Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 9 of 295
Found at i:2790409 original size:17 final size:17
Alignment explanation
Indices: 2790376--2790410 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2790366 TAACCAATTC
* *
2790376 AATTAAAAATTATTAAA
1 AATTAAAAATAAATAAA
2790393 AATTAAAAATAAATAAA
1 AATTAAAAATAAATAAA
2790410 A
1 A
2790411 TAAATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTAAAAATAAATAAA
Found at i:2793763 original size:157 final size:157
Alignment explanation
Indices: 2793477--2793789 Score: 617
Period size: 157 Copynumber: 2.0 Consensus size: 157
2793467 TTTTGAAATA
*
2793477 CAAAAGTATAACTTGCAAGTAACCCAAAGAATACCATTCTTGATCCATTCAACTTGAAAAGTTCA
1 CAAAAGTATAACTTGCAAGTAACCCAAAGAATACCATTCTTGATCCATTCAACTTGAAAAGTACA
2793542 GCAGGGGTGCCTAAAAAGATACATCATAATCCCTAACACATCAAAAAAATATCAAAACAAATATA
66 GCAGGGGTGCCTAAAAAGATACATCATAATCCCTAACACATCAAAAAAATATCAAAACAAATATA
2793607 TGCTATGTGAAGGAGAGGCCACATATT
131 TGCTATGTGAAGGAGAGGCCACATATT
2793634 CAAAAGTATAACTTGCAAGTAACCCAAAGAATACCATTCTTGATCCATTCAACTTGAAAAGTACA
1 CAAAAGTATAACTTGCAAGTAACCCAAAGAATACCATTCTTGATCCATTCAACTTGAAAAGTACA
2793699 GCAGGGGTGCCTAAAAAGATACATCATAATCCCTAACACATCAAAAAAATATCAAAACAAATATA
66 GCAGGGGTGCCTAAAAAGATACATCATAATCCCTAACACATCAAAAAAATATCAAAACAAATATA
2793764 TGCTATGTGAAGGAGAGGCCACATAT
131 TGCTATGTGAAGGAGAGGCCACATAT
2793790 GACAATTATT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (157 bp):
CAAAAGTATAACTTGCAAGTAACCCAAAGAATACCATTCTTGATCCATTCAACTTGAAAAGTACA
GCAGGGGTGCCTAAAAAGATACATCATAATCCCTAACACATCAAAAAAATATCAAAACAAATATA
TGCTATGTGAAGGAGAGGCCACATATT
Found at i:2804464 original size:20 final size:20
Alignment explanation
Indices: 2804439--2804478 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2804429 TATTGGAGAA
2804439 AGGGAGAAAAATAAACAGAG
1 AGGGAGAAAAATAAACAGAG
2804459 AGGGAGAAAAATAAACAGAG
1 AGGGAGAAAAATAAACAGAG
2804479 GAAGAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.30, T:0.05
Consensus pattern (20 bp):
AGGGAGAAAAATAAACAGAG
Found at i:2804485 original size:20 final size:20
Alignment explanation
Indices: 2804442--2804487 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
2804432 TGGAGAAAGG
*
2804442 GAGAAAAATAAACAGAGAGG
1 GAGAAAAATAAACAGAGAGA
2804462 GAGAAAAATAAACAGAG-GAA
1 GAGAAAAATAAACAGAGAG-A
2804482 GAGAAA
1 GAGAAA
2804488 TAACCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.63, C:0.04, G:0.28, T:0.04
Consensus pattern (20 bp):
GAGAAAAATAAACAGAGAGA
Found at i:2804488 original size:18 final size:19
Alignment explanation
Indices: 2804443--2804490 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
2804433 GGAGAAAGGG
*
2804443 AGAAAAATAAACAGAGAGGG
1 AGAAAAATAAACA-AGAGGA
2804463 AGAAAAATAAAC-AGAGGA
1 AGAAAAATAAACAAGAGGA
*
2804481 AGAGAAATAA
1 AGAAAAATAA
2804491 CCAAAAACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 14 0.54
20 12 0.46
ACGTcount: A:0.65, C:0.04, G:0.25, T:0.06
Consensus pattern (19 bp):
AGAAAAATAAACAAGAGGA
Found at i:2806245 original size:24 final size:24
Alignment explanation
Indices: 2806181--2806249 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
2806171 ATTATTATTG
2806181 TTAAATTATATTTAATAATAATTTTA
1 TTAAATTATATTT-A-AATAATTTTA
* **
2806207 TTAAAATATGA-TTAAATTTTTTTA
1 TTAAATTAT-ATTTAAATAATTTTA
2806231 TTAAATTATATTT-AATAAT
1 TTAAATTATATTTAAATAAT
2806250 AATCCTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.14
24 18 0.51
25 1 0.03
26 10 0.29
27 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
TTAAATTATATTTAAATAATTTTA
Found at i:2806738 original size:10 final size:10
Alignment explanation
Indices: 2806699--2806767 Score: 56
Period size: 10 Copynumber: 7.2 Consensus size: 10
2806689 TATCGATTCT
2806699 AAAA-ATTAA
1 AAAATATTAA
*
2806708 AAAA-ATGAA
1 AAAATATTAA
*
2806717 AAATTATT--
1 AAAATATTAA
*
2806725 AAAATCTTAA
1 AAAATATTAA
* *
2806735 AAAAAACATAA
1 AAAATA-TTAA
2806746 AAAATATTAA
1 AAAATATTAA
2806756 AAAATATTAA
1 AAAATATTAA
2806766 AA
1 AA
2806768 TTTAAAAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
8 6 0.13
9 11 0.24
10 21 0.46
11 8 0.17
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (10 bp):
AAAATATTAA
Found at i:2806767 original size:18 final size:18
Alignment explanation
Indices: 2806715--2806780 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
2806705 TAAAAAAATG
2806715 AAAAAT-TATTAAAATCTT
1 AAAAATATATTAAAAT-TT
* * *
2806733 AAAAAAAACATAAAAAATATT
1 -AAAAATATAT-TAAAAT-TT
2806754 AAAAA-ATATTAAAATTT
1 AAAAATATATTAAAATTT
2806771 AAAAATATAT
1 AAAAATATAT
2806781 ATATATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
17 7 0.18
18 9 0.24
19 8 0.21
20 7 0.18
21 7 0.18
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATATATTAAAATTT
Found at i:2808787 original size:15 final size:15
Alignment explanation
Indices: 2808764--2808812 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
2808754 GGTTAAACGG
*
2808764 TTATGATTTTTTATA
1 TTATTATTTTTTATA
2808779 TTATTATTTTTTATGA
1 TTATTATTTTTTAT-A
2808795 TT-TT-TTTATTTA-A
1 TTATTATTT-TTTATA
2808808 TTATT
1 TTATT
2808813 TTTGAACTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 19 0.63
16 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (15 bp):
TTATTATTTTTTATA
Found at i:2808798 original size:25 final size:26
Alignment explanation
Indices: 2808764--2808815 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
2808754 GGTTAAACGG
2808764 TTATGA-TTTTTTATATT-ATTATTTT
1 TTATGATTTTTTTAT-TTAATTATTTT
2808789 TTATGATTTTTTTATTTAATTATTTT
1 TTATGATTTTTTTATTTAATTATTTT
2808815 T
1 T
2808816 GAACTGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (26 bp):
TTATGATTTTTTTATTTAATTATTTT
Found at i:2808810 original size:26 final size:25
Alignment explanation
Indices: 2808764--2808815 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 25
2808754 GGTTAAACGG
2808764 TTATGATTTTTTATATTATTATTTT
1 TTATGATTTTTTATATTATTATTTT
2808789 TTATGATTTTTT-TATTTAATTATTTT
1 TTATGATTTTTTATA-TT-ATTATTTT
2808815 T
1 T
2808816 GAACTGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 2 0.08
25 14 0.56
26 9 0.36
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (25 bp):
TTATGATTTTTTATATTATTATTTT
Found at i:2813394 original size:94 final size:94
Alignment explanation
Indices: 2813290--2813473 Score: 296
Period size: 94 Copynumber: 2.0 Consensus size: 94
2813280 TAATTGAGAA
* * *
2813290 AAAAAAGTACCTGCTGCAAGAATGGTATCACCAACTCTAGAATTTCAAAAACAAAAAGGGAAGCG
1 AAAAAAGTACCTACTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAGGGAAGCA
2813355 CACAGAGGCAATGAAAGAGGAAGCATGAG
66 CACAGAGGCAATGAAAGAGGAAGCATGAG
* ** *
2813384 AAAAAGGTACCTACTGCAAGAATGGTATTGCCAGCTCTAGAACTTCAAAAACAAAAAGGGAAGCA
1 AAAAAAGTACCTACTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAGGGAAGCA
*
2813449 CGCAGAGGCAATGAAAGAGGAAGCA
66 CACAGAGGCAATGAAAGAGGAAGCA
2813474 CTCAGGCTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (94 bp):
AAAAAAGTACCTACTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAGGGAAGCA
CACAGAGGCAATGAAAGAGGAAGCATGAG
Found at i:2815604 original size:21 final size:22
Alignment explanation
Indices: 2815572--2815620 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
2815562 CCTCAAAAGT
2815572 AGATGTTTTTTTGTTGGCTTCA
1 AGATGTTTTTTTGTTGGCTTCA
2815594 AGATGTTTTTTTGTTGGCTTCA
1 AGATGTTTTTTTGTTGGCTTCA
2815616 A-ATGT
1 AGATGT
2815621 AGTTGAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.16, C:0.08, G:0.22, T:0.53
Consensus pattern (22 bp):
AGATGTTTTTTTGTTGGCTTCA
Found at i:2826131 original size:28 final size:28
Alignment explanation
Indices: 2826099--2826156 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
2826089 TAATGATTTG
2826099 CTTATTAATGAGATGCAACTCACAGAAT
1 CTTATTAATGAGATGCAACTCACAGAAT
*
2826127 CTTATTAATGTGATGCAACTCACAGAAT
1 CTTATTAATGAGATGCAACTCACAGAAT
2826155 CT
1 CT
2826157 CTAAAGATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (28 bp):
CTTATTAATGAGATGCAACTCACAGAAT
Found at i:2830205 original size:21 final size:21
Alignment explanation
Indices: 2830179--2830219 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2830169 ATCTGCTCAA
* *
2830179 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2830200 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2830220 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2835505 original size:28 final size:28
