTAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (26 bp):
TAAACCCCTAACCCTTAAACCATAAT
Found at i:43705124 original size:14 final size:14
Alignment explanation
Indices: 43705106--43705147 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
43705096 AACCCTTAAA
43705106 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
43705120 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
43705135 CCATACTCCCTAA
1 CCATAATCCCTAA
43705148 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:43705144 original size:15 final size:15
Alignment explanation
Indices: 43705102--43705148 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
43705092 TCCCAACCCT
43705102 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
43705116 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
43705130 TAAATCCATACTCCC
1 TAAATCCATAATCCC
43705145 TAAA
1 TAAA
43705149 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:43705778 original size:74 final size:71
Alignment explanation
Indices: 43705658--43705823 Score: 260
Period size: 74 Copynumber: 2.3 Consensus size: 71
43705648 TAGCGGCGCT
43705658 TTTCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTTT
1 TTTCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGACTTAGG-TTTTTT
43705723 TGCGACGC
65 T-CGACGC
* * *
43705731 TTTCTCAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAGGTTTTTT
1 TTTC-CAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTT
*
43705796 TCGGCGC
65 TCGACGC
43705803 TTTCCCAAAAACGCCGCTAAA
1 TTT-CCAAAAACGCCGCTAAA
43705824 GCCCTGAGCA
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
72 24 0.28
73 12 0.14
74 51 0.59
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (71 bp):
TTTCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTTT
CGACGC
Found at i:43705928 original size:114 final size:113
Alignment explanation
Indices: 43705729--43705937 Score: 310
Period size: 114 Copynumber: 1.8 Consensus size: 113
43705719 TTTTTGCGAC
* *
43705729 GCTTTCTCAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAGGTTTT
1 GCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGACTTAGGTTTT
*
43705794 TTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGT
66 TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGT
* * * * *
43705842 GCTTTCTTAAAAATGCCTCTAAATCCCCGAAAGCTCGGGAAAACGGCATCGTTGGGCTTAGGTTT
1 GCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTC-AGAAAACGGCATCGTTGGACTTAGGTTT
***
43705907 TTTGCGGCGCTTTTTTAAAAACGCCGCTAAA
65 TTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
43705938 TCCCCGAAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 32 0.38
114 52 0.62
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (113 bp):
GCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGACTTAGGTTTT
TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGT
Found at i:43705939 original size:73 final size:73
Alignment explanation
Indices: 43705837--43706004 Score: 230
Period size: 73 Copynumber: 2.3 Consensus size: 73
43705827 CTGAGCATTA
* * * * *
43705837 GCGGTGCTTTCTTAAAAATGCCTCTAAATCCCCGAAAGCTCGGGAAAACGGCATCGTTGGGCTTA
1 GCGGTGCTTTTTTAAAAACGCCGCTAAATCCCCGAAAGCT-GAGAAAACAGCATCGTTGGGCTTA
43705902 GG-TTTTTT
65 GGTTTTTTT
* * *
43705910 GCGGCGCTTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACAGCGTCGTTGGGCTTAG
1 GCGGTGCTTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTGAGAAAACAGCATCGTTGGGCTTAG
43705975 GTTTTTTT
66 GTTTTTTT
**
43705983 GCGGTGCTTTTCCAAAAACGCC
1 GCGGTGCTTTTTTAAAAACGCC
43706005 CGCCGCTAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
72 22 0.27
73 61 0.73
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (73 bp):
GCGGTGCTTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTGAGAAAACAGCATCGTTGGGCTTAG
GTTTTTTT
Found at i:43706090 original size:191 final size:186
Alignment explanation
Indices: 43705663--43706129 Score: 630
Period size: 191 Copynumber: 2.5 Consensus size: 186
43705653 GCGCTTTTCC
* * *
43705663 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGACTTAGGTTTTTTTTGCGA
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGG-TTTTTTTGCGG
* * * *
43705728 CGCTTTCTCAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAGGTTT
65 CGCTTTTTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGACTTAGGTTT
* * *
43705793 TTTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTT
130 TTTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCAGCGCTTTCTT
* * * * *
43705850 AAAAATGCCTCTAAATCCCCGAAAGCTCGGGAAAACGGCATCGTTGGGCTTAGG-TTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTC-AGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGG
* * *
43705914 CGCTTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACAGCGTCGTTGGGCTTAGGTTT
65 CGCTTTTTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGACTTAGGTTT
* *
43705979 TTTTGCGGTGCTTTTCCAAAAACGCCCGCCGCTAAAGCCCTAAGCATTAGCAGCGCTTTCTT
130 TTTT-CGGCGCTTTCCCAAAAA----CGCCGCTAAAGCCCTAAGCATTAGCAGCGCTTTCTT
* * *
43706041 AAAAACGCAGCTAAATCCCCGAAAGCTCAAAAAAACGCCGTCGTTGGGCTTAGGTTTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTC-AGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGG
* *
43706106 TGCTTTTCAAAAAACGCCGCTAAA
65 CGCTTTTTAAAAAACGCCGCTAAA
43706130 GCCCTAAGCA
Statistics
Matches: 243, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
186 72 0.30
187 40 0.16
188 21 0.09
191 79 0.33
192 31 0.13
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (186 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
GCTTTTTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGACTTAGGTTTT
TTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCAGCGCTTTCTT
Found at i:43706169 original size:115 final size:115
Alignment explanation
Indices: 43705910--43706214 Score: 452
Period size: 115 Copynumber: 2.6 Consensus size: 115
43705900 TAGGTTTTTT
* * *
43705910 GCGGCGCTTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAACAGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAAC-GCGTCGTTGGGCTTAG
*
43705975 GTTTTTTTGCGGTGCTTTTCCAAAAACGCCCGCCGCTAAAGCCCTAAGCATTA
65 GTTTTTTTGCGGTGCTTTTCCAAAAA--CACGCCGCTAAAGCCCTAAGCATTA
* *
43706028 GCAGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAGCTCAAAAAAACGCCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAGCTC-AGAAAACG-CGTCGTTGGGCTTA
43706093 GGTTTTTTTGCGGTGCTTTT-CAAAAA-ACGCCGCTAAAGCCCTAAGCATTA
64 GGTTTTTTTGCGGTGCTTTTCCAAAAACACGCCGCTAAAGCCCTAAGCATTA
* * **
43706143 GCGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAGCTCGGGAAACGACGTCGTTTCGCTTAG
1 GCGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAACG-CGTCGTTGGGCTTAG
43706208 GTTTTTT
65 GTTTTTT
43706215 GATAAGCGGC
Statistics
Matches: 172, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
114 25 0.15
115 63 0.37
118 44 0.26
119 40 0.23
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (115 bp):
GCGGCGCTTTCTTAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAACGCGTCGTTGGGCTTAGG
TTTTTTTGCGGTGCTTTTCCAAAAACACGCCGCTAAAGCCCTAAGCATTA
Found at i:43706293 original size:12 final size:12
Alignment explanation
Indices: 43706276--43706301 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43706266 TTTTTTATCC
43706276 AAACGCCGCTAA
1 AAACGCCGCTAA
43706288 AAACGCCGCTAA
1 AAACGCCGCTAA
43706300 AA
1 AA
43706302 GCCTGTTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:43709128 original size:40 final size:40
Alignment explanation
Indices: 43709074--43709347 Score: 307
Period size: 40 Copynumber: 6.9 Consensus size: 40
43709064 CTTCAAATTA
* * * * *
43709074 ACCAGAGTATAAACAGGGGCACATATCTGCATTCGGGGGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
* * *
43709114 ACCGAAGTACAAACA-GGGCATGTATGTGCATTTAGGGGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
* **
43709153 ACCAAAGTACAAACAGGAGCACGTATGTGCATTCAAAGGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
** * * * * *
43709193 ACTGAAGTACAAATAGGTGCATGTATGTGCAGTCAGAGGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
* *
43709233 ACCAAAGTACAAACAAGGGCACGTAAGTGCATTCAGGGGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
* * *
43709273 ATCGAAGTACAAACAGGGGCACGTATGTACATTCAGGGGT
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
* * *
43709313 ACCAAAGTACAAACATGAGCACATATGTGCATTCA
1 ACCAAAGTACAAACAGGGGCACGTATGTGCATTCA
43709348 TACAATTATT
Statistics
Matches: 192, Mismatches: 41, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 33 0.17
40 159 0.83
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (40 bp):
ACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGT
Found at i:43709289 original size:20 final size:19
Alignment explanation
Indices: 43709237--43709327 Score: 56
Period size: 20 Copynumber: 4.6 Consensus size: 19
43709227 AGAGGTACCA
* *
43709237 AAGTACAAACAAGGGCACG
1 AAGTACAAACAGGGGTACG
* **
43709256 TAAGTGCATTCAGGGGTATCG
1 -AAGTACAAACAGGGGTA-CG
*
43709277 AAGTACAAACAGGGGCACG
1 AAGTACAAACAGGGGTACG
* ** *
43709296 TATGTACATTCAGGGGTACCA
1 -AAGTACAAACAGGGGTA-CG
43709317 AAGTACAAACA
1 AAGTACAAACA
43709328 TGAGCACATA
Statistics
Matches: 51, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.04
20 46 0.90
21 3 0.06
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.16
Consensus pattern (19 bp):
AAGTACAAACAGGGGTACG
Found at i:43709957 original size:24 final size:24
Alignment explanation
Indices: 43709899--43709957 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
43709889 ACCACGGAAG
* * *
43709899 GAGATGAAGACGAAGACGAGGGTG
1 GAGATGAAGATGAAGACGAGGATC
*
43709923 GAGATGAAGATGAAGATGAGGATC
1 GAGATGAAGATGAAGACGAGGATC
43709947 GAGATGAAGAT
1 GAGATGAAGAT
43709958 TAATACGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.05, G:0.41, T:0.14
Consensus pattern (24 bp):
GAGATGAAGATGAAGACGAGGATC
Found at i:43712491 original size:20 final size:20
Alignment explanation
Indices: 43712454--43712492 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43712444 TTTTTGTTAA
* *
43712454 TTTTGATTTTTTTATTTTCT
1 TTTTAATTTTTATATTTTCT
*
43712474 TTTTAATTTTTATCTTTTC
1 TTTTAATTTTTATATTTTC
43712493 CCCCCAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTAATTTTTATATTTTCT
Found at i:43714832 original size:16 final size:16
Alignment explanation
Indices: 43714807--43714855 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
43714797 CAACAACTTG
*
43714807 GCTCATGGAAAAGCTA
1 GCTCAAGGAAAAGCTA
*
43714823 GCTCAAGGAAAATCTA
1 GCTCAAGGAAAAGCTA
* * *
43714839 GCTTAACGAAAGGCTA
1 GCTCAAGGAAAAGCTA
43714855 G
1 G
43714856 ATTGTTCAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (16 bp):
GCTCAAGGAAAAGCTA
Found at i:43716982 original size:22 final size:22
Alignment explanation
Indices: 43716954--43716999 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
43716944 CAGGTAATGT
43716954 CACCAAACTTTTAGATTGAAAA
1 CACCAAACTTTTAGATTGAAAA
43716976 CACCAAACTTTTAGATTGAAAA
1 CACCAAACTTTTAGATTGAAAA
43716998 CA
1 CA
43717000 ATCGTGGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (22 bp):
CACCAAACTTTTAGATTGAAAA
Found at i:43720020 original size:209 final size:209
Alignment explanation
Indices: 43719655--43720072 Score: 766
Period size: 209 Copynumber: 2.0 Consensus size: 209
43719645 GAACAATTTC
43719655 AGCAGTTCGAGGACATGGGGGTGCCATAGAAGGCACAATAGGGGGTGGAGGTTGCTGAACCGCAG
1 AGCAGTTCGAGGACATGGGGGTGCCATAGAAGGCACAATAGGGGGTGGAGGTTGCTGAACCGCAG
*
43719720 GATTGGCTTGCATAAACTTTGAGAATCATTGACCTATCATCCTAAAAAAGACATTTTTAAATTCA
66 GATTGGCTTGCATAAAATTTGAGAATCATTGACCTATCATCCTAAAAAAGACATTTTTAAATTCA
* *
43719785 ATTTTTGACATATGCGGAGTTGGAAGACTATGACTCACTTCCTGTTTAGAAGGCGAAACATTGCT
131 ATTTTTGACATATGCGGAGCTGGAAGACTATGACTCACTTCCTCTTTAGAAGGCGAAACATTGCT
43719850 GTCTACTTCATCAG
196 GTCTACTTCATCAG
*
43719864 AGCAGTTTC-AGGACATGGGGGTGCCATAGAAGGCACAATAGGGGGTGGAGGTTGCTGAACCGTA
1 AGCAG-TTCGAGGACATGGGGGTGCCATAGAAGGCACAATAGGGGGTGGAGGTTGCTGAACCGCA
*
43719928 GGATTGGCTTGCATAAAATTTGAGTATCATTGACCTATCATCCTAAAAAAGACATTTTTAAATTC
65 GGATTGGCTTGCATAAAATTTGAGAATCATTGACCTATCATCCTAAAAAAGACATTTTTAAATTC
*
43719993 AATTTTTGACATCTGCGGAGCTGGAAGACTATGACTCACTTCCTCTTTAGAAGGCGAAACATTGC
130 AATTTTTGACATATGCGGAGCTGGAAGACTATGACTCACTTCCTCTTTAGAAGGCGAAACATTGC
43720058 TGTCTACTTCATCAG
195 TGTCTACTTCATCAG
43720073 TGACAACATG
Statistics
Matches: 202, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
209 199 0.99
210 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (209 bp):
AGCAGTTCGAGGACATGGGGGTGCCATAGAAGGCACAATAGGGGGTGGAGGTTGCTGAACCGCAG
GATTGGCTTGCATAAAATTTGAGAATCATTGACCTATCATCCTAAAAAAGACATTTTTAAATTCA
ATTTTTGACATATGCGGAGCTGGAAGACTATGACTCACTTCCTCTTTAGAAGGCGAAACATTGCT
GTCTACTTCATCAG
Found at i:43736264 original size:21 final size:21
Alignment explanation
Indices: 43736240--43736284 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
43736230 TTACCGGTAG
43736240 AACTAAGAGTTCTACCAATAT
1 AACTAAGAGTTCTACCAATAT
** * *
43736261 AACTTTGGGTTCTACCGATAT
1 AACTAAGAGTTCTACCAATAT
43736282 AAC
1 AAC
43736285 CCAGACTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (21 bp):
AACTAAGAGTTCTACCAATAT
Found at i:43736507 original size:71 final size:71
Alignment explanation
Indices: 43736391--43736525 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
43736381 GTGCTATCGT
* * * * *
43736391 TACCTTGAGGACTTCTACTGAAACAACTCAAGTCAGTAGCCAAAGTTCAGCATCTCCTGCACTTA
1 TACCTTGAAGACTTCTACCGAAACAAATCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTTA
43736456 TGCCTA
66 TGCCTA
*
43736462 TACCTTGAAGACTTTTACCGAAACAAATCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTT
1 TACCTTGAAGACTTCTACCGAAACAAATCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTT
43736526 CTACCAATAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (71 bp):
TACCTTGAAGACTTCTACCGAAACAAATCAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTTA
TGCCTA
Found at i:43739408 original size:11 final size:11
Alignment explanation
Indices: 43739394--43739431 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
