Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 17 of 106
Found at i:7653153 original size:21 final size:22
Alignment explanation
Indices: 7653118--7653158 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7653108 NNNNNNNNAA
*
7653118 TTTAAATTTATAAAATTAATAT
1 TTTAAATTTAGAAAATTAATAT
7653140 TTTAAATTT-GAAAATTAAT
1 TTTAAATTTAGAAAATTAAT
7653159 TAAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAAATTTAGAAAATTAATAT
Found at i:7653207 original size:43 final size:43
Alignment explanation
Indices: 7653159--7653252 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
7653149 GAAAATTAAT
*
7653159 TAAAATTATTAACATTTTAATCATAATAA-TATTAA-ATTATAAA
1 TAAAATTATTAACATTTAAAT--TAATAATTATTAATATTATAAA
* * * *
7653202 TAAAATAATTAATATTTAAATTATTAATTATTAATATTCTAAA
1 TAAAATTATTAACATTTAAATTAATAATTATTAATATTATAAA
7653245 T-AAATTAT
1 TAAAATTAT
7653253 AATGATTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.12
42 12 0.28
43 26 0.60
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (43 bp):
TAAAATTATTAACATTTAAATTAATAATTATTAATATTATAAA
Found at i:7653235 original size:15 final size:14
Alignment explanation
Indices: 7653185--7653235 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
7653175 TTAATCATAA
7653185 TAATATTAAATTA-
1 TAATATTAAATTAT
* *
7653198 TAA-ATAAAATAAT
1 TAATATTAAATTAT
7653211 TAATATTTAAATTAT
1 TAATA-TTAAATTAT
7653226 TAATTATTAA
1 TAA-TATTAA
7653236 TATTCTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 7 0.23
13 6 0.20
14 1 0.03
15 14 0.47
16 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATTAAATTAT
Found at i:7653255 original size:26 final size:28
Alignment explanation
Indices: 7653218--7653275 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
7653208 AATTAATATT
*
7653218 TAAATTATTAATTATTAATATTCT-AAA
1 TAAATTATTAATGATTAATATTCTAAAA
*
7653245 TAAATTA-TAATGATTAATATTTTAAAA
1 TAAATTATTAATGATTAATATTCTAAAA
7653272 TAAA
1 TAAA
7653276 AATAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATTATTAATGATTAATATTCTAAAA
Found at i:7653287 original size:27 final size:26
Alignment explanation
Indices: 7653199--7653293 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 26
7653189 ATTAAATTAT
*
7653199 AAATAAAATAATTAATATT-TAAAT-
1 AAATATAATAATTAATATTCTAAATA
* *
7653223 -TAT-TAATTATTAATATTCTAAATA
1 AAATATAATAATTAATATTCTAAATA
* * *
7653247 AATTATAATGATTAATATTTTAAAATA
1 AAATATAATAATTAATATTCT-AAATA
7653274 AAA-ATAAATAATTATATATT
1 AAATAT-AATAATTA-ATATT
7653294 ATGATAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 12 0.22
23 7 0.13
25 1 0.02
26 16 0.29
27 14 0.25
28 5 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATAATAATTAATATTCTAAATA
Found at i:7669905 original size:21 final size:22
Alignment explanation
Indices: 7669863--7669907 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
7669853 TTACTTAAAA
*
7669863 TATTAATAATTGATGATTTAAT
1 TATTAATAATTGATGATATAAT
* *
7669885 TATTAAT-ATTGTTTATATAAT
1 TATTAATAATTGATGATATAAT
7669906 TA
1 TA
7669908 AAATGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTAATAATTGATGATATAAT
Found at i:7670017 original size:32 final size:30
Alignment explanation
Indices: 7669958--7670018 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
7669948 TTAAATAGGA
7669958 ATAATTTATAATTTATTTTATTAATAATTG
1 ATAATTTATAATTTATTTTATTAATAATTG
*
7669988 ATAATTTA-AATATTAATATTTATTTATAATT
1 ATAATTTATAAT-TT-AT-TTTATTAATAATT
7670019 TAATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 2 0.07
32 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
ATAATTTATAATTTATTTTATTAATAATTG
Found at i:7670040 original size:15 final size:15
Alignment explanation
Indices: 7669992--7670049 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
7669982 TAATTGATAA
7669992 TTTAAATATTAATA-
1 TTTAAATATTAATAT
*
7670006 TTT--AT-TT-ATAA
1 TTTAAATATTAATAT
7670017 TTT-AATATTAATAT
1 TTTAAATATTAATAT
7670031 TTTAAATATTAATAT
1 TTTAAATATTAATAT
7670046 TTTA
1 TTTA
7670050 TTAAAAGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.08
11 5 0.13
12 4 0.11
13 2 0.05
14 9 0.24
15 15 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAATATTAATAT
Found at i:7670746 original size:17 final size:17
Alignment explanation
Indices: 7670720--7670767 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 17
7670710 TTGTAGACAC
7670720 CAAAAAATAAAA-AAAT
1 CAAAAAATAAAATAAAT
7670736 CAAAGAAATAAAATAAAT
1 CAAA-AAATAAAATAAAT
*
7670754 --AAATATAAAATAAA
1 CAAAAAATAAAATAAA
7670768 ATAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.38
16 6 0.21
17 8 0.28
18 4 0.14
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
CAAAAAATAAAATAAAT
Found at i:7670753 original size:9 final size:9
Alignment explanation
Indices: 7670724--7670777 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
7670714 AGACACCAAA
7670724 AAATAAAA-
1 AAATAAAAT
* *
7670732 AAATCAAAG
1 AAATAAAAT
7670741 AAATAAAAT
1 AAATAAAAT
7670750 AAATAAATAT
1 AAATAAA-AT
7670760 AAAATAAAAT
1 -AAATAAAAT
*
7670770 AATTAAAA
1 AAATAAAA
7670778 AAAAAGAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
8 7 0.18
9 21 0.54
10 4 0.10
11 7 0.18
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:7671116 original size:20 final size:20
Alignment explanation
Indices: 7671091--7671170 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
7671081 TGGGGGAGAA
*
7671091 GTTTGCTCCGGCAGGAAAGG
1 GTTTGCTCCGGCAGGAGAGG
*
7671111 GTTTGCGT-CGGTAGGAGAGG
1 GTTTGC-TCCGGCAGGAGAGG
*
7671131 GTTTGCGCCGGCAGGAGAGG
1 GTTTGCTCCGGCAGGAGAGG
* *
7671151 TTTTGCAT-CGGCAGAAGAGG
1 GTTTGC-TCCGGCAGGAGAGG
7671171 AAGCCCGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.21
Consensus pattern (20 bp):
GTTTGCTCCGGCAGGAGAGG
Found at i:7671142 original size:40 final size:40
Alignment explanation
Indices: 7671091--7671170 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
7671081 TGGGGGAGAA
* * * *
7671091 GTTTGCTCCGGCAGGAAAGGGTTTGCGTCGGTAGGAGAGG
1 GTTTGCGCCGGCAGGAAAGGGTTTGCATCGGCAGAAGAGG
* *
7671131 GTTTGCGCCGGCAGGAGAGGTTTTGCATCGGCAGAAGAGG
1 GTTTGCGCCGGCAGGAAAGGGTTTGCATCGGCAGAAGAGG
7671171 AAGCCCGACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.21
Consensus pattern (40 bp):
GTTTGCGCCGGCAGGAAAGGGTTTGCATCGGCAGAAGAGG
Found at i:7675334 original size:6 final size:5
Alignment explanation
Indices: 7675313--7675368 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
7675303 NNNNNNNNNN
*
7675313 AAAAT AAAA- AATAT AACAAT AAAAAAT AAAAT AAAAT AATAAT AATAAT
1 AAAAT AAAAT AAAAT AA-AAT --AAAAT AAAAT AAAAT AA-AAT AA-AAT
7675362 AAAAT AA
1 AAAAT AA
7675369 TAAAAAATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 3 0.07
5 23 0.52
6 13 0.30
7 3 0.07
8 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:7675339 original size:22 final size:22
Alignment explanation
Indices: 7675313--7675370 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
7675303 NNNNNNNNNN
7675313 AAAATAAAA-AATATAACAATAA
1 AAAATAAAATAATATAACAAT-A
* *
7675335 AAAATAAAATAAAATAATAATA
1 AAAATAAAATAATATAACAATA
*
7675357 ATAATAAAATAATA
1 AAAATAAAATAATA
7675371 AAAAATGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAAAATAATATAACAATA
Found at i:7675350 original size:17 final size:17
Alignment explanation
Indices: 7675313--7675373 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
7675303 NNNNNNNNNN
7675313 AAAATAAAAAAT---AT
1 AAAATAAAAAATAAAAT
7675327 AACAATAAAAAATAAAAT
1 AA-AATAAAAAATAAAAT
*
7675345 AAAAT-AATAATAATAAT
1 AAAATAAAAAATAA-AAT
7675362 AAAATAATAAAA
1 AAAATAA-AAAA
7675374 AATGATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 7 0.18
17 11 0.29
18 5 0.13
19 3 0.08
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:7675355 original size:3 final size:3
Alignment explanation
Indices: 7675325--7675371 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
7675315 AATAAAAAAT
*
7675325 ATA ACA ATA A-A A-A ATA A-A ATA A-A ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7675368 ATA A
1 ATA A
7675372 AAAATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 10 0.26
3 28 0.74
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (3 bp):
ATA
Found at i:7675356 original size:11 final size:11
Alignment explanation
Indices: 7675337--7675388 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
7675327 AACAATAAAA
7675337 AATAAAATAA-
1 AATAAAATAAT
7675347 AATAATAATAAT
1 AATAA-AATAAT
7675359 AATAAAATAAT
1 AATAAAATAAT
*
7675370 AA-AAAATGAT
1 AATAAAATAAT
*
7675380 AAAAAAATA
1 AATAAAATA
7675389 GACAATGGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 14 0.38
11 18 0.49
12 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:7675381 original size:10 final size:10
Alignment explanation
Indices: 7675330--7675385 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
7675320 AAAATATAAC
7675330 AATAAAAAAT
1 AATAAAAAAT
7675340 AA-AATAAAAT
1 AATAA-AAAAT
*
7675350 AAT-AATAAT
1 AATAAAAAAT
7675359 AAT--AAAAT
1 AATAAAAAAT
7675367 AATAAAAAAT
1 AATAAAAAAT
*
7675377 GATAAAAAA
1 AATAAAAAA
7675386 ATAGACAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 7 0.18
9 9 0.23
10 23 0.59
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:7675383 original size:8 final size:8
Alignment explanation
Indices: 7675313--7675373 Score: 65
Period size: 8 Copynumber: 7.5 Consensus size: 8
7675303 NNNNNNNNNN
7675313 AAAATAA-
1 AAAATAAT
7675320 AAAAT-AT
1 AAAATAAT
7675327 AACAATAA-
1 AA-AATAAT
7675335 AAAATAAAAT
1 AAAAT--AAT
7675345 AAAATAAT
1 AAAATAAT
7675353 AATAATAAT
1 AA-AATAAT
7675362 AAAATAAT
1 AAAATAAT
7675370 AAAA
1 AAAA
7675374 AATGATAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
6 1 0.02
7 10 0.21
8 20 0.43
9 11 0.23
10 5 0.11
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:7675388 original size:26 final size:26
Alignment explanation
Indices: 7675315--7675381 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
7675305 NNNNNNNNAA
7675315 AATAAAAAATATAACAATAA-AAAAT
1 AATAAAAAATATAACAATAATAAAAT
*
7675340 AA-AATAAAATAATAATAATAATAAAAT
1 AATAA-AAAAT-ATAACAATAATAAAAT
7675367 AATAAAAAATGATAA
1 AATAAAAAAT-ATAA
7675382 AAAAATAGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 2 0.06
25 7 0.19
26 9 0.25
27 16 0.44
28 2 0.06
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (26 bp):
AATAAAAAATATAACAATAATAAAAT
Found at i:7675395 original size:18 final size:18
Alignment explanation
Indices: 7675313--7675388 Score: 63
Period size: 18 Copynumber: 4.3 Consensus size: 18
7675303 NNNNNNNNNN
7675313 AAAATAAAAAAT-AT--A
1 AAAATAAAAAATGATAAA
*
7675328 ACAATAAAAAAT-A-AAA
1 AAAATAAAAAATGATAAA
*
7675344 TAAAATAATAATAATAATAAA
1 -AAAATAA-AA-AATGATAAA
*
7675365 ATAATAAAAAATGATAAA
1 AAAATAAAAAATGATAAA
7675383 AAAATA
1 AAAATA
7675389 GACAATGGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
15 12 0.24
16 1 0.02
17 6 0.12
18 15 0.31
19 5 0.10
20 7 0.14
21 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (18 bp):
AAAATAAAAAATGATAAA
Found at i:7681912 original size:30 final size:30
Alignment explanation
Indices: 7681844--7681914 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
7681834 ATGATTCAAC
* * *
7681844 TCATCATGCTATTATGTACCAAAAAAGAAG
1 TCATCATGGTATTATGTACCAAAAAAAAAA
7681874 TCATCATGGTATTATGTACCAAAAAAAAAA
1 TCATCATGGTATTATGTACCAAAAAAAAAA
7681904 TCATCATGGTA
1 TCATCATGGTA
7681915 CTTCTTTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (30 bp):
TCATCATGGTATTATGTACCAAAAAAAAAA
Found at i:7683543 original size:16 final size:16
Alignment explanation
Indices: 7683506--7683547 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7683496 ATGTGTGTTT
7683506 GAAAGGAAAAAAAAAAA
1 GAAA-GAAAAAAAAAAA
**
7683523 G-AAGAAAAAAGGAAA
1 GAAAGAAAAAAAAAAA
7683538 GAAAGAAAAA
1 GAAAGAAAAA
7683548 GGGGAGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 11 0.50
16 10 0.45
17 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAAAAAAA
Found at i:7697338 original size:14 final size:13
Alignment explanation
Indices: 7697320--7697375 Score: 71
Period size: 14 Copynumber: 4.3 Consensus size: 13
7697310 ATATAACGGA
7697320 ATATATATATAAT
1 ATATATATATAAT
7697333 AT-TATATATAA-
1 ATATATATATAAT
*
7697344 ATACAATATATAAT
1 ATA-TATATATAAT
7697358 ATATAATATATAAT
1 ATAT-ATATATAAT
7697372 ATAT
1 ATAT
7697376 GGTTATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 2 0.05
12 9 0.24
13 10 0.27
14 16 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:7697385 original size:2 final size:2
Alignment explanation
Indices: 7697320--7697375 Score: 52
Period size: 2 Copynumber: 31.0 Consensus size: 2
7697310 ATATAACGGA
* *
7697320 AT AT AT AT AT A- AT AT -T AT AT AT AA AT AC A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7697358 AT AT A- AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
7697376 GGTTATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
1 6 0.13
2 39 0.87
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:7700304 original size:43 final size:44
Alignment explanation
Indices: 7700256--7700338 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
7700246 CAATGTACAA
*
7700256 CAATGAATGGTGATG-AAAAATCAAGGAAGACTAATTGACGGTG
1 CAATGAATGGTGATGAAAAAATCAAGAAAGACTAATTGACGGTG
7700299 CAATGAATGGTGATGAAAAAATCAAGAAAGACTAATTGAC
1 CAATGAATGGTGATGAAAAAATCAAGAAAGACTAATTGAC
7700339 TGTTGACTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
43 15 0.39
44 23 0.61
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (44 bp):
CAATGAATGGTGATGAAAAAATCAAGAAAGACTAATTGACGGTG
Found at i:7700380 original size:58 final size:57
Alignment explanation
Indices: 7700309--7700427 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 57
7700299 CAATGAATGG
*
7700309 TGATGAAAAAATCAAGAAAGACTAATTGACTGTTGACTACTGCTAGCTTGATTTGCT
1 TGATGAAAAAATCAAGAAAGACTAATTGACTGTTGACTACAGCTAGCTTGATTTGCT
* *
7700366 TGATAGAAAAAATCAAGGAAGACTAATTGACTGTTGACTACAGTTAGCTTGATTTGCT
1 TGAT-GAAAAAATCAAGAAAGACTAATTGACTGTTGACTACAGCTAGCTTGATTTGCT
7700424 TGAT
1 TGAT
7700428 TTCTATCTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 4 0.07
58 54 0.93
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (57 bp):
TGATGAAAAAATCAAGAAAGACTAATTGACTGTTGACTACAGCTAGCTTGATTTGCT
Found at i:7733245 original size:79 final size:77
Alignment explanation
Indices: 7733106--7733257 Score: 241
Period size: 79 Copynumber: 1.9 Consensus size: 77
7733096 CGTGCAAGTC
*
7733106 AGAGACTAAAATCAAGATATCACTAATTTTTTCTATTAATATAAACAGTATATGTATGGATTCAA
1 AGAGACTAAAATCAAGATATCACTAATTTTTTCTATTAATATAAACAATATATGTATGGATTCAA
*
7733171 CATGGATGAGTT
66 CATAGATGAGTT
* *
7733183 AGAGACTAAAATCAAGATATCACTAATTTTTTTTTTATTAATATAAACAATATATGTGTGGATTC
1 AGAGACTAAAATCAAGATATCACTAA--TTTTTTCTATTAATATAAACAATATATGTATGGATTC
*
7733248 GACATAGATG
64 AACATAGATG
7733258 TGAACGGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 26 0.38
79 42 0.62
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (77 bp):
AGAGACTAAAATCAAGATATCACTAATTTTTTCTATTAATATAAACAATATATGTATGGATTCAA
CATAGATGAGTT
Found at i:7735791 original size:28 final size:26
Alignment explanation
Indices: 7735734--7735791 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
7735724 AAAGTAAGCT
* *
7735734 TTTTAAATATACAAAAAAAATAATTA
1 TTTTAAATATAAAAAAAAAATAAGTA
* *
7735760 TTTTAAATTTAAAAACAAACAATAAGTG
1 TTTTAAATATAAAAA-AAA-AATAAGTA
7735788 TTTT
1 TTTT
7735792 TTTTAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 13 0.50
27 3 0.12
28 10 0.38
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTTAAATATAAAAAAAAAATAAGTA
Found at i:7743207 original size:13 final size:13
Alignment explanation
Indices: 7743189--7743222 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7743179 CAAAACTATC
*
7743189 ATATTTTTTTATT
1 ATATTTTTATATT
7743202 ATATTTTTATATT
1 ATATTTTTATATT
7743215 ATTATTTT
1 A-TATTTT
7743223 AAATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATATTTTTATATT
Found at i:7744307 original size:15 final size:15
Alignment explanation
Indices: 7744287--7744316 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7744277 ATATTAATAT
7744287 TTATTTATAATTTAA
1 TTATTTATAATTTAA
*
7744302 TTATTTATATTTTAA
1 TTATTTATAATTTAA
7744317 AATATTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTTATAATTTAA
Found at i:7744334 original size:27 final size:27
Alignment explanation
Indices: 7744302--7744405 Score: 70
Period size: 27 Copynumber: 3.6 Consensus size: 27
7744292 TATAATTTAA
7744302 TTATTTATATTTTAAAATATTAATATT
1 TTATTTATATTTTAAAATATTAATATT
*
7744329 TTATTTA-A-TTTAAANGATAATT-TTATT
1 TTATTTATATTTTAAA--AT-ATTAATATT
*
7744356 TTATTTTATTTTATTTTTTAAATATTAATAATT
1 TTA-TTTA---TA-TTTTAAAATATTAAT-ATT
* *
7744389 GTAATTATATTTTAAAA
1 TTATTTATATTTTAAAA
7744406 ATAATTAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 23
0.67 0.07 0.26
Matches are distributed among these distances:
25 6 0.10
26 1 0.02
27 16 0.27
28 14 0.24
29 2 0.03
31 3 0.05
32 7 0.12
33 5 0.08
34 5 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTTATATTTTAAAATATTAATATT
Found at i:7744356 original size:5 final size:5
Alignment explanation
Indices: 7744348--7744372 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7744338 TTAAANGATA
7744348 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
7744373 TTAAATATTA
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:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:7744523 original size:153 final size:145
Alignment explanation
Indices: 7744167--7744470 Score: 344
Period size: 153 Copynumber: 2.0 Consensus size: 145
7744157 TAATTTAAAC
* *
7744167 ATTAATATTTTATTTAATTTGAAAATTATTATGATTAATTTTTATTTTATTTTATTTTTGAAAAT
1 ATTAATATTTTATTTAATTT-AAAA-GATAAT--TTAA-TTTTATTTTATTTTATTTTTGAAAAT
7744232 TAATAATTGATAATTTATTTAAAATATTAATAATTGATCATTTCAATATTAATATTTATTTATAA
61 TAATAATTGATAATTTATTTAAAATATTAATAATTGATCATTTCAATATTAATATTTATTTATAA
*
7744297 TTTAATTATTTATATTTTAAAAT
126 TTTAATGATTTATATTTT---AT
* * *
7744320 ATTAATATTTTATTTAATTTAAANGATAATTTTATTTTATTTTATTTTATTTTTTAAATATTAAT
1 ATTAATATTTTATTTAATTTAAAAGATAATTTAATTTTATTTTATTTTATTTTTGAAA-ATTAAT
*
7744385 AATTG-TAATTATATTTTAAAAATAATTAAATAATTGATGATTT-AATTATTAATA-TTATTTAT
65 AATTGATAATT-TA-TTT-AAAAT-ATT-AATAATTGATCATTTCAA-TATTAATATTTATTTA-
*
7744447 CTAATTTAAATGATATTATGTTTT
123 -TAATTT-AATGAT-TTATATTTT
7744471 TTTTTTTATT
Statistics
Matches: 132, Mismatches: 8, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
148 28 0.21
149 16 0.12
150 3 0.02
151 9 0.07
152 15 0.11
153 42 0.32
154 6 0.05
155 5 0.04
156 8 0.06
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (145 bp):
ATTAATATTTTATTTAATTTAAAAGATAATTTAATTTTATTTTATTTTATTTTTGAAAATTAATA
ATTGATAATTTATTTAAAATATTAATAATTGATCATTTCAATATTAATATTTATTTATAATTTAA
TGATTTATATTTTAT
Found at i:7744561 original size:32 final size:30
Alignment explanation
Indices: 7744502--7744562 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
7744492 TTAGATATTA
7744502 ATAATTTATAATTTATTTTATTAATAATTG
1 ATAATTTATAATTTATTTTATTAATAATTG
*
7744532 ATAATTTA-AATATTAATATTTATTTATAATT
1 ATAATTTATAAT-TT-AT-TTTATTAATAATT
7744563 TAATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 2 0.07
32 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
ATAATTTATAATTTATTTTATTAATAATTG
Found at i:7744569 original size:14 final size:14
Alignment explanation
Indices: 7744491--7744594 Score: 56
Period size: 16 Copynumber: 7.3 Consensus size: 14
7744481 TTATTTTATT
7744491 TTTAGATATTAATAA
1 TTTA-ATATTAATAA
* **
7744506 TTT-ATAATTTATTT
1 TTTAAT-ATTAATAA
*
7744520 TATTAATAATTGATAA
1 T-TTAAT-ATTAATAA
7744536 TTTAAATATTAAT-A
1 TTT-AATATTAATAA
7744550 TTT-AT-TT-ATAA
1 TTTAATATTAATAA
*
7744561 TTTAATATTAATAT
1 TTTAATATTAATAA
*
7744575 TTTAAAATATTAATAT
1 TTT--AATATTAATAA
7744591 TTTA
1 TTTA
7744595 TTAAAAGTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
10 2 0.03
11 6 0.08
12 4 0.06
13 4 0.06
14 17 0.24
15 12 0.17
16 26 0.37
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTAATATTAATAA
Found at i:7744585 original size:16 final size:16
Alignment explanation
Indices: 7744564--7744594 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7744554 TTTATAATTT
7744564 AATATTAATATTTTAA
1 AATATTAATATTTTAA
7744580 AATATTAATATTTTA
1 AATATTAATATTTTA
7744595 TTAAAAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTAATATTTTAA
Found at i:7759332 original size:12 final size:11
Alignment explanation
Indices: 7759302--7759334 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7759292 AAAAAAGAAA
7759302 TAAA-ATTATT
1 TAAATATTATT
7759312 TAAATATTATT
1 TAAATATTATT
7759323 TAATATATTATT
1 TAA-ATATTATT
7759335 ATTATTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 9 0.43
12 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAAATATTATT
Found at i:7759381 original size:43 final size:43
Alignment explanation
Indices: 7759334--7759458 Score: 180
Period size: 43 Copynumber: 2.9 Consensus size: 43
7759324 AATATATTAT
7759334 TATTATTTAAGAATAATAAATATTATAAAAAATTATTTAATAA
1 TATTATTTAAGAATAATAAATATTATAAAAAATTATTTAATAA
*
7759377 TATTATTTAAGAATAATAAATATTATAAAAAATTATTTAATAT
1 TATTATTTAAGAATAATAAATATTATAAAAAATTATTTAATAA
* * *
7759420 TATTATTTGAA-TATAATAAATGTAATAAAGAATATTATT
1 TATTATTT-AAGAATAATAAATATTATAAA-AA-ATTATT
7759459 CAGTATTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
43 65 0.87
44 4 0.05
45 6 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (43 bp):
TATTATTTAAGAATAATAAATATTATAAAAAATTATTTAATAA
Found at i:7767659 original size:2 final size:2
Alignment explanation
Indices: 7767654--7767694 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
7767644 TTTTTNAGTC
* *
7767654 TA TA TA TG TA CA 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 TA TA TA TA TA TA T
7767695 TGTATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7803931 original size:17 final size:18
Alignment explanation
Indices: 7803905--7803944 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7803895 TCATAATTAA
*
7803905 TATTTTATTTAA-AATTT
1 TATTTAATTTAATAATTT
*
7803922 TATTTAATTTAATATTTT
1 TATTTAATTTAATAATTT
7803940 TATTT
1 TATTT
7803945 GGTTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTAATTTAATAATTT
Found at i:7813832 original size:51 final size:51
Alignment explanation
Indices: 7813756--7813856 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
7813746 GAAGAAATAG
7813756 TAATGTGGATTATTTTAAAATGTCATCAAAATATTGTTTGTTACGATGGCC
1 TAATGTGGATTATTTTAAAATGTCATCAAAATATTGTTTGTTACGATGGCC
7813807 TAATGTGGATTATTTTAAAATGTCATCAAAATATTGTTTGTTACGATGGC
1 TAATGTGGATTATTTTAAAATGTCATCAAAATATTGTTTGTTACGATGGC
7813857 ATGACCTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (51 bp):
TAATGTGGATTATTTTAAAATGTCATCAAAATATTGTTTGTTACGATGGCC
Found at i:7815039 original size:2 final size:2
Alignment explanation
Indices: 7815032--7815083 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
7815022 GAATAAAATG
*
7815032 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7815074 AT AT AT AT AT
1 AT AT AT AT AT
7815084 CATTTTGGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7818591 original size:85 final size:85
Alignment explanation
Indices: 7818427--7818591 Score: 231
Period size: 85 Copynumber: 1.9 Consensus size: 85
7818417 TTCTCAGCTT
* * *
7818427 CAATGACTTTGTGGCTCAATTTTCAGCTTTTAATCTTGTGTTTCGTTCCTCTCTAAAAGAATTTC
1 CAATGACTTTGTGGCTCAATTTTCAACTTTTAATCTAGTGTTTCGTTCCTCTCTAAAAGAATTCC
* * *
7818492 GAAAGGTTGCTTTTATAAGG
66 AAAAGATTACTTTTATAAGG
** **
7818512 CAATGACTTTGTGGCTTGATTTTCAACTTTTAATCTAGTGTTTCGTTCCTCTCTAAAAGTCTTCC
1 CAATGACTTTGTGGCTCAATTTTCAACTTTTAATCTAGTGTTTCGTTCCTCTCTAAAAGAATTCC
*
7818577 AAAAGATTATTTTTA
66 AAAAGATTACTTTTA
7818592 GGGCTTTGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (85 bp):
CAATGACTTTGTGGCTCAATTTTCAACTTTTAATCTAGTGTTTCGTTCCTCTCTAAAAGAATTCC
AAAAGATTACTTTTATAAGG
Found at i:7821200 original size:29 final size:29
Alignment explanation
Indices: 7821156--7821238 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
7821146 TTATTTAACT
* **
7821156 TAAAATAAAAGT-TAAAGGTTTATTTGGC
1 TAAAATAAAAATATAAAGGTTTATTTGAA
* *
7821184 TAAAATAAAAATATAAAGATTTAATTGAA
1 TAAAATAAAAATATAAAGGTTTATTTGAA
*
7821213 TACAATAAAAATATGAAA-GTTTATTT
1 TAAAATAAAAATAT-AAAGGTTTATTT
7821239 AAAATTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
28 11 0.24
29 31 0.69
30 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (29 bp):
TAAAATAAAAATATAAAGGTTTATTTGAA
Found at i:7822625 original size:13 final size:13
Alignment explanation
Indices: 7822607--7822635 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7822597 CGTTTTGACG
7822607 GAAGAGTATAGGA
1 GAAGAGTATAGGA
7822620 GAAGAGTATAGGA
1 GAAGAGTATAGGA
7822633 GAA
1 GAA
7822636 TTTAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.38, T:0.14
Consensus pattern (13 bp):
GAAGAGTATAGGA
Found at i:7826336 original size:2 final size:2
Alignment explanation
Indices: 7826325--7826355 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7826315 ATATATATCG
*
7826325 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7826356 TCCATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7841689 original size:34 final size:34
Alignment explanation
Indices: 7841646--7841714 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
7841636 CTCTCGTTCG
7841646 TGTAATCTTTAGCAGCACTTACCCTCCCACTCCA
1 TGTAATCTTTAGCAGCACTTACCCTCCCACTCCA
7841680 TGTAATCTTTAGCAGCACTTACCCTCCCACTCCA
1 TGTAATCTTTAGCAGCACTTACCCTCCCACTCCA
7841714 T
1 T
7841715 TACTGCACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.38, G:0.09, T:0.30
Consensus pattern (34 bp):
TGTAATCTTTAGCAGCACTTACCCTCCCACTCCA
Found at i:7858527 original size:33 final size:32
Alignment explanation
Indices: 7858490--7858569 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
7858480 TCATGCCACA
* * *
7858490 TTAATATATCACGTTATTATCGATTATGATAT
1 TTAATATATCACGTAATCATCAATTATGATAT
* * *
7858522 GTTAATATGTCATGTAATCATTAATTATGATAT
1 -TTAATATATCACGTAATCATCAATTATGATAT
*
7858555 TTAAATATACCACGT
1 TT-AATATATCACGT
7858570 CAGCACCACA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (32 bp):
TTAATATATCACGTAATCATCAATTATGATAT
Found at i:7858903 original size:2 final size:2
Alignment explanation
Indices: 7858896--7858920 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7858886 ATAATGCTGC
7858896 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7858921 AAAGGACAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7865240 original size:20 final size:19
Alignment explanation
Indices: 7865212--7865251 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7865202 CCACTATATA
*
7865212 TAAAAATAATAATAATAATT
1 TAAAAATAAT-ATAAAAATT
*
7865232 TAAATATAATATAAAAATT
1 TAAAAATAATATAAAAATT
7865251 T
1 T
7865252 GTTTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATAATATAAAAATT
Found at i:7865806 original size:34 final size:34
Alignment explanation
Indices: 7865768--7865834 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
7865758 AAAGTAAGAA
*
7865768 TATTTTATCTTTTTTAAATTATCAATACTTTAAG
1 TATTTTACCTTTTTTAAATTATCAATACTTTAAG
7865802 TATTTTACCTTTTTTAAATTATCAATACTTTAA
1 TATTTTACCTTTTTTAAATTATCAATACTTTAA
7865835 AATAATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.55
Consensus pattern (34 bp):
TATTTTACCTTTTTTAAATTATCAATACTTTAAG
Found at i:7865886 original size:27 final size:27
Alignment explanation
Indices: 7865837--7865888 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7865827 TACTTTAAAA
**
7865837 TAATTATTTTTAATTTATTATTATTAT
1 TAATTATTTTTAATTTAAAATTATTAT
*
7865864 TAATTTTTTTTAATTTAAAATTATT
1 TAATTATTTTTAATTTAAAATTATT
7865889 CTTCCTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TAATTATTTTTAATTTAAAATTATTAT
Found at i:7880903 original size:36 final size:36
Alignment explanation
Indices: 7880856--7880928 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7880846 GACAGCGATT
7880856 ATTGTTTATGATATAAAGAGAAGATAAGTATTGGAG
1 ATTGTTTATGATATAAAGAGAAGATAAGTATTGGAG
7880892 ATTGTTTATGATATAAAGAGAAGATAAGTATTGGAG
1 ATTGTTTATGATATAAAGAGAAGATAAGTATTGGAG
7880928 A
1 A
7880929 CTGGTACTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (36 bp):
ATTGTTTATGATATAAAGAGAAGATAAGTATTGGAG
Found at i:7893782 original size:67 final size:67
Alignment explanation
Indices: 7893674--7893799 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
7893664 TGCCAACCTG
*
7893674 CCATAAGGCATAAACCGTGAGTGCTTGCTTGGTATTGGACTAAAAGATTAGATTAACTTATTTGT
1 CCATAAGGCATAAACCGTGAGTGCTTGCTTAGTATTGGACTAAAAGATTAGATTAACTTATTTGT
7893739 GA
66 GA
*
7893741 CCATAAGGCATAAAGTC-TGAGTGCTTGCTTAGTATTGGACTAAAAGATTAGATTAACTT
1 CCATAAGGCATAAA-CCGTGAGTGCTTGCTTAGTATTGGACTAAAAGATTAGATTAACTT
7893800 GAACTGTAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
67 55 0.98
68 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (67 bp):
CCATAAGGCATAAACCGTGAGTGCTTGCTTAGTATTGGACTAAAAGATTAGATTAACTTATTTGT
GA
Found at i:7906566 original size:29 final size:29
Alignment explanation
Indices: 7906524--7906587 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
7906514 TTGTATCTAA
7906524 TTTTGCCAACACATTTTTATGCCCTTGAG
1 TTTTGCCAACACATTTTTATGCCCTTGAG
7906553 TTTTGCCAACACATTTTTATGCCCTTGAG
1 TTTTGCCAACACATTTTTATGCCCTTGAG
7906582 TTTTGC
1 TTTTGC
7906588 ATCTATTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (29 bp):
TTTTGCCAACACATTTTTATGCCCTTGAG
Found at i:7908466 original size:23 final size:24
Alignment explanation
Indices: 7908418--7908470 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
7908408 GTAATTTTCA
7908418 TTAAAATATT--TTTTATTAAAATT
1 TTAAAATATTAATTTT-TTAAAATT
*
7908441 TTAAAATATTAATTTTTTATAATT
1 TTAAAATATTAATTTTTTAAAATT
7908465 TATAAA
1 T-TAAA
7908471 TAAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 10 0.38
24 8 0.31
25 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAAATATTAATTTTTTAAAATT
Found at i:7909901 original size:78 final size:78
Alignment explanation
Indices: 7909771--7909980 Score: 264
Period size: 78 Copynumber: 2.7 Consensus size: 78
7909761 AAAATGTTAA
* * * * * *
7909771 ATTTATATATTGGCACCATTAGACCTTAATATATAATAAGAATGTCAGATGCCTACCTATCACAT
1 ATTTATATATTGGCATCATTATACCTTAATGTATAATAGGAATGTCATATGCCCACCTATCACAT
*
7909836 -AGACTTTGATGGT
66 GAGAC-ATGATGGT
* *
7909849 ATTTACATATTGGCATCATTATATCTTAATGTATAATAGGAATGTCATATGCCCACCTATCACAT
1 ATTTATATATTGGCATCATTATACCTTAATGTATAATAGGAATGTCATATGCCCACCTATCACAT
*
7909914 GAGGCATGATGGT
66 GAGACATGATGGT
** * *
7909927 A--TATATATTGATATCATTATACCTTAATGTATAATAGGAATGCCATATACCCAC
1 ATTTATATATTGGCATCATTATACCTTAATGTATAATAGGAATGTCATATGCCCAC
7909981 GCTTTGTGTC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 47 0.41
78 65 0.57
79 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (78 bp):
ATTTATATATTGGCATCATTATACCTTAATGTATAATAGGAATGTCATATGCCCACCTATCACAT
GAGACATGATGGT
Found at i:7915574 original size:23 final size:22
Alignment explanation
Indices: 7915548--7915590 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
7915538 AGTGTTTGGT
7915548 ATATAAGCAAA-ATAATTATTAAA
1 ATATAAG-AAAGATAA-TATTAAA
7915571 ATATAAGAAAGATAATATTA
1 ATATAAGAAAGATAATATTA
7915591 TAATGTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
ATATAAGAAAGATAATATTAAA
Found at i:7915744 original size:20 final size:20
Alignment explanation
Indices: 7915721--7915795 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
7915711 CATATCTTAA
7915721 ATATATTTTTAATATTATAT
1 ATATATTTTTAATATTATAT
* *
7915741 ATATTATTTTT-ATTTTTTAT
1 ATA-TATTTTTAATATTATAT
* *
7915761 -TATAATTTTATATTTTATAT
1 ATATATTTTTA-ATATTATAT
* *
7915781 TTTTATTTTTAATAT
1 ATATATTTTTAATAT
7915796 AATTTTCTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 6 0.14
19 2 0.05
20 21 0.48
21 15 0.34
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATATATTTTTAATATTATAT
Found at i:7915755 original size:6 final size:6
Alignment explanation
Indices: 7915744--7915791 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
7915734 ATTATATATA
* *
7915744 TTATTT TTATTTT TTATTA TAATTT TATATTT TATATTT TTATTT TTA
1 TTATTT TTA-TTT TTATTT TTATTT T-TATTT T-TATTT TTATTT TTA
7915792 ATATAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 18 0.50
7 18 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:7915782 original size:33 final size:33
Alignment explanation
Indices: 7915730--7915822 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 33
7915720 AATATATTTT
* *
7915730 TAATATTATATA-TATTATTTTTATTTTTTATTA
1 TAATTTTATATATTA-TATTTTTATTTTTTAATA
*
7915763 TAATTTTATATTTTATATTTTTA-TTTTTAATA
1 TAATTTTATATATTATATTTTTATTTTTTAATA
*
7915795 TAATTTTCTATATTATATATTTTATTTT
1 TAATTTTATATATTATAT-TTTTATTTT
7915823 AATTTATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 24 0.46
33 23 0.44
34 5 0.10
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (33 bp):
TAATTTTATATATTATATTTTTATTTTTTAATA
Found at i:7915797 original size:32 final size:32
Alignment explanation
Indices: 7915730--7915822 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 32
7915720 AATATATTTT
* *
7915730 TAATATTATATA-TATTATTTTTATTTTTTATTA
1 TAATTTTATATATTA-TATTTTTA-TTTTTAATA
*
7915763 TAATTTTATATTTTATATTTTTATTTTTAATA
1 TAATTTTATATATTATATTTTTATTTTTAATA
*
7915795 TAATTTTCTATATTATATATTTTATTTT
1 TAATTTTATATATTATAT-TTTTATTTT
7915823 AATTTATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
32 24 0.45
33 27 0.51
34 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (32 bp):
TAATTTTATATATTATATTTTTATTTTTAATA
Found at i:7915823 original size:32 final size:32
Alignment explanation
Indices: 7915736--7915835 Score: 112
Period size: 32 Copynumber: 3.0 Consensus size: 32
7915726 TTTTTAATAT
* *
7915736 TATATATATTATTTTTATTTTTTATTATAATTTTA
1 TATAT-TA-TATTTTTA-TTTTTAATATAATTTTC
*
7915771 TATTTTATATTTTTATTTTTAATATAATTTTC
1 TATATTATATTTTTATTTTTAATATAATTTTC
* *
7915803 TATATTATATATTTTA-TTTTAATTTATTTTTC
1 TATATTATAT-TTTTATTTTTAATATAATTTTC
7915835 T
1 T
7915836 TTTAAAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 39 0.67
33 13 0.22
34 2 0.03
35 4 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (32 bp):
TATATTATATTTTTATTTTTAATATAATTTTC
Found at i:7918236 original size:2 final size:2
Alignment explanation
Indices: 7918229--7918309 Score: 51
Period size: 2 Copynumber: 40.5 Consensus size: 2
7918219 TGGACACGTG
* *
7918229 TA TA TA TA TA TA TA TA TA TA TA TA T- TA CA TA TGA TA -A GTA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA
* * * * *
7918271 AA AA T- TA GTT TN TG 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 TA TA TA TA TA T
7918310 TACATATGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
1 3 0.05
2 58 0.89
3 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7921814 original size:51 final size:51
Alignment explanation
Indices: 7921727--7921928 Score: 235
Period size: 51 Copynumber: 4.0 Consensus size: 51
7921717 AATGGCATTG
* * * * * * ** *
7921727 TTCTTCCAACAATACCAAGTTCTTTTCTTGAATCAGCTCCCTGCTCCAAAG
1 TTCTCCCAACTATTCCAACTTCTTTTCTAGATTCAGCAGCCTGCTCCAAAC
* * *
7921778 TTTTCCCAACTATTCCAGCTTCTTTTCTAGATTCAGCAGCCGGCTCCAAAC
1 TTCTCCCAACTATTCCAACTTCTTTTCTAGATTCAGCAGCCTGCTCCAAAC
* **
7921829 TTCTCCCAGCTATTCCAACTTCCCTTCTAGATTCAGCAGCCTGCTCCAAAC
1 TTCTCCCAACTATTCCAACTTCTTTTCTAGATTCAGCAGCCTGCTCCAAAC
* *
7921880 TTCTCCCGGA-TATTCCAACTTCTTTTCTTGATTCAGCAGCCTGCTCCAA
1 TTCTCCC-AACTATTCCAACTTCTTTTCTAGATTCAGCAGCCTGCTCCAA
7921929 CCTTGTATCA
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
51 127 1.00
ACGTcount: A:0.22, C:0.34, G:0.11, T:0.33
Consensus pattern (51 bp):
TTCTCCCAACTATTCCAACTTCTTTTCTAGATTCAGCAGCCTGCTCCAAAC
Found at i:7926403 original size:5 final size:5
Alignment explanation
Indices: 7926393--7926432 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
7926383 CTGCTCACCT
7926393 TTTTC TTTTC TCTTT- TTTT- TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
7926433 GGTTTTAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 7 0.21
5 23 0.70
6 3 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:7926438 original size:24 final size:24
Alignment explanation
Indices: 7926393--7926438 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7926383 CTGCTCACCT
**
7926393 TTTTCTTTTCTCTTTTTTTTTTTC
1 TTTTCTTTTCTCTTTTGGTTTTTC
7926417 TTTTCTTTTCT-TTTCTGGTTTT
1 TTTTCTTTTCTCTTT-TGGTTTT
7926439 AAACTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTCTTTTCTCTTTTGGTTTTTC
Found at i:7934398 original size:19 final size:19
Alignment explanation
Indices: 7934355--7934392 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7934345 TTACTAGCAC
*
7934355 CAATCAGGCTTAAAACCAA
1 CAATCAGACTTAAAACCAA
7934374 CAATCAGACTTAAAACCAA
1 CAATCAGACTTAAAACCAA
7934393 GCATCACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.26, G:0.08, T:0.16
Consensus pattern (19 bp):
CAATCAGACTTAAAACCAA
Found at i:7938187 original size:31 final size:32
Alignment explanation
Indices: 7938152--7938215 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
7938142 CTTCATTTCA
7938152 AGAAACATAC-TTTACCCTAACCTAACCATAC
1 AGAAACATACTTTTACCCTAACCTAACCATAC
*
7938183 AGAAATATACTTTTACCCTAACCTAACCATAC
1 AGAAACATACTTTTACCCTAACCTAACCATAC
7938215 A
1 A
7938216 TACTCCAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.42, C:0.30, G:0.03, T:0.25
Consensus pattern (32 bp):
AGAAACATACTTTTACCCTAACCTAACCATAC
Found at i:7951928 original size:15 final size:15
Alignment explanation
Indices: 7951908--7951936 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7951898 AAGTAAACAA
7951908 ACGTTGACATCTTAC
1 ACGTTGACATCTTAC
7951923 ACGTTGACATCTTA
1 ACGTTGACATCTTA
7951937 AACTATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (15 bp):
ACGTTGACATCTTAC
Found at i:7959505 original size:34 final size:29
Alignment explanation
Indices: 7959456--7959526 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 29
7959446 AGATAAACAA
*
7959456 TTATTTTTATCTTTTTAAAGAAAATTGATAATAT
1 TTATTTTTAACTTTTT-AA-AAAATT--T-ATAT
*
7959490 TTATTTTTAAGTTTTTAAAAAATTTATAT
1 TTATTTTTAACTTTTTAAAAAATTTATAT
7959519 TTATTTTT
1 TTATTTTT
7959527 TAATGAGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 12 0.34
30 1 0.03
32 6 0.17
33 2 0.06
34 14 0.40
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (29 bp):
TTATTTTTAACTTTTTAAAAAATTTATAT
Found at i:7961063 original size:29 final size:29
Alignment explanation
Indices: 7961018--7961083 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
7961008 GTCCGTGTAT
*
7961018 ATGCAGTTGTTGATTATTTGGATAAAGAC
1 ATGCAGTTGCTGATTATTTGGATAAAGAC
* **
7961047 ATGCAGTTGCTGGTTATTTGGATTTAGAC
1 ATGCAGTTGCTGATTATTTGGATAAAGAC
7961076 ATGCAGTT
1 ATGCAGTT
7961084 ACTTGTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (29 bp):
ATGCAGTTGCTGATTATTTGGATAAAGAC
Found at i:7965440 original size:29 final size:29
Alignment explanation
Indices: 7965395--7965460 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
7965385 GTCCGTGTAT
*
7965395 ATGCAGTTGTTGATTATTTGGATAAAGAC
1 ATGCAGTTGTAGATTATTTGGATAAAGAC
**
7965424 ATGCAGTTGCTAG-TTATTTGGATTTAGAC
1 ATGCAGTTG-TAGATTATTTGGATAAAGAC
*
7965453 ATGTAGTT
1 ATGCAGTT
7965461 ACTTGTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (29 bp):
ATGCAGTTGTAGATTATTTGGATAAAGAC
Found at i:7965526 original size:20 final size:21
Alignment explanation
Indices: 7965490--7965528 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7965480 AAACTTCCTT
7965490 TTAACACTTGTAATCCATGCC
1 TTAACACTTGTAATCCATGCC
7965511 TTAACACTTG-AATCCATG
1 TTAACACTTGTAATCCATG
7965529 TCTTGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAACACTTGTAATCCATGCC
Found at i:7970260 original size:3 final size:3
Alignment explanation
Indices: 7970252--7970281 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
7970242 TGACTGTTAC
7970252 TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
7970282 ATTAATGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7979135 original size:24 final size:24
Alignment explanation
Indices: 7979084--7979150 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
7979074 TTATAAGTAA
* * *
7979084 AATTT-TTAATAATAATAATTATT
1 AATTTATTTATAATAAAAATAATT
*
7979107 TATTTATTTATAATAAAAATAATT
1 AATTTATTTATAATAAAAATAATT
*
7979131 AATTTAATATATAATAAAAA
1 AATTT-ATTTATAATAAAAA
7979151 ATATTAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 4 0.11
24 19 0.53
25 13 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTTATTTATAATAAAAATAATT
Found at i:7979156 original size:25 final size:24
Alignment explanation
Indices: 7979084--7979157 Score: 71
Period size: 25 Copynumber: 3.1 Consensus size: 24
7979074 TTATAAGTAA
* * *
7979084 AATTTTTA-ATAATAATAATTATT
1 AATTTATATATAATAAAAAATATT
* *
7979107 TATTTATTTATAAT-AAAAATAATT
1 AATTTATATATAATAAAAAAT-ATT
7979131 AATTTAATATATAATAAAAAATATT
1 AATTT-ATATATAATAAAAAATATT
7979156 AA
1 AA
7979158 AATTTTCTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
23 9 0.22
24 12 0.30
25 13 0.32
26 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTTATATATAATAAAAAATATT
Found at i:7979812 original size:23 final size:22
Alignment explanation
Indices: 7979785--7979828 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
7979775 AGGTATTTTT
*
7979785 TTTTTCTTTCTATTCTGTTTTTCG
1 TTTTACTTTCTA-TC-GTTTTTCG
*
7979809 TTTTATTTTCTATCGTTTTT
1 TTTTACTTTCTATCGTTTTT
7979829 ATTGAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 2 0.11
24 10 0.56
ACGTcount: A:0.07, C:0.14, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTACTTTCTATCGTTTTTCG
Found at i:7980403 original size:35 final size:35
Alignment explanation
Indices: 7980363--7980432 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
7980353 TTAATTAAAA
* *
7980363 TTAGAGTTTATATTAGTTGTTTTGTCAAATAATTT
1 TTAGAGTTTATATAAATTGTTTTGTCAAATAATTT
7980398 TTAGAGTTTATATAAATTGTTTTGTCAAATAATTT
1 TTAGAGTTTATATAAATTGTTTTGTCAAATAATTT
7980433 ATTTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (35 bp):
TTAGAGTTTATATAAATTGTTTTGTCAAATAATTT
Found at i:7980575 original size:69 final size:69
Alignment explanation
Indices: 7980496--7980649 Score: 267
Period size: 69 Copynumber: 2.2 Consensus size: 69
7980486 TTTTAAAAAC
*
7980496 TATTATTTTTCATAAGAGCTTTATAATAGCTTTTAAGTTGAAAAAAAAGTCAGGTCAAACATGCT
1 TATTATTTTTCATAAGAGCTTTATAATAGCTTTTAAGTTGAAAAAAAAGTCAAGTCAAACATGCT
7980561 CTAA
66 CTAA
7980565 TATTATTTTTCATAAGAGCTTTATAATAGCTTTTAAGTTGAAAAAAAAGTCAAGTCAAACATGCT
1 TATTATTTTTCATAAGAGCTTTATAATAGCTTTTAAGTTGAAAAAAAAGTCAAGTCAAACATGCT
7980630 CTAA
66 CTAA
7980634 -ATTTACTTTTT-ATAAG
1 TA-TTA-TTTTTCATAAG
7980650 CTCTTTTTTA
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
68 1 0.01
69 76 0.93
70 5 0.06
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (69 bp):
TATTATTTTTCATAAGAGCTTTATAATAGCTTTTAAGTTGAAAAAAAAGTCAAGTCAAACATGCT
CTAA
Found at i:7980883 original size:28 final size:28
Alignment explanation
Indices: 7980851--7980907 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
7980841 AAAGTTTATA
*
7980851 ATTAATAATAAATTATAAAAAAGAGATG
1 ATTAATAATAAATCATAAAAAAGAGATG
7980879 ATTAATAATAAATCATAAAAAAGAGATG
1 ATTAATAATAAATCATAAAAAAGAGATG
7980907 A
1 A
7980908 AAGAAAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (28 bp):
ATTAATAATAAATCATAAAAAAGAGATG
Found at i:7993119 original size:25 final size:27
Alignment explanation
Indices: 7993077--7993126 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
7993067 CTTCACTTCA
7993077 ATTTTGCTTTTGGTTTTTTGTTATGGT
1 ATTTTGCTTTTGGTTTTTTGTTATGGT
*
7993104 ATTTTG-TTTT-GTTTTTTTTTATG
1 ATTTTGCTTTTGGTTTTTTGTTATG
7993127 TTGTTTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 4 0.18
27 6 0.27
ACGTcount: A:0.08, C:0.02, G:0.18, T:0.72
Consensus pattern (27 bp):
ATTTTGCTTTTGGTTTTTTGTTATGGT
Found at i:8001653 original size:14 final size:15
Alignment explanation
Indices: 8001582--8001674 Score: 64
Period size: 14 Copynumber: 6.8 Consensus size: 15
8001572 TAATTTATAA
8001582 TTAATTAA-AATATT
1 TTAATTAATAATATT
* *
8001596 AATAATTTATAAT-TT
1 -TTAATTAATAATATT
8001611 TTAA-T-ATCAATATT
1 TTAATTAAT-AATATT
8001625 TTAA-T-AT-A-A-T
1 TTAATTAATAATATT
*
8001635 TTAATTATTAA-ATT
1 TTAATTAATAATATT
8001649 TTAATTAATAATATT
1 TTAATTAATAATATT
8001664 TT-ATTAATAAT
1 TTAATTAATAAT
8001675 TTAATATTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
10 5 0.08
11 2 0.03
12 4 0.06
13 6 0.09
14 32 0.49
15 13 0.20
16 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTAATAATATT
Found at i:8001674 original size:21 final size:21
Alignment explanation
Indices: 8001650--8001713 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 21
8001640 TATTAAATTT
8001650 TAATTAATAATATTTTATTAA
1 TAATTAATAATATTTTATTAA
* *
8001671 TAATTTAATATTTATGGTTATTAA
1 TAA-TTAATA-ATAT-TTTATTAA
*
8001695 AATATTAATAAT-TTTTATT
1 TA-ATTAATAATATTTTATT
8001714 TTTTATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 8 0.24
22 7 0.21
23 4 0.12
24 14 0.41
25 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TAATTAATAATATTTTATTAA
Found at i:8001742 original size:8 final size:8
Alignment explanation
Indices: 8001731--8001850 Score: 59
Period size: 8 Copynumber: 14.5 Consensus size: 8
8001721 TATTAAAAAT
8001731 TTAATATA
1 TTAATATA
8001739 TTAATGAT-
1 TTAAT-ATA
*
8001747 TTAATAAA
1 TTAATATA
* *
8001755 TCAA-ACA
1 TTAATATA
8001762 TTAATAGT-
1 TTAATA-TA
*
8001770 TTAAAATA
1 TTAATATA
*
8001778 TTTAATATT
1 -TTAATATA
*
8001787 TTAATATT
1 TTAATATA
8001795 TTAATTATA
1 TTAA-TATA
8001804 TTAATATTA
1 TTAATA-TA
* *
8001813 ATAATGT-
1 TTAATATA
8001820 TTAAATTATA
1 TT-AA-TATA
8001830 TATAATATA
1 T-TAATATA
*
8001839 TTAATATT
1 TTAATATA
8001847 TTAA
1 TTAA
8001851 ATTTTACAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 24
0.69 0.11 0.19
Matches are distributed among these distances:
7 8 0.09
8 46 0.53
9 28 0.33
10 3 0.03
11 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (8 bp):
TTAATATA
Found at i:8001781 original size:48 final size:49
Alignment explanation
Indices: 8001723--8001847 Score: 132
Period size: 48 Copynumber: 2.5 Consensus size: 49
8001713 TTTTTATTTA
8001723 TTAAAA-ATTTAATATATTAATGATTTAA-TAAATCAAACATTAAT-A-GT
1 TTAAAATATTTAATATATTAAT-ATTTAATTAAAT-AAACATTAATAATGT
* * * *
8001770 TTAAAATATTTAATATTTTAATATTTTAATTATATTAATATTAATAATGT
1 TTAAAATATTTAATATATTAATA-TTTAATTAAATAAACATTAATAATGT
*
8001820 TTAAATTATATATAATATATTAATATTT
1 TTAAA--ATATTTAATATATTAATATTT
8001848 TAAATTTTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
47 7 0.11
48 27 0.42
49 5 0.08
50 7 0.11
51 3 0.05
52 16 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (49 bp):
TTAAAATATTTAATATATTAATATTTAATTAAATAAACATTAATAATGT
Found at i:8001807 original size:17 final size:16
Alignment explanation
Indices: 8001619--8001850 Score: 68
Period size: 16 Copynumber: 14.1 Consensus size: 16
8001609 TTTTAATATC
*
8001619 AATATTTTAATATAATTT
1 AATATATTAATAT--TTT
8001637 AAT-TATTAA-ATTTT
1 AATATATTAATATTTT
*
8001651 AAT-TAATAATATTTT
1 AATATATTAATATTTT
*
8001666 ATTAATAATTTAATATTTAT
1 AAT-AT-A-TTAATATTT-T
** * *
8001686 GGT-TATTAAAATATT
1 AATATATTAATATTTT
**
8001701 AATA-ATTTTTATTTTT
1 AATATATTAATA-TTTT
* * * *
8001717 TATTTATTAAAAATTT
1 AATATATTAATATTTT
8001733 AATATATTAATGA-TTT
1 AATATATTAAT-ATTTT
* * **
8001749 AATAAATCAA-ACATT
1 AATATATTAATATTTT
*
8001764 AATAGT-TTAAAATATTT
1 AATA-TATTAATAT-TTT
*
8001781 AATATTTTAATATTTT
1 AATATATTAATATTTT
*
8001797 AATTATATTAATATTAAT
1 AA-TATATTAATATT-TT
* *
8001815 AATGT-TTAAATTATATAT
1 AATATATT-AA-TAT-TTT
8001833 AATATATTAATATTTT
1 AATATATTAATATTTT
8001849 AA
1 AA
8001851 ATTTTACAAA
Statistics
Matches: 157, Mismatches: 36, Indels: 44
0.66 0.15 0.19
Matches are distributed among these distances:
14 12 0.08
15 22 0.14
16 49 0.31
17 42 0.27
18 19 0.12
19 11 0.07
20 2 0.01
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (16 bp):
AATATATTAATATTTT
Found at i:8001854 original size:7 final size:8
Alignment explanation
Indices: 8001762--8001856 Score: 66
Period size: 8 Copynumber: 11.4 Consensus size: 8
8001752 AAATCAAACA
*
8001762 TTAATAGT
1 TTAATATT
*
8001770 TTAAAATAT
1 TTAATAT-T
8001779 TTAATATT
1 TTAATATT
8001787 TTAATATT
1 TTAATATT
*
8001795 TTAATTATA
1 TTAA-TATT
8001804 TTAATATT
1 TTAATATT
* *
8001812 AATAATGTT
1 -TTAATATT
*
8001821 TAAATTATAT
1 TTAA-TAT-T
* *
8001831 ATAATATA
1 TTAATATT
8001839 TTAATATT
1 TTAATATT
8001847 TTAA-ATT
1 TTAATATT
8001854 TTA
1 TTA
8001857 CAAATAATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
7 6 0.09
8 33 0.49
9 25 0.37
10 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (8 bp):
TTAATATT
Found at i:8003046 original size:15 final size:16
Alignment explanation
Indices: 8003014--8003047 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8003004 TAGTATGTGG
8003014 ATTTTATTTTTTATAA
1 ATTTTATTTTTTATAA
8003030 ATTTTATTTTTTA-AA
1 ATTTTATTTTTTATAA
8003045 ATT
1 ATT
8003048 GATAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTATTTTTTATAA
Found at i:8014528 original size:44 final size:44
Alignment explanation
Indices: 8014478--8014568 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
8014468 ATTAGTTTTG
* *
8014478 ACATTTTTTTTCTTCTAGCATTTAGTGATATTTAATAAACTTCA
1 ACATTTTTTTCCTTCTAGCATTTAGTGATACTTAATAAACTTCA
* * * *
8014522 ACATTTTTTTCCTTTTAGCATTTAGTGATGCTTGATAAAGTTCA
1 ACATTTTTTTCCTTCTAGCATTTAGTGATACTTAATAAACTTCA
8014566 ACA
1 ACA
8014569 AGATGTTTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (44 bp):
ACATTTTTTTCCTTCTAGCATTTAGTGATACTTAATAAACTTCA
Found at i:8014752 original size:29 final size:29
Alignment explanation
Indices: 8014720--8014801 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
8014710 ATATTCGTTA
*
8014720 ACTTCTAATGGGTTAAAAAGTAT-ATGTCC
1 ACTTCTAATGGGTCAAAAAGTATCA-GTCC
* *
8014749 ACTTTTAGTGGGTCAAAAAGTATCAGTCC
1 ACTTCTAATGGGTCAAAAAGTATCAGTCC
* ** *
8014778 ACTTTTGGTGGATCAAAAAGTATC
1 ACTTCTAATGGGTCAAAAAGTATC
8014802 CATTCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 46 0.98
30 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (29 bp):
ACTTCTAATGGGTCAAAAAGTATCAGTCC
Found at i:8014829 original size:28 final size:28
Alignment explanation
Indices: 8014748--8014912 Score: 188
Period size: 28 Copynumber: 5.8 Consensus size: 28
8014738 AGTATATGTC
* *
8014748 CACTTTTAGTGGGTCAAAAAGTAT-CAGTC
1 CACTTTTAGTGGGTC-AAAATTATCCA-TT
* * *
8014777 CACTTTTGGTGGATCAAAAAGTATCCATT
1 CACTTTTAGTGGGTC-AAAATTATCCATT
* * *
8014806 CATTTTTTGTGGGTCAAAATTATCTATT
1 CACTTTTAGTGGGTCAAAATTATCCATT
*
8014834 CACTTTTGGTGGGTCAAAATTATCCATT
1 CACTTTTAGTGGGTCAAAATTATCCATT
* *
8014862 GACTTTTAGTGGGTTAAAATTATCCATT
1 CACTTTTAGTGGGTCAAAATTATCCATT
*
8014890 CACTTTTAGTGGGTTAAAATTAT
1 CACTTTTAGTGGGTCAAAATTAT
8014913 TCTTATAATT
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
28 83 0.69
29 35 0.29
30 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (28 bp):
CACTTTTAGTGGGTCAAAATTATCCATT
Found at i:8016220 original size:23 final size:23
Alignment explanation
Indices: 8016194--8016240 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
8016184 GTTATGAAAT
8016194 ATAACTT-AAAGAAACAAATAAAG
1 ATAACTTGAAAG-AACAAATAAAG
*
8016217 ATAACTTGAAAGAACAACTAAAG
1 ATAACTTGAAAGAACAAATAAAG
8016240 A
1 A
8016241 AAGAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (23 bp):
ATAACTTGAAAGAACAAATAAAG
Found at i:8016251 original size:9 final size:9
Alignment explanation
Indices: 8016237--8016264 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8016227 AGAACAACTA
8016237 AAGAAAGAG
1 AAGAAAGAG
8016246 AAGAAAGAG
1 AAGAAAGAG
8016255 AAGAAAGAG
1 AAGAAAGAG
8016264 A
1 A
8016265 CTAACTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AAGAAAGAG
Found at i:8016578 original size:15 final size:16
Alignment explanation
Indices: 8016546--8016581 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8016536 ATGCCTCGTT
*
8016546 AAAACCTTACAAGAAA
1 AAAACCTCACAAGAAA
*
8016562 AAAACCTCATAAGAAA
1 AAAACCTCACAAGAAA
8016578 AAAA
1 AAAA
8016582 TTGAGTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.17, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAACCTCACAAGAAA
Found at i:8019592 original size:43 final size:42
Alignment explanation
Indices: 8019474--8019653 Score: 189
Period size: 43 Copynumber: 4.2 Consensus size: 42
8019464 GGCACTGACN
* *
8019474 CGATGATGACCCGGCTATGTGCGAGTGGGACTGTGCATAAGC
1 CGATGATGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGC
* * *
8019516 CGATGACCGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGT
1 CGATGA-TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGC
** *
8019559 CGATGATTGACCCGGCTATGTGCGAGTATGAGTGCACATAAGC
1 CGATGA-TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGC
* ** * * * *
8019602 CAATGATGACCCAACCATGTGCTAGTGGGGAGTGCACATGAGC
1 CGATGATGACCCGGCTATGTGCGAGT-GGGAGTGCGCATAAGC
*
8019645 TGATGATGA
1 CGATGATGA
8019654 TGAGAGAGTG
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 22 0.19
43 92 0.81
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (42 bp):
CGATGATGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGC
Found at i:8019633 original size:86 final size:85
Alignment explanation
Indices: 8019474--8019653 Score: 211
Period size: 86 Copynumber: 2.1 Consensus size: 85
8019464 GGCACTGACN
* ** * * *
8019474 CGATGATGACCCGGCTATGTGCGAGTGGGACTGTGCATAAGCCGATGACCGACCCAGCTATGTGC
1 CGATGATGACCCGGCTATGTGCGAGTAGGACTGCACATAAGCCAATGACCGACCCAACCATGTGC
8019539 GAGTGGGAGTGCGCATAAGT
66 GAGTGGGAGTGCGCATAAGT
* * *
8019559 CGATGATTGACCCGGCTATGTGCGAGTATGAGTGCACATAAGCCAATGA-TGACCCAACCATGTG
1 CGATGA-TGACCCGGCTATGTGCGAGTAGGACTGCACATAAGCCAATGACCGACCCAACCATGTG
* * *
8019623 CTAGTGGGGAGTGCACATGAG-
65 CGAGT-GGGAGTGCGCATAAGT
8019644 CTGATGATGA
1 C-GATGATGA
8019654 TGAGAGAGTG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
85 26 0.32
86 54 0.68
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (85 bp):
CGATGATGACCCGGCTATGTGCGAGTAGGACTGCACATAAGCCAATGACCGACCCAACCATGTGC
GAGTGGGAGTGCGCATAAGT
Found at i:8023386 original size:28 final size:29
Alignment explanation
Indices: 8023345--8023404 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
8023335 GTCTATGGGC
* *
8023345 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
8023373 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
8023403 AA
1 AA
8023405 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:8026296 original size:30 final size:31
Alignment explanation
Indices: 8026260--8026346 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 31
8026250 CACATAAAAA
* *
8026260 TTCTTAATAGA-CATTCTAAAACATATCAAC
1 TTCTTAATAGAGCATACTAAAACATACCAAC
* *
8026290 TTCTTAATAGAGTTATACTAAAACATACCAAG
1 TTCTTAATAGAG-CATACTAAAACATACCAAC
* *
8026322 TTCCTAATAGAGTTATACTAAAACA
1 TTCTTAATAGAG-CATACTAAAACA
8026347 CATCAACAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
30 11 0.22
32 39 0.78
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (31 bp):
TTCTTAATAGAGCATACTAAAACATACCAAC
Found at i:8026316 original size:32 final size:32
Alignment explanation
Indices: 8026275--8026353 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
8026265 AATAGACATT
*
8026275 CTAAAACATATCAACTTCTTAATAGAGTTATA
1 CTAAAACATATCAACTTCCTAATAGAGTTATA
* *
8026307 CTAAAACATACCAAGTTCCTAATAGAGTTATA
1 CTAAAACATATCAACTTCCTAATAGAGTTATA
*
8026339 CTAAAACACATCAAC
1 CTAAAACATATCAAC
8026354 AAACAATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (32 bp):
CTAAAACATATCAACTTCCTAATAGAGTTATA
Found at i:8033819 original size:2 final size:2
Alignment explanation
Indices: 8033814--8033842 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8033804 ATATATATAT
8033814 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8033843 AAATTGTGAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8036320 original size:31 final size:31
Alignment explanation
Indices: 8036285--8036386 Score: 150
Period size: 31 Copynumber: 3.3 Consensus size: 31
8036275 CATTTTGATG
*
8036285 ATGTGGCACCGATGTGATGACGTGGCATGCC
1 ATGTGGCACCGACGTGATGACGTGGCATGCC
8036316 ATGTGGCACCGACGTGATGACGTGGCATGCC
1 ATGTGGCACCGACGTGATGACGTGGCATGCC
* * * *
8036347 ATATGGCATCGACGTGATGATGTGGCATGCT
1 ATGTGGCACCGACGTGATGACGTGGCATGCC
*
8036378 ACGTGGCAC
1 ATGTGGCAC
8036387 TACAATGATG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (31 bp):
ATGTGGCACCGACGTGATGACGTGGCATGCC
Found at i:8036396 original size:62 final size:62
Alignment explanation
Indices: 8036288--8036405 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
8036278 TTTGATGATG
* * * *
8036288 TGGCACCGATGTGATGACGTGGCATGCCATGTGGCACCGACGTGATGACGTGGCATGCCATA
1 TGGCACCGACGTGATGACGTGGCATGCCACGTGGCACCGACATGATGACATGGCATGCCATA
* * * *
8036350 TGGCATCGACGTGATGATGTGGCATGCTACGTGGCA-CTACAATGATGACATGGCAT
1 TGGCACCGACGTGATGACGTGGCATGCCACGTGGCACCGAC-ATGATGACATGGCAT
8036406 TGACATGTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 3 0.06
62 44 0.94
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (62 bp):
TGGCACCGACGTGATGACGTGGCATGCCACGTGGCACCGACATGATGACATGGCATGCCATA
Found at i:8037772 original size:31 final size:31
Alignment explanation
Indices: 8037734--8037814 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
8037724 CTACTTAAAT
* *
8037734 ATTTTGTTCAATTTAGTCTCTCA-A-TATCTCA
1 ATTTTGTTCAATTTAGTCCCT-ATACTATAT-A
8037765 ATTTTGTTCAATTTAGTCCCTATACTATATA
1 ATTTTGTTCAATTTAGTCCCTATACTATATA
*
8037796 TTTTTGTTCAATTTAGTCC
1 ATTTTGTTCAATTTAGTCC
8037815 TTATGATGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 1 0.02
31 40 0.89
32 4 0.09
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (31 bp):
ATTTTGTTCAATTTAGTCCCTATACTATATA
Found at i:8038206 original size:14 final size:13
Alignment explanation
Indices: 8038178--8038203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8038168 TAAATTCTCT
8038178 TTTTATAAAAAAA
1 TTTTATAAAAAAA
8038191 TTTTATAAAAAAA
1 TTTTATAAAAAAA
8038204 ATTCCAATAT
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):
TTTTATAAAAAAA
Found at i:8039296 original size:19 final size:21
Alignment explanation
Indices: 8039269--8039307 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8039259 AACTATTATT
8039269 ACTTAATA-T-TTTTTAATAG
1 ACTTAATATTATTTTTAATAG
*
8039288 ACTTGATATTATTTTTAATA
1 ACTTAATATTATTTTTAATA
8039308 AGATTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 1 0.06
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
ACTTAATATTATTTTTAATAG
Found at i:8039694 original size:23 final size:24
Alignment explanation
Indices: 8039658--8039705 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
8039648 ATGATATTTA
8039658 TAAAAATATCTTTATA-AAG-TAT
1 TAAAAATATCTTTATAGAAGATAT
*
8039680 TAAAAATTTCTTTTATAGAAGATAT
1 TAAAAATATC-TTTATAGAAGATAT
8039705 T
1 T
8039706 GAAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 6 0.27
24 3 0.14
25 4 0.18
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (24 bp):
TAAAAATATCTTTATAGAAGATAT
Found at i:8039718 original size:25 final size:24
Alignment explanation
Indices: 8039658--8039724 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
8039648 ATGATATTTA
*
8039658 TAAAAATATC-TTTATA-AAGTAT
1 TAAAAATTTCTTTTATAGAAGTAT
8039680 TAAAAATTTCTTTTATAGAAGATAT
1 TAAAAATTTCTTTTATAGAAG-TAT
* * *
8039705 T-GAAATTTTTTTTTTAGAAG
1 TAAAAATTTCTTTTATAGAAG
8039725 GGGAATTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.24
23 6 0.16
24 19 0.50
25 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (24 bp):
TAAAAATTTCTTTTATAGAAGTAT
Found at i:8053201 original size:26 final size:25
Alignment explanation
Indices: 8053172--8053223 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
8053162 GATTCGGTCC
*
8053172 TGCTCAAGGTTTAACACAACCACTTG
1 TGCTCAAAGTTTAACACAA-CACTTG
*
8053198 TGCTCAAAGTTTGACACAACACTTG
1 TGCTCAAAGTTTAACACAACACTTG
8053223 T
1 T
8053224 TGGTGGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (25 bp):
TGCTCAAAGTTTAACACAACACTTG
Found at i:8053666 original size:136 final size:136
Alignment explanation
Indices: 8053526--8053936 Score: 657
Period size: 136 Copynumber: 3.0 Consensus size: 136
8053516 TTGAAAGAAC
* *
8053526 AAAAAATATTTATTTTAAATTTATATGCCAGTGTATTAATGTTGTTATTCTATAGTATATGTATT
1 AAAAAATATTAATTTTAAATTTATATGCCTGTGTATTAATGTTGTTATTCTATAGTATATGTATT
* * * * *
8053591 TCTATGACCAATTAATTCCCGTTTTTGTTTTTAATTTCTTCTCATATAACATATAAATAATTAAT
66 TCTATGACCGATTATTTCCAGTTTTTGTTTTTAATTTCTTCTCATATAATATATAAATAAATAAT
8053656 ATGAAT
131 ATGAAT
* ** *
8053662 AAAAAACATTAATTTTAAATTTATATGCCTGTGCGTTAATGTTGTTATTCTATAGAATATGTATT
1 AAAAAATATTAATTTTAAATTTATATGCCTGTGTATTAATGTTGTTATTCTATAGTATATGTATT
8053727 TCTATGACCGATTATTTCCAGTTTTTGTTTTTAATTTCTTCTCATATAATATATAAATAAATAAT
66 TCTATGACCGATTATTTCCAGTTTTTGTTTTTAATTTCTTCTCATATAATATATAAATAAATAAT
8053792 ATGAAT
131 ATGAAT
*
8053798 AAAAAATATTAACTTTAAATTTATATGCCTGTGTATTAATGTTGTTATTCTATAGTATATGTATT
1 AAAAAATATTAATTTTAAATTTATATGCCTGTGTATTAATGTTGTTATTCTATAGTATATGTATT
* **
8053863 TCTCTGAAGGATTATTTCCAG--TTT-TTTTTAATTTCTTCTCATATAATATATAAATAAATAAT
66 TCTATGACCGATTATTTCCAGTTTTTGTTTTTAATTTCTTCTCATATAATATATAAATAAATAAT
*
8053925 ATGAAA
131 ATGAAT
8053931 AAAAAA
1 AAAAAA
8053937 ATCAAACCGT
Statistics
Matches: 255, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
133 49 0.19
134 3 0.01
136 203 0.80
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (136 bp):
AAAAAATATTAATTTTAAATTTATATGCCTGTGTATTAATGTTGTTATTCTATAGTATATGTATT
TCTATGACCGATTATTTCCAGTTTTTGTTTTTAATTTCTTCTCATATAATATATAAATAAATAAT
ATGAAT
Found at i:8057501 original size:17 final size:17
Alignment explanation
Indices: 8057479--8057532 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 17
8057469 TTTTTTTCAT
8057479 ATATTTCTAGCACATTA
1 ATATTTCTAGCACATTA
8057496 ATA-TT-TAGCATCA-T-
1 ATATTTCTAGCA-CATTA
8057510 ATATTTCTAGCACATTA
1 ATATTTCTAGCACATTA
8057527 ATATTT
1 ATATTT
8057533 AGCAAGGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
16 10 0.31
17 9 0.28
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATTTCTAGCACATTA
Found at i:8057513 original size:31 final size:31
Alignment explanation
Indices: 8057475--8057536 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8057465 ACCTTTTTTT
8057475 TCATATATTTCTAGCACATTAATATTTAGCA
1 TCATATATTTCTAGCACATTAATATTTAGCA
8057506 TCATATATTTCTAGCACATTAATATTTAGCA
1 TCATATATTTCTAGCACATTAATATTTAGCA
8057537 AGGTTAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (31 bp):
TCATATATTTCTAGCACATTAATATTTAGCA
Found at i:8058762 original size:37 final size:38
Alignment explanation
Indices: 8058721--8058792 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
8058711 GAATTTTTCA
* * * *
8058721 TTGAAAATTACCAATGAA-TTTTCAATGAAATTTTCTG
1 TTGAAAATTAACAACGAAGTTTCCAACGAAATTTTCTG
*
8058758 TTGAAATTTAACAACGAAGTTTCCAACGAAATTTT
1 TTGAAAATTAACAACGAAGTTTCCAACGAAATTTT
8058793 TCATTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.52
38 14 0.48
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (38 bp):
TTGAAAATTAACAACGAAGTTTCCAACGAAATTTTCTG
Found at i:8059437 original size:6 final size:6
Alignment explanation
Indices: 8059426--8059464 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
8059416 TAGAGCAGAG
8059426 CAATCA CAATCA CAATCA CAATCA CAATCCA CAATCA CA
1 CAATCA CAATCA CAATCA CAATCA CAAT-CA CAATCA CA
8059465 CACAAACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (6 bp):
CAATCA
Found at i:8060381 original size:17 final size:18
Alignment explanation
Indices: 8060359--8060402 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
8060349 AAGTTTATTC
8060359 TTAATATCATATAT-TAA
1 TTAATATCATATATATAA
*
8060376 TTAATATTA-ATATATAA
1 TTAATATCATATATATAA
*
8060393 TTTATATCAT
1 TTAATATCAT
8060403 TTAAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATATCATATATATAA
Found at i:8071627 original size:21 final size:23
Alignment explanation
Indices: 8071598--8071647 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 23
8071588 AATATCATTT
*
8071598 ATTATAATATTTA-ATTTTAA-A
1 ATTAAAATATTTATATTTTAATA
8071619 ATTAAAATATTTATTATTTTAATA
1 ATTAAAATATTTA-TATTTTAATA
8071643 ATTAA
1 ATTAA
8071648 TTGAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
23 7 0.28
24 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAAAATATTTATATTTTAATA
Found at i:8071673 original size:36 final size:36
Alignment explanation
Indices: 8071596--8071673 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
8071586 AAAATATCAT
* * ** *
8071596 TTATTATAATATTTAATTTTAAAATTAAAATATTTA
1 TTATTTTAATAATTAATTGAAAAATTAAAATAATTA
8071632 TTATTTTAATAATTAATTGAAAATATTAAAA-AATTA
1 TTATTTTAATAATTAATTGAAAA-ATTAAAATAATTA
8071668 TTATTT
1 TTATTT
8071674 AAATGTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 29 0.81
37 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
TTATTTTAATAATTAATTGAAAAATTAAAATAATTA
Found at i:8071720 original size:27 final size:25
Alignment explanation
Indices: 8071690--8071749 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
8071680 CAATATGATT
*
8071690 ATTTATTTTAATTTAAAAATATTAATA
1 ATTTATTTCAA-TT-AAAATATTAATA
*
8071717 ATTTAAATTTCAATTAAAATGTTAATA
1 ATTT--ATTTCAATTAAAATATTAATA
8071744 ATTTAT
1 ATTTAT
8071750 AATTAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 2 0.07
27 19 0.66
28 2 0.07
29 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTATTTCAATTAAAATATTAATA
Found at i:8072046 original size:25 final size:26
Alignment explanation
Indices: 8072015--8072118 Score: 115
Period size: 25 Copynumber: 4.1 Consensus size: 26
8072005 AATTTTAATT
*
8072015 ATAATTTTACCACCAAAAGTGGAT-A
1 ATAATTTTACCACCAGAAGTGGATGA
* * ** * *
8072040 ATAATTTTACTATCAGAA-TCTAAGG
1 ATAATTTTACCACCAGAAGTGGATGA
*
8072065 ATAATTTTATCACCAGAAGTGGATGA
1 ATAATTTTACCACCAGAAGTGGATGA
8072091 ATAA-TTTACCACCAGAAGTGGATGA
1 ATAATTTTACCACCAGAAGTGGATGA
8072116 ATA
1 ATA
8072119 TCGTAACCTA
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
24 2 0.03
25 53 0.85
26 7 0.11
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (26 bp):
ATAATTTTACCACCAGAAGTGGATGA
Done.