Alignment explanation
Indices: 2835465--2835522 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
2835455 TAATGATTTG
2835465 CTTATTAATGTGATGCAACTCACAGAAT
1 CTTATTAATGTGATGCAACTCACAGAAT
*
2835493 CTTATTATTGTGATGCAACTCACAGAAT
1 CTTATTAATGTGATGCAACTCACAGAAT
2835521 CT
1 CT
2835523 CTAAAGATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (28 bp):
CTTATTAATGTGATGCAACTCACAGAAT
Found at i:2838608 original size:28 final size:29
Alignment explanation
Indices: 2838579--2838640 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 29
2838569 TTGTAATCAC
2838579 ATTTGAAAGGAGACCTTTATTTATTTACATTT
1 ATTTGAAAGGAGACCTTTATTTATTTAC---T
2838611 GATTTGAAAGGAGACCTTTATTTATTTACT
1 -ATTTGAAAGGAGACCTTTATTTATTTACT
2838641 TATCATGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 1 0.03
33 28 0.97
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (29 bp):
ATTTGAAAGGAGACCTTTATTTATTTACT
Found at i:2839601 original size:117 final size:117
Alignment explanation
Indices: 2839395--2839635 Score: 473
Period size: 117 Copynumber: 2.1 Consensus size: 117
2839385 TGATAGCATG
*
2839395 CTTGCCTTGGCTCATATTTTTAACCTCTCCCTTCAATTAATTTTGAAAGATGTCAAAAGATATTA
1 CTTGCCTTGGCTCATATTTTCAACCTCTCCCTTCAATTAATTTTGAAAGATGTCAAAAGATATTA
2839460 AATCCTGTGGTTGGGATCAGTAACTGATTGAGAAGCTTTATAAGTATTTCCT
66 AATCCTGTGGTTGGGATCAGTAACTGATTGAGAAGCTTTATAAGTATTTCCT
2839512 CTTGCCTTGGCTCATATTTTCAACCTCTCCCTTCAATTAATTTTGAAAGATGTCAAAAGATATTA
1 CTTGCCTTGGCTCATATTTTCAACCTCTCCCTTCAATTAATTTTGAAAGATGTCAAAAGATATTA
2839577 AATCCTGTGGTTGGGATCAGTAACTGATTGAGAAGCTTTATAAGTATTTCCT
66 AATCCTGTGGTTGGGATCAGTAACTGATTGAGAAGCTTTATAAGTATTTCCT
2839629 CTTGCCT
1 CTTGCCT
2839636 AGCATGTAAT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 123 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (117 bp):
CTTGCCTTGGCTCATATTTTCAACCTCTCCCTTCAATTAATTTTGAAAGATGTCAAAAGATATTA
AATCCTGTGGTTGGGATCAGTAACTGATTGAGAAGCTTTATAAGTATTTCCT
Found at i:2852281 original size:33 final size:33
Alignment explanation
Indices: 2852243--2852306 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
2852233 TTGAGTGGGA
2852243 GTGTTTTGCTGCTGGACAGGAGCTGGAATGTGG
1 GTGTTTTGCTGCTGGACAGGAGCTGGAATGTGG
*
2852276 GTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GTGTTTTGCTGCTGGACAGGAGCTGGAATGT
2852307 CAAGAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.16, C:0.11, G:0.41, T:0.33
Consensus pattern (33 bp):
GTGTTTTGCTGCTGGACAGGAGCTGGAATGTGG
Found at i:2860130 original size:24 final size:24
Alignment explanation
Indices: 2860103--2860153 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2860093 ACTGAGCTAT
*
2860103 GATGTTTCGTACAAAAAATACGAA
1 GATGTTTCATACAAAAAATACGAA
* *
2860127 GATGTTTCATACAAGAAATGCGAA
1 GATGTTTCATACAAAAAATACGAA
2860151 GAT
1 GAT
2860154 TGCAAGCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (24 bp):
GATGTTTCATACAAAAAATACGAA
Found at i:2862334 original size:20 final size:20
Alignment explanation
Indices: 2862284--2862342 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 20
2862274 GAATTAAAAA
*
2862284 AAATCTTAATAAAA-ATATT
1 AAATTTTAATAAAATATATT
2862303 --ATTTTAATAAAATAT-TT
1 AAATTTTAATAAAATATATT
2862320 AAATTTTATATAAAATATATT
1 AAATTTTA-ATAAAATATATT
2862341 AA
1 AA
2862343 TTATATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 13 0.38
18 2 0.06
19 6 0.18
20 9 0.26
21 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTTTAATAAAATATATT
Found at i:2862344 original size:20 final size:19
Alignment explanation
Indices: 2862289--2862344 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
2862279 AAAAAAAATC
2862289 TTAATAAAA-ATATT-ATT
1 TTAATAAAATATATTAATT
2862306 TTAATAAAATAT-TTAAATT
1 TTAATAAAATATATT-AATT
2862325 TTATATAAAATATATTAATT
1 TTA-ATAAAATATATTAATT
2862345 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.32
18 2 0.06
19 6 0.18
20 13 0.38
21 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATAAAATATATTAATT
Found at i:2870362 original size:33 final size:30
Alignment explanation
Indices: 2870296--2870363 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 30
2870286 AAATGATATT
*
2870296 TTTTGATTAAATAAAAAAAGAAGAAGCTAG
1 TTTTGATTAAATAAAAAAAGAAGAAGATAG
*
2870326 TTTTGATTAAAGTAATGAAAGAGAAGAGAGAT-G
1 TTTTGATTAAA-TAA--AAAAAGAAGA-AGATAG
2870359 TTTTG
1 TTTTG
2870364 TGTTTTTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 11 0.34
31 3 0.09
33 15 0.47
34 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (30 bp):
TTTTGATTAAATAAAAAAAGAAGAAGATAG
Found at i:2871442 original size:16 final size:17
Alignment explanation
Indices: 2871423--2871457 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2871413 AAAACTACCT
2871423 ACCCAAATA-ACCCAAA
1 ACCCAAATAGACCCAAA
*
2871439 ACCCAATTAGACCCAAA
1 ACCCAAATAGACCCAAA
2871456 AC
1 AC
2871458 AAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.51, C:0.37, G:0.03, T:0.09
Consensus pattern (17 bp):
ACCCAAATAGACCCAAA
Found at i:2872542 original size:15 final size:15
Alignment explanation
Indices: 2872523--2872579 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
2872513 AATTAAATTA
2872523 ATTATTATTATTACT
1 ATTATTATTATTACT
*
2872538 GTTATCT-TTATTACT
1 ATTAT-TATTATTACT
* * *
2872553 ATTACTATTGTTATT
1 ATTATTATTATTACT
2872568 ATTA-TATTATTA
1 ATTATTATTATTA
2872580 TACTAACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 8 0.24
15 25 0.74
16 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (15 bp):
ATTATTATTATTACT
Found at i:2872675 original size:16 final size:17
Alignment explanation
Indices: 2872656--2872705 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
2872646 TATTTCTCAC
*
2872656 TTATATTATATGT-TAT
1 TTATATTATATGTACAT
*
2872672 TTAT-TTACATGTACAT
1 TTATATTATATGTACAT
*
2872688 TTATA-TATATATACAT
1 TTATATTATATGTACAT
2872704 TT
1 TT
2872706 GTATATATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (17 bp):
TTATATTATATGTACAT
Found at i:2872710 original size:16 final size:16
Alignment explanation
Indices: 2872683--2872713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2872673 TATTTACATG
2872683 TACATTTATATATATA
1 TACATTTATATATATA
*
2872699 TACATTTGTATATAT
1 TACATTTATATATAT
2872714 CGTTCCAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TACATTTATATATATA
Found at i:2872845 original size:3 final size:3
Alignment explanation
Indices: 2872837--2872985 Score: 79
Period size: 3 Copynumber: 48.7 Consensus size: 3
2872827 TATTTCTAAC
* *
2872837 TAT TAT TAT TTT TAT GTAT ATAT TAT TAT T-T ATAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * * * *
2872884 TAC TAT TACT AAA TAT TTT TAT TAT TAC TAT TAT TTT TGT TCCT T-T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* * * **
2872930 TAT TAT TGTT TAT TAT CAT TA- TAT TAT TAT TAT TAC TCC TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2872975 TAT TAT CAT TA
1 TAT TAT TAT TA
2872986 CTGCTTTTTT
Statistics
Matches: 110, Mismatches: 28, Indels: 16
0.71 0.18 0.10
Matches are distributed among these distances:
2 5 0.05
3 92 0.84
4 13 0.12
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2873056 original size:22 final size:20
Alignment explanation
Indices: 2873026--2873072 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
2873016 ACATATACGT
2873026 TATTGTTTATTATTATTACTA
1 TATT-TTTATTATTATTACTA
2873047 TATTTTT-TTATTATTACTA
1 TATTTTTATTATTATTACTA
2873066 TATTTTT
1 TATTTTT
2873073 GTATTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.73
20 3 0.12
21 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTTATTATTATTACTA
Found at i:2873059 original size:19 final size:19
Alignment explanation
Indices: 2873035--2873077 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2873025 TTATTGTTTA
2873035 TTATTATTACTATATTTTT
1 TTATTATTACTATATTTTT
2873054 TTATTATTACTATATTTTT
1 TTATTATTACTATATTTTT
*
2873073 GTATT
1 TTATT
2873078 CTTTCTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTATTACTATATTTTT
Found at i:2875838 original size:25 final size:25
Alignment explanation
Indices: 2875801--2875856 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2875791 GGATAAAAAA
* *
2875801 AATAAATTAACATACACACAATAGT
1 AATAAATTAACATACAAACAATAAT
* * *
2875826 AATAAGTTCACATCCAAACAATAAT
