Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 63 of 356
Found at i:20066083 original size:15 final size:17
Alignment explanation
Indices: 20066063--20066103 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
20066053 TTTTTGTTTT
20066063 TTGTTTGTTTCT-TCG-
1 TTGTTTGTTTCTCTCGC
*
20066078 TTGTTTGCTTCTCTCGC
1 TTGTTTGTTTCTCTCGC
*
20066095 GTGTTTGTT
1 TTGTTTGTT
20066104 GTGTGTTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
17 7 0.33
ACGTcount: A:0.00, C:0.17, G:0.22, T:0.61
Consensus pattern (17 bp):
TTGTTTGTTTCTCTCGC
Found at i:20067349 original size:22 final size:21
Alignment explanation
Indices: 20067324--20067365 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
20067314 AATTAAATAA
20067324 AAAATTACGTGCAACTATTATG
1 AAAATTACGTGCAAC-ATTATG
20067346 AAAATTACGTGCAACATTAT
1 AAAATTACGTGCAACATTAT
20067366 AACATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (21 bp):
AAAATTACGTGCAACATTATG
Found at i:20067569 original size:20 final size:19
Alignment explanation
Indices: 20067531--20067569 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
20067521 CCCATTTTCA
*
20067531 TAATCAACAAAAATCTAAT
1 TAATCAACAAAAATATAAT
*
20067550 TAATCAAACAAACATATAAT
1 TAATC-AACAAAAATATAAT
20067570 GTTCACTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (19 bp):
TAATCAACAAAAATATAAT
Found at i:20067920 original size:14 final size:14
Alignment explanation
Indices: 20067901--20067934 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
20067891 CAAATGTTTG
20067901 TAATAAAAAATAGA
1 TAATAAAAAATAGA
20067915 TAATAAAAAATAGA
1 TAATAAAAAATAGA
*
20067929 AAATAA
1 TAATAA
20067935 TTAATACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
TAATAAAAAATAGA
Found at i:20084675 original size:35 final size:31
Alignment explanation
Indices: 20084636--20084705 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 31
20084626 ATATACATAT
* *
20084636 AATAAAATACATGTATTGATAATATATATGATAAG
1 AATAAAATAAATGTA---ATAATATACAT-ATAAG
20084671 AATAAAATAAATGTAATAATATACATATAAG
1 AATAAAATAAATGTAATAATATACATATAAG
20084702 AATA
1 AATA
20084706 TAAAATCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 9 0.27
32 10 0.30
35 14 0.42
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (31 bp):
AATAAAATAAATGTAATAATATACATATAAG
Found at i:20084951 original size:23 final size:23
Alignment explanation
Indices: 20084925--20084970 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
20084915 GATAACGACA
20084925 TAGAATGAACTTACTAGTACATT
1 TAGAATGAACTTACTAGTACATT
20084948 TAGAATGAACTTACTAGTACATT
1 TAGAATGAACTTACTAGTACATT
20084971 ACATGGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
TAGAATGAACTTACTAGTACATT
Found at i:20085067 original size:14 final size:12
Alignment explanation
Indices: 20085040--20085078 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
20085030 ATGGTGTTCA
*
20085040 AAATATATACAT
1 AAATATATATAT
20085052 AACATAATATATAT
1 AA-AT-ATATATAT
20085066 AAATATATATAT
1 AAATATATATAT
20085078 A
1 A
20085079 CGTAACGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATATATATAT
Found at i:20086535 original size:16 final size:16
Alignment explanation
Indices: 20086514--20086545 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20086504 TTTTGTGTAA
*
20086514 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
20086530 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
20086546 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:20088027 original size:8 final size:8
Alignment explanation
Indices: 20088014--20088047 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
20088004 TTTCATTTCG
20088014 TTTTTTTA
1 TTTTTTTA
20088022 TTTTTTTA
1 TTTTTTTA
20088030 TCTTTTTTA
1 T-TTTTTTA
*
20088039 TTTTATTA
1 TTTTTTTA
20088047 T
1 T
20088048 GAATCTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:20088037 original size:17 final size:17
Alignment explanation
Indices: 20088015--20088047 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20088005 TTCATTTCGT
*
20088015 TTTTTTATTTTTTTATC
1 TTTTTTATTTTATTATC
20088032 TTTTTTATTTTATTAT
1 TTTTTTATTTTATTAT
20088048 GAATCTAATT
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:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTATTTTATTATC
Found at i:20088922 original size:2 final size:2
Alignment explanation
Indices: 20088915--20088948 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
20088905 CCTTATCTAT
* *
20088915 TA TA TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20088949 CATAGTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20088936 original size:12 final size:12
Alignment explanation
Indices: 20088919--20088948 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20088909 ATCTATTATA
20088919 TATATATATATG
1 TATATATATATG
20088931 TATATATATATG
1 TATATATATATG
20088943 TATATA
1 TATATA
20088949 CATAGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
TATATATATATG
Found at i:20089030 original size:25 final size:24
Alignment explanation
Indices: 20089002--20089071 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
20088992 AACTGATTTG
20089002 TTATATATATTTATTTCAAATTATT
1 TTATAT-TATTTATTTCAAATTATT
* * *
20089027 TTATATTGTTTATTCTTAAGTTATT
1 TTATATTATTTATT-TCAAATTATT
* *
20089052 GTATATTATGTATTTCAAAT
1 TTATATTATTTATTTCAAAT
20089072 AACCCTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATATTATTTATTTCAAATTATT
Found at i:20089194 original size:20 final size:20
Alignment explanation
Indices: 20089150--20089195 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
20089140 CTTTTACATA
*
20089150 TTATA-TATTTTAAATTTGT
1 TTATATTATTTTAAATTTGC
20089169 TATATATTATTTTAAA-TTGAC
1 T-TATATTATTTTAAATTTG-C
20089190 TTATAT
1 TTATAT
20089196 ATACCTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (20 bp):
TTATATTATTTTAAATTTGC
Found at i:20089227 original size:25 final size:24
Alignment explanation
Indices: 20089155--20089235 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
20089145 ACATATTATA
*
20089155 TATTTTAAATT-TGTTATATA--T
1 TATTTTAAATTATTTTATATACCT
*
20089176 TATTTTAAATTGACTTATATATACCT
1 TATTTTAAATT-A-TTTTATATACCT
20089202 TATTTTAAAATTATTTTATATACCT
1 TATTTT-AAATTATTTTATATACCT
20089227 TATTTTAAA
1 TATTTTAAA
20089236 CCCCATTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
21 11 0.22
24 10 0.20
25 17 0.33
26 8 0.16
27 5 0.10
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
TATTTTAAATTATTTTATATACCT
Found at i:20089231 original size:14 final size:14
Alignment explanation
Indices: 20089193--20089233 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
20089183 AATTGACTTA
20089193 TATATACCTTATTT
1 TATATACCTTATTT
*
20089207 TA-A-A-ATTATTT
1 TATATACCTTATTT
20089218 TATATACCTTATTT
1 TATATACCTTATTT
20089232 TA
1 TA
20089234 AACCCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
11 8 0.36
12 2 0.09
13 2 0.09
14 10 0.45
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATACCTTATTT
Found at i:20105128 original size:24 final size:24
Alignment explanation
Indices: 20105097--20105149 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
20105087 GTTGATCTTG
20105097 ATTA-ATTTAGACTTCTTCAATTA
1 ATTACATTTAGACTTCTTCAATTA
*
20105120 ATTACATTTAGACTTCTTCGATTA
1 ATTACATTTAGACTTCTTCAATTA
20105144 ATTACA
1 ATTACA
20105150 AGAAGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (24 bp):
ATTACATTTAGACTTCTTCAATTA
Found at i:20110874 original size:12 final size:12
Alignment explanation
Indices: 20110857--20110881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20110847 TGCTTACCCC
20110857 TAAATCATGTGT
1 TAAATCATGTGT
20110869 TAAATCATGTGT
1 TAAATCATGTGT
20110881 T
1 T
20110882 TGCAGGGTGG
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:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TAAATCATGTGT
Found at i:20117126 original size:48 final size:48
Alignment explanation
Indices: 20116972--20117119 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
20116962 ATATATACAC
* **
20116972 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
20117020 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
20117068 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
20117116 ATCT
1 ATCT
20117120 TGTACATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:20118362 original size:23 final size:23
Alignment explanation
Indices: 20118330--20118373 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20118320 AAAATTTCAC
* *
20118330 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
20118353 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
20118374 TATTTTTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:20119335 original size:40 final size:40
Alignment explanation
Indices: 20119278--20119396 Score: 177
Period size: 40 Copynumber: 3.0 Consensus size: 40
20119268 GGATTTTGTC
* *
20119278 CCAGCACGAATGC-CTTTGGGGCTTAGCCCGGATACATCA
1 CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATACAACA
* *
20119317 CCAGCACGAATGCTCTTTGAGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATACAACA
* *
