Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 150 of 228
Found at i:45137550 original size:13 final size:13
Alignment explanation
Indices: 45137534--45137560 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45137524 TTTTCTTTGA
45137534 TTTTTTTTGAATT
1 TTTTTTTTGAATT
45137547 TTTTTTTTGAATT
1 TTTTTTTTGAATT
45137560 T
1 T
45137561 CTTCTCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTTGAATT
Found at i:45139319 original size:30 final size:30
Alignment explanation
Indices: 45139285--45139381 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
45139275 TAAACTAAAA
*
45139285 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
45139315 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
45139345 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
45139374 ATGAGCTA
1 -TGAGCTA
45139382 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:45141841 original size:20 final size:20
Alignment explanation
Indices: 45141816--45141870 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
45141806 ACGAGTTAAA
* *
45141816 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
45141836 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
45141856 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
45141871 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:45145669 original size:13 final size:11
Alignment explanation
Indices: 45145633--45145665 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
45145623 TAGTAGTTTC
45145633 TTCAAAAAAAA
1 TTCAAAAAAAA
45145644 TTCAAAAAAAA
1 TTCAAAAAAAA
45145655 TTCAAAAAAAA
1 TTCAAAAAAAA
45145666 AATTTGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:45154304 original size:20 final size:20
Alignment explanation
Indices: 45154279--45154316 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45154269 TGTAAAATAA
45154279 AGCTCAA-TACAGCTCAATCG
1 AGCTCAACT-CAGCTCAATCG
45154299 AGCTCAACTCAGCTCAAT
1 AGCTCAACTCAGCTCAAT
45154317 TTTAGCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (20 bp):
AGCTCAACTCAGCTCAATCG
Found at i:45157622 original size:20 final size:20
Alignment explanation
Indices: 45157599--45157652 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
45157589 AGTTTTTCCC
*
45157599 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
45157619 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
45157639 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
45157653 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:45157634 original size:30 final size:30
Alignment explanation
Indices: 45157599--45157672 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
45157589 AGTTTTTCCC
45157599 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
45157629 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
45157659 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
45157673 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:45157662 original size:20 final size:20
Alignment explanation
Indices: 45157599--45157663 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
45157589 AGTTTTTCCC
* * * *
45157599 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
45157619 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
45157638 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
45157659 AGCTC
1 AGCTC
45157664 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:45159559 original size:7 final size:7
Alignment explanation
Indices: 45159547--45159576 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
45159537 ATTTGTAAAG
45159547 GACTTTT
1 GACTTTT
45159554 GACTTTT
1 GACTTTT
45159561 GACTTTT
1 GACTTTT
45159568 GACTTTT
1 GACTTTT
45159575 GA
1 GA
45159577 TCATTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (7 bp):
GACTTTT
Found at i:45160267 original size:17 final size:17
Alignment explanation
Indices: 45160245--45160289 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
45160235 AAAAAAATCA
45160245 AAAAAAAAATTTGATTG
1 AAAAAAAAATTTGATTG
45160262 AAAAAAAAATTTGATTG
1 AAAAAAAAATTTGATTG
45160279 AAAAAAAAATT
1 AAAAAAAAATT
45160290 CAAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
AAAAAAAAATTTGATTG
Found at i:45160297 original size:15 final size:15
Alignment explanation
Indices: 45160279--45160313 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45160269 AATTTGATTG
*
45160279 AAAAAAAAATTCAAA
1 AAAAAAAAAGTCAAA
*
45160294 AAAAAAAAAGTGAAA
1 AAAAAAAAAGTCAAA
45160309 AAAAA
1 AAAAA
45160314 TCGAGCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAGTCAAA
Found at i:45160327 original size:32 final size:31
Alignment explanation
Indices: 45160291--45160360 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
45160281 AAAAAAATTC
*
45160291 AAAAAAAAAAAAGTGAAAAAAAA-TCGAGCAAA
1 AAAAAAAAAAAAG-AAAAAAAAAGT-GAGCAAA
*
45160323 AAAAAAAGAAAAGAAAAAAAAAGGTGAGCAAA
1 AAAAAAAAAAAAGAAAAAAAAA-GTGAGCAAA
45160355 AAAAAA
1 AAAAAA
45160361 TCAAGTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 8 0.24
32 25 0.74
33 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.14, T:0.04
Consensus pattern (31 bp):
AAAAAAAAAAAAGAAAAAAAAAGTGAGCAAA
Found at i:45161341 original size:18 final size:18
Alignment explanation
Indices: 45161303--45161344 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45161293 AAATCGAAAG
* **
45161303 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
45161321 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
45161339 AAAAGA
1 AAAAGA
45161345 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:45163926 original size:7 final size:7
Alignment explanation
Indices: 45163896--45163925 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
45163886 ATTTGTAAAG
45163896 GACTTTT
1 GACTTTT
45163903 GACTTTT
1 GACTTTT
45163910 GACTTTT
1 GACTTTT
*
45163917 GATTTTT
1 GACTTTT
45163924 GA
1 GA
45163926 TCATTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.57
Consensus pattern (7 bp):
GACTTTT
Found at i:45166407 original size:19 final size:20
Alignment explanation
Indices: 45166370--45166407 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45166360 AACATTTTTG
*
45166370 ATTCAACTTATTCGAGCTCA
1 ATTCAACTCATTCGAGCTCA
45166390 ATTCAACTCATT-GAGCTC
1 ATTCAACTCATTCGAGCTC
45166408 GTTACTAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (20 bp):
ATTCAACTCATTCGAGCTCA
Found at i:45166601 original size:32 final size:32
Alignment explanation
Indices: 45166564--45166643 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
45166554 TGTCTTAAGT
* *
45166564 CTATTTAATGTGTTTTGTCGTAGTTAATGCTG
1 CTATTTAATGTGTTTTGACGAAGTTAATGCTG
* * * * *
45166596 TTATTTAATGCGTCTGGACGAATTTAATGCTG
1 CTATTTAATGTGTTTTGACGAAGTTAATGCTG
*
45166628 CTACTTAATGTGTTTT
1 CTATTTAATGTGTTTT
45166644 TGCTGCTGTT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.47
Consensus pattern (32 bp):
CTATTTAATGTGTTTTGACGAAGTTAATGCTG
Found at i:45171866 original size:24 final size:26
Alignment explanation
Indices: 45171817--45171879 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
45171807 AAGAAGGGCT
*
45171817 GAAATTGGCTAAGTGAAATGATGATG
1 GAAATTGGCTAAGTGAAATGAGGATG
*
45171843 GAAA-TGGCTAGGTG-AATGAGGATG
1 GAAATTGGCTAAGTGAAATGAGGATG
* *
45171867 GAGATTCGCTAAG
1 GAAATTGGCTAAG
45171880 GTTTTGAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 12 0.39
25 15 0.48
26 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (26 bp):
GAAATTGGCTAAGTGAAATGAGGATG
Found at i:45176073 original size:11 final size:12
Alignment explanation
Indices: 45176053--45176088 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
45176043 AAACCGTATG
45176053 CAATTTTTTTTT
1 CAATTTTTTTTT
45176065 CAATTTTTTTTT
1 CAATTTTTTTTT
45176077 CAATTTTTTTTT
1 CAATTTTTTTTT
45176089 TCGAACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:45183269 original size:22 final size:22
Alignment explanation
