Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 19
Found at i:2729019 original size:19 final size:19
Alignment explanation
Indices: 2728993--2729041 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
2728983 AGAGAAAGAA
2728993 AAATATATAAATAACATAT
1 AAATATATAAATAACATAT
* *
2729012 ATATATATATATAACATAT
1 AAATATATAAATAACATAT
2729031 AAATTATATAA
1 AAA-TATATAA
2729042 TATATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATATATAAATAACATAT
Found at i:2729977 original size:124 final size:123
Alignment explanation
Indices: 2729694--2730414 Score: 769
Period size: 124 Copynumber: 5.8 Consensus size: 123
2729684 GCTTCTTGTG
* * *
2729694 AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTC
1 AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTT
* ** * * ** * *
2729759 GAATTGGATATCC-TCATTATGAAGCTGAAATCCAATTTAAATATAAATGTAGCTGGT
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGAATGTTGCTGGT
* * * * *
2729816 GGGCACGATATCCTTCGCCGTGAAGTTGAAATCGTGGATGGCCCCTTCGCTGTGAAGTTGAGCCT
1 -AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCT
* *
2729881 TGAATTGGATATCCTTCGTCATGAAGTTGAAATCCAATCTAAGGATGGATGTTGCTGGT
65 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGAATGTTGCTGGT
* * * *
2729940 AGACATGATATACTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGTCT
1 AG-CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCT
* * *
2730005 TGAATTGGATATCCTTCATCGTGAAGTTGAAATCCGATCTAAAGATGAATGTTGC---T
65 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGAATGTTGCTGGT
* * * *
2730061 AGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTAAAGTTTAGTCTT
1 AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTT
* * * * *
2730126 GAATTGGATATCCTTCTTCGTGAAGTTAAAATCCAATCTAAGAATG---GAT-ATGG-
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGAATGTTGCTGGT
* * * * *
2730179 -GCATGATATCCTTCGTCATGAAGTTGAAATCATGGATGACCCCTTCGTTGTGAAGTTGAGCTTT
1 AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTT
* * ** * * **
2730243 AAATTGGATATCCTTCGTTGTGAAGTTGATCTTTGAATTGGATATCCAAGTATTGTCTGTTGCTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGA------AA-TCCA-ATCTAAGGA-TGAATGTTGCTG
*
2730308 TT
122 GT
* * * * *
2730310 GGGCACGATATCCTTCATCGTGAAGTTGAACTCGTGGATGACTCATTCGTTGTGAAGTTAAGCCT
1 -AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCT
*
2730375 TGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCT
65 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
2730415 CGAGTAAATG
Statistics
Matches: 502, Mismatches: 75, Indels: 40
0.81 0.12 0.06
Matches are distributed among these distances:
117 82 0.16
120 98 0.20
121 3 0.01
123 75 0.15
124 143 0.28
125 10 0.02
126 4 0.01
127 2 0.00
129 2 0.00
130 2 0.00
133 81 0.16
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (123 bp):
AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTT
GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGAATGTTGCTGGT
Found at i:2730138 original size:244 final size:237
Alignment explanation
Indices: 2729699--2730414 Score: 824
Period size: 244 Copynumber: 2.9 Consensus size: 237
2729689 TTGTGAGCAC
* * * *
2729699 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTCGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAG-CTTGAATT
* * * * * * *
2729764 GGATATCC-TCATTATGAAGCTGAAATCCAATTTAAATATAAATGTAGCTGGTGGGCACGATATC
65 GGATATCCTTCATTGTGAAGTTGAAATCCGATATAAAGATGAATGT---TGCTGGGCACGATATC
** * * * *
2729828 CTTCGCCGTGAAGTTGAAATCGTGGATGGCCCCTTCGCTGTGAAGTTGAGCCTTGAATTGGATAT
127 CTTCATCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATAT
* * *
2729893 CCTTCGTCATGAAGTTGAAATCCAATCTAAGGATGGATGTTGCTGGTAGACAT
192 CCTTCGTCGTGAAGTTGAAATCCAATCTAAGAATGGA---T-ATGG--G-CAT
*
2729946 GATATACTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGTCTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAG-CTTGAATT
* * *
2730011 GGATATCCTTCATCGTGAAGTTGAAATCCGATCTAAAGATGAATGTTGCT-AGCACGATATCCTT
65 GGATATCCTTCATTGTGAAGTTGAAATCCGATATAAAGATGAATGTTGCTGGGCACGATATCCTT
* * *
2730075 CATCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTAAAGTTTAGTCTTGAATTGGATATCCT
130 CATCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATATCCT
* *
2730140 TCTTCGTGAAGTTAAAATCCAATCTAAGAATGGATATGGGCAT
195 TCGTCGTGAAGTTGAAATCCAATCTAAGAATGGATATGGGCAT
* * *
2730183 GATATCCTTCGTCATGAAGTTGAAATCATGGATGACCCCTTCGTTGTGAAGTTGAGCTTTAAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGC-TTGAATT
* ** * **
2730248 GGATATCCTTCGTTGTGAAGTTGATCTTTGAATTGGATATCCAAGTATTGTCTGTTGCTGTTGGG
65 GGATATCCTTCATTGTGAAGTTGA------AATCCGATAT-AAAG-A-TGAATGTTGC---TGGG
* *
2730313 CACGATATCCTTCATCGTGAAGTTGAACTCGTGGATGACTCATTCGTTGTGAAGTTAAGCCTTGA
118 CACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTAAGCCTTGA
*
2730378 ATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCT
183 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
2730415 CGAGTAAATG
Statistics
Matches: 405, Mismatches: 49, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
236 1 0.00
237 84 0.21
238 1 0.00
240 3 0.01
241 1 0.00
243 7 0.02
244 103 0.25
245 4 0.01
246 8 0.02
247 67 0.17
248 30 0.07
249 1 0.00
250 95 0.23
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (237 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCTTGAATTG
GATATCCTTCATTGTGAAGTTGAAATCCGATATAAAGATGAATGTTGCTGGGCACGATATCCTTC
ATCGTGAAGTTGAAATCGTGGATGACCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATATCCTT
CGTCGTGAAGTTGAAATCCAATCTAAGAATGGATATGGGCAT
Found at i:2730262 original size:34 final size:34
Alignment explanation
Indices: 2730220--2730289 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
2730210 ATGGATGACC
2730220 CCTTCGTTGTGAAGTTGAGCTTTAAATTGGATAT
1 CCTTCGTTGTGAAGTTGAGCTTTAAATTGGATAT
* *
2730254 CCTTCGTTGTGAAGTTGATCTTTGAATTGGATAT
1 CCTTCGTTGTGAAGTTGAGCTTTAAATTGGATAT
2730288 CC
1 CC
2730290 AAGTATTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.41
Consensus pattern (34 bp):
CCTTCGTTGTGAAGTTGAGCTTTAAATTGGATAT
Found at i:2735425 original size:18 final size:16
Alignment explanation
Indices: 2735404--2735465 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 16
2735394 ATGTAAAATG
2735404 AGATAAAAAATAAAGTAA
1 AGAT-AAAAA-AAAGTAA
2735422 AGATAAAAAAAAGTAATA
1 AGATAAAAAAAAGT-A-A
*
2735440 AGATAAATAAAAG-AA
1 AGATAAAAAAAAGTAA
2735455 AGATAAGAAAA
1 AGATAA-AAAA
2735466 TAAAAGAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 7 0.18
16 9 0.23
17 6 0.15
18 17 0.44
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.15
Consensus pattern (16 bp):
AGATAAAAAAAAGTAA
Found at i:2735466 original size:19 final size:20
Alignment explanation
Indices: 2735437--2735474 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
2735427 AAAAAAAGTA
2735437 ATAAGATAAATAAAAGAAAG
1 ATAAGATAAATAAAAGAAAG
2735457 ATAAGA-AAATAAAAGAAA
1 ATAAGATAAATAAAAGAAA
2735475 TAAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (20 bp):
ATAAGATAAATAAAAGAAAG
Found at i:2735543 original size:8 final size:7
Alignment explanation
Indices: 2735520--2735593 Score: 50
Period size: 8 Copynumber: 10.4 Consensus size: 7
2735510 TAAAGAACAT
2735520 AATAATA
1 AATAATA
2735527 ATATAATA
1 A-ATAATA
2735535 AATACATA
1 AATA-ATA
2735543 AATAGATA
1 AATA-ATA
2735551 AA-AATAA
1 AATAAT-A
2735558 AATAA-A
1 AATAATA
2735564 AATGAATA
1 AAT-AATA
*
2735572 AAGAA-A
1 AATAATA
2735578 CAA-AATA
1 -AATAATA
2735585 AAT-ATA
1 AATAATA
2735591 AAT
1 AAT
2735594 GGAATAGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 19
0.73 0.03 0.25
Matches are distributed among these distances:
6 17 0.30
7 15 0.27
8 24 0.43
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (7 bp):
AATAATA
Found at i:2735652 original size:29 final size:29
Alignment explanation
Indices: 2735620--2735679 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
2735610 AAAGATATAG
2735620 AAAATATAAATATAAAACTACAGAAAATA
1 AAAATATAAATATAAAACTACAGAAAATA
2735649 AAAATATAAATATAAAACTACAGAAAATA
1 AAAATATAAATATAAAACTACAGAAAATA
2735678 AA
1 AA
2735680 GAAAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (29 bp):
AAAATATAAATATAAAACTACAGAAAATA
Found at i:2735716 original size:20 final size:20
Alignment explanation
Indices: 2735681--2735747 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
2735671 GAAAATAAAG
*
2735681 AAAATGAAAGAAATAAAAACT
1 AAAAT-AAATAAATAAAAACT
2735702 AAAATAAATAAATAAAAACT
1 AAAATAAATAAATAAAAACT
2735722 AAAA-AAATAATAATGAAAAACT
1 AAAATAAAT-A-AAT-AAAAACT
2735744 AAAA
1 AAAA
2735748 ACAAAAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 4 0.10
20 19 0.45
21 8 0.19
22 11 0.26
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAATAAATAAATAAAAACT
Found at i:2735727 original size:29 final size:28
Alignment explanation
Indices: 2735695--2735754 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
2735685 TGAAAGAAAT
*
2735695 AAAAACTAA-AAT-AAATAAATAAAAACTA
1 AAAAAATAATAATGAAA-AAATAAAAAC-A
*
2735723 AAAAAATAATAATGAAAAACTAAAAACA
1 AAAAAATAATAATGAAAAAATAAAAACA
2735751 AAAA
1 AAAA
2735755 TATATAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 13 0.46
29 12 0.43
30 3 0.11
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.15
Consensus pattern (28 bp):
AAAAAATAATAATGAAAAAATAAAAACA
Found at i:2735729 original size:15 final size:14
Alignment explanation
Indices: 2735427--2735754 Score: 69
Period size: 15 Copynumber: 22.4 Consensus size: 14
2735417 AGTAAAGATA
2735427 AAAAAAAGTAATAAGAT
1 AAAAAAA-TAA-AA-AT
* *
2735444 AAATAAAAGAAAGAT
1 AAA-AAAATAAAAAT
*
2735459 AAGAAAATAAAAGA-
1 AAAAAAATAAAA-AT
*
2735473 AATAAAACTAAAAAT
1 AA-AAAAATAAAAAT
*
2735488 AAACAAAA-ACAAAT
1 AAA-AAAATAAAAAT
*
2735502 AAATAAAATAAAGAAC
1 AAA-AAAATAAA-AAT
* *
2735518 ATAATAATAATATAAT
1 AAAAAAATAA-A-AAT
* * * *
2735534 AAATACATAAATAG
1 AAAAAAATAAAAAT
*
2735548 ATAAAAAT-AAAAT
1 AAAAAAATAAAAAT
*
2735561 AAAAATGAATAAAGA-
1 AAAAA--AATAAAAAT
* *
2735576 AACAAAATAAATAT
1 AAAAAAATAAAAAT