20119357 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATACAACA
20119397 TACTGAACTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.18
40 60 0.82
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATACAACA
Found at i:20121498 original size:48 final size:48
Alignment explanation
Indices: 20121345--20121487 Score: 232
Period size: 48 Copynumber: 3.0 Consensus size: 48
20121335 TATATACACA
* **
20121345 TCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCATG
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATG
*
20121393 GCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATG
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATG
* *
20121441 TCTCATACATATTTTACATTAGCCATTCGGCTTTACCATATATATAT
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
20121488 ATCTTGTACA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATG
Found at i:20122730 original size:23 final size:23
Alignment explanation
Indices: 20122703--20122746 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20122693 AAAATTTCAC
* *
20122703 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
20122726 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
20122747 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:20123201 original size:15 final size:15
Alignment explanation
Indices: 20123181--20123222 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
20123171 CCATTTCATG
20123181 CATTTCATAAATAAC
1 CATTTCATAAATAAC
* *
20123196 CATTTCATAAATCAT
1 CATTTCATAAATAAC
*
20123211 TATTTCATAAAT
1 CATTTCATAAAT
20123223 TTCATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (15 bp):
CATTTCATAAATAAC
Found at i:20123525 original size:13 final size:13
Alignment explanation
Indices: 20123493--20123525 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
20123483 TTCGAGACCT
20123493 TAATTTCAATTCA
1 TAATTTCAATTCA
20123506 T-ATTTCAATTCA
1 TAATTTCAATTCA
20123518 TAATTTCA
1 TAATTTCA
20123526 CTTTTCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTTCAATTCA
Found at i:20125118 original size:20 final size:19
Alignment explanation
Indices: 20125095--20125132 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
20125085 TTCGAATGGC
20125095 TTCTATTGTTCTTTCTTTTT
1 TTCTATTGTT-TTTCTTTTT
*
20125115 TTCTTTTGTTTTTCTTTT
1 TTCTATTGTTTTTCTTTT
20125133 ATACCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (19 bp):
TTCTATTGTTTTTCTTTTT
Found at i:20127592 original size:21 final size:22
Alignment explanation
Indices: 20127568--20127619 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
20127558 AAAGACATTT
20127568 GGTCCCTAAATCGAGCCTTT-A
1 GGTCCCTAAATCGAGCCTTTAA
20127589 GGTCCCTAAATCGAGCCTTTAA
1 GGTCCCTAAATCGAGCCTTTAA
20127611 GG-CCCTAAA
1 GGTCCCTAAA
20127620 AATAAATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (22 bp):
GGTCCCTAAATCGAGCCTTTAA
Found at i:20136749 original size:18 final size:18
Alignment explanation
Indices: 20136726--20136762 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20136716 GGGTGTAGCT
20136726 AGGGGGCTGACAAGGGCC
1 AGGGGGCTGACAAGGGCC
20136744 AGGGGGCTGACAAGGGCC
1 AGGGGGCTGACAAGGGCC
20136762 A
1 A
20136763 AGGCTCCCTC
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:0.49, T:0.05
Consensus pattern (18 bp):
AGGGGGCTGACAAGGGCC
Found at i:20137109 original size:18 final size:18
Alignment explanation
Indices: 20137078--20137115 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
20137068 ATTATTCTAG
20137078 TTTTTAATTAA-TTTATT
1 TTTTTAATTAATTTTATT
*
20137095 TTTTTATATTGATTTTATT
1 TTTTTA-ATTAATTTTATT
20137114 TT
1 TT
20137116 ATTTTGTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTAATTAATTTTATT
Found at i:20147261 original size:13 final size:13
Alignment explanation
Indices: 20147243--20147268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20147233 ATAAAAAACT
20147243 AAATTTAATTAAA
1 AAATTTAATTAAA
20147256 AAATTTAATTAAA
1 AAATTTAATTAAA
20147269 GCCCTCGTCA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAATTAAA
Found at i:20150316 original size:22 final size:24
Alignment explanation
Indices: 20150256--20150318 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
20150246 CACATTAAAA
* *
20150256 ATATAAACAATGAAAA-TATAGAT
1 ATATAAAAAATCAAAATTATAGAT
* *
20150279 ATATAAAAATTCAAAATTATATAT
1 ATATAAAAAATCAAAATTATAGAT
20150303 -TATAAAAAAT-AAAATT
1 ATATAAAAAATCAAAATT
20150319 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 6 0.18
23 22 0.65
24 6 0.18
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (24 bp):
ATATAAAAAATCAAAATTATAGAT
Found at i:20150389 original size:16 final size:18
Alignment explanation
Indices: 20150370--20150402 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20150360 AAATATAAAA
20150370 AAAAG-TTAAAA-TAATT
1 AAAAGTTTAAAAGTAATT
20150386 AAAAGTTTAAAAGTAAT
1 AAAAGTTTAAAAGTAAT
20150403 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (18 bp):
AAAAGTTTAAAAGTAATT
Found at i:20158617 original size:16 final size:17
Alignment explanation
Indices: 20158587--20158622 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
20158577 CTATTAGTAA
*
20158587 TTAAACTAAAGATAATT
1 TTAAACTAAAAATAATT
20158604 TTAAA-TAAAAATAATT
1 TTAAACTAAAAATAATT
20158620 TTA
1 TTA
20158623 CTAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (17 bp):
TTAAACTAAAAATAATT
Found at i:20160402 original size:22 final size:22
Alignment explanation
Indices: 20160377--20160418 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
20160367 TTACAGAAGA
20160377 AGAAGATAGAAAG-AAAGAAAGG
1 AGAAGA-AGAAAGAAAAGAAAGG
20160399 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
20160419 AGGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:20166786 original size:25 final size:25
Alignment explanation
Indices: 20166758--20166825 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 25
20166748 TATTTTGGTA
20166758 TTTATTTTATTTTCGGATTTTATTT
1 TTTATTTTATTTTCGGATTTTATTT
*
20166783 TTTAAAATATATTATTTTCGTATTTTATTT
1 TTT---AT-T-TTATTTTCGGATTTTATTT
*
20166813 TTTATATTATTTT
1 TTTATTTTATTTT
20166826 AGTACATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 10 0.28
27 2 0.06
28 2 0.06
29 1 0.03
30 21 0.58
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTATTTTATTTTCGGATTTTATTT
Found at i:20167791 original size:13 final size:13
Alignment explanation
Indices: 20167775--20167801 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20167765 TTGTTTTTTT
20167775 ATTTTATTTTCAA
1 ATTTTATTTTCAA
20167788 ATTTTATTTTCAA
1 ATTTTATTTTCAA
20167801 A
1 A
20167802 ATATGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTATTTTCAA
Found at i:20167859 original size:146 final size:145
Alignment explanation
Indices: 20166758--20167933 Score: 1747
Period size: 147 Copynumber: 8.1 Consensus size: 145
20166748 TATTTTGGTA
*
20166758 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
20166823 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATACTAATTTAATAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
20166888 ATTTTGGCCGTTTGTTTT
131 ATTTTGGCC--TT-TTTT
* *
20166906 TTTATTTTATTTTCGGATTTTACTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
20166970 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATACTAATTTAATAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
20167035 ATTTTGGCCGTTTATTT
131 ATTTTGGCC-TTT-TTT
20167052 TTTATTTTATTTTCGGATTTTATTTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
*
20167117 ATTTTAGTACATAATGTTTCAAATGTATTATTTTA-TTTTTTTATATTAATTTAGAAAAAAAACT
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAACT
*
20167181 CTGATTTTGGCCCTTTTT
128 CTGATTTTGGCCTTTTTT
* *
20167199 ATT-TTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
20167263 TTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAATCTGT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAAACTCT
*
20167326 GATTTTGGCCTTTTTA
130 GATTTTGGCCTTTTTT
** *
20167342 TTTATTTTGCTTTCAGATTTTA-TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
20167406 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTTATTTAGAAAAAAAATCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
* *
20167471 ATTTTGGCCCTGTTT
131 ATTTTGGCCTTTTTT
* * *
20167486 TAT-TTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCGTA---T-TTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
20167546 TTTAGTACATAATGTTTC--ATGTATTATTTGAGTTTTTTTATATTAATTTAGTAAAAATCTGTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
20167609 ATTTTGGCCCTTTTT
131 ATTTTGGCCTTTTTT
* *
20167624 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
20167689 TTTAGTAAATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTA
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
20167754 ATTTTGGCCGTTTGTTTT
131 ATTTTGGCC--TT-TTTT
** * *
20167772 TTTATTTTATTTTCAAATTTTA-TTTTCAAAATATGCTATTTTCGTATTTTATTTTTT-TATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * * *
20167835 TTTAGTACATAATATTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
20167900 ATTTTGGCC--TTTT
131 ATTTTGGCCTTTTTT
*
20167913 TTTATTTTATTTTTGGATTTT