Indices: 45183244--45183295 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
45183234 TTCTTGGCAA
45183244 CTTCCTAGAACGTCCCTTGAAG
1 CTTCCTAGAACGTCCCTTGAAG
* * *
45183266 CTTCCTTGAAGGTTCCTTGAAG
1 CTTCCTAGAACGTCCCTTGAAG
*
45183288 TTTCCTAG
1 CTTCCTAG
45183296 CATGGGAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (22 bp):
CTTCCTAGAACGTCCCTTGAAG
Found at i:45183274 original size:11 final size:11
Alignment explanation
Indices: 45183258--45183293 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
45183248 CTAGAACGTC
45183258 CCTTGAAGCTT
1 CCTTGAAGCTT
*
45183269 CCTTGAAGGTT
1 CCTTGAAGCTT
*
45183280 CCTTGAAGTTT
1 CCTTGAAGCTT
45183291 CCT
1 CCT
45183294 AGCATGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (11 bp):
CCTTGAAGCTT
Found at i:45183963 original size:20 final size:20
Alignment explanation
Indices: 45183940--45183978 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45183930 TTCAGGTCAC
*
45183940 TCGAGCTCAAGTCAGCTCAT
1 TCGAGCTCAAGTCAACTCAT
45183960 TCGAGCTCAAGTCAACTCA
1 TCGAGCTCAAGTCAACTCA
45183979 ATCTTAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGAGCTCAAGTCAACTCAT
Found at i:45194511 original size:10 final size:10
Alignment explanation
Indices: 45194496--45194557 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
45194486 TTTGAACCAT
*
45194496 TACCAATTCG
1 TACCAATTCA
45194506 TACCAATTACCA
1 TACCAATT--CA
*
45194518 TACCATTTCA
1 TACCAATTCA
45194528 TACCAATTCCA
1 TACCAATT-CA
* *
45194539 TACCATTTCG
1 TACCAATTCA
*
45194549 TAACAATTC
1 TACCAATTC
45194558 CCAAATACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 25 0.60
11 9 0.21
12 8 0.19
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (10 bp):
TACCAATTCA
Found at i:45194541 original size:21 final size:21
Alignment explanation
Indices: 45194496--45194558 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
45194486 TTTGAACCAT
*
45194496 TACCAATTCGTACCAATTACCA
1 TACCATTTCGTACCAATT-CCA
*
45194518 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
45194539 TACCATTTCGTAACAATTCC
1 TACCATTTCGTACCAATTCC
45194559 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 21 0.57
22 16 0.43
ACGTcount: A:0.33, C:0.32, G:0.03, T:0.32
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:45199434 original size:21 final size:21
Alignment explanation
Indices: 45199401--45199453 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
45199391 TACCAATTTG
*
45199401 TACCAAATACCATACCATTTCA
1 TACC-AATTCCATACCATTTCA
*
45199423 TACCAATTCCATACCATTTCG
1 TACCAATTCCATACCATTTCA
*
45199444 TAGCAATTCC
1 TACCAATTCC
45199454 CAAATACCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (21 bp):
TACCAATTCCATACCATTTCA
Found at i:45207012 original size:20 final size:20
Alignment explanation
Indices: 45206965--45207012 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45206955 AGTAAGCTCG
45206965 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
45206985 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
45207005 GTTGAGCT
1 GTTGAGCT
45207013 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:45208684 original size:11 final size:12
Alignment explanation
Indices: 45208654--45208685 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45208644 TTTCACTCTT
45208654 CTCTTTTTCAAA
1 CTCTTTTTCAAA
45208666 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
45208678 TTCTTTTT
1 CTCTTTTT
45208686 TCGCTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:45208701 original size:6 final size:6
Alignment explanation
Indices: 45208690--45208800 Score: 66
Period size: 6 Copynumber: 18.3 Consensus size: 6
45208680 CTTTTTTCGC
* * * **
45208690 TTTTCT TTTTCT TTTTCAA TTTTCTT TTCTTCA TTTTCT TTTTCT CTCACT
1 TTTTCT TTTTCT TTTTC-T TTTTC-T TT-TTCT TTTTCT TTTTCT TTTTCT
* * * * *
45208741 TTTT-T GATTTCT TTTTCT TTTGCA ATTTCT TTTTCT TTTTC- GTTTCT
1 TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
45208788 TTTT-G TTTTCT TT
1 TTTTCT TTTTCT TT
45208801 CAATTTCTCT
Statistics
Matches: 76, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
5 9 0.12
6 54 0.71
7 10 0.13
8 3 0.04
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTTCT
Found at i:45208712 original size:13 final size:12
Alignment explanation
Indices: 45208690--45208733 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 12
45208680 CTTTTTTCGC
*
45208690 TTTTCTTTTTCT
1 TTTTCATTTTCT
45208702 TTTTCAATTTTCTT
1 TTTTC-ATTTTC-T
45208716 TTCTTCATTTTCT
1 TT-TTCATTTTCT
45208729 TTTTC
1 TTTTC
45208734 TCTCACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.29
13 8 0.29
14 9 0.32
15 3 0.11
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTCATTTTCT
Found at i:45208715 original size:33 final size:32
Alignment explanation
Indices: 45208667--45208734 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
45208657 TTTTTCAAAC
*
45208667 TCTTTTTCAAATTCTTTT-TTCGCTTTTCTTTT
1 TCTTTTTCAAATTCTTTTCTTC-ATTTTCTTTT
*
45208699 TCTTTTTCAATTTTCTTTTCTTCATTTTCTTTT
1 TCTTTTTCAA-ATTCTTTTCTTCATTTTCTTTT
45208732 TCT
1 TCT
45208735 CTCACTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 10 0.31
33 19 0.59
34 3 0.09
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.71
Consensus pattern (32 bp):
TCTTTTTCAAATTCTTTTCTTCATTTTCTTTT
Found at i:45208760 original size:18 final size:18
Alignment explanation
Indices: 45208691--45208796 Score: 79
Period size: 18 Copynumber: 5.8 Consensus size: 18
45208681 TTTTTTCGCT
*
45208691 TTTCTTTTTCTTTTTCAA
1 TTTCTTTTTCTTTTTCGA
* **
45208709 TTTTCTTTTCTTCATTTTCTT
1 -TTTC-TTT-TTCTTTTTCGA
* ** *
45208730 TTTCTCTCACTTTTTTGA
1 TTTCTTTTTCTTTTTCGA
* *
45208748 TTTCTTTTTCTTTTGCAA
1 TTTCTTTTTCTTTTTCGA
45208766 TTTCTTTTTCTTTTTCG-
1 TTTCTTTTTCTTTTTCGA
*
45208783 TTTCTTTTTGTTTT
1 TTTCTTTTTCTTTT
45208797 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
17 13 0.20
18 32 0.48
19 6 0.09
20 7 0.11
21 8 0.12
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCGA
Found at i:45208896 original size:68 final size:68
Alignment explanation
Indices: 45208697--45208899 Score: 160
Period size: 74 Copynumber: 2.9 Consensus size: 68
45208687 CGCTTTTCTT
* * * *
45208697 TTTCTTTTTCAATTTTCTTT-TCTTCATTTTCTTTTTCTCTCACTTTTTTGATTTCTTTTTCTTT
1 TTTCTTTTTTAA--TTCTTTCTCTTCATTTTCTTTTTCTCTCACTTTTTTGATTTCTTGTTCATC
45208761 TGCAA
64 TGCAA
** * ** ** *** *
45208766 TTTCTTTTTCTTTTTCGTTTCTTTTTGTTTTCTTTCAATTTCTCTTTCTCGCTTGCA-CTCTTGT
1 TTTCTTTTT-TAATTC-TTTCTCTTCATTTTC-TT---TTTCTCTCACTTTTTTG-ATTTCTTGT
45208830 TCAATCT-CAA
59 TC-ATCTGCAA
45208840 TTTCTTTTTTAATTCTTTCTCTTCATTTTCTTTTTCTCTCACTTTTTTGATTTCTTGTTC
1 TTTCTTTTTTAATTCTTTCTCTTCATTTTCTTTTTCTCTCACTTTTTTGATTTCTTGTTC
45208900 CTTTTCTTTC
Statistics
Matches: 98, Mismatches: 26, Indels: 21
0.68 0.18 0.14
Matches are distributed among these distances:
67 1 0.01
68 23 0.23
69 12 0.12
70 8 0.08
71 4 0.04
72 12 0.12
73 4 0.04
74 31 0.32
75 3 0.03
ACGTcount: A:0.09, C:0.21, G:0.04, T:0.66
Consensus pattern (68 bp):
TTTCTTTTTTAATTCTTTCTCTTCATTTTCTTTTTCTCTCACTTTTTTGATTTCTTGTTCATCTG
CAA
Found at i:45209033 original size:13 final size:13
Alignment explanation
Indices: 45209017--45209066 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
45209007 TTTTTGTCAC
45209017 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
*
45209030 TTTTTTTTTCAATCAA
1 TTTTTTTTT---TGAA
*
45209046 TTTTTTTTTCGAA
1 TTTTTTTTTTGAA
45209059 TTTTTTTT
1 TTTTTTTT
45209067 GATTTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 19 0.61
16 12 0.39
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:45210616 original size:20 final size:20
Alignment explanation
Indices: 45210569--45210616 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45210559 AGTAAGCTCG
45210569 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
45210589 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
45210609 GTTGAGCT
1 GTTGAGCT
45210617 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:45216002 original size:18 final size:18
