Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 82 of 130
Found at i:16458900 original size:48 final size:48
Alignment explanation
Indices: 16458840--16458994 Score: 201
Period size: 48 Copynumber: 3.3 Consensus size: 48
16458830 CATTTATTGT
*
16458840 TTGTATGATTATTAATATATTTACTTACATGATTATTAATAAATTTAC
1 TTGTATGATTATTAATATATTTACTTACATGATTATTAATATATTTAC
* * * * *
16458888 TTGTAT-ACTTATTAATATATTTATTTATATTATTATTGATATATTTAT
1 TTGTATGA-TTATTAATATATTTACTTACATGATTATTAATATATTTAC
* *
16458936 TTGCATGATTATTAATATATTTTCTTACATGATTATTAATATATTTA-
1 TTGTATGATTATTAATATATTTACTTACATGATTATTAATATATTTAC
16458983 TT-TATG-TTATTA
1 TTGTATGATTATTA
16458995 TATGATATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
45 6 0.07
46 3 0.03
47 3 0.03
48 79 0.86
49 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (48 bp):
TTGTATGATTATTAATATATTTACTTACATGATTATTAATATATTTAC
Found at i:16458931 original size:72 final size:72
Alignment explanation
Indices: 16458847--16459003 Score: 217
Period size: 72 Copynumber: 2.2 Consensus size: 72
16458837 TGTTTGTATG
* **
16458847 ATTATTAATATATTTACTTACATGATTATTAATAAATTTACTTGTAT-ACTTATTAATATATTTA
1 ATTATTGATATATTTACTTACATGATTATTAATAAATTTACTTACATGA-TTATTAATATATTTA
16458911 TTTATATT
65 TTTATATT
* * * *
16458919 ATTATTGATATATTTATTTGCATGATTATTAATATATTTTCTTACATGATTATTAATATATTTAT
1 ATTATTGATATATTTACTTACATGATTATTAATAAATTTACTTACATGATTATTAATATATTTAT
*
16458984 TTATGTT
66 TTATATT
16458991 ATTATATGATATA
1 ATTAT-TGATATA
16459004 ATTTTATATT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
72 67 0.89
73 8 0.11
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (72 bp):
ATTATTGATATATTTACTTACATGATTATTAATAAATTTACTTACATGATTATTAATATATTTAT
TTATATT
Found at i:16459016 original size:24 final size:24
Alignment explanation
Indices: 16458989--16459036 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
16458979 TTTATTTATG
*
16458989 TTATTATATGATATAATTTTATAT
1 TTATTACATGATATAATTTTATAT
16459013 TTATTACATGATATAATTTTATAT
1 TTATTACATGATATAATTTTATAT
16459037 GATTGCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
TTATTACATGATATAATTTTATAT
Found at i:16459068 original size:18 final size:18
Alignment explanation
Indices: 16459012--16459069 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
16459002 TAATTTTATA
*
16459012 TTTATTACATGATATAAT
1 TTTATTACATGATATGAT
16459030 TTTA-T--ATGAT-TGCAT
1 TTTATTACATGATATG-AT
16459045 AATTTATTACATGATATGAT
1 --TTTATTACATGATATGAT
16459065 TTTAT
1 TTTAT
16459070 ATTTATTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 14
0.68 0.02 0.30
Matches are distributed among these distances:
14 1 0.03
15 7 0.22
17 5 0.16
18 10 0.31
20 7 0.22
21 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (18 bp):
TTTATTACATGATATGAT
Found at i:16465674 original size:48 final size:48
Alignment explanation
Indices: 16465612--16465746 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 48
16465602 TTCTAGATTT
*
16465612 ATTTAAAGTTTCAAGCCTTTGTTGAGAAAGAGCTTTCCTT-AATGAGA
1 ATTTAAAGTTTCAAGCCTTTATTGAGAAAGAGCTTTCCTTGAATGAGA
* * * * *
16465659 CTTTTAAAATTTCAAGCCTTTTATTAAGAAAGAG-TTTTCTTGGATGAGA
1 -ATTTAAAGTTTCAAGCC-TTTATTGAGAAAGAGCTTTCCTTGAATGAGA
* * *
16465708 ATTTAAAGTTTTAAACCTTTATTGAGAATGAGCTTTCCT
1 ATTTAAAGTTTCAAGCCTTTATTGAGAAAGAGCTTTCCT
16465747 AGACATGATT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
47 13 0.18
48 39 0.55
49 19 0.27
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (48 bp):
ATTTAAAGTTTCAAGCCTTTATTGAGAAAGAGCTTTCCTTGAATGAGA
Found at i:16466242 original size:14 final size:14
Alignment explanation
Indices: 16466223--16466249 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16466213 TTATTTGTAT
16466223 TTTAATTTTTTTAG
1 TTTAATTTTTTTAG
16466237 TTTAATTTTTTTA
1 TTTAATTTTTTTA
16466250 ATTTTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTAATTTTTTTAG
Found at i:16466383 original size:24 final size:24
Alignment explanation
Indices: 16466343--16466388 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16466333 TTGGTAGGAA
* *
16466343 ATCTTGGATTTACTTTTAGATTTG
1 ATCTTGGATTCAATTTTAGATTTG
*
16466367 ATCTTGGATTCAATTTTGGATT
1 ATCTTGGATTCAATTTTAGATT
16466389 CTAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (24 bp):
ATCTTGGATTCAATTTTAGATTTG
Found at i:16468212 original size:12 final size:12
Alignment explanation
Indices: 16468197--16468238 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
16468187 TATTTCATTT
16468197 ATTATTTGTATG
1 ATTATTTGTATG
*
16468209 ATTATTAGTAT-
1 ATTATTTGTATG
*
16468220 ATTTATTTGCATG
1 A-TTATTTGTATG
16468233 ATTATT
1 ATTATT
16468239 AATAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (12 bp):
ATTATTTGTATG
Found at i:16468225 original size:24 final size:24
Alignment explanation
Indices: 16468198--16468297 Score: 137
Period size: 24 Copynumber: 4.2 Consensus size: 24
16468188 ATTTCATTTA
* *
16468198 TTATTTGTATGATTATTAGTATAT
1 TTATTTGCATGATTATTAATATAT
*
16468222 TTATTTGCATGATTATTAATAAAT
1 TTATTTGCATGATTATTAATATAT
*
16468246 TTACTTGCATGATTATTAATATAT
1 TTATTTGCATGATTATTAATATAT
* * *
16468270 TTATTTGTATAATTATTAATCTAT
1 TTATTTGCATGATTATTAATATAT
16468294 TTAT
1 TTAT
16468298 CTGTGTTAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (24 bp):
TTATTTGCATGATTATTAATATAT
Found at i:16471257 original size:20 final size:20
Alignment explanation
Indices: 16471232--16471270 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16471222 CAATATATCC
*
16471232 ATCAATATCAAAGCATCATT
1 ATCAATATCAAAACATCATT
16471252 ATCAATATCAAAACATCAT
1 ATCAATATCAAAACATCAT
16471271 CAGATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCAATATCAAAACATCATT
Found at i:16471287 original size:18 final size:18
Alignment explanation
Indices: 16471264--16471301 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16471254 CAATATCAAA
*
16471264 ACATCATCAGATTTTCAT
1 ACATCATCAAATTTTCAT
16471282 ACATCATCAAATTTTCAT
1 ACATCATCAAATTTTCAT
16471300 AC
1 AC
16471302 CAATGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (18 bp):
ACATCATCAAATTTTCAT
Found at i:16479823 original size:22 final size:22
Alignment explanation
Indices: 16479798--16479839 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16479788 AATCCACGTC
16479798 AATTCAA-CTTCAATCAAACACA
1 AATTCAAGC-TCAATCAAACACA
*
16479820 AATTCAAGCTCAATCTAACA
1 AATTCAAGCTCAATCAAACA
16479840 TAATTAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (22 bp):
AATTCAAGCTCAATCAAACACA
Found at i:16480768 original size:22 final size:22
Alignment explanation
Indices: 16480736--16480792 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
16480726 ATTGAACATT
* *
16480736 TTAAAATCTACTACT-CTTAAAA
1 TTAAAAACTACT-CTACTAAAAA
*
16480758 TTAAAAACTACTCTAAGTAAAAA
1 TTAAAAACTACTCT-ACTAAAAA
16480781 TTAAAAACTACT
1 TTAAAAACTACT
16480793 TTTATCTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 11 0.37
23 17 0.57
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAAACTACTCTACTAAAAA
Found at i:16482130 original size:11 final size:11
Alignment explanation
Indices: 16482116--16482154 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
16482106 ATAAACATAT
16482116 AATAATAATAA
1 AATAATAATAA
16482127 AATAATAAT-A
1 AATAATAATAA
16482137 AATAAATAATAA
1 AAT-AATAATAA
*
16482149 ATTAAT
1 AATAAT
16482155 TTTAAATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 4 0.16
11 18 0.72
12 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAATAATAA
Found at i:16482131 original size:14 final size:14
Alignment explanation
Indices: 16482114--16482148 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16482104 AGATAAACAT
16482114 ATAATAAT-AATAAA
1 ATAATAATAAAT-AA
16482128 ATAATAATAAATAA
1 ATAATAATAAATAA
16482142 ATAATAA
1 ATAATAA
16482149 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATAATAAATAA
Found at i:16483474 original size:17 final size:17
Alignment explanation
Indices: 16483450--16483494 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16483440 GTATCATTTT
*
16483450 TAAAATTATCGTGATGA
1 TAAAATTATCATGATGA
* *
16483467 TTAAATTATTATGATGA
1 TAAAATTATCATGATGA
*
16483484 TAAAATCATCA
1 TAAAATTATCA
16483495 AAATAATTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (17 bp):
TAAAATTATCATGATGA
Found at i:16484085 original size:21 final size:22
Alignment explanation
Indices: 16484045--16484089 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
16484035 AACAAAATAA
16484045 TATAATTATTAAGTATAAATCAC
1 TATAATTATTAAG-ATAAATCAC
*
16484068 TATAATTTTTAA-ATAAATCAC
1 TATAATTATTAAGATAAATCAC
16484089 T
1 T
16484090 TCATACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
23 11 0.52
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (22 bp):
TATAATTATTAAGATAAATCAC
Found at i:16487254 original size:25 final size:25
Alignment explanation
Indices: 16487184--16487254 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
16487174 TTAATATAAC
16487184 TATTAAAA-TATTAAAAATTATTTAT
1 TATTAAAATTATT-AAAATTATTTAT
* *
16487209 TATTAAAGTATATTGAAATTATTTAT
1 TATTAAAAT-TATTAAAATTATTTAT
*
16487235 TATTAAAATTATTAATATTA
1 TATTAAAATTATTAAAATTA
16487255 AAAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 16 0.41
26 19 0.49
27 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTTAT
Found at i:16487258 original size:16 final size:16
Alignment explanation
Indices: 16487218--16487257 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
16487208 TTATTAAAGT
*
16487218 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
16487234 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
16487249 ATATTAAAA
1 ATATTAAAA
16487258 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:16488040 original size:63 final size:63
Alignment explanation
Indices: 16487976--16488121 Score: 193
Period size: 64 Copynumber: 2.3 Consensus size: 63
16487966 AAAACGTCTT
* * *
16487976 AATAATCATTTTATATTTTTACAAATATATTATTTAAGATATTTTTATATAAAAAAATACCTTA
1 AATAATCATTTTATATTTTTACAAAAAGACTATTTAAGATATTTTTATA-AAAAAAATACCTTA
* * * * *
16488040 AATAATCAATTTATATTTGTATAAAAAGACTATTTAAGATGTTTTTATACAAAAAATACCTTA
1 AATAATCATTTTATATTTTTACAAAAAGACTATTTAAGATATTTTTATAAAAAAAATACCTTA
**
16488103 AATAATTTTTTTATATTTT
1 AATAATCATTTTATATTTT
16488122 AAGGTTTGGG
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
63 28 0.40
64 42 0.60
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (63 bp):
AATAATCATTTTATATTTTTACAAAAAGACTATTTAAGATATTTTTATAAAAAAAATACCTTA
Found at i:16488220 original size:63 final size:62
Alignment explanation
Indices: 16488143--16488264 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 62
16488133 TTAATATTTT
* *
16488143 TATAAAAAGATTATTTAAGGTATTTTTTATACAGAAACAT-TTTAAATAATCTTTTTATAAAAA
1 TATAAAAAGATTATTTAAGGT-GTTTTTATACA-AAAAATATTTAAATAATCTTTTTATAAAAA
*
16488206 TATAAATAGATTATTTAAGGTGTTTTTATACAAAAAATACTTTAAATAATCTTTTTATA
1 TATAAAAAGATTATTTAAGGTGTTTTTATACAAAAAATA-TTTAAATAATCTTTTTATA
16488265 TTTTATGATT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
61 5 0.09
