Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold89
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: 5168001
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 33045 characters in sequence are not A, C, G, or T
File 26 of 27
Found at i:4637713 original size:26 final size:24
Alignment explanation
Indices: 4637666--4637740 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 24
4637656 AATAATTAAA
** *
4637666 ATATAATAT-AATTTTTTAAAATTT
1 ATATAATATAAAAATTTT-AAATAT
4637690 ATATTAATATAAAATATTTTAAATAT
1 ATA-TAATATAAAA-ATTTTAAATAT
4637716 ATATAATATAAAAATATTTAAATAT
1 ATATAATATAAAAAT-TTTAAATAT
4637741 CAATAGACAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.11
25 25 0.57
26 10 0.23
27 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATAATATAAAAATTTTAAATAT
Found at i:4640035 original size:18 final size:19
Alignment explanation
Indices: 4640012--4640047 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4640002 TTTATATACA
4640012 TTAAATTTCTTTG-ATAAG
1 TTAAATTTCTTTGTATAAG
*
4640030 TTAAATTTTTTTGTATAA
1 TTAAATTTCTTTGTATAA
4640048 CTAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
TTAAATTTCTTTGTATAAG
Found at i:4640269 original size:10 final size:10
Alignment explanation
Indices: 4640251--4640289 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
4640241 ATAATAATGT
*
4640251 AAAAGGAAAA
1 AAAAAGAAAA
4640261 AAAAAGAAAA
1 AAAAAGAAAA
*
4640271 AAAGAGAAAA
1 AAAAAGAAAA
4640281 AGAAAAGAA
1 A-AAAAGAA
4640290 GGTTGAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:4640701 original size:47 final size:46
Alignment explanation
Indices: 4640564--4640728 Score: 147
Period size: 47 Copynumber: 3.5 Consensus size: 46
4640554 CAATAAGAAA
*
4640564 ATAA-AATAAATAAAATTAAAAAAG-AAAAAAAGTATGTTTAGATAG
1 ATAATAATAAA-AAAATAAAAAAAGAAAAAAAAGTATGTTTAGATAG
* * ** * * * **
4640609 ATAATGATAAAAAGAA-ATAAAAAGAAATTAAGGAAGGTCGAAGATAG
1 ATAATAATAAAAA-AATAAAAAAAGAAAAAAAAGTATGT-TTAGATAG
*
4640656 ACAATAATAAAAAAAGTAAAAAAAGAAAAAAAAGTATGTTTAGATAG
1 ATAATAATAAAAAAA-TAAAAAAAGAAAAAAAAGTATGTTTAGATAG
4640703 ATAATAATAAAAGAAAATAAATAAAA
1 ATAATAAT-AAA-AAAATAAA-AAAA
4640729 TTAAAAGAGA
Statistics
Matches: 90, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
45 12 0.13
46 17 0.19
47 30 0.33
48 23 0.26
49 8 0.09
ACGTcount: A:0.65, C:0.01, G:0.13, T:0.20
Consensus pattern (46 bp):
ATAATAATAAAAAAATAAAAAAAGAAAAAAAAGTATGTTTAGATAG
Found at i:4640840 original size:61 final size:59
Alignment explanation
Indices: 4640661--4640907 Score: 269
Period size: 60 Copynumber: 4.3 Consensus size: 59
4640651 GATAGACAAT
* * *
4640661 AATAAA-AAAAGTAAAA-AAAGAAAAAAAAGTATGTTTAGATAGATAATAATAAAAGAA
1 AATAAATAAAATTAAAAGAGAGAAAAAAAAGTATGTTTAGATAGACAATAATAAAAGAA
* *
4640718 AATAAATAAAATTAAAAGAGAGAAAAAAAAGGTATGTTTAAATAAACAATAATAAAAGAA
1 AATAAATAAAATTAAAAGAGAGAAAAAAAA-GTATGTTTAGATAGACAATAATAAAAGAA
* *
4640778 AATAAATAAAATTAAAAGTGAGACAAAAAAAGATATGTTTAGATAGACAATAATAAAGGAA
1 AATAAATAAAATTAAAAGAGAGA-AAAAAAAG-TATGTTTAGATAGACAATAATAAAAGAA
* * * * * *
4640839 AAT-AAT-AAATT-AAA-ATA-AAAAAAGA-TATATTTAGATATATAACAATAAAA-AA
1 AATAAATAAAATTAAAAGAGAGAAAAAAAAGTATGTTTAGATAGACAATAATAAAAGAA
*
4640891 AATTAAAGAAAATTAAA
1 AA-TAAATAAAATTAAA
4640908 GAAGGTTGAG
Statistics
Matches: 163, Mismatches: 18, Indels: 19
0.81 0.09 0.09