1 TTTATTTTATTTTCGGATTTT
20167934 TTAAAATATA
Statistics
Matches: 942, Mismatches: 65, Indels: 49
0.89 0.06 0.05
Matches are distributed among these distances:
138 55 0.06
139 39 0.04
140 31 0.03
141 23 0.02
142 14 0.01
143 130 0.14
144 127 0.13
145 95 0.10
146 118 0.13
147 152 0.16
148 93 0.10
149 65 0.07
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (145 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
ATTTTGGCCTTTTTT
Found at i:20167946 original size:14 final size:14
Alignment explanation
Indices: 20167929--20167957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20167919 TTATTTTTGG
20167929 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
20167943 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
20167957 A
1 A
20167958 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:20167983 original size:146 final size:142
Alignment explanation
Indices: 20166758--20167934 Score: 1276
Period size: 143 Copynumber: 8.2 Consensus size: 142
20166748 TATTTTGGTA
* * *
20166758 TTTATTTTATTTTCGGA-TTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATT
1 TTTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTA--TT--TATTCTATTTTTTTATATT
* *
20166821 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATACTAATTTAATAAAAAACTC
62 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
20166886 TGATTTTGGCCGTTTGTTTT
127 TGATTTTGGCC----GTTTT
* * *
20166906 TTTATTTTATTTTCGGA-TTTTACTTTTTAAAATATATTA-TT-TTCGTATTTTATTTTTATATT
1 TTTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTATTTATTC-TA--TT-TTTTTATATT
* *
20166968 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATACTAATTTAATAAAAAACTC
62 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
20167033 TGATTTTGGCCGTTTATTT
127 TGATTTTGGCCG--T-TTT
* *
20167052 TTTATTTTATTTTCGGA-TTTTATTTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAT
1 TTTATTTTATTTTTGGATTTTTA-TTTTTTAAAATATACTA--TT--TATTCTATTTTTTTATAT
*
20167116 TATTTTAGTACATAATGTTTCAAATGTATTATTTTA-TTTTTTTATATTAATTTAGAAAAAAAAC
61 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAAC
*
20167180 TCTGATTTTGGCCCTTTT
125 TCTGATTTTGGCCGTTTT
*
20167198 TATT-TTTTATTTTTGGA-TTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATAT
1 T-TTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTA--TT--TATTCTATTTTTTTATAT
*
20167260 TATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAATC
61 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAAAC
* *
20167323 TGTGATTTTGGCCTTTTT
125 TCTGATTTTGGCCGTTTT
** ** *
20167341 ATTTATTTTGCTTTCAGA-TTTTA-TTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATAT
1 -TTTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTA--TT--TATTCTATTTTTTTATAT
* * *
20167403 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTTATTTAGAAAAAAAAT
61 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACT
* *
20167468 CTGATTTTGGCC-CTGT
126 CTGATTTTGGCCGTTTT
** *
20167484 TTTATTTTTATTTTCAGA-TTTTATTTTTTAAAATATATTA-TT-TTCGTATTTTTTTATATTAT
1 TTTA-TTTTATTTTTGGATTTTTATTTTTTAAAATATACTATTTATTC-TATTTTTTTATATTAT
* * *
20167546 TTTAGTACATAATGTTTC--ATGTATTATTTGAGTTTTTTTATATTAATTTAGTAAAAATCTGTG
64 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
*
20167609 ATTTTGGCCCTTTTT
129 ATTTTGG-CCGTTTT
* * * *
20167624 TTTATTTTGTTTTCGGA-TTTTATTTTTTAAAATACACTATTTTCGTATTTTA-TTTTTTATATT
1 TTTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTA--TT--TATTCTATTTTTTTATATT
*
20167687 ATTTTAGTAAATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
62 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
*
20167752 TAATTTTGGCCGTTTGTTTT
127 TGATTTTGGCC----GTTTT
** * * * *
20167772 TTTATTTTA-TTTTCAAATTTTA-TTTTCAAAATATGCTA-TT-TTCGTATTTTATTTTTTTATT
1 TTTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTATTTATTC-TA--TT-TTTTTATATT
* * * *
20167833 ATTTTAGTACATAATATTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACTC
62 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
20167898 TGATTTTGGCC-TTTT
127 TGATTTTGGCCGTTTT
20167913 TTTATTTTATTTTTGGATTTTT
1 TTTATTTTATTTTTGGATTTTT
20167935 TAAAATATAT
Statistics
Matches: 915, Mismatches: 66, Indels: 102
0.84 0.06 0.09
Matches are distributed among these distances:
138 48 0.05
139 36 0.04
140 37 0.04
141 16 0.02
142 32 0.03
143 136 0.15
144 121 0.13
145 97 0.11
146 126 0.14
147 121 0.13
148 72 0.08
149 65 0.07
150 3 0.00
152 3 0.00
153 2 0.00
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (142 bp):
TTTATTTTATTTTTGGATTTTTATTTTTTAAAATATACTATTTATTCTATTTTTTTATATTATTT
TAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGAT
TTTGGCCGTTTT
Found at i:20168616 original size:22 final size:22
Alignment explanation
Indices: 20168588--20168632 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
20168578 CAAAAGAAAA
*
20168588 GGCAGTGAGCAGTCTCGTCGGT
1 GGCAGTGAGCAGTCCCGTCGGT
*
20168610 GGCAGTGAGGAGTCCCGTCGGT
1 GGCAGTGAGCAGTCCCGTCGGT
20168632 G
1 G
20168633 CAGAGCAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.44, T:0.20
Consensus pattern (22 bp):
GGCAGTGAGCAGTCCCGTCGGT
Found at i:20170372 original size:75 final size:75
Alignment explanation
Indices: 20170249--20170402 Score: 290
Period size: 75 Copynumber: 2.1 Consensus size: 75
20170239 ATATCCACAT
*
20170249 ATAAGTACTTTGTAACATTTATTACTAGAAATGTCTAAATCACTGTGAAGTCTATAATGACACTA
1 ATAAGTACTTAGTAACATTTATTACTAGAAATGTCTAAATCACTGTGAAGTCTATAATGACACTA
20170314 AGTCAACAAA
66 AGTCAACAAA
*
20170324 ATAAGTACTTAGTAACATTTATTACTAGAAATGTCTAAATCACTGTGAAGTCTATAATGTCACTA
1 ATAAGTACTTAGTAACATTTATTACTAGAAATGTCTAAATCACTGTGAAGTCTATAATGACACTA
20170389 AGTCAACAAA
66 AGTCAACAAA
20170399 ATAA
1 ATAA
20170403 ATATAATTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (75 bp):
ATAAGTACTTAGTAACATTTATTACTAGAAATGTCTAAATCACTGTGAAGTCTATAATGACACTA
AGTCAACAAA
Found at i:20171562 original size:17 final size:16
Alignment explanation
Indices: 20171527--20171564 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
20171517 ATAAATAGAC
20171527 AGAGAATAAAGAACAA
1 AGAGAATAAAGAACAA
*
20171543 AGAGAATAAGAGAGCAA
1 AGAGAATAA-AGAACAA
20171560 AGAGA
1 AGAGA
20171565 GAGCGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.26, T:0.05
Consensus pattern (16 bp):
AGAGAATAAAGAACAA
Found at i:20172010 original size:19 final size:19
Alignment explanation
Indices: 20171983--20172022 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20171973 ACTATATACA
*
20171983 TTATTTTACTTCTT-TTTTT
1 TTATCTTACTT-TTGTTTTT
20172002 TTATCTTACTTTTGTTTTT
1 TTATCTTACTTTTGTTTTT
20172021 TT
1 TT
20172023 TCGAGACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (19 bp):
TTATCTTACTTTTGTTTTT
Found at i:20175277 original size:11 final size:9
Alignment explanation
Indices: 20175253--20175294 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
20175243 AGAATAAAAC
20175253 TTGAGAGAA
1 TTGAGAGAA
20175262 TTGAGAGAA
1 TTGAGAGAA
*
20175271 TTGTGAGAA
1 TTGAGAGAA
*
20175280 TTGAGAGAG
1 TTGAGAGAA
20175289 TTGAGA
1 TTGAGA
20175295 CTTTAGAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:20177837 original size:18 final size:18
Alignment explanation
Indices: 20177801--20177854 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
20177791 CTAAAGTTAA
*
20177801 TATTATTTATATTTGTTA-
1 TATTATTT-TATTTTTTAT
20177819 TATCTA-TTTATTTATTTAT
1 TAT-TATTTTATTT-TTTAT
20177838 TATTATTTTATTTTTTA
1 TATTATTTTATTTTTTA
20177855 AATATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 5 0.16
18 14 0.45
19 12 0.39
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTATTTTATTTTTTAT
Found at i:20177860 original size:19 final size:18
Alignment explanation
Indices: 20177797--20177860 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
20177787 ATATCTAAAG
*
20177797 TTAATATTATTTATATTTG
1 TTAATATTATTT-TATTTT
20177816 TT-ATATCTA-TTTATTTAT
1 TTAATAT-TATTTTATTT-T
*
20177834 TTATTATTATTTTATTTT
1 TTAATATTATTTTATTTT
20177852 TTAAATATT
1 TT-AATATT
20177861 TAAATTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 19 0.51
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTAATATTATTTTATTTT
Found at i:20181266 original size:17 final size:17
Alignment explanation
Indices: 20181244--20181277 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20181234 TTTGCATATT
20181244 ATCTACCTACTGTCTGA
1 ATCTACCTACTGTCTGA
20181261 ATCTACCTACTGTCTGA
1 ATCTACCTACTGTCTGA
20181278 TAAAGTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (17 bp):
ATCTACCTACTGTCTGA
Found at i:20184809 original size:21 final size:21
Alignment explanation
Indices: 20184785--20184830 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
20184775 TAGAATCTTG
20184785 AATCCCAAACCTTAAACACCA
1 AATCCCAAACCTTAAACACCA
* * *
20184806 AATCTCAAACCTTGAACTCCA
1 AATCCCAAACCTTAAACACCA
20184827 AATC
1 AATC
20184831 AAAACCCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (21 bp):
AATCCCAAACCTTAAACACCA
Found at i:20184897 original size:28 final size:28
Alignment explanation
Indices: 20184859--20184914 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
20184849 GCTTGATTCG
* *