**
2735590 AAATGGAATAGAAAAT
1 AAA-AAAATA-AAAAT
2735606 AAGTAAAGATATAGAAAAT
1 AA--AAA-A-ATA-AAAAT
* * *
2735625 ATAAATATAAAACT
1 AAAAAAATAAAAAT
*
2735639 ACAGAAAATAAAAAT
1 A-AAAAAATAAAAAT
* * *
2735654 ATAAATATAAAACT
1 AAAAAAATAAAAAT
* *
2735668 ACAGAAAATAAAGA-
1 A-AAAAAATAAAAAT
** *
2735682 AAATGAA-AGAAAT
1 AAAAAAATAAAAAT
*
2735695 -AAAAACT-AAAAT
1 AAAAAAATAAAAAT
*
2735707 AAATAAATAAAAACT
1 AAAAAAATAAAAA-T
*
2735722 AAAAAAATAATAAT
1 AAAAAAATAAAAAT
* * *
2735736 GAAAAACTAAAAAC
1 AAAAAAATAAAAAT
2735750 AAAAA
1 AAAAA
2735755 TATATAACTA
Statistics
Matches: 215, Mismatches: 71, Indels: 53
0.63 0.21 0.16
Matches are distributed among these distances:
12 10 0.05
13 22 0.10
14 66 0.31
15 70 0.33
16 23 0.11
17 8 0.04
18 6 0.03
19 10 0.05
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:2735733 original size:22 final size:21
Alignment explanation
Indices: 2735691--2735753 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
2735681 AAAATGAAAG
*
2735691 AAATAAAAACT-AAAATAAAT
1 AAATAAAAACTAAAAAAAAAT
2735711 AAATAAAAACTAAAAAAATAAT
1 AAATAAAAACTAAAAAAA-AAT
2735733 -AATGAAAAACTAAAAACAAAA
1 AAAT-AAAAACTAAAAA-AAAA
2735754 ATATATAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
20 11 0.29
21 8 0.21
22 17 0.45
23 2 0.05
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (21 bp):
AAATAAAAACTAAAAAAAAAT
Found at i:2736032 original size:3 final size:3
Alignment explanation
Indices: 2736024--2736053 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2736014 TTTAGTAAAG
2736024 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2736054 GAAAAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2736099 original size:17 final size:17
Alignment explanation
Indices: 2736079--2736121 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2736069 TAATATAAAT
2736079 AAATAAATAAATACCA-A
1 AAATAAATAAATA-CAGA
* *
2736096 AAATAAAAAAATATAGA
1 AAATAAATAAATACAGA
2736113 AAATAAATA
1 AAATAAATA
2736122 TAAAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAATAAATACAGA
Found at i:2736208 original size:12 final size:12
Alignment explanation
Indices: 2736159--2736250 Score: 64
Period size: 12 Copynumber: 7.3 Consensus size: 12
2736149 TAATAAGGGT
*
2736159 TAAATAAAAAAA
1 TAAATAATAAAA
*
2736171 TAAA-AAAATAAA
1 TAAATAATA-AAA
*
2736183 TACATATATAAAAA
1 TAAATA-AT-AAAA
2736197 TAAATAATAAAA
1 TAAATAATAAAA
*
2736209 CAAAATAATAATAA
1 -TAAATAATAA-AA
2736223 T-AATAATAATAA
1 TAAATAATAA-AA
2736235 T-AATAATAATAA
1 TAAATAATAA-AA
2736247 TAAA
1 TAAA
2736251 AGGATTAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
11 4 0.06
12 38 0.56
13 14 0.21
14 11 0.16
15 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (12 bp):
TAAATAATAAAA
Found at i:2736218 original size:3 final size:3
Alignment explanation
Indices: 2736199--2736249 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
2736189 TATAAAAATA
*
2736199 AAT AAT AA- AAC AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2736245 AAT AA
1 AAT AA
2736250 AAGGATTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2736232 original size:80 final size:81
Alignment explanation
Indices: 2736078--2736237 Score: 184
Period size: 81 Copynumber: 2.0 Consensus size: 81
2736068 ATAATATAAA
* * * *
2736078 TAAATAAATAAATACCAAAAATAAAAAAATATAGAAAATAAATATAAAAATATAATTAAATGTAT
1 TAAATAAAAAAATACAAAAAATAAAAAAATATAGAAAATAAATATAAAAAAATAATTAAATGAAT
2736143 ATATAATAATAAGGGT
66 ATATAATAATAAGGGT
* *
2736159 TAAATAAAAAAATA-AAAAAATAAATACATATATA-AAAATAAATAATAAAACAAAATAATAATA
1 TAAATAAAAAAATACAAAAAATAAA-A-AAATATAGAAAATAAAT-AT-AAA-AAAATAATTA-A
2736222 AT-AATA-ATAATAATAA
60 ATGAATATATAATAATAA
2736238 TAATAATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
80 9 0.13
81 23 0.34
82 8 0.12
83 13 0.19
84 11 0.16
85 3 0.04
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (81 bp):
TAAATAAAAAAATACAAAAAATAAAAAAATATAGAAAATAAATATAAAAAAATAATTAAATGAAT
ATATAATAATAAGGGT
Found at i:2737362 original size:24 final size:22
Alignment explanation
Indices: 2737325--2737378 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
2737315 AGAAAGAAAG
*
2737325 ATATGTAAATAACATATATAATAT
1 ATATATAAATAACATATA-AAT-T
*
2737349 GTATATAAATAACATATAAATT
1 ATATATAAATAACATATAAATT
2737371 ATATATAA
1 ATATATAA
2737379 TATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 8 0.30
23 3 0.11
24 16 0.59
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
ATATATAAATAACATATAAATT
Found at i:2747878 original size:66 final size:66
Alignment explanation
Indices: 2747772--2747908 Score: 256
Period size: 66 Copynumber: 2.1 Consensus size: 66
2747762 GCGAGCTGTG
* *
2747772 GGATCCCACAAGTGATACCCCTTTACTCCATCATCATACCCCAAGAATTTGCATTTCCTGGATTT
1 GGATCCCACAAGCGATACCCCTTTACTCCATCAGCATACCCCAAGAATTTGCATTTCCTGGATTT
2747837 T
66 T
2747838 GGATCCCACAAGCGATACCCCTTTACTCCATCAGCATACCCCAAGAATTTGCATTTCCTGGATTT
1 GGATCCCACAAGCGATACCCCTTTACTCCATCAGCATACCCCAAGAATTTGCATTTCCTGGATTT
2747903 T
66 T
2747904 GGATC
1 GGATC
2747909 TAACTTTGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (66 bp):
GGATCCCACAAGCGATACCCCTTTACTCCATCAGCATACCCCAAGAATTTGCATTTCCTGGATTT
T
Found at i:2751730 original size:19 final size:19
Alignment explanation
Indices: 2751706--2751749 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2751696 TCTACAGTTG
*
2751706 TCGTTGCGATTTTCCAAAT
1 TCGTTGCAATTTTCCAAAT
2751725 TCGTTGCAATTTTCCAAAT
1 TCGTTGCAATTTTCCAAAT
*
2751744 TTGTTG
1 TCGTTG
2751750 AGATAGTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (19 bp):
TCGTTGCAATTTTCCAAAT
Found at i:2751882 original size:6 final size:6
Alignment explanation
Indices: 2751873--2751911 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
2751863 TATTACCATT
2751873 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2751912 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2752419 original size:5 final size:5
Alignment explanation
Indices: 2752405--2752436 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
2752395 CCGCCGCCGC
2752405 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
2752437 GGTCGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:2752444 original size:6 final size:6
Alignment explanation
Indices: 2752433--2752463 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2752423 TCGTCTCGTC
2752433 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
2752464 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:2752603 original size:22 final size:22
Alignment explanation
Indices: 2752575--2752668 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
2752565 AATTTGAAAA
2752575 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2752597 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
2752619 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
2752638 ATCGCAACGACAACTGTTGACT
1 ATCGCAACGACAACTGTAGACT
2752660 ATCGCAACG
1 ATCGCAACG
2752669 CGAAATGGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.21
20 2 0.03
21 2 0.03
22 44 0.72
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2752642 original size:41 final size:41
Alignment explanation
Indices: 2752597--2752728 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 41
2752587 ACTGTAGACT
*
2752597 ATCGCAACGACAACTGTAGACTATCGCAA-CGAATTTGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAACCGAA-ATGGAAA
*
2752638 ATCGCAACGACAACTGTTGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAAC-CGAAATGGAAA
* **
2752680 ATCGCAACG-CGAAATG-A-AAAATCGCAACGCGAAATGGAAA
1 ATCGCAACGAC-AACTGTAGACTATCGCAAC-CGAAATGGAAA
*
2752720 AGCGCAACG
1 ATCGCAACG
2752729 CGATTTTCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
40 29 0.36
41 29 0.36
42 19 0.23
43 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.14
Consensus pattern (41 bp):
ATCGCAACGACAACTGTAGACTATCGCAACCGAAATGGAAA
Found at i:2752685 original size:20 final size:20
Alignment explanation
Indices: 2752660--2752731 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
2752650 ACTGTTGACT
2752660 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
2752680 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
2752700 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
2752720 AGCGCAACGCGA
1 ATCGCAACGCGA
2752732 TTTTCAACTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.08
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:2760527 original size:17 final size:17
Alignment explanation
Indices: 2760507--2760539 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2760497 ATATTTATTT
*
2760507 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
2760524 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
2760540 TATGGTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:2760577 original size:16 final size:17
Alignment explanation
Indices: 2760558--2760594 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2760548 TAAAATATTA
2760558 TTTTA-AATAATTA-TAT
1 TTTTACAATAA-TACTAT
2760574 TTTTACAATAATACTAT
1 TTTTACAATAATACTAT
2760591 TTTT
1 TTTT
2760595 CATCCATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTACAATAATACTAT
Found at i:2763276 original size:3 final size:3
Alignment explanation
Indices: 2763268--2763292 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2763258 TGTGAAGTTG
2763268 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2763293 GAAAAGCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2764174 original size:49 final size:50
Alignment explanation
Indices: 2764111--2764222 Score: 138
Period size: 50 Copynumber: 2.2 Consensus size: 50
2764101 TATCAAGAGC
* *
2764111 TATCTTGTAACTTGAATCATGAGCACAT-AAATA-CAAAATACATAAAGTGT
1 TATCTTG-AACTTGAAACACGAGCACATAAAATATC-AAATACATAAAGTGT
* * *
2764161 TATCTTGAACTTGAAACACGTGCACATAAAATATCAAGTACATGAAGTGT
1 TATCTTGAACTTGAAACACGAGCACATAAAATATCAAATACATAAAGTGT
*
2764211 TTTCTTGAACTT
1 TATCTTGAACTT
2764223 ACAGCGTGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