1 AATAAATTAACATACAAACAATAAT
2875851 AATAAA
1 AATAAA
2875857 AAATATGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.04, T:0.23
Consensus pattern (25 bp):
AATAAATTAACATACAAACAATAAT
Found at i:2876101 original size:20 final size:17
Alignment explanation
Indices: 2876058--2876103 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 17
2876048 AAGACAAATG
2876058 AATTAAAATAATATAAA
1 AATTAAAATAATATAAA
2876075 AA-T-AAATAATATAACA
1 AATTAAAATAATATAA-A
2876091 AGATTTAAAATAA
1 A-A-TTAAAATAA
2876104 ATGATAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 11 0.46
16 3 0.12
17 3 0.12
19 1 0.04
20 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
AATTAAAATAATATAAA
Found at i:2876168 original size:25 final size:25
Alignment explanation
Indices: 2876134--2876187 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
2876124 AAGTAAAAAA
2876134 AATACATAAAAAGTTTAAAATAAAT
1 AATACATAAAAAGTTTAAAATAAAT
* *
2876159 AATATATAAAAATTTTAAAATAAAT
1 AATACATAAAAAGTTTAAAATAAAT
2876184 AATA
1 AATA
2876188 AATGAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AATACATAAAAAGTTTAAAATAAAT
Found at i:2876559 original size:22 final size:21
Alignment explanation
Indices: 2876493--2876559 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
2876483 AAAGTAATAA
*
2876493 AATAAACAAGTTTAATACAAAT
1 AATAAATAAG-TTAATACAAAT
* * * *
2876515 AATATATGAGATATTA-AAA-
1 AATAAATAAGTTAATACAAAT
2876534 AATAAATAAGCTTAATACAAAT
1 AATAAATAAG-TTAATACAAAT
2876556 AATA
1 AATA
2876560 TATGTAAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 7 0.21
22 11 0.33
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (21 bp):
AATAAATAAGTTAATACAAAT
Found at i:2879183 original size:17 final size:17
Alignment explanation
Indices: 2879158--2879192 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2879148 TAACTACATG
*
2879158 ATATATAAAAATTTTAA
1 ATATATAAAAACTTTAA
*
2879175 ATATGTAAAAACTTTAA
1 ATATATAAAAACTTTAA
2879192 A
1 A
2879193 ATACATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
ATATATAAAAACTTTAA
Found at i:2880898 original size:6 final size:6
Alignment explanation
Indices: 2880887--2880923 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
2880877 TATGTGCTGT
2880887 TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG T
1 TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG T
2880924 TTGAAGTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (6 bp):
TGTGGG
Found at i:2881761 original size:18 final size:20
Alignment explanation
Indices: 2881729--2881773 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
2881719 AAAAATTAAT
*
2881729 ATTTTATTTATATTTT-T-TA
1 ATTTT-TTTAGATTTTATATA
2881748 ATTTTTTTAGATTTTATATA
1 ATTTTTTTAGATTTTATATA
2881768 ATTTTT
1 ATTTTT
2881774 AAAATTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
20 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTTTTTAGATTTTATATA
Found at i:2882097 original size:20 final size:21
Alignment explanation
Indices: 2882069--2882112 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2882059 AAGCCTATGG
2882069 AAATATATA-AAAATATTATAA
1 AAATATATATAAAAT-TTATAA
*
2882090 AAAT-TATATGAAATTTATAA
1 AAATATATATAAAATTTATAA
2882110 AAA
1 AAA
2882113 AAATCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATATATAAAATTTATAA
Found at i:2887312 original size:25 final size:25
Alignment explanation
Indices: 2887263--2887315 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
2887253 AGATAAAATA
2887263 TTTAAATTATATTTATTTAACTTAAT
1 TTTAAATTATATTTA-TTAACTTAAT
*
2887289 TTTAAATTATATTTCA-TAATTTAAT
1 TTTAAATTATATTT-ATTAACTTAAT
2887314 TT
1 TT
2887316 ATTAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 14 0.56
27 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAAATTATATTTATTAACTTAAT
Found at i:2893316 original size:10 final size:10
Alignment explanation
Indices: 2893296--2893329 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2893286 GTTTTAATAC
2893296 TTTTA-TATT
1 TTTTACTATT
2893305 TTTTACTATT
1 TTTTACTATT
*
2893315 TTTTACTATG
1 TTTTACTATT
2893325 TTTTA
1 TTTTA
2893330 ATTTATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTACTATT
Found at i:2894104 original size:22 final size:22
Alignment explanation
Indices: 2894054--2894105 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
2894044 CATCAATACT
*
2894054 AATATTGTAGGAATATTCTGTA
1 AATATTTTAGGAATATTCTGTA
*
2894076 AATATTTTAGGAATATTTTGTA
1 AATATTTTAGGAATATTCTGTA
*
2894098 GATATTTT
1 AATATTTT
2894106 CTTTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (22 bp):
AATATTTTAGGAATATTCTGTA
Found at i:2895180 original size:22 final size:22
Alignment explanation
Indices: 2895152--2895196 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2895142 AGGGGGAGTG
2895152 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
2895174 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
2895196 T
1 T
2895197 CTTTATTAAA
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:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:2905690 original size:9 final size:9
Alignment explanation
Indices: 2905670--2905716 Score: 78
Period size: 9 Copynumber: 5.2 Consensus size: 9
2905660 TTATTTTTAA
2905670 TTTTAA-TT
1 TTTTAATTT
2905678 TTTTAATTT
1 TTTTAATTT
2905687 TTTTAATTT
1 TTTTAATTT
2905696 TTTTAATTT
1 TTTTAATTT
2905705 TTTGTAATTT
1 TTT-TAATTT
2905715 TT
1 TT
2905717 AAATTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.16
9 23 0.62
10 8 0.22
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTAATTT
Found at i:2905721 original size:18 final size:17
Alignment explanation
Indices: 2905670--2905731 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 17
2905660 TTATTTTTAA
2905670 TTTTAATTTTTTAATTT
1 TTTTAATTTTTTAATTT
2905687 TTTTAATTTTTTTAATTT
1 TTTTAA-TTTTTTAATTT
*
2905705 TTTGTAATTTTTAAATTAT
1 TTT-TAATTTTTTAATT-T
2905724 TTATTAAT
1 TT-TTAAT
2905732 GTGACATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 6 0.15
18 23 0.57
19 10 0.25
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTTTAATTT
Found at i:2907183 original size:11 final size:12
Alignment explanation
Indices: 2907156--2907195 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
2907146 AAAACATAAA
2907156 ATTTTAAATATAT
1 ATTTTAAA-ATAT
2907169 ATTTTAAAA-AT
1 ATTTTAAAATAT
2907180 A-TTTAAAATAT
1 ATTTTAAAATAT
2907191 ATTTT
1 ATTTT
2907196 TTAGTCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.28
11 6 0.24
12 4 0.16
13 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTTAAAATAT
Found at i:2907198 original size:24 final size:22
Alignment explanation
Indices: 2907153--2907195 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2907143 AAAAAAACAT
2907153 AAAATTTTAAATATATATTTTA
1 AAAATTTTAAATATATATTTTA
2907175 AAAATATTTAAA-ATATATTTT
1 AAAAT-TTTAAATATATATTTT
2907196 TTAGTCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTA
Found at i:2909540 original size:27 final size:24
Alignment explanation
Indices: 2909499--2909553 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 24
2909489 TGTAAATTGT
2909499 AAATATCATTTATC-TATTGTTATA
1 AAATATCATTTATCTTA-TGTTATA
2909523 AAATATGCAATTTCATCTTATGTTATA
1 AAATAT-C-ATTT-ATCTTATGTTATA
2909550 AAAT
1 AAAT
2909554 CTTGATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.22
25 1 0.04
26 4 0.15
27 14 0.52
28 2 0.07
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.45
Consensus pattern (24 bp):
AAATATCATTTATCTTATGTTATA
Found at i:2909859 original size:16 final size:16
Alignment explanation
Indices: 2909842--2909871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2909832 GAGAACAATA
2909842 AAATA-TTAAAAAAAT
1 AAATACTTAAAAAAAT
2909857 AAATACTTAAAAAAA
1 AAATACTTAAAAAAA
2909872 ATAGACTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATACTTAAAAAAAT
Found at i:2913190 original size:21 final size:21
Alignment explanation
Indices: 2913164--2913207 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2913154 AAAAAATCCT
*
2913164 AAAATTTCAAAAAT-ATCAGAA
1 AAAATTTAAAAAATCATCA-AA
2913185 AAAATTTAAAAAATCATCAAA
1 AAAATTTAAAAAATCATCAAA
2913206 AA
1 AA
2913208 TGAAAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAATTTAAAAAATCATCAAA
Found at i:2913241 original size:19 final size:19