20184859 AGTTTGGGGTTCAATATTTAGAA-TTCAA
1 AGTTTGAGGTTCAAGATTTA-AAGTTCAA
20184887 AGTTTGAGGTTCAAGATTTAAAGTTCAA
1 AGTTTGAGGTTCAAGATTTAAAGTTCAA
20184915 GGTTCAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (28 bp):
AGTTTGAGGTTCAAGATTTAAAGTTCAA
Found at i:20189555 original size:30 final size:30
Alignment explanation
Indices: 20189521--20189582 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
20189511 GCTCAACCTA
* **
20189521 GAGGATGAACATATGGTGGAGCTCGACCAG
1 GAGGATCAACATATAATGGAGCTCGACCAG
20189551 GAGGATCAACATATAATGGAGCTCGACCAG
1 GAGGATCAACATATAATGGAGCTCGACCAG
20189581 GA
1 GA
20189583 CACATGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (30 bp):
GAGGATCAACATATAATGGAGCTCGACCAG
Found at i:20191820 original size:18 final size:19
Alignment explanation
Indices: 20191797--20191840 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
20191787 CCGCAACAGT
20191797 AAAAAAAA-ACTGAAAAAG
1 AAAAAAAACACTGAAAAAG
*
20191815 AAAAAAAACACTGAAAATG
1 AAAAAAAACACTGAAAAAG
20191834 AAAAAAA
1 AAAAAAA
20191841 TAAAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAAACACTGAAAAAG
Found at i:20191896 original size:27 final size:27
Alignment explanation
Indices: 20191865--20191934 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
20191855 ATGTTGGTGC
*
20191865 CAGAGGTGGCACCAGTGTTGCCTCCGG
1 CAGAGGCGGCACCAGTGTTGCCTCCGG
* *
20191892 CAGAGGCGGCACCAATGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCCGG
20191919 CAGAGGCGGCACCAGT
1 CAGAGGCGGCACCAGT
20191935 TGTGTGGGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.30, G:0.36, T:0.16
Consensus pattern (27 bp):
CAGAGGCGGCACCAGTGTTGCCTCCGG
Found at i:20192190 original size:146 final size:144
Alignment explanation
Indices: 20192013--20192883 Score: 1259
Period size: 146 Copynumber: 6.0 Consensus size: 144
20192003 ATAAGTAAAA
* * * * *
20192013 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTAAGTA
* *
20192077 TTTTTTATATTAATTTAATAAATAATCCTGATTTT-GACACTTTTTTCGTATTTTTTTCGTATCT
66 TTTTTTATATT-TTTTAATAAATAA-CCTGATTTTAG-CACTTTATTCGTATTTTTTTCGTATCT
20192141 TATTTTTTAAAATATAT
128 TATTTTTTAAAATATAT
* *
20192158 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTAAGTA
* *
20192223 TTATTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTTCGTATCTT
66 TTTTTTATATTTTTT-AATAAATAA-CCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
20192288 ATTTTTTAAAATATAT
129 ATTTTTTAAAATATAT
** * *
20192304 TATTTTTTTATTTTATTTCTTTATATTATTTTAGTACATAATGGTTCAAATGTATTATTTAAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTT-AAGT
* * *
20192369 ATTATTTATGTTTTTTAATAAATAATCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
65 ATTTTTTATATTTTTTAATAAATAA-CCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
20192434 ATTTTTTAAAATATAT
129 ATTTTTTAAAATATAT
* * * *
20192450 TATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTAAGTA
* *
20192514 TTTTTTATATTAATTTAATAAATAACCTTGATTTT-GACACTTTCTTCGTATTTTTTTCGTATCT
66 TTTTTTATATT-TTTTAATAAATAACC-TGATTTTAG-CACTTTATTCGTATTTTTTTCGTATCT
20192578 TATTTTTTAAAATATAT
128 TATTTTTTAAAATATAT
*
20192595 TATTTTCGTATTTTATTTCTTCATATTATTTTAG-AACATAATGTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAA-ATAATGTTTCAAATGTATTATTTAAGT
20192659 ATTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT-GTATCT
65 ATTTTTTATATTTTTT-AATAAATAA-CCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCT
20192723 TATTTTTTAAAATATAT
128 TATTTTTTAAAATATAT
* * * *
20192740 TATTTTTGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTAAGTA
20192805 TTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTATTTTTATTTTCGTAT
66 TTTTTTATA-TTTTTTAATAAATAACC-TGATTTTAGCACTTTATTCGTA--TTT-TTTTCGTAT
*
20192870 ATTATTTTATTAAA
126 CTTATTTT-TTAAA
20192884 TTAATATAAT
Statistics
Matches: 661, Mismatches: 45, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
144 18 0.03
145 261 0.39
146 336 0.51
147 26 0.04
148 4 0.01
149 11 0.02
150 5 0.01
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (144 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAATAATGTTTCAAATGTATTATTTAAGTA
TTTTTTATATTTTTTAATAAATAACCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTTAT
TTTTTAAAATATAT
Found at i:20192321 original size:13 final size:13
Alignment explanation
Indices: 20192299--20192335 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
20192289 TTTTTTAAAA
20192299 TATATTATTTTTT
1 TATATTATTTTTT
* *
20192312 TATTTTATTTCTT
1 TATATTATTTTTT
20192325 TATATTATTTT
1 TATATTATTTT
20192336 AGTACATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:20192610 original size:291 final size:290
Alignment explanation
Indices: 20192013--20192883 Score: 1322
Period size: 291 Copynumber: 3.0 Consensus size: 290
20192003 ATAAGTAAAA
* * *
20192013 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAA-AAAATGTTTCAAATGTATTATGTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAG-AACATAATGTTTCAAATGTATTATTTAAGT
* * *
20192076 GTTTTTTATATTAATTTAATAAATAATCCTGATTTT-GACACTTTTTTCGTATTTTTTTCGTATC
65 ATTTTTTATATT-TTTTAATAAATAATCCTGATTTTAG-CACTTTATTCGTATTTTTTTCGTATC
*
20192140 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTC
128 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTC
* * * *
20192205 AAATGTATTATTTAAGTATTATTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTT
193 AAATGTATTATTTAAGTGTTTTTTATATTTTTT-AATAAATAACCTTGATTTTAGCACTTTATTC
20192270 GTATTTTTTTCGTATCTTATTTTTTAAAATATAT
257 GTATTTTTTTCGTATCTTATTTTTTAAAATATAT
** * *
20192304 TATTTTTTTATTTTATTTCTTTATATTATTTTAGTACATAATGGTTCAAATGTATTATTTAAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTT-AAGT
* * *
20192369 ATTATTTATGTTTTTTAATAAATAATCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
65 ATTTTTTATATTTTTTAATAAATAATCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
* * *
20192434 ATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAA
130 ATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAA
* * *
20192498 ATGTATTATGTAAGTGTTTTTTATATTAATTTAATAAATAACCTTGATTTT-GACACTTTCTTCG
195 ATGTATTATTTAAGTGTTTTTTATATT-TTTTAATAAATAACCTTGATTTTAG-CACTTTATTCG
20192562 TATTTTTTTCGTATCTTATTTTTTAAAATATAT
258 TATTTTTTTCGTATCTTATTTTTTAAAATATAT
*
20192595 TATTTTCGTATTTTATTTCTTCATATTATTTTAGAACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTAAGTA
*
20192660 TTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTT-GTATCTT
66 TTTTTTATATTTTTT-AATAAATAATCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
* *
20192724 ATTTTTTAAAATATATTATTTTTGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAA
130 ATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAA
20192789 ATGTATTATTTAAGTGTTTTTTATATTTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGT
195 ATGTATTATTTAAGTGTTTTTTATA-TTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGT
*
20192854 ATTTTTATTTTCGTATATTATTTTATTAAA
259 A--TTT-TTTTCGTATCTTATTTT-TTAAA
20192884 TTAATATAAT
Statistics
Matches: 524, Mismatches: 42, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
290 58 0.11
291 305 0.58
292 123 0.23
293 17 0.03
294 16 0.03
295 5 0.01
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (290 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTAAGTA
TTTTTTATATTTTTTAATAAATAATCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTTA
TTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAA
TGTATTATTTAAGTGTTTTTTATATTTTTTAATAAATAACCTTGATTTTAGCACTTTATTCGTAT
TTTTTTCGTATCTTATTTTTTAAAATATAT
Found at i:20193128 original size:17 final size:16
Alignment explanation
Indices: 20193102--20193137 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
20193092 GACCCATTTG
20193102 TTTATTTTTTTCAGTT
1 TTTATTTTTTTCAGTT
*
20193118 TTTAGTTTTTTTTAGTT
1 TTTA-TTTTTTTCAGTT
20193135 TTT
1 TTT
20193138 TTTAACTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTTCAGTT
Found at i:20193129 original size:10 final size:10
Alignment explanation
Indices: 20193116--20193141 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20193106 TTTTTTTCAG
20193116 TTTTTAGTTT
1 TTTTTAGTTT
20193126 TTTTTAGTTT
1 TTTTTAGTTT
20193136 TTTTTA
1 TTTTTA
20193142 ACTGTTGCGG
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:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (10 bp):
TTTTTAGTTT
Found at i:20195858 original size:3 final size:3
Alignment explanation
Indices: 20195850--20195878 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20195840 GTTTCATCAC
20195850 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
20195879 GAGAAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:20196699 original size:3 final size:3
Alignment explanation
Indices: 20196691--20196724 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
20196681 AAGATATAAA
20196691 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20196725 ACCCATTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20196785 original size:18 final size:19
Alignment explanation
Indices: 20196758--20196799 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
20196748 CCAAACTCTA
*
20196758 AAAAATAATTAATTAAAAT
1 AAAAATAATTAAATAAAAT
*
20196777 AAAAA-AATTAAATAATAT
1 AAAAATAATTAAATAAAAT
20196795 AAAAA
1 AAAAA
20196800 CTTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATAATTAAATAAAAT
Found at i:20196792 original size:22 final size:22
Alignment explanation
Indices: 20196757--20196798 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20196747 CCCAAACTCT
*
20196757 AAAAAATAATTAAT-TAAAATA
1 AAAAAATAAATAATATAAAATA
20196778 AAAAAATTAAATAATATAAAA
1 AAAAAA-TAAATAATATAAAA
20196799 ACTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAATAAATAATATAAAATA
Found at i:20200494 original size:33 final size:33
Alignment explanation
Indices: 20200457--20200545 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
20200447 TACCTAAAAG
*
20200457 GTACAACTGGAAAAGGAAATGTACACTGTGTAT
1 GTACAACTTGAAAAGGAAATGTACACTGTGTAT
* * * *
20200490 GTACAACTTAAAAAGGAAACGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTGTGTAT
20200523 GTAC-ACTTGAAAAGGAAATGTAC
1 GTACAACTTGAAAAGGAAATGTAC
20200546 GCCTTGTGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 17 0.35
33 32 0.65
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (33 bp):
GTACAACTTGAAAAGGAAATGTACACTGTGTAT
Found at i:20200553 original size:32 final size:32
Alignment explanation
Indices: 20200457--20200568 Score: 120
Period size: 33 Copynumber: 3.4 Consensus size: 32
20200447 TACCTAAAAG
* * *
20200457 GTACAACTGGAAAAGGAAATGTACACTGTGTAT
1 GTACAACTTGAAAAGGAAATGTACCCT-TGTGT
* * *
20200490 GTACAACTTAAAAAGGAAACGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
20200523 GTAC-ACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
20200555 GTACAA-TGTGAAAA
1 GTACAACT-TGAAAA
20200569 ATGGTAGCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
32 29 0.44
33 36 0.55
34 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (32 bp):
GTACAACTTGAAAAGGAAATGTACCCTTGTGT
Found at i:20200598 original size:31 final size:31
Alignment explanation
Indices: 20200562--20200735 Score: 242
Period size: 31 Copynumber: 5.5 Consensus size: 31
20200552 TGTGTACAAT
* *
20200562 GTGAAAAATGGTAGCTTCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
20200593 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
20200624 GTGAAAAGTGGTAGCTTCGACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
20200655 GTGAAAATTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
20200686 ATGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
20200719 GTGATAAGTGGTAGCTT
1 GTGAAAAGTGGTAGCTT
20200736 TAGCTACACT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
31 109 0.85
32 1 0.01
33 18 0.14
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:20200859 original size:27 final size:27
Alignment explanation
Indices: 20200802--20200863 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
20200792 TTGAACTATG
* * *
20200802 GCAAAGTGATAAAGTGTGCTAATCACG
1 GCAAAGTGATAAAGTGTGCCAAACACA
* *
20200829 GCAAAGTGATATAGTGTGCCAAACATA
1 GCAAAGTGATAAAGTGTGCCAAACACA
20200856 GCAAAGTG
1 GCAAAGTG
20200864 TTCAGTGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.21
Consensus pattern (27 bp):
GCAAAGTGATAAAGTGTGCCAAACACA
Found at i:20203383 original size:26 final size:26
Alignment explanation
Indices: 20203347--20203398 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
20203337 AAGTTAAGTA
*
20203347 GAAAGATTATGTTTTGCTCAGCTAGG
1 GAAAGATTATGTTTTACTCAGCTAGG
20203373 GAAAGATTATGTTTTACTCAGCTAGG
1 GAAAGATTATGTTTTACTCAGCTAGG
20203399 CTTTTTAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (26 bp):
GAAAGATTATGTTTTACTCAGCTAGG
Found at i:20204635 original size:234 final size:234
Alignment explanation
Indices: 20204223--20204692 Score: 886
Period size: 234 Copynumber: 2.0 Consensus size: 234
20204213 TGACTCTATC
*
20204223 ATAAGCTTTTTTTAAGTCAATCTTCAACGCCATATCATACTTTTTACCCTCAAAACTTCTTATAG
1 ATAAGCTTTTTTTAAGTCAATCTTCAACGCCATATCATACTTTTTACCCTCAAAACTTCTGATAG
20204288 AATGTATTGCCTAGTAGGCAACCACAATGTTATCCACAATGTCCCTACCTGTTACAAAACTTACT
66 AATGTATTGCCTAGTAGGCAACCACAATGTTATCCACAATGTCCCTACCTGTTACAAAACTTACT
* *
20204353 TTATTTTGTTTAACAAGCTTAACCAACATTGGTGTAAGCCTGTTCACAATTGTCTTCATTACGAT
131 TGATTTTGTTTAACAAGCTTAACCAACATTGGTGTAAGCCTATTCACAATTGTCTTCATTACGAT
20204418 TTTATACAACACATTACACAAATTGATAGGTCTAAATTG
196 TTTATACAACACATTACACAAATTGATAGGTCTAAATTG
*
20204457 ATAAGCTTTTTTTAAGTCAATCTTCAATGCCATATCATACTTTTTACCCTCAAAACTTCTGATAG
1 ATAAGCTTTTTTTAAGTCAATCTTCAACGCCATATCATACTTTTTACCCTCAAAACTTCTGATAG
**
20204522 AATGTATTGCCTAGTAGGCAATTACAATGTTATCCACAATGTCCCTACCTGTTACAAAACTTACT
66 AATGTATTGCCTAGTAGGCAACCACAATGTTATCCACAATGTCCCTACCTGTTACAAAACTTACT
20204587 TGATTTTGTTTAACAAGCTTAACCAACATTGGTGTAAGCCTATTCACAATTGTCTTCATTACGAT
131 TGATTTTGTTTAACAAGCTTAACCAACATTGGTGTAAGCCTATTCACAATTGTCTTCATTACGAT
20204652 TTTATACAACACATTACACAAATTGATAGGTCTAAATTG
196 TTTATACAACACATTACACAAATTGATAGGTCTAAATTG
20204691 AT
1 AT
20204693 TAATTCTTTT
Statistics
Matches: 230, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
234 230 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (234 bp):
ATAAGCTTTTTTTAAGTCAATCTTCAACGCCATATCATACTTTTTACCCTCAAAACTTCTGATAG
AATGTATTGCCTAGTAGGCAACCACAATGTTATCCACAATGTCCCTACCTGTTACAAAACTTACT
TGATTTTGTTTAACAAGCTTAACCAACATTGGTGTAAGCCTATTCACAATTGTCTTCATTACGAT
TTTATACAACACATTACACAAATTGATAGGTCTAAATTG
Found at i:20209014 original size:23 final size:23
Alignment explanation
Indices: 20208985--20209044 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 23
20208975 AAAATTTTAT
*
20208985 TTTTTATATATTTAGTTTCTAAA
1 TTTTTATATATTTAATTTCTAAA
* * *
20209008 TTTTTATA-A-ATAATTTTTAAT
1 TTTTTATATATTTAATTTCTAAA
20209029 TTTTTATATATTTAAT
1 TTTTTATATATTTAAT
20209045 ATTTGGACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 16 0.53
22 2 0.07
23 12 0.40
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTATATATTTAATTTCTAAA
Found at i:20209257 original size:85 final size:85
Alignment explanation
Indices: 20209158--20209323 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 85
20209148 TAAAATTAAT
* * *
20209158 AACTCTATCATAAATAACTTCTTCCGTACCTAAAAAATTATGTTTATCCATTGTTTTCTATTTCA
1 AACTCTATCATAAATAACTTCTTCCATAACTAAAAAATTATGTTTATCCATTATTTTCTATTTCA
20209223 TATATTGGCCAAAGTTAAGG
66 TATATTGGCCAAAGTTAAGG
* *
20209243 AACTCTATCATAAATAACTTCTTCCATAACTACAAATTTATGTTTATCCATTATTTTCTATTTCA
1 AACTCTATCATAAATAACTTCTTCCATAACTAAAAAATTATGTTTATCCATTATTTTCTATTTCA
* *
20209308 TATTTTGGTCAAAGTT
66 TATATTGGCCAAAGTT
20209324 TAAGTCATTA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (85 bp):
AACTCTATCATAAATAACTTCTTCCATAACTAAAAAATTATGTTTATCCATTATTTTCTATTTCA
TATATTGGCCAAAGTTAAGG
Found at i:20209569 original size:88 final size:88
Alignment explanation
Indices: 20209417--20209667 Score: 346
Period size: 88 Copynumber: 2.9 Consensus size: 88
20209407 TGAAGATGTA
* * * *
20209417 GAAAAAGAACATATTTTTAAAATTCCTCAATGATCTACCATTTCTATTAATTGTCTTTTCAATAT
1 GAAAAAGAACATATTTTTAAATTTCCTCAATGATCTACTATTTCTATTCATTGTCTTTTAAATAT
* *
20209482 CAAT-AAAAGCGATATTATATTT-
66 CAATCAAAA-CAATATCATATTTG
* * * *
20209504 GAATAAAGAAAATATTTTTAATTTTCTTCAATGATCTACTATTTCTATTCATTGTCTTTTTAATA
1 GAA-AAAGAACATATTTTTAAATTTCCTCAATGATCTACTATTTCTATTCATTGTCTTTTAAATA
*
20209569 TCAATCAAAATAATATCATATTTG
65 TCAATCAAAACAATATCATATTTG
*
20209593 GAAAAAGAACATATTTTTAAATTTCCTCAATGATCTA-TCATTTCTGTTCATTGTCTTTTAAATA
1 GAAAAAGAACATATTTTTAAATTTCCTCAATGATCTACT-ATTTCTATTCATTGTCTTTTAAATA
20209657 TCAATCAAAAC
65 TCAATCAAAAC
20209668 CATCATTCCC
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
87 4 0.03
88 133 0.92
89 7 0.05
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (88 bp):
GAAAAAGAACATATTTTTAAATTTCCTCAATGATCTACTATTTCTATTCATTGTCTTTTAAATAT
CAATCAAAACAATATCATATTTG
Found at i:20209935 original size:22 final size:22
Alignment explanation
Indices: 20209893--20209935 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20209883 AATTATCAAA
* *
20209893 ATTTCATTTTTTAATTATTTTT
1 ATTTCATATTATAATTATTTTT
20209915 ATTTCATATTATACATT-TTTT
1 ATTTCATATTATA-ATTATTTT
20209936 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTCATATTATAATTATTTTT
Found at i:20212041 original size:13 final size:13
Alignment explanation
Indices: 20212023--20212056 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
20212013 GAATATTATT
20212023 ATTCAAAA-TCAA
1 ATTCAAAATTCAA
20212035 GATTCAAAATTCAA
1 -ATTCAAAATTCAA
20212049 ATTCAAAA
1 ATTCAAAA
20212057 ATAGAAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (13 bp):
ATTCAAAATTCAA
Found at i:20213257 original size:13 final size:13
Alignment explanation
Indices: 20213239--20213292 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
20213229 AAAGAAATAA
*
20213239 CTAATATTTTATG
1 CTAATATATTATG
20213252 CTAATATATTATG
1 CTAATATATTATG
20213265 CTAATA-A--ATG
1 CTAATATATTATG
*
20213275 CTAAATATATTATA
1 CT-AATATATTATG
20213289 CTAA
1 CTAA
20213293 GAAATACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 2 0.06
13 20 0.57
14 4 0.11
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (13 bp):
CTAATATATTATG
Found at i:20213284 original size:24 final size:24
Alignment explanation
Indices: 20213249--20213304 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
20213239 CTAATATTTT
* *
20213249 ATGCT-AATATATTATGCTAATAA
1 ATGCTAAATATATTATACTAAGAA
20213272 ATGCTAAATATATTATACTAAGAA
1 ATGCTAAATATATTATACTAAGAA
*
20213296 ATACTAAAT
1 ATGCTAAAT
20213305 CTTCTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (24 bp):
ATGCTAAATATATTATACTAAGAA
Found at i:20215794 original size:29 final size:31
Alignment explanation
Indices: 20215772--20215829 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
20215762 GTAAATACTC
*
20215772 AAAATTTG-AGGGCTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAACAGTGTAAATATGA
*
20215801 AAAATTTGAAGGACTAACAGTGCAAATAT
1 AAAATTTGAAGGACTAACAGTGTAAATAT
20215830 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 7 0.28
31 10 0.40
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (31 bp):
AAAATTTGAAGGACTAACAGTGTAAATATGA
Found at i:20216089 original size:13 final size:13
Alignment explanation
Indices: 20216073--20216097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20216063 TTATATTTTC
20216073 TAAGATATTTTAA
1 TAAGATATTTTAA
20216086 TAAGATATTTTA
1 TAAGATATTTTA
20216098 TTATTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAAGATATTTTAA
Found at i:20220591 original size:3 final size:3
Alignment explanation
Indices: 20220583--20220658 Score: 118
Period size: 3 Copynumber: 25.0 Consensus size: 3
20220573 TCAATTTGTC
20220583 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
20220628 TAC TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
20220659 ATACATATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 1 0.01
3 64 0.94
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20220787 original size:19 final size:20
Alignment explanation
Indices: 20220763--20220800 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20220753 TTTATAATAC
*
20220763 TATTATTATTA-TCTTATTT
1 TATTATTATCATTCTTATTT
20220782 TATTATTATCATTCTTATT
1 TATTATTATCATTCTTATT
20220801 AATACAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATCATTCTTATTT
Found at i:20221025 original size:23 final size:24
Alignment explanation
Indices: 20220998--20221063 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
20220988 CTAAAATATA
20220998 TATATGTTTTTATATA-TATTA-T
1 TATATGTTTTTATATACTATTAGT
*
20221020 GTATATGTTTTTA-ATATTATTAGT
1 -TATATGTTTTTATATACTATTAGT
20221044 TATAT-TTTTTATATACTATT
1 TATATGTTTTTATATACTATT
20221064 TTGTGTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 9 0.23
23 29 0.74
24 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
TATATGTTTTTATATACTATTAGT
Found at i:20221255 original size:13 final size:12
Alignment explanation
Indices: 20221238--20221286 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
20221228 TACGTATACA
20221238 TTGTATATATAT
1 TTGTATATATAT
20221250 TATGTATATATAT
1 T-TGTATATATAT
*
20221263 TTTTAATATTATAT
1 TTGT-ATA-TATAT
*
20221277 TTTTATATAT
1 TTGTATATAT
20221287 TACGTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.18
13 18 0.55
14 9 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (12 bp):
TTGTATATATAT
Found at i:20221286 original size:15 final size:15
Alignment explanation
Indices: 20221254--20221288 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
20221244 ATATATTATG
20221254 TATA-TATATTTTTA
1 TATATTATATTTTTA
20221268 -ATATTATATTTTTA
1 TATATTATATTTTTA
20221282 TATATTA
1 TATATTA
20221289 CGTATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTATATTTTTA
Found at i:20221301 original size:22 final size:22
Alignment explanation
Indices: 20221223--20221306 Score: 65
Period size: 22 Copynumber: 4.1 Consensus size: 22
20221213 ATTTTAATAC
* * *
20221223 TATATTACGTATACATTGTATA
1 TATATTACGTATATATTTTTTA
* *
20221245 TATATTATGTATATATATTTT-
1 TATATTACGTATATATTTTTTA
20221266 TA-A-TA--T-TATA-TTTTTA
1 TATATTACGTATATATTTTTTA
*
20221282 TATATTACGTATATATTTTTAA
1 TATATTACGTATATATTTTTTA
20221304 TAT
1 TAT
20221307 CATCCCATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.08
16 6 0.12
17 2 0.04
18 2 0.04
19 2 0.04
20 2 0.04
21 6 0.12
22 24 0.50
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATTACGTATATATTTTTTA
Found at i:20221464 original size:25 final size:25
Alignment explanation
Indices: 20221415--20221478 Score: 85
Period size: 24 Copynumber: 2.5 Consensus size: 25
20221405 TATATGTATG
*
20221415 TATATATATATTTTTCTTTTATTATAT
1 TATAT-TAT-TTTTTCTTCTATTATAT
20221442 TATCATTATTTTTTCTTCT-TTATAT
1 TAT-ATTATTTTTTCTTCTATTATAT
20221467 TATATTATTTTT
1 TATATTATTTTT
20221479 ACGTACATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 9 0.26
25 9 0.26
26 9 0.26
27 6 0.17
28 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TATATTATTTTTTCTTCTATTATAT
Found at i:20233717 original size:75 final size:74
Alignment explanation
Indices: 20233607--20234071 Score: 539
Period size: 75 Copynumber: 6.2 Consensus size: 74
20233597 TATTTTGATG
* ** *
20233607 TTTTT-ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
20233669 GTTGAGGTA
66 GCTGAGGTA
* * *
20233678 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATA
1 TTTTTAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
20233743 CGCTGAGGTA
65 CGCTGAGGTA
* * * *
20233753 ATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTTAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
20233816 CGCTGAGGTA
65 CGCTGAGGTA
* * * * *
20233826 TTTTTAGTTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGC
1 TTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
*
20233891 ACACTGAGGTA
64 ACGCTGAGGTA
* * *
20233902 TTTTTTAATTTCTATTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
1 -TTTTTAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
20233967 ACGCTGAGGTA
64 ACGCTGAGGTA
* * *
20233978 TTTTTAATTTCTATTTCTTC-TAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGCT
1 TTTTTAATTTCT-GTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
20234041 CACATGCTGAGGTA
62 -ACACGCTGAGGTA
* *
20234055 TTTTCAATTTATGTTTT
1 TTTTTAATTTCTGTTTT
20234072 TTTCAATTTA
Statistics
Matches: 344, Mismatches: 35, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
71 4 0.01
72 8 0.02
73 68 0.20
74 42 0.12
75 116 0.34
76 28 0.08
77 33 0.10
78 45 0.13
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:20234076 original size:16 final size:17
Alignment explanation
Indices: 20234055--20234088 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
20234045 TGCTGAGGTA
20234055 TTTTCAATTTATG-TTT
1 TTTTCAATTTATGCTTT
20234071 TTTTCAATTTATGCTTT
1 TTTTCAATTTATGCTTT
20234088 T
1 T
20234089 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTTCAATTTATGCTTT
Found at i:20234135 original size:91 final size:90
Alignment explanation
Indices: 20233999--20234251 Score: 368
Period size: 88 Copynumber: 2.8 Consensus size: 90
20233989 TATTTCTTCT
20233999 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
* *
20234064 TATGTTTTTTTCAATTTATGCTTTTC
66 TATGTTTTTTGCAAATTATG-TTTTC
* * * *
20234090 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAA--
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
* *
20234153 AAT-TTGTTTTGCAAATTCTGTTTTC
66 TATGTT-TTTTGCAAATTATGTTTTC
* * *
20234178 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
20234243 TATGTTTTT
66 TATGTTTTT
20234252 AATGTTTAGT
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
88 63 0.44
89 13 0.09
90 5 0.04
91 61 0.43
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
TATGTTTTTTGCAAATTATGTTTTC
Found at i:20234264 original size:88 final size:87
Alignment explanation
Indices: 20233978--20234314 Score: 360
Period size: 88 Copynumber: 3.8 Consensus size: 87
20233968 CGCTGAGGTA
* *
20233978 TTTTTAATTTCTATTTCTTCTAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCA
1 TTTTTAATTT-TAGTT-TTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCTCA
20234043 CATGCTGAGGTATTTTCAATTTATG
63 CATGCTGAGGTATTTTCAATTTATG
* ** *
20234068 TTTTTTTCAA-TTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGT
1 --TTTTT-AATTTTA-G-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCT
* *
20234132 CACATGCCGAGGTATTTTCAAAATT-TG
61 CACATGCTGAGGTATTTTC-AATTTATG
* * *
20234159 TTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTGGCTCAC
1 TTTT--TAATTTTAGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCTCAC
*
20234223 ATGCTGAGCTATTTTCAATTTATG
64 ATGCTGAGGTATTTTCAATTTATG
* * * * *
20234247 TTTTTAATGTTTAGTTTT-AAAGAGTCAATTCATATTGTGAAAAATGAGTTGAG-CTCAGGATCA
1 TTTTTAAT-TTTAGTTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGCTCA
20234310 CATGC
63 CATGC
20234315 CGAGTAAAGA
Statistics
Matches: 209, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
86 3 0.01
87 11 0.05
88 107 0.51
89 5 0.02
90 2 0.01
91 63 0.30
92 14 0.07
93 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (87 bp):
TTTTTAATTTTAGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCTCACAT
GCTGAGGTATTTTCAATTTATG
Found at i:20235958 original size:12 final size:11
Alignment explanation
Indices: 20235929--20236068 Score: 53
Period size: 11 Copynumber: 12.6 Consensus size: 11
20235919 TTTGCATACA
20235929 TATATTATTAT
1 TATATTATTAT
20235940 T-TA-TATTAT
1 TATATTATTAT
20235949 TATCATTATTAT
1 TAT-ATTATTAT
20235961 TACTATT-TCT-T
1 TA-TATTAT-TAT
* *
20235972 TCATGTCTATTTT
1 T-ATAT-TATTAT
* *
20235985 TATAATACTAT
1 TATATTATTAT
*
20235996 TATTATTA-TCT
1 TA-TATTATTAT
*
20236007 TATTTTATTAT
1 TATATTATTAT
*
20236018 TATCATTCTTAT
1 TAT-ATTATTAT
*
20236030 TA-ATACATTAT
1 TATAT-TATTAT
*
20236041 TAT-TGTTTTAT
1 TATAT-TATTAT
*
20236052 CATATTATTA-
1 TATATTATTAT
20236062 TATATTA
1 TATATTA
20236069 CTGCTGTTAT
Statistics
Matches: 95, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
9 7 0.07
10 15 0.16
11 39 0.41
12 30 0.32
13 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (11 bp):
TATATTATTAT
Found at i:20236017 original size:19 final size:20
Alignment explanation
Indices: 20235993--20236030 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20235983 TTTATAATAC
*
20235993 TATTATTATTA-TCTTATTT
1 TATTATTATCATTCTTATTT
20236012 TATTATTATCATTCTTATT
1 TATTATTATCATTCTTATT
20236031 AATACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATCATTCTTATTT
Found at i:20236271 original size:23 final size:23
Alignment explanation
Indices: 20236228--20236294 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
20236218 TTCTAAAATA
20236228 TATATAGTTTTT-ATATATATTA-T
1 TATAT-GTTTTTAATAT-TATTAGT
20236251 GTATATGTTTTTAATATTATTAGT
1 -TATATGTTTTTAATATTATTAGT
*
20236275 TATAT-TTTTTATATACTATT
1 TATATGTTTTTA-ATATTATT
20236295 TTGTGTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 6 0.15
23 23 0.59
24 10 0.26
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (23 bp):
TATATGTTTTTAATATTATTAGT
Found at i:20236489 original size:13 final size:12
Alignment explanation
Indices: 20236472--20236520 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
20236462 TGCGTATACA
20236472 TTGTATATATAT
1 TTGTATATATAT
20236484 TATGTATATATAT
1 T-TGTATATATAT
*
20236497 TTTTAATATTATAT
1 TTGT-ATA-TATAT
*
20236511 TTTTATATAT
1 TTGTATATAT
20236521 TACGTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.18
13 18 0.55
14 9 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (12 bp):
TTGTATATATAT
Found at i:20236520 original size:15 final size:15
Alignment explanation
Indices: 20236488--20236522 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
20236478 ATATATTATG
20236488 TATA-TATATTTTTA
1 TATATTATATTTTTA
20236502 -ATATTATATTTTTA
1 TATATTATATTTTTA
20236516 TATATTA
1 TATATTA
20236523 CGTATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTATATTTTTA
Found at i:20236535 original size:22 final size:22
Alignment explanation
Indices: 20236457--20236540 Score: 56
Period size: 22 Copynumber: 4.1 Consensus size: 22
20236447 ATTTTAATAC
* * * *
20236457 TATATTGCGTATACATTGTATA
1 TATATTACGTATATATTTTTTA
* *
20236479 TATATTATGTATATATATTTT-
1 TATATTACGTATATATTTTTTA
20236500 TA-A-TA--T-TATA-TTTTTA
1 TATATTACGTATATATTTTTTA
*
20236516 TATATTACGTATATATTTTTAA
1 TATATTACGTATATATTTTTTA
20236538 TAT
1 TAT
20236541 CATCCCATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
15 4 0.09
16 6 0.13
17 2 0.04
18 2 0.04
19 2 0.04
20 2 0.04
21 6 0.13
22 23 0.49
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (22 bp):
TATATTACGTATATATTTTTTA
Found at i:20236688 original size:25 final size:23
Alignment explanation
Indices: 20236653--20236714 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 23
20236643 TGTATGTGTA
*
20236653 TATATATATTTTTCTTTTATTATAT
1 TATAT-TATTTTTCTTCT-TTATAT
20236678 TATCATTATTTTTTCTTCTTTATAT
1 TAT-ATTA-TTTTTCTTCTTTATAT
20236703 TATATTATTTTT
1 TATATTATTTTT
20236715 ACGTACATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 14 0.41
26 11 0.32
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (23 bp):
TATATTATTTTTCTTCTTTATAT
Found at i:20238576 original size:24 final size:24
Alignment explanation
Indices: 20238535--20238591 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
20238525 ACTAAGGTAG
20238535 TATGCT-AATATATTATACTAATA
1 TATGCTAAATATATTATACTAATA
*
20238558 TATGCTAAATGTATTATACTAATA
1 TATGCTAAATATATTATACTAATA
* *
20238582 AATACTAAAT
1 TATGCTAAAT
20238592 CTTTTAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (24 bp):
TATGCTAAATATATTATACTAATA
Found at i:20239286 original size:33 final size:33
Alignment explanation
Indices: 20239244--20239311 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
20239234 TACCTTTTGA
20239244 TAACATTCGAATATTGTAACAAGATTGGAGATT
1 TAACATTCGAATATTGTAACAAGATTGGAGATT
20239277 TAACATTCGAATATTGTAACAAGATTGGAGATT
1 TAACATTCGAATATTGTAACAAGATTGGAGATT
20239310 TA
1 TA
20239312 GTGTTTGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.34
Consensus pattern (33 bp):
TAACATTCGAATATTGTAACAAGATTGGAGATT
Found at i:20243642 original size:2 final size:2
Alignment explanation
Indices: 20243635--20243671 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
20243625 AATTGTCAAG
* *
20243635 CT CT CT CT CT CT CT CT CT CT GT CT CT CT TT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
20243672 GAGTTCAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.03, T:0.51
Consensus pattern (2 bp):
CT
Found at i:20248277 original size:5 final size:5
Alignment explanation
Indices: 20248267--20248294 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20248257 CAATTTGTGA
20248267 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
20248295 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:20257815 original size:35 final size:35
Alignment explanation
Indices: 20257696--20257826 Score: 136
Period size: 35 Copynumber: 3.6 Consensus size: 35
20257686 CCTCATTGAA
* * ***
20257696 ATACCATACCTACATTTTACAACTCGGTATGGGCA
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
* **
20257731 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
*
20257768 ATAATACCATACCTACATATCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
20257806 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
20257827 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 47 0.60
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:20268044 original size:21 final size:21
Alignment explanation
Indices: 20268014--20268085 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 21
20268004 TGACATCATT
20268014 TAAAAA-AATTAATATTTTAA
1 TAAAAATAATTAATATTTTAA
20268034 TAAAAATAATTAATATAATTTAA
1 TAAAAATAATTAATAT--TTTAA
*
20268057 AAATAAATAAATAATAATATTTTAA
1 TAA-AAAT-AAT--TAATATTTTAA
20268082 TAAA
1 TAAA
20268086 GAGTATCGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 6 0.14
21 9 0.21
23 7 0.16
24 5 0.12
25 10 0.23
27 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAATAATTAATATTTTAA
Found at i:20268064 original size:24 final size:22
Alignment explanation
Indices: 20268015--20268078 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
20268005 GACATCATTT
*
20268015 AAAAA-AATTAATAT-TTTAAT
1 AAAAATAATTAATATATTTAAA
20268035 AAAAATAATTAATATAATTTAAA
1 AAAAATAATTAATAT-ATTTAAA
*
20268058 AATAAATAAATAATAATATTT
1 AA-AAATAATTAAT-ATATTT
20268079 TAATAAAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 5 0.14
21 9 0.24
23 7 0.19
24 14 0.38
25 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAATAATTAATATATTTAAA
Found at i:20271242 original size:24 final size:23
Alignment explanation
Indices: 20271196--20271242 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20271186 TTAATAATAT
* *
20271196 TATAAAAATAAATTATCAAATTA
1 TATAAAAATAAAATAACAAATTA
*
20271219 TATAAAATTAAAATAACAAGATTA
1 TATAAAAATAAAATAACAA-ATTA
20271243 AATTACAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
TATAAAAATAAAATAACAAATTA
Found at i:20274687 original size:17 final size:18
Alignment explanation
Indices: 20274665--20274701 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20274655 ATAAAAGTTA
20274665 TAAAAAAAACTTATAAAT
1 TAAAAAAAACTTATAAAT
*
20274683 TAAAAAAAAGTTATAAAT
1 TAAAAAAAACTTATAAAT
20274701 T
1 T
20274702 TTTTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAAAAAACTTATAAAT
Found at i:20274955 original size:21 final size:23
Alignment explanation
Indices: 20274917--20274959 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
20274907 TAATTGATTT
*
20274917 TTTTTAAATTATTACTAATTTAC
1 TTTTAAAATTATTACTAATTTAC
20274940 TTTTAAAATT-TT-CTAATTTA
1 TTTTAAAATTATTACTAATTTA
20274960 TTCCCAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAAAATTATTACTAATTTAC
Found at i:20277266 original size:14 final size:14
Alignment explanation
Indices: 20277243--20277398 Score: 71
Period size: 15 Copynumber: 10.1 Consensus size: 14
20277233 AAATAATATA
*
20277243 AAAATATATATGAT
1 AAAATATATATAAT
*
20277257 AAAATGTATATAAT
1 AAAATATATATAAT
*
20277271 ACAATATATATAAAAT
1 A-AA-ATATATATAAT
* * *
20277287 AAAGAAAGATATTAT
1 AAA-ATATATATAAT
20277302 AAAGAATAATATATAAT
1 -AA-AAT-ATATATAAT
20277319 AAAATATAATATGTAAT
1 AAAATAT-ATA--TAAT
*
20277336 AAAAAATATATAGAT
1 AAAATATATATA-AT
* *
20277351 ATAATGAAATATAAT
1 AAAAT-ATATATAAT