49 17 0.31
50 36 0.67
51 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (50 bp):
TATCTTGAACTTGAAACACGAGCACATAAAATATCAAATACATAAAGTGT
Found at i:2764599 original size:30 final size:30
Alignment explanation
Indices: 2764564--2764622 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
2764554 TTTTAATAAA
2764564 AAAATTTCGGGATCGGGTCGGATTTTTTTG
1 AAAATTTCGGGATCGGGTCGGATTTTTTTG
* * *
2764594 AAAATTTCGGGTTCGGGTTGGGTTTTTTT
1 AAAATTTCGGGATCGGGTCGGATTTTTTT
2764623 AAGTGTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (30 bp):
AAAATTTCGGGATCGGGTCGGATTTTTTTG
Found at i:2765722 original size:19 final size:18
Alignment explanation
Indices: 2765687--2765722 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2765677 ATGTTATTTT
2765687 TTTAATTAATTATTAATA
1 TTTAATTAATTATTAATA
*
2765705 TTTAATTTATTGATTAAT
1 TTTAATTAATT-ATTAAT
2765723 TAATTCAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTAATTAATTATTAATA
Found at i:2770083 original size:85 final size:81
Alignment explanation
Indices: 2769898--2770247 Score: 421
Period size: 82 Copynumber: 4.2 Consensus size: 81
2769888 ATCCATGCAT
*
2769898 TTCACGTCCTTTGCTTGTCATTTACATTTCACATCAACTCAGATAAACTAAAATATTTTAGAGAA
1 TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAATATTTTAGA-AA
* *
2769963 TCAGGGAATCTATACTA
65 TCAGAGAATCTACACTA
* *
2769980 TTCACGTCCTTTGCTTGTCATTGATATTTCACATCAACTCAGATAAACTGAAATAATTTCTATTG
1 TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAAT-ATTT-TA--G
*
2770045 AAATCAGAGAATCTACGCTA
62 AAATCAGAGAATCTACACTA
* *
2770065 TTCACGTCATTTGCTTGTCATTGACATTTCACATCAACTTAGATAAACTAAAATATTTTAGAAAA
1 TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAATATTTTAG-AAA
* * *
2770130 TCAGGGAATCTATAATA
65 TCAGAGAATCTACACTA
* * * * * * * *
2770147 TTAACATCCTTTTCTTTTCATTGATATTTCACACCAACTCAGATAAACTGAAATAATTTCCATTG
1 TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAAT-ATTT---TAG
* *
2770212 AAATAAGAAAATCTACACTA
62 AAATCAGAGAATCTACACTA
2770232 TTCACGTCCTTTGCTT
1 TTCACGTCCTTTGCTT
2770248 TTCAAAGTTA
Statistics
Matches: 227, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.00
82 112 0.49
83 10 0.04
84 6 0.03
85 94 0.41
86 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (81 bp):
TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAATATTTTAGAAAT
CAGAGAATCTACACTA
Found at i:2770174 original size:167 final size:167
Alignment explanation
Indices: 2769898--2770247 Score: 574
Period size: 167 Copynumber: 2.1 Consensus size: 167
2769888 ATCCATGCAT
* *
2769898 TTCACGTCCTTTGCTTGTCATTTACATTTCACATCAACTCAGATAAACTAAAATATTTTAGAGAA
1 TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAATATTTTAGAAAA
* * * *
2769963 TCAGGGAATCTATACTATTCACGTCCTTTGCTTGTCATTGATATTTCACATCAACTCAGATAAAC
66 TCAGGGAATCTATAATATTAACATCCTTTGCTTGTCATTGATATTTCACACCAACTCAGATAAAC
* * * *
2770028 TGAAATAATTTCTATTGAAATCAGAGAATCTACGCTA
131 TGAAATAATTTCCATTGAAATAAGAAAATCTACACTA
* *
2770065 TTCACGTCATTTGCTTGTCATTGACATTTCACATCAACTTAGATAAACTAAAATATTTTAGAAAA
1 TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAATATTTTAGAAAA
* *
2770130 TCAGGGAATCTATAATATTAACATCCTTTTCTTTTCATTGATATTTCACACCAACTCAGATAAAC
66 TCAGGGAATCTATAATATTAACATCCTTTGCTTGTCATTGATATTTCACACCAACTCAGATAAAC
2770195 TGAAATAATTTCCATTGAAATAAGAAAATCTACACTA
131 TGAAATAATTTCCATTGAAATAAGAAAATCTACACTA
2770232 TTCACGTCCTTTGCTT
1 TTCACGTCCTTTGCTT
2770248 TTCAAAGTTA
Statistics
Matches: 168, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
167 168 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (167 bp):
TTCACGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTAAAATATTTTAGAAAA
TCAGGGAATCTATAATATTAACATCCTTTGCTTGTCATTGATATTTCACACCAACTCAGATAAAC
TGAAATAATTTCCATTGAAATAAGAAAATCTACACTA
Found at i:2779580 original size:18 final size:19
Alignment explanation
Indices: 2779557--2779603 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2779547 ATGCATTGTA
*
2779557 TATAATTTTGAC-TTTATT
1 TATAATTTTGACATCTATT
*
2779575 TATAATTTTTTACATCTATT
1 TATAA-TTTTGACATCTATT
2779595 TATAATTTT
1 TATAATTTT
2779604 AAAATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
20 10 0.40
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
TATAATTTTGACATCTATT
Found at i:2779612 original size:18 final size:19
Alignment explanation
Indices: 2779570--2779613 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2779560 AATTTTGACT
* *
2779570 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
2779589 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
2779608 TTATTT
1 TTATTT
2779614 TATATGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:2786084 original size:45 final size:45
Alignment explanation
Indices: 2786017--2786122 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
2786007 TGCACTACTT
* * *
2786017 GTGCATCGGTGCA-TAAAATGCATTCGATG-TTTTATTATT-AATGG
1 GTGCATCGATGCACT-AAATGCATTCGATGTTTTTATT-TTAAAAGA
*
2786061 GATGCATCGATGCACTAATTGCATTCGATGTTTTTATTTTAAAAGA
1 G-TGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAGA
2786107 GTGCATCGATGCACTA
1 GTGCATCGATGCACTA
2786123 CCTGTGCATC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
44 1 0.02
45 41 0.76
46 12 0.22
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (45 bp):
GTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAGA
Found at i:2786131 original size:19 final size:19
Alignment explanation
Indices: 2786107--2786154 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
2786097 TTTTAAAAGA
2786107 GTGCATCGATGCACTACCT
1 GTGCATCGATGCACTACCT
2786126 GTGCATCGATGCACTACCT
1 GTGCATCGATGCACTACCT
2786145 GTGCATCGAT
1 GTGCATCGAT
2786155 ACACCTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCACTACCT
Found at i:2789631 original size:281 final size:284
Alignment explanation
Indices: 2789128--2789693 Score: 1102
Period size: 281 Copynumber: 2.0 Consensus size: 284
2789118 TTTTGTGGTG
2789128 TTCAACAGATCGTTGGTGGATCTGAACATACACTTCGTGCGAAGCTGACATTTTCACTGGAGTCA
1 TTCAACAGATCGTTGGTGGATCTGAACATACACTTCGTGCGAAGCTGACATTTTCACTGGAGTCA
2789193 CATGGTATGCATTATCCATATCTTTTTCTAAATTTCTTTTTTCTCAACATGATGAATTCAATTGA
66 CATGGTATGCATTATCCATATCTTTTTCTAAATTTCTTTTTTCTCAACATGATGAATTCAATTGA
2789258 GGAAATGTGTTAAGCTCTTTTTTCATTGATGAAATATTTATGGTTTAATTCAGCAAACATCACAA
131 GGAAATGTGTTAAGCTCTTTTTTCATTGATGAAATATTTATGGTTTAATTCAGCAAACATCACAA
2789323 AGGAAGCTGGACCAGTTAGCATGACTTTCACAATACC-ATG-TAATGTTTCAAGGCTACA-GTAA
196 AGGAAGCTGGACCAGTTAGCATGACTTTCACAATACCAATGATAATGTTTCAAGGCTACAGGTAA
2789385 AGATACTCGTACCGGTAGTTTCCT
261 AGATACTCGTACCGGTAGTTTCCT
2789409 TTCAACAGATCGTTGGTGGATCTGAACATACACTTCGTGCGAAGCTGACATTTTCACTGGAGTCA
1 TTCAACAGATCGTTGGTGGATCTGAACATACACTTCGTGCGAAGCTGACATTTTCACTGGAGTCA
2789474 CATGGTATGCATTATCCATATCTTTTTCTAAATTTCTTTTTTCTCAACATGATGAATTCAATTGA
66 CATGGTATGCATTATCCATATCTTTTTCTAAATTTCTTTTTTCTCAACATGATGAATTCAATTGA
2789539 GGAAATGTGTTAAGCTCTTTTTTCATTGATGAAATATTTATGGTTTAATTCAGCAAACATCACAA
131 GGAAATGTGTTAAGCTCTTTTTTCATTGATGAAATATTTATGGTTTAATTCAGCAAACATCACAA
2789604 AGGAAGCTGGACCAGTTAGCATGACTTTCACAATACCAATGTATAATGTTTCAAGGCTACAGGTA
196 AGGAAGCTGGACCAGTTAGCATGACTTTCACAATACCAATG-ATAATGTTTCAAGGCTACAGGTA
2789669 AAGATACTCGTACCGGTAGTTTCCT
260 AAGATACTCGTACCGGTAGTTTCCT
2789694 AGAGGATTGA
Statistics
Matches: 281, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
281 232 0.83
282 3 0.01
284 18 0.06
285 28 0.10
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (284 bp):
TTCAACAGATCGTTGGTGGATCTGAACATACACTTCGTGCGAAGCTGACATTTTCACTGGAGTCA
CATGGTATGCATTATCCATATCTTTTTCTAAATTTCTTTTTTCTCAACATGATGAATTCAATTGA
GGAAATGTGTTAAGCTCTTTTTTCATTGATGAAATATTTATGGTTTAATTCAGCAAACATCACAA
AGGAAGCTGGACCAGTTAGCATGACTTTCACAATACCAATGATAATGTTTCAAGGCTACAGGTAA
AGATACTCGTACCGGTAGTTTCCT
Found at i:2793775 original size:11 final size:11
Alignment explanation
Indices: 2793755--2793785 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2793745 ATAAATATTT
2793755 AAAT-TTAAAA
1 AAATATTAAAA
2793765 AAATATTAAAA
1 AAATATTAAAA
2793776 AAATATTAAA
1 AAATATTAAA
2793786 TATTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:2800009 original size:10 final size:10
Alignment explanation
Indices: 2799994--2800064 Score: 65
Period size: 10 Copynumber: 6.7 Consensus size: 10
2799984 ACCTTCCAGG
2799994 CATCCGAGGC
1 CATCCGAGGC
2800004 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
*
2800018 CATCCGAAAG-
1 CATCCG-AGGC
2800028 CATCCGAGGC
1 CATCCGAGGC
2800038 CATCCGAGAG-
1 CATCCGAG-GC
2800048 CATCCGAGGC
1 CATCCGAGGC
2800058 CATCCGA
1 CATCCGA
2800065 CCGAGGCCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
9 3 0.06
10 33 0.65
11 5 0.10
13 2 0.04
14 8 0.16
ACGTcount: A:0.25, C:0.38, G:0.27, T:0.10
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:2800036 original size:20 final size:20
Alignment explanation
Indices: 2800011--2800064 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
2800001 GGCCATCCGA
2800011 CCGAGGCCATCCGAAAGCAT
1 CCGAGGCCATCCGAAAGCAT
*
2800031 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAAAGCAT
2800051 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
2800065 CCGAGGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAAAGCAT
Found at i:2800078 original size:10 final size:10
Alignment explanation
Indices: 2800011--2800064 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
2800001 GGCCATCCGA
2800011 CCGAGGCCAT
1 CCGAGGCCAT
*
2800021 CCGAAAG-CAT
1 CCG-AGGCCAT
2800031 CCGAGGCCAT
1 CCGAGGCCAT
2800041 CCGAGAG-CAT
1 CCGAG-GCCAT
2800051 CCGAGGCCAT
1 CCGAGGCCAT
2800061 CCGA
1 CCGA
2800065 CCGAGGCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 3 0.08
10 32 0.84
11 3 0.08
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:2800227 original size:33 final size:33
Alignment explanation
Indices: 2800186--2800260 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
2800176 GCGACCTACC
*
2800186 CTCGCTCGGTTACCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTACCCTCGGATGCCCTCGCATAG
*
2800219 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTACCCTCGGATGCCCTCGCATAG
*
2800252 CTCGTTCGG
1 CTCGCTCGG
2800261 ATGGCCTCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.09, C:0.39, G:0.25, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTACCCTCGGATGCCCTCGCATAG
Found at i:2800242 original size:10 final size:10
Alignment explanation
Indices: 2800198--2800324 Score: 65
Period size: 10 Copynumber: 11.7 Consensus size: 10
2800188 CGCTCGGTTA
*
2800198 CCCTCGGATT
1 CCCTCGGATG
*
2800208 CCCTCGCATAG
1 CCCTCGGAT-G
*
2800219 CTCGCTCGGTTG
1 C-C-CTCGGATG
2800231 CCCTCGGATG
1 CCCTCGGATG
*
2800241 CCCTCGCATAG
1 CCCTCGGAT-G
*
2800252 CTCGTTCGGATGG
1 C-C-CTCGGAT-G
2800265 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
2800278 GCCTCGGATG
1 CCCTCGGATG
*
2800288 CTCTCGGATG
1 CCCTCGGATG
*
2800298 GCCTCGGATG
1 CCCTCGGATG
**
2800308 CTTTCGGATG
1 CCCTCGGATG
*
2800318 GCCTCGG
1 CCCTCGG
2800325 TCGGATGGCC
Statistics
Matches: 87, Mismatches: 22, Indels: 16
0.70 0.18 0.13
Matches are distributed among these distances:
10 57 0.66
11 4 0.05
12 6 0.07
13 14 0.16
14 6 0.07
ACGTcount: A:0.09, C:0.34, G:0.31, T:0.25
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:2800274 original size:14 final size:14
Alignment explanation
Indices: 2800252--2800284 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2800242 CCTCGCATAG
*
2800252 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
2800266 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
2800280 CTCGG
1 CTCGG
2800285 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:2800296 original size:20 final size:20
Alignment explanation
Indices: 2800271--2800324 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
2800261 ATGGCCTCGG
2800271 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
2800291 TCGGATGGCCTCGGATGCTT
1 TCGGATGGCCTCGGATGCTC
2800311 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
2800325 TCGGATGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:2800327 original size:54 final size:56
Alignment explanation
Indices: 2800223--2800343 Score: 174
Period size: 54 Copynumber: 2.2 Consensus size: 56
2800213 GCATAGCTCG
*
2800223 CTCGGTTGCCCTCGGATGCCCTCGCATAGCTCGTTCGGATGGCCTCGGTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCGCATAGCTC-TTCGGATGGCCTCGGTCGGATGGC
* * *
2800280 CTCGGATGCTCTCGGATGGCCTCGGAT-GCT-TTCGGATGGCCTCGGTCGGATGGC
1 CTCGGATGCCCTCGGATGCCCTCGCATAGCTCTTCGGATGGCCTCGGTCGGATGGC
*
2800334 CTTGGATGCC
1 CTCGGATGCC
2800344 TGGAAGGTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 32 0.55
56 3 0.05
57 23 0.40
ACGTcount: A:0.09, C:0.31, G:0.35, T:0.26
Consensus pattern (56 bp):
CTCGGATGCCCTCGGATGCCCTCGCATAGCTCTTCGGATGGCCTCGGTCGGATGGC
Found at i:2800341 original size:10 final size:10
Alignment explanation
Indices: 2800271--2800324 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
2800261 ATGGCCTCGG
2800271 TCGGATGGCC
1 TCGGATGGCC
2800281 TCGGAT-GCTC
1 TCGGATGGC-C
2800291 TCGGATGGCC
1 TCGGATGGCC
*
2800301 TCGGAT-GCTT
1 TCGGATGGC-C
2800311 TCGGATGGCC
1 TCGGATGGCC
2800321 TCGG
1 TCGG
2800325 TCGGATGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 30 0.79
11 4 0.11
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:2806789 original size:48 final size:47
Alignment explanation
Indices: 2806702--2806871 Score: 213
Period size: 48 Copynumber: 3.6 Consensus size: 47
2806692 TGGTCCTCTT
* * *
2806702 CCTTTTTCTGGATTTTTAACAGATTT-CTTAGGAGGTTCTGCTCCTTTG
1 CCTTTGTCTGGATTTTTAACAGTTTTGGTT-GGA-GTTCTGCTCCTTTG
** *
2806750 CCTTTGTCTGGATTTTTAGTAGTTTTGGTTGGAGTTTCTGCTCCTCTG
1 CCTTTGTCTGGATTTTTAACAGTTTTGGTTGGAG-TTCTGCTCCTTTG
2806798 CCTTTGTCTGGATTTTTAACAGTTTTGGTT-G-GTTCTGCTCCTTTG
1 CCTTTGTCTGGATTTTTAACAGTTTTGGTTGGAGTTCTGCTCCTTTG
*
2806843 -CTTCTTTCTGGATTTTTAACAGTTTTGGT
1 CCTT-TGTCTGGATTTTTAACAGTTTTGGT
2806872 CAATTCTTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
44 3 0.03
45 36 0.33
46 1 0.01
47 2 0.02
48 65 0.60
49 2 0.02
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (47 bp):
CCTTTGTCTGGATTTTTAACAGTTTTGGTTGGAGTTCTGCTCCTTTG
Found at i:2806859 original size:93 final size:95
Alignment explanation
Indices: 2806690--2806871 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 95
2806680 TTGGCTCATG
* * *
2806690 TCTGGTCCTCTTCCTTTTTCTGGATTTTTAACAGATTTCTTAGGAGGTTCTGCTCCTTTGCCTTT
1 TCTGCTCCTCTGCCTTTGTCTGGATTTTTAACAGA-TTCTTAGGAGGTTCTGCTCCTTTGCCTTT
**
2806755 GTCTGGATTTTTAGTAGTTTTGGTTGGAGTT
65 GTCTGGATTTTTAACAGTTTTGGTTGGAGTT
*
2806786 TCTGCTCCTCTGCCTTTGTCTGGATTTTTAACAG-TT-TT-GGTTGGTTCTGCTCCTTTG-CTTC
1 TCTGCTCCTCTGCCTTTGTCTGGATTTTTAACAGATTCTTAGG-AGGTTCTGCTCCTTTGCCTT-
*
2806847 TTTCTGGATTTTTAACAGTTTTGGT
64 TGTCTGGATTTTTAACAGTTTTGGT
2806872 CAATTCTTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
92 5 0.06
93 39 0.51
94 2 0.03
96 31 0.40
ACGTcount: A:0.10, C:0.18, G:0.21, T:0.51
Consensus pattern (95 bp):
TCTGCTCCTCTGCCTTTGTCTGGATTTTTAACAGATTCTTAGGAGGTTCTGCTCCTTTGCCTTTG
TCTGGATTTTTAACAGTTTTGGTTGGAGTT
Found at i:2810466 original size:37 final size:37
Alignment explanation
Indices: 2810413--2810517 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
2810403 CCTTTTCGTC
*
2810413 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2810450 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
2810487 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2810518 CCACAAGTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2811012 original size:2 final size:2
Alignment explanation
Indices: 2811007--2811033 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2810997 TTCCTATTAT
2811007 TA TA TA 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 T
2811034 TTTTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2811332 original size:20 final size:19
Alignment explanation
Indices: 2811305--2811360 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
2811295 TTTTATCTTC
2811305 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
2811324 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
2811344 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
2811361 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:2814080 original size:22 final size:22
Alignment explanation
Indices: 2814054--2814104 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
2814044 GTAAAATAAT
2814054 AGCTTCAAAAAGAAAGCGAGTG
1 AGCTTCAAAAAGAAAGCGAGTG
2814076 AGCTTCAAAAAGAAAGCGAGTG
1 AGCTTCAAAAAGAAAGCGAGTG
2814098 AGCTTCA
1 AGCTTCA
2814105 GATAGTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.16
Consensus pattern (22 bp):
AGCTTCAAAAAGAAAGCGAGTG
Found at i:2815693 original size:16 final size:15
Alignment explanation
Indices: 2815670--2815716 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
2815660 AAAAAGGGCA
2815670 AAAACAAAAAAGAA-
1 AAAACAAAAAAGAAG
2815684 AATAAGCAAAAAAGAAG
1 AA-AA-CAAAAAAGAAG
2815701 AAAACAAAAAA-AAG
1 AAAACAAAAAAGAAG
2815715 AA
1 AA
2815717 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.30
16 12 0.40
17 2 0.07
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAACAAAAAAGAAG
Found at i:2815722 original size:18 final size:18
Alignment explanation
Indices: 2815691--2815729 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2815681 GAAAATAAGC
*
2815691 AAAAAAGAAGAAAA-CAA
1 AAAAAAGAAAAAAATCAA
2815708 AAAAAAGAACAAAAATCAA
1 AAAAAAGAA-AAAAATCAA
2815727 AAA
1 AAA
2815730 GAAAAAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAATCAA
Found at i:2816582 original size:23 final size:21
Alignment explanation
Indices: 2816554--2816617 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 21
2816544 GTGAAAGAGA
2816554 TAATATTTTCAAAACTTTTGAT
1 TAATATTTTCAAAACTTTT-AT
*
2816576 TAAATATTTTTCAAAAATCTTTAT
1 T-AATA-TTTTCAAAACT-TTTAT
* *
2816600 TGATATTTTCAGAACTTT
1 TAATATTTTCAAAACTTT
2816618 GAAAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.06
22 10 0.29
23 7 0.20
24 13 0.37
25 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATATTTTCAAAACTTTTAT
Found at i:2817452 original size:106 final size:106
Alignment explanation
Indices: 2817326--2818595 Score: 1996
Period size: 106 Copynumber: 12.0 Consensus size: 106
2817316 ATATCGTGCC
* * * *
2817326 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2817391 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2817432 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2817497 AATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2817538 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2817603 AATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2817644 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2817709 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGC
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2817750 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2817815 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2817856 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2817921 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2817962 ACTCGATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2818027 AATTTCGGAGCCGATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2818068 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2818133 AATTTCGGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2818174 ACTCCAGACAACGCAAATTCAACTTCACGACGAAGGGACCGCTGGTTATCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2818239 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2818280 ACTCCAGACAACGCAAGTTCAACTTCACGAC-----GACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2818340 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * *
2818381 ACTAGAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2818446 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