Alignment explanation
Indices: 45215960--45215999 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45215950 GCTGCTGGAA
* *
45215960 TAAATTATTTGAATTAGT
1 TAAATTATTTAAATCAGT
45215978 TAAATTATTTAAATCAGCT
1 TAAATTATTTAAATCAG-T
45215997 TAA
1 TAA
45216000 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (18 bp):
TAAATTATTTAAATCAGT
Found at i:45216505 original size:20 final size:20
Alignment explanation
Indices: 45216480--45216536 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
45216470 CATGTGGTTC
45216480 AGCTCACTT-GAGCTCAAGTA
1 AGCTCA-TTCGAGCTCAAGTA
*
45216500 AGCTCATTCGAGCTCAAGTC
1 AGCTCATTCGAGCTCAAGTA
45216520 AGCTCATTCGAGCTCAA
1 AGCTCATTCGAGCTCAA
45216537 TTCAACTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTA
Found at i:45216545 original size:20 final size:20
Alignment explanation
Indices: 45216489--45216547 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
45216479 CAGCTCACTT
45216489 GAGCTCAAGT-AAGCTCATTC
1 GAGCTCAAGTCAA-CTCATTC
*
45216509 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAACTCATTC
*
45216529 GAGCTCAATTCAACTCATT
1 GAGCTCAAGTCAACTCATT
45216548 AAGCTCGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (20 bp):
GAGCTCAAGTCAACTCATTC
Found at i:45218045 original size:7 final size:7
Alignment explanation
Indices: 45218033--45218062 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
45218023 ATTCAAATGA
45218033 TCAAAAG
1 TCAAAAG
45218040 TCAAAAG
1 TCAAAAG
45218047 TCAAAAG
1 TCAAAAG
45218054 TCAAAAG
1 TCAAAAG
45218061 TC
1 TC
45218063 CTTTACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (7 bp):
TCAAAAG
Found at i:45233956 original size:13 final size:13
Alignment explanation
Indices: 45233938--45233986 Score: 71
Period size: 13 Copynumber: 3.6 Consensus size: 13
45233928 AAAAAAAATC
45233938 AAAAAAAAGAGTTTG
1 AAAAAAAA-A-TTTG
*
45233953 AAAAAAAAAATTG
1 AAAAAAAAATTTG
45233966 AAAAAAAAATTTG
1 AAAAAAAAATTTG
45233979 AAAAAAAA
1 AAAAAAAA
45233987 GAAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 23 0.72
14 1 0.03
15 8 0.25
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.16
Consensus pattern (13 bp):
AAAAAAAAATTTG
Found at i:45233969 original size:12 final size:12
Alignment explanation
Indices: 45233954--45233999 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
45233944 AAGAGTTTGA
45233954 AAAAAAAAATTG
1 AAAAAAAAATTG
45233966 AAAAAAAAATTTG
1 AAAAAAAAA-TTG
45233979 -AAAAAAAA--G
1 AAAAAAAAATTG
45233988 AAAAAAAAATTG
1 AAAAAAAAATTG
45234000 CATACGGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.03
10 8 0.27
12 18 0.60
13 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:45235078 original size:18 final size:18
Alignment explanation
Indices: 45235040--45235081 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45235030 AAATCGAAAG
* **
45235040 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
45235058 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
45235076 AAAAGA
1 AAAAGA
45235082 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:45238619 original size:15 final size:15
Alignment explanation
Indices: 45238599--45238649 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
45238589 ACTTTCATCA
*
45238599 TTCTTTTCATTCTTT
1 TTCTTTTCACTCTTT
45238614 TTCTTTTCACTCTTT
1 TTCTTTTCACTCTTT
* * *
45238629 TT-GTTTCTCTATTT
1 TTCTTTTCACTCTTT
45238643 TTCTTTT
1 TTCTTTT
45238650 TCTCGCTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.73
Consensus pattern (15 bp):
TTCTTTTCACTCTTT
Found at i:45246883 original size:31 final size:31
Alignment explanation
Indices: 45246827--45246893 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
45246817 TTATTTATAT
*
45246827 AGGTTGCCCGAATGTTTGGGATCA-TTTAACA
1 AGGTTACCCGAA-GTTTGGGATCATTTTAACA
*
45246858 AGGTTACCCGAA-TTTGGAGATTCATTTTAGCA
1 AGGTTACCCGAAGTTTGG-GA-TCATTTTAACA
45246890 AGGT
1 AGGT
45246894 GCATGCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 5 0.16
30 2 0.06
31 14 0.45
32 10 0.32
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (31 bp):
AGGTTACCCGAAGTTTGGGATCATTTTAACA
Found at i:45247713 original size:22 final size:22
Alignment explanation
Indices: 45247682--45247746 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
45247672 GACTTTTTGA
*
45247682 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
45247705 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
45247727 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
45247747 TTCCTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:45255266 original size:18 final size:18
Alignment explanation
Indices: 45255224--45255266 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45255214 GCCCATTCCG
* *
45255224 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
45255242 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
45255260 AAGTATG
1 AAGTATG
45255267 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:45255792 original size:28 final size:28
Alignment explanation
Indices: 45255710--45255887 Score: 225
Period size: 28 Copynumber: 6.4 Consensus size: 28
45255700 GAGATTGGCG
* * * *
45255710 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
45255739 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45255766 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45255794 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* *
45255822 CTAAGTGTGCGGGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45255850 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45255877 CTGAGTGTGCG
1 CTAAGTGTGCG
45255888 GACTTATTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 44 0.33
28 79 0.59
29 11 0.08
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:45256265 original size:27 final size:27
Alignment explanation
Indices: 45256204--45256269 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
45256194 TATTGATGAG
* *
45256204 CTTGATTATATAGCACTTAGTGTGCGA
1 CTTGATTATATAGCACTGAGTGTACGA
*
45256231 GTTGATTATATAGCACTGAGTGTACGGA
1 CTTGATTATATAGCACTGAGTGTAC-GA
45256259 CTT-ATTATATA
1 CTTGATTATATA
45256270 TTTTTGAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
CTTGATTATATAGCACTGAGTGTACGA
Found at i:45256515 original size:369 final size:369
Alignment explanation
Indices: 45255836--45256551 Score: 1387
Period size: 369 Copynumber: 1.9 Consensus size: 369
45255826 GTGTGCGGGT
*
45255836 TTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATA
1 TTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTACGGACTTATTATATA
45255901 TTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCAATCACGGACAGCGGATCGGG
66 TTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCAATCACGGACAGCGGATCGGG
45255966 TAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTCTATATTTGGAGTTGAGCTTGGTAAGTTT
131 TAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTCTATATTTGGAGTTGAGCTTGGTAAGTTT
45256031 GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
196 GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
45256096 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATAAAAATGCCTCAAATATCCTATTGA
261 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATAAAAATGCCTCAAATATCCTATTGA
45256161 TGAGTATACGGAATGTGAATGCCTCAAATATCCTATTGATGAGC
326 TGAGTATACGGAATGTGAATGCCTCAAATATCCTATTGATGAGC
*
45256205 TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTACGGACTTATTATATA
1 TTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTACGGACTTATTATATA
* *
45256270 TTTTTGAAACATTATGGACACTAAGTGTGCGATGTTATTGAGTCGATCACGGACAGCGGATCGGG
66 TTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCAATCACGGACAGCGGATCGGG
45256335 TAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTCTATATTTGGAGTTGAGCTTGGTAAGTTT
131 TAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTCTATATTTGGAGTTGAGCTTGGTAAGTTT
45256400 GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