Alignment explanation
Indices: 2913203--2913258 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
2913193 AAAAATCATC
**
2913203 AAAAA-TGAAAAATTGGAA
1 AAAAATTGAAAAATTATAA
* *
2913221 AAAACTTTAAAAATTATAA
1 AAAAATTGAAAAATTATAA
*
2913240 AAAAATTGATAAATTATAA
1 AAAAATTGAAAAATTATAA
2913259 TATGCTTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAATTGAAAAATTATAA
Found at i:2916866 original size:28 final size:28
Alignment explanation
Indices: 2916826--2916882 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2916816 ACACGAGAAA
2916826 AAGATAGTTTATATTTTTTAACCATTGT
1 AAGATAGTTTATATTTTTTAACCATTGT
2916854 AAGATAGTTTATATTTTTTAACCATTGT
1 AAGATAGTTTATATTTTTTAACCATTGT
2916882 A
1 A
2916883 GTTAAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (28 bp):
AAGATAGTTTATATTTTTTAACCATTGT
Found at i:2923881 original size:5 final size:5
Alignment explanation
Indices: 2923873--2923898 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2923863 AACAGATACA
2923873 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
2923899 GATGTTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2927303 original size:203 final size:203
Alignment explanation
Indices: 2926659--2927434 Score: 1489
Period size: 203 Copynumber: 3.8 Consensus size: 203
2926649 AATTAAATCC
*
2926659 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAATTTCATATAAATTTTTATTTT
1 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTA-TTT
2926724 TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
65 TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
*
2926789 AAAATTTAAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
130 AAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
2926854 TTTATCAAA
195 TTTATCAAA
*
2926863 GTATAACTCAAAACATTTTTCATCAAATATAAATTTTTAGAAAAATTCATATAAATTTTTATTTT
1 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
*
2926928 TTCAAATAAAAGAATACTAATTAGTTTATCTAAAAAAAAAAACTCGACTTCAATCTAATCTATTT
66 TTCAAATAAAAGAATACTAATTAGTTTATCT-AAAGAAAAAACTCGACTTCAATCTAATCTATTT
2926993 AAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
130 AAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
2927058 TTTATCAAA
195 TTTATCAAA
2927067 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
1 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
2927132 TTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTTA
66 TTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTTA
2927197 AAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGTT
131 AAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGTT
2927262 TTATCAAA
196 TTATCAAA
2927270 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
1 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
*
2927335 TTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTTGACTTCAATCTAATCTATTTA
66 TTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTTA
2927400 AAATTTCAGAATATATAAATATTTGAGTTGAGTTG
131 AAATTTCAGAATATATAAATATTTGAGTTGAGTTG
2927435 AAGTCAAGTT
Statistics
Matches: 564, Mismatches: 7, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
203 305 0.54
204 259 0.46
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (203 bp):
GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
TTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTTA
AAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGTT
TTATCAAA
Found at i:2927463 original size:407 final size:408
Alignment explanation
Indices: 2926659--2927434 Score: 1475
Period size: 407 Copynumber: 1.9 Consensus size: 408
2926649 AATTAAATCC
*
2926659 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAATTTCATATAAATTTTTATTTT
1 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
2926724 TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
66 TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
2926789 AAAATTTAAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
131 AAAATTTAAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
*
2926854 TTTATCAAAGTATAACTCAAAACATTTTTCATCAAATATAAATTTTTAGAAAAATTCATATAAAT
196 TTTATCAAAGTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAAT
2926919 TTTTATTTTTTCAAATAAAAGAATACTAATTAGTTTATCTAAAAAAAAAAACTCGACTTCAATCT
261 TTTTATTTTTTCAAATAAAAGAATACTAATTAGTTTATCTAAAAAAAAAAACTCGACTTCAATCT
* *
2926984 AATCTATTTAAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATA
326 AATCTATTTAAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATCAAATCCGTCTTAATA
2927049 GTCTAAAGTTTTATCAAA
391 GTCTAAAGTTTTATCAAA
2927067 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTA-TTT
1 GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
2927131 TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
66 TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
*
2927196 AAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
131 AAAATTTAAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
2927261 TTTATCAAAGTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAAT
196 TTTATCAAAGTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAAT
* *
2927326 TTTTATTTTTTCAAATAAAAGAATACTAATTAGTTTATCT-AAAGAAAAAACTTGACTTCAATCT
261 TTTTATTTTTTCAAATAAAAGAATACTAATTAGTTTATCTAAAAAAAAAAACTCGACTTCAATCT
2927390 AATCTATTTAAAATTTCAGAATATATAAATATTTGAGTTGAGTTG
326 AATCTATTTAAAATTTCAGAATATATAAATATTTGAGTTGAGTTG
2927435 AAGTCAAGTT
Statistics
Matches: 363, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
406 67 0.18
407 236 0.65
408 60 0.17
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (408 bp):
GTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAATTTTTATTTT
TTTCAAATAAAAGAATACTAATTAGTTTATCTAAAGAAAAAACTCGACTTCAATCTAATCTATTT
AAAATTTAAGAATATATAAATATTTGAGTTGAGTTGTAATTAAATCCGTTTTAATAGTCTAAAGT
TTTATCAAAGTATAACTCAAAACATTTTTCATCAAATATAAAGTTTTAGAAAAATTCATATAAAT
TTTTATTTTTTCAAATAAAAGAATACTAATTAGTTTATCTAAAAAAAAAAACTCGACTTCAATCT
AATCTATTTAAAATTTCAGAATATATAAATATTTGAGTTGAGTTGTAATCAAATCCGTCTTAATA
GTCTAAAGTTTTATCAAA
Found at i:2927652 original size:14 final size:14
Alignment explanation
Indices: 2927614--2927652 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
2927604 TGTTTTTGAG
2927614 TTTATGATATTTTAT
1 TTTAT-ATATTTTAT
* *
2927629 TCTATTTATTTTAT
1 TTTATATATTTTAT
2927643 TTTATATATT
1 TTTATATATT
2927653 ATGTTATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTATATATTTTAT
Found at i:2929590 original size:23 final size:23
Alignment explanation
Indices: 2929562--2929655 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
2929552 ATGTGTGTAT
* *
2929562 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
2929585 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* *
2929608 CTATTT-ATATTCAAGTTTTTTCA
1 CT-TTTCATATTCAAGTCTCTTCA
2929631 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
2929654 CT
1 CT
2929656 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 55 0.90
24 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:2934096 original size:23 final size:23
Alignment explanation
Indices: 2934068--2934161 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
2934058 ATGTGTGTAT
* *
2934068 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
2934091 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* *
2934114 CTATTT-ATATTCAAGTTTTTTCA
1 CT-TTTCATATTCAAGTCTCTTCA
2934137 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
2934160 CT
1 CT
2934162 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 55 0.90
24 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:2936053 original size:17 final size:17
Alignment explanation
Indices: 2936033--2936066 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2936023 TTCATAAAGG
2936033 TAATTCATTTTTTAGAA
1 TAATTCATTTTTTAGAA
2936050 TAATTCATTTTTTAGAA
1 TAATTCATTTTTTAGAA
2936067 CCATTTTCAT
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:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TAATTCATTTTTTAGAA
Found at i:2944309 original size:17 final size:17
Alignment explanation
Indices: 2944283--2944317 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2944273 AAGGGTTATA
* *
2944283 TTTAAGTTTTTATATTT
1 TTTAAATTTTTAAATTT
2944300 TTTAAATTTTTAAATTT
1 TTTAAATTTTTAAATTT
2944317 T
1 T
2944318 AATCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTAAATTTTTAAATTT
Found at i:2963082 original size:17 final size:16
Alignment explanation
Indices: 2963060--2963091 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2963050 ATGTAATTAT
2963060 ATAAAAAAAAGTTAAAG
1 ATAAAAAAAA-TTAAAG
2963077 ATAAAAAAAATTAAA
1 ATAAAAAAAATTAAA
2963092 ATCTTGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
ATAAAAAAAATTAAAG
Found at i:2968193 original size:93 final size:93
Alignment explanation
Indices: 2968034--2968225 Score: 255
Period size: 93 Copynumber: 2.1 Consensus size: 93
2968024 TATTTCATAA
*
2968034 TTCTTTGATATTTAAGAAGTATTCTGTCAATTCTGAACGACCAAGACCATATAACAAACCAGCAT
1 TTCTTTGATATTTAAGAAGTATTCTGTCAATTCTCAACGACCAAGACCATATAACAAACCAGCAT
* * *
2968099 ATCTCTCAGTC-GACCAACTAAAGAAGTT
66 ATCTCTCAGCCAAACC-ACTAAAGAAATT
* * *
2968127 TTCTTTGAT-TTATTAGAGAGTATTCTGTCCATTCTCAAC-ACCAAGACCATATAACACACCAGC
1 TTCTTTGATATT-TAAGA-AGTATTCTGTCAATTCTCAACGACCAAGACCATATAACAAACCAGC
* *
2968190 ATATTTCTCGGCCAAACCACTAAAGAAATT
64 ATATCTCTCAGCCAAACCACTAAAGAAATT
2968220 TTCTTT
1 TTCTTT
2968226 CAGTTTCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
92 2 0.02
93 63 0.72
94 22 0.25
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (93 bp):
TTCTTTGATATTTAAGAAGTATTCTGTCAATTCTCAACGACCAAGACCATATAACAAACCAGCAT
ATCTCTCAGCCAAACCACTAAAGAAATT
Found at i:2969983 original size:7 final size:7
Alignment explanation
Indices: 2969971--2970015 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
2969961 TCCCTAAAGA
2969971 CACCCAT
1 CACCCAT
2969978 CACCCAT
1 CACCCAT
2969985 CACCCAT
1 CACCCAT
2969992 CACCCAT
1 CACCCAT
2969999 CACCCAT
1 CACCCAT
2970006 CACCCAT
1 CACCCAT
2970013 CAC
1 CAC
2970016 ATGCAATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.29, C:0.58, G:0.00, T:0.13
Consensus pattern (7 bp):
CACCCAT
Found at i:2970992 original size:240 final size:240
Alignment explanation
Indices: 2970563--2971043 Score: 899
Period size: 240 Copynumber: 2.0 Consensus size: 240
2970553 TAAACCAAAT
* *
2970563 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCTCGGCGGAGGCGATGGCGGAGCCACCGGAGTC
1 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCGCGGCGGAGGCGATCGCGGAGCCACCGGAGTC
2970628 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
66 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
* *
2970693 GCAAAGGTTCGGTAAGTGACTCAATTGCGCTTTATCCAATGACCCCTTAAGAGAACCTTGCGTCA
131 GCAAAGGTTCGGTAAGTGACTCAATTACGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCA
2970758 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
196 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
2970803 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCGCGGCGGAGGCGATCGCGGAGCCACCGGAGTC
1 CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCGCGGCGGAGGCGATCGCGGAGCCACCGGAGTC
* *
2970868 GAGTCTCGCGACTGTTACCTCAATATGTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
66 GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
*
2970933 GCAAAGGTTCGGTAAGTGACTCAATTATGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCA
131 GCAAAGGTTCGGTAAGTGACTCAATTACGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCA
2970998 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
196 TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
2971043 C
1 C
2971044 TTTGTTGGGC
Statistics
Matches: 234, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
240 234 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (240 bp):
CCCTAATTCACCCGCTTTCTCCTTTCCCGCTCCGCGGCGGAGGCGATCGCGGAGCCACCGGAGTC
GAGTCTCGCGACTGTTACCTCAAGATCTACGCTGTTAAAAAGCCCGACAAAGTCGACCCGAATGA
GCAAAGGTTCGGTAAGTGACTCAATTACGCTTTATCCAATGACCCCTTAAGAAAACCTTGCGTCA
TTGATAAACTAGGCAATATTTTTAACAAGGAAGCTCTTGTTCAAG
Found at i:2979935 original size:4 final size:4
Alignment explanation
Indices: 2979921--2979954 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
2979911 CAATCAGGGA
*
2979921 ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
2979955 CTAAATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2980913 original size:49 final size:49
Alignment explanation
Indices: 2980861--2980956 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 49
2980851 AATTTAGAAT
* * *
2980861 AAAATAGAAT-TTGTGATAATTATACTTTTAAAAATAATTATAATTTATTA
1 AAAAT-GAATGTTGTGAGAATTACACATTT-AAAATAATTATAATTTATTA
*
2980911 AAAATTAATGTTGTGAGAATTACACATTTAAAATAATTATAATTTA
1 AAAATGAATGTTGTGAGAATTACACATTTAAAATAATTATAATTTA
2980957 ATTTATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 20 0.49
50 21 0.51
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (49 bp):
AAAATGAATGTTGTGAGAATTACACATTTAAAATAATTATAATTTATTA
Found at i:2984872 original size:33 final size:32
Alignment explanation
Indices: 2984834--2984921 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
2984824 AAGGTGTACA
*
2984834 TTCCTTTCCAAGTGGTACACATAAAGTATACCT
1 TTCCTTT-CAAGTGGTACACACAAAGTATACCT
*
2984867 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCC-TTTCA-AGTGGTACACACAAAGTATACCT
**
2984900 AACCTTTCAAGT-GTACACACAA
1 TTCCTTTCAAGTGGTACACACAA
2984922 GGTGTACATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
31 10 0.21
32 6 0.13
33 27 0.57
34 4 0.09
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (32 bp):
TTCCTTTCAAGTGGTACACACAAAGTATACCT
Found at i:2986728 original size:3 final size:3
Alignment explanation
Indices: 2986717--2986774 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
2986707 CAATAATACC
* * *
2986717 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
2986762 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
2986775 GCAAAGTACT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2987832 original size:31 final size:29
Alignment explanation
Indices: 2987797--2987865 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
2987787 TTGTTTGTAA
*
2987797 TTGGGCTGAGGGTCTATTTTGGGTCTTGGGT
1 TTGGGCTGAGGGT-TATTTT-GGTCATGGGT
* * *
2987828 TTGGGCTGGTGGGTTGTTTTGGTGATGGGT
1 TTGGGCT-GAGGGTTATTTTGGTCATGGGT
2987858 TTGGGCTG
1 TTGGGCTG
2987866 GGTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 12 0.36
32 5 0.15
ACGTcount: A:0.04, C:0.07, G:0.46, T:0.42
Consensus pattern (29 bp):
TTGGGCTGAGGGTTATTTTGGTCATGGGT
Found at i:2988362 original size:43 final size:44
Alignment explanation
Indices: 2988297--2988582 Score: 137
Period size: 44 Copynumber: 6.7 Consensus size: 44
2988287 TTTTAATCCA
* * * * * *
2988297 CTCCACTGTAACTTCAGTGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTG
** * *
2988340 CTCCGGTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * ***
2988384 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATC---ACTGGCTTCAATCTG
* * * * *
2988430 TTCCACTGTAATCTCAGGGAGATAAGA-C-CT-GATGT-GATCTT
1 CTCCACTGTAACCTCAGGGAGATAAGATCACTGGCT-TCAATCTG
* * * *
2988471 CTCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTG
* * * * * ** *
2988510 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCACT-GGCTTCAATCTG
* *
2988554 CTCCGCTGTAATCTCAGGGAGATAAGATC
1 CTCCACTGTAACCTCAGGGAGATAAGATC
2988583 TGAAATTCTT
Statistics
Matches: 183, Mismatches: 49, Indels: 21
0.72 0.19 0.08
Matches are distributed among these distances:
39 25 0.14
40 3 0.02
41 28 0.15
42 4 0.02
43 22 0.12
44 67 0.37
45 1 0.01
46 32 0.17
47 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCACTGGCTTCAATCTG
Found at i:2988449 original size:46 final size:45
Alignment explanation
Indices: 2988329--2988626 Score: 221
Period size: 46 Copynumber: 6.8 Consensus size: 45
2988319 TAGGATAGTG
* ** *
2988329 TCTTCGATCTGCTCCGGTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
2988372 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
2988419 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
2988462 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-----
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * *
2988500 -CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* *
2988542 ATCCTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
2988589 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
2988627 CCTGTATAAT
Statistics
Matches: 198, Mismatches: 41, Indels: 28
0.74 0.15 0.10
Matches are distributed among these distances:
39 26 0.13
40 2 0.01
41 29 0.15
44 68 0.34
45 1 0.01
46 69 0.35
47 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:3004496 original size:3 final size:3
Alignment explanation
Indices: 3004485--3004545 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
3004475 CAATAATACC
* * *
3004485 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
3004530 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
3004546 GCAAAGTACT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 49 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3005606 original size:31 final size:29
Alignment explanation
Indices: 3005571--3005639 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
3005561 TTGTTTGTAA
*
3005571 TTGGGCTGAGGGTCTATTTTGGGTCTTGGGT
1 TTGGGCTGAGGGT-TATTTT-GGTCATGGGT
* * *
3005602 TTGGGCTGGTGGGTTGTTTTGGTGATGGGT
1 TTGGGCT-GAGGGTTATTTTGGTCATGGGT
3005632 TTGGGCTG
1 TTGGGCTG
3005640 GGTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 12 0.36
32 5 0.15
ACGTcount: A:0.04, C:0.07, G:0.46, T:0.42
Consensus pattern (29 bp):
TTGGGCTGAGGGTTATTTTGGTCATGGGT
Found at i:3007603 original size:18 final size:19
Alignment explanation
Indices: 3007580--3007616 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3007570 TCTGGCTTTA
3007580 ATATA-TTTTTTAAAAAAT
1 ATATATTTTTTTAAAAAAT
3007598 ATATATTTTTTTAAAAAAT
1 ATATATTTTTTTAAAAAAT
3007617 TATGTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATTTTTTTAAAAAAT
Found at i:3007794 original size:35 final size:37
Alignment explanation
Indices: 3007725--3007810 Score: 149
Period size: 35 Copynumber: 2.4 Consensus size: 37
3007715 TAAATGGAAA
*
3007725 ATTTGGAACCGCTAAAGAAAGTAAAAAAAAATAAAAG
1 ATTTGGAATCGCTAAAGAAAGTAAAAAAAAATAAAAG
3007762 ATTTGGAATC-CTAAAGAAAGT-AAAAAAAATAAAAG
1 ATTTGGAATCGCTAAAGAAAGTAAAAAAAAATAAAAG
3007797 ATTTGGAATCGCTA
1 ATTTGGAATCGCTA
3007811 GCTTTAGCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
35 24 0.51
36 14 0.30
37 9 0.19
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (37 bp):
ATTTGGAATCGCTAAAGAAAGTAAAAAAAAATAAAAG
Found at i:3008068 original size:21 final size:21
Alignment explanation
Indices: 3008042--3008084 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3008032 GGTTCGCTGT
* *
3008042 ATTGGATTAGCGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
3008063 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
3008084 A
1 A
3008085 ATAGAGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:3008084 original size:16 final size:16
Alignment explanation
Indices: 3008065--3008097 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3008055 TGTATTGGAT
*
3008065 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
3008081 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
3008097 T
1 T
3008098 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:3008142 original size:45 final size:44
Alignment explanation
Indices: 3008076--3008170 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
3008066 GGATTAGAGG
* *
3008076 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
3008121 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
3008165 TGTAAT
1 TGTAAT
3008171 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:3008353 original size:18 final size:17
Alignment explanation
Indices: 3008332--3008366 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3008322 TTATTATTTA
*
3008332 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3008350 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3008367 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3008360 original size:28 final size:27
Alignment explanation
Indices: 3008290--3008362 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
3008280 TTTATTATCA
*
3008290 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
3008318 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
3008345 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
3008363 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:3008494 original size:16 final size:17
Alignment explanation
Indices: 3008468--3008509 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
3008458 AAACATAATT
3008468 ATTATAAATATAT-TTTA
1 ATTA-AAATATATATTTA
3008485 ATTAAAATATATAATTTA
1 ATTAAAATATAT-ATTTA
3008503 A-TAAAAT
1 ATTAAAAT
3008510 TCTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATATATATTTA
Found at i:3008502 original size:18 final size:17
Alignment explanation
Indices: 3008475--3008509 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3008465 ATTATTATAA
*
3008475 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3008493 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3008510 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3008515 original size:143 final size:147
Alignment explanation
Indices: 3008251--3008521 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
3008241 ATGATTATTG
3008251 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
3008316 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
3008381 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
3008400 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
3008462 ATAATTATTA-TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
3008522 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 49 0.41
144 42 0.35
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:3008697 original size:17 final size:16
Alignment explanation
Indices: 3008675--3008721 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
3008665 ACTCAAATCA
3008675 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
3008692 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
3008706 TAAATATATGATTTAA
1 T-AATATATGATTTAA
3008722 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:3008722 original size:17 final size:17
Alignment explanation
Indices: 3008694--3008727 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3008684 ATTATAACTA
*
3008694 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
3008711 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
3008728 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:3008870 original size:93 final size:91
Alignment explanation
Indices: 3008760--3008953 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
3008750 GATTATAGTT
* *
3008760 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
3008823 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
3008853 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
3008918 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
3008944 TATGAATTTA
1 TATGAATTTA
3008954 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:3010367 original size:11 final size:11
Alignment explanation
Indices: 3010353--3010379 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3010343 AAAAATAAAT
3010353 ACAAAAGTTTC
1 ACAAAAGTTTC
3010364 ACAAAAGTTTC
1 ACAAAAGTTTC
3010375 ACAAA
1 ACAAA
3010380 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:3019437 original size:61 final size:62
Alignment explanation
Indices: 3019349--3019533 Score: 189
Period size: 61 Copynumber: 2.9 Consensus size: 62
3019339 TAATCTAATA
* * *
3019349 ATTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTATTAAATTAATAA-AATAT-TT
1 ATTA-CAAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAATAAAATCCT
*
3019410 ATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATTAGTTTAATATTAAATTAATAA
1 AT-TACAAGATAAATATTAAATTAAATTTAATATTAA-AT--CTA--TTAA-ATT-AA-TAATAA
3019475 AATCCT
57 AATCCT
* * *
3019481 ATTA-AA-ATCAGTATTAAATTAAATTTAATATTAAATCTATTAAAATAATAATA
1 ATTACAAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAATA
3019534 TTTTTAGAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
60 5 0.05
61 35 0.33
62 6 0.06
63 4 0.04
64 2 0.02
65 2 0.02
66 4 0.04
67 5 0.05
68 28 0.27
69 5 0.05
70 6 0.06
71 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (62 bp):
ATTACAAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAATAAAATCCT
Found at i:3019472 original size:20 final size:18
Alignment explanation
Indices: 3019422--3019473 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
3019412 CTACAAGATA
3019422 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
3019439 AATATTAAGA-TAATTAGTTT
1 AATATTAA-ATTAA-TA-TTT
3019459 AATATTAAATTAATA
1 AATATTAAATTAATA
3019474 AAATCCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 4 0.13
20 14 0.47
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:3021353 original size:12 final size:12
Alignment explanation
Indices: 3021338--3021367 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3021328 ACAATAATAC
3021338 TATATATAAATG
1 TATATATAAATG
*
3021350 TATATATATATG
1 TATATATAAATG
3021362 TATATA
1 TATATA
3021368 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:3021474 original size:17 final size:17
Alignment explanation
Indices: 3021452--3021494 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3021442 TAAAGTAATA
*
3021452 AAAATA-ATACTATATAT
1 AAAATATATA-TATACAT
3021469 AAAATATATATATACAT
1 AAAATATATATATACAT
3021486 AAAA-ATATA
1 AAAATATATA
3021495 CACTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 16 0.67
18 3 0.12
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATATATATACAT
Found at i:3021494 original size:18 final size:19
Alignment explanation
Indices: 3021449--3021499 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
3021439 AATTAAAGTA
*
3021449 ATAAAAATA-ATACTATAT
1 ATAAAAATATATACTATAC
3021467 AT-AAAATATATA-TATAC
1 ATAAAAATATATACTATAC
*
3021484 ATAAAAATATACACTA
1 ATAAAAATATATACTA
3021500 ATATATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 12 0.43
18 14 0.50
19 2 0.07
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAAATATATACTATAC
Found at i:3021726 original size:3 final size:3
Alignment explanation
Indices: 3021713--3021797 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
3021703 GAGGGCATAT
*
3021713 ATA AT- ATA ATA ATA AT- ATA AAA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
3021759 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3021798 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 9 0.14
3 48 0.73
4 7 0.11
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:3021729 original size:11 final size:11
Alignment explanation
Indices: 3021713--3021797 Score: 66
Period size: 11 Copynumber: 7.4 Consensus size: 11
3021703 GAGGGCATAT
3021713 ATAATATAATA
1 ATAATATAATA
*
3021724 ATAATATAAAA
1 ATAATATAATA
3021735 ATAATAT-ATA
1 ATAATATAATA
*
3021745 CATGAGAAATAATA
1 -AT-A-ATATAATA
3021759 ATAATA-ATATAA
1 ATAATATA-AT-A
*
3021771 ATAATAGTAAAA
1 ATAATA-TAATA
*
3021783 ATAATAAAATA
1 ATAATATAATA
3021794 ATAA
1 ATAA
3021798 AACAAAGCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 3 0.05
11 30 0.51
12 16 0.27
13 6 0.10
14 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (11 bp):
ATAATATAATA
Found at i:3021785 original size:24 final size:23
Alignment explanation
Indices: 3021713--3021794 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
3021703 GAGGGCATAT
3021713 ATAATATAATAATAATATAAAAATA
1 ATAATAT-A-AATAATATAAAAATA
* * *
3021738 AT-ATATACATGAGAAATAATAATA
1 ATAATATAAAT-A-ATATAAAAATA
3021762 ATAATATAAATAATAGTAAAAATA
1 ATAATATAAATAATA-TAAAAATA
*
3021786 ATAAAATAA
1 ATAATATAA
3021795 TAAAACAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.04
23 4 0.09
24 31 0.67
25 9 0.20
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (23 bp):
ATAATATAAATAATATAAAAATA
Found at i:3021793 original size:38 final size:36
Alignment explanation
Indices: 3021713--3021797 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
3021703 GAGGGCATAT
* * * *
3021713 ATAATATAATAATAATATAAAAATAATATATACATG
1 ATAAAATAATAATAATATAAAAATAATATAAAAATA
* *
3021749 A-GAAATAATAATAATAATATAAATAATAGTAAAAATA
1 ATAAAATAATAATAAT-ATAAAAATAATA-TAAAAATA
3021786 ATAAAATAATAA
1 ATAAAATAATAA
3021798 AACAAAGCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 12 0.31
36 12 0.31
37 6 0.15
38 9 0.23
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (36 bp):
ATAAAATAATAATAATATAAAAATAATATAAAAATA
Found at i:3022190 original size:23 final size:22
Alignment explanation
Indices: 3022127--3022194 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
3022117 AACCTTTTTT
**
3022127 ACAAAAAAAACACCTCC-AAAAA
1 ACAAAAAAAA-ACCTCCTCCAAA
3022149 ACAAAAAAAAACCTCCTCCAAA
1 ACAAAAAAAAACCTCCTCCAAA
* * *
3022171 ACAAAGAACAATCCTTCTCCAAA
1 ACAAA-AAAAAACCTCCTCCAAA
3022194 A
1 A
3022195 AACCAAAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.15
22 18 0.46
23 15 0.38
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (22 bp):
ACAAAAAAAAACCTCCTCCAAA
Found at i:3022341 original size:38 final size:38
Alignment explanation
Indices: 3022287--3022386 Score: 182
Period size: 38 Copynumber: 2.6 Consensus size: 38
3022277 GGTGGCCAAG
*
3022287 GGTGGTGGAGTTGGTGGCTAAGGTGGGTGGCCAACAAA
1 GGTGGTGGAGTAGGTGGCTAAGGTGGGTGGCCAACAAA
3022325 GGTGGTGGAGTAGGTGGCTAAGGTGGGTGGCCAACAAA
1 GGTGGTGGAGTAGGTGGCTAAGGTGGGTGGCCAACAAA
*
3022363 GGTGGTGGAGTAGGTGGCCAAGGT
1 GGTGGTGGAGTAGGTGGCTAAGGT
3022387 TTTTATTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.21, C:0.10, G:0.49, T:0.20
Consensus pattern (38 bp):
GGTGGTGGAGTAGGTGGCTAAGGTGGGTGGCCAACAAA
Found at i:3027918 original size:52 final size:49
Alignment explanation
Indices: 3027833--3028199 Score: 431
Period size: 46 Copynumber: 7.6 Consensus size: 49
3027823 TTTGAGTACT
* **
3027833 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
3027879 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
3027931 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
3027977 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
3028023 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
3028075 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
3028127 TCTGATCAA--GA-GATAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
3028173 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
3028200 GCTACACTTA
Statistics
Matches: 288, Mismatches: 16, Indels: 34
0.85 0.05 0.10
Matches are distributed among these distances:
46 149 0.52
48 4 0.01
49 3 0.01
50 3 0.01
52 129 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:3027953 original size:98 final size:97
Alignment explanation
Indices: 3027833--3028199 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
3027823 TTTGAGTACT
* *
3027833 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
3027898 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
3027931 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
3027991 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
3028023 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
3028088 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
3028127 TCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
3028192 GATAAGTG
65 GA-AAGTG
3028200 GCTACACTTA
Statistics
Matches: 239, Mismatches: 16, Indels: 27
0.85 0.06 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 143 0.60
99 10 0.04
100 1 0.00
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:3028181 original size:196 final size:196
Alignment explanation
Indices: 3027847--3028199 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
3027837 ATCAAGTGAT
* * *
3027847 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
3027912 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
3027977 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
3028042 G
196 G
* *
3028043 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
3028108 ATAGCTTCGGCTATACTTATCTGATCAAGAGATAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
3028173 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
3028200 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:3028207 original size:37 final size:37
Alignment explanation
Indices: 3028163--3028272 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
3028153 GATAGCTTTA
3028163 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
3028200 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
3028237 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
3028273 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:3036731 original size:126 final size:126
Alignment explanation
Indices: 3036506--3036759 Score: 508
Period size: 126 Copynumber: 2.0 Consensus size: 126
3036496 AAAAGGAGAT
3036506 TTTGTCAACTCTTAGTTGAAAGTACCTATGATCATGAAAATTTGAAGTTACGACTGAAGCTTGTG
1 TTTGTCAACTCTTAGTTGAAAGTACCTATGATCATGAAAATTTGAAGTTACGACTGAAGCTTGTG
3036571 GTTGAAGTTATTGATATCTTCTTCTGCCTTCTCTTTGTGCTTGAATTTTGGCTGCCTTTGC
66 GTTGAAGTTATTGATATCTTCTTCTGCCTTCTCTTTGTGCTTGAATTTTGGCTGCCTTTGC
3036632 TTTGTCAACTCTTAGTTGAAAGTACCTATGATCATGAAAATTTGAAGTTACGACTGAAGCTTGTG
1 TTTGTCAACTCTTAGTTGAAAGTACCTATGATCATGAAAATTTGAAGTTACGACTGAAGCTTGTG
3036697 GTTGAAGTTATTGATATCTTCTTCTGCCTTCTCTTTGTGCTTGAATTTTGGCTGCCTTTGC
66 GTTGAAGTTATTGATATCTTCTTCTGCCTTCTCTTTGTGCTTGAATTTTGGCTGCCTTTGC
3036758 TT
1 TT
3036760 GTATATTTTT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 128 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (126 bp):
TTTGTCAACTCTTAGTTGAAAGTACCTATGATCATGAAAATTTGAAGTTACGACTGAAGCTTGTG
GTTGAAGTTATTGATATCTTCTTCTGCCTTCTCTTTGTGCTTGAATTTTGGCTGCCTTTGC
Found at i:3037442 original size:35 final size:35
Alignment explanation
Indices: 3037385--3037460 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
3037375 TTCTTGCAAA
* *
3037385 GCTTTTTGAACTTTTTGTGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
*
3037420 GCTTTTTGAGCTATTTGAGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
3037455 G-TTTTT
1 GCTTTTT
3037461 ACTAGAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.17, C:0.05, G:0.18, T:0.59
Consensus pattern (35 bp):
GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
Found at i:3037950 original size:38 final size:38
Alignment explanation
Indices: 3037895--3037974 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
3037885 ATATTCACAG
3037895 AAGT-GGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
1 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
3037932 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
1 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
3037970 AAGTA
1 AAGTA
3037975 TATATTTTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 38 0.90
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (38 bp):
AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
Found at i:3043033 original size:15 final size:16
Alignment explanation
Indices: 3043007--3043036 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3042997 CGAATCTCAG
3043007 CTCTTGTTTCTCTTCT
1 CTCTTGTTTCTCTTCT
3043023 CTCTT-TTTCTCTTC
1 CTCTTGTTTCTCTTC
3043037 GAACAACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (16 bp):
CTCTTGTTTCTCTTCT
Found at i:3045190 original size:20 final size:20
Alignment explanation
Indices: 3045135--3045190 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
3045125 AACATTATTG
*
3045135 TTTTAGAATTTGTT-TAACTT
1 TTTTAGAATTT-TTACAACTT
*
3045155 TTTTATATATTCTTTACAACTT
1 TTTTAGA-ATT-TTTACAACTT
3045177 TTTTAGAATTTTTA
1 TTTTAGAATTTTTA
3045191 TTTTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 10 0.33
21 8 0.27
22 12 0.40
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTAGAATTTTTACAACTT
Found at i:3045220 original size:17 final size:17
Alignment explanation
Indices: 3045198--3045231 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3045188 TTATTTTATA
*
3045198 ATTTTTAATAAATATTT
1 ATTTTTAAAAAATATTT
3045215 ATTTTTAAAAAATATTT
1 ATTTTTAAAAAATATTT
3045232 TGACTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTAAAAAATATTT
Found at i:3049545 original size:29 final size:30
Alignment explanation
Indices: 3049498--3049554 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
3049488 AAATTGAATA
3049498 AAATCAAATATTTATGTAT-TCGATTACAGT
1 AAATCAAATATTTATGTATCTC-ATTACAGT
3049528 AAATCAAAT-TTTATGTATCTCATTACA
1 AAATCAAATATTTATGTATCTCATTACA
3049555 CATTTAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (30 bp):
AAATCAAATATTTATGTATCTCATTACAGT
Found at i:3050009 original size:29 final size:29
Alignment explanation
Indices: 3049976--3050034 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
3049966 ATATCTAAAA
3049976 CTATCTATAGCACTTTCCTAACTCCCAAC
1 CTATCTATAGCACTTTCCTAACTCCCAAC
*
3050005 CTATCTATAGTACTTTCCTAACTCCCAAC
1 CTATCTATAGCACTTTCCTAACTCCCAAC
3050034 C
1 C
3050035 CGTAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.37, G:0.03, T:0.32
Consensus pattern (29 bp):
CTATCTATAGCACTTTCCTAACTCCCAAC
Found at i:3053698 original size:31 final size:31
Alignment explanation
Indices: 3053660--3053721 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
3053650 ATGGTTATTG
* * *
3053660 AACTATTCGAAAGAT-TTTGTTTAAATCACTA
1 AACTATTCAAAAG-TCTTTATTGAAATCACTA
3053691 AACTATTCAAAAGTCTTTATTGAAATCACTA
1 AACTATTCAAAAGTCTTTATTGAAATCACTA
3053722 GATTGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (31 bp):
AACTATTCAAAAGTCTTTATTGAAATCACTA
Found at i:3057793 original size:14 final size:14
Alignment explanation
Indices: 3057757--3057795 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
3057747 AAAAAATAAT
* *
3057757 ATTTTAATAAATTT
1 ATTTTAATAAAATA
3057771 ATATTTAATAAAATA
1 AT-TTTAATAAAATA
3057786 ATTTTAATAA
1 ATTTTAATAA
3057796 TGCTATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAAAATA
Found at i:3063575 original size:25 final size:26
Alignment explanation
Indices: 3063531--3063579 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
3063521 CTTTCTTTTT
* *
3063531 TTTTCTTTATTTTCATTCTCTTCTAC
1 TTTTCTCTATTTTCACTCTCTTCTAC
3063557 TTTTCTCTATTTTC-CTCTCTTCT
1 TTTTCTCTATTTTCACTCTCTTCT
3063580 TCATATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTCTCTATTTTCACTCTCTTCTAC
Found at i:3063834 original size:24 final size:24
Alignment explanation
Indices: 3063790--3063840 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
3063780 AAGAGAATGA
*
3063790 AAAATAAATAAATAAATAAAAGTT
1 AAAATAAATAAATAAATAAAAATT
3063814 AAAATAACATAAA-AGAA-AAAAATT
1 AAAATAA-ATAAATA-AATAAAAATT
3063838 AAA
1 AAA
3063841 TTACTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAAATAAATAAATAAAAATT
Found at i:3064918 original size:22 final size:22
Alignment explanation
Indices: 3064893--3064936 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3064883 TAGTCATATA
3064893 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
3064915 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
3064937 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:3064988 original size:15 final size:16
Alignment explanation
Indices: 3064961--3064991 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3064951 ATTTTATTTT
3064961 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
3064977 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
3064992 TAATGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:3065049 original size:15 final size:15
Alignment explanation
Indices: 3065031--3065087 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
3065021 TATCAATATT
3065031 AATATTTTAATAATA
1 AATATTTTAATAATA
*
3065046 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
3065065 AATATATTAATAATA
1 AATATTTTAATAATA
*
3065080 AATGTTTT
1 AATATTTT
3065088 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:3065574 original size:14 final size:14
Alignment explanation
Indices: 3065555--3065582 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3065545 TCCAGAAAAG
3065555 TAAATCATTTTCTA
1 TAAATCATTTTCTA
3065569 TAAATCATTTTCTA
1 TAAATCATTTTCTA
3065583 GAAGTCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATCATTTTCTA
Found at i:3068275 original size:3 final size:3
Alignment explanation
Indices: 3068269--3068299 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3068259 GGAGGAGGAG
3068269 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
3068300 TGGACGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3070977 original size:28 final size:28
Alignment explanation
Indices: 3070945--3071000 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
3070935 TTGCCTTCGG
3070945 TCTCTGCAGTACTTTGCCCTTTTAGTGT
1 TCTCTGCAGTACTTTGCCCTTTTAGTGT
3070973 TCTCTGCAGTACTTTGCCCTTTTAGTGT
1 TCTCTGCAGTACTTTGCCCTTTTAGTGT
3071001 ACTTTGCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (28 bp):
TCTCTGCAGTACTTTGCCCTTTTAGTGT
Found at i:3071008 original size:28 final size:28
Alignment explanation
Indices: 3070946--3071008 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
3070936 TGCCTTCGGT
*
3070946 CTCTGCAGTACTTTGCCCTTTTAGTGTT
1 CTCTGCAGTACTTTGCCCTTTTAGTGTA
3070974 CTCTGCAGTACTTTGCCCTTTTAGTGTA
1 CTCTGCAGTACTTTGCCCTTTTAGTGTA
*
3071002 CTTTGCA
1 CTCTGCA
3071009 CAGTCATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.44
Consensus pattern (28 bp):
CTCTGCAGTACTTTGCCCTTTTAGTGTA
Done.