2818487 ACTCGAGACAACACAAGTTCAACTTCGCAACGAAGGGACGGCTGGTTGTCATCAAACAA-TTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2818551 AATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2818592 ACTC
1 ACTC
2818596 GGAACAATGG
Statistics
Matches: 1074, Mismatches: 84, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
101 94 0.09
105 43 0.04
106 937 0.87
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2819398 original size:37 final size:37
Alignment explanation
Indices: 2819346--2819449 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
2819336 ATTTTCGTCA
*
2819346 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
* *
2819383 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
** * *
2819420 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
2819450 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
Found at i:2819955 original size:2 final size:2
Alignment explanation
Indices: 2819948--2819976 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2819938 TTCCTATTAT
2819948 TA TA TA TA 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 T
2819977 TATTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2820021 original size:13 final size:13
Alignment explanation
Indices: 2820003--2820028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2819993 TGTTTACTTA
2820003 TTTACTATATTTT
1 TTTACTATATTTT
2820016 TTTACTATATTTT
1 TTTACTATATTTT
2820029 CCTAACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:2820133 original size:22 final size:21
Alignment explanation
Indices: 2820098--2820171 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
2820088 CTATTTAGTA
2820098 TTTTATTATATTATACATACATT
1 TTTTATT-T-TTATACATACATT
* *
2820121 TTTATATTTTTATATATATATT
1 TTT-TATTTTTATACATACATT
** *
2820143 TTTTATTATTT-TATTTATATT
1 TTTTATT-TTTATACATACATT
2820164 TTTTATTT
1 TTTTATTT
2820172 ATTTTCATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
20 1 0.02
21 20 0.43
22 17 0.37
23 4 0.09
24 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTTTATACATACATT
Found at i:2820136 original size:24 final size:24
Alignment explanation
Indices: 2820109--2820154 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
2820099 TTTATTATAT
2820109 TATACATACATTTTTA-TATTTTTA
1 TATACATA-ATTTTTATTATTTTTA
* *
2820133 TATATATATTTTTTATTATTTT
1 TATACATAATTTTTATTATTTT
2820155 ATTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TATACATAATTTTTATTATTTTTA
Found at i:2820140 original size:14 final size:13
Alignment explanation
Indices: 2820122--2820189 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 13
2820112 ACATACATTT
2820122 TTATATTTTTATA
1 TTATATTTTTATA
2820135 TATATATTTTT-TA
1 T-TATATTTTTATA
2820148 -T-TA-TTTTAT-
1 TTATATTTTTATA
2820157 TTATATTTTT-TA
1 TTATATTTTTATA
*
2820169 TT-TA-TTTT-CA
1 TTATATTTTTATA
2820179 TTATATTTTTA
1 TTATATTTTTA
2820190 GTTTCTTTGC
Statistics
Matches: 45, Mismatches: 1, Indels: 18
0.70 0.02 0.28
Matches are distributed among these distances:
9 4 0.09
10 11 0.24
11 8 0.18
12 10 0.22
13 3 0.07
14 9 0.20
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:2820173 original size:22 final size:22
Alignment explanation
Indices: 2820118--2820188 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
2820108 TTATACATAC
* *
2820118 ATTTTTATATTT-TTATATATAT
1 ATTTTT-TATTTATTTTATTTAT
2820140 ATTTTTTA-TTATTTTATTTAT
1 ATTTTTTATTTATTTTATTTAT
2820161 ATTTTTTATTTATTTTCA-TTAT
1 ATTTTTTATTTATTTT-ATTTAT
2820183 ATTTTT
1 ATTTTT
2820189 AGTTTCTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.05
21 18 0.41
22 23 0.52
23 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTTTATTTATTTTATTTAT
Found at i:2820303 original size:20 final size:19
Alignment explanation
Indices: 2820276--2820332 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2820266 TTTTATCTTC
2820276 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
* *
2820295 ATTTCATTTTTTTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
2820316 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
2820333 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 12 0.39
20 14 0.45
21 5 0.16
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:2823016 original size:44 final size:44
Alignment explanation
Indices: 2822948--2823031 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
2822938 CCACAGATAG
*
2822948 TTTCTTGCTTCCCTGTAAAAGCAAACACGATAATCATATTTACA
1 TTTCTTGCTTCCCTGCAAAAGCAAACACGATAATCATATTTACA
* * *
2822992 TTTCTTTCTTCCCTGCAAACGCAAACTCGATAATCATATT
1 TTTCTTGCTTCCCTGCAAAAGCAAACACGATAATCATATT
2823032 AACACATTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (44 bp):
TTTCTTGCTTCCCTGCAAAAGCAAACACGATAATCATATTTACA
Found at i:2826768 original size:19 final size:19
Alignment explanation
Indices: 2826744--2826780 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2826734 CTGTCCCATA
*
2826744 CAATAAGAACGAAAATTTT
1 CAATAAGAAAGAAAATTTT
2826763 CAATAAGAAAGAAAATTT
1 CAATAAGAAAGAAAATTT
2826781 CCATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.24
Consensus pattern (19 bp):
CAATAAGAAAGAAAATTTT
Found at i:2831435 original size:9 final size:10
Alignment explanation
Indices: 2831421--2831446 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2831411 ATTAAAGAAG
2831421 AAAAAAAATA
1 AAAAAAAATA
2831431 AAAAAAAATA
1 AAAAAAAATA
2831441 AAAAAA
1 AAAAAA
2831447 TATTGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:2834058 original size:21 final size:21
Alignment explanation
Indices: 2834034--2834151 Score: 118
Period size: 21 Copynumber: 5.6 Consensus size: 21
2834024 ACTATCGCAA
2834034 TGCGATAGTCCAAGTTTGCGT
1 TGCGATAGTCCAAGTTTGCGT
*
2834055 TGCGATTTATTCCAAG-TT-CGT
1 TGCGA--TAGTCCAAGTTTGCGT
* *
2834076 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTTGCGT
*
2834097 TGCGATTTATTCCAA-TTT-CGT
1 TGCGA--TAGTCCAAGTTTGCGT
* *
2834118 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTTGCGT
2834139 TGCGATAGTCCAA
1 TGCGATAGTCCAA
2834152 AATCGCAACG
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
19 13 0.17
20 3 0.04
21 44 0.56
22 4 0.05
23 14 0.18
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
TGCGATAGTCCAAGTTTGCGT
Found at i:2834081 original size:42 final size:42
Alignment explanation
Indices: 2834034--2834144 Score: 195
Period size: 42 Copynumber: 2.6 Consensus size: 42
2834024 ACTATCGCAA
* *
2834034 TGCGATAGTCCAAGTTTGCGTTGCGATTTATTCCAAGTTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGT
*
2834076 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAATTTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGT
2834118 TGCGATAGTCGAAGTTCGCGTTGCGAT
1 TGCGATAGTCGAAGTTCGCGTTGCGAT
2834145 AGTCCAAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (42 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGT
Found at i:2834157 original size:21 final size:21
Alignment explanation
Indices: 2834115--2834157 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2834105 ATTCCAATTT
* **
2834115 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAAATCG
2834136 CGTTGCGATAGTCCAAAATCG
1 CGTTGCGATAGTCCAAAATCG
2834157 C
1 C
2834158 AACGACTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAAATCG
Found at i:2834255 original size:5 final size:5
Alignment explanation
Indices: 2834245--2834269 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2834235 CGTATTACCA
2834245 CGACC CGACC CGACC CGACC CGACC
1 CGACC CGACC CGACC CGACC CGACC
2834270 AGAGACGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:2834437 original size:39 final size:39
Alignment explanation
Indices: 2834378--2834482 Score: 201
Period size: 39 Copynumber: 2.7 Consensus size: 39
2834368 TTCCCAATAG
*
2834378 TGTTTCCAATACTATGTGGGATTGAGCATTACCAACACT
1 TGTTCCCAATACTATGTGGGATTGAGCATTACCAACACT
2834417 TGTTCCCAATACTATGTGGGATTGAGCATTACCAACACT
1 TGTTCCCAATACTATGTGGGATTGAGCATTACCAACACT
2834456 TGTTCCCAATACTATGTGGGATTGAGC
1 TGTTCCCAATACTATGTGGGATTGAGC
2834483 CTTAAATAGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (39 bp):
TGTTCCCAATACTATGTGGGATTGAGCATTACCAACACT
Found at i:2835059 original size:15 final size:15
Alignment explanation
Indices: 2835035--2835106 Score: 51
Period size: 15 Copynumber: 4.8 Consensus size: 15
2835025 ACACCATTAA
*
2835035 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
2835050 ATTAAATTATAAAGT
1 ATTAAATTATAAAAT
* *
2835065 ACTAAA-TATATAAT
1 ATTAAATTATAAAAT
2835079 -TATAAATTAATTAAAAT
1 AT-TAAATT-A-TAAAAT
*
2835096 TTTAAA-TATAA
1 ATTAAATTATAA
2835107 TTTAATTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
14 13 0.29
15 20 0.44
16 2 0.04
17 9 0.20
18 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:2835113 original size:17 final size:17
Alignment explanation
Indices: 2835073--2835118 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
2835063 GTACTAAATA
2835073 TATAATTATAAATTAAT
1 TATAATTATAAATTAAT
* *
2835090 TAAAATTTTAAATATAAT
1 TATAATTATAAAT-TAAT
2835108 T-TAATTA-AAAT
1 TATAATTATAAAT
2835119 ACAATATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATTATAAATTAAT
Found at i:2837924 original size:14 final size:14
Alignment explanation
Indices: 2837905--2837932 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2837895 AAGTGAAAGA
2837905 ATAGTTATATAATT
1 ATAGTTATATAATT
2837919 ATAGTTATATAATT
1 ATAGTTATATAATT
2837933 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:2845558 original size:22 final size:22
Alignment explanation
Indices: 2845491--2845568 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
2845481 GGGTATATTA
* *
2845491 GTCATGCGAGATGTATCCAGTG
1 GTCATTCGGGATGTATCCAGTG
* * *
2845513 ATCCTTCGGGACGTATCCAGTG
1 GTCATTCGGGATGTATCCAGTG
*
2845535 GTCATTCGGGATGTATCCAATG
1 GTCATTCGGGATGTATCCAGTG
* *
2845557 GTCTTTCAGGAT
1 GTCATTCGGGAT
2845569 ATAGTAGTCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (22 bp):
GTCATTCGGGATGTATCCAGTG
Found at i:2845592 original size:18 final size:18
Alignment explanation