Matches are distributed among these distances:
52 4 0.02
53 21 0.13
54 2 0.01
55 11 0.07
56 3 0.02
57 7 0.04
58 12 0.07
59 16 0.10
60 52 0.32
61 35 0.21
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.22
Consensus pattern (59 bp):
AATAAATAAAATTAAAAGAGAGAAAAAAAAGTATGTTTAGATAGACAATAATAAAAGAA
Found at i:4640984 original size:103 final size:100
Alignment explanation
Indices: 4640818--4641111 Score: 323
Period size: 100 Copynumber: 2.9 Consensus size: 100
4640808 AGATATGTTT
* * *
4640818 AGATAGACAATAATAAAGGAAAATAATAAATTAAAATAAAAAAAGATATATTTAGATATATAACA
1 AGATAGACAATAATAAAAGAAAATAATAAATTAAAAAAAAAAAAGATATATTTAGATAGATAACA
4640883 ATAAAAA-AAATTAAAGAAAATTAAAGAAGGTTG-
66 ATAAAAAGAAATTAAAGAAAATTAAAGAAGGTTGA
*
4640916 AGAGTAGA-AATAATAAAAGAAAATAAATAAAATTAAAAGAAAAAAAAAAGATATTTTTAGATAG
1 AGA-TAGACAATAATAAAAGAAAAT-AAT-AAATT--AA-AAAAAAAAAAGATATATTTAGATAG
*
4640980 ATAACAATAAAAAGAAATTAAAGGAAATTAAAGAAGGTTGA
60 ATAACAATAAAAAGAAATTAAAGAAAATTAAAGAAGGTTGA
* * * * *
4641021 AGATAGACAATAAT-AAAG-AAA-AAGAAACTACCGAAAAAGAAAAAGTATATGTTTAGATAAAT
1 AGATAGACAATAATAAAAGAAAATAATAAATTA---AAAAAAAAAAAG-ATATATTTAGATAGAT
* * * *
4641083 AATAAT-AAAGGAAAATAAATAAAATTAAA
62 AACAATAAAAAGAAATTAAAGAAAATTAAA
4641112 AGAGAGAAAA
Statistics
Matches: 168, Mismatches: 15, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
98 19 0.11
99 7 0.04
100 38 0.23
101 22 0.13
102 2 0.01
103 38 0.23
104 33 0.20
105 9 0.05
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.21
Consensus pattern (100 bp):
AGATAGACAATAATAAAAGAAAATAATAAATTAAAAAAAAAAAAGATATATTTAGATAGATAACA
ATAAAAAGAAATTAAAGAAAATTAAAGAAGGTTGA
Found at i:4641039 original size:104 final size:97
Alignment explanation
Indices: 4640818--4641111 Score: 317
Period size: 103 Copynumber: 2.9 Consensus size: 97
4640808 AGATATGTTT
* *
4640818 AGATAGACAATAATAAAGGAAAATAATAAATTAAAATAAAAAAAGATATATTTAGATATATAACA
1 AGATAGACAATAATAAA-GAAAATAATAAATTAAAAAAAAAAAAGATATATTTAGATAGATAACA
4640883 ATAAAAAAAATTAAAGAAAATTAAAGAAGGTTG
65 ATAAAAAAAATTAAAGAAAATTAAAGAAGGTTG
*
4640916 AGAGTAGA-AATAATAAAAGAAAATAAATAAAATTAAAAGAAAAAAAAAAGATATTTTTAGATAG
1 AGA-TAGACAATAAT-AAAGAAAAT-AAT-AAATT--AA-AAAAAAAAAAGATATATTTAGATAG
*
4640980 ATAACAATAAAAAGAAATTAAAGGAAATTAAAGAAGGTTG
59 ATAACAATAAAAA-AAATTAAAGAAAATTAAAGAAGGTTG
* * * * *
4641020 AAGATAGACAATAATAAAG-AAA-AAGAAACTACCGAAAAAGAAAAAGTATATGTTTAGATAAAT
1 -AGATAGACAATAATAAAGAAAATAATAAATTA---AAAAAAAAAAAG-ATATATTTAGATAGAT
* * *
4641083 AATAATAAAGGAAAA-TAAATAAAATTAAA
61 AACAATAAA-AAAAATTAAAGAAAATTAAA
4641112 AGAGAGAAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 28
0.80 0.06 0.13
Matches are distributed among these distances:
98 16 0.10
99 10 0.06
100 31 0.18
101 28 0.17
102 3 0.02
103 38 0.23
104 33 0.20
105 9 0.05
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.21
Consensus pattern (97 bp):
AGATAGACAATAATAAAGAAAATAATAAATTAAAAAAAAAAAAGATATATTTAGATAGATAACAA
TAAAAAAAATTAAAGAAAATTAAAGAAGGTTG
Found at i:4641087 original size:159 final size:157
Alignment explanation
Indices: 4640924--4641321 Score: 464
Period size: 160 Copynumber: 2.5 Consensus size: 157
4640914 TGAGAGTAGA
**
4640924 AATAATAAAAGAAAATAAATAAAATTAAAAGA-AAAAAAAAAGATATTTTTAGATAGATAACAAT
1 AATAATAAAAGAAAATAAATAAAATTAAAAGAGAAAAAAAAAGATATGCTTAGATAGATAACAAT
* *
4640988 AAAAAGAAATTAAAGGAAATTAAAGAAGGTTGAAGATAGACