Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold398
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: 1204187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:328019 original size:20 final size:19
Alignment explanation
Indices: 327990--328028 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
327980 AGGTCAAAAC
327990 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
328009 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
328029 GATTGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:328056 original size:13 final size:13
Alignment explanation
Indices: 328038--328062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
328028 AGATTGCACA
328038 GTATCGATACATT
1 GTATCGATACATT
328051 GTATCGATACAT
1 GTATCGATACAT
328063 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:328180 original size:13 final size:13
Alignment explanation
Indices: 328162--328187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
328152 TACACACAAG
328162 ATGTATCGATACA
1 ATGTATCGATACA
328175 ATGTATCGATACA
1 ATGTATCGATACA
328188 TCCCAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:332173 original size:20 final size:20
Alignment explanation
Indices: 332148--332266 Score: 139
Period size: 20 Copynumber: 5.8 Consensus size: 20
332138 TAAATTTAAC
*
332148 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGG
*
332168 AAAATGTATCAATACATCTGG
1 AAAATGTATCGATACAT-TGG
** *
332189 GTAATGTATCGATACAATGG
1 AAAATGTATCGATACATTGG
332209 AAAATGTATCGATACATATGG
1 AAAATGTATCGATACAT-TGG
** * *
332230 GTAATGTATTGATACATTGA
1 AAAATGTATCGATACATTGG
332250 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
332267 CTGGGTAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
20 49 0.60
21 32 0.40
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
AAAATGTATCGATACATTGG
Found at i:332195 original size:41 final size:41
Alignment explanation
Indices: 332150--332274 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
332140 AATTTAACAA
*
332150 AATGTATCGATACATTGAAAAATGTATCAATACATCTGGGT
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT
* * *
332191 AATGTATCGATACAATGGAAAATGTATCGATACATATGGGT
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT
*
332232 AATGTATTGATACATTGAAAAATGTATCGATACATCTGGGT
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT
332273 AA
1 AA
332275 AAATATGACT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (41 bp):
AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT
Found at i:332858 original size:20 final size:20
Alignment explanation
Indices: 332833--332884 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
332823 ATTGGGCACA
**
332833 ATGTATCAATACTTTTCACT
1 ATGTATCAATACAATTCACT
* *
332853 ATGTATCGATACAATTCATT
1 ATGTATCAATACAATTCACT
332873 ATGTATCAATAC
1 ATGTATCAATAC
332885 CAAGATCATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACAATTCACT
Found at i:332911 original size:13 final size:13
Alignment explanation
Indices: 332893--332917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
332883 ACCAAGATCA
332893 TGTATCGATACAG
1 TGTATCGATACAG
332906 TGTATCGATACA
1 TGTATCGATACA
332918 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:345180 original size:20 final size:20
Alignment explanation
Indices: 345152--345209 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
345142 GTAAAAAGAC
*
345152 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTAA
* *
345172 TACATGTATCGATACATTAA
1 AAAATGTATCGATACATTAA
*
345192 AAAATGCATCGATACATT
1 AAAATGTATCGATACATT
345210 TGGATAAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAATGTATCGATACATTAA
Found at i:345238 original size:70 final size:71
Alignment explanation
Indices: 345123--345258 Score: 193
Period size: 70 Copynumber: 1.9 Consensus size: 71
345113 TAGATTTTTC
* * * * *
345123 AATGTATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACATTCATACATGTATCGATACA
1 AATGCATCGATACATCTGGATAAAAAGACAAAATGTATCGATACATTCAAAAATGTATCGAGACA
345188 TTAAAA
66 TTAAAA
* * *
345194 AATGCATCGATACATTTGGAT-AAAAGACAGAATGTATCGATACATTGAAAAATGTATCGAGACA
1 AATGCATCGATACATCTGGATAAAAAGACAAAATGTATCGATACATTCAAAAATGTATCGAGACA
345258 T
66 T
345259 CTGGGTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
70 39 0.68
71 18 0.32
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (71 bp):
AATGCATCGATACATCTGGATAAAAAGACAAAATGTATCGATACATTCAAAAATGTATCGAGACA
TTAAAA
Found at i:346339 original size:33 final size:33
Alignment explanation
Indices: 346297--346376 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 33
346287 GTTGCCACTG
* *
346297 ACTTATGTGGGCTTTTAAAAAAAGGTGCCAGCA
1 ACTTGTGTGGGCTTTTAAAAAAAGGTGCCACCA
* * * *
346330 ACTTGTGTGGGC-TTTGAAAAGAGTTGCCACCG
1 ACTTGTGTGGGCTTTTAAAAAAAGGTGCCACCA
346362 ACTTGTGTGGGCTTT
1 ACTTGTGTGGGCTTT
346377 GAAAGAGTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
32 27 0.68
33 13 0.32
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (33 bp):
ACTTGTGTGGGCTTTTAAAAAAAGGTGCCACCA
Found at i:346409 original size:28 final size:28
Alignment explanation
Indices: 346335--347023 Score: 662
Period size: 28 Copynumber: 23.6 Consensus size: 28
346325 CAGCAACTTG
* *
346335 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
* *
346366 GTGTGGGCTTTGAAAGAGTGCCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
*
346395 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
346423 AGTGGGCTTTGAAAAGGTATGCCACTGACT
1 TGTGGGCTTTG-AAAGG-GTGCCACTGACT
* *** *
346453 TGTGGGCTTTGGAATAATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
346481 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
346511 TGTGGGCTTTCAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
346539 TGTGGGCTTTGGAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
346569 TATGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
346597 TGTGGGCTTTGGAAGGGTGCCACCGATTTTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA---CT
* *
346628 TGTGGGCTTTGGAAGGGTATGGCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* * * *
346658 TATAGGCTTTGAAAGGGTGCCACCGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* * *
346687 GTGTGGGCTTTGAAAAAAGTTGCCACTAACT
1 -TGTGGGCTTTG--AAAGGGTGCCACTGACT
* * * *
346718 TGTGTGGACTTTAAAAAAAGAGTTACTACTGACT
1 TGTG-GG-CTTT---GAAAG-GGTGCCACTGACT
* *
346752 TGT-GGCTTTGAACGGGGTGCCACTAACT
1 TGTGGGCTTTGAA-AGGGTGCCACTGACT
* * *
346780 TGTGTGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
346808 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
346836 TGTGGGCTTTGAAAGGATGCCACTGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
346864 TGTGGGCTTTGCAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
346892 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
346920 TGTGGGCTTTGAAATGGTGCCCCTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
346948 TGTGGGCTTTGAGAA-TATGCCACTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
* *
346976 TGTGGGCTTTGAGAAGGATGCCATTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
347005 TGTGGGCTTTGAAAAGGGT
1 TGTGGGCTTTG-AAAGGGT
347024 CGTACTAACA
Statistics
Matches: 553, Mismatches: 78, Indels: 55
0.81 0.11 0.08
Matches are distributed among these distances:
28 316 0.57
29 46 0.08
30 111 0.20
31 29 0.05
32 28 0.05
33 10 0.02
34 13 0.02
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:347060 original size:12 final size:13
Alignment explanation
Indices: 347038--347083 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
347028 CTAACAAAAA
347038 TTTCTTGACAAAG
1 TTTCTTGACAAAG
*
347051 TTTC-TGACAAAC
1 TTTCTTGACAAAG
*
347063 ATTCTTGACAGAAG
1 TTTCTTGACA-AAG
347077 -TTCTTGA
1 TTTCTTGA
347084 TGATAATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (13 bp):
TTTCTTGACAAAG
Found at i:347060 original size:26 final size:26
Alignment explanation
Indices: 347031--347100 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
347021 GGTCGTACTA
347031 ACAAAAATTTCTTGACAAAGTT-TCTG
1 ACAAAAATTTCTTGACAAAGTTCT-TG
*
347057 ACAAACA-TTCTTGACAGAAGTTCTTG
1 ACAAAAATTTCTTGACA-AAGTTCTTG
** *
347083 ATGATAATTTCTTGACAA
1 ACAAAAATTTCTTGACAA
347101 CCATTTCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 9 0.25
26 17 0.47
27 10 0.28
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (26 bp):
ACAAAAATTTCTTGACAAAGTTCTTG
Found at i:361660 original size:20 final size:20
Alignment explanation
Indices: 361614--361671 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
361604 GTAAAAAGAC
*
361614 AAAATGTATCGATACATCCA
1 AAAATGTATCGATACATCAA
* * * *
361634 TACATGTATTGATACATTAA
1 AAAATGTATCGATACATCAA
*
361654 AAAATGTATCAATACATC
1 AAAATGTATCGATACATC
361672 TGGGTAAAAG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAATGTATCGATACATCAA
Found at i:361690 original size:70 final size:70
Alignment explanation
Indices: 361567--361701 Score: 200
Period size: 70 Copynumber: 1.9 Consensus size: 70
361557 TTTTAACTAG
* *
361567 ATGTATCGATACATTGAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACATC
1 ATGTATCGATACATTAAAAATGTATCAATACATCTAGGTAAAAAGACAAAATGTATCGATACATC
361632 CATAC
66 CATAC
* * * *
361637 ATGTATTGATACATTAAAAAATGTATCAATACATCTGGGT-AAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACATT-AAAAATGTATCAATACATCTAGGTAAAAAGACAAAATGTATCGATACAT
361701 C
65 C
361702 TAGGTAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 37 0.64
71 21 0.36
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (70 bp):
ATGTATCGATACATTAAAAATGTATCAATACATCTAGGTAAAAAGACAAAATGTATCGATACATC
CATAC
Found at i:362616 original size:33 final size:32
Alignment explanation
Indices: 362574--362638 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
362564 CACATCCAGA
* *
362574 TGTATTGATACATTATGCTTTGTATCGATACAT
1 TGTATTGATACATGAT-CATTGTATCGATACAT
362607 TGTATTGATACATGATCATTGTATCGATACAT
1 TGTATTGATACATGATCATTGTATCGATACAT
362639 AATCATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (32 bp):
TGTATTGATACATGATCATTGTATCGATACAT
Found at i:362668 original size:20 final size:19
Alignment explanation
Indices: 362604--362677 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
362594 TGTATCGATA
* *
362604 CATTGTATTGATACATGAT
1 CATTGTATCGATACATAAT
362623 CATTGTATCGATACATAAT
1 CATTGTATCGATACATAAT
*
362642 CATTGTATCGATACTTACA-
1 CATTGTATCGATACATA-AT
362661 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
362678 GAAACTGACA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 34 0.69
20 15 0.31
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATAAT
Found at i:367832 original size:32 final size:32
Alignment explanation
Indices: 367777--367874 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
367767 TTCAACGATT
*
367777 TGTATCGATACATAAAGTGTTGTATCGATATAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
367810 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
367842 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
367874 T
1 T
367875 ATAAGCTACT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 48 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:367834 original size:19 final size:18
Alignment explanation
Indices: 367775--367872 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
367765 ATTTCAACGA
367775 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
367794 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
367810 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
367826 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
367842 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
367858 TTTTGTATCGATACA
1 -TTTGTATCGATACA
367873 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 19 0.30
15 6 0.09
17 4 0.06
18 2 0.03
19 23 0.36
20 10 0.16
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:367934 original size:13 final size:13
Alignment explanation
Indices: 367916--367940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
367906 ATTACTCAAA
367916 TGTATCGATACAT
1 TGTATCGATACAT
367929 TGTATCGATACA
1 TGTATCGATACA
367941 CTGATCTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:367986 original size:52 final size:52
Alignment explanation
Indices: 367951--368077 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
367941 CTGATCTTTC
* * *
367951 TATCGATACACGCAGGCAAATTTGCCTAGCTGTATCGATACACTATGAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
*
368003 TATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
368055 TATCGATACATGCAGGCAAATTT
1 TATCGATACATGCAGGCAAATTT
368078 TCATATTTCG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATG
Found at i:372303 original size:21 final size:22
Alignment explanation
Indices: 372246--372318 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
372236 TATCGATTTT
372246 TCACTGTTCATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
**
372268 T---TGTGAATAGTATCGATACA
1 TCACTGTTCAT-GTATCGATACA
372288 TCACT-TTCATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
372309 TCACTGTTCA
1 TCACTGTTCA
372319 CACTGTTCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.12
20 12 0.29
21 16 0.38
22 8 0.19
23 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (22 bp):
TCACTGTTCATGTATCGATACA
Found at i:373384 original size:13 final size:13
Alignment explanation
Indices: 373366--373391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
373356 ACATATTGGT
373366 GTGTATCGATACA
1 GTGTATCGATACA
373379 GTGTATCGATACA
1 GTGTATCGATACA
373392 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:377935 original size:21 final size:20
Alignment explanation
Indices: 377910--377952 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
377900 CTGTTTTTCG
*
377910 AAAATAGAAAAATTTCATGAA
1 AAAATAGAAAAA-CTCATGAA
**
377931 AAAATTTAAAAACTCATGAA
1 AAAATAGAAAAACTCATGAA
377951 AA
1 AA
377953 TGAATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAATAGAAAAACTCATGAA
Found at i:378231 original size:168 final size:166
Alignment explanation
Indices: 377785--378234 Score: 579
Period size: 168 Copynumber: 2.7 Consensus size: 166
377775 GAAAAAAACA
* * *
377785 AAAATGAATGAATTTTTAAAAACTGATTTAACATGAAATAAATAATAATATTTAATGAATTTTAA
1 AAAATGAATGAATTTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTAATGAAATTTAA
* * * * *
377850 AAATTAAAAACCAAGAAAAATCTTCC-CAAAAAT-TTT-TGGAGTATAAAACTCTGTTTTTCGAA
66 AAATTTAAAACCAAGAAAAATC-TCCTCAAAAATATTTATGGAATAGAAAACTCTATTTTTCAAA
* * *
377912 AATAGAAAAATTTCATGAAAAAATTTAAAAACTCATG
130 AATAGAAAAATTTAAGGAAAAAATTTAAAAACCCATG
* * *
377949 AAAATGAATGAATTTTTTAAAATTGATTTATTATGAAATAAATAATAATATTTTAT-AAATTTCA
1 AAAATGAATGAATTTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTAATGAAATTT-A
* * * **
378013 AAAATTTAAAACCAAGAAAAATCACTTCAAAAAAATTTA-CAAAGTAGAAAACTCTATTTTTCAA
65 AAAATTTAAAACCAAGAAAAATCTCCTCAAAAATATTTATGGAA-TAGAAAACTCTATTTTTCAA
* *
378077 AAATAGGAAAATTTTAAGGAAAAAATTTTCAAAACCCATG
129 AAATA-GAAAAATTTAAGGAAAAAA-TTTAAAAACCCATG
* *
378117 AAAATGAATGAATTTTTTAAAGCTGATTTAATATGAATTAAATAATAATATTTAATGAAATTTAA
1 AAAATGAATGAATTTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTAATGAAATTTAA
* *
378182 AAATTTTAAACCGATGAAAAATC-CCTCAAAAATATTTATGGAATAGAAAACTC
66 AAATTTAAAACC-AAGAAAAATCTCCTCAAAAATATTTATGGAATAGAAAACTC
378235 CATATTTTGA
Statistics
Matches: 244, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
163 6 0.02
164 80 0.33
165 4 0.02
166 22 0.09
167 16 0.07
168 99 0.41
169 17 0.07
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (166 bp):
AAAATGAATGAATTTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTAATGAAATTTAA
AAATTTAAAACCAAGAAAAATCTCCTCAAAAATATTTATGGAATAGAAAACTCTATTTTTCAAAA
ATAGAAAAATTTAAGGAAAAAATTTAAAAACCCATG
Found at i:380031 original size:28 final size:28
Alignment explanation
Indices: 380000--380058 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
379990 GACAAGTGTT
380000 AAGACAAAATGGA-AAAGCTTGTCTTAAC
1 AAGACAAAATGGATAAA-CTTGTCTTAAC
* *
380028 AAGACTATATGGATAAACTTGTCTTAAC
1 AAGACAAAATGGATAAACTTGTCTTAAC
380056 AAG
1 AAG
380059 GTAATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (28 bp):
AAGACAAAATGGATAAACTTGTCTTAAC
Found at i:380190 original size:106 final size:108
Alignment explanation
Indices: 379999--380242 Score: 294
Period size: 106 Copynumber: 2.3 Consensus size: 108
379989 AGACAAGTGT
* * **
379999 TAAGACAAAATGGAAAAGCTTGTCTTAACAAGACTATATGGATAAACTTGTCTTAACAAGGTAAT
1 TAAGACAAAATGGATAAGCTTGTCTTAACAAGACTATA--GATAAACTTATCTTAACAAGACAAT
* * * * *
380064 TTTTAAATTAGACTTATCTTAAAATAAGTTGTCTTGATGTCTGAA
64 TTCTAAAGTAGACATATCTTAAAATAAGTTATCTTAATGTCTGAA
* *
380109 TAAGACAAAATGGATAAGCTTGTCTTAACTAGAC-ATA-ATAAACTTATTTTAACAAGACAATTT
1 TAAGACAAAATGGATAAGCTTGTCTTAACAAGACTATAGATAAACTTATCTTAACAAGACAATTT
* * *
380172 CTAAAGTATACATATCTTAAGATAAGTTATCTTAATGTCTTAA
66 CTAAAGTAGACATATCTTAAAATAAGTTATCTTAATGTCTGAA
* * * *
380215 TAAGATAATATAGATAAGCTTGTATTAA
1 TAAGACAAAATGGATAAGCTTGTCTTAA
380243 AATAATGATT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 81 0.70
109 3 0.03
110 32 0.28
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (108 bp):
TAAGACAAAATGGATAAGCTTGTCTTAACAAGACTATAGATAAACTTATCTTAACAAGACAATTT
CTAAAGTAGACATATCTTAAAATAAGTTATCTTAATGTCTGAA
Found at i:382664 original size:19 final size:20
Alignment explanation
Indices: 382617--382665 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
382607 CACCCAGATA
382617 TATCGATACATATTGCTTGG
1 TATCGATACATATTGCTTGG
* * *
382637 TATCAATACATGTT-CTTTG
1 TATCGATACATATTGCTTGG
382656 TATCGATACA
1 TATCGATACA
382666 CAATAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATACATATTGCTTGG
Found at i:384353 original size:3 final size:3
Alignment explanation
Indices: 384345--384370 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
384335 CCAAAAGGAA
384345 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
384371 GCAAAAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:392438 original size:11 final size:11
Alignment explanation
Indices: 392419--392451 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
392409 ATGAATGTTA
*
392419 TTGAATGAATT
1 TTGATTGAATT
392430 TTGATTGAATT
1 TTGATTGAATT
392441 TTGATTGAATT
1 TTGATTGAATT
392452 GTACGTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (11 bp):
TTGATTGAATT
Found at i:393187 original size:50 final size:51
Alignment explanation
Indices: 393133--393365 Score: 300
Period size: 50 Copynumber: 4.6 Consensus size: 51
393123 TCACAATTTA
* **
393133 TATCGATACATCCATCATTATATCGATACATTCTGGGTTTT-ACCCAGATG
1 TATCGATACATCCTTCATCGTATCGATACATTCTGGGTTTTAACCCAGATG
* *
393183 TATCGATACAACTTTCATCGTATCGATACATTCTGGGTTTTAACCCAGATG
1 TATCGATACATCCTTCATCGTATCGATACATTCTGGGTTTTAACCCAGATG
*
393234 TATCGATACAT-TTCTCAAT-GTATCGATACATTCTGGGTTTT-ACCCAGATG
1 TATCGATACATCCT-TC-ATCGTATCGATACATTCTGGGTTTTAACCCAGATG
* *
393284 TATCGATACAACTTTCATCGTATCGATACATTCT-GGTTTTAACCCAGATG
1 TATCGATACATCCTTCATCGTATCGATACATTCTGGGTTTTAACCCAGATG
*
393334 TATCGATACAT-TTCTCAAT-GTATCGATACATT
1 TATCGATACATCCT-TC-ATCGTATCGATACATT
393366 TCTCAATGTA
Statistics
Matches: 167, Mismatches: 8, Indels: 16
0.87 0.04 0.08
Matches are distributed among these distances:
49 10 0.06
50 108 0.65
51 47 0.28
52 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (51 bp):
TATCGATACATCCTTCATCGTATCGATACATTCTGGGTTTTAACCCAGATG
Found at i:393267 original size:101 final size:100
Alignment explanation
Indices: 393153--393365 Score: 417
Period size: 101 Copynumber: 2.1 Consensus size: 100
393143 TCCATCATTA
393153 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACAACTTTCATCGTATCGATACATTCTG
1 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACAACTTTCATCGTATCGATACATTCT-
393218 GGTTTTAACCCAGATGTATCGATACATTTCTCAATG
65 GGTTTTAACCCAGATGTATCGATACATTTCTCAATG
393254 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACAACTTTCATCGTATCGATACATTCTG
1 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACAACTTTCATCGTATCGATACATTCTG
393319 GTTTTAACCCAGATGTATCGATACATTTCTCAATG
66 GTTTTAACCCAGATGTATCGATACATTTCTCAATG
393354 TATCGATACATT
1 TATCGATACATT
393366 TCTCAATGTA
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 48 0.43
101 64 0.57
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (100 bp):
TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACAACTTTCATCGTATCGATACATTCTG
GTTTTAACCCAGATGTATCGATACATTTCTCAATG
Found at i:393385 original size:20 final size:20
Alignment explanation
Indices: 393331--393379 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
393321 TTTAACCCAG
393331 ATGTATCGATACATTTCTCA
1 ATGTATCGATACATTTCTCA
393351 ATGTATCGATACATTTCTCA
1 ATGTATCGATACATTTCTCA
393371 ATGTATCGA
1 ATGTATCGA
393380 CGCATTCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCA
Found at i:395800 original size:79 final size:79
Alignment explanation
Indices: 395690--396053 Score: 369
Period size: 79 Copynumber: 4.6 Consensus size: 79
395680 TCATTCGTGT
* * * * *
395690 TTTTATTTCTAAAATACCGATTTTTCGCAATCGGGGATACTCCAACCCTGTTATTT-TCGAGGGG
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCT-GAGGGG
395754 ATACTCCAACCCTAA
65 ATACTCCAACCCTAA
* ** * * * * *
395769 TTTTATTTTCAAAACATTAATTTTCCACAATCGAGGATACTCCAATCATATTATTTCTGAGGAGA
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
** *
395834 TACTTTAATCC-AGA
66 TACTCCAACCCTA-A
* * * * * *
395848 TTTTATTTCTAAGATACCAATTTTTCACAATCGGGGATACTCCAATCTCAGTTATTTCTGAGGGG
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAA-CCCTGTTATTTCTGAGGGG
*
395913 ATACTCCAACCCTAG
65 ATACTCCAACCCTAA
* * * * * *
395928 TTTTATTTCCAAAATATCAATTTTTCACAATCGAGGATACTCCGACCC-GTTATTT-TCGAGAGG
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCT-GAGGGG
*
395991 ATACTCCAA-CCTCGA
65 ATACTCCAACCCT-AA
*
396006 TTTTATTTCCAAAACACCAATTTTCCACCATCGGGGATACTCCAACCC
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCC
396054 CAATTTTATT
Statistics
Matches: 230, Mismatches: 49, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
77 4 0.02
78 64 0.28
79 98 0.43
80 63 0.27
81 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
TACTCCAACCCTAA
Found at i:396013 original size:158 final size:158
Alignment explanation
Indices: 395690--396053 Score: 459
Period size: 158 Copynumber: 2.3 Consensus size: 158
395680 TCATTCGTGT
* * *
395690 TTTTATTTCTAAAATACCGATTTTTCGCAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCCAGTTATTTTCGAGGGGA
* * *
395755 TACTCCAACCCTAATTTTATTTTCAAAACATTAATTTTCCACAATCGAGGATACTCCAATCATAT
66 TACTCCAACCCTAATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAATCACAT
**
395820 TATTTCTGAGGAGATACTTTAATCCAGA
131 TATTTCTGAGGAGATACTCCAATCCAGA
* *
395848 TTTTATTTCTAAGATACCAATTTTTCACAATCGGGGATACTCCAATCTCAGTTA-TTTCTGAGGG
1 TTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAA-CCCAGTTATTTTC-GAGGG
* * * * *
395912 GATACTCCAACCCTAGTTTTATTTCCAAAATATCAATTTTTCACAATCGAGGATACTCCGA-CCC
64 GATACTCCAACCCTAATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAATCAC
* *
395976 GTTATTT-TCGA-GAGGATACTCCAA-CCTCGA
129 ATTATTTCT-GAGGA-GATACTCCAATCC-AGA
* * * *
396006 TTTTATTTCCAAAACACCAATTTTCCACCATCGGGGATACTCCAACCC
1 TTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCC
396054 CAATTTTATT
Statistics
Matches: 178, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
157 7 0.04
158 105 0.59
159 66 0.37
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (158 bp):
TTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCCAGTTATTTTCGAGGGGA
TACTCCAACCCTAATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAATCACAT
TATTTCTGAGGAGATACTCCAATCCAGA
Found at i:396080 original size:51 final size:51
Alignment explanation
Indices: 395989--396104 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
395979 ATTTTCGAGA
* * * *
395989 GGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTCCACCATCGG
1 GGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAG
** * * * * *
396040 GGATACTCCAACCCCAATTTTATTTTTAGAACATCGATTTTCCATAATTAG
1 GGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAG
396091 GGATACTCCAACCC
1 GGATACTCCAACCC
396105 TAGTTATTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCAG
Found at i:396130 original size:80 final size:79
Alignment explanation
Indices: 396039--396213 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 79
396029 TCCACCATCG
** * * * *
396039 GGGATACTCCAACCCCAATTTTATTTTTAGAACATCGATTTTCCATAATTAG-GGATACTCCAAC
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAA-TAGAGGATACTCCAAC
* **
396103 CCTAGTTATTTTTAAA
65 CCT-GTTATCTCCAAA
* * *
396119 GGGATACTCCAACCCAAATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATAGAGGATACTCCAACC
*
396184 CTGTTATCTCCAAG
66 CTGTTATCTCCAAA
396198 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
396214 GTCTTTATCT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 25 0.31
80 55 0.69
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATAGAGGATACTCCAACC
CTGTTATCTCCAAA
Found at i:396238 original size:79 final size:80
Alignment explanation
Indices: 396091--396242 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 80
396081 CCATAATTAG
* ** * *
396091 GGATACTCCAACCCTAGTTATTTTTAAAGGGATACTCCAACCCAAATTTTATTTCCAAAACACCA
1 GGATACTCCAACCCTAGTTATCTCCAAAGGGATACTCCAACCCAAATTTTATCTCCAAAACACAA
396156 ATTTTTCACAATCGA
66 ATTTTTCACAATCGA
* ** *
396171 GGATACTCCAACCCT-GTTATCTCCAAGGGGATACTCCAACCC-CGTCTTTATCTCC-AAACTAT
1 GGATACTCCAACCCTAGTTATCTCCAAAGGGATACTCCAACCCAAAT-TTTATCTCCAAAAC-AC
396233 AAATTTTTCA
64 AAATTTTTCA
396243 TCGAGGAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 5 0.08
79 41 0.67
80 15 0.25
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.31
Consensus pattern (80 bp):
GGATACTCCAACCCTAGTTATCTCCAAAGGGATACTCCAACCCAAATTTTATCTCCAAAACACAA
ATTTTTCACAATCGA
Found at i:408747 original size:8 final size:8
Alignment explanation
Indices: 408734--408764 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
408724 TTTTTTTCAA
408734 AAAAAAAC
1 AAAAAAAC
*
408742 AAAAAAAT
1 AAAAAAAC
408750 AAAAAAAC
1 AAAAAAAC
408758 AAAAAAA
1 AAAAAAA
408765 AGAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:408755 original size:16 final size:16
Alignment explanation
Indices: 408734--408764 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
408724 TTTTTTTCAA
408734 AAAAAAACAAAAAAAT
1 AAAAAAACAAAAAAAT
408750 AAAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
408765 AGAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAACAAAAAAAT
Found at i:408772 original size:16 final size:16
Alignment explanation
Indices: 408735--408784 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
408725 TTTTTTCAAA
408735 AAAAAACAAAAAAATA-
1 AAAAAACAAAAAAA-AG
408751 AAAAAACAAAAAAAAG
1 AAAAAACAAAAAAAAG
*
408767 AGAAAAA-AAAGAAAAG
1 A-AAAAACAAAAAAAAG
408783 AA
1 AA
408785 CGTGCTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 2 0.06
16 24 0.77
17 5 0.16
ACGTcount: A:0.86, C:0.04, G:0.08, T:0.02
Consensus pattern (16 bp):
AAAAAACAAAAAAAAG
Found at i:409839 original size:61 final size:61
Alignment explanation
Indices: 409769--410290 Score: 644
Period size: 61 Copynumber: 8.6 Consensus size: 61
409759 CAGGATGCCT
*
409769 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTTAAAGAGCAAGACGTC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
* * * *
409830 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAATCCTCAAATAGCAAGATGCC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
* * *
409891 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAAAGCAGGAC-AC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
* * * * *
409951 -TTTCCTTTCAAAGCCCAGATAAGTTGGTGGCACC-TTCTAGTCCTTAAAGAGCAAGACGTC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AATCCTCAAAGAGCAAGACGTC
* * * * * *
410011 TTTTTCCTTTTAATGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAAGTAGGACGCC
1 -TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
* * * * *
410073 TTTTCCATTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAAAGCAAGACATC
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
* * * * *
410134 TTTTCCTTTTAAAGCTCACACAAGTTAGTGGCATCTTTCAATCCTCAAAGAGCAGGATG-C
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
* *
410194 -TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAAGACG-C
1 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AATCCTCAAAGAGCAAGACGTC
** **
410253 TTTCTCCTTGCAAAGCCCATGCAAGTTGGTGGCACCTT
1 TTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
410291 CTAGTCCCCA
Statistics
Matches: 396, Mismatches: 56, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
58 6 0.02
59 94 0.24
60 5 0.01
61 242 0.61
62 46 0.12
63 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (61 bp):
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGACGTC
Found at i:410199 original size:243 final size:241
Alignment explanation
Indices: 409767--410318 Score: 798
Period size: 243 Copynumber: 2.3 Consensus size: 241
409757 AACAGGATGC
* * * * *
409767 CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTTAAAGAGCAAGACGTCTT
1 CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAATCCTCAAAAAGTAGGACGCCTT
* * **
409832 TTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAATCCTCAAATAGCAAGATGCCTTTTCC
65 TTCCATTTAAAGCCCACACAAGTTGGTGGCATCTTTCAATCCTCAAAAAGCAAGACACCTTTTCC
*
409897 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAAAGCAGGACACTTTCCTTTCAA
130 TTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAAAGCAGGACACTTTCCTTTCAA
* * *
409962 AGCCCAGATAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAAGACG
195 AGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
*
410009 TCTTTTTCCTTTTAATGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAAAGTAGGACGCCT
1 -CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAATCCTCAAAAAGTAGGACGCCT
* *
410074 TTTCCATTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAAAGCAAGACATCTTTTC
64 TTTCCATTTAAAGCCCACACAAGTTGGTGGCATCTTTCAATCCTCAAAAAGCAAGACACCTTTTC
* * * **
410139 CTTTTAAAGCTCACACAAGTTAGTGGCATCTTTCAATCCTCAAAGAGCAGGATGCTTTCCTTTCA
129 CTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAAAGCAGGACACTTTCCTTTCA
410204 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
194 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
* ** ** * * *
410252 CTTTCTCCTTGCAAAGCCCATGCAAGTTGGTGGCACCTTCTAGTCCCCAAAAAGTAGGACGCACT
1 CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AATCCTCAAAAAGTAGGACGC-CT
410317 TT
64 TT
410319 ATTTTATTTT
Statistics
Matches: 276, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
241 3 0.01
242 50 0.18
243 223 0.81
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (241 bp):
CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAATCCTCAAAAAGTAGGACGCCTTT
TCCATTTAAAGCCCACACAAGTTGGTGGCATCTTTCAATCCTCAAAAAGCAAGACACCTTTTCCT
TTTAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAAAGCAGGACACTTTCCTTTCAAA
GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
Found at i:410370 original size:41 final size:41
Alignment explanation
Indices: 410294--410470 Score: 147
Period size: 41 Copynumber: 4.4 Consensus size: 41
410284 GCACCTTCTA
* *
410294 GTCCCCAAAAAGTAGGACGCACTTTATTT-TATTTTCCCTTT
1 GTCCTCAAAGAGTAGGACGCACTTTATTTCT-TTTTCCCTTT
* * *
410335 GTCCTTAAAGAGTGGGACGCACTTTATTTCTTTTTCTCTTTT
1 GTCCTCAAAGAGTAGGACGCACTTTATTTCTTTTTC-CCTTT
* * *
410377 TTCCTCAAAGAGTAGGACACA-TTTAATTTCCTTCTTTTCCTTT
1 GTCCTCAAAGAGTAGGACGCACTTT-ATTT-CTT-TTTCCCTTT
* * *
410420 GTCCTCGAAGAGCAGGACG-----TA-CTCTTTTT-CCTTT
1 GTCCTCAAAGAGTAGGACGCACTTTATTTCTTTTTCCCTTT
410454 GTCCTCAAAGAGTAGGA
1 GTCCTCAAAGAGTAGGA
410471 TGCCCCATCC
Statistics
Matches: 113, Mismatches: 18, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
34 20 0.18
35 3 0.03
36 3 0.03
37 1 0.01
38 1 0.01
39 1 0.01
41 33 0.29
42 26 0.23
43 22 0.19
44 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGTAGGACGCACTTTATTTCTTTTTCCCTTT
Found at i:413652 original size:78 final size:78
Alignment explanation
Indices: 413542--413818 Score: 335
Period size: 79 Copynumber: 3.5 Consensus size: 78
413532 TCATTCATGT
* * * *
413542 TTTTATTTCTAAAACACCGATTTTCCATAATCGAGGATACTCCAACCCTGTTATTTTTGAAGGGA
1 TTTTATTTCCAAAACATCGATTTTCCACAATCG-GGATACTCCAACCCTGTTATTTCTGAAGGGA
413607 TACTCCAACCCCG-
65 TACTCCAACCCCGA
* * * * *
413620 TTTTTTTTCCAAAATATCGATTTTTCACAATCGGTGATACTTCAACCCTGTTATTTCCGAAGGGA
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGG-GATACTCCAACCCTGTTATTTCTGAAGGGA
*
413685 TATTCCAACCCCGA
65 TACTCCAACCCCGA
* ** *
413699 TTTTATTTCTAAAATGTCGATTTTCCATAATCGGGAATACTCCAACTCC-GTTATTTCT-AAGAG
1 TTTTATTTCCAAAACATCGATTTTCCACAATCGGG-ATACTCCAAC-CCTGTTATTTCTGAAG-G
*
413762 GATACTTCAACCCCGA
63 GATACTCCAACCCCGA
*
413778 TTTTATTTCCAAAACATTGATTTTCCACAATCGGGGATACT
1 TTTTATTTCCAAAACATCGATTTTCCACAATC-GGGATACT
413819 ATAACCCCGA
Statistics
Matches: 169, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
78 70 0.41
79 93 0.55
80 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (78 bp):
TTTTATTTCCAAAACATCGATTTTCCACAATCGGGATACTCCAACCCTGTTATTTCTGAAGGGAT
ACTCCAACCCCGA
Found at i:413825 original size:51 final size:50
Alignment explanation
Indices: 413761--413876 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 50
413751 ATTTCTAAGA
*
413761 GGATACTTCAACCCCGA-TTTTATTTCCAAAACATTGATTTTCCACAATCGG
1 GGATACTT-AACCCCGATTTTTATTTCCAAAACACTGATTTT-CACAATCGG
* *
413812 GGATACTATAACCCCGATTTTTATTTCTAAAATACTGATTTTCACAATCGG
1 GGATACT-TAACCCCGATTTTTATTTCCAAAACACTGATTTTCACAATCGG
413863 GGATACTCTAACCC
1 GGATACT-TAACCC
413877 TATTATTTCT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
51 37 0.63
52 22 0.37
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (50 bp):
GGATACTTAACCCCGATTTTTATTTCCAAAACACTGATTTTCACAATCGG
Found at i:413861 original size:130 final size:128
Alignment explanation
Indices: 413691--414076 Score: 463
Period size: 130 Copynumber: 3.0 Consensus size: 128
413681 GGGATATTCC
* * *
413691 AACCCCGATTTTATTTCTAAAAT-GTCGATTTTCCATAATCGGGAATACTCCAACTCCGTTATTT
1 AACCCCGATTTTATTTCTAAAATACT-GATTTTCCACAATCGGG-ATACTCTAAC-CCGTTATTT
* **
413755 CTAAGAGGATACTTCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACAATCGGGGATACTA
63 CTAAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTA
413820 T
128 T
*
413821 AACCCCGATTTTTATTTCTAAAATACTGATTTT-CACAATCGGGGATACTCTAACCCTATTATTT
1 AACCCCGA-TTTTATTTCTAAAATACTGATTTTCCACAATC-GGGATACTCTAACCC-GTTATTT
* * * * * *
413885 CTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATCAGGGATACTC
63 CTAAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTA
413950 T
128 T
* * * *
413951 AACCCCGATTTTATTTCCAAAACATTGATTTTCCACAATCGAGGATACTTTAACCCCGTTATTTC
1 AACCCCGATTTTATTTCTAAAATACTGATTTTCCACAATCG-GGATACTCTAA-CCCGTTATTTC
* * * * * *
414016 TGAA-AAGATACTCCAACCCTGGTTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATA
64 T-AAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATA
414077 ATCCAAAACA
Statistics
Matches: 219, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
129 24 0.11
130 166 0.76
131 28 0.13
132 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (128 bp):
AACCCCGATTTTATTTCTAAAATACTGATTTTCCACAATCGGGATACTCTAACCCGTTATTTCTA
AGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTAT
Found at i:413896 original size:79 final size:79
Alignment explanation
Indices: 413810--413955 Score: 204
Period size: 79 Copynumber: 1.8 Consensus size: 79
413800 TTCCACAATC
* * * ** *
413810 GGGGATACTATAACCCCGATTTTTATTTCTAAAATACTGATTTT-CACAATCGGGGATACTCTAA
1 GGGGATACTACAACCCCGA-TTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCTAA
413874 CCCTATTATTTCTGA
65 CCCTATTATTTCTGA
* *
413889 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATCAGGGATACTCTAAC
1 GGGGATACTACAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCTAAC
413954 CC
66 CC
413956 CGATTTTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 20 0.34
79 38 0.66
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
GGGGATACTACAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCTAAC
CCTATTATTTCTGA
Found at i:413966 original size:51 final size:50
Alignment explanation
Indices: 413890--414008 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 50
413880 TATTTCTGAG
* *
413890 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
1 GGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
***
413940 AGGGATACTCTAACCCCGATTTTATTTCCAAAACATTGATTTTCCACAATC
1 -GGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
*
413991 GAGGATACTTTAACCCCG
1 G-GGATACTCTAACCCCG
414009 TTATTTCTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.02
51 60 0.98
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.29
Consensus pattern (50 bp):
GGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:414119 original size:112 final size:112
Alignment explanation
Indices: 413966--414194 Score: 406
Period size: 112 Copynumber: 2.0 Consensus size: 112
413956 CGATTTTATT
*
413966 TCCAAAACATTGATTTTCCACAATCGAGGATACTTTAACCCCGTTATTTCTGAAAAGATACTCCA
1 TCCAAAACATTGATTTTCCACAATCGAGGATACTTTAACCCCATTATTTCTGAAAAGATACTCCA
414031 ACCCTGGTTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATAA
66 ACCCTGGTTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATAA
*
414078 TCCAAAACATTGATTTTCCACAATC-AGGGATACTTTAACCCCATTATTTCTGAAGAGATACTCC
1 TCCAAAACATTGATTTTCCACAATCGA-GGATACTTTAACCCCATTATTTCTGAAAAGATACTCC
* *
414142 AATCCTGGTTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATAC
65 AACCCTGGTTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATAA
414190 TCCAA
1 TCCAA
414195 CCCTTTATTT
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
111 1 0.01
112 111 0.99
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (112 bp):
TCCAAAACATTGATTTTCCACAATCGAGGATACTTTAACCCCATTATTTCTGAAAAGATACTCCA
ACCCTGGTTTTATTTCTAGAACACCGATTTTTCACAATCGGGGATAA
Found at i:414179 original size:79 final size:78
Alignment explanation
Indices: 414089--414238 Score: 194
Period size: 78 Copynumber: 1.9 Consensus size: 78
414079 CCAAAACATT
** *
414089 GATTTTCCACAATCAGGGATACTTTAACCCCATTATTTCTGAAGAGATACTCCAATCCTGGT-TT
1 GATTTTCCACAATCAGGGATACTCCAA-CCCATTATTTCTGAAGAGATACTCCAA-CCTCGTCTT
*
414153 TATTTCTAGAACACC
64 TATCTCTAGAACACC
* * * * *
414168 GATTTTTCACAATCGGGGATACTCCAACCCTTTATTTCTGAGGGGATACTCCAACCTCGTCTTTA
1 GATTTTCCACAATCAGGGATACTCCAACCCATTATTTCTGAAGAGATACTCCAACCTCGTCTTTA
414233 TCTCTA
66 TCTCTA
414239 AAATATTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 5 0.08
78 33 0.54
79 23 0.38
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (78 bp):
GATTTTCCACAATCAGGGATACTCCAACCCATTATTTCTGAAGAGATACTCCAACCTCGTCTTTA
TCTCTAGAACACC
Found at i:414252 original size:79 final size:79
Alignment explanation
Indices: 414090--414256 Score: 176
Period size: 78 Copynumber: 2.1 Consensus size: 79
414080 CAAAACATTG
* ** *
414090 ATTTTCCACAATCAGGGATACTTTAACCCCATTATTTCTGAAGAGATACTCCAATCCTGGTTTTA
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTGAAGAGATACTCCAATCCTCGTTTTA
* * **
414155 TTTCTAGAACACCG
66 TCTCTAAAACACAA
* * * *
414169 ATTTTTCACAATCGGGGATACTCCAA-CCCTTTATTTCTGAGGGGATACTCCAA-CCTCGTCTTT
1 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTGAAGAGATACTCCAATCCTCGT-TTT
* *
414232 ATCTCTAAAATATTAA
65 ATCTCTAAAACA-CAA
414248 ATTTTTCAC
1 ATTTTTCAC
414257 TGAGAAATGT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
77 5 0.07
78 36 0.50
79 31 0.43
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTCTGAAGAGATACTCCAATCCTCGTTTTA
TCTCTAAAACACAA
Found at i:414643 original size:13 final size:13
Alignment explanation
Indices: 414625--414651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
414615 AGATTATGCT
414625 TTGTATCGATACA
1 TTGTATCGATACA
414638 TTGTATCGATACA
1 TTGTATCGATACA
414651 T
1 T
414652 GTTAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:414661 original size:19 final size:20
Alignment explanation
Indices: 414637--414688 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
414627 GTATCGATAC
**
414637 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
414656 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
414676 ATTGTATCGATAC
1 ATTGTATCGATAC
414689 TAAGATTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:420950 original size:13 final size:13
Alignment explanation
Indices: 420932--420973 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
420922 ACAACATTCC
*
420932 TTGTATCAATACA
1 TTGTATCGATACA
420945 TTGTATCGATACA
1 TTGTATCGATACA
420958 TTGTATCGATACA
1 TTGTATCGATACA
420971 TTG
1 TTG
420974 GGTACCGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:423477 original size:13 final size:13
Alignment explanation
Indices: 423459--423517 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
423449 ACATTATGCT
423459 TTGTATCGATACA
1 TTGTATCGATACA
423472 TTGTATCGATACA
1 TTGTATCGATACA
423485 -TG--T---TA-A
1 TTGTATCGATACA
*
423491 TTGTATCAATACA
1 TTGTATCGATACA
423504 TTGTATCGATACA
1 TTGTATCGATACA
423517 T
1 T
423518 GTTAATTGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
6 1 0.03
7 4 0.11
9 1 0.03
10 1 0.03
12 4 0.11
13 27 0.71
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:423495 original size:19 final size:19
Alignment explanation
Indices: 423471--423556 Score: 94
Period size: 19 Copynumber: 4.8 Consensus size: 19
423461 GTATCGATAC
423471 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGTTA
*
423490 ATTGTATCAATAC------
1 ATTGTATCGATACATGTTA
423503 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGTTA
**
423522 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GTTA
423542 ATTGTATCGATACAT
1 ATTGTATCGATACAT
423557 AAGATTGGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
13 12 0.21
19 27 0.48
20 17 0.30
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
ATTGTATCGATACATGTTA
Found at i:423503 original size:32 final size:32
Alignment explanation
Indices: 423459--423536 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
423449 ACATTATGCT
423459 TTGTATCGATACATTGTATCGATACATGTTAA
1 TTGTATCGATACATTGTATCGATACATGTTAA
*
423491 TTGTATCAATACATTGTATCGATACATGTTAA
1 TTGTATCGATACATTGTATCGATACATGTTAA
423523 TTGTATCGATACAT
1 TTGTATCGATACAT
423537 GGACAATTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (32 bp):
TTGTATCGATACATTGTATCGATACATGTTAA
Found at i:423623 original size:13 final size:13
Alignment explanation
Indices: 423602--423632 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
423592 CGATACATGG
*
423602 TACAATGTATCGA
1 TACATTGTATCGA
423615 TACATTGTATCGA
1 TACATTGTATCGA
423628 TACAT
1 TACAT
423633 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:423628 original size:33 final size:33
Alignment explanation
Indices: 423586--423652 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
423576 CTTCCACTGT
*
423586 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
423619 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
423652 T
1 T
423653 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:426764 original size:3 final size:3
Alignment explanation
Indices: 426749--426789 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
426739 AACCATCAAA
* *
426749 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
426790 AGTTGACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:429258 original size:430 final size:428
Alignment explanation
Indices: 428454--429304 Score: 1612
Period size: 430 Copynumber: 2.0 Consensus size: 428
428444 CAACTAGTTC
* *
428454 ACATTAACTTATTTGGTCCAAGTAGAACGCAAAATCTAGGTGGTAAAAGTTACGGATTTGTTATT
1 ACATTAACTTATTTGGTCCAAGTAGAACGCAAAATCTAGGTGGTAAAAGATACAGATTTGTTATT
428519 GTGGATGATTATTCTAGATATACTTGGGTTTTATTCTTAAGCACCAAAGACGAAGCTTTCGAAAA
66 GTGGATGATTATTCTAGATATACTTGGGTTTTATTCTTAAGCACCAAAGACGAAGCTTTCGAAAA
428584 ATTCATCACTTTTTGTAAAATTGTTTAAAATGAAAAATGTTACTCCTTATCTAGCATAAGAAGTG
131 ATTCATCACTTTTTGTAAAATTGTTTAAAATGAAAAATGTTACTCCTTATCTAGCATAAGAAGTG
*
428649 ACCATGGTAGAGAATTGGAGAATCTTGGTTTTAGCCATAATTTCTCAGCTCCTAGAACTCCTCAA
196 ACCATGGTAGAGAATTGGAGAATCTTGGTTTTAGCCATAATTTCTAAGCTCCTAGAACTCCTCAA
428714 CAAAATGGAACTATTGAAAGGGAAAATGGAACTTTGGAAGAAATTGCTAGAACTATGCCTTGTAA
261 CAAAATGGAACTATTGAAAGGGAAAATGGAACTTTGGAAGAAATTGCTAGAACTATGCCTTGTAA
*
428779 AAATAGTTTACCAAGAAATTTTTGGGCGGAAATCATTAATACTGCATGCTATATTATAAATCGAG
326 AAATAGTTTACCAAGAAATTTTTGGGCGGAAATCATTAATACCGCATGCTATATTATAAATCGAG
428844 CTATGATTAGGTCAATTTTTTAAAGAAAACTCCGCATGCT
391 CTATGATTAGGTCAA--TTTTAAAGAAAACTCCGCATGCT
428884 ACATTAACTTATTTGGTCCAAGTAGAACGCAAAATCTAGGTGGTAAAAGATACAGATTTGTTATT
1 ACATTAACTTATTTGGTCCAAGTAGAACGCAAAATCTAGGTGGTAAAAGATACAGATTTGTTATT
428949 GTGGATGATTATTCTAGATATACTTGGGTTTTATTCTTAAGCACCAAAGACGAAGCTTTCGAAAA
66 GTGGATGATTATTCTAGATATACTTGGGTTTTATTCTTAAGCACCAAAGACGAAGCTTTCGAAAA
*
429014 ATTCATCACTTTTTGTAAAATTGTTTAAAATGAAAAATGTTACTTCTTATCTAGCATAAGAAGTG
131 ATTCATCACTTTTTGTAAAATTGTTTAAAATGAAAAATGTTACTCCTTATCTAGCATAAGAAGTG
429079 ACCATGGTAGAGAATTGGAGAATCTTGGTTTTAGCCATAATTTCTAAGCTCCTAGAACTCCTCAA
196 ACCATGGTAGAGAATTGGAGAATCTTGGTTTTAGCCATAATTTCTAAGCTCCTAGAACTCCTCAA
* *
429144 CAAAATGGAACTGTTGAAAGGGAAAATGGAACTTTGGAAGAAATTGCTAGAACTATGCTTTGTAA
261 CAAAATGGAACTATTGAAAGGGAAAATGGAACTTTGGAAGAAATTGCTAGAACTATGCCTTGTAA
*
429209 AAATAGTTTACCAAGAAATTTTTGGGCGGAAGTCATTAATACCGCATGCTATATTATAAATCGAG
326 AAATAGTTTACCAAGAAATTTTTGGGCGGAAATCATTAATACCGCATGCTATATTATAAATCGAG
429274 CTATGATTAGGTCAATTTTAAAGAAAACTCC
391 CTATGATTAGGTCAATTTTAAAGAAAACTCC
429305 ATATGATTTT
Statistics
Matches: 413, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
428 16 0.04
430 397 0.96
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (428 bp):
ACATTAACTTATTTGGTCCAAGTAGAACGCAAAATCTAGGTGGTAAAAGATACAGATTTGTTATT
GTGGATGATTATTCTAGATATACTTGGGTTTTATTCTTAAGCACCAAAGACGAAGCTTTCGAAAA
ATTCATCACTTTTTGTAAAATTGTTTAAAATGAAAAATGTTACTCCTTATCTAGCATAAGAAGTG
ACCATGGTAGAGAATTGGAGAATCTTGGTTTTAGCCATAATTTCTAAGCTCCTAGAACTCCTCAA
CAAAATGGAACTATTGAAAGGGAAAATGGAACTTTGGAAGAAATTGCTAGAACTATGCCTTGTAA
AAATAGTTTACCAAGAAATTTTTGGGCGGAAATCATTAATACCGCATGCTATATTATAAATCGAG
CTATGATTAGGTCAATTTTAAAGAAAACTCCGCATGCT
Found at i:434348 original size:13 final size:13
Alignment explanation
Indices: 434330--434373 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
434320 TGATACATGG
434330 TACATTGTATCGA
1 TACATTGTATCGA
434343 TACATTGTATCGA
1 TACATTGTATCGA
*
434356 TACATTTTATCGA
1 TACATTGTATCGA
434369 TACAT
1 TACAT
434374 AATGAAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:435436 original size:79 final size:79
Alignment explanation
Indices: 435363--435530 Score: 198
Period size: 79 Copynumber: 2.1 Consensus size: 79
435353 TTTGGGGATA
*
435363 AAAAT-GGGGTCGAAGTACC-C-TCTAAGAAATAATGGGATTGGAGTATCCCCAATGGTGAAAAA
1 AAAATCGGGGTCGAAGTACCTCTTC-AA-AAATAACGGGATTGGAGTATCCCCAATGGTGAAAAA
435425 TCGATGTTTTGGAAAT
64 TCGATGTTTTGGAAAT
* * * * * * * *
435441 AGAATCGGGGTTGGAGTATCTCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAGATC
1 AAAATCGGGGTCGAAGTACCTCTTCAAAAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATC
*
435506 GATGTTTTGAAAAT
66 GATGTTTTGGAAAT
*
435520 AAAATCTGGGT
1 AAAATCGGGGT
435531 TGGAGTATCC
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 4 0.05
79 66 0.88
80 3 0.04
81 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (79 bp):
AAAATCGGGGTCGAAGTACCTCTTCAAAAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATC
GATGTTTTGGAAAT
Found at i:435531 original size:79 final size:79
Alignment explanation
Indices: 435389--435539 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 79
435379 ACCCTCTAAG
* * *
435389 AAATAATGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAGAATCGGGGTTG
1 AAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATCGGGGTTG
435454 GAGTATCTCTTCAA
66 GAGTATCTCTTCAA
* * * * *
435468 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAGATCGATGTTTTGAAAATAAAATCTGGGTTG
1 AAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATCGGGGTTG
435533 GAGTATC
66 GAGTATC
435540 CCCGATTATG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (79 bp):
AAATAACGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATCGGGGTTG
GAGTATCTCTTCAA
Found at i:435540 original size:51 final size:51
Alignment explanation
Indices: 435475--435590 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
435465 CAAAAATAAC
* *
435475 GGGGTTGGAGTATCCCCGATTGT-GAAAGATC-GATGTTTTGAAAATAAAATCT
1 GGGGTTGGAGTATCCCCGATTATGGAAA-ATCAG-TATTTTGAAAATAAAA-CT
435527 -GGGTTGGAGTATCCCCGATTATGGAAAATCAGTATTTTGAAAATAAAACT
1 GGGGTTGGAGTATCCCCGATTATGGAAAATCAGTATTTTGAAAATAAAACT
435577 GGGGTTGGAGTATC
1 GGGGTTGGAGTATC
435591 TCCTCGAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
50 2 0.03
51 52 0.88
52 5 0.08
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGGAAAATCAGTATTTTGAAAATAAAACT
Found at i:435571 original size:130 final size:130
Alignment explanation
Indices: 435395--435672 Score: 319
Period size: 130 Copynumber: 2.1 Consensus size: 130
435385 TAAGAAATAA
* * * *
435395 TGGGATTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAGAA-TCGGGGTTGGAGTA
1 TGGG-TTGGAGTATCCCCAATGATGAAAAATCGATATTTTGAAAATAAAACT-GGGGTTGGAGTA
* * * * *
435459 TCTCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAGATCGATGTTTTGAAAATAAA
64 TCTCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGGAAA-ATCGATATTTTGAAAATAAA
*
435523 ATC
128 ACC
* * *
435526 TGGGTTGGAGTATCCCCGATTATGGAAAATC-AGTATTTTGAAAATAAAACTGGGGTTGGAGTAT
1 TGGGTTGGAGTATCCCCAATGATGAAAAATCGA-TATTTTGAAAATAAAACTGGGGTTGGAGTAT
* * * * * *
435590 CTCCTCGAAAATAATGAGGTTGGAGTATCCCCAATTATGGAAAATTGGTATTTTGGAAATAGAAC
65 CTCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGGAAAATCGATATTTTGAAAATAAAAC
435655 C
130 C
*
435656 GGGGTTGGAGTATCCCC
1 TGGGTTGGAGTATCCCC
435673 TCGAAAATAA
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
129 1 0.01
130 114 0.92
131 9 0.07
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (130 bp):
TGGGTTGGAGTATCCCCAATGATGAAAAATCGATATTTTGAAAATAAAACTGGGGTTGGAGTATC
TCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGGAAAATCGATATTTTGAAAATAAAACC
Found at i:435840 original size:79 final size:79
Alignment explanation
Indices: 435527--435837 Score: 388
Period size: 79 Copynumber: 3.9 Consensus size: 79
435517 AATAAAATCT
* * *
435527 GGGTTGGAGTATCCCCGATTATGGAAAATCAGTATTTTGAAAATAAAACTGGGGTTGGAGTATCT
1 GGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCC
435592 CCTCGAAAATAATG
66 CCTCGAAAATAATG
* * * * *
435606 AGGTTGGAGTATCCCCAATTATGGAAAATTGGTATTTTGGAAATAGAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCC
435671 CCTCGAAAATAATG
66 CCTCGAAAATAATG
* * * * ** *
435685 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAACCAAGGTTGAAGTATCC
1 GGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCC
* *
435750 CCTCGGAAATAACG
66 CCTCGAAAATAATG
* * * * * * * *
435764 GGGTTAGAGTATCCCTGATTATGGGAAACCGGTGTTTTGGAAATAAAATCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCC
435829 CCTCAGAAA
66 CCTC-GAAA
435838 TAAAAACATA
Statistics
Matches: 197, Mismatches: 34, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
79 194 0.98
80 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTATGGAAAATCGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAATG
Found at i:438099 original size:30 final size:30
Alignment explanation
Indices: 438063--438136 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
438053 TACATTAAGA
* *
438063 AATGTATCAATACATCTGGGTAAAACCCAG
1 AATGTATCGATACATCTAGGTAAAACCCAG
*
438093 AATGTATCGATACATCTAGGTAAAACCTAG
1 AATGTATCGATACATCTAGGTAAAACCCAG
438123 AATGTATCGATACA
1 AATGTATCGATACA
438137 ATGAAGAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (30 bp):
AATGTATCGATACATCTAGGTAAAACCCAG
Found at i:438743 original size:19 final size:19
Alignment explanation
Indices: 438719--438760 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
438709 TTTCCAGATC
438719 TATCGATACAAAAAAATTG
1 TATCGATACAAAAAAATTG
**
438738 TATCGATACATTAAAATTG
1 TATCGATACAAAAAAATTG
438757 TATC
1 TATC
438761 AATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
TATCGATACAAAAAAATTG
Found at i:441236 original size:13 final size:13
Alignment explanation
Indices: 441211--441245 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
441201 AGTGCCTTTA
*
441211 TATCGATATAATG
1 TATCGATACAATG
*
441224 TATTGATACAATG
1 TATCGATACAATG
441237 TATCGATAC
1 TATCGATAC
441246 TAAGATCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:443358 original size:12 final size:12
Alignment explanation
Indices: 443321--443359 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
443311 TCTGAGTCAA
443321 CTTCATCATCAT
1 CTTCATCATCAT
* *
443333 CATCATCACCAT
1 CTTCATCATCAT
*
443345 CTTCTTCATCAT
1 CTTCATCATCAT
443357 CTT
1 CTT
443360 TGATGGTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (12 bp):
CTTCATCATCAT
Found at i:444668 original size:31 final size:32
Alignment explanation
Indices: 444626--444689 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
444616 AAGAAAAAGC
*
444626 ACAAAGGAATACAAATGAGCTTTGAAAGAATA
1 ACAAAGGAATACAAAAGAGCTTTGAAAGAATA
** *
444658 ACAAA-GAATACAAAAGCTCTTTGAAATAATA
1 ACAAAGGAATACAAAAGAGCTTTGAAAGAATA
444689 A
1 A
444690 AACTTGAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (32 bp):
ACAAAGGAATACAAAAGAGCTTTGAAAGAATA
Found at i:450405 original size:48 final size:48
Alignment explanation
Indices: 450334--450430 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
450324 CTTGATAGAC
* *
450334 TAAATAATGTATCTCTTAAATCTTCGTACTTAATTATGGTTGTTATTA
1 TAAATAATGTATCTCTTAAATCTTCATACTTAATTATGGTTATTATTA
450382 TAAATAATGTATCTCTTAAATCTTCATACTTAATTATGGTTATTATTA
1 TAAATAATGTATCTCTTAAATCTTCATACTTAATTATGGTTATTATTA
450430 T
1 T
450431 GTATAGTAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (48 bp):
TAAATAATGTATCTCTTAAATCTTCATACTTAATTATGGTTATTATTA
Found at i:451893 original size:33 final size:33
Alignment explanation
Indices: 451855--451918 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
451845 ATTACAAGCT
*
451855 ATGTATCGATACATT-TCCTCATGTATCGATACA
1 ATGTATCGATACATTGTAC-CATGTATCGATACA
*
451888 ATGTATCGATATATTGTACCATGTATCGATA
1 ATGTATCGATACATTGTACCATGTATCGATA
451919 TAAATAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:451995 original size:19 final size:20
Alignment explanation
Indices: 451950--452001 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
451940 CTGCCAGTTT
**
451950 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
451971 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
451990 CATGTATCGATA
1 CATGTATCGATA
452002 TAATATATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
21 15 0.52
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:452630 original size:19 final size:18
Alignment explanation
Indices: 452558--452630 Score: 51
Period size: 19 Copynumber: 3.9 Consensus size: 18
452548 TCATTTTTCT
*
452558 CCCCTTAAAAAAT-TCTC
1 CCCCTTAAAAATTATCTC
*
452575 CCCCTTAAACGATTATCTC
1 CCCCTTAAA-AATTATCTC
* * *
452594 CTTCTTTATAAAA-AATCTC
1 C-CCCTTA-AAAATTATCTC
452613 CCCCTTAAACAATTATCT
1 CCCCTTAAA-AATTATCT
452631 TCTCCCCCTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
17 11 0.27
18 8 0.20
19 15 0.37
20 5 0.12
21 2 0.05
ACGTcount: A:0.33, C:0.32, G:0.01, T:0.34
Consensus pattern (18 bp):
CCCCTTAAAAATTATCTC
Found at i:454727 original size:22 final size:21
Alignment explanation
Indices: 454702--454763 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 21
454692 AATTTTGAAT
* *
454702 TTCAATAATTTGTATTGATACA
1 TTCAATAA-ATGTATCGATACA
*
454724 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
454745 -T-AAGT-AATGTATCGATACA
1 TTCAA-TAAATGTATCGATACA
454764 GTGTATCGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 15 0.43
20 2 0.06
21 11 0.31
22 7 0.20
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:454755 original size:19 final size:21
Alignment explanation
Indices: 454712--454763 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
454702 TTCAATAATT
* *
454712 TGTATTGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
454733 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
454752 TGTATCGATACA
1 TGTATCGATACA
454764 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
20 4 0.14
21 11 0.38
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:457294 original size:51 final size:51
Alignment explanation
Indices: 457214--457382 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 51
457204 ATTTTTCATC
* * * *
457214 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAA-TTTCTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTTC-CATAA
* *
457265 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
* * * *
457316 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAGCACTGACTTTT-CACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CAATTTTCCATAA
*
457367 TCGGGGATATTCCAAC
1 TCGGGGATACTCCAAC
457383 CCCATTATTT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
51 93 0.91
52 9 0.09
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
Found at i:457409 original size:79 final size:77
Alignment explanation
Indices: 457318--457615 Score: 283
Period size: 79 Copynumber: 3.8 Consensus size: 77
457308 TTCCATAATC
* * * * * *
457318 GGGGATACTCCAACTCCGATTTTATTTCCAAAGCACTGACTTTTCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAAC-CCGATTTTATTTCTAAAACA-TAAATTTTCATAATCGGGGATACTCCAAC
457383 CCCATTATTTTTGA
64 CCCATTATTTTTGA
* * ** * *
457397 GGGGACACTCCAACCCTGGTTTTATTTCTAAATTATTAATTTCTCATAATCGGAGATACTCCAAC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAACATAAATTT-TCATAATCGGGGATACTCCAAC
**
457462 CCCATTATTTCCGA
64 CCCATTATTTTTGA
* * * *
457476 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCGTAATTGGGGATACTCCAA-
1 GGGGATACTCCAACCCGA-TTTTATTTCTAAAACAT-AAATTTTCATAATCGGGGATACTCCAAC
457540 CCCAGTTATTTTTGA
64 CCCA-TTATTTTTGA
* ** * * * *
457555 GGGAATACTCCAACCCCGGCTTTGTTTCTAAAATACCAATTTTTCATAATCGGGGATACTC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACA-TAAATTTTCATAATCGGGGATACTC
457616 TAACTCCGAT
Statistics
Matches: 179, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
78 11 0.06
79 161 0.90
80 7 0.04
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (77 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACATAAATTTTCATAATCGGGGATACTCCAACCC
CATTATTTTTGA
Found at i:457667 original size:130 final size:129
Alignment explanation
Indices: 457476--457760 Score: 340
Period size: 130 Copynumber: 2.2 Consensus size: 129
457466 TTATTTCCGA
* * * * * * ** *
457476 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCGTAATTGGGGATACTCCAAC
1 GGGGATACTCTAACCCGA-TTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
* * *
457541 CCAGTTATTTT-TGAGGGAATACTCCAACCCCGGCTTTGTTTCTAAAATACCAA-TTTTTCATAA
65 CCAGTTATTTTATG-GGG-ATACTCCAACCCCGGCCTTATTTCTAAAACACCAATTTTTTCATAA
457604 TC
128 TC
457606 GGGGATACTCTAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCTAAC-CCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
* * ** * *
457671 CCCGTTCTTTTCATGGGGATACTCCAACCTTGGCCTTATTTCTAAAGCATCAATTTTTTCATAAT
65 CCAGTTATTTT-ATGGGGATACTCCAACCCCGGCCTTATTTCTAAAACACCAATTTTTTCATAAT
457736 C
129 C
457737 GGGGATACTCTAACCCCGATTTTA
1 GGGGATACTCTAA-CCCGATTTTA
457761 TTTTTTAGAA
Statistics
Matches: 132, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
130 89 0.67
131 40 0.30
132 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (129 bp):
GGGGATACTCTAACCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACC
CAGTTATTTTATGGGGATACTCCAACCCCGGCCTTATTTCTAAAACACCAATTTTTTCATAATC
Found at i:459884 original size:4 final size:4
Alignment explanation
Indices: 459875--459903 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
459865 TATTTTGAGG
459875 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
459904 GTTTTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:460533 original size:51 final size:51
Alignment explanation
Indices: 460471--460589 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
460461 TATTTTCGAA
* * *
460471 GGGATACTCCAACCCCGACTTT-GTTTCTAAAATACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGACTTTAG-TTCCAAAACACCAATTTCTCACAATCG
* * *
460522 GGGAAACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCG
1 GGGATACTCCAACCCCGACTTTAGTTCCAAAACACCAATTTCTCACAATCG
*
460573 GGGATATTCCAACCCCG
1 GGGATACTCCAACCCCG
460590 TTATTTTCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (51 bp):
GGGATACTCCAACCCCGACTTTAGTTCCAAAACACCAATTTCTCACAATCG
Found at i:460604 original size:79 final size:80
Alignment explanation
Indices: 460521--460669 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
460511 TTTCACAATC
* * *
460521 GGGGAAACTCCAACTCCGATTTTAGTTCCAAAACACCAA-TTTCTCACAATCGGGGATATTCCAA
1 GGGGAAACTCCAACCCCGATCTTAGTTCCAAAACACCAATTTTCTCACAATCGGGGATACTCCAA
460585 CCCCGTTATTTTCAT
66 CCCCGTTATTTTCAT
* * * * * * * * *
460600 GGGGATACTCCAACCCCGGTCTTATTTCTAAAGCATCAATTTTTTCATAATCGGGGATACTCTAA
1 GGGGAAACTCCAACCCCGATCTTAGTTCCAAAACACCAATTTTCTCACAATCGGGGATACTCCAA
460665 CCCCG
66 CCCCG
460670 ATTTTATTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
79 31 0.54
80 26 0.46
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (80 bp):
GGGGAAACTCCAACCCCGATCTTAGTTCCAAAACACCAATTTTCTCACAATCGGGGATACTCCAA
CCCCGTTATTTTCAT
Found at i:460643 original size:130 final size:131
Alignment explanation
Indices: 460401--460675 Score: 322
Period size: 130 Copynumber: 2.1 Consensus size: 131
460391 CTACATTACT
* * * * * * ** *
460401 CAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATTTGGGATACTCCAACCCTATTATTT
1 CAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTT
* *
460466 TCGAAGGGATACTCCAACCCCGACTTTGTTTCTAAAATACCAA-TTTTTCACAATCGGGGAAACT
66 TCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTTTTCACAATCGGGGAAACT
460530 C
131 C
* * *
460531 CAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATATTCCAACCCCGTTATTT
1 CAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTT
* * * * * *
460596 TC-ATGGGGATACTCCAACCCCG-GTCTTATTTCTAAAGCATCAATTTTTTCATAATCGGGGATA
66 TCGA-AGGGATACTCCAACCCCGACT-TTATTTCTAAAACACCAATTTTTTCACAATCGGGGAAA
460659 CTC
129 CTC
*
460662 TAACCCCGATTTTA
1 CAACCCCGATTTTA
460676 TTTTTTAGAA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
129 2 0.02
130 86 0.72
131 32 0.27
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (131 bp):
CAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTT
TCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTTTTCACAATCGGGGAAACT
C
Found at i:460667 original size:52 final size:52
Alignment explanation
Indices: 460600--460721 Score: 140
Period size: 52 Copynumber: 2.3 Consensus size: 52
460590 TTATTTTCAT
* * * *
460600 GGGGATACTCCAACCCCGGTCTTA-TTTCTA-AAGCATCAATTTTTTCATAATC
1 GGGGATACTCTAACCCCGATCTTATTTTCTAGAA-CACCAA-TTTTCCATAATC
* * *
460652 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGATTTTCCATAATC
1 GGGGATACTCTAACCCCGATCTTATTTTCTAGAACACCAATTTTCCATAATC
*
460704 GGGGATACTCTAGCCCCG
1 GGGGATACTCTAACCCCG
460722 TTGTCATCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 49 0.82
53 9 0.15
54 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATCTTATTTTCTAGAACACCAATTTTCCATAATC
Found at i:467988 original size:20 final size:19
Alignment explanation
Indices: 467944--467996 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
467934 ACAATTTGTC
*
467944 CATGTATCGATACAATGAA
1 CATGTATCGATACAAAGAA
* *
467963 CATGTATCAATACAAAGCAG
1 CATGTATCGATACAAAG-AA
467983 CATGTATCGATACA
1 CATGTATCGATACA
467997 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:474605 original size:14 final size:14
Alignment explanation
Indices: 474588--474631 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
474578 TTCTAATTAT
474588 AATTTAATAATAAA
1 AATTTAATAATAAA
* * *
474602 AATTT-TTTATATA
1 AATTTAATAATAAA
474615 AATTTAATAATAAA
1 AATTTAATAATAAA
474629 AAT
1 AAT
474632 ATATAAATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTAATAATAAA
Found at i:476134 original size:20 final size:21
Alignment explanation
Indices: 476111--476155 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
476101 AACTCTTTAA
*
476111 TTTTTTTC-TTTACTTTT-TC
1 TTTTTTTCTTTTAATTTTATC
476130 TTTTTTTCTTTTAATTTTATC
1 TTTTTTTCTTTTAATTTTATC
476151 TTTTT
1 TTTTT
476156 ATGAATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTAATTTTATC
Found at i:476392 original size:18 final size:18
Alignment explanation
Indices: 476341--476394 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
476331 ATGTAAATTT
* * *
476341 ATAATTTATATTTTATAA
1 ATAATTTAAATTATAAAA
*
476359 ATTATTTAATATTTATAAAA
1 ATAATTTAA-A-TTATAAAA
476379 ATAATTTAAATTATAA
1 ATAATTTAAATTATAA
476395 TATAAATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 13 0.45
19 2 0.07
20 14 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTTAAATTATAAAA
Found at i:480740 original size:29 final size:30
Alignment explanation
Indices: 480685--480750 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
480675 TAAATAAATG
* * *
480685 AAAATAATCATTATTATTTATTATATT-TT
1 AAAATAATCATTATAAATAATTATATTATT
* *
480714 AAAATTATCATTATAAATAATTTTATTATT
1 AAAATAATCATTATAAATAATTATATTATT
480744 AATAATA
1 AA-AATA
480751 TTTATCTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 22 0.76
30 4 0.14
31 3 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATAATCATTATAAATAATTATATTATT
Found at i:480747 original size:15 final size:16
Alignment explanation
Indices: 480723--480760 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
480713 TAAAATTATC
*
480723 ATTATAAATAAT-TTT
1 ATTATTAATAATATTT
480738 ATTATTAATAATATTT
1 ATTATTAATAATATTT
480754 ATCTATT
1 AT-TATT
480761 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 5 0.25
17 4 0.20
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATTAATAATATTT
Found at i:483100 original size:21 final size:21
Alignment explanation
Indices: 483076--483117 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
483066 GCTACCTTAC
483076 TACTGTTTGTATCGATACATA
1 TACTGTTTGTATCGATACATA
483097 TACTGTTTGTATCGATACATA
1 TACTGTTTGTATCGATACATA
483118 AAGAATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
TACTGTTTGTATCGATACATA
Found at i:484076 original size:27 final size:28
Alignment explanation
Indices: 484046--484122 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
484036 TACTCTTCTA
484046 AAGTCCACAACTCTGTGGCACCC-TTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTT
**
484073 AAGTTTACAACT-TCGTGGCACCCTTTTT
1 AAGTCCACAACTCT-GTGGCACCCTTTTT
* *
484101 AAGTCCACAAGTCGGTGGCACC
1 AAGTCCACAACTCTGTGGCACC
484123 ATTTCAAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 1 0.02
27 19 0.46
28 21 0.51
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (28 bp):
AAGTCCACAACTCTGTGGCACCCTTTTT
Found at i:484192 original size:32 final size:32
Alignment explanation
Indices: 484106--484890 Score: 724
Period size: 32 Copynumber: 25.8 Consensus size: 32
484096 TTTTTAAGTC
484106 CACAAGTCGGTGGC-A-CCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
484136 CACAAGTCGATGGC-A-CCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
484166 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
484198 CACAAGTCGGTGGCAACCTATTTCATAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
484230 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
484262 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
484294 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
484326 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
484354 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * **
484382 CACGAGTCAGTGGC-ACCTTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
484411 CATGAGTCAGTGGC-ACTC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
484439 CACAAGTTAGTGGC-ATCC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * * *
484469 CGCAAGTCAGTGG-TACCC-TTTTAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
484499 CGCAAGTCAGTGGCATA---TTTTC-AAG-CC-
1 CACAAGTCGGTGGCA-ACCCATTTCAAAGCCCA
* * *
484526 CACGAGTCAGTGGC-ACTC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
484554 CACAAGTCAGTGGC-ATCC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
484584 TGCAAGTTAGTGGC-A-CCATTTCAAAG--CT
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
484612 CACAAGTCAATGGC--GCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
484642 CACAAGTCGGTGGC-A-CCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
484672 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
484704 CACAAGTCGGTGGTAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
484736 CACAAGTCGGTGGCAATCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
484768 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
484800 CACAAGTTGATGGGAACCTC-TTTCAAAAGTCCA
1 CACAAGTCGGTGGCAACC-CATTTC-AAAGCCCA
** * *
484833 CAC-TTTCGGTGGCAACCCTTTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * **
484864 CGCAAGTCAGTGGCAACCTTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
484891 TCACCATTTT
Statistics
Matches: 659, Mismatches: 70, Indels: 50
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.00
27 16 0.02
28 123 0.19
29 36 0.05
30 152 0.23
31 15 0.02
32 305 0.46
33 11 0.02
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:484489 original size:115 final size:120
Alignment explanation
Indices: 484106--484806 Score: 668
Period size: 115 Copynumber: 5.8 Consensus size: 120
484096 TTTTTAAGTC
* *
484106 CACAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTC-GATGGCACC-ATTTCAAAGCCCACAC
1 CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAG-TGGCACCTATTTCAAAGCCCACAC
* * * *
484169 AAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTATTTCATAGCCCA
63 AAGTCAGTGGC-ACTCATTTCAAAGCCCACACAAGTCGGTGGCATCC--TTTCAAAGCCCA
* * *
484230 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCTATTTCAAAGCCCAC
* * * *
484295 ACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTCAAAG-CC-
61 ACAAGTCAGTGGC-ACTCATTTCAAAGCCCACACAAGTCGGTGGCATCCTTTCAAAGCCCA
* * * **
484354 CACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAG-CC-CATGAG
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTATTTCAAAGCCCACACAAG
**
484417 TCAGTGGCACTC-TTTCAAAG-CC-CACAAGTTAGTGGCATCCTTTCAAAGCCCA
66 TCAGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCATCCTTTCAAAGCCCA
* * * *
484469 CGCAAGTCAGTGGTACCCTTTTAAAGCCTACGCAAGTCAGTGGCA--TATTTTC-AAG-CC-CAC
1 CACAAGTCAGTGGCACCCTTTCAAAGCC--CACAAGTCAGTGGCACCTA-TTTCAAAGCCCACAC
* *
484529 GAGTCAGTGGCACTC-TTTCAAAG-CC-CACAAGTCAGTGGCATCCTTTCAAAGCCCA
63 AAGTCAGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCATCCTTTCAAAGCCCA
** * * * * *
484584 TGCAAGTTAGTGGCACCATTTCAAAGCTCACAAGTCAATGGCGCC-ATTTCAAAGCCCACACAAG
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTATTTCAAAGCCCACACAAG
* *
484648 TCGGTGGCAC-CATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 TCAGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGC-ATCC-TTTCAAAGCCCA
* * * *
484704 CACAAGTCGGTGGTAACCTATTTCAAAGCCCACACAAGTCGGTGGCAATCC-ATTTCAAAGCCCA
1 CACAAGTCAGTGG-CACC-CTTTCAAAG-CC-CACAAGTCAGTGGC-A-CCTATTTCAAAGCCCA
* * *
484768 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGT
60 CACAAGTCAGTGGC-ACTCATTTCAAAGCCCACACAAGT
484807 TGATGGGAAC
Statistics
Matches: 501, Mismatches: 48, Indels: 52
0.83 0.08 0.09
Matches are distributed among these distances:
113 41 0.08
114 8 0.02
115 119 0.24
116 29 0.06
117 26 0.05
118 15 0.03
119 14 0.03
120 33 0.07
121 5 0.01
122 17 0.03
123 4 0.01
124 39 0.08
125 5 0.01
126 60 0.12
127 6 0.01
128 80 0.16
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (120 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTATTTCAAAGCCCACACAAG
TCAGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCATCCTTTCAAAGCCCA
Found at i:486121 original size:20 final size:20
Alignment explanation
Indices: 486093--486130 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
486083 AAAAGTTAGT
486093 TAAAAAAGAAAGAAAGAAGA
1 TAAAAAAGAAAGAAAGAAGA
*
486113 TAAAGAAGAAAGAAAGAA
1 TAAAAAAGAAAGAAAGAA
486131 AAGGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (20 bp):
TAAAAAAGAAAGAAAGAAGA
Found at i:488918 original size:13 final size:13
Alignment explanation
Indices: 488878--488930 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
488868 CCGTTACAAG
488878 CAATGTATCGATA
1 CAATGTATCGATA
488891 CAA--T-TC-AT-
1 CAATGTATCGATA
488899 C-ATGTATCGATA
1 CAATGTATCGATA
488911 CAATGTATCGATA
1 CAATGTATCGATA
488924 CAATGTA
1 CAATGTA
488931 CCATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:488918 original size:33 final size:33
Alignment explanation
Indices: 488878--488943 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
488868 CCGTTACAAG
*
488878 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
488911 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
488944 TAAACAGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:489019 original size:19 final size:19
Alignment explanation
Indices: 488975--489047 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
488965 CTGCTAGTTT
**
488975 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
488995 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
489014 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
489035 -ATGTATCGATACA
1 CATGTATCGATACA
489048 TTCAAGGGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:489638 original size:29 final size:29
Alignment explanation
Indices: 489605--489664 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
489595 AAAAAAAAAT
489605 TTCTCCCCCTTAATCAAAGCAAAAATTTA
1 TTCTCCCCCTTAATCAAAGCAAAAATTTA
489634 TTCTCCCCCTTAATCAAAGCAAAAATTTA
1 TTCTCCCCCTTAATCAAAGCAAAAATTTA
489663 TT
1 TT
489665 TTATTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (29 bp):
TTCTCCCCCTTAATCAAAGCAAAAATTTA
Found at i:491511 original size:13 final size:13
Alignment explanation
Indices: 491493--491518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
491483 CAATTTTTTG
491493 TGTATCGATACAT
1 TGTATCGATACAT
491506 TGTATCGATACAT
1 TGTATCGATACAT
491519 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:491583 original size:21 final size:21
Alignment explanation
Indices: 491557--491632 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
491547 CTGCCAAGAA
491557 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
491578 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
491598 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
491619 ATGTATCGATACAT
1 ATGTATCGATACAT
491633 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:491603 original size:20 final size:20
Alignment explanation
Indices: 491578--491650 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
491568 CATCTTTTTT
491578 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
491598 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
491619 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
491639 ATGTATCGATAC
1 ATGTATCGATAC
491651 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:491614 original size:41 final size:41
Alignment explanation
Indices: 491557--491650 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
491547 CTGCCAAGAA
491557 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
491598 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
491639 ATGTATCGATAC
1 ATGTATCGATAC
491651 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:492214 original size:60 final size:60
Alignment explanation
Indices: 492121--492242 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
492111 ACTTCCATAG
492121 CCTCAAGAAACATATTAGTAGATTTCAAAAGTCAAAATTTTACATTTTTCCTTTATTTTT
1 CCTCAAGAAACATATTAGTAGATTTCAAAAGTCAAAATTTTACATTTTTCCTTTATTTTT
492181 CCTCAAGAAACATATTAGTAGATTTCAAAAGTCAAAATTTTACATTTTTCCTTTATTTTT
1 CCTCAAGAAACATATTAGTAGATTTCAAAAGTCAAAATTTTACATTTTTCCTTTATTTTT
492241 CC
1 CC
492243 CTTAAAAGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (60 bp):
CCTCAAGAAACATATTAGTAGATTTCAAAAGTCAAAATTTTACATTTTTCCTTTATTTTT
Found at i:494166 original size:13 final size:13
Alignment explanation
Indices: 494148--494186 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
494138 ATAATCACCC
*
494148 TGTATCGATACAG
1 TGTATCGATACAA
494161 TGTATCGATACAA
1 TGTATCGATACAA
494174 TGTATCGATACAA
1 TGTATCGATACAA
494187 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:494197 original size:20 final size:20
Alignment explanation
Indices: 494172--494250 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
494162 GTATCGATAC
494172 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
494192 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
494217 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
494237 CATGTATCGATACA
1 AATGTATCGATACA
494251 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:498352 original size:21 final size:22
Alignment explanation
Indices: 498310--498352 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
498300 TTTTCAATTT
* *
498310 ATTGTCTTCTTTTAGTTTAATG
1 ATTGTCTTCTTATAGCTTAATG
498332 ATTGTCTTCTTAT-GCTTAATG
1 ATTGTCTTCTTATAGCTTAATG
498353 TTCATGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (22 bp):
ATTGTCTTCTTATAGCTTAATG
Found at i:500376 original size:13 final size:13
Alignment explanation
Indices: 500358--500383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
500348 CAATTTTTTG
500358 TGTATCGATACAT
1 TGTATCGATACAT
500371 TGTATCGATACAT
1 TGTATCGATACAT
500384 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:500448 original size:21 final size:21
Alignment explanation
Indices: 500422--500497 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
500412 CTGCCAAGAA
500422 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
500443 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
500463 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
500484 ATGTATCGATACAT
1 ATGTATCGATACAT
500498 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:500468 original size:20 final size:20
Alignment explanation
Indices: 500443--500515 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
500433 CATCTTTTTT
500443 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
500463 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
500484 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
500504 ATGTATCGATAC
1 ATGTATCGATAC
500516 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:500479 original size:41 final size:41
Alignment explanation
Indices: 500422--500515 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
500412 CTGCCAAGAA
500422 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
500463 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
500504 ATGTATCGATAC
1 ATGTATCGATAC
500516 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:507801 original size:19 final size:20
Alignment explanation
Indices: 507758--507810 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
507748 TGGTAGTTTT
**
507758 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
507778 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
507797 ATGTATCGATACAA
1 ATGTATCGATACAA
507811 AGCATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:508851 original size:13 final size:13
Alignment explanation
Indices: 508829--508895 Score: 50
Period size: 13 Copynumber: 5.1 Consensus size: 13
508819 TAAAAATTTT
*
508829 AAATATTATATAA
1 AAATAATATATAA
508842 AAATAATATA-AA
1 AAATAATATATAA
508854 TATAA-AATGATATAA
1 -A-AATAAT-ATATAA
* *
508869 AAATTATGTAT-A
1 AAATAATATATAA
508881 AAATATATATATAA
1 AAATA-ATATATAA
508895 A
1 A
508896 TGTATCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
12 7 0.17
13 23 0.55
14 10 0.24
15 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAATAATATATAA
Found at i:508860 original size:16 final size:17
Alignment explanation
Indices: 508836--508869 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
508826 TTTAAATATT
508836 ATATAAAAATAATATAA
1 ATATAAAAATAATATAA
*
508853 ATAT-AAAATGATATAA
1 ATATAAAAATAATATAA
508869 A
1 A
508870 AATTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
ATATAAAAATAATATAA
Found at i:509763 original size:2 final size:2
Alignment explanation
Indices: 509756--509787 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
509746 AATTTGGGAG
*
509756 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
509788 TGCTATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:509888 original size:27 final size:28
Alignment explanation
Indices: 509856--509935 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 28
509846 TAGAAATTAT
509856 TTTTAAAT-TATTATATATTTATATAAA
1 TTTTAAATATATTATATATTTATATAAA
*
509883 TTTT-AATATATTAATTATTTTTATATAAA
1 TTTTAAATATATT-A-TATATTTATATAAA
509912 --TTAAATATATTTATATATTTATAT
1 TTTTAAATATA-TTATATATTTATAT
509936 TACATTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
26 3 0.07
27 20 0.43
28 8 0.17
29 15 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTAAATATATTATATATTTATATAAA
Found at i:509908 original size:17 final size:17
Alignment explanation
Indices: 509882--509982 Score: 55
Period size: 17 Copynumber: 5.8 Consensus size: 17
509872 ATTTATATAA
*
509882 ATTTTAATATATTAATT
1 ATTTTTATATATTAATT
*
509899 ATTTTTATATAAATTAAAT
1 ATTTTTATAT--ATTAATT
*
509918 ATATTTATATATTTATATT
1 ATTTTTATATA-TTA-ATT
** *
509937 A-CATTATAT-TT-TTT
1 ATTTTTATATATTAATT
* *
509951 ATTTTATTAAATTTTAATT
1 A-TTT-TTATATATTAATT
509970 ATTTTTATATATT
1 ATTTTTATATATT
509983 GTTTATTTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
14 3 0.05
16 2 0.03
17 22 0.35
18 14 0.23
19 21 0.34
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTATATATTAATT
Done.