196 GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
*
45256465 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGA
261 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATAAAAATGCCTCAAATATCCTATTGA
45256530 TGAGTATACGGAATGTGAATGC
326 TGAGTATACGGAATGTGAATGC
45256552 ATGATTTGGT
Statistics
Matches: 342, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
369 342 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (369 bp):
TTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTACGGACTTATTATATA
TTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCAATCACGGACAGCGGATCGGG
TAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTCTATATTTGGAGTTGAGCTTGGTAAGTTT
GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATAAAAATGCCTCAAATATCCTATTGA
TGAGTATACGGAATGTGAATGCCTCAAATATCCTATTGATGAGC
Found at i:45264674 original size:28 final size:27
Alignment explanation
Indices: 45264617--45264768 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
45264607 TAAATTGTGC
*
45264617 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45264644 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45264672 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45264699 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
45264727 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45264754 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45264769 GACTTAATAA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45264682 original size:55 final size:55
Alignment explanation
Indices: 45264617--45264768 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
45264607 TAAATTGTGC
* *
45264617 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
*
45264672 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
45264727 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
45264769 GACTTAATAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:45272590 original size:55 final size:54
Alignment explanation
Indices: 45272529--45272704 Score: 212
Period size: 55 Copynumber: 3.2 Consensus size: 54
45272519 GAGATTGGCG
* *
45272529 CTAAGTGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGAATTGACTATGT-GCA
1 CTAAGTGTGCGAGTTT-AATTGTG-AGCACTAAGTGTGCGAGTTGACTATGTAGCA
*
45272584 CTAAGTGTGCGAGTTTGACTATGT-AGCACTAAGTGTGCGAGTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTT-AAT-TGTGAGCACTAAGTGTGCGAGTTGACTATGTAGCA
* * * * *
45272639 CTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAATTGTG-AGCACTAAGTGTGCGAGTTGACTATGTAGCA
*
45272694 CTGAGTGTGCG
1 CTAAGTGTGCG
45272705 GACTTAATAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.02
54 27 0.25
55 74 0.70
56 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (54 bp):
CTAAGTGTGCGAGTTTAATTGTGAGCACTAAGTGTGCGAGTTGACTATGTAGCA
Found at i:45272628 original size:27 final size:27
Alignment explanation
Indices: 45272554--45272704 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
45272544 TAAATTGTGC
*
45272554 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45272581 -GCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45272608 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45272635 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
45272663 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45272690 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45272705 GACTTAATAA
Statistics
Matches: 117, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
26 15 0.13
27 60 0.51
28 42 0.36
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45280521 original size:27 final size:27
Alignment explanation
Indices: 45280437--45280591 Score: 188
Period size: 27 Copynumber: 5.6 Consensus size: 27
45280427 TTAAATGTGC
*
45280437 AGCACTAAGTGTGCGAATTGACTATGTCT
1 AGCACTAAGTGTGCGAGTTGACTATG--T
45280466 AGCACTAAGTAGGTGCGAGTTTGACTATGT
1 AGCACTAAGT--GTGCGAG-TTGACTATGT
45280496 AGCCACT-AGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGAGTTGACTATGT
*
45280523 AGCACT-AGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
45280550 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45280577 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45280592 GACTTTAATA
Statistics
Matches: 116, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
26 14 0.12
27 50 0.43
28 17 0.15
29 10 0.09
30 6 0.05
31 10 0.09
32 9 0.08
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45293186 original size:26 final size:26
Alignment explanation
Indices: 45293157--45293231 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
45293147 AAAAAATTTC
45293157 AAAAAAAGTGAAAAAAA-TCGAGCAAA
1 AAAAAAAGTGAAAAAAAGT-GAGCAAA
*
45293183 AAAAAGAA-AGAAAAAAAGTGAGCAAA
1 AAAAA-AAGTGAAAAAAAGTGAGCAAA
* *
45293209 AAAATCAAGTTAAAAAAAAGTGA
1 AAAA-AAAG-TGAAAAAAAGTGA
45293232 AAGTCTTGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 26 0.65
27 3 0.08
28 11 0.28
ACGTcount: A:0.69, C:0.05, G:0.16, T:0.09
Consensus pattern (26 bp):
AAAAAAAGTGAAAAAAAGTGAGCAAA
Found at i:45296061 original size:20 final size:20
Alignment explanation
Indices: 45296015--45296061 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
45296005 AGCTTGTTTC
*
45296015 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
45296035 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
45296055 CAGCTCA
1 CAGCTCA
45296062 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:45297605 original size:18 final size:18
Alignment explanation
Indices: 45297584--45297620 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45297574 TTTCAAAAAC
45297584 AAAAGAGAGTGAAAAGAA
1 AAAAGAGAGTGAAAAGAA
* *
45297602 AAAAGAGATTTAAAAGAA
1 AAAAGAGAGTGAAAAGAA
45297620 A
1 A
45297621 TTGAAAGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.11
Consensus pattern (18 bp):
AAAAGAGAGTGAAAAGAA
Found at i:45302037 original size:19 final size:19
Alignment explanation
Indices: 45302000--45302037 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
45301990 GTTGTAAAGT
*
45302000 TTTATTTTTTATTTATTTA
1 TTTATTTTTTACTTATTTA
45302019 TTTA-TTTTTACTTAGTTTA
1 TTTATTTTTTACTTA-TTTA
45302038 AGTCCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTATTTTTTACTTATTTA
Found at i:45306494 original size:28 final size:27
Alignment explanation
Indices: 45306437--45306588 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
45306427 TAAATTGTGC
* *
45306437 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45306464 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45306492 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45306519 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
45306547 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45306574 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45306589 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45306502 original size:55 final size:55
Alignment explanation
Indices: 45306437--45306588 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
45306427 TAAATTGTGC
* *
45306437 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
45306492 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
45306547 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
45306589 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:45312160 original size:59 final size:60
Alignment explanation
Indices: 45312068--45312186 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 60
45312058 CTCGCGATTT
45312068 TGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCA-TTTAGCACCGCTTTTCATCCC
1 TGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCCC
45312127 TGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCCC
1 TGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCCC
45312187 CAAACAGATG
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 38 0.64
60 21 0.36
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (60 bp):
TGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCCC
Found at i:45314550 original size:28 final size:27
Alignment explanation
Indices: 45314493--45314644 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
45314483 TAAATTGTGC
* *
45314493 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45314520 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45314548 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45314575 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
45314603 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45314630 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45314645 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45314558 original size:55 final size:55
Alignment explanation
Indices: 45314493--45314644 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
45314483 TAAATTGTGC
* *
45314493 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
45314548 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
45314603 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
45314645 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:45318327 original size:20 final size:20
Alignment explanation
Indices: 45318283--45318327 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
45318273 AAGTTGACTT
*
45318283 TAGCTCAATTTCAACTCCCA
1 TAGCTCAATTTCAACTCCAA
*
45318303 TAGCTC-ATTTCAGCTCCAA
1 TAGCTCAATTTCAACTCCAA
45318322 TCAGCT
1 T-AGCT
45318328 TACTTGAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (20 bp):
TAGCTCAATTTCAACTCCAA
Found at i:45319049 original size:22 final size:22
Alignment explanation
Indices: 45318998--45319063 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
45318988 GGTATTTGGG
* *
45318998 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
45319019 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
45319041 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
45319064 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:45325054 original size:19 final size:20
Alignment explanation
Indices: 45325028--45325072 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
45325018 CTTTTCATTC
*
45325028 TCTTTTTTTGAATTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
*
45325048 T-TTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
45325067 TCTTTT
1 TCTTTT
45325073 GTATTTTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:45327301 original size:13 final size:13
Alignment explanation
Indices: 45327283--45327318 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
45327273 AAACCGTATG
45327283 CAATTTTTTTTTT
1 CAATTTTTTTTTT
45327296 CAA-TTTTTTTTT
1 CAATTTTTTTTTT
*
45327308 AAATTTTTTTT
1 CAATTTTTTTT
45327319 CTTTACGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:45327674 original size:22 final size:22
Alignment explanation
Indices: 45327623--45327688 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
45327613 GGTATTTGGG
* *
45327623 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
45327644 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
45327666 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
45327689 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:45334216 original size:33 final size:33
Alignment explanation
Indices: 45334178--45334240 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
45334168 GATTACTCAC
45334178 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
45334211 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
45334241 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:45334267 original size:21 final size:21
Alignment explanation
Indices: 45334238--45334293 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
45334228 CAAGCTCTCT
*
45334238 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
45334259 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
45334280 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
45334294 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:45334286 original size:14 final size:14
Alignment explanation
Indices: 45334237--45334293 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
45334227 TCAAGCTCTC
45334237 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
45334250 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
45334264 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
45334278 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
45334292 TT
1 TT
45334294 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:45334353 original size:18 final size:18
Alignment explanation
Indices: 45334255--45334358 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
45334245 TCTTTTTTCG
45334255 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
45334274 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
45334294 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
45334312 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
45334330 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
45334348 CTTTTTGTTTT
1 CTTTTTCTTTT
45334359 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.02
18 46 0.70
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:45334375 original size:6 final size:6
Alignment explanation
Indices: 45334255--45334362 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
45334245 TCTTTTTTCG
* * * **
45334255 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
45334306 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
45334354 -GTTTT CTTT
1 CTTTTT CTTT
45334363 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:45335456 original size:32 final size:30
Alignment explanation
Indices: 45335396--45335461 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
45335386 TTAAACTTGA
*
45335396 TTTTTTTTGCTCACCTTTTTTTTTCTTTTCTT
1 TTTTTTTTGCTCA-CTTTTTTTTACTTTT-TT
45335428 TTTTTTTTGCTCGA-TTTTTTTTCACTTTTTT
1 TTTTTTTTGCTC-ACTTTTTTTT-ACTTTTTT
45335459 TTT
1 TTT
45335462 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 13 0.42
32 17 0.55
33 1 0.03
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (30 bp):
TTTTTTTTGCTCACTTTTTTTTACTTTTTT
Found at i:45335469 original size:13 final size:13
Alignment explanation
Indices: 45335442--45335501 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 13
45335432 TTTTGCTCGA
*
45335442 TTTTTTTTC-ACT
1 TTTTTTTTCGAAT
45335454 TTTTTTTT-GAAT
1 TTTTTTTTCGAAT
*
45335466 TTTTTTTCAATCAAAT
1 TTTTTTT---TCGAAT
45335482 TTTTTTTTCGAAT
1 TTTTTTTTCGAAT
45335495 TTTTTTT
1 TTTTTTT
45335502 GATTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 17 0.43
13 12 0.30
15 1 0.03
16 10 0.25
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTTTTTCGAAT
Found at i:45335511 original size:11 final size:12
Alignment explanation
Indices: 45335428--45335511 Score: 50
Period size: 12 Copynumber: 6.7 Consensus size: 12
45335418 TTCTTTTCTT
45335428 TTTTTTTTGCTCGA
1 TTTTTTTT--TCGA
45335442 -TTTTTTTTC-A
1 TTTTTTTTTCGA
45335452 CTTTTTTTTT-GAA
1 -TTTTTTTTTCG-A
*
45335465 TTTTTTTTCAATCAAA
1 TTTTTTTT---TC-GA
45335481 TTTTTTTTTCGA
1 TTTTTTTTTCGA
*
45335493 ATTTTTTTT-GA
1 TTTTTTTTTCGA
45335504 TTTTTTTT
1 TTTTTTTT
45335512 GTTACTCCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 21
0.70 0.05 0.26
Matches are distributed among these distances:
10 1 0.02
11 11 0.19
12 25 0.44
13 10 0.18
15 1 0.02
16 9 0.16
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:45337671 original size:11 final size:12
Alignment explanation
Indices: 45337655--45337738 Score: 57
Period size: 11 Copynumber: 6.7 Consensus size: 12
45337645 TTGGAGTAAC
45337655 AAAAAAAATC-A
1 AAAAAAAATCGA
*
45337666 AAAAAAATTCGAA
1 AAAAAAAATCG-A
*
45337679 AAAAAAATTGATTGA
1 AAAAAAA---ATCGA
45337694 AAAAAAAATTC-A
1 AAAAAAAA-TCGA
*
45337706 AAAAAAAGT-GA
1 AAAAAAAATCGA
45337717 AAAAAAAATCGA
1 AAAAAAAATCGA
45337729 GCAAAAAAAA
1 --AAAAAAAA
45337739 AGGTGACCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