Indices: 2845569--2845605 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2845559 CTTTCAGGAT
2845569 ATAGTAGTCCTTCGGGAC
1 ATAGTAGTCCTTCGGGAC
2845587 ATAGTAGTCCTTCGGGAC
1 ATAGTAGTCCTTCGGGAC
2845605 A
1 A
2845606 AATACTGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (18 bp):
ATAGTAGTCCTTCGGGAC
Found at i:2846532 original size:463 final size:463
Alignment explanation
Indices: 2845660--2846583 Score: 1625
Period size: 463 Copynumber: 2.0 Consensus size: 463
2845650 TTGTGGTGAT
2845660 AACATTAGTGCACAACCTCAATGTACTCAAATACCTCTGTTCTCAATAATGTACATGGGCAATTG
1 AACATTAGTGCACAACCTCAATGTACTCAAATACCTCTGTTCTCAATAATGTACATGGGCAATTG
*
2845725 AAAGATAAATTAAGGTGAAAGTGATACAAGAAGATAAGTTTTATATGTACATGACATGAGTATAT
66 AAAGATAAATTAAGGTGAAAGTGATACAAGAAGATAAGTTTCATATGTACATGACATGAGTATAT
* *
2845790 CGGTTATAGTGAAATATATATATGCATATTGAAATGTCATGATCAAATGGTAAGAATACATATTC
131 CGGTTATAGTGAAATATATACATACATATTGAAATGTCATGATCAAATGGTAAGAATACATATTC
* *
2845855 ATGAATCTATAGTTACATGTTTATTTATGACCTCACTAAGTCTATGACTTAGCGTGTAAGTGATT
196 ATGAATCTATAGCTACATGTTTATTTATGACATCACTAAGTCTATGACTTAGCGTGTAAGTGATT
* *
2845920 TACACGTAGGTACCAGGAAACAAGAAGAGCAGTACTAGAAGTGGCAAGAATAACATCACTACTAA
261 TACACATAGGTACCAGGAAACAAGAAGAGCAGTACTAGAAGTGGAAAGAATAACATCACTACTAA
*
2845985 AAGATCAGATCAGAAGTAATTGGAAAAGTAGGTATTTTAGGTTGTGTATAGAGTGTTTCCATGTA
326 AAGATCAGATCAGAAGTAATTGGAAAAGTAGGTATTTTAGGTTGTGTATAGAGTGTTGCCATGTA
*
2846050 ATAAGTTGTTAAATACGAATGCTCTGGTCGATTTTATATTTCGTGATCTCTTTTATGTAAATTAA
391 ATAAGTTGTCAAATACGAATGCTCTGGTCGATTTTATATTTCGTGATCTCTTTTATGTAAATTAA
*
2846115 CGTATTAC
456 CATATTAC
*
2846123 AACATTAGTGCACAACCTCAATGTACTCAAATACCTCTGTTCTTAATAATGTACATGGGCAATTG
1 AACATTAGTGCACAACCTCAATGTACTCAAATACCTCTGTTCTCAATAATGTACATGGGCAATTG
* *
2846188 AAAGATAAATTAAGGTGAAAGTGATACAAGAATATAAGTTTCATATGTACATGACATGATTATAT
66 AAAGATAAATTAAGGTGAAAGTGATACAAGAAGATAAGTTTCATATGTACATGACATGAGTATAT
* *
2846253 CGGTTATAGTGAAATGTATACATACATATTGAAATGTCATGATCAAATGGTAAGAATGCATATTC
131 CGGTTATAGTGAAATATATACATACATATTGAAATGTCATGATCAAATGGTAAGAATACATATTC
2846318 ATGAATCTATAGCTACATGTTTATTTATTG-CATCACTAAGTCTATGACTTAGCGTGTAAGTGAT
196 ATGAATCTATAGCTACATGTTTATTTA-TGACATCACTAAGTCTATGACTTAGCGTGTAAGTGAT
* * * *
2846382 TTACACATAGGTACTAGGAAATAATAAGAGTAGTACTAGAAGTGGAAAGAATAACATCACTACTA
260 TTACACATAGGTACCAGGAAACAAGAAGAGCAGTACTAGAAGTGGAAAGAATAACATCACTACTA
* *
2846447 AAAGATCAGATCAGAAGTAATTGGCAAAGTAGGTATTTTAGGTTGTGTATAGAGTGTTGGCATGT
325 AAAGATCAGATCAGAAGTAATTGGAAAAGTAGGTATTTTAGGTTGTGTATAGAGTGTTGCCATGT
* *
2846512 AATAAGTTGTCAATTACGAATGCTCTGGTCGATTTTGTATTTCGTGATCTCTTTTATGTAAATTA
390 AATAAGTTGTCAAATACGAATGCTCTGGTCGATTTTATATTTCGTGATCTCTTTTATGTAAATTA
2846577 ACATATT
455 ACATATT
2846584 TTGTTTTAAT
Statistics
Matches: 437, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
463 435 1.00
464 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (463 bp):
AACATTAGTGCACAACCTCAATGTACTCAAATACCTCTGTTCTCAATAATGTACATGGGCAATTG
AAAGATAAATTAAGGTGAAAGTGATACAAGAAGATAAGTTTCATATGTACATGACATGAGTATAT
CGGTTATAGTGAAATATATACATACATATTGAAATGTCATGATCAAATGGTAAGAATACATATTC
ATGAATCTATAGCTACATGTTTATTTATGACATCACTAAGTCTATGACTTAGCGTGTAAGTGATT
TACACATAGGTACCAGGAAACAAGAAGAGCAGTACTAGAAGTGGAAAGAATAACATCACTACTAA
AAGATCAGATCAGAAGTAATTGGAAAAGTAGGTATTTTAGGTTGTGTATAGAGTGTTGCCATGTA
ATAAGTTGTCAAATACGAATGCTCTGGTCGATTTTATATTTCGTGATCTCTTTTATGTAAATTAA
CATATTAC
Found at i:2851627 original size:22 final size:22
Alignment explanation
Indices: 2851602--2851671 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
2851592 ATACTAGTCA
2851602 TTCGGGACGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
2851624 TTCGGGACGTATCCAGTGGTCC
1 TTCGGGACGTATCCAGTGGTCC
* *
2851646 TTCAGGA--TAT--AGTGGTCT
1 TTCGGGACGTATCCAGTGGTCC
2851664 TTCGGGAC
1 TTCGGGAC
2851672 AAATACTGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
18 13 0.30
20 3 0.07
22 28 0.64
ACGTcount: A:0.16, C:0.23, G:0.31, T:0.30
Consensus pattern (22 bp):
TTCGGGACGTATCCAGTGGTCC
Found at i:2859515 original size:45 final size:46
Alignment explanation
Indices: 2859420--2859524 Score: 160
Period size: 45 Copynumber: 2.3 Consensus size: 46
2859410 TGCACATACC
*
2859420 ATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATTTG
* *
2859466 ATGCATCGATGCACTCAGGCTATTT-TG-AACCATCGAATGCATTTT
1 ATGCATCGATGCACTCAGGCT-TTTATGAAAACATCGAATGCATTTG
2859511 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2859525 ACTTAGTGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
45 30 0.55
46 22 0.40
47 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (46 bp):
ATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATTTG
Found at i:2866842 original size:12 final size:12
Alignment explanation
Indices: 2866825--2866849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2866815 GGAAGCACAA
2866825 CAAATGGAGTTT
1 CAAATGGAGTTT
2866837 CAAATGGAGTTT
1 CAAATGGAGTTT
2866849 C
1 C
2866850 CTGGTCCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (12 bp):
CAAATGGAGTTT
Found at i:2867818 original size:64 final size:65
Alignment explanation
Indices: 2867707--2867828 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 65
2867697 GCATTTTATA
* *
2867707 CATCGATGCACTCAGGGTTTTATGAAAATATCGAATGCATTTGATGCATCGATGCACAAGACATG
1 CATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACAAGACATG
*
2867772 CATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTTTATGCATCGATGCACA
1 CATCGATGCACTCAGGCT-TTTATGAAAACATCGAATGCATTTGATGCATCGATGCACA
2867829 CTTAGTGCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 31 0.58
65 19 0.36
66 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (65 bp):
CATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACAAGACATG
Found at i:2870695 original size:24 final size:24
Alignment explanation
Indices: 2870647--2870765 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
2870637 TTCTACTTAT
2870647 TCCTTCGGGACAAATATCTACGTGG
1 TCCTTCGGGACAAAT-TCTACGTGG
*
2870672 TCCTTCAGGACAAATTCTACGTGG
1 TCCTTCGGGACAAATTCTACGTGG
*
2870696 TCCTTCGGGACAAATTCTACGCGG
1 TCCTTCGGGACAAATTCTACGTGG
* *
2870720 TCCTTCGGGATAAA-TCTATGTGG
1 TCCTTCGGGACAAATTCTACGTGG
*
2870743 -CACTTCGGTG-CATATTCTACGTG
1 TC-CTTCGG-GACAAATTCTACGTG
2870766 ACACTTTGGT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 52 0.63
25 14 0.17
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (24 bp):
TCCTTCGGGACAAATTCTACGTGG
Found at i:2870763 original size:47 final size:48
Alignment explanation
Indices: 2870647--2870763 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 48
2870637 TTCTACTTAT
*
2870647 TCCTTCGGGACAAATATCTACGTGGTCCTTCAGGACAAATTCTACGTGG
1 TCCTTCGGGACAAAT-TCTACGCGGTCCTTCAGGACAAATTCTACGTGG
* * *
2870696 TCCTTCGGGACAAATTCTACGCGGTCCTTCGGGATAAA-TCTATGTGG
1 TCCTTCGGGACAAATTCTACGCGGTCCTTCAGGACAAATTCTACGTGG
*
2870743 -CACTTCGGTG-CATATTCTACG
1 TC-CTTCGG-GACAAATTCTACG
2870764 TGACACTTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.02
47 24 0.39
48 21 0.34
49 15 0.25
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (48 bp):
TCCTTCGGGACAAATTCTACGCGGTCCTTCAGGACAAATTCTACGTGG
Found at i:2871341 original size:16 final size:17
Alignment explanation
Indices: 2871309--2871341 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2871299 ATTTTCAACG
*
2871309 AGTTTTCAAAGAGTCAA
1 AGTTTTCAAAAAGTCAA
2871326 AGTTTT-AAAAAGTCAA
1 AGTTTTCAAAAAGTCAA
2871342 TGTGACACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (17 bp):
AGTTTTCAAAAAGTCAA
Found at i:2873642 original size:25 final size:25
Alignment explanation
Indices: 2873614--2873687 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 25
2873604 GAGTCGAGGG
* *
2873614 TTCTACATGGTCATTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
*
2873639 TTCTACGTGGTCCTTCGGGA-AAAA
1 TTCTACGTGGTCCTTCGGGACAAAT
* *
2873663 TTCTATGCGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
2873688 CTATGTGGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (25 bp):
TTCTACGTGGTCCTTCGGGACAAAT
Found at i:2873986 original size:170 final size:170
Alignment explanation
Indices: 2873682--2874182 Score: 891
Period size: 170 Copynumber: 3.0 Consensus size: 170
2873672 GTCCTTCGGG
* *
2873682 ACAAATCTATGTGG--CTTTGATGCATATTCTACGTGGCACTTCGGTGCAAATTTTATGCGCAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
2873745 GGTGACTACAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
66 GGTGACTACAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
2873810 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
* *
2873850 ACAAATCTATGTGGCACTTTGGTTCATATTCTACGTGGCACTTTGGTGCAAATTTTAAGCGCAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
* *
2873915 GGTGACTACAATTATAGTGCACAACCTCAATGTACTAACATACATTGAGTTTTCAGTGATATGCG
66 GGTGACTACAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
2873980 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
* *
2874020 ACAAATATATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCAGTGCAAATTTTAAGCGCAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
*
2874085 GGTGACTGA-AATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAATGATATGC
66 GGTGACT-ACAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGC
2874149 GTTGGGCTAATAAAACAAATTGATATAAATTGAG
130 GTTGGGCTAATAAAACAAATTGATATAAATTGAG
2874183 GAAAGTGTAA
Statistics
Matches: 317, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
168 14 0.04
170 302 0.95
171 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (170 bp):
ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
GGTGACTACAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
Found at i:2876785 original size:15 final size:15
Alignment explanation
Indices: 2876719--2876785 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
2876709 ATTGTATTAT
* * *
2876719 TATGCGAATATGTTA
1 TATGTGAATGTGTTC
*
2876734 TATATGAATGTGTTC
1 TATGTGAATGTGTTC
* *
2876749 TACGTGGAAAGTGTTC
1 TATGT-GAATGTGTTC
* *
2876765 TGTGTGAATGTGTGC
1 TATGTGAATGTGTTC
2876780 TATGTG
1 TATGTG
2876786 GATAAAAGAT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
15 27 0.69
16 12 0.31
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.40
Consensus pattern (15 bp):
TATGTGAATGTGTTC
Found at i:2876919 original size:25 final size:24
Alignment explanation
Indices: 2876891--2876964 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
2876881 GAGTCGAGGG
*
2876891 TTCTACATGGTCCTTCGGGATAAAT
1 TTCTACGTGGTCCTTCGGGA-AAAT
*
2876916 TTCTACGTGGTCCTTCGGGAAAAA
1 TTCTACGTGGTCCTTCGGGAAAAT
*
2876940 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGA-AAAT
2876965 CTATGTGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGAAAAT
Found at i:2877266 original size:170 final size:170
Alignment explanation
Indices: 2876959--2877459 Score: 853
Period size: 170 Copynumber: 3.0 Consensus size: 170
2876949 GTCCTTCGGG
* * *
2876959 ACAAATCTATGTGG--CTTTGATGCATATTCTACGTGGAACTTCGGTGCAAATTTTATGCGCAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
* *
2877022 GGTGATTGCAATTATATTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
66 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
*
2877087 TTAGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
*
2877127 ACAAACCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
*
2877192 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATGCATTGAGTTCTCAGTGATATGCG
66 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
2877257 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
* * *
2877297 ACAAATCTATGTGGCAATTTGGTGCATATTCTACGTGGCATTTCGGTGCAAATTTTAAGCACAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
* * * *
2877362 GGTTACTGAAATTATAGTGTACAACCTCAATGTACTCACATACATTGAGTTCTCAATGATATGCG
66 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
2877427 TTGGGCTAATAAAACAAATTGATATAAATTGAG
131 TTGGGCTAATAAAACAAATTGATATAAATTGAG
2877460 ATATTGTGTA
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
168 13 0.04
170 301 0.96
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (170 bp):
ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
Found at i:2880053 original size:15 final size:15
Alignment explanation
Indices: 2880006--2880053 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2879996 ATGATATATA
*
2880006 TGAATGTGTTCTACG
1 TGAATGTGTTCTATG
* *
2880021 TGGAAAGTGTTCTGTG
1 T-GAATGTGTTCTATG
*
2880037 TGAATGTGTGCTATG
1 TGAATGTGTTCTATG
2880052 TG
1 TG
2880054 GATAAAAGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.19, C:0.08, G:0.33, T:0.40
Consensus pattern (15 bp):
TGAATGTGTTCTATG
Found at i:2880187 original size:25 final size:24
Alignment explanation
Indices: 2880159--2880232 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
2880149 GAGTCGAGGG
*
2880159 TTCTACATGGTCCTTCGGGATAAAT
1 TTCTACGTGGTCCTTCGGGA-AAAT
*
2880184 TTCTACGTGGTCCTTCGGGAAAAA
1 TTCTACGTGGTCCTTCGGGAAAAT
*
2880208 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGA-AAAT
2880233 CTATGTGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGAAAAT
Found at i:2880529 original size:170 final size:170
Alignment explanation
Indices: 2880227--2880733 Score: 892
Period size: 170 Copynumber: 3.0 Consensus size: 170
2880217 GTCCTTCGGG
* *
2880227 ACAAATCTATGTGG--CTTTGATGCATATTCTACGTGGCACTTCGGTGCAAATTTTATGCGCAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
2880290 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
66 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
2880355 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
* * *
2880395 ACAAACCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTTGGTGCAAATTTTAAGCGCAGG
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
2880460 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
66 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
2880525 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
* * *
2880565 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGACACTTCGGTGCAAATTTTAAACACAGT
1 ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
* * *
2880630 GGTGACTGAAATTATAGTGCACAACCTCAATGTACTCACGTACATTGAGTTCTCAATGATATGCG
66 GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
*
2880695 TTGGGATAATAAAACAAATTGATATAAATTGAGCAATGT
131 TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGT
2880734 GTAACAGTAT
Statistics
Matches: 322, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
168 13 0.04
170 309 0.96
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (170 bp):
ACAAATCTATGTGGCACTTTGGTGCATATTCTACGTGGCACTTCGGTGCAAATTTTAAGCGCAGT
GGTGACTGCAATTATAGTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCG
TTGGGCTAATAAAACAAATTGATATAAATTGAGCAATGTT
Found at i:2883299 original size:31 final size:31
Alignment explanation
Indices: 2883255--2883313 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
2883245 TATGCGAATA
*
2883255 TGTTATATATGAATGTGTTCTACGTGGAAAG
1 TGTTATATATGAATGTGTGCTACGTGGAAAG
* * *
2883286 TGTTATGTGTGAATGTGTGCTATGTGGA
1 TGTTATATATGAATGTGTGCTACGTGGA
2883314 TAAAAGATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.24, C:0.05, G:0.31, T:0.41
Consensus pattern (31 bp):
TGTTATATATGAATGTGTGCTACGTGGAAAG
Found at i:2883445 original size:25 final size:25
Alignment explanation
Indices: 2883417--2883490 Score: 114
Period size: 24 Copynumber: 3.0 Consensus size: 25
2883407 GAGTCGAGGG
*
2883417 TTCTACATGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
*
2883442 TTCTACGTGGTCCTTCGGGA-AAAA
1 TTCTACGTGGTCCTTCGGGACAAAT
*
2883466 TTCTACGCGGTCCTTCGGGACAAAT
1 TTCTACGTGGTCCTTCGGGACAAAT
2883491 CGATGTGGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (25 bp):
TTCTACGTGGTCCTTCGGGACAAAT
Found at i:2883724 original size:24 final size:24
Alignment explanation
Indices: 2883664--2883733 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
2883654 CAAATCTATA
* *
2883664 TGGCACTTTGGTACATATTCTACG
1 TGGCACTTTGGTGCATATTTTACG
2883688 TGGCACTTTGGTGCATATTTTACG
1 TGGCACTTTGGTGCATATTTTACG
* *
2883712 TGGCACTTCGGTGCAAATTTTA
1 TGGCACTTTGGTGCATATTTTA
2883734 TGCGCAGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (24 bp):
TGGCACTTTGGTGCATATTTTACG
Found at i:2883834 original size:194 final size:194
Alignment explanation
Indices: 2883499--2883865 Score: 653
Period size: 194 Copynumber: 1.9 Consensus size: 194
2883489 ATCGATGTGG
* *
2883499 CTTTGATGCATATTCTACGTGGCACTTCGGCGTAAATTTTATGTGCAGTGGTGACTGCAATTATA
1 CTTTGATGCATATTCTACGTGGCACTTCGGCGCAAATTTTATGCGCAGTGGTGACTGCAATTATA
2883564 GTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCGATGGGCTAATAAAACA
66 GTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCGATGGGCTAATAAAACA
2883629 AATTGATATAAATTGAGCAATGTTACAAATCTATATGGCACTTTGGTACATATTCTACGTGGCA
131 AATTGATATAAATTGAGCAATGTTACAAATCTATATGGCACTTTGGTACATATTCTACGTGGCA
* * * *
2883693 CTTTGGTGCATATTTTACGTGGCACTTCGGTGCAAATTTTATGCGCAGTTGTGACTGCAATTATA
1 CTTTGATGCATATTCTACGTGGCACTTCGGCGCAAATTTTATGCGCAGTGGTGACTGCAATTATA
* *
2883758 GTGCATAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACA
66 GTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCGATGGGCTAATAAAACA
*
2883823 AATTGATATAAATTGAGCAATGTTACAAATCTATGTGGCACTT
131 AATTGATATAAATTGAGCAATGTTACAAATCTATATGGCACTT
2883866 CGGTGAAAAT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 164 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (194 bp):
CTTTGATGCATATTCTACGTGGCACTTCGGCGCAAATTTTATGCGCAGTGGTGACTGCAATTATA
GTGCACAACCTCAATGTACTCACATACATTGAGTTCTCAGTGATATGCGATGGGCTAATAAAACA
AATTGATATAAATTGAGCAATGTTACAAATCTATATGGCACTTTGGTACATATTCTACGTGGCA
Found at i:2883975 original size:146 final size:146
Alignment explanation
Indices: 2883711--2884016 Score: 558
Period size: 146 Copynumber: 2.1 Consensus size: 146
2883701 CATATTTTAC
* * * *
2883711 GTGGCACTTCGGTGCAAATTTTATGCGCAGTTGTGACTGCAATTATAGTGCATAACCTCAATGTA
1 GTGGCACTTCGGTGAAAATTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCAATGTA
*
2883776 CTCACATACATTGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACAAATTGATATAAATTGAGC
66 CTCACATACATAGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACAAATTGATATAAATTGAGC
2883841 AATGTTACAAATCTAT
131 AATGTTACAAATCTAT
2883857 GTGGCACTTCGGTGAAAATTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCAATGTA
1 GTGGCACTTCGGTGAAAATTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCAATGTA
2883922 CTCACATACATAGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACAAATTGATATAAATTGAGC
66 CTCACATACATAGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACAAATTGATATAAATTGAGC
2883987 AATGTTACAAATCTAT
131 AATGTTACAAATCTAT
*
2884003 GTGGCACTTTGGTG
1 GTGGCACTTCGGTG
2884017 CATATTCTAC
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 154 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (146 bp):
GTGGCACTTCGGTGAAAATTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCAATGTA
CTCACATACATAGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACAAATTGATATAAATTGAGC
AATGTTACAAATCTAT
Found at i:2884139 original size:170 final size:170
Alignment explanation
Indices: 2883852--2884161 Score: 548
Period size: 170 Copynumber: 1.8 Consensus size: 170
2883842 ATGTTACAAA
* *
2883852 TCTATGTGGCACTTCGGTGAAAATTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCA
1 TCTACGTGGCACTTCGGTGAAAAGTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCA
* *
2883917 ATGTACTCACATACATAGAGTTCTCAGTGATATGCGTTGGGCTAATAAAACAAATTGATATAAAT
66 ATGTACTCACATACATAGAGTTCTCAATGATATGCGTTGGGCTAATAAAACAAACTGATATAAAT
2883982 TGAGCAATGTTACAAATCTATGTGGCACTTTGGTGCATAT
131 TGAGCAATGTTACAAATCTATGTGGCACTTTGGTGCATAT
* *
2884022 TCTACGTGGCACTTCGGTGCAAAGTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAATCTCA
1 TCTACGTGGCACTTCGGTGAAAAGTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCA
* *
2884087 ATGTACTCACATACATTGAGTTCTCAATTATATGCGTTGGGCTAATAAAACAAACTGATATAAAT
66 ATGTACTCACATACATAGAGTTCTCAATGATATGCGTTGGGCTAATAAAACAAACTGATATAAAT
2884152 TGAGCAATGT
131 TGAGCAATGT