62 10 0.19
63 39 0.72
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (62 bp):
TATAAAAAGATTATTTAAGGTGTTTTTATACAAAAAATATTTAAATAATCTTTTTATAAAAA
Found at i:16489873 original size:30 final size:30
Alignment explanation
Indices: 16489839--16489908 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
16489829 ATTTATTGGA
16489839 TAATTTTATCCTTAT-ATATTTAATTAATTC
1 TAATTTTA-CCTTATCATATTTAATTAATTC
* *
16489869 TAATTTTACCTTTTCATATTTAATTAGTTC
1 TAATTTTACCTTATCATATTTAATTAATTC
16489899 TAATTATTAC
1 TAATT-TTAC
16489909 GATTAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 5 0.14
30 27 0.75
31 4 0.11
ACGTcount: A:0.31, C:0.11, G:0.01, T:0.56
Consensus pattern (30 bp):
TAATTTTACCTTATCATATTTAATTAATTC
Found at i:16490090 original size:28 final size:28
Alignment explanation
Indices: 16490007--16490137 Score: 99
Period size: 28 Copynumber: 4.6 Consensus size: 28
16489997 TAATTAAATG
*
16490007 ATATTTAACAATAAAATATTATTGAATTA
1 ATATTTAACATTAAAATATTATT-AATTA
*
16490036 AT-TTTCAATATTATTAAATATTA--AATTA
1 ATATTT-AACATTA--AAATATTATTAATTA
*
16490064 ATATTTAACGTTAAAATATTATTAATTA
1 ATATTTAACATTAAAATATTATTAATTA
* * * *
16490092 ATATACT-ATATTAAAATCTTAGTACATTAA
1 ATAT-TTAACATTAAAATATTATTA-ATT-A
*
16490122 ATATTTAATATTAAAA
1 ATATTTAACATTAAAA
16490138 AACAATATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
26 8 0.10
28 37 0.45
29 15 0.18
30 14 0.17
31 8 0.10
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
ATATTTAACATTAAAATATTATTAATTA
Found at i:16490121 original size:57 final size:57
Alignment explanation
Indices: 16490007--16490129 Score: 135
Period size: 57 Copynumber: 2.1 Consensus size: 57
16489997 TAATTAAATG
* *
16490007 ATATTTAACAATAAAATATTATTGAATTAATTTTCAATATTATTAAATATTAAATT-A
1 ATATTTAACAATAAAATATTATTGAATTAATATACAATATTA-TAAATATTAAATTAA
** * *
16490064 ATATTTAACGTTAAAATATTATT-AATTAATATACTATATTA-AAATCTTAGTACATTAA
1 ATATTTAACAATAAAATATTATTGAATTAATATACAATATTATAAATATTA--A-ATTAA
16490122 ATATTTAA
1 ATATTTAA
16490130 TATTAAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
54 7 0.12
56 16 0.29
57 24 0.43
58 9 0.16
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (57 bp):
ATATTTAACAATAAAATATTATTGAATTAATATACAATATTATAAATATTAAATTAA
Found at i:16490176 original size:26 final size:26
Alignment explanation
Indices: 16490146--16490212 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
16490136 AAAACAATAT
* * *
16490146 ATATTAAATTATTATATT-AATATTTA
1 ATATTAAAATATTAT-TTAAAAATTAA
*
16490172 ATATTAAAATATTGTTTAAAAATTAA
1 ATATTAAAATATTATTTAAAAATTAA
16490198 ATATTAAAATATTAT
1 ATATTAAAATATTAT
16490213 CAAATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
ATATTAAAATATTATTTAAAAATTAA
Found at i:16490542 original size:71 final size:69
Alignment explanation
Indices: 16490372--16490547 Score: 194
Period size: 71 Copynumber: 2.5 Consensus size: 69
16490362 ATTCAAGCAC
* *
16490372 TATTAAAATAATATAATATATAAAATTATTTTTAAATTAATATTTAATATAAAAAGAATATTAAA
1 TATTAAAATAATATAATATATTAAATTATTATTAAATTAATATTTAATATAAAAAGAATATTAAA
*
16490437 ATCT
66 ATAT
** * * *
16490441 TATTAAAATAATATTCTATATTGGAA-TATTATTAAATTAAATATTTATTATGAAAAATAATATT
1 TATTAAAATAATATAATATATT-AAATTATTATTAAATT-AATATTTAATAT-AAAAAGAATATT
16490505 AAAATAT
63 AAAATAT
* * * *
16490512 TA-TAGTAATAATAAAATATATTTAATTATTACTAAA
1 TATTA-AAATAATATAATATATTAAATTATTATTAAA
16490548 ATGCATATAA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
69 30 0.34
70 17 0.19
71 41 0.47
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (69 bp):
TATTAAAATAATATAATATATTAAATTATTATTAAATTAATATTTAATATAAAAAGAATATTAAA
ATAT
Found at i:16490624 original size:39 final size:39
Alignment explanation
Indices: 16490575--16490704 Score: 116
Period size: 39 Copynumber: 3.2 Consensus size: 39
16490565 ATATTATTAA
* * *
16490575 AATAATATTAAATATTCCAATATTATTAAATTAATATTT
1 AATATTATTAAATATTCAAATATCATTAAATTAATATTT
* * *
16490614 TATATTATTAAATATTGAAATCTCATTAAATTAATATTT
1 AATATTATTAAATATTCAAATATCATTAAATTAATATTT
* * * *
16490653 AATATTTAAATAATATAATATTAAAATATTATTAAACTAATATGT
1 AATA-TT--AT--TA-AATATTCAAATATCATTAAATTAATATTT
16490698 AATATTA
1 AATATTA
16490705 AAATGTTAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
39 36 0.49
40 2 0.03
42 3 0.04
44 4 0.05
45 28 0.38
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (39 bp):
AATATTATTAAATATTCAAATATCATTAAATTAATATTT
Found at i:16490700 original size:29 final size:28
Alignment explanation
Indices: 16490372--16490777 Score: 171
Period size: 29 Copynumber: 14.4 Consensus size: 28
16490362 ATTCAAGCAC
16490372 TATTAAAATAATA-TAATATATAAAATTAT
1 TATTAAAATAATATTAATAT-TAAAA-TAT
* * * * *
16490401 TTTTAAATTAATATTTAATATAAAAAGAA
1 TATTAAAATAATA-TTAATATTAAAATAT
** * * *
16490430 TATTAAAATCTTATTAA-AATAATATTCT
1 TATTAAAATAATATTAATATTAA-AATAT
** *
16490458 ATATTGGAATATTATTAA-ATT-AAATATT
1 -TATTAAAATAATATTAATATTAAAATA-T
*
16490486 TATTATGAA-AA-A-TAATATTAAAATAT
1 TATTA-AAATAATATTAATATTAAAATAT
* * *
16490512 TATAGTAATAATAA-AAT-ATATTTAATTAT
1 TAT--TAA-AATAATATTAATATTAAAATAT
* * *
16490541 TACTAAAATGCATA-TAATGTTAAAATAT
1 TATTAAAAT-AATATTAATATTAAAATAT
**
16490569 TATTAAAATAATATTAAATATTCCAATAT
1 TATTAAAATAATATT-AATATTAAAATAT
* * *
16490598 TATTAAATTAATATTTTATATTATTAA-A-
1 TATTAAAATAATA-TTAATATTA-AAATAT
* * * *
16490626 TATTGAAAT-CTCATTAA-ATTAATATTTAA
1 TATTAAAATAAT-ATTAATATTAA-A-ATAT
*
16490655 TATTTAAATAATA-TAATATTAAAATAT
1 TATTAAAATAATATTAATATTAAAATAT
* *
16490682 TATTAAACTAATATGTAATATTAAAATGT
1 TATTAAAATAATAT-TAATATTAAAATAT
* * * *
16490711 TAATAAAGTAACATTAA-A-TAAAATAC
1 TATTAAAATAATATTAATATTAAAATAT
** *
16490737 TATTAATTTAATATTTAATATTAAAATAA
1 TATTAAAATAATA-TTAATATTAAAATAT
16490766 TATTAAAATAAT
1 TATTAAAATAAT
16490778 TGTAAATCTT
Statistics
Matches: 280, Mismatches: 65, Indels: 64
0.68 0.16 0.16
Matches are distributed among these distances:
25 3 0.01
26 31 0.11
27 45 0.16
28 50 0.18
29 135 0.48
30 10 0.04
31 6 0.02
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
TATTAAAATAATATTAATATTAAAATAT
Found at i:16490704 original size:21 final size:21
Alignment explanation
Indices: 16490593--16490658 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
16490583 TAAATATTCC
16490593 AATATTATTAAATTAATATTT
1 AATATTATTAAATTAATATTT
* **
16490614 TATATTATTAAA-T-AT-TGA
1 AATATTATTAAATTAATATTT
* *
16490632 AATCTCATTAAATTAATATTT
1 AATATTATTAAATTAATATTT
16490653 AATATT
1 AATATT
16490659 TAAATAATAT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 10 0.31
19 3 0.09
20 3 0.09
21 16 0.50
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (21 bp):
AATATTATTAAATTAATATTT
Found at i:16490783 original size:11 final size:11
Alignment explanation
Indices: 16490752--16490777 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16490742 ATTTAATATT
16490752 TAATATTAAAA
1 TAATATTAAAA
16490763 TAATATTAAAA
1 TAATATTAAAA
16490774 TAAT
1 TAAT
16490778 TGTAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:16490784 original size:55 final size:53
Alignment explanation
Indices: 16490652--16490778 Score: 128
Period size: 55 Copynumber: 2.3 Consensus size: 53
16490642 AATTAATATT
* *
16490652 TAATATTTAAATAATATAATATTAAAATATTATTAAACTAATATGTAATATTAAAA
1 TAATATTAAAATAAT-TAA-A-TAAAATACTATTAAACTAATATGTAATATTAAAA
** * * ** *
16490708 TGTTAATAAAGTAACATTAAATAAAATACTATTAATTTAATATTTAATATTAAAA
1 TAATATTAAAAT-A-ATTAAATAAAATACTATTAAACTAATATGTAATATTAAAA
16490763 TAATATTAAAATAATT
1 TAATATTAAAATAATT
16490779 GTAAATCTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
53 3 0.05
54 1 0.02
55 38 0.68
56 8 0.14
57 4 0.07
58 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (53 bp):
TAATATTAAAATAATTAAATAAAATACTATTAAACTAATATGTAATATTAAAA
Found at i:16490953 original size:13 final size:13
Alignment explanation
Indices: 16490920--16490954 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
16490910 TAAATTTTAA
16490920 TATTTAATATGAT
1 TATTTAATATGAT
16490933 TAATTTAATATGAT
1 T-ATTTAATATGAT
16490947 TATTTAAT
1 TATTTAAT
16490955 TTTTTACAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (13 bp):
TATTTAATATGAT
Found at i:16492739 original size:28 final size:25
Alignment explanation
Indices: 16492691--16492745 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
16492681 CTTCGTCCGA
16492691 ATAATATAAATATAATTAAATTATT
1 ATAATATAAATATAATTAAATTATT
*
16492716 ATAATTATAAATATATATGTAAATTTTT
1 ATAA-TATAAATATA-AT-TAAATTATT
16492744 AT
1 AT
16492746 TTTAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 10 0.38
27 2 0.08
28 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAATATAAATATAATTAAATTATT
Found at i:16499269 original size:17 final size:18
Alignment explanation
Indices: 16499236--16499270 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16499226 AACTCATCAA
*
16499236 TTTTTTTTAAATTAAATT
1 TTTTTTTTAAATAAAATT
16499254 TTTTTTTTAAA-AAAATT
1 TTTTTTTTAAATAAAATT
16499271 ATTTCTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTTTTAAATAAAATT
Found at i:16502106 original size:71 final size:71
Alignment explanation
Indices: 16502023--16502211 Score: 195
Period size: 72 Copynumber: 2.6 Consensus size: 71
16502013 AGCAACAAGA
* * **
16502023 ACTATGTTTTTTATTTTAAAACATGATATTTGTTAAAATTTTGGAA-TTTCAAAACTAAAATTTT
1 ACTATATTTTTTATTTTAAAACATGATTTTTGTTAAAATTTTAAAATTTTCAAAA-TAAAATTTT
*
16502087 AACATCC
65 AACAACC
* * * * *
16502094 ACTATATTTTTTATTTTAAAAACA-AAGTTTTTGTTAAAATTTCAAAATTTTGAAAATAGAGTTT
1 ACTATATTTTTTATTTT-AAAACATGA-TTTTTGTTAAAATTTTAAAATTTTCAAAATAAAATTT
16502158 TAACAACC
64 TAACAACC
* * * *
16502166 ATTACATTTTTTATTTTAAAAAATGTTTTTTGTT-AAATTTTCAAAA
1 ACTATATTTTTTATTTTAAAACATGATTTTTGTTAAAATTTT-AAAA
16502212 AATATAGTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
70 6 0.06
71 34 0.35
72 50 0.52
73 7 0.07
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (71 bp):
ACTATATTTTTTATTTTAAAACATGATTTTTGTTAAAATTTTAAAATTTTCAAAATAAAATTTTA
ACAACC
Found at i:16502452 original size:115 final size:112
Alignment explanation
Indices: 16502260--16502474 Score: 254
Period size: 115 Copynumber: 1.9 Consensus size: 112
16502250 AAAGTCAGTC
* * * * *
16502260 TTTTTTCAACATCTACTACATTTTTATCTTAAAACGCTATCTTTGTTAAAATTTTAGAATTTCAA
1 TTTTTTCAACATCCACTACATTTTAATCTTAAAACGATATCTTTGTTAAAATATCAGAATTTCAA
* * *
16502325 AAATATAGTTTCAATATTCACTACAT-TTTTTATCTTGAATATGAAGTT
66 AAATATAATTTCAACATCCACT--ATGTTTTTATCTTGAATATGAAGTT
* * *
16502373 TTTTTTCAACATCCACTATAGTTTTAATCTTAAAAAC-ATAGTCTTTGTTAATATATCATAATTT
1 TTTTTTCAACATCCACTACA-TTTTAATCTT-AAAACGATA-TCTTTGTTAAAATATCAGAATTT
**
16502437 TGAAAATATAATTTCAACATCCACTATGTTTTTATCTT
63 CAAAAATATAATTTCAACATCCACTATGTTTTTATCTT
16502475 TAAAAAATGA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
113 20 0.24
114 21 0.25
115 44 0.52
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.47
Consensus pattern (112 bp):
TTTTTTCAACATCCACTACATTTTAATCTTAAAACGATATCTTTGTTAAAATATCAGAATTTCAA
AAATATAATTTCAACATCCACTATGTTTTTATCTTGAATATGAAGTT
Found at i:16502521 original size:71 final size:69