11 19 0.33
12 11 0.19
13 9 0.16
14 8 0.14
15 8 0.14
16 2 0.04
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:45337736 original size:39 final size:39
Alignment explanation
Indices: 45337655--45337739 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
45337645 TTGGAGTAAC
* *
45337655 AAAAAAAATCAAAAAAAATTCGAAAAAAAAATTGATTG-AA
1 AAAAAAAATCAAAAAAAAGTCGAAAAAAAAATCGA--GCAA
*
45337695 AAAAAAATTCAAAAAAAAGT-GAAAAAAAAATCGAGCAA
1 AAAAAAAATCAAAAAAAAGTCGAAAAAAAAATCGAGCAA
45337733 AAAAAAA
1 AAAAAAA
45337740 GGTGACCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
37 1 0.02
38 9 0.22
39 13 0.32
40 18 0.44
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (39 bp):
AAAAAAAATCAAAAAAAAGTCGAAAAAAAAATCGAGCAA
Found at i:45337737 original size:29 final size:27
Alignment explanation
Indices: 45337705--45337776 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 27
45337695 AAAAAAATTC
*
45337705 AAAAAAAAGTGAAAAAAAAATCGAGCAA
1 AAAAAAAAGTGAAAAAAAAATCAAG-AA
* * *
45337733 AAAAAAAGGTGACCAAAAAAATCAAGTTA
1 AAAAAAAAGTGA-AAAAAAAATCAAG-AA
45337762 AAAAAAAAGTGAAAA
1 AAAAAAAAGTGAAAA
45337777 GTCTTGCGAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (27 bp):
AAAAAAAAGTGAAAAAAAAATCAAGAA
Found at i:45338709 original size:15 final size:16
Alignment explanation
Indices: 45338689--45338720 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45338679 AGAAAATGAA
45338689 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
45338704 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
45338720 A
1 A
45338721 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:45338835 original size:17 final size:18
Alignment explanation
Indices: 45338803--45338836 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45338793 AAAAGAGAGT
*
45338803 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
45338821 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
45338837 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:45346049 original size:33 final size:34
Alignment explanation
Indices: 45345998--45346072 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
45345988 AGATTTAAAC
45345998 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
45346032 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
45346065 AATTTAAT
1 AAATTAAT
45346073 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:45347803 original size:18 final size:18
Alignment explanation
Indices: 45347780--45347818 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45347770 CTCTTTTTGC
*
45347780 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TATTTT
45347798 TCTTTTTCGATTTATTTT
1 TCTTTTTCGATTTATTTT
45347816 TCT
1 TCT
45347819 GTCTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTATTTT
Found at i:45353842 original size:14 final size:14
Alignment explanation
Indices: 45353823--45353849 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45353813 TGCATCTCCC
45353823 CATGCATGAATCTA
1 CATGCATGAATCTA
45353837 CATGCATGAATCT
1 CATGCATGAATCT
45353850 GCCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:45358556 original size:10 final size:9
Alignment explanation
Indices: 45358533--45358589 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 9
45358523 AGCTAATAAC
*
45358533 GAGCTCAAT
1 GAGCTGAAT
45358542 GAGCTGAATT
1 GAGCTGAA-T
*
45358552 GAGCTCGGAT
1 GAGCT-GAAT
*
45358562 GAGCTGACTT
1 GAGCTGA-AT
45358572 GAGCTCGAAT
1 GAGCT-GAAT
45358582 GAGCTGAA
1 GAGCTGAA
45358590 CCACATGAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 11 0.28
10 24 0.62
11 4 0.10
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.23
Consensus pattern (9 bp):
GAGCTGAAT
Found at i:45358563 original size:20 final size:20
Alignment explanation
Indices: 45358533--45358589 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
45358523 AGCTAATAAC
45358533 GAGCTC-AATGAGCTGAATT
1 GAGCTCGAATGAGCTGAATT
* *
45358552 GAGCTCGGATGAGCTGACTT
1 GAGCTCGAATGAGCTGAATT
45358572 GAGCTCGAATGAGCTGAA
1 GAGCTCGAATGAGCTGAA
45358590 CCACATGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 6 0.18
20 27 0.82
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.23
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGAATT
Found at i:45361689 original size:23 final size:23
Alignment explanation
Indices: 45361660--45361769 Score: 184
Period size: 23 Copynumber: 4.8 Consensus size: 23
45361650 ATGGTTTGGG
*
45361660 TTTGGTACGAAATGGTAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
45361683 TTTGGTACGAAATGGAAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
*
45361706 CTTGGTACGAAATGGAAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
*
45361729 TTTGGTACGAAATGGAAATGTAT
1 TTTGGTACGAAATGGAAATGTAA
*
45361752 TTTGGTTCGAAATGGAAA
1 TTTGGTACGAAATGGAAA
45361770 GGGTTCAAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 82 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (23 bp):
TTTGGTACGAAATGGAAATGTAA
Found at i:45370243 original size:17 final size:16
Alignment explanation
Indices: 45370221--45370276 Score: 80
Period size: 14 Copynumber: 3.6 Consensus size: 16
45370211 TAGCTTCTTC
45370221 TTTTTTTCACGAAAATT
1 TTTTTTTCACG-AAATT
45370238 TTTTTTTCACG-AA-T
1 TTTTTTTCACGAAATT
*
45370252 TTTTTTTCACGAATTT
1 TTTTTTTCACGAAATT
45370268 TTTTTTTCA
1 TTTTTTTCA
45370277 ACTTGATATC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 12 0.33
15 3 0.08
16 10 0.28
17 11 0.31
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTTTTTCACGAAATT
Found at i:45370333 original size:11 final size:12
Alignment explanation
Indices: 45370314--45370346 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
45370304 ATGGAAACCA
45370314 AATTTTTTTTTG
1 AATTTTTTTTTG
45370326 AATTTTTTTTTG
1 AATTTTTTTTTG
45370338 AATTTTTTT
1 AATTTTTTT
45370347 GAAGAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:45372005 original size:56 final size:50
Alignment explanation
Indices: 45371890--45372033 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 50
45371880 TCTCACATCG
* * *
45371890 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCA
* * *
45371940 GTGCTAATGCCATGTCCCATACATGGTCTTACGTGGGACCTCTCATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CTC---A
*
45371996 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
45372034 TCTCATTCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 41 0.53
53 3 0.04
56 34 0.44
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCA
Found at i:45374606 original size:28 final size:27
Alignment explanation
Indices: 45374542--45374693 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
45374532 TTATTAAGTC
* * *
45374542 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
45374569 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
45374597 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
45374624 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
45374652 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
45374679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45374694 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:45374626 original size:55 final size:55
Alignment explanation
Indices: 45374542--45374718 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
45374532 TTATTAAGTC
* * * *
45374542 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
45374597 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
45374652 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
45374708 CGCACACTTAG
1 CGCACACTTAG
45374719 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 94 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45388353 original size:40 final size:40
Alignment explanation
Indices: 45388298--45388497 Score: 289
Period size: 40 Copynumber: 5.0 Consensus size: 40
45388288 TGGATGATAA
* * *
45388298 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