* *
20277366 ATGATAAGAAATATATAT
1 A--A-AATATATATA-AT
20277384 AAAATATA-ATAAT
1 AAAATATATATAAT
20277397 AA
1 AA
20277399 TATAACAAGT
Statistics
Matches: 108, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
13 4 0.04
14 20 0.19
15 29 0.27
16 25 0.23
17 25 0.23
18 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (14 bp):
AAAATATATATAAT
Found at i:20277315 original size:17 final size:17
Alignment explanation
Indices: 20277307--20277402 Score: 79
Period size: 17 Copynumber: 5.5 Consensus size: 17
20277297 ATTATAAAGA
20277307 ATAATATATAATAAAAT
1 ATAATATATAATAAAAT
*
20277324 ATAATATGTAATAAAAAAT
1 ATAATATATAAT--AAAAT
* *
20277343 ATATAGATATAATGAAAT
1 ATA-ATATATAATAAAAT
*
20277361 ATAATATGATAA-GAAAT
1 ATAATAT-ATAATAAAAT
* *
20277378 AT-ATATAAAATATAAT
1 ATAATATATAATAAAAT
20277394 AATAATATA
1 -ATAATATA
20277403 ACAAGTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 7 0.11
17 23 0.36
18 16 0.25
19 8 0.12
20 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
ATAATATATAATAAAAT
Found at i:20277325 original size:10 final size:10
Alignment explanation
Indices: 20277264--20277403 Score: 54
Period size: 10 Copynumber: 14.6 Consensus size: 10
20277254 GATAAAATGT
*
20277264 ATATAATACA
1 ATATAATAAA
20277274 ATATATATAAA
1 ATATA-ATAAA
*
20277285 ATA-AAGAAA
1 ATATAATAAA
*
20277294 GATATTATAAA
1 -ATATAATAAA
20277305 GA-ATAAT---
1 -ATATAATAAA
20277312 ATATAATAAA
1 ATATAATAAA
20277322 ATATAAT---
1 ATATAATAAA
*
20277329 ATGTAATAAA
1 ATATAATAAA
* *
20277339 AAAT-ATATAG
1 ATATAATA-AA
*
20277349 ATATAATGAA
1 ATATAATAAA
20277359 ATATAAT---
1 ATATAATAAA
*
20277366 ATGATAA-GAA
1 AT-ATAATAAA
20277376 ATATATATAAA
1 ATATA-ATAAA
20277387 ATATAATAATA
1 ATATAATAA-A
20277398 ATATAA
1 ATATAA
20277404 CAAGTATTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 37
0.66 0.09 0.25
Matches are distributed among these distances:
6 1 0.01
7 13 0.13
8 4 0.04
9 10 0.10
10 41 0.42
11 29 0.30
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (10 bp):
ATATAATAAA
Found at i:20277353 original size:37 final size:38
Alignment explanation
Indices: 20277307--20277403 Score: 119
Period size: 37 Copynumber: 2.6 Consensus size: 38
20277297 ATTATAAAGA
*
20277307 ATAATATATAATAAAATATAATATGTAATAA-AAA-ATAT
1 ATAAAATATAATAAAATATAATATG--ATAAGAAATATAT
* *
20277345 AT-AGATATAATGAAATATAATATGATAAGAAATATAT
1 ATAAAATATAATAAAATATAATATGATAAGAAATATAT
20277382 ATAAAATATAATAATAATATAA
1 ATAAAATATAATAA-AATATAA
20277404 CAAGTATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
35 4 0.08
36 3 0.06
37 26 0.51
38 11 0.22
39 7 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (38 bp):
ATAAAATATAATAAAATATAATATGATAAGAAATATAT
Found at i:20277427 original size:65 final size:65
Alignment explanation
Indices: 20277309--20277461 Score: 154
Period size: 65 Copynumber: 2.4 Consensus size: 65
20277299 TATAAAGAAT
* * *
20277309 AATATATAATAAAATATAATATGTAATAAAAAATATATAGATATAATGAAATATAATATGATAAG
1 AATATATAATAAAATATAATATATAATAAAAAATATATACATATAA-GAAATATAATAAGATAAG
20277374 A
65 A
* * *
20277375 AATATAT-ATAAAATATAATA-ATAATATAACAAGTATTTTACATATAA-AAATATAGTAAGATA
1 AATATATAATAAAATATAATATATAATA-AA-AAATA-TATACATATAAGAAATATAATAAGATA
20277437 A-A
63 AGA
* *
20277439 TAATACATAATAAAAAAT-ATATA
1 -AATATATAATAAAATATAATATA
20277462 ACGTATAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
64 6 0.08
65 38 0.52
66 20 0.27
67 9 0.12
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (65 bp):
AATATATAATAAAATATAATATATAATAAAAAATATATACATATAAGAAATATAATAAGATAAGA
Found at i:20277504 original size:21 final size:22
Alignment explanation
Indices: 20277447--20277505 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
20277437 AATAATACAT
*
20277447 AATAAA-AA-ATATATAACGTAT
1 AATAAATAATATATATAACG-AG
*
20277468 AATAAAGT-ATAAATATAAC-AG
1 AATAAA-TAATATATATAACGAG
20277489 AATAAATAATATATATA
1 AATAAATAATATATATA
20277506 TAAATATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.03
21 21 0.68
22 1 0.03
23 8 0.26
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (22 bp):
AATAAATAATATATATAACGAG
Found at i:20277611 original size:27 final size:25
Alignment explanation
Indices: 20277580--20277629 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
20277570 TGTACCATTT
20277580 TATATAACTAATATTTTAAAAAAATAA
1 TATATAA--AATATTTTAAAAAAATAA
*
20277607 TATATAAAGTATTTTAAAAAAAT
1 TATATAAAATATTTTAAAAAAAT
20277630 TAAAATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
27 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TATATAAAATATTTTAAAAAAATAA
Found at i:20280681 original size:20 final size:20
Alignment explanation
Indices: 20280645--20280683 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20280635 AAAAGAATAA
*
20280645 ATTCAAGAACAAGAATAAAG
1 ATTCAAGAACAAAAATAAAG
20280665 ATTCAA-AACAATAAATAAA
1 ATTCAAGAACAA-AAATAAA
20280684 AAATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (20 bp):
ATTCAAGAACAAAAATAAAG
Found at i:20282294 original size:27 final size:27
Alignment explanation
Indices: 20282246--20282350 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
20282236 GCGAGGCTGC
* * *
20282246 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
20282273 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
20282299 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
20282326 CAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
20282351 GACACTTCCT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
26 8 0.11
27 60 0.86
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:20284000 original size:26 final size:26
Alignment explanation
Indices: 20283970--20284077 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
20283960 TGAAATTCCC
*
20283970 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20283996 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
**
20284022 ATCATAAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20284048 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
20284074 ATCA
1 ATCA
20284078 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20289378 original size:27 final size:27
Alignment explanation
Indices: 20289330--20289488 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
20289320 GCGAGGCTGC
* * *
20289330 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
20289357 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
20289383 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
20289410 CAGATAATCGTGGCATAGCCACCA-AAA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
20289437 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
20289464 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
20289489 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.10
27 98 0.86
28 5 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:20289423 original size:54 final size:54
Alignment explanation
Indices: 20289330--20289488 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
20289320 GCGAGGCTGC
* * * *
20289330 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
20289383 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAAAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
20289437 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
20289489 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.13
54 83 0.87
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:20289924 original size:8 final size:8
Alignment explanation
Indices: 20289903--20289939 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
20289893 AAAATACCGA
*
20289903 CTTTTCAG
1 CTTTTCGG
*
20289911 CATTTCGG
1 CTTTTCGG
20289919 CTTTTCGG
1 CTTTTCGG
20289927 CTTTTCGG
1 CTTTTCGG
20289935 CTTTT
1 CTTTT
20289940 GCCAATCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:20291156 original size:26 final size:26
Alignment explanation
Indices: 20291117--20291224 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
20291107 TGAAATTCTC
*
20291117 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20291143 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
20291169 ATCATGAAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
20291195 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20291221 ATCA
1 ATCA
20291225 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20291235 original size:10 final size:10
Alignment explanation
Indices: 20291220--20291244 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20291210 CCTAACCCAT
20291220 TATCAATTTG
1 TATCAATTTG
20291230 TATCAATTTG
1 TATCAATTTG
20291240 TATCA
1 TATCA
20291245 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:20309461 original size:16 final size:16
Alignment explanation
Indices: 20309440--20309491 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
20309430 TGTATATATA
20309440 AATTTTAATTTTATGT
1 AATTTTAATTTTATGT
* *
20309456 AATTTT-A-TATATGA
1 AATTTTAATTTTATGT
* *
20309470 AATTTTAATTTGATCT
1 AATTTTAATTTTATGT
20309486 AATTTT
1 AATTTT
20309492 TTTGTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (16 bp):
AATTTTAATTTTATGT
Done.