Alignment explanation
Indices: 16502376--16502623 Score: 219
Period size: 72 Copynumber: 3.5 Consensus size: 69
16502366 TGAAGTTTTT
* * * * * * *
16502376 TTTCAACATCCACTATAGTTTTAATCTTAAAAACATAGTCTTTGTTAATATATCATAATTTTGAA
1 TTTCAACATCCACTA-CGTTTTTATCTTAAAAA-ATAGTATTTGTTAAAATTTTAAAATTTT-AA
16502441 AATATAA
63 AATATAA
* *
16502448 TTTCAACATCCACTATGTTTTTATCTTTAAAAAAT-GATATTTGTTAAAATTTTAGAATTTTAAA
1 TTTCAACATCCACTACGTTTTTATC-TTAAAAAATAG-TATTTGTTAAAATTTTAAAATTTTAAA
*
16502512 AGTAAAA
64 A-TATAA
* * ** * * * *
16502519 TTTTAATATTTACTACGTTTTTTATTTTCAAAATATAGTTTTTGTTAAAATTTTAAAATTTCAAA
1 TTTCAACATCCACTACG-TTTTTATCTT-AAAAAATAGTATTTGTTAAAATTTTAAAATTT-TAA
16502584 AATATAA
63 AATATAA
* *
16502591 TTTTAACAACCACTACGTTTGTTATCTTAAAAA
1 TTTCAACATCCACTACGTTT-TTATCTTAAAAA
16502624 CACAATTTTT
Statistics
Matches: 143, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
70 5 0.03
71 54 0.38
72 79 0.55
73 5 0.03
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (69 bp):
TTTCAACATCCACTACGTTTTTATCTTAAAAAATAGTATTTGTTAAAATTTTAAAATTTTAAAAT
ATAA
Found at i:16503295 original size:6 final size:6
Alignment explanation
Indices: 16503284--16503324 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
16503274 GGCGAAAAAT
16503284 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
16503325 TTTATTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:16504545 original size:24 final size:23
Alignment explanation
Indices: 16504475--16504548 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
16504465 TTTATTTTTT
**
16504475 AAATAAAAAAAAAAAGT-AAAAA
1 AAATAAAATCAAAAAGTAAAAAA
* ** *
16504497 AAATCAAATCAAAATTTGAATAAA
1 AAATAAAATCAAAAAGT-AAAAAA
16504521 AAATAAAATGCAAAAAGTAAAAAA
1 AAATAAAAT-CAAAAAGTAAAAAA
16504545 AAAT
1 AAAT
16504549 TGTTTTTCCT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
22 12 0.31
24 21 0.54
25 6 0.15
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.16
Consensus pattern (23 bp):
AAATAAAATCAAAAAGTAAAAAA
Found at i:16508153 original size:19 final size:19
Alignment explanation
Indices: 16508129--16508168 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16508119 ACATATATAA
*
16508129 TATATGCAATAATAAATTT
1 TATATGCAATAATAAAATT
*
16508148 TATATGTAATAATAAAATT
1 TATATGCAATAATAAAATT
16508167 TA
1 TA
16508169 AACATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TATATGCAATAATAAAATT
Found at i:16510634 original size:2 final size:2
Alignment explanation
Indices: 16510627--16510651 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16510617 GTTCTGCATC
16510627 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
16510652 CCTTCCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:16513281 original size:21 final size:21
Alignment explanation
Indices: 16513255--16513296 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16513245 CCGATGGGTA
16513255 TTCCATGTCGCATGATTCTTT
1 TTCCATGTCGCATGATTCTTT
16513276 TTCCATGTCGCATGATTCTTT
1 TTCCATGTCGCATGATTCTTT
16513297 AGCTTTCAGC
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:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCCATGTCGCATGATTCTTT
Found at i:16514425 original size:2 final size:2
Alignment explanation
Indices: 16514418--16514453 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
16514408 TGTTACACAT
16514418 TA TA TA TA TA TA TA TA TGA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T
16514454 GATGAGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16514441 original size:17 final size:17
Alignment explanation
Indices: 16514419--16514451 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16514409 GTTACACATT
16514419 ATATATATATATATATG
1 ATATATATATATATATG
16514436 ATATATATATATATAT
1 ATATATATATATATAT
16514452 ATGATGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATATATATATATATATG
Found at i:16514442 original size:19 final size:19
Alignment explanation
Indices: 16514418--16514456 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16514408 TGTTACACAT
16514418 TATATATATATATATATGA
1 TATATATATATATATATGA
16514437 TATATATATATATATATGA
1 TATATATATATATATATGA
16514456 T
1 T
16514457 GAGTAGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TATATATATATATATATGA
Found at i:16514639 original size:2 final size:2
Alignment explanation
Indices: 16514627--16514679 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
16514617 GATAGATAGA
*
16514627 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16514669 AT AT AT AT AT A
1 AT AT AT AT AT A
16514680 GACCAGATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16517090 original size:16 final size:17
Alignment explanation
Indices: 16517061--16517093 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16517051 GTGTTAGAAA
16517061 AAATAAATAAAAAAAAG
1 AAATAAATAAAAAAAAG
16517078 AAAT-AATAGAAAAAAA
1 AAATAAATA-AAAAAAA
16517094 TTTGGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAATAAATAAAAAAAAG
Found at i:16522625 original size:21 final size:20
Alignment explanation
Indices: 16522582--16522630 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
16522572 AATATTATTT
*
16522582 TATTAATATTAAAATAATAA
1 TATTATTATTAAAATAATAA
* *
16522602 TATTTATTATTAAAATATTTA
1 TA-TTATTATTAAAATAATAA
16522623 TATTATTA
1 TATTATTA
16522631 AATTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATTATTAAAATAATAA
Found at i:16522628 original size:17 final size:17
Alignment explanation
Indices: 16522606--16522643 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
16522596 TAATAATATT
16522606 TATTATTAAAATATTTA
1 TATTATTAAAATATTTA
*
16522623 TATTATTAAATTATTTA
1 TATTATTAAAATATTTA
16522640 TATT
1 TATT
16522644 TTATATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTAAAATATTTA
Found at i:16522643 original size:14 final size:15
Alignment explanation
Indices: 16522600--16522640 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
16522590 TTAAAATAAT
16522600 AATATTTATTATTAA
1 AATATTTATTATTAA
16522615 AATATTTATATTATTAA
1 AATA-TT-TATTATTAA
*
16522632 ATTATTTAT
1 AATATTTAT
16522641 ATTTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATTTATTATTAA
Found at i:16522912 original size:40 final size:39
Alignment explanation
Indices: 16522801--16522912 Score: 100
Period size: 40 Copynumber: 2.7 Consensus size: 39
16522791 CATATTAAGA
16522801 AAATAATATTATTATATTATTAAACATTAATTATTAAAATAAT
1 AAATAATATTATT-TATTATTAAA-A-T-ATTATTAAAATAAT
* * * ** *
16522844 AAATATTATTATATATGT-TTTATTTATTATTAAAATAGT
1 AAATAATATTATTTAT-TATTAAAATATTATTAAAATAAT
*
16522883 ATTATAATATTATTTATTATTAAAATATTA
1 A-AATAATATTATTTATTATTAAAATATTA
16522913 AAAATATTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
39 15 0.28
40 21 0.39
42 6 0.11
43 12 0.22
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (39 bp):
AAATAATATTATTTATTATTAAAATATTATTAAAATAAT
Found at i:16527423 original size:12 final size:13
Alignment explanation
Indices: 16527383--16527424 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
16527373 ATTTTAATGA
*
16527383 TAATAATTATTAT
1 TAATAATAATTAT
16527396 TAATAATAA-TATT
1 TAATAATAATTA-T
16527409 TAA-AATAATTAT
1 TAATAATAATTAT
16527421 TAAT
1 TAAT
16527425 TATATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATAATAATTAT
Found at i:16527440 original size:28 final size:28
Alignment explanation
Indices: 16527384--16527443 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
16527374 TTTTAATGAT
*
16527384 AATAATTATTATTAATAATAATATTTAA
1 AATAATTATTATTAATAATAATATATAA
* *
16527412 AATAATTATTAATTATATAAAAATATAAAA
1 AATAATTATT-ATTA-ATAATAATATATAA
16527442 AA
1 AA
16527444 AATGAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 10 0.37
29 4 0.15
30 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAATTATTATTAATAATAATATATAA
Found at i:16528749 original size:29 final size:30
Alignment explanation
Indices: 16528693--16528749 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
16528683 TTATTATAAA
*
16528693 TTTTCATAAAATAAAAAAAATTTTAATTAG
1 TTTTCATAAAATAAAAAAAATTTGAATTAG
*
16528723 TTTTCA-AAAATTATAAAAAA-TTGAATT
1 TTTTCATAAAA-TAAAAAAAATTTGAATT
16528750 TGTTCCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (30 bp):
TTTTCATAAAATAAAAAAAATTTGAATTAG
Found at i:16528875 original size:17 final size:16
Alignment explanation
Indices: 16528850--16528969 Score: 79
Period size: 15 Copynumber: 7.2 Consensus size: 16
16528840 CTAAGTTTTT
16528850 AAAACCCCTAAAAAATCC
1 AAAA-CCCT-AAAAATCC
16528868 AAAACCCT-AAAATCC
1 AAAACCCTAAAAATCC
16528883 -AAACCCTCAAAAA-CC
1 AAAACCCT-AAAAATCC
*
16528898 AAAATCCCT-TAAATCC
1 AAAA-CCCTAAAAATCC
* *
16528914 AAACCTCCCATAAAAATCT
1 AAA--ACCC-TAAAAATCC
* *
16528933 AAAA-CCTTAACATCC
1 AAAACCCTAAAAATCC
16528948 AAAAACCCCTAAAAATCC
1 -AAAA-CCCTAAAAATCC
16528966 AAAA
1 AAAA
16528970 ACCTCACACT
Statistics
Matches: 80, Mismatches: 10, Indels: 25
0.70 0.09 0.22
Matches are distributed among these distances:
14 7 0.09
15 18 0.22
16 18 0.22
17 15 0.19
18 14 0.17
19 8 0.10
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAACCCTAAAAATCC
Found at i:16528961 original size:33 final size:32
Alignment explanation
Indices: 16528850--16528969 Score: 106
Period size: 31 Copynumber: 3.7 Consensus size: 32
16528840 CTAAGTTTTT
*
16528850 AAAACCCCTAAAAAATCCAAAACCCTAAAATCC
1 AAAACCCCTAAAAAATCCAAAA-CCTTAAATCC
*
16528883 -AAA-CCCTCAAAAA-CCAAAATCCCTTAAATCC
1 AAAACCCCTAAAAAATCCAAAA--CCTTAAATCC
* *
16528914 -AAACCTCCCATAAAAATCTAAAACCTTAACATCC
1 AAAACC-CCTA-AAAAATCCAAAACCTTAA-ATCC
16528948 AAAAACCCCT-AAAAATCCAAAA
1 -AAAACCCCTAAAAAATCCAAAA
16528970 ACCTCACACT
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
30 6 0.08
31 22 0.31
32 4 0.06
33 19 0.26
34 9 0.12
35 7 0.10
36 5 0.07
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (32 bp):
AAAACCCCTAAAAAATCCAAAACCTTAAATCC
Found at i:16529028 original size:17 final size:16
Alignment explanation
Indices: 16528998--16529051 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
16528988 TCTTAAACCT
16528998 AAAACCCCCTAAATAC
1 AAAACCCCCTAAATAC
*
16529014 AAAATCCCCTAAA-ATC
1 AAAACCCCCTAAATA-C
* *
16529030 CAAA-CCCTTAAAT-C
1 AAAACCCCCTAAATAC
16529044 AAAACCCC
1 AAAACCCC
16529052 AAACCTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 4 0.13
15 11 0.35
16 16 0.52
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAACCCCCTAAATAC
Found at i:16537118 original size:33 final size:33
Alignment explanation
Indices: 16537076--16537648 Score: 619
Period size: 33 Copynumber: 17.5 Consensus size: 33
16537066 AAAAGAAAAA
*
16537076 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCAT-TAATGAAG
*** *
16537109 CTTTAAGCCCAGTTTATCTGGTTTTTAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* **
16537142 CTTTAAGCCTAGTTTATCTGGCCAACAATG-A-
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* *
16537173 CATTTAAGCCCAATTTATCTCGCCATTAATGAAG
1 C-TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16537207 CTTTAAGCCCAATTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