45388338 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45388378 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45388418 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45388458 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
45388497 C
1 C
45388498 TGATTAAATC
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.01
39 14 0.10
40 131 0.89
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45392771 original size:40 final size:40
Alignment explanation
Indices: 45392675--45392938 Score: 311
Period size: 40 Copynumber: 6.7 Consensus size: 40
45392665 TTGAATGCTG
* * * * *
45392675 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAA
* * * *
45392715 TCC-GGATAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAA
*
45392754 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
*
45392794 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
45392834 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * *
45392874 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * *
45392913 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
45392939 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
39 57 0.28
40 143 0.71
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
Found at i:45392956 original size:79 final size:80
Alignment explanation
Indices: 45392727--45392971 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
45392717 CGGATAAGAT
* * * * * ** * *
45392727 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
45392791 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
45392807 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
45392872 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
45392887 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
45392951 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
45392965 CCGAAGG
1 CCGAAGG
45392972 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:45400672 original size:40 final size:40
Alignment explanation
Indices: 45400589--45400851 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
45400579 TTGAATGCTG
* * * * * *
45400589 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
45400629 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
45400669 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
45400709 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
45400749 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45400789 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45400828 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45400852 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:45400871 original size:79 final size:80
Alignment explanation
Indices: 45400628--45400886 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
45400618 AAGTGAATAT
* * * * * *
45400628 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
45400692 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
45400708 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
45400773 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
45400788 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
45400852 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
45400867 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
45400887 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:45408592 original size:40 final size:40
Alignment explanation
Indices: 45408562--45408771 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
45408552 GGACTAAGAT
* * * **
45408562 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
45408602 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
45408642 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
45408682 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
45408722 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
45408761 CCGAAGGCATT
1 CCGAAGGCATT
45408772 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:45410580 original size:15 final size:15
Alignment explanation
Indices: 45410548--45410581 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45410538 GTTCAACGAA
*
45410548 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
45410563 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
45410578 GAGG
1 GAGG
45410582 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:45413578 original size:11 final size:13
Alignment explanation
Indices: 45413562--45413593 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
45413552 TTGGAGTAAC
45413562 AAAAAAAA-TC-A
1 AAAAAAAATTCGA
45413573 AAAAAAAATTCGA
1 AAAAAAAATTCGA
45413586 AAAAAAAA
1 AAAAAAAA
45413594 AATTGATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:45413579 original size:12 final size:13
Alignment explanation
Indices: 45413562--45413594 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45413552 TTGGAGTAAC
45413562 AAAAAAAATC-AA
1 AAAAAAAATCGAA
*
45413574 AAAAAAATTCGAA
1 AAAAAAAATCGAA
45413587 AAAAAAAA
1 AAAAAAAA
45413595 ATTGATTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAAATCGAA
Found at i:45413594 original size:19 final size:20
Alignment explanation
Indices: 45413572--45413614 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
45413562 AAAAAAAATC
45413572 AAAAAAAAATTC-GAAAAAA
1 AAAAAAAAATTCAGAAAAAA
***
45413591 AAAAATTGATTCAGAAAAAA
1 AAAAAAAAATTCAGAAAAAA
45413611 AAAA
1 AAAA
45413615 TTCAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAAAAAAATTCAGAAAAAA
Found at i:45413617 original size:15 final size:14
Alignment explanation
Indices: 45413572--45413625 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 14
45413562 AAAAAAAATC
45413572 AAAAAAAAATTCGAAA
1 AAAAAAAAATTC--AA
45413588 AAAAAAAATTGATTCAGA
1 AAAAAAAA---ATTCA-A
45413606 AAAAAAAAATTCAA
1 AAAAAAAAATTCAA
45413620 AAAAAA
1 AAAAAA
45413626 TCGAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 8 0.24
17 1 0.03
18 9 0.26
19 4 0.12
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAAAAAAATTCAA
Found at i:45413657 original size:46 final size:46
Alignment explanation
Indices: 45413559--45413660 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 46
45413549 GTATTGGAGT
** **
45413559 AACAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAAATTGATTCAG
1 AACAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAAAAAGATAAAG
45413605 AA-AAAAAAAATTC-AAAAAAAA-TCGAAAAAAAAAGTAAAAGA-AAAG
1 AACAAAAAAAA-TCAAAAAAAAATTCGAAAAAAAAA--AAAAGATAAAG
45413650 AACAAAAAAAA
1 AACAAAAAAAA
45413661 AGTGAAAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
44 12 0.25
45 20 0.42
46 16 0.33
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (46 bp):
AACAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAAAAAGATAAAG
Found at i:45414720 original size:17 final size:18
Alignment explanation
Indices: 45414688--45414721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45414678 AAAAGAGAGT
*
45414688 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
45414706 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
45414722 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:45420967 original size:13 final size:13
Alignment explanation
Indices: 45420949--45420994 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
45420939 ATAGGTACGT
45420949 AAAAAAATCGAAA
1 AAAAAAATCGAAA
45420962 AAAAAAATCGAAA
1 AAAAAAATCGAAA
*
45420975 AAAAAAATTTGAAA
1 AAAAAAA-TCGAAA
45420989 AAAAAA
1 AAAAAA
45420995 TTGCATACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAAAAATCGAAA
Found at i:45420968 original size:14 final size:14
Alignment explanation
Indices: 45420949--45420994 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
45420939 ATAGGTACGT
45420949 AAAAAAATCG-AAA
1 AAAAAAATCGAAAA
45420962 AAAAAAATCGAAAA
1 AAAAAAATCGAAAA
* *
45420976 AAAAAATTTGAAAA
1 AAAAAAATCGAAAA
45420990 AAAAA
1 AAAAA
45420995 TTGCATACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (14 bp):