2884162 GTAACAGTAT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 132 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (170 bp):
TCTACGTGGCACTTCGGTGAAAAGTTTAAGCGCAGTGGTGACTGCAATTATAGTGCACAACCTCA
ATGTACTCACATACATAGAGTTCTCAATGATATGCGTTGGGCTAATAAAACAAACTGATATAAAT
TGAGCAATGTTACAAATCTATGTGGCACTTTGGTGCATAT
Found at i:2895107 original size:47 final size:46
Alignment explanation
Indices: 2895010--2895100 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 46
2895000 CCACGTAGGG
* * * *
2895010 TATAGCGCGGGGCAAGGGTCGCGCCTTACCTTTAATTCTGATTTATA
1 TATAGCGCGGGACAAGGGCCGCGCCATACCTTTAA-TCTGATATATA
2895057 TATAGCGCGGGACAAGGGCCGCGCCATACCTTTAA-CTGATATAT
1 TATAGCGCGGGACAAGGGCCGCGCCATACCTTTAATCTGATATAT
2895101 TCATATAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 8 0.20
47 32 0.80
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (46 bp):
TATAGCGCGGGACAAGGGCCGCGCCATACCTTTAATCTGATATATA
Found at i:2899361 original size:27 final size:27
Alignment explanation
Indices: 2899331--2899389 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
2899321 CATGTGATGG
**
2899331 TGGCGGCGGTGGCATCGGGTAAGGGAA
1 TGGCGGCGACGGCATCGGGTAAGGGAA
* * *
2899358 TGGCAGCGACGGCATCTGGTAATGGAA
1 TGGCGGCGACGGCATCGGGTAAGGGAA
*
2899385 AGGCG
1 TGGCG
2899390 ATGGCAGCAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.17, G:0.46, T:0.15
Consensus pattern (27 bp):
TGGCGGCGACGGCATCGGGTAAGGGAA
Found at i:2901010 original size:14 final size:14
Alignment explanation
Indices: 2900991--2901046 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
2900981 CGTTCGTGAA
2900991 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
2901005 CGTTCGGTTATG-T
1 CGTTCGATTATGTT
*
2901018 --TT-GTTTATGTT
1 CGTTCGATTATGTT
2901029 CGTTCGATTATGTT
1 CGTTCGATTATGTT
2901043 CGTT
1 CGTT
2901047 TATGTTCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:2901025 original size:24 final size:24
Alignment explanation
Indices: 2900998--2901067 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
2900988 GAACGTTCGA
*
2900998 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
2901022 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
2901046 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
2901068 AACTCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:2901806 original size:10 final size:10
Alignment explanation
Indices: 2901791--2901865 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
2901781 GGGTCTCCAA
2901791 CGTTTATGTT
1 CGTTTATGTT
2901801 CGTTTATGTT
1 CGTTTATGTT
2901811 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
2901822 ATGTTCGTGTT
1 -CGTTTATGTT
2901833 CGTTTATGTT
1 CGTTTATGTT
2901843 CG----TGTT
1 CGTTTATGTT
2901849 CGTTTATGTT
1 CGTTTATGTT
2901859 CGTTTAT
1 CGTTTAT
2901866 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:2901822 original size:16 final size:16
Alignment explanation
Indices: 2901797--2901861 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
2901787 CCAACGTTTA
2901797 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
2901813 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
2901829 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2901845 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2901861 T
1 T
2901862 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2902332 original size:9 final size:9
Alignment explanation
Indices: 2902302--2902353 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
2902292 ATATGCAAAA
2902302 AAATTAAAT
1 AAATTAAAT
*
2902311 -AAGTAAA-
1 AAATTAAAT
*
2902318 ATATTAAAT
1 AAATTAAAT
2902327 AAATTAAAT
1 AAATTAAAT
*
2902336 -ACTTAAAT
1 AAATTAAAT
2902344 AAATTAAAT
1 AAATTAAAT
2902353 A
1 A
2902354 CAAAATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.53
9 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:2902334 original size:17 final size:17
Alignment explanation
Indices: 2902299--2902351 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
2902289 TATATATGCA
* *
2902299 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
2902315 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
2902332 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
2902349 AAA
1 AAA
2902352 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:2902352 original size:17 final size:17
Alignment explanation
Indices: 2902305--2902354 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
2902295 TGCAAAAAAA
* *
2902305 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
2902321 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
2902338 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
2902355 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:2906693 original size:124 final size:123
Alignment explanation
Indices: 2906457--2906712 Score: 356
Period size: 124 Copynumber: 2.1 Consensus size: 123
2906447 TTAAAATGGC
* * * * *
2906457 TCCAGGTAAGTCAGAAAATGTATGATACAAGGTATACTCCTAACATAAGATCAATCACTTGTGAA
1 TCCAGGTAATTAAGAAAATGTATGATACAAGGTATACTCCTAACATAAGATCAACCACCTATGAA
2906522 AAACCATGAATCATTCTCTCCAAACACAAAATGTCCGCATATCAGCTCACATGTATTA
66 AAACCATGAATCATTCTCTCCAAACACAAAATGTCCGCATATCAGCTCACATGTATTA
*
2906580 TCCAGGTAATTAAGAAAATGTATGATACAAGGTATACTCCTAACATAAGAATCAACCACCTATGG
1 TCCAGGTAATTAAGAAAATGTATGATACAAGGTATACTCCTAACATAAG-ATCAACCACCTATGA
* ** * *
2906645 AAAACTATGAATCATTCTC-CACAAACACAAAATG-CTTTCATATCAGCTCATATGTTTTA
65 AAAACCATGAATCATTCTCTC-CAAACACAAAATGTC-CGCATATCAGCTCACATGTATTA
*
2906704 -CCAAGTAAT
1 TCCAGGTAAT
2906713 ATACCCACTA
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
123 57 0.48
124 61 0.52
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (123 bp):
TCCAGGTAATTAAGAAAATGTATGATACAAGGTATACTCCTAACATAAGATCAACCACCTATGAA
AAACCATGAATCATTCTCTCCAAACACAAAATGTCCGCATATCAGCTCACATGTATTA
Found at i:2914189 original size:20 final size:19
Alignment explanation
Indices: 2914152--2914195 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
2914142 GACAATAATC
2914152 AAAGTAATATTATATATTAT
1 AAAGTAATATTATATATT-T
* * *
2914172 AAAGTAATTTTGTCTATTT
1 AAAGTAATATTATATATTT
2914191 AAAGT
1 AAAGT
2914196 GGCCAAGAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (19 bp):
AAAGTAATATTATATATTT
Found at i:2914347 original size:16 final size:16
Alignment explanation
Indices: 2914328--2914362 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2914318 TTTAAATTCA
2914328 TAAAATCCACAATATC
1 TAAAATCCACAATATC
2914344 TAAAATCCACAATATC
1 TAAAATCCACAATATC
2914360 TAA
1 TAA
2914363 GAAATATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATCCACAATATC
Found at i:2915592 original size:23 final size:22
Alignment explanation
Indices: 2915562--2915657 Score: 126
Period size: 23 Copynumber: 4.4 Consensus size: 22
2915552 ACCATTCTTC
* *
2915562 TTCTTCTTCCATAAACACGTTTA
1 TTCTTCTTCCATAAACTC-ATTA
2915585 TTCTTCTTCCATAAACTCATTA
1 TTCTTCTTCCATAAACTCATTA
2915607 CTTCTTCTTCCATAAACTCATT-
1 -TTCTTCTTCCATAAACTCATTA
2915629 TT-TTCTTCCATAAACTCATT-
1 TTCTTCTTCCATAAACTCATTA
*
2915649 TTTTTCTTC
1 TTCTTCTTC
2915658 TTATTTCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
20 20 0.29
21 8 0.12
22 3 0.04
23 38 0.55
ACGTcount: A:0.23, C:0.27, G:0.01, T:0.49
Consensus pattern (22 bp):
TTCTTCTTCCATAAACTCATTA
Found at i:2915635 original size:43 final size:46
Alignment explanation
Indices: 2915561--2915648 Score: 137
Period size: 43 Copynumber: 2.0 Consensus size: 46
2915551 TACCATTCTT
*
2915561 CTTCTTCTTCCATAAACACGTTTATTCTTCTTCCATAAACTCATTA
1 CTTCTTCTTCCATAAACACGATTATTCTTCTTCCATAAACTCATTA
*
2915607 CTTCTTCTTCCATAAACTC-ATT-TT-TTCTTCCATAAACTCATT
1 CTTCTTCTTCCATAAACACGATTATTCTTCTTCCATAAACTCATT
2915649 TTTTTCTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 18 0.45
44 2 0.05
45 2 0.05
46 18 0.45
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.45
Consensus pattern (46 bp):
CTTCTTCTTCCATAAACACGATTATTCTTCTTCCATAAACTCATTA
Found at i:2917276 original size:18 final size:17
Alignment explanation
Indices: 2917253--2917300 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
2917243 GATGTTTAGA
2917253 AAGGAATTGAAATCTGT
1 AAGGAATTGAAATCTGT
2917270 GAAGGAATT-AGAATCTGT
1 -AAGGAATTGA-AATCTGT
*
2917288 -AGGAATTGGAATC
1 AAGGAATTGAAATC
2917301 CAATTCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 15 0.56
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (17 bp):
AAGGAATTGAAATCTGT
Found at i:2917955 original size:37 final size:38
Alignment explanation
Indices: 2917871--2917957 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
2917861 CCTAAACCCG
* * *
2917871 AACCCGATCCTACTTGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGACTCGACCCGAATATCACACTTAAAAA
2917909 AACCCGACCCGACTCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGACTCGACCCGAATATCACACTTAAAAA
2917946 AACCCGACCCGA
1 AACCCGACCCGA
2917958 ACAAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 16 0.35
38 30 0.65
ACGTcount: A:0.38, C:0.37, G:0.10, T:0.15
Consensus pattern (38 bp):
AACCCGACCCGACTCGACCCGAATATCACACTTAAAAA
Found at i:2918600 original size:30 final size:30
Alignment explanation
Indices: 2918560--2918628 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
2918550 TTGTAATACA
*
2918560 GTCCCTCAACATTTAGTTCATTTGCAATATG
1 GTCCC-CAACATTTAGTCCATTTGCAATATG
*
2918591 GTCCCCAACATTTAGTCCGTTTGCAATATG
1 GTCCCCAACATTTAGTCCATTTGCAATATG
2918621 GTCCCCAA
1 GTCCCCAA
2918629 TGTAACTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (30 bp):
GTCCCCAACATTTAGTCCATTTGCAATATG
Found at i:2919193 original size:18 final size:17
Alignment explanation
Indices: 2919139--2919193 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
2919129 TTATATAAAA
*
2919139 TATATTTTTATTATAAT
1 TATATTTTTATTATATT
* *
2919156 TATATTTTTTTGTATTTT
1 TATATTTTTAT-TATATT
2919174 TATATTTTTATTATAGTT
1 TATATTTTTATTATA-TT
2919192 TA
1 TA
2919194 AATCGATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TATATTTTTATTATATT
Done.