16537240 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16537273 CTTTAAGCGCAGCTTATCTGACCATTAATAAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * *
16537306 CTTTAAGCCCAGCTTATCTGGCTATTAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16537339 CTTTAAGCCCAGCTTATCTGGCTATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* *
16537372 CTTTAAGCCCAATTTATCTAGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* **
16537405 ATTTAAG-CCAGTTTATCTGGCCAACAATG-A-
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16537435 CATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 C-TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * *
16537469 TTTTAAGCCTAGTTTATTTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16537502 CTTTAAGCCCAGTTTATTTGACCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16537535 CTTTAAACCCAGTTTATCTGGTCTCA--AATG-A-
1 CTTTAAGCCCAGTTTATCTGG-C-CATTAATGAAG
* *
16537566 CATTTAAGCCCAGTTTATCTGACCATTAATAAAG
1 C-TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16537600 TTTTAAGCCCAGTTTATTTGGCC-TCAAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCAT-TAATGAAG
*
16537633 TTTTAAGCCCAGTTTA
1 CTTTAAGCCCAGTTTA
16537649 GCTGACCTTC
Statistics
Matches: 462, Mismatches: 62, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.00
31 10 0.02
32 86 0.19
33 359 0.78
34 3 0.01
35 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
Found at i:16537210 original size:98 final size:97
Alignment explanation
Indices: 16537077--16537679 Score: 621
Period size: 98 Copynumber: 6.1 Consensus size: 97
16537067 AAAGAAAAAC
* ***
16537077 TTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAGCCCAGTTTATCTGGTTTTTAATGAA
1 TTTAAGCCCAGTTTATCT-GCCAT-TAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
* * *
16537141 ACTTTAAGCCTAGTTTATCTGGCCAACAATGACA
64 GCTTTAAGCCCAGTTTATCTGGCCATCAATGACA
* *
16537175 TTTAAGCCCAATTTATCTCGCCATTAATGAAGCTTTAAGCCCAATTTATCTGGCCATTAATGAAG
1 TTTAAGCCCAGTTTATCT-GCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16537240 CTTTAAGCCCAGTTTATCTGGCCATTAATGA-A
65 CTTTAAGCCCAGTTTATCTGGCCATCAATGACA
* * * * *
16537272 GCTTTAAGCGCAGCTTATCTGACCATTAATAAAGCTTTAAGCCCAGCTTATCTGGCTATTAATGA
1 --TTTAAGCCCAGTTTATCTG-CCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGA
* * *
16537337 GGCTTTAAGCCCAGCTTATCTGGCTATCAATGAGGC-
63 AGCTTTAAGCCCAGTTTATCTGGCCATCAATGA--CA
* * **
16537373 TTTAAGCCCAATTTATCTAGCCATTAATGAAGATTTAAG-CCAGTTTATCTGGCCAACAATG-A-
1 TTTAAGCCCAGTTTATCT-GCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
16537435 CATTTAAGCCCAGTTTATCTGGCCATCAATGA-A
65 C-TTTAAGCCCAGTTTATCTGGCCATCAATGACA
* * * * *
16537468 GTTTTAAGCCTAGTTTATTTGGCCATTAATGAAGCTTTAAGCCCAGTTTATTTGACCATCAATGA
1 --TTTAAGCCCAGTTTATCT-GCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGA
* * *
16537533 GGCTTTAAACCCAGTTTATCTGGTC-TCAAATGACA
63 AGCTTTAAGCCCAGTTTATCTGGCCATC-AATGACA
* * * * *
16537568 TTTAAGCCCAGTTTATCTGACCATTAATAAAGTTTTAAGCCCAGTTTATTTGGCC-TCAAATGAG
1 TTTAAGCCCAGTTTATCTG-CCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCAT-TAATGAA
* * * * * *
16537632 GTTTTAAGCCCAGTTTAGCTGACCTTCAATAAAA
64 GCTTTAAGCCCAGTTTATCTGGCCATCAATGACA
*
16537666 TTTAAGCCAAGTTT
1 TTTAAGCCCAGTTT
16537680 GTTTGGCCCC
Statistics
Matches: 426, Mismatches: 59, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
96 1 0.00
97 65 0.15
98 214 0.50
99 143 0.34
100 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (97 bp):
TTTAAGCCCAGTTTATCTGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAAGC
TTTAAGCCCAGTTTATCTGGCCATCAATGACA
Found at i:16537259 original size:131 final size:130
Alignment explanation
Indices: 16537076--16537679 Score: 666
Period size: 131 Copynumber: 4.6 Consensus size: 130
16537066 AAAAGAAAAA
***
16537076 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAGCCCAGTTTATCTGGTTTTTAATGA
1 CTTTAAGCCCAGTTTATCTGGCCAT-AAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGA
* *
16537140 AACTTTAAGCCTAGTTTATCTGGCCAACAATGACATTTAAGCCCAATTTATCTCGCCATTAATGA
65 AACTTTAAGCC-AGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATGA
16537205 AG
129 AG
* *
16537207 CTTTAAGCCCAATTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
1 CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
* * * ** * * *
16537272 GCTTTAAGCGCAGCTTATCTGACCATTAAT-AAAGCTTTAAGCCCAGCTTATCTGGCTATTAATG
66 ACTTTAAGC-CAGTTTATCTGGCCAACAATGACA--TTTAAGCCCAGTTTATCTGGCCATTAATG
*
16537336 AGG
128 AAG
* * * * * *
16537339 CTTTAAGCCCAGCTTATCTGGCTATCAATGAGGCTTTAAGCCCAATTTATCTAGCCATTAATGAA
1 CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
*
16537404 GA-TTTAAGCCAGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATCAATGAA
66 -ACTTTAAGCCAGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATGAA
16537468 G
130 G
* * * * * * * *
16537469 TTTTAAGCCTAGTTTATTTGGCCATTAATGAAGCTTTAAGCCCAGTTTATTTGACCATCAATGAG
1 CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
* * * *
16537534 GCTTTAAACCCAGTTTATCTGGTCTC-A-AATGACATTTAAGCCCAGTTTATCTGACCATTAATA
66 ACTTT-AAGCCAGTTTATCTGG-C-CAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATG
16537597 AAG
128 AAG
* * * * * *
16537600 TTTTAAGCCCAGTTTATTTGGCC-TCAAATGAGGTTTTAAGCCCAGTTTAGCTGACC-TTCAAT-
1 CTTTAAGCCCAGTTTATCTGGCCAT-AAATGAAGCTTTAAGCCCAGTTTATCTGGCCATT-AATG
*
16537662 AAAATTTAAGCCAAGTTT
64 AAACTTTAAGCC-AGTTT
16537680 GTTTGGCCCC
Statistics
Matches: 398, Mismatches: 62, Indels: 27
0.82 0.13 0.06
Matches are distributed among these distances:
129 4 0.01
130 96 0.24
131 199 0.50
132 98 0.25
133 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (130 bp):
CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
ACTTTAAGCCAGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATGAAG
Found at i:16538410 original size:21 final size:22
Alignment explanation
Indices: 16538382--16538439 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
16538372 TTTTAAGATT
**
16538382 TGTAAGACCTCCGGGCATAATC
1 TGTAAGACCTCCGAACATAATC
16538404 T-TAAGACCTCCGAACATAATC
1 TGTAAGACCTCCGAACATAATC
16538425 TGTAAGACCCTCCGA
1 TGTAAGA-CCTCCGA
16538440 CATGATTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 19 0.59
22 6 0.19
23 7 0.22
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (22 bp):
TGTAAGACCTCCGAACATAATC
Found at i:16538610 original size:21 final size:21
Alignment explanation
Indices: 16538554--16538616 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
16538544 TTATCCCAGT
* *
16538554 CAATTCTGTAAGACCTTCGAA
1 CAATTTTGTAAGACCTTCGGA
*
16538575 C-ATGGTTTTTAAGACCTTCGGA
1 CAAT--TTTGTAAGACCTTCGGA
*
16538597 CAATTTTGTAAGACTTTCGG
1 CAATTTTGTAAGACCTTCGG
16538617 GTATGATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.06
21 15 0.44
22 15 0.44
23 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (21 bp):
CAATTTTGTAAGACCTTCGGA
Found at i:16538663 original size:22 final size:22
Alignment explanation
Indices: 16538562--16538665 Score: 63
Period size: 22 Copynumber: 4.7 Consensus size: 22
16538552 GTCAATTCTG
* * *
16538562 TAAGACCTTCGAACATGGTTTT
1 TAAGACCTTCGAGCATGATTTA
*
16538584 TAAGACCTTCG-GACA--ATTTTG
1 TAAGACCTTCGAG-CATGA-TTTA
* * *
16538605 TAAGACTTTCGGGTATGATTCTA
1 TAAGACCTTCGAGCATGATT-TA
* *
16538628 TAAAACC-TCTGAGCATGATTTC
1 TAAGACCTTC-GAGCATGATTTA
16538650 TAAGACCTTCGAGCAT
1 TAAGACCTTCGAGCAT
16538666 AAATTTGATT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
21 14 0.23
22 31 0.50
23 17 0.27
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (22 bp):
TAAGACCTTCGAGCATGATTTA
Found at i:16538798 original size:23 final size:23
Alignment explanation
Indices: 16538738--16538801 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
16538728 ATCAATTTTA
* *
16538738 TAAGACCTCCAGACA--ATTGTG
1 TAAGACCTTCAGACATGATTCTG
*
16538759 TAAGACC-TCTAGGCATGATTCTG
1 TAAGACCTTC-AGACATGATTCTG
16538782 TAAGACCTTCAGACATGATT
1 TAAGACCTTCAGACATGATT
16538802 TCTAAGAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
23 21 0.60
24 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (23 bp):
TAAGACCTTCAGACATGATTCTG
Found at i:16538864 original size:154 final size:153
Alignment explanation
Indices: 16538580--16538901 Score: 378
Period size: 154 Copynumber: 2.1 Consensus size: 153
16538570 TCGAACATGG
* * * * * * *
16538580 TTTTTAAGACCTTCGGACAATTTTGTAAGACTTTCGGGTATGATTCTATAAAACCTCTGAGCATG
1 TTTTTAAGACCTCCAGACAATTGTGTAAGACTCTCAGGCATGATTCTATAAAACCTCAGAGCATG
* * *
16538645 ATTTCTAAGACCTTCGAGCATAAATTTGATTCGTGATGTTATCCCAATCAATTCTTTATCTTTTA
66 ATTTCTAAGAACTCCGAGCATAAATTTGATTCGCGATGTTATCCCAATCAATTCTTTATCTTTTA
16538710 ACTTACGGTGTTATCCCAATCAA
131 ACTTACGGTGTTATCCCAATCAA
* *
16538733 TTTTATAAGACCTCCAGACAATTGTGTAAGAC-CTCTAGGCATGATTCTGTAAGACCTTCAGA-C
1 TTTT-TAAGACCTCCAGACAATTGTGTAAGACTCTC-AGGCATGATTCTATAAAACC-TCAGAGC
* * * * * *
16538796 ATGATTTCTAAGAACTCCGGGTATAAATTTGATTTGCGGTGTTATCCCGATCAATTTTTTATCTT
63 ATGATTTCTAAGAACTCCGAGCATAAATTTGATTCGCGATGTTATCCCAATCAATTCTTTATCTT
** * * *
16538861 TTAACTTGTGGTGTTATCTCAGTCGA
128 TTAACTTACGGTGTTATCCCAATCAA
*
16538887 TTCTGTAAGACCTCC
1 TT-TTTAAGACCTCC
16538902 GAGCATGATT
Statistics
Matches: 141, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
153 6 0.04
154 130 0.92
155 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (153 bp):
TTTTTAAGACCTCCAGACAATTGTGTAAGACTCTCAGGCATGATTCTATAAAACCTCAGAGCATG
ATTTCTAAGAACTCCGAGCATAAATTTGATTCGCGATGTTATCCCAATCAATTCTTTATCTTTTA
ACTTACGGTGTTATCCCAATCAA
Found at i:16538916 original size:23 final size:23
Alignment explanation
Indices: 16538885--16538935 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16538875 TATCTCAGTC
* *
16538885 GATTCTGTAAGACCTCCGAGCAT
1 GATTTTGTAAGACCTCCAAGCAT
*
16538908 GATTTTGTAAGACCTTCAAGCAT
1 GATTTTGTAAGACCTCCAAGCAT
16538931 GATTT
1 GATTT
16538936 CTAAGACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
GATTTTGTAAGACCTCCAAGCAT
Found at i:16538995 original size:133 final size:133
Alignment explanation
Indices: 16538757--16539054 Score: 397
Period size: 133 Copynumber: 2.2 Consensus size: 133
16538747 CAGACAATTG
* *
16538757 TGTAAGACCT-CTAGGCATGATTCTGTAAGACCTTCAGACATGATTTCTAAGAACTCCGGGTATA
1 TGTAAGACCTCCGA-GCATGATTTTGTAAGACCTTCAGACATGATTTCTAAGAACTCCGGGTATA
* * * * ** * *
16538821 AATTTGATTTGCGGTGTTATCCCGATCAATTTTTTATCTTTTAACTTGTGGTGTTATCTCAGTCG
65 AATTCGATTCGCGATGTTATCCCGATCAATTCTTTATCTTTTAACTTACGATGTTATCCCAGTCG
16538886 ATTC
130 ATTC
*
16538890 TGTAAGACCTCCGAGCATGATTTTGTAAGACCTTCA-AGCATGATTTCTAAG-ACTTCTGGGTAT
1 TGTAAGACCTCCGAGCATGATTTTGTAAGACCTTCAGA-CATGATTTCTAAGAAC-TCCGGGTAT
* * *
16538953 AAATTCGATTCGCGATGTTATCCCTATCGATTCTTTATCTTTTGACTTACGATGTTATCCCAGTC
64 AAATTCGATTCGCGATGTTATCCCGATCAATTCTTTATCTTTTAACTTACGATGTTATCCCAGTC
16539018 GATTC
129 GATTC
* *
16539023 TGTAAGACCTCCGGGCATGA-TTTCTAAGACCT
1 TGTAAGACCTCCGAGCATGATTTTGTAAGACCT
16539055 CTAGGCATAA
Statistics
Matches: 146, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
132 14 0.10
133 130 0.89
134 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (133 bp):
TGTAAGACCTCCGAGCATGATTTTGTAAGACCTTCAGACATGATTTCTAAGAACTCCGGGTATAA
ATTCGATTCGCGATGTTATCCCGATCAATTCTTTATCTTTTAACTTACGATGTTATCCCAGTCGA
TTC
Found at i:16539192 original size:73 final size:73
Alignment explanation
Indices: 16539067--16539718 Score: 550
Period size: 73 Copynumber: 9.1 Consensus size: 73
16539057 AGGCATAAAT
* * * * *
16539067 TTGATTCATGATTTAAT-CCGATCATTTCATT--TT-TT-GGCTTACGGTTCAGTCCCAGCCATC
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
16539127 TTTAATCC
66 TTTAATCC
* * * * *
16539135 TTGACTCACGGTTTAATCCCGGTCATTTCATTAATTCTTCGACTTACGATTCAGTCCCAGTCATT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
*
16539200 TTTAATCT
66 TTTAATCC
* * *
16539208 TTGACTCACGATTTAATCTCGATCATTTCATT--TT-TT-GACTTGTGGTTCAGTCCCAGTCGTC
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
16539269 TTTAATCC
66 TTTAATCC
** * * * * * ** * *
16539277 TTGACTCGTGGTTTAATCCCGATCATTTTATTAATT-GTCAAACTTACAATTCAATCCTAGTCAT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTC-GACTTGCGGTTCAGTCCCAGTCAT
16539341 CTTT-ATCC
65 CTTTAATCC
** * ** * * * * *
16539349 TTTGACTCGTGGTTTAATCTTGGTCATTTCATTAATTATCCGACTTGTGGTTCAGTCGCAGTCAT
1 -TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCAT
* *
16539414 CTCTAATCT
65 CTTTAATCC
* * * * *
16539423 TTGGCTCACGGTTTAATCTCGATCATTTC--T--TTC-TCTAGCTTGCGGTTCAGTTCCAGTCAT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGA-CTTGCGGTTCAGTCCCAGTCAT
16539483 CTTTAATCC
65 CTTTAATCC
* * * * * *
16539492 TTGACTCGCGATTTAATCCTGATCATTTCATTAATTTTTTTGACTTGCGATTCAGTCCCAGTCGT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAA-TTCTTCGACTTGCGGTTCAGTCCCAGTCAT
*
16539557 CTTTAATCT
65 CTTTAATCC
* * * * * * * * *
16539566 TTGACTCATGATTTTATCCCGGTCATTTCATTAATTTTTTTGACTTGTGGTTTAGTCCTAATCAT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAA-TTCTTCGACTTGCGGTTCAGTCCCAGTCAT
16539631 CTTTAAT-C
65 CTTTAATCC
* * *
16539639 TTCGACTCGCGATTTAATCCCTG-TCATTTCATTAATTC-TCTGATTTGCGGTTCAGTCCCTGTC
1 TT-GACTCACGATTTAATCCC-GATCATTTCATTAATTCTTC-GACTTGCGGTTCAGTCCCAGTC
16539702 ATCTTTAATCC
63 ATCTTTAATCC
16539713 TTGACT
1 TTGACT
16539719 TGCGGTGTCG
Statistics
Matches: 465, Mismatches: 96, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
68 16 0.03
69 119 0.26
70 2 0.00
71 9 0.02
72 7 0.02
73 185 0.40
74 124 0.27
75 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (73 bp):
TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
TTTAATCC
Found at i:16539198 original size:38 final size:36
Alignment explanation
Indices: 16539111--16539220 Score: 100
Period size: 35 Copynumber: 3.1 Consensus size: 36
16539101 TGGCTTACGG
* * * *
16539111 TTCAGTCCCAGCCATCT-TTAATCCTTGACTCACGG
1 TTCAGTCCCAGTCATTTCTTAATTCTTGACTCACGA
* * * *
16539146 TTTAATCCCGGTCATTTCATTAATTCTTCGACTTACGA
1 TTCAGTCCCAGTCATTTC-TTAATTCTT-GACTCACGA
16539184 TTCAGTCCCAGTCATTT-TTAA-TCTTTGACTCACGA
1 TTCAGTCCCAGTCATTTCTTAATTC-TTGACTCACGA
16539219 TT
1 TT
16539221 TAATCTCGAT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
35 24 0.41
36 6 0.10
37 8 0.14
38 21 0.36
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (36 bp):
TTCAGTCCCAGTCATTTCTTAATTCTTGACTCACGA
Found at i:16539234 original size:35 final size:34
Alignment explanation
Indices: 16539127--16539235 Score: 92
Period size: 35 Copynumber: 3.0 Consensus size: 34
16539117 CCCAGCCATC
* * *
16539127 TTTAATCCTTGACTCACGGTTTAATCCCGGTCATT
1 TTTAATCTTTGACTCACGATTTAAT-CCGATCATT
* * * * *
16539162 TCATTAATTCTTCGACTTACGATTCAGTCCCAGTCATT
1 T--TTAA-TCTTTGACTCACGATTTAATCCGA-TCATT
16539200 TTTAATCTTTGACTCACGATTTAATCTCGATCATT
1 TTTAATCTTTGACTCACGATTTAATC-CGATCATT
16539235 T
1 T
16539236 CATTTTTTGA
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
35 24 0.43
36 6 0.11
37 6 0.11
38 20 0.36
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (34 bp):
TTTAATCTTTGACTCACGATTTAATCCGATCATT
Found at i:16539271 original size:142 final size:141
Alignment explanation
Indices: 16539076--16539718 Score: 582
Period size: 142 Copynumber: 4.5 Consensus size: 141
16539066 TTTGATTCAT
* * *
16539076 GATTTAATCCGATCATTTCATTTTTTGGCTTACGGTTCAGTCCCAGCCATCTTTAATCCTTGACT
1 GATTTAATCCGATCATTTCATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACT
* *
16539141 CACGGTTTAATCCCGGTCATTTCATTAATTCTTCGACTTACGATTCAGTCCCAGTCATTTTTAAT
66 CACGGTTTAATCCCGATCATTTCATTAATTCTTCGACTTACGATTCAGTCCCAGTCATCTTTAAT
*
16539206 CTTTGACTCAC
131 CTTTGACTCGC
* *
16539217 GATTTAATCTCGATCATTTCATTTTTTGACTTGTGGTTCAGTCCCAGTCGTCTTTAATCCTTGAC
1 GATTTAATC-CGATCATTTCATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGAC
** * * * * * *
16539282 TCGTGGTTTAATCCCGATCATTTTATTAATT-GTCAAACTTACAATTCAATCCTAGTCATCTTT-
65 TCACGGTTTAATCCCGATCATTTCATTAATTCTTC-GACTTACGATTCAGTCCCAGTCATCTTTA
*
16539345 ATCCTTTGACTCGT
129 AT-CTTTGACTCGC
* * * * * * * *
16539359 GGTTTAATCTTGGTCATTTCATTAATTATCCGACTTGTGGTTCAGTCGCAGTCATCTCTAATCTT
1 GATTTAATC-CGATCATTTCATT--TT-T-TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCT
* * * * * *
16539424 TGGCTCACGGTTTAATCTCGATCATTTC--T--TTC-TCTAGCTTGCGGTTCAGTTCCAGTCATC
61 TGACTCACGGTTTAATCCCGATCATTTCATTAATTCTTCGA-CTTACGATTCAGTCCCAGTCATC
*
16539484 TTTAATCCTTGACTCGC
125 TTTAATCTTTGACTCGC
* * *
16539501 GATTTAATCCTGATCATTTCATTAATTTTTTTGACTTGCGATTCAGTCCCAGTCGTCTTTAATCT
1 GATTTAATCC-GATCATTTC----A-TTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCC
* * * * * * ** * * * *
16539566 TTGACTCATGATTTTATCCCGGTCATTTCATTAATTTTTTTGACTTGTGGTTTAGTCCTAATCAT
60 TTGACTCACGGTTTAATCCCGATCATTTCATTAA-TTCTTCGACTTACGATTCAGTCCCAGTCAT
*
16539631 CTTTAATCTTCGACTCGC
124 CTTTAATCTTTGACTCGC
* *
16539649 GATTTAATCCCTG-TCATTTCATTAATTCTCTGATTTGCGGTTCAGTCCCTGTCATCTTTAATCC
1 GATTTAAT-CC-GATCATTTCATT--TT-T-TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCC
16539713 TTGACT
60 TTGACT
16539719 TGCGGTGTCG
Statistics
Matches: 406, Mismatches: 69, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
141 14 0.03
142 178 0.44
143 55 0.14
144 5 0.01
145 6 0.01
146 55 0.14
147 37 0.09
148 50 0.12
149 6 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (141 bp):
GATTTAATCCGATCATTTCATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACT
CACGGTTTAATCCCGATCATTTCATTAATTCTTCGACTTACGATTCAGTCCCAGTCATCTTTAAT
CTTTGACTCGC
Found at i:16539494 original size:215 final size:217
Alignment explanation
Indices: 16539111--16539718 Score: 692
Period size: 215 Copynumber: 2.8 Consensus size: 217
16539101 TGGCTTACGG
* * * *
16539111 TTCAGTCCCAGCCATCTTTAATCC-TTGACTCACGGTTTAATCCCGGTCATTTCATTAATTCTTC
1 TTCAATCCCAGTCATCTTTAATCCTTTGACTCATGGTTTAATCCCGGTCATTTCATTAATTATTC
** * *
16539175 GACTTACGATTCAGTCCCAGTCATTTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCATT
66 GACTTGTGGTTCAGT-CCAGTCATCTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCATT
* * * * *
16539240 T-TTTGACTTGTGGTTCAGTCCCAGTCGTCTTTAATCCTTGACTCGTGGTTTAATCCCGATCATT
130 TCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCCGATCATT
*
16539304 TTATTAA-TTGTCAAACTTACAA
195 TCATTAATTTGTCAAACTTACAA
* * ** *
16539326 TTCAATCCTAGTCATCTTT-ATCCTTTGACTCGTGGTTTAATCTTGGTCATTTCATTAATTATCC
1 TTCAATCCCAGTCATCTTTAATCCTTTGACTCATGGTTTAATCCCGGTCATTTCATTAATTATTC
* * *
16539390 GACTTGTGGTTCAGTCGCAGTCATCTCTAATCTTTGGCTCACGGTTTAATCTCGATCATTTC-TT
66 GACTTGTGGTTCAGTC-CAGTCATCTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCATT
* *
16539454 TCTCT-AGCTTGCGGTTCAGTTCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCTGATCAT
130 TCTCTGA-CTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCCGATCAT
* *** * *
16539518 TTCATTAATTTTTTTGACTTGCGA
194 TTCATTAATTTGTCAAACTTACAA
* * * * *
16539542 TTCAGTCCCAGTCGTCTTTAAT-CTTTGACTCATGATTTTATCCCGGTCATTTCATTAATTTTTT
1 TTCAATCCCAGTCATCTTTAATCCTTTGACTCATGGTTTAATCCCGGTCATTTCATTAA-TTATT
* * * * * *
16539606 TGACTTGTGGTTTAGTCCTAATCATCTTTAATCTTCGACTCGCGATTTAATCCCTG-TCATTTCA
65 CGACTTGTGGTTCAGTCC-AGTCATCTTTAATCTTTGACTCACGATTTAATCTC-GATCATTTCA
* *
16539670 TTAATTCTCTGATTTGCGGTTCAGTCCCTGTCATCTTTAATCCTTGACT
128 -T--TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACT
16539719 TGCGGTGTCG
Statistics
Matches: 327, Mismatches: 52, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
214 9 0.03
215 163 0.50
216 57 0.17
217 55 0.17
218 1 0.00
219 1 0.00
221 40 0.12
222 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (217 bp):
TTCAATCCCAGTCATCTTTAATCCTTTGACTCATGGTTTAATCCCGGTCATTTCATTAATTATTC
GACTTGTGGTTCAGTCCAGTCATCTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCATTT
CTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCCGATCATTT
CATTAATTTGTCAAACTTACAA
Found at i:16539732 original size:35 final size:37
Alignment explanation
Indices: 16539656--16539732 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 37
16539646 CGCGATTTAA
* *
16539656 TCCCTGTCATTTCATTAATTCTCTGATTTGCGGTTCAG
1 TCCCTGTCA-TTCATTAATCCTCTGACTTGCGGTTCAG
*
16539694 TCCCTGTCA-TCTTTAATCCT-TGACTTGCGGTGTC-G
1 TCCCTGTCATTCATTAATCCTCTGACTTGCGGT-TCAG
16539729 TCCC
1 TCCC
16539733 GATCACTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 15 0.43
36 11 0.31
38 9 0.26
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.42
Consensus pattern (37 bp):
TCCCTGTCATTCATTAATCCTCTGACTTGCGGTTCAG
Found at i:16540006 original size:23 final size:21
Alignment explanation
Indices: 16539980--16540018 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16539970 TTATTATTAA
*
16539980 TAATAA-TATTTAAAAATAAT
1 TAATAATTATATAAAAATAAT
*
16540000 TATTAATTATATAAAAATA
1 TAATAATTATATAAAAATA
16540019 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAATTATATAAAAATAAT
Found at i:16540022 original size:29 final size:29
Alignment explanation
Indices: 16539969--16540026 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
16539959 TAATGATAAT
*
16539969 ATTATTATTAATAATAATATTTAAAAATA
1 ATTATTATTAATAATAATATATAAAAATA
* *
16539998 ATTATTAATTATATAAAAATATAAAAAAA
1 ATTATT-ATTA-ATAATAATATATAAAAA
16540027 ATGAAACGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 4 0.17
31 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
ATTATTATTAATAATAATATATAAAAATA
Found at i:16541355 original size:16 final size:16
Alignment explanation
Indices: 16541334--16541445 Score: 84
Period size: 16 Copynumber: 6.9 Consensus size: 16
16541324 TTTAAAACCT
16541334 CTAAAATTCGAAATCC
1 CTAAAATTCGAAATCC
16541350 CTAAAATTC-AAATCC
1 CTAAAATTCGAAATCC
*
16541365 CTAAAAATCCGAAATCC
1 CT-AAAATTCGAAATCC
* * *
16541382 CTTAAA-TCCAAACCC
1 CTAAAATTCGAAATCC
* *
16541397 CTATAAAATCCGAAACCC
1 C--TAAAATTCGAAATCC
* * *
16541415 CTAAAATCCAAAACCC
1 CTAAAATTCGAAATCC
* *
16541431 CCAAAATTCAAAATC
1 CTAAAATTCGAAATC
16541446 TGAAACTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
15 15 0.19
16 44 0.56
17 12 0.15
18 8 0.10
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (16 bp):
CTAAAATTCGAAATCC
Found at i:16541410 original size:33 final size:33
Alignment explanation
Indices: 16541335--16541431 Score: 133
Period size: 32 Copynumber: 2.9 Consensus size: 33
16541325 TTAAAACCTC
* * *
16541335 TAAAATTCGAAATCCCTAAAATTCAAATCCCTA
1 TAAAATCCGAAATCCCTAAAATCCAAACCCCTA
*
16541368 -AAAATCCGAAATCCCTTAAATCCAAACCCCTA
1 TAAAATCCGAAATCCCTAAAATCCAAACCCCTA
*
16541400 TAAAATCCGAAACCCCTAAAATCCAAAACCCC
1 TAAAATCCGAAATCCCTAAAATCC-AAACCCC
16541432 CAAAATTCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 28 0.50
33 21 0.38
34 7 0.12
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (33 bp):
TAAAATCCGAAATCCCTAAAATCCAAACCCCTA
Found at i:16547710 original size:21 final size:21
Alignment explanation
Indices: 16547684--16547725 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16547674 CCGATGGGTA
16547684 TTCCATGTCGCATGATTCTTT
1 TTCCATGTCGCATGATTCTTT
16547705 TTCCATGTCGCATGATTCTTT
1 TTCCATGTCGCATGATTCTTT
16547726 AGCTTTCAGC
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:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCCATGTCGCATGATTCTTT
Found at i:16548781 original size:2 final size:2
Alignment explanation
Indices: 16548774--16548811 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
16548764 GAATGGAAAC
16548774 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16548812 CACACACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16548869 original size:2 final size:2
Alignment explanation
Indices: 16548862--16548899 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
16548852 TGTTACACAT
16548862 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16548900 GATGAGTAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16549086 original size:2 final size:2
Alignment explanation
Indices: 16549074--16549113 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
16549064 ATAGATAGAG
*
16549074 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16549114 GACCAGATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16551079 original size:39 final size:39
Alignment explanation
Indices: 16551020--16551099 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
16551010 CAGGTCCCGG
* *
16551020 AGCCGTGCGGGTTCGAAGCTTATGTCTCGACCCGTGACA
1 AGCCGTGCGGGTTCGAAGCTTAAGTCTCAACCCGTGACA
*
16551059 AGCCGTGCGGGTTCGGAGCTTAAGTCTCAACCCGTGACA
1 AGCCGTGCGGGTTCGAAGCTTAAGTCTCAACCCGTGACA
16551098 AG
1 AG
16551100 TGGTATTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.21
Consensus pattern (39 bp):
AGCCGTGCGGGTTCGAAGCTTAAGTCTCAACCCGTGACA
Found at i:16556892 original size:16 final size:17
Alignment explanation
Indices: 16556863--16556938 Score: 50
Period size: 17 Copynumber: 4.2 Consensus size: 17
16556853 AAAGTATATT
*
16556863 AAAATTATTAATATTTA
1 AAAATAATTAATATTTA
16556880 AAAATAATT-ATATTTTA
1 AAAATAATTAATA-TTTA
16556897 ATAAA-ACATTTAATA-TTA
1 A-AAATA-A-TTAATATTTA
*
16556915 AAATATTATATTAATTTTTA
1 AAA-A-TA-ATTAATATTTA
16556935 AAAA
1 AAAA
16556939 ATTTAAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
16 3 0.06
17 16 0.34
18 9 0.19
19 8 0.17
20 11 0.23
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATAATTAATATTTA
Found at i:16556965 original size:21 final size:20
Alignment explanation
Indices: 16556941--16557028 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 20
16556931 TTTAAAAAAT
* *
16556941 TTAAAATTACTATTATTATTC
1 TTAAAATTA-TATTATTAATA
*
16556962 TTAAATATTATTTTATTAATA
1 TTAAA-ATTATATTATTAATA
* * *
16556983 TTAAAATAATAATATTTATTA
1 TTAAAATTATATTA-TTAATA
16557004 TTAAAATATTTATATTATTAA-A
1 TT-AAA-A-TTATATTATTAATA
16557026 TTA
1 TTA
16557029 TTTATATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
20 6 0.12
21 26 0.50
22 10 0.19
23 4 0.08
24 6 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAAATTATATTATTAATA
Found at i:16557021 original size:17 final size:17
Alignment explanation
Indices: 16556999--16557036 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
16556989 TAATAATATT
16556999 TATTATTAAAATATTTA
1 TATTATTAAAATATTTA
*
16557016 TATTATTAAATTATTTA
1 TATTATTAAAATATTTA
16557033 TATT
1 TATT
16557037 TTATATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTAAAATATTTA
Found at i:16557022 original size:24 final size:22
Alignment explanation
Indices: 16556946--16557023 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 22
16556936 AAAATTTAAA
*
16556946 ATTACTATTATTATTCTT-AAAT
1 ATTA-TATTATTATTATTAAAAT
* *
16556968 ATTATTTTATTAATATTAAAAT
1 ATTATATTATTATTATTAAAAT
*
16556990 A--ATAATATTTATTATTAAAAT
1 ATTATATTA-TTATTATTAAAAT
16557011 ATTTATATTATTA
1 A-TTATATTATTA
16557024 AATTATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.09
21 23 0.52
22 9 0.20
23 3 0.07
24 5 0.11
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTATTATTATTAAAAT
Found at i:16557036 original size:14 final size:15
Alignment explanation
Indices: 16556993--16557033 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
16556983 TTAAAATAAT
16556993 AATATTTATTATTAA
1 AATATTTATTATTAA
16557008 AATATTTATATTATTAA
1 AATA-TT-TATTATTAA
*
16557025 ATTATTTAT
1 AATATTTAT
16557034 ATTTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATTTATTATTAA
Found at i:16561779 original size:23 final size:21
Alignment explanation
Indices: 16561753--16561791 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16561743 TTATTATTAA
*
16561753 TAATAA-TATTTAAAAATAAT
1 TAATAATTATATAAAAATAAT
*
16561773 TATTAATTATATAAAAATA
1 TAATAATTATATAAAAATA
16561792 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAATTATATAAAAATAAT
Found at i:16561795 original size:29 final size:29
Alignment explanation
Indices: 16561742--16561799 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
16561732 TAATGATAAT
*
16561742 ATTATTATTAATAATAATATTTAAAAATA
1 ATTATTATTAATAATAATATATAAAAATA
* *
16561771 ATTATTAATTATATAAAAATATAAAAAAA
1 ATTATT-ATTA-ATAATAATATATAAAAA
16561800 ATGAAACGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 4 0.17
31 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
ATTATTATTAATAATAATATATAAAAATA
Found at i:16563280 original size:16 final size:16
Alignment explanation
Indices: 16563249--16563335 Score: 93
Period size: 16 Copynumber: 5.2 Consensus size: 16
16563239 CTAAGTTTTT
16563249 AAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
16563266 AAAATCCCTAAAATCT
1 AAAACCCCTAAAATCC
* *
16563282 AAACCCCCTATAAAATCT
1 AAAACCCC--TAAAATCC
*
16563300 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
16563316 AAAACCCCCAAAATCC
1 AAAACCCCTAAAATCC
16563332 AAAA
1 AAAA
16563336 TCTCAAACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
16 37 0.63
17 8 0.14
18 14 0.24
ACGTcount: A:0.51, C:0.33, G:0.01, T:0.15
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:16563297 original size:34 final size:34
Alignment explanation
Indices: 16563248--16563337 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
16563238 CCTAAGTTTT
*
16563248 TAAAACCCCTAAAAATCCAAAATCCCTAAAAT-C
1 TAAACCCCCTAAAAATCCAAAATCCCTAAAATCC
** *
16563281 TAAACCCCCTATAAAATCTGAAACCCCTAAAATCC
1 TAAACCCCCTA-AAAATCCAAAATCCCTAAAATCC
*
16563316 AAAACCCCC--AAAATCCAAAATC
1 TAAACCCCCTAAAAATCCAAAATC
16563338 TCAAACTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
32 10 0.21
33 10 0.21
34 18 0.38
35 9 0.19
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (34 bp):
TAAACCCCCTAAAAATCCAAAATCCCTAAAATCC
Found at i:16563402 original size:45 final size:45
Alignment explanation
Indices: 16563305--16563413 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
16563295 AATCTGAAAC
* * * *
16563305 CCCTAAAATCCAAAACCCCCAAAATCCAAAATCTCAAACTTTTAAA
1 CCCTTAAA-CCAAAACCCCCAAAATCCAAAATCCCAAACATTCAAA
* * *
16563351 CTCTTAAACCTAAACCCCCTAAATCCAAAATCCCTAAA-ATTCAAA
1 CCCTTAAACCAAAACCCCCAAAATCCAAAATCCC-AAACATTCAAA
*
16563396 CCCTTAAATCAAAACCCC
1 CCCTTAAACCAAAACCCC
16563414 AAACCTCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
45 43 0.83
46 9 0.17
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (45 bp):
CCCTTAAACCAAAACCCCCAAAATCCAAAATCCCAAACATTCAAA
Found at i:16571448 original size:33 final size:33
Alignment explanation
Indices: 16571406--16571978 Score: 619
Period size: 33 Copynumber: 17.5 Consensus size: 33
16571396 AAAAGAAAAA
*
16571406 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCAT-TAATGAAG
*** *
16571439 CTTTAAGCCCAGTTTATCTGGTTTTTAATGAAA
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* **
16571472 CTTTAAGCCTAGTTTATCTGGCCAACAATG-A-
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* *
16571503 CATTTAAGCCCAATTTATCTCGCCATTAATGAAG
1 C-TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16571537 CTTTAAGCCCAATTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
16571570 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16571603 CTTTAAGCGCAGCTTATCTGACCATTAATAAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * *
16571636 CTTTAAGCCCAGCTTATCTGGCTATTAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16571669 CTTTAAGCCCAGCTTATCTGGCTATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* *
16571702 CTTTAAGCCCAATTTATCTAGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* **
16571735 ATTTAAG-CCAGTTTATCTGGCCAACAATG-A-
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16571765 CATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 C-TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * *
16571799 TTTTAAGCCTAGTTTATTTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16571832 CTTTAAGCCCAGTTTATTTGACCATCAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16571865 CTTTAAACCCAGTTTATCTGGTCTCA--AATG-A-
1 CTTTAAGCCCAGTTTATCTGG-C-CATTAATGAAG
* *
16571896 CATTTAAGCCCAGTTTATCTGACCATTAATAAAG
1 C-TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
* * * *
16571930 TTTTAAGCCCAGTTTATTTGGCC-TCAAATGAGG
1 CTTTAAGCCCAGTTTATCTGGCCAT-TAATGAAG
*
16571963 TTTTAAGCCCAGTTTA
1 CTTTAAGCCCAGTTTA
16571979 GCTGACCTTC
Statistics
Matches: 462, Mismatches: 62, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.00
31 10 0.02
32 86 0.19
33 359 0.78
34 3 0.01
35 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
Found at i:16571540 original size:98 final size:97
Alignment explanation
Indices: 16571407--16572009 Score: 621
Period size: 98 Copynumber: 6.1 Consensus size: 97
16571397 AAAGAAAAAC
* ***
16571407 TTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAGCCCAGTTTATCTGGTTTTTAATGAA
1 TTTAAGCCCAGTTTATCT-GCCAT-TAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
* * *
16571471 ACTTTAAGCCTAGTTTATCTGGCCAACAATGACA
64 GCTTTAAGCCCAGTTTATCTGGCCATCAATGACA
* *
16571505 TTTAAGCCCAATTTATCTCGCCATTAATGAAGCTTTAAGCCCAATTTATCTGGCCATTAATGAAG
1 TTTAAGCCCAGTTTATCT-GCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
*
16571570 CTTTAAGCCCAGTTTATCTGGCCATTAATGA-A
65 CTTTAAGCCCAGTTTATCTGGCCATCAATGACA
* * * * *
16571602 GCTTTAAGCGCAGCTTATCTGACCATTAATAAAGCTTTAAGCCCAGCTTATCTGGCTATTAATGA
1 --TTTAAGCCCAGTTTATCTG-CCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGA
* * *
16571667 GGCTTTAAGCCCAGCTTATCTGGCTATCAATGAGGC-
63 AGCTTTAAGCCCAGTTTATCTGGCCATCAATGA--CA
* * **
16571703 TTTAAGCCCAATTTATCTAGCCATTAATGAAGATTTAAG-CCAGTTTATCTGGCCAACAATG-A-
1 TTTAAGCCCAGTTTATCT-GCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
16571765 CATTTAAGCCCAGTTTATCTGGCCATCAATGA-A
65 C-TTTAAGCCCAGTTTATCTGGCCATCAATGACA
* * * * *
16571798 GTTTTAAGCCTAGTTTATTTGGCCATTAATGAAGCTTTAAGCCCAGTTTATTTGACCATCAATGA
1 --TTTAAGCCCAGTTTATCT-GCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGA
* * *
16571863 GGCTTTAAACCCAGTTTATCTGGTC-TCAAATGACA
63 AGCTTTAAGCCCAGTTTATCTGGCCATC-AATGACA
* * * * *
16571898 TTTAAGCCCAGTTTATCTGACCATTAATAAAGTTTTAAGCCCAGTTTATTTGGCC-TCAAATGAG
1 TTTAAGCCCAGTTTATCTG-CCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCAT-TAATGAA
* * * * * *
16571962 GTTTTAAGCCCAGTTTAGCTGACCTTCAATAAAA
64 GCTTTAAGCCCAGTTTATCTGGCCATCAATGACA
*
16571996 TTTAAGCCAAGTTT
1 TTTAAGCCCAGTTT
16572010 GTTTGGCCCC
Statistics
Matches: 426, Mismatches: 59, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
96 1 0.00
97 65 0.15
98 214 0.50
99 143 0.34
100 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (97 bp):
TTTAAGCCCAGTTTATCTGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAAGC
TTTAAGCCCAGTTTATCTGGCCATCAATGACA
Found at i:16571589 original size:131 final size:130
Alignment explanation
Indices: 16571406--16572009 Score: 666
Period size: 131 Copynumber: 4.6 Consensus size: 130
16571396 AAAAGAAAAA
***
16571406 CTTTAAGCCCAGTTTATCTGGCC-TCAAATGAAGCTTTAAGCCCAGTTTATCTGGTTTTTAATGA
1 CTTTAAGCCCAGTTTATCTGGCCAT-AAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGA
* *
16571470 AACTTTAAGCCTAGTTTATCTGGCCAACAATGACATTTAAGCCCAATTTATCTCGCCATTAATGA
65 AACTTTAAGCC-AGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATGA
16571535 AG
129 AG
* *
16571537 CTTTAAGCCCAATTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
1 CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
* * * ** * * *
16571602 GCTTTAAGCGCAGCTTATCTGACCATTAAT-AAAGCTTTAAGCCCAGCTTATCTGGCTATTAATG
66 ACTTTAAGC-CAGTTTATCTGGCCAACAATGACA--TTTAAGCCCAGTTTATCTGGCCATTAATG
*
16571666 AGG
128 AAG
* * * * * *
16571669 CTTTAAGCCCAGCTTATCTGGCTATCAATGAGGCTTTAAGCCCAATTTATCTAGCCATTAATGAA
1 CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
*
16571734 GA-TTTAAGCCAGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATCAATGAA
66 -ACTTTAAGCCAGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATGAA
16571798 G
130 G
* * * * * * * *
16571799 TTTTAAGCCTAGTTTATTTGGCCATTAATGAAGCTTTAAGCCCAGTTTATTTGACCATCAATGAG
1 CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
* * * *
16571864 GCTTTAAACCCAGTTTATCTGGTCTC-A-AATGACATTTAAGCCCAGTTTATCTGACCATTAATA
66 ACTTT-AAGCCAGTTTATCTGG-C-CAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATG
16571927 AAG
128 AAG
* * * * * *
16571930 TTTTAAGCCCAGTTTATTTGGCC-TCAAATGAGGTTTTAAGCCCAGTTTAGCTGACC-TTCAAT-
1 CTTTAAGCCCAGTTTATCTGGCCAT-AAATGAAGCTTTAAGCCCAGTTTATCTGGCCATT-AATG
*
16571992 AAAATTTAAGCCAAGTTT
64 AAACTTTAAGCC-AGTTT
16572010 GTTTGGCCCC
Statistics
Matches: 398, Mismatches: 62, Indels: 27
0.82 0.13 0.06
Matches are distributed among these distances:
129 4 0.01
130 96 0.24
131 199 0.50
132 98 0.25
133 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (130 bp):
CTTTAAGCCCAGTTTATCTGGCCATAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATTAATGAA
ACTTTAAGCCAGTTTATCTGGCCAACAATGACATTTAAGCCCAGTTTATCTGGCCATTAATGAAG
Found at i:16572742 original size:22 final size:22
Alignment explanation
Indices: 16572714--16572789 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
16572704 TTTTAAGATT
**
16572714 TGTAAGACCTCCGGGCATAATC
1 TGTAAGACCTCCGAACATAATC
16572736 TGTAAGACCTCCGAACATAATC
1 TGTAAGACCTCCGAACATAATC
*
16572758 TGTAAGACCTCCG-ACATGATTC
1 TGTAAGACCTCCGAACAT-AATC
*
16572780 TATAAGACCT
1 TGTAAGACCT
16572790 TCAAGCATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.08
22 45 0.92
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (22 bp):
TGTAAGACCTCCGAACATAATC
Found at i:16572819 original size:22 final size:21
Alignment explanation
Indices: 16572710--16572819 Score: 85
Period size: 22 Copynumber: 5.0 Consensus size: 21
16572700 AAGATTTTAA
16572710 GATTTGTAAGACCTCCGGGCAT
1 GATTTGTAAGACCTCC-GGCAT
* * *
16572732 AATCTGTAAGACCTCCGAACAT
1 GATTTGTAAGACCTCCG-GCAT
* * *
16572754 AATCTGTAAGACCTCCGACAT
1 GATTTGTAAGACCTCCGGCAT
* **
16572775 GATTCTATAAGACCTTCAAGCAT
1 GATT-TGTAAGACC-TCCGGCAT
*
16572798 GATTTCTAAGACCTCCAGGCAT
1 GATTTGTAAGACCTCC-GGCAT
16572820 AAATTTGATT
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 9 0.12
22 54 0.75
23 9 0.12
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (21 bp):
GATTTGTAAGACCTCCGGCAT
Found at i:16572940 original size:21 final size:21
Alignment explanation
Indices: 16572884--16572946 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
16572874 TTATCCCAGT
* *
16572884 CAATTCTGTAAGACCTTCGAA
1 CAATTTTGTAAGACCTTCGGA
*
16572905 C-ATGGTTTTTAAGACCTTCGGA
1 CAAT--TTTGTAAGACCTTCGGA
*
16572927 CAATTTTGTAAGACTTTCGG
1 CAATTTTGTAAGACCTTCGG
16572947 GTATGATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.06
21 15 0.44
22 15 0.44
23 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (21 bp):
CAATTTTGTAAGACCTTCGGA
Found at i:16572975 original size:23 final size:22
Alignment explanation
Indices: 16572892--16572995 Score: 72
Period size: 22 Copynumber: 4.7 Consensus size: 22
16572882 GTCAATTCTG
* * *
16572892 TAAGACCTTCGAACATGGTTTT
1 TAAGACCTTCGAGCATGATTTA
*
16572914 TAAGACCTTCG-GACA--ATTTTG
1 TAAGACCTTCGAG-CATGA-TTTA
* * *
16572935 TAAGACTTTCGGGTATGATTCTA
1 TAAGACCTTCGAGCATGATT-TA
*
16572958 TAAGACC-TCTGAGCATGATTTC
1 TAAGACCTTC-GAGCATGATTTA
16572980 TAAGACCTTCGAGCAT
1 TAAGACCTTCGAGCAT
16572996 AAATTTGATT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
21 14 0.22
22 32 0.50
23 18 0.28
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (22 bp):
TAAGACCTTCGAGCATGATTTA
Found at i:16573091 original size:154 final size:153
Alignment explanation
Indices: 16572910--16573231 Score: 396
Period size: 154 Copynumber: 2.1 Consensus size: 153
16572900 TCGAACATGG
* * * * * * *
16572910 TTTTTAAGACCTTCGGACAATTTTGTAAGA-CTTTCGGGTATGATTCTATAAGACC-TCTGAGCA
1 TTTTTAAGACCTCCAGACAATTGTGTAAGACCTCT-AGGCATGATTCTATAAGACCTTCAGA-CA
* * *
16572973 TGATTTCTAAGACCTTCGAGCATAAATTTGATTCGTGATGTTATCCCAATCAATTCTTTATCTTT
64 TGATTTCTAAGAACTCCGAGCATAAATTTGATTCGCGATGTTATCCCAATCAATTCTTTATCTTT
16573038 TAACTTACGGTGTTATCCCAATCAA
129 TAACTTACGGTGTTATCCCAATCAA
*
16573063 TTTTATAAGACCTCCAGACAATTGTGTAAGACCTCTAGGCATGATTCTGTAAGACCTTCAGACAT
1 TTTT-TAAGACCTCCAGACAATTGTGTAAGACCTCTAGGCATGATTCTATAAGACCTTCAGACAT
* * * * *
16573128 GATTTCTAAGAACTCCGGGTATAAATTTGATTCGCGGTGTTATCCCGATCAATTTTTTATCTTTT
65 GATTTCTAAGAACTCCGAGCATAAATTTGATTCGCGATGTTATCCCAATCAATTCTTTATCTTTT
** * * *
16573193 AACTTGTGGTGTTATCTCAGTCGA
130 AACTTACGGTGTTATCCCAATCAA
*
16573217 TTCTGTAAGACCTCC
1 TT-TTTAAGACCTCC
16573232 GAGCATGATT
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
153 4 0.03
154 131 0.92
155 8 0.06
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (153 bp):
TTTTTAAGACCTCCAGACAATTGTGTAAGACCTCTAGGCATGATTCTATAAGACCTTCAGACATG
ATTTCTAAGAACTCCGAGCATAAATTTGATTCGCGATGTTATCCCAATCAATTCTTTATCTTTTA
ACTTACGGTGTTATCCCAATCAA
Found at i:16573128 original size:23 final size:23
Alignment explanation
Indices: 16573068--16573131 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
16573058 ATCAATTTTA
* *
16573068 TAAGACCTCCAGACA--ATTGTG
1 TAAGACCTTCAGACATGATTCTG
*
16573089 TAAGACC-TCTAGGCATGATTCTG
1 TAAGACCTTC-AGACATGATTCTG
16573112 TAAGACCTTCAGACATGATT
1 TAAGACCTTCAGACATGATT
16573132 TCTAAGAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
23 21 0.60
24 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (23 bp):
TAAGACCTTCAGACATGATTCTG
Found at i:16573246 original size:23 final size:23
Alignment explanation
Indices: 16573215--16573265 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16573205 TATCTCAGTC
* *
16573215 GATTCTGTAAGACCTCCGAGCAT
1 GATTTTGTAAGACCTCCAAGCAT
*
16573238 GATTTTGTAAGACCTTCAAGCAT
1 GATTTTGTAAGACCTCCAAGCAT
16573261 GATTT
1 GATTT
16573266 CTAAGACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
GATTTTGTAAGACCTCCAAGCAT
Found at i:16573521 original size:73 final size:73
Alignment explanation
Indices: 16573396--16574046 Score: 523
Period size: 73 Copynumber: 9.1 Consensus size: 73
16573386 AGGCATAAAT
* * * * *
16573396 TTGATTCATGATTTAAT-CCGATCATTTCATT--TT-TT-GGCTTACGGTTCAGTCCCAGCCATC
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
16573456 TTTAATCC
66 TTTAATCC
* * * *
16573464 TTGACTCACGGTTTAATCCCGGTCATTTCATTAATTCTTCGACTTACGATTCAGTCCCAGTCAT-
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
*
16573528 TTTAATCT
66 TTTAATCC
* * *
16573536 TTGACTCACGATTTAATCTCGATCATTTCATT--TT-TT-GACTTGTGGTTCAGTCCCAGTCGTC
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
16573597 TTTAATCC
66 TTTAATCC
** * * * * * ** * *
16573605 TTGACTCGTGGTTTAATCCCGATCATTTTATTAATT-GTCAAACTTACAATTCAATCCTAGTCAT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTC-GACTTGCGGTTCAGTCCCAGTCAT
16573669 CTTT-ATCC
65 CTTTAATCC
** * ** * * * * *
16573677 TTTGACTCGTGGTTTAATCTTGGTCATTTCATTAATTATCCGACTTGTGGTTCAGTCGCAGTCAT
1 -TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCAT
* *
16573742 CTCTAATCT
65 CTTTAATCC
* * * * * *
16573751 TTGGCTCACGGTTTAATCTCAATCATTTC--T--TTC-TCTAGCTTGCGGTTCAGTTCCAGTCAT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGA-CTTGCGGTTCAGTCCCAGTCAT
16573811 CTTTAATCC
65 CTTTAATCC
* * * * * *
16573820 TTGACTCGCGATTTAATCCTGATCATTTCATTAATTTTTTTGACTTGCGATTCAGTCCCAGTCGT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAA-TTCTTCGACTTGCGGTTCAGTCCCAGTCAT
*
16573885 CTTTAATCT
65 CTTTAATCC
* * * * * * * * *
16573894 TTGACTCATGATTTTATCCCGGTCATTTCATTAATTTTTTTGACTTGTGGTTTAGTCCTAATCAT
1 TTGACTCACGATTTAATCCCGATCATTTCATTAA-TTCTTCGACTTGCGGTTCAGTCCCAGTCAT
16573959 CTTTAAT-C
65 CTTTAATCC
* * * *
16573967 TTCGACTCGCGATTTAATCCCTG-TCATTTCATTAATTC-TCTGATTTGCGATTCAGTCCCTGTC
1 TT-GACTCACGATTTAATCCC-GATCATTTCATTAATTCTTC-GACTTGCGGTTCAGTCCCAGTC
*
16574030 ATCTTTAATCT
63 ATCTTTAATCC
16574041 TTGACT
1 TTGACT
16574047 TGCGGTGTCG
Statistics
Matches: 461, Mismatches: 98, Indels: 43
0.77 0.16 0.07
Matches are distributed among these distances:
68 36 0.08
69 100 0.22
70 2 0.00
71 7 0.02
72 43 0.09
73 147 0.32
74 123 0.27
75 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (73 bp):
TTGACTCACGATTTAATCCCGATCATTTCATTAATTCTTCGACTTGCGGTTCAGTCCCAGTCATC
TTTAATCC
Found at i:16573527 original size:38 final size:37
Alignment explanation
Indices: 16573433--16573529 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 37
16573423 CATTTTTTGG
* *
16573433 CTTACGGTTCAGTCCCAGCCA--TCTTTAATCCTTGA
1 CTTACGGTTCAGTCCCAGTCATTTCATTAATCCTTGA
* * * * *
16573468 CTCACGGTTTAATCCCGGTCATTTCATTAATTCTTCGA
1 CTTACGGTTCAGTCCCAGTCATTTCATTAATCCTT-GA
*
16573506 CTTACGATTCAGTCCCAGTCATTT
1 CTTACGGTTCAGTCCCAGTCATTT
16573530 TAATCTTTGA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
35 16 0.34
37 10 0.21
38 21 0.45
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (37 bp):
CTTACGGTTCAGTCCCAGTCATTTCATTAATCCTTGA
Found at i:16573573 original size:34 final size:33
Alignment explanation
Indices: 16573395--16573575 Score: 83
Period size: 34 Copynumber: 5.2 Consensus size: 33
16573385 TAGGCATAAA
* *
16573395 TTTGATTCATGATTTAATCCGATCATTTCATTT
1 TTTGACTCACGATTTAATCCGATCATTTCATTT
* * * * * * * * * *
16573428 TTTGGCTTACGGTTCAGTCCCAGCCATCTTTAATC
1 TTTGACTCACGATTTAATCCGA-TCAT-TTCATTT
* * *
16573463 CTTGACTCACGGTTTAATCCCGGTCATTTCATTAAT
1 TTTGACTCACGATTTAAT-CCGATCATTTCATT--T
* * * * * * *
16573499 TCTTCGACTTACGATTCAGTCCCAGTCATTTTAATC
1 T-TT-GACTCACGATTTAATCCGA-TCATTTCATTT
16573535 TTTGACTCACGATTTAATCTCGATCATTTCATTT
1 TTTGACTCACGATTTAATC-CGATCATTTCATTT
16573569 TTTGACT
1 TTTGACT
16573576 TGTGGTTCAG
Statistics
Matches: 99, Mismatches: 40, Indels: 17
0.63 0.26 0.11
Matches are distributed among these distances:
33 14 0.14
34 35 0.35
35 24 0.24
36 3 0.03
37 4 0.04
38 19 0.19
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (33 bp):
TTTGACTCACGATTTAATCCGATCATTTCATTT
Found at i:16573837 original size:215 final size:214
Alignment explanation
Indices: 16573452--16574046 Score: 575
Period size: 215 Copynumber: 2.7 Consensus size: 214
16573442 CAGTCCCAGC
* *
16573452 CATCTTTAATCCTTGACTCACGGTTTAATCCCGGTCATTTCATTAATTCTTCGACTTACGATTCA
1 CATCTTTAATCCTTGACTCACGGTTTAATCCCGGTCATTTCATTAATTATCCGACTTACGATTCA
* * * *
16573517 GTCCCAGTCATTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCATTTTTTGACTTGTGGT
66 GTCCCAGTCATTCTAATCTTTGACTCACGATTTAATCTCAATCATTTCATTTTTAGACTTGCGGT
* * * *
16573582 TCAGTCCCAGTCGTCTTTAATCCTTGACTCGTGGTTTAATCCCGATCATTTTATTAATTGTCAAA
131 TCAGTCCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCCGATCATTTCATTAATTGTCAAA
16573647 CTTACAATTCAATCCTAGT
196 CTTACAATTCAATCCTAGT
** ** ** *
16573666 CATCTTT-ATCCTTTGACTCGTGGTTTAATCTTGGTCATTTCATTAATTATCCGACTTGTGGTTC
1 CATCTTTAATCC-TTGACTCACGGTTTAATCCCGGTCATTTCATTAATTATCCGACTTACGATTC
* * *
16573730 AGTCGCAGTCATCTCTAATCTTTGGCTCACGGTTTAATCTCAATCATTTC-TTTCTCTAG-CTTG
65 AGTCCCAGTCAT-TCTAATCTTTGACTCACGATTTAATCTCAATCATTTCATTT-T-TAGACTTG
* * *
16573793 CGGTTCAGTTCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCTGATCATTTCATTAATTTT
127 CGGTTCAGTCCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCCGATCATTTCATTAA-TTG
*** * * * *
16573858 TTTGACTTGCGATTCAGTCCCAGT
191 TCAAACTTACAATTCAATCCTAGT
* * * * * * ** ** * *
16573882 CGTCTTTAATCTTTGACTCATGATTTTATCCCGGTCATTTCATTAATTTTTTTGACTTGTGGTTT
1 CATCTTTAATCCTTGACTCACGGTTTAATCCCGGTCATTTCATTAA-TTATCCGACTTACGATTC
* * * * * * ** * *
16573947 AGTCCTAATCATCTTTAATCTTCGACTCGCGATTTAATCCCTGTCATTTCATTAATTCTCTGATT
65 AGTCCCAGTCAT-TCTAATCTTTGACTCACGATTTAATCTCAATCATTTCATT--TT-T-AGACT
* * *
16574012 TGCGATTCAGTCCCTGTCATCTTTAATCTTTGACT
125 TGCGGTTCAGTCCCAGTCATCTTTAATCCTTGACT
16574047 TGCGGTGTCG
Statistics
Matches: 311, Mismatches: 58, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
213 4 0.01
214 64 0.21
215 92 0.30
216 56 0.18
217 56 0.18
218 2 0.01
219 3 0.01
220 2 0.01
221 32 0.10
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (214 bp):
CATCTTTAATCCTTGACTCACGGTTTAATCCCGGTCATTTCATTAATTATCCGACTTACGATTCA
GTCCCAGTCATTCTAATCTTTGACTCACGATTTAATCTCAATCATTTCATTTTTAGACTTGCGGT
TCAGTCCCAGTCATCTTTAATCCTTGACTCGCGATTTAATCCCGATCATTTCATTAATTGTCAAA
CTTACAATTCAATCCTAGT
Found at i:16574334 original size:23 final size:21
Alignment explanation
Indices: 16574308--16574346 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16574298 TTATTATTAA
*
16574308 TAATAA-TATTTAAAAATAAT
1 TAATAATTATATAAAAATAAT
*
16574328 TATTAATTATATAAAAATA
1 TAATAATTATATAAAAATA
16574347 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAATTATATAAAAATAAT
Found at i:16574350 original size:29 final size:29
Alignment explanation
Indices: 16574297--16574354 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
16574287 TAATGATAAT
*
16574297 ATTATTATTAATAATAATATTTAAAAATA
1 ATTATTATTAATAATAATATATAAAAATA
* *
16574326 ATTATTAATTATATAAAAATATAAAAAAA
1 ATTATT-ATTA-ATAATAATATATAAAAA
16574355 ATGAAACGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 4 0.17
31 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
ATTATTATTAATAATAATATATAAAAATA
Found at i:16575695 original size:17 final size:17
Alignment explanation
Indices: 16575673--16575761 Score: 96
Period size: 17 Copynumber: 5.4 Consensus size: 17
16575663 TTTAAAACCT
16575673 CTAAAAATCCGAAATCC
1 CTAAAAATCCGAAATCC
*
16575690 CT-AAAATTC-AAATCCC
1 CTAAAAATCCGAAAT-CC
16575706 CTAAAAATCCGAAATCC
1 CTAAAAATCCGAAATCC
* *
16575723 CT-TAAATCC-AAACCC
1 CTAAAAATCCGAAATCC
*
16575738 CTATAAAATCCGAAACCC
1 CTA-AAAATCCGAAATCC
16575756 CTAAAA
1 CTAAAA
16575762 TCCAAAACCC
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
15 11 0.18
16 16 0.26
17 21 0.34
18 13 0.21
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.19
Consensus pattern (17 bp):
CTAAAAATCCGAAATCC
Found at i:16575707 original size:16 final size:17
Alignment explanation
Indices: 16575676--16575779 Score: 94
Period size: 16 Copynumber: 6.3 Consensus size: 17
16575666 AAAACCTCTA
16575676 AAAATCCGAAAT-CCCT
1 AAAATCCGAAATCCCCT
*
16575692 AAAATTC-AAATCCCCT
1 AAAATCCGAAATCCCCT
16575708 AAAAATCCGAAAT-CCCT
1 -AAAATCCGAAATCCCCT
*
16575725 TAAATCC-AAA-CCCCTAT
1 AAAATCCGAAATCCCC--T
16575742 AAAATCCGAAA-CCCCT
1 AAAATCCGAAATCCCCT
* * *
16575758 AAAATCCAAAACCCCCC
1 AAAATCCGAAATCCCCT
16575775 AAAAT
1 AAAAT
16575780 TCAAAATCTG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
15 10 0.14
16 27 0.36
17 26 0.35
18 11 0.15
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATCCGAAATCCCCT
Found at i:16575715 original size:33 final size:32
Alignment explanation
Indices: 16575667--16575772 Score: 149
Period size: 33 Copynumber: 3.2 Consensus size: 32
16575657 TAAGTTTTTA
* *
16575667 AAACCTCTAAAAATCCGAAATCCCTAAAATTC
1 AAACCCCTAAAAATCCGAAATCCCTAAAATCC
*
16575699 AAATCCCCTAAAAATCCGAAATCCCTTAAATCC
1 AAA-CCCCTAAAAATCCGAAATCCCTAAAATCC
*
16575732 AAACCCCTATAAAATCCGAAACCCCTAAAATCC
1 AAACCCCTA-AAAATCCGAAATCCCTAAAATCC
16575765 AAAACCCC
1 -AAACCCC
16575773 CCAAAATTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
32 9 0.14
33 50 0.76
34 7 0.11
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.18
Consensus pattern (32 bp):
AAACCCCTAAAAATCCGAAATCCCTAAAATCC
Found at i:16575778 original size:17 final size:16
Alignment explanation
Indices: 16575742--16575785 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
16575732 AAACCCCTAT
* *
16575742 AAAATCCGAAACCCCT
1 AAAATCCAAAACCCCC
16575758 AAAATCCAAAACCCCCC
1 AAAATCCAAAA-CCCCC
*
16575775 AAAATTCAAAA
1 AAAATCCAAAA
16575786 TCTGAAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.52, C:0.34, G:0.02, T:0.11
Consensus pattern (16 bp):
AAAATCCAAAACCCCC
Found at i:16584083 original size:2 final size:2
Alignment explanation
Indices: 16584076--16584195 Score: 141
Period size: 2 Copynumber: 60.0 Consensus size: 2
16584066 ATATCCTTGC
* * *
16584076 AT AT AT AT AT AT AT AT GT AT AT AT TT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
16584118 GT AT AT AT AT TT GT AT AT AT TT GT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
16584160 AT AT AG AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16584196 GATAGAATTG
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:16584133 original size:38 final size:38
Alignment explanation
Indices: 16584076--16584193 Score: 191
Period size: 38 Copynumber: 3.1 Consensus size: 38
16584066 ATATCCTTGC
*
16584076 ATATATATATATATATGTATATATTTGTATATATATAT
1 ATATGTATATATATATGTATATATTTGTATATATATAT
*
16584114 ATATGTATATATATTTGTATATATTTGTATATATATAT
1 ATATGTATATATATATGTATATATTTGTATATATATAT
* * *
16584152 ATATGTATATATAGATGTATATATATATATATATATAT
1 ATATGTATATATATATGTATATATTTGTATATATATAT
16584190 ATAT
1 ATAT
16584194 ATGATAGAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.52
Consensus pattern (38 bp):
ATATGTATATATATATGTATATATTTGTATATATATAT
Found at i:16584251 original size:57 final size:57
Alignment explanation
Indices: 16584183--16584296 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
16584173 TATATATATA
* *
16584183 TATATATATATATGATAGAATTGAGTTGATTCCGGTTTTATAACAGGATATCAAATG
1 TATATACATATATGATAGAATTGAGTTGATTCCGGTTCTATAACAGGATATCAAATG
*
16584240 TATATACATATATGATAGAATTGAGTTGATTCCGGTTCTATGACAGGATATCAAATG
1 TATATACATATATGATAGAATTGAGTTGATTCCGGTTCTATAACAGGATATCAAATG
16584297 GCGGAGATTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (57 bp):
TATATACATATATGATAGAATTGAGTTGATTCCGGTTCTATAACAGGATATCAAATG
Found at i:16585028 original size:16 final size:18
Alignment explanation
Indices: 16585003--16585045 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
16584993 ATTTAATTTT
16585003 TATTTATATATATTTATA
1 TATTTATATATATTTATA
*
16585021 TAATTATATA-ATTT-TA
1 TATTTATATATATTTATA
16585037 TATTTATAT
1 TATTTATAT
16585046 TAAAAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 4 0.17
18 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTATATATATTTATA
Found at i:16585029 original size:18 final size:16
Alignment explanation
Indices: 16584991--16585045 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16584981 TTTTAATTGT
* *
16584991 TTATTTAATTTT-TAT
1 TTATATAATTTTATAA
16585006 TTATATATATTTATATAA
1 TTATATA-ATTT-TATAA
*
16585024 TTATATAATTTTATAT
1 TTATATAATTTTATAA
16585040 TTATAT
1 TTATAT
16585046 TAAAAAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 6 0.18
16 14 0.41
17 5 0.15
18 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATAATTTTATAA
Found at i:16585064 original size:20 final size:20
Alignment explanation
Indices: 16585039--16585083 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
16585029 TAATTTTATA
16585039 TTTATA-TTAAAAAGTAATAT
1 TTTATATTTAAAAA-TAATAT
16585059 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
16585079 TTTAT
1 TTTAT
16585084 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:16585769 original size:11 final size:11
Alignment explanation
Indices: 16585748--16585788 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
16585738 CAAATAATAT
16585748 TTTAAAA-TTA
1 TTTAAAATTTA
*
16585758 TTTGAAATTTA
1 TTTAAAATTTA
16585769 TTTAAAATTTA
1 TTTAAAATTTA
*
16585780 TGTAAAATT
1 TTTAAAATT
16585789 CACATTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (11 bp):
TTTAAAATTTA
Found at i:16585826 original size:13 final size:14
Alignment explanation
Indices: 16585803--16585865 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 14
16585793 TTTACAAGTG
*
16585803 ATAAATTTTTATAT
1 ATAATTTTTTATAT
16585817 AT-ATTTTTTATTAT
1 ATAATTTTTTA-TAT
16585831 AATTAAATTTTTT-TAT
1 -A-T-AATTTTTTATAT
16585847 ATAATTTTTTAT-T
1 ATAATTTTTTATAT
16585860 ATAATT
1 ATAATT
16585866 GAATAATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 22 0.52
14 7 0.17
15 2 0.05
16 4 0.10
18 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATAATTTTTTATAT
Done.