43739384 TTTTATATTA
*
43739394 TTTTTGTTTTC
1 TTTTTCTTTTC
43739405 TTTTTCTTTTC
1 TTTTTCTTTTC
*
43739416 TTTTTCCTTTC
1 TTTTTCTTTTC
43739427 TTTTT
1 TTTTT
43739432 TCATGGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:43745213 original size:17 final size:16
Alignment explanation
Indices: 43745191--43745245 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
43745181 AGTTCAGACT
43745191 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
43745207 GCAAAAAA-AAGCAAAAAA
1 -CAAAAAAGAA--AAAAAA
*
43745225 CAAAAAAGCAAAAAAAT
1 CAAAAAAG-AAAAAAAA
43745242 CAAA
1 CAAA
43745246 GTCAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.06
17 23 0.70
18 6 0.18
19 2 0.06
ACGTcount: A:0.80, C:0.11, G:0.07, T:0.02
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:43745229 original size:15 final size:15
Alignment explanation
Indices: 43745211--43745239 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43745201 AAAAAAGCAA
43745211 AAAAAAGCAAAAAAC
1 AAAAAAGCAAAAAAC
43745226 AAAAAAGCAAAAAA
1 AAAAAAGCAAAAAA
43745240 ATCAAAGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAGCAAAAAAC
Found at i:43745240 original size:10 final size:10
Alignment explanation
Indices: 43745192--43745224 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
43745182 GTTCAGACTC
43745192 AAAAAAG-AA
1 AAAAAAGCAA
43745201 AAAAAAGCAA
1 AAAAAAGCAA
43745211 AAAAAAGCAA
1 AAAAAAGCAA
43745221 AAAA
1 AAAA
43745225 CAAAAAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGCAA
Found at i:43745291 original size:16 final size:16
Alignment explanation
Indices: 43745255--43745290 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43745245 AGTCAAAAAT
*
43745255 AAAAGAAAAAGAAGAA
1 AAAAGAAAAAAAAGAA
43745271 AAAAGAAAAGAAAAGAA
1 AAAAGAAAA-AAAAGAA
43745288 AAA
1 AAA
43745291 GGAGAGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAA
Found at i:43747475 original size:50 final size:50
Alignment explanation
Indices: 43747421--43747697 Score: 261
Period size: 50 Copynumber: 5.5 Consensus size: 50
43747411 GCAGTGGAGC
* *
43747421 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * ** *
43747471 AGATTAAAGCTACAACAGCGAATCTTACCTCCTCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCC-CTGAC-ATTGCAGTTAAAA
* * *
43747522 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * *
43747572 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGT-TAAAA
* ** * * * * *
43747623 A-ATTAAATCCACGTCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
*
43747672 AGATTAAAGCTACAACAGCGAATCTT
1 AGATTAAAGCCACAACAGCGAATCTT
43747698 ATTTCCCAGG
Statistics
Matches: 172, Mismatches: 50, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
49 5 0.03
50 123 0.72
51 43 0.25
52 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
Found at i:43747669 original size:100 final size:100
Alignment explanation
Indices: 43747389--43747748 Score: 515
Period size: 100 Copynumber: 3.6 Consensus size: 100
43747379 GTGAAATCAA
* * *
43747389 GAATCTTACTATCCCAGTCAGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCC
1 GAATCTTAC-CTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCC
43747454 TGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
65 TGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
43747490 GAATCTTACCTCCTCAGGC-GATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCC
1 GAATCTTACCTCC-CAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCC
* *
43747554 CTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGC
64 CTGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
* * * ** * * *
43747591 GAATCTTACCTCCCTGGCAGTGCAGTGGAACAAATTAAATCCACGTCGGTGAATCTCGCTTCCCC
1 GAATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
43747656 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
** ** * *
43747691 GAATCTTATTTCCCAGGTGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTG
1 GAATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG
43747749 ATTAAGCTAC
Statistics
Matches: 231, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
100 127 0.55
101 104 0.45
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (100 bp):
GAATCTTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
GACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
Found at i:43747715 original size:50 final size:50
Alignment explanation
Indices: 43747389--43747747 Score: 236
Period size: 50 Copynumber: 7.1 Consensus size: 50
43747379 GTGAAATCAA
* * * ** * *
43747389 GAATCTTACTATCCCAGTCAGTGCAGTGGAGCAGATTAAAGCCACAACGGT
1 GAATCTTAC-CTCCCAGGCAGTGCAGTGAAAAAGATTAAAGCCACAACAGC
* * * * * *
43747440 GAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
1 GAATCTTACCTCCCAGGCAGTGCAGTGAAAAAGATTAAAGCCACAACAGC
* * * *
43747490 GAATCTTACCTCCTCAGGC-GATGCAGTGGAACAGATTAAAGCCACAACGGT
1 GAATCTTACCTCC-CAGGCAG-TGCAGTGAAAAAGATTAAAGCCACAACAGC
* * * * * * * *
43747541 GAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGC
1 GAATCTTACCTCCCAGGCAGTGCAGTGAAAAAGATTAAAGCCACAACAGC
* * * ** * *
43747591 GAATCTTACCTCCCTGGCAGTGCAGTGGAACAA-ATTAAATCCACGTCGGT
1 GAATCTTACCTCCCAGGCAGTGCAGT-GAAAAAGATTAAAGCCACAACAGC
** * * * * * *
43747641 GAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
1 GAATCTTACCTCCCAGGCAGTGCAGTGAAAAAGATTAAAGCCACAACAGC
** ** * * * *
43747691 GAATCTTATTTCCCAGGTGGTGCAGTGGAACAGATTAAAGCCACATCAGT
1 GAATCTTACCTCCCAGGCAGTGCAGTGAAAAAGATTAAAGCCACAACAGC
43747741 GAATCTT
1 GAATCTT
43747748 GATTAAGCTA
Statistics
Matches: 229, Mismatches: 74, Indels: 11
0.73 0.24 0.04
Matches are distributed among these distances:
49 4 0.02
50 174 0.76
51 51 0.22
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (50 bp):
GAATCTTACCTCCCAGGCAGTGCAGTGAAAAAGATTAAAGCCACAACAGC
Found at i:43747799 original size:74 final size:75
Alignment explanation
Indices: 43747673--43747822 Score: 248
Period size: 74 Copynumber: 2.0 Consensus size: 75
43747663 CAGTTAAAAA
* * * * *
43747673 GATTAAAGCTACAACAGCGAATCTTATTTCCCAGGTGGTGCAGTGGAACAGATTAAAGCCACATC
1 GATTAAAGCTACAACAACGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
43747738 AGTGAATCTT
66 AGTGAATCTT
43747748 GATT-AAGCTACAACAACGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
1 GATTAAAGCTACAACAACGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
43747812 AGTGAATCTT
66 AGTGAATCTT
43747822 G
1 G
43747823 CTTCCCCAAC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 66 0.94
75 4 0.06
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (75 bp):
GATTAAAGCTACAACAACGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
AGTGAATCTT
Found at i:43747819 original size:50 final size:51
Alignment explanation
Indices: 43747765--43748071 Score: 272
Period size: 50 Copynumber: 6.1 Consensus size: 51
43747755 CTACAACAAC
* * *
43747765 GAATCTTAC-TCCCCAGGCGA-TGCAGTGGAACAGATTAAAGCCACATCAGT
1 GAATCTTACTTCCCCAGAC-ATTGCAGTGAAAAAGATTAAAGCCACATCAGT
* * * *
43747815 GAATCTTGCTTCCCCA-ACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
1 GAATCTTACTTCCCCAGACATTGCAGTGAAAAAGATTAAAGCCACATCAGT
* * * * ** * * *
43747865 AAATCTTACTT-CTCTGGCGGTGCAGTGGAACAGATTAAAGCCATATCAGT
1 GAATCTTACTTCCCCAGACATTGCAGTGAAAAAGATTAAAGCCACATCAGT
* * * * * *
43747915 GAATCTTGCTTCCCC-GACATTGCAGTTAAAAAGGTTAAAGCTACAACAGC
1 GAATCTTACTTCCCCAGACATTGCAGTGAAAAAGATTAAAGCCACATCAGT
* * * *
43747965 GAATCTTAC-TCCCCA-AGCGA-TGCAGTGGAACAGATTAAAACCACATCGGT
1 GAATCTTACTTCCCCAGA-C-ATTGCAGTGAAAAAGATTAAAGCCACATCAGT
* *
43748015 GAATCTTACTTCCCCA-ACATTGCAGTTAAAAAGATTAAAGCCACATCGGT
1 GAATCTTACTTCCCCAGACATTGCAGTGAAAAAGATTAAAGCCACATCAGT
43748065 GAATCTT
1 GAATCTT
43748072 GATTAAAGCT
Statistics
Matches: 200, Mismatches: 48, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
49 10 0.05
50 174 0.87
51 16 0.08
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (51 bp):
GAATCTTACTTCCCCAGACATTGCAGTGAAAAAGATTAAAGCCACATCAGT
Found at i:43747872 original size:174 final size:175
Alignment explanation
Indices: 43747573--43747922 Score: 517
Period size: 174 Copynumber: 2.0 Consensus size: 175
43747563 CGGTTAAAAA
* * * * *
43747573 GATTAAAGCTACAGCAGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAAATTAAATCCACGTC
1 GATTAAAGCTACAACAACGAATCTTACCTCCCAGGCAGTGCAGTGGAACAAATTAAAGCCACATC
* * * *
43747638 GGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTATTTC
66 AGTGAATCTCGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTACTTC
*
43747703 CCAGGTGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTT
131 CCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTT
*
43747748 GATT-AAGCTACAACAACGAATCTTA-CTCCCCAGGC-GATGCAGTGGAACAGATTAAAGCCACA
1 GATTAAAGCTACAACAACGAATCTTACCT-CCCAGGCAG-TGCAGTGGAACAAATTAAAGCCACA
* *
43747810 TCAGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGTAAATCTTACT
64 TCAGTGAATCTCGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTACT
* * *
43747875 TCTCTGGCGGTGCAGTGGAACAGATTAAAGCCATATCAGTGAATCTT
129 TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTT
43747922 G
1 G
43747923 CTTCCCCGAC
Statistics
Matches: 157, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
173 3 0.02
174 150 0.96
175 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (175 bp):
GATTAAAGCTACAACAACGAATCTTACCTCCCAGGCAGTGCAGTGGAACAAATTAAAGCCACATC
AGTGAATCTCGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTACTTC
CCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTT
Found at i:43747925 original size:100 final size:100
Alignment explanation
Indices: 43747748--43748055 Score: 483
Period size: 100 Copynumber: 3.1 Consensus size: 100
43747738 AGTGAATCTT
*
43747748 GATT-AAGCTACAACAACGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
1 GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
43747812 AGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAA
66 AGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAA
** * * * * *
43747847 GATTAAAGCTACAACAGTAAATCTTACTTCTCTGGCGGTGCAGTGGAACAGATTAAAGCCATATC
1 GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
*
43747912 AGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
66 AGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAA
* * *
43747947 GGTTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAACCACATC
1 GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
* *
43748012 GGTGAATCTTACTTCCCCAACATTGCAGTTAAAAA
66 AGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAA
43748047 GATTAAAGC
1 GATTAAAGC
43748056 CACATCGGTG
Statistics
Matches: 185, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
99 4 0.02
100 181 0.98
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (100 bp):
GATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATC
AGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAA
Found at i:43747993 original size:274 final size:276
Alignment explanation
Indices: 43747472--43748021 Score: 834
Period size: 274 Copynumber: 2.0 Consensus size: 276
43747462 CAGTTAAAAA
* *
43747472 GATTAAAGCTACAACAGCGAATCTTACCTCCTCAGGCGATGCAGTGGAACAGATTAAAGCCACAA
1 GATTAAAGCTACAACAACGAATCTTACCTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAA
* ** * * *
43747537 CGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACCT
66 CAGTGAATCTTGCCTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTACCT
* * *
43747602 CCCTGGCAGTGCAGTGGAACAAATTAAATCCACGTCGGTGAATCTCGCTTCCCCGACATTGCAGT
131 CCCTGGCAGTGCAGTGGAACAAATTAAAGCCACATCAGTGAATCTCGCTTCCCCGACATTGCAGT
* * * * * *
43747667 TAAAAAGATTAAAGCTACAACAGCGAATCTTATTTCCCAGGTGGTGCAGTGGAACAGATTAAAGC
196 TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAAC
43747732 CACATCAGTGAATCTT
261 CACATCAGTGAATCTT
*
43747748 GATT-AAGCTACAACAACGAATCTTA-CTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAT
1 GATTAAAGCTACAACAACGAATCTTACCTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAA
* * *
43747811 CAGTGAATCTTGCTTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGTAAATCTTACTT
66 CAGTGAATCTTGCCTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTACCT
* * * * *
43747876 CTCTGGCGGTGCAGTGGAACAGATTAAAGCCATATCAGTGAATCTTGCTTCCCCGACATTGCAGT
131 CCCTGGCAGTGCAGTGGAACAAATTAAAGCCACATCAGTGAATCTCGCTTCCCCGACATTGCAGT
*
43747941 TAAAAAGGTTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAAC
196 TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAAC
*
43748006 CACATCGGTGAATCTT
261 CACATCAGTGAATCTT
43748022 ACTTCCCCAA
Statistics
Matches: 246, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
274 222 0.90
275 20 0.08
276 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (276 bp):
GATTAAAGCTACAACAACGAATCTTACCTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAA
CAGTGAATCTTGCCTCCCCAACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTACCT
CCCTGGCAGTGCAGTGGAACAAATTAAAGCCACATCAGTGAATCTCGCTTCCCCGACATTGCAGT
TAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAAC
CACATCAGTGAATCTT
Found at i:43748075 original size:25 final size:25
Alignment explanation
Indices: 43748047--43748096 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
43748037 CAGTTAAAAA
* *
43748047 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACGGCGAATCTT
*
43748072 GATTAAAGCTACAACGGCGAATCTT
1 GATTAAAGCCACAACGGCGAATCTT
43748097 ACTCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACGGCGAATCTT
Found at i:43748171 original size:125 final size:125
Alignment explanation
Indices: 43747949--43748196 Score: 372
Period size: 125 Copynumber: 2.0 Consensus size: 125
43747939 GTTAAAAAGG
43747949 TTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAACCACATCGG
1 TTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAACCACATCGG
* * *
43748014 TGAATCTTACTTCCCCAACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGA
66 TGAATCTTACTTCCCCAACATTACAGTTAAAAAGATTAAAGCCACAACGGCGAATCTTGA
* * * * *
43748074 TTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAATAGATTAAAGCCACAAT-G
1 TTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAACCAC-ATCG
* ** *
43748138 GTGAATCTTGCTTCCCTTACATTACAGTTAAAAAGATTAAAGCTACAACGGCGAATCTT
65 GTGAATCTTACTTCCCCAACATTACAGTTAAAAAGATTAAAGCCACAACGGCGAATCTT
43748197 ACTTTCCAAG
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 108 0.98
126 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (125 bp):
TTAAAGCTACAACAGCGAATCTTACTCCCCAAGCGATGCAGTGGAACAGATTAAAACCACATCGG
TGAATCTTACTTCCCCAACATTACAGTTAAAAAGATTAAAGCCACAACGGCGAATCTTGA
Found at i:43748225 original size:50 final size:49
Alignment explanation
Indices: 43748072--43748252 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 49
43748062 GGTGAATCTT
* *
43748072 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAATA
1 GATTAAAGCTACAACGGCGAATCTTACTTCCCAAGCGGTGTAGT-GAAAA
* * * * * ** ** *
43748122 GATTAAAGCCACAATGGTGAATCTTGCTTCCCTTA-CATTACAGTTAAAAA
1 GATTAAAGCTACAACGGCGAATCTTACTTCCC-AAGCGGTGTAG-TGAAAA
* *
43748172 GATTAAAGCTACAACGGCGAATCTTACTTTCCAAGCGGTGTAGATGAACA
1 GATTAAAGCTACAACGGCGAATCTTACTTCCCAAGCGGTGTAG-TGAAAA
* * *
43748222 GATTGAAGCTATAATGGCGAATCTTACTTCC
1 GATTAAAGCTACAACGGCGAATCTTACTTCC
43748253 TCGACTTCAC
Statistics
Matches: 99, Mismatches: 29, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
49 1 0.01
50 96 0.97
51 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (49 bp):
GATTAAAGCTACAACGGCGAATCTTACTTCCCAAGCGGTGTAGTGAAAA
Found at i:43748245 original size:100 final size:100
Alignment explanation
Indices: 43748072--43748252 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 100
43748062 GGTGAATCTT
*
43748072 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAATAGATTAAAGCCACAAT
1 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAACAGATTAAAGCCACAAT
* *
43748137 GGTGAATCTTGCTTCCCTTACATTACAGTTAAAAA
66 GGCGAATCTTACTTCCCTTACATTACAGTTAAAAA
** * * *
43748172 GATTAAAGCTACAACGGCGAATCTTACTTTCCAAGCGGTGTAGAT-GAACAGATTGAAGCTATAA
1 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAG-TGGAACAGATTAAAGCCACAA
43748236 TGGCGAATCTTACTTCC
65 TGGCGAATCTTACTTCC
43748253 TCGACTTCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 71 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (100 bp):
GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAACAGATTAAAGCCACAAT
GGCGAATCTTACTTCCCTTACATTACAGTTAAAAA
Found at i:43748246 original size:225 final size:225
Alignment explanation
Indices: 43747847--43748252 Score: 539
Period size: 225 Copynumber: 1.8 Consensus size: 225
43747837 CAGTTAAAAA
* * * ** *
43747847 GATTAAAGCTACAACAGTAAATCTTACTTCTCTGGCGGTGCAGTGGAACAGATTAAAGCCATATC
1 GATTAAAGCTACAACAGCAAATCTTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCAAATC
* *
43747912 AGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGGTTAAAGCTACAACAGCGAATCTTACTCC
66 AGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCC
* *
43747977 CCAAGCGATGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTACTTCCCCAACATTGCAGTT
131 CCAAGCGATGCAGTGGAACAGATTAAAACCAAATCGGCGAATCTTACTTCCCCAACATTGCAGTT
43748042 AAAAAGATTAAAGCCACATCGGTGAATCTT
196 AAAAAGATTAAAGCCACATCGGTGAATCTT
* * * *
43748072 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAATAGATTAAAGCCACAAT
1 GATTAAAGCTACAACAGCAAATCTTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCA-AAT
* ** * *
43748137 -GGTGAATCTTGCTTCCCTTACATTACAGTTAAAAAGATTAAAGCTACAACGGCGAATCTTACTT
65 CAGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTC
* * * * * *
43748201 TCCAAGCGGTGTAGAT-GAACAGATTGAAGCTATAAT-GGCGAATCTTACTTCC
130 CCCAAGCGATGCAG-TGGAACAGATTAAAACCA-AATCGGCGAATCTTACTTCC
43748253 TCGACTTCAC
Statistics
Matches: 153, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
225 148 0.97
226 5 0.03
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (225 bp):
GATTAAAGCTACAACAGCAAATCTTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAGCCAAATC
AGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCC
CCAAGCGATGCAGTGGAACAGATTAAAACCAAATCGGCGAATCTTACTTCCCCAACATTGCAGTT
AAAAAGATTAAAGCCACATCGGTGAATCTT
Found at i:43748275 original size:100 final size:100
Alignment explanation
Indices: 43748072--43748279 Score: 260
Period size: 100 Copynumber: 2.1 Consensus size: 100
43748062 GGTGAATCTT
*
43748072 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAATAGATTAAAGCCACAAT
1 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAACAGATTAAAGCCACAAT
* * * *
43748137 GGTGAATCTTGCTTCCCTTACATTACAGTTAAAAA
66 GGCGAATCTTACTTCCCTGACATTACAGCTAAAAA
** * * *
43748172 GATTAAAGCTACAACGGCGAATCTTACTTTCCAAGCGGTGTAGAT-GAACAGATTGAAGCTATAA
1 GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAG-TGGAACAGATTAAAGCCACAA
* *
43748236 TGGCGAATCTTACTT-CCTCGAC-TTCACGGCTAAACA
65 TGGCGAATCTTACTTCCCT-GACATT-ACAGCTAAAAA
43748272 GATTAAAG
1 GATTAAAG
43748280 TTACGAGTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 5 0.05
100 87 0.94
101 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (100 bp):
GATTAAAGCTACAACGGCGAATCTTACTCCCCAAGCGGTGTAGTGGAACAGATTAAAGCCACAAT
GGCGAATCTTACTTCCCTGACATTACAGCTAAAAA
Found at i:43748994 original size:11 final size:11
Alignment explanation
Indices: 43748980--43749005 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43748970 TTTTATATTA
43748980 TTTTTGTTTTC
1 TTTTTGTTTTC
43748991 TTTTTGTTTTC
1 TTTTTGTTTTC
43749002 TTTT
1 TTTT
43749006 CCTTTTTTTT
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:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTGTTTTC
Found at i:43749018 original size:17 final size:16
Alignment explanation
Indices: 43748980--43749018 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
43748970 TTTTATATTA
*
43748980 TTTTTGTTTTCTTTTT
1 TTTTTCTTTTCTTTTT
*
43748996 GTTTTCTTTTCCTTTTT
1 TTTTTCTTTT-CTTTTT
43749013 TTTTTC
1 TTTTTC
43749019 ATGGTTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTT
Found at i:43758230 original size:27 final size:27
Alignment explanation
Indices: 43758192--43758422 Score: 207
Period size: 27 Copynumber: 8.6 Consensus size: 27
43758182 CCTAATATTT
* *
43758192 GTAAAATAACCGTAATACCCCTTTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* *
43758219 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* * * *
43758246 GTAAAATGACTGAAAAACCCC-ATAAG
1 GTAAAATGACCGTAATACCCCTATAGG
* ** * *
43758272 GTAAAATAATTGTAATGA-CCTTGTAGG
1 GTAAAATGACCGTAAT-ACCCCTATAGG
* * * * *
43758299 GTAAAATGATCGAAAAACCCCTGTAGA
1 GTAAAATGACCGTAATACCCCTATAGG
*
43758326 GTAAAATGACCGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
43758353 GTAAAATGACCGTAATA-CCCTCATAGG
1 GTAAAATGACCGTAATACCCCT-ATAGG
* * * * *
43758380 GTTAAATGATCGAAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTATAGG
43758407 GTAAAATGACCGTAAT
1 GTAAAATGACCGTAAT
43758423 GCCCATGAAG
Statistics
Matches: 162, Mismatches: 37, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
26 22 0.14
27 136 0.84
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:43758387 original size:54 final size:54
Alignment explanation
Indices: 43758192--43758422 Score: 241
Period size: 54 Copynumber: 4.3 Consensus size: 54
43758182 CCTAATATTT
* *
43758192 GTAAAATAACCGTAATACCCCTTTAGGGTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGG
* * * * * ** * *
43758246 GTAAAATGACTGAAAAACCCC-ATAAGGTAAAATAATTGTAATGACCTTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGG
* * * * * *
43758299 GTAAAATGATCGAAAAACCCCTGTAGAGTAAAATGACCGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGG
* * * * *
43758353 GTAAAATGACCGTAATA-CCCTCATAGGGTTAAATGATCGAAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCT-ATAGGGTAAAATGACCGTAATGCCCCTGTAGG
43758407 GTAAAATGACCGTAAT
1 GTAAAATGACCGTAAT
43758423 GCCCATGAAG
Statistics
Matches: 142, Mismatches: 33, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
53 48 0.34
54 94 0.66
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (54 bp):
GTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGG
Found at i:43758387 original size:81 final size:81
Alignment explanation
Indices: 43758192--43758426 Score: 262
Period size: 81 Copynumber: 2.9 Consensus size: 81
43758182 CCTAATATTT
* * * * *
43758192 GTAAAATAACCGTAATACCC-CTTTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGAC
1 GTAAAATAACCGTAATACCCTC-ATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAC
* * ** *
43758256 TGAAAAACCCC-ATAAG
65 CGTAATGCCCCTATAGG
** ** *
43758272 GTAAAATAATTGTAATGA-CCTTGTAGGGTAAAATGATCGAAAAACCCCTGTAGAGTAAAATGAC
1 GTAAAATAACCGTAAT-ACCCTCATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAC
43758336 CGTAATGCCCCTATAGG
65 CGTAATGCCCCTATAGG
* *
43758353 GTAAAATGACCGTAATACCCTCATAGGGTTAAATGATCGAAATACCCCTGTA-AGGTAAAATGAC
1 GTAAAATAACCGTAATACCCTCATAGGGTAAAATGATCGAAATACCCCTGTAGA-GTAAAATGAC
43758417 CGTAATGCCC
65 CGTAATGCCC
43758427 ATGAAGGGTA
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
80 61 0.47
81 68 0.53
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (81 bp):
GTAAAATAACCGTAATACCCTCATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGACC
GTAATGCCCCTATAGG
Found at i:43758435 original size:54 final size:53
Alignment explanation
Indices: 43758329--43758442 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 53
43758319 CTGTAGAGTA
* * *
43758329 AAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATACCCTCATAGGGTT
1 AAATGACCGAAATACCCCTATAAGGTAAAATGACCGTAATACCCTCATAGGG-T
* * * *
43758383 AAATGATCGAAATACCCCTGTAAGGTAAAATGACCGTAATGCCCATGA-AGGGT
1 AAATGACCGAAATACCCCTATAAGGTAAAATGACCGTAATACCC-TCATAGGGT
43758436 AAATGAC
1 AAATGAC
43758443 TATTTTGCGT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 7 0.14
54 42 0.82
55 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (53 bp):
AAATGACCGAAATACCCCTATAAGGTAAAATGACCGTAATACCCTCATAGGGT
Found at i:43758525 original size:24 final size:24
Alignment explanation
Indices: 43758461--43758557 Score: 106
Period size: 24 Copynumber: 4.0 Consensus size: 24
43758451 GTCTCAAGTG
* *
43758461 TAAATGATTGATTTGT-TCGTGATG
1 TAAATGACTGATTTGTCT-GTGATT
* *
43758485 TAAATGGCTGATTTGTCTATGATT
1 TAAATGACTGATTTGTCTGTGATT
43758509 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*** *
43758533 GGTATGATTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
43758557 T
1 T
43758558 GTATGACTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 60 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.47
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:43758561 original size:24 final size:24
Alignment explanation
Indices: 43758492--43758565 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
43758482 ATGTAAATGG
* **
43758492 CTGATTTGTCTATGATTTAAATGA
1 CTGATTTGTCTGTGATTTGTATGA
*
43758516 CTGATTTGTCTGTGATTGGTATGA
1 CTGATTTGTCTGTGATTTGTATGA
*
43758540 TTGATTTGTCTGTGATTTGTATGA
1 CTGATTTGTCTGTGATTTGTATGA
43758564 CT
1 CT
43758566 AATTCTGAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.49
Consensus pattern (24 bp):
CTGATTTGTCTGTGATTTGTATGA
Found at i:43758868 original size:32 final size:32
Alignment explanation
Indices: 43758741--43758865 Score: 169
Period size: 32 Copynumber: 3.9 Consensus size: 32
43758731 GTTGCGATGC
*
43758741 TACTGATGGCTTTGTGTCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* *
43758773 TACTGATGGCTTTTTACCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * **
43758805 TACTGATGGCTATGTGCCGATCATATCACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* *
43758837 TACTGATGGCTTTGTGCCAATCATTTTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
43758866 TGTACTTATG
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 80 1.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCAT
Found at i:43763391 original size:22 final size:24
Alignment explanation
Indices: 43763343--43763391 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
43763333 TCAAAACAAT
*
43763343 AAACCAATAAAATCCCTAATTCCA
1 AAACCAATAAAATCCCTAATCCCA
43763367 AAACCAA-AAAA-CCCTAA-CCCTA
1 AAACCAATAAAATCCCTAATCCC-A
43763389 AAA
1 AAA
43763392 AACCATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 2 0.09
22 10 0.43
23 4 0.17
24 7 0.30
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (24 bp):
AAACCAATAAAATCCCTAATCCCA
Found at i:43764603 original size:21 final size:20
Alignment explanation
Indices: 43764579--43764624 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
43764569 TGAAATGCAA
43764579 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
43764600 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
43764620 T-AACC
1 TCAACC
43764625 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:43768882 original size:30 final size:30
Alignment explanation
Indices: 43768822--43768883 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
43768812 GCTTTTTGAA
* * *
43768822 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAAATTTT
43768852 AATATTTACAAAAAGA-GCAACCAAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAAATTTT
43768882 AA
1 AA
43768884 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAAATTTT
Found at i:43778274 original size:11 final size:11
Alignment explanation
Indices: 43778258--43778283 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43778248 GTTTATCAAC
43778258 TTTTTTACGTT
1 TTTTTTACGTT
43778269 TTTTTTACGTT
1 TTTTTTACGTT
43778280 TTTT
1 TTTT
43778284 ATAATTTTTT
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:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTACGTT
Found at i:43782839 original size:14 final size:14
Alignment explanation
Indices: 43782820--43782846 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43782810 CATTTCTTGG
43782820 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
43782834 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
43782847 AGTGGACCAT
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:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:43784091 original size:16 final size:16
Alignment explanation
Indices: 43784072--43784112 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
43784062 TTAATCATAT
*
43784072 TTAAATATAATTATTA
1 TTAAATATAATTATAA
43784088 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
43784103 TTAAAATATA
1 TT-AAATATA
43784113 TAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:43784120 original size:14 final size:15
Alignment explanation
Indices: 43784072--43784122 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
43784062 TTAATCATAT
*
43784072 TTAAATATAATTATTA
1 TTAAATAT-ATTATAA
43784088 TTAAATATATTATAA
1 TTAAATATATTATAA
43784103 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
43784116 TTTAATA
1 TTAAATA
43784123 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 11 0.34
16 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:43784233 original size:18 final size:17
Alignment explanation
Indices: 43784210--43784246 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
43784200 AATTATTATT
43784210 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
43784226 AAATATATGATTTAATA
1 AAATATATGATTTAATA
43784243 AAAT
1 AAAT
43784247 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:43784348 original size:54 final size:54
Alignment explanation
Indices: 43784162--43784362 Score: 163
Period size: 54 Copynumber: 3.5 Consensus size: 54
43784152 AATTTACTTA
* * * *
43784162 AATCATAATATATGATACTGTAAAAGATAATTTAACATAATTATTATTAAATATATTTT
1 AATCATAATATATGAT--T-TAATA-A-AATTTAAAATAATTATTATTACATATAATTT
* * * *
43784221 AATTAAAATATATGATTTAATAAAATTCT-TAATAATTAATATT-CTTATATGAATTTACT
1 AATCATAATATATGATTTAATAAAATT-TAAAATAATTATTATTAC--ATAT-AA-TT--T
43784280 CAAATCATAATATATGATTTAATAAAATTTAAAATAATTATTATTACATATAATTT
1 --AATCATAATATATGATTTAATAAAATTTAAAATAATTATTATTACATATAATTT
* * *
43784336 AATGATAATATATAATTTCATAAAATT
1 AATCATAATATATGATTTAATAAAATT
43784363 CTTGATAATA
Statistics
Matches: 116, Mismatches: 15, Indels: 27
0.73 0.09 0.17
Matches are distributed among these distances:
54 39 0.34
55 6 0.05
56 6 0.05
57 3 0.03
58 2 0.02
59 17 0.15
60 5 0.04
61 37 0.32
62 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (54 bp):
AATCATAATATATGATTTAATAAAATTTAAAATAATTATTATTACATATAATTT
Found at i:43784381 original size:115 final size:115
Alignment explanation
Indices: 43784050--43784392 Score: 463
Period size: 120 Copynumber: 2.9 Consensus size: 115
43784040 ATTAATATCA
* * * *
43784050 ATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATAT-ATTATAATTAAAATATAT
1 ATAATATATGATTTAATAAAATTTAAA-ATAATTATTATTAAATATAATT-TAATTAAAATATAT
* *
43784114 AATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTTAAATC
64 AATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTCAAATC
* * *
43784166 ATAATATATGATACTGTAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATA
1 ATAATATATGAT--T-TAATA-A-AATTTAAAATAATTATTATTAAATATAATTTAATTAAAATA
* *
43784231 TATGATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
61 TATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTCAAATC
* * *
43784286 ATAATATATGATTTAATAAAATTTAAAATAATTATTATTACATATAATTTAATGATAATATATAA
1 ATAATATATGATTTAATAAAATTTAAAATAATTATTATTAAATATAATTTAATTAAAATATATAA
* * *
43784351 TTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTA
66 TTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTA
43784393 TACAATTTAA
Statistics
Matches: 200, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
115 78 0.39
116 11 0.05
117 4 0.02
118 2 0.01
119 3 0.01
120 94 0.47
121 8 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (115 bp):
ATAATATATGATTTAATAAAATTTAAAATAATTATTATTAAATATAATTTAATTAAAATATATAA
TTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTCAAATC
Found at i:43784400 original size:91 final size:93
Alignment explanation
Indices: 43784290--43784491 Score: 286
Period size: 91 Copynumber: 2.2 Consensus size: 93
43784280 CAAATCATAA
* * * *
43784290 TATATG-ATTTAATAAAATTTAAAATAATTATTATTACATATAATTTAATGATAATATATAATTT
1 TATATGAATTTAATAAAATTTAAAATAATTAATATTAAATATAAATTAATAATAATATATAATTT
* *
43784354 CATAAAATTCTTGATAAT-AAATTTTCT
66 CATAAAATTCTTAATAATAAAATGTTCT
* * *
43784381 TATATGAATTT-ATACAATTTAAAATAATTAATATTAAATATAAATTAATAATGATCTATAATTT
1 TATATGAATTTAATAAAATTTAAAATAATTAATATTAAATATAAATTAATAATAATATATAATTT
43784445 CATAAAATTCTTAATAATAAAATGTTCT
66 CATAAAATTCTTAATAATAAAATGTTCT
43784473 TATATGAA-TTAACTAAAAT
1 TATATGAATTTAA-TAAAAT
43784492 CAAAATATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
91 71 0.73
92 21 0.22
93 5 0.05
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (93 bp):
TATATGAATTTAATAAAATTTAAAATAATTAATATTAAATATAAATTAATAATAATATATAATTT
CATAAAATTCTTAATAATAAAATGTTCT
Found at i:43784431 original size:115 final size:114
Alignment explanation
Indices: 43784078--43784432 Score: 391
Period size: 115 Copynumber: 3.0 Consensus size: 114
43784068 ATATTTAAAT
*
43784078 ATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
1 ATAATTATTATTAAATATAATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATA
* *
43784142 TTCTTATATGAATTTACTTA-AATCATAATATATGATACTGTAAAAGATAATTTAA
65 TTCTTATATGAATTTAC-TACAATCATAATAT-T-ATA-T-T-AAATATAAATTAA
* * *
43784197 CATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATTAATA
1 -ATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATA
*
43784262 TTCTTATATGAATTTACT-CAAATCATAATA-TATGATTTAATA-AAATTTAAA
65 TTCTTATATGAATTTACTAC-AATCATAATATTAT-ATTAAATATAAA-TT-AA
* * * * * *
43784313 ATAATTATTATTACATATAATTTAATGATAATATATAATTTCATAAAATTCTTGATAATAAATTT
1 ATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
* *
43784378 TCTTATATGAATTTA-TACAATTTAAAATAATTAATATTAAATATAAATT-A
66 TCTTATATGAATTTACTACAA-TCATAAT-ATT-ATATTAAATATAAATTAA
43784428 ATAAT
1 ATAAT
43784433 GATCTATAAT
Statistics
Matches: 205, Mismatches: 18, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
114 5 0.02
115 88 0.43
116 4 0.02
117 13 0.06
118 7 0.03
119 1 0.00
120 85 0.41
121 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (114 bp):
ATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTACAATCATAATATTATATTAAATATAAATTAA
Found at i:43787420 original size:33 final size:33
Alignment explanation
Indices: 43787383--43787486 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
43787373 AACATATTAA
43787383 AATTAGAACACACTATCAAAGAATTGAAGTTGC
1 AATTAGAACACACTATCAAAGAATTGAAGTTGC
* * * ** * *
43787416 AATT---ACACATTATTAAAAAAATAAACAATAT-T
1 AATTAGAACACACTA-TCAAAGAATTGA-AGT-TGC
43787448 AATTTAGAACACACTATCAAAGAATTGAAGTTGC
1 AA-TTAGAACACACTATCAAAGAATTGAAGTTGC
43787482 AATTA
1 AATTA
43787487 CACATTATCA
Statistics
Matches: 49, Mismatches: 14, Indels: 16
0.62 0.18 0.20
Matches are distributed among these distances:
30 7 0.14
31 8 0.16
32 4 0.08
33 11 0.22
34 4 0.08
35 8 0.16
36 7 0.14
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (33 bp):
AATTAGAACACACTATCAAAGAATTGAAGTTGC
Found at i:43787424 original size:30 final size:30
Alignment explanation
Indices: 43787390--43787498 Score: 76
Period size: 30 Copynumber: 3.4 Consensus size: 30
43787380 TAAAATTAGA
43787390 ACACACTATCAAAGAATTGAAGTTGCAATT
1 ACACACTATCAAAGAATTGAAGTTGCAATT
* * * ** * *
43787420 ACACATTATTAAAAAAATAAACAATAT-TAATTT
1 ACACACTA-TCAAAGAATTGA-AGT-TGCAA-TT
43787453 AGAACACACTATCAAAGAATTGAAGTTGCAATT
1 --A-CACACTATCAAAGAATTGAAGTTGCAATT
*
43787486 ACACATTATCAAA
1 ACACACTATCAAA
43787499 TAAAAATAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 16
0.64 0.17 0.18
Matches are distributed among these distances:
30 18 0.32
31 9 0.16
32 4 0.07
33 6 0.11
34 4 0.07
35 9 0.16
36 6 0.11
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.28
Consensus pattern (30 bp):
ACACACTATCAAAGAATTGAAGTTGCAATT
Found at i:43787458 original size:66 final size:68
Alignment explanation
Indices: 43787376--43787529 Score: 267
Period size: 66 Copynumber: 2.3 Consensus size: 68
43787366 TTACTGCAAC
* *
43787376 ATATTAAAATTAGAACACACTATCAAAGAATTGAAGTTGCAATTACACATTAT-TAA-AAAAATA
1 ATATT-AATTTAGAACACACTATCAAAGAATTGAAGTTGCAATTACACATTATCAAATAAAAATA
43787439 AACA
65 AACA
43787443 ATATTAATTTAGAACACACTATCAAAGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAA
1 ATATTAATTTAGAACACACTATCAAAGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAA
43787508 ACA
66 ACA
43787511 ATATTAATTTAGAACACAC
1 ATATTAATTTAGAACACAC
43787530 GAAGCAAAAA
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
66 46 0.55
67 7 0.08
68 30 0.36
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (68 bp):
ATATTAATTTAGAACACACTATCAAAGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAA
ACA
Found at i:43787664 original size:33 final size:33
Alignment explanation
Indices: 43787622--43787687 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
43787612 ATTATAAAGC
*
43787622 ATGTATAATTGACCTAAAACTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAACTAATTGTCGGTAT
*
43787655 ATGTATAATTGACCTAAAATTAATTGTCGGTAT
1 ATGTATAATTGACCTAAAACTAATTGTCGGTAT
43787688 TTGTTAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAACTAATTGTCGGTAT
Found at i:43788608 original size:26 final size:26
Alignment explanation
Indices: 43788572--43788637 Score: 118
Period size: 25 Copynumber: 2.6 Consensus size: 26
43788562 TAATAATGAT
43788572 CTCATCATTTTTTGATCCATG-AGTA
1 CTCATCATTTTTTGATCCATGTAGTA
43788597 CTCATCATTTTTTGATCCATGTAGTA
1 CTCATCATTTTTTGATCCATGTAGTA
43788623 CTCA-CATTTTTTGAT
1 CTCATCATTTTTTGAT
43788638 ATTAATACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 32 0.80
26 8 0.20
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.47
Consensus pattern (26 bp):
CTCATCATTTTTTGATCCATGTAGTA
Found at i:43790488 original size:25 final size:25
Alignment explanation
Indices: 43790460--43790509 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
43790450 AGAAAAGAAA
43790460 AGGTTGACTGGTTGAGAAGGCCAAG
1 AGGTTGACTGGTTGAGAAGGCCAAG
43790485 AGGTTGACTGGTTGAGAAGGCCAAG
1 AGGTTGACTGGTTGAGAAGGCCAAG
43790510 CGTAATGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.40, T:0.20
Consensus pattern (25 bp):
AGGTTGACTGGTTGAGAAGGCCAAG
Found at i:43790609 original size:33 final size:33
Alignment explanation
Indices: 43790572--43790678 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 33
43790562 GCAAATTGAC
43790572 AGAAAAGAAACAGAGGGAGCAAATCGGCAGAAAAGAAA
1 AGAAAAGAAACAGAGGGAGCAAATCGGC-----AGAAA
43790610 AGAAAAGAAAATAAACAGAGGGAGCAAATCGGCAGAAA
1 AGAAAAG-----AAACAGAGGGAGCAAATCGGCAGAAA
*
43790648 AGAAAAGAAACAGAGGGAGCCAATCGGCAGA
1 AGAAAAGAAACAGAGGGAGCAAATCGGCAGA
43790679 GGCTAGAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
33 23 0.37
38 19 0.30
43 21 0.33
ACGTcount: A:0.55, C:0.12, G:0.29, T:0.04
Consensus pattern (33 bp):
AGAAAAGAAACAGAGGGAGCAAATCGGCAGAAA
Found at i:43790627 original size:43 final size:43
Alignment explanation
Indices: 43790572--43790657 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
43790562 GCAAATTGAC
43790572 AGAAAAGAAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGAAA
1 AGAAAAGAAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGAAA
*
43790615 AGAAAATAAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGAAA
1 AGAAAAGAAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGAAA
43790658 CAGAGGGAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.60, C:0.09, G:0.27, T:0.03
Consensus pattern (43 bp):
AGAAAAGAAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGAAA
Found at i:43790694 original size:33 final size:33
Alignment explanation
Indices: 43790610--43790678 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
43790600 AGAAAAGAAA
*
43790610 AGAAAAGAAAATAAACAGAGGGAGCAAATCGGC
1 AGAAAAGAAAAGAAACAGAGGGAGCAAATCGGC
*
43790643 AGAAAAGAAAAGAAACAGAGGGAGCCAATCGGC
1 AGAAAAGAAAAGAAACAGAGGGAGCAAATCGGC
43790676 AGA
1 AGA
43790679 GGCTAGAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.13, G:0.29, T:0.04
Consensus pattern (33 bp):
AGAAAAGAAAAGAAACAGAGGGAGCAAATCGGC
Found at i:43794399 original size:36 final size:36
Alignment explanation
Indices: 43794352--43794425 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
43794342 GGCAAATACT
43794352 TAAAAAAATTTCATACTATTGGTACACACTCAGACA
1 TAAAAAAATTTCATACTATTGGTACACACTCAGACA
43794388 TAAAAAAATTTCATACTATTGGTACACACTCAGACA
1 TAAAAAAATTTCATACTATTGGTACACACTCAGACA
43794424 TA
1 TA
43794426 CCCGAATCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (36 bp):
TAAAAAAATTTCATACTATTGGTACACACTCAGACA
Found at i:43794903 original size:27 final size:27
Alignment explanation
Indices: 43794851--43794903 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
43794841 TAAAACACGT
*
43794851 CACTAAGGCAATCCATTCAAATTTTGC
1 CACTAAGGCAATCCATTCAAAGTTTGC
*
43794878 CACTAAGGC-ATCCCATTCAGAGTTTG
1 CACTAAGGCAAT-CCATTCAAAGTTTG
43794904 GGACAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
CACTAAGGCAATCCATTCAAAGTTTGC
Found at i:43794937 original size:28 final size:28
Alignment explanation
Indices: 43794893--43794957 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
43794883 AGGCATCCCA
** **
43794893 TTCAGAGTTTGGGACAAAATTTATCCTT
1 TTCAGAGTTTGCAACAAAAGCTATCCTT
* *
43794921 TTCAGAGTTTGCAACAAAGGCTATTCTT
1 TTCAGAGTTTGCAACAAAAGCTATCCTT
43794949 TTCAGAGTT
1 TTCAGAGTT
43794958 CACCACAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (28 bp):
TTCAGAGTTTGCAACAAAAGCTATCCTT
Found at i:43794975 original size:27 final size:28
Alignment explanation
Indices: 43794918--43795006 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
43794908 AAAATTTATC
**
43794918 CTTTTCAGAGTTTGCAACAAAGGCTATT
1 CTTTTCAGAGTTCACAACAAAGGCTATT
* *
43794946 CTTTTCAGAGTTCACCACAAGGGCTA-T
1 CTTTTCAGAGTTCACAACAAAGGCTATT
* * * *
43794973 CTTTTTCAAAGTTGACTACAAAGGTTATT
1 C-TTTTCAGAGTTCACAACAAAGGCTATT
43795002 CTTTT
1 CTTTT
43795007 TTGTCATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
27 2 0.04
28 46 0.92
29 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (28 bp):
CTTTTCAGAGTTCACAACAAAGGCTATT
Done.