AAAAAAATCGAAAA
Found at i:45422084 original size:18 final size:18
Alignment explanation
Indices: 45422046--45422087 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45422036 AAATCGAAAG
* **
45422046 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
45422064 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
45422082 AAAAGA
1 AAAAGA
45422088 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:45429618 original size:33 final size:33
Alignment explanation
Indices: 45429580--45429642 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
45429570 GATTACTCAC
45429580 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
45429613 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
45429643 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:45429669 original size:14 final size:13
Alignment explanation
Indices: 45429645--45429696 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
45429635 TCTCTTTCAA
*
45429645 TTTCTTTTTTCGCTT
1 TTTC-TTTTTC-CAT
*
45429660 TTTCTTTTTCAAT
1 TTTCTTTTTCCAT
*
45429673 TTTCTTTTTTTCAT
1 TTTC-TTTTTCCAT
45429687 TTTCTTTTTC
1 TTTCTTTTTC
45429697 TCTCACTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 10 0.32
14 17 0.55
15 4 0.13
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTCTTTTTCCAT
Found at i:45429669 original size:21 final size:21
Alignment explanation
Indices: 45429639--45429695 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
45429629 TCAAGCTCTC
*
45429639 TTTCAATTTCTTTTTTCGCTT
1 TTTCATTTTCTTTTTTCGCTT
* ** **
45429660 TTTCTTTTTCAATTTTCTTTT
1 TTTCATTTTCTTTTTTCGCTT
45429681 TTTCATTTTCTTTTT
1 TTTCATTTTCTTTTT
45429696 CTCTCACTTT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTCATTTTCTTTTTTCGCTT
Found at i:45429669 original size:27 final size:27
Alignment explanation
Indices: 45429639--45429696 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
45429629 TCAAGCTCTC
*
45429639 TTTCAA-TTTCTTTTTTCGCTTTTTCTT
1 TTTCAATTTTCTTTTTT-GCATTTTCTT
*
45429666 TTTCAATTTTCTTTTTTTCATTTTCTT
1 TTTCAATTTTCTTTTTTGCATTTTCTT
45429693 TTTC
1 TTTC
45429697 TCTCACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTCAATTTTCTTTTTTGCATTTTCTT
Found at i:45429694 original size:12 final size:12
Alignment explanation
Indices: 45429659--45429796 Score: 81
Period size: 12 Copynumber: 11.5 Consensus size: 12
45429649 TTTTTTCGCT
45429659 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
45429672 TTTTCTTTTTTTCA
1 TTTTC--TTTTTCA
45429686 TTTTCTTTTTC-
1 TTTTCTTTTTCA
**
45429697 TCTCACTTTTTCGA
1 T-TTTCTTTTTC-A
45429711 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
45429721 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
*
45429734 TTTTCTTTTTCG
1 TTTTCTTTTTCA
*
45429746 TTTTCTTTTT-G
1 TTTTCTTTTTCA
45429757 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
45429767 ATTTCTTTTTCA
1 TTTTCTTTTTCA
* * *
45429779 ATCTCTTTTTCC
1 TTTTCTTTTTCA
45429791 TTTTCT
1 TTTTCT
45429797 CGCTCAATGG
Statistics
Matches: 99, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.03
10 4 0.04
11 10 0.10
12 61 0.62
13 9 0.09
14 6 0.06
15 6 0.06
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:45429723 original size:18 final size:18
Alignment explanation
Indices: 45429657--45429795 Score: 95
Period size: 18 Copynumber: 7.7 Consensus size: 18
45429647 TCTTTTTTCG
45429657 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
45429676 CTTTTTTTCATTTTCTTTTT
1 C--TTTTTCTTTTTCAATTT
* ** *
45429696 CTCTCACTTTTTCGATTT
1 CTTTTTCTTTTTCAATTT
*
45429714 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
45429732 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
45429750 CTTTTT-GTTTTC--TTT
1 CTTTTTCTTTTTCAATTT
** *
45429765 CAATTTCTTTTTCAATCT
1 CTTTTTCTTTTTCAATTT
*
45429783 CTTTTTCCTTTTC
1 CTTTTTCTTTTTC
45429796 TCGCTCAATG
Statistics
Matches: 90, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
15 7 0.08
16 5 0.06
17 5 0.06
18 57 0.63
19 1 0.01
20 4 0.04
21 11 0.12
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:45429777 original size:6 final size:6
Alignment explanation
Indices: 45429657--45429764 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
45429647 TCTTTTTTCG
* * * **
45429657 CTTTTT CTTTTT CAATTTTCT TTTTTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C--TTTT-T CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
45429708 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
45429756 -GTTTT CTTT
1 CTTTTT CTTT
45429765 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 4 0.05
8 4 0.05
9 1 0.01
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:45430798 original size:11 final size:10
Alignment explanation
Indices: 45430781--45430818 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
45430771 AGACTTTTCA
*
45430781 CTTTTTTGTT
1 CTTTTTTTTT
45430791 CTTTTTTTTT
1 CTTTTTTTTT
45430801 AC-TTTTTTTT
1 -CTTTTTTTTT
45430811 CTTTTTTT
1 CTTTTTTT
45430819 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:45436058 original size:24 final size:23
Alignment explanation
Indices: 45436000--45436058 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
45435990 AAATAATGTT
*
45436000 GATTTTGGTACGATATGGTAATG
1 GATTTTGGTACGAAATGGTAATG
**
45436023 GGGTTTGGTACGAAATGGT-ATG
1 GATTTTGGTACGAAATGGTAATG
45436045 GAAATTTTGGTACG
1 G--ATTTTGGTACG
45436059 TAATAGACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (23 bp):
GATTTTGGTACGAAATGGTAATG
Found at i:45442392 original size:20 final size:20
Alignment explanation
Indices: 45442367--45442411 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
45442357 CATGTGGTTC
*
45442367 AGCTCACTT-GAGCTCAAGTT
1 AGCTCA-TTCGAGCTCAAGTG
*
45442387 AGCTCATTCGAGGTCAAGTG
1 AGCTCATTCGAGCTCAAGTG
45442407 AGCTC
1 AGCTC
45442412 CCACGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTG
Found at i:45442571 original size:28 final size:27
Alignment explanation
Indices: 45442540--45442603 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
45442530 ACTTGTCAGC
* *
45442540 TTATTACA-TGTTTTAATTATGTTTTAAT
1 TTATTACAGTG-TTTAA-TATGTCTTAAA
*
45442568 TTATTATGAGTGTTTAATATGTCTTAAA
1 TTATTA-CAGTGTTTAATATGTCTTAAA
45442596 TTATTACA
1 TTATTACA
45442604 AGAATTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.03
28 21 0.70
29 6 0.20
30 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (27 bp):
TTATTACAGTGTTTAATATGTCTTAAA
Found at i:45446374 original size:10 final size:10
Alignment explanation
Indices: 45446361--45446397 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
45446351 AAGTCATTGT
45446361 AAAAAAATTC
1 AAAAAAATTC
45446371 AAAAAAA-TC
1 AAAAAAATTC
45446380 GAAAAAAATTC
1 -AAAAAAATTC
45446391 AAAAAAA
1 AAAAAAA
45446398 AGTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:45447571 original size:37 final size:36
Alignment explanation
Indices: 45447466--45447552 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
45447456 GAAACGAAAT
*
45447466 AAAAAGAAGATGAGTGTGAGGACGAAAAGAAAATTG
1 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
45447502 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
1 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
*
45447538 AAAAAGAAGGTGAGT
1 AAAAAGAAGATGAGT
45447553 TTGGAGAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.54, C:0.02, G:0.30, T:0.14
Consensus pattern (36 bp):
AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
Found at i:45447587 original size:18 final size:18
Alignment explanation
Indices: 45447564--45447621 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
45447554 TGGAGAAATG
*
45447564 AAAGAAAAAGACATTGAA
1 AAAGAAAAAGAAATTGAA
* *
45447582 AAAGAAAAAGAAACTGCA
1 AAAGAAAAAGAAATTGAA
*
45447600 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
45447618 AAAG
1 AAAG
45447622 TGAGTGAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.67, C:0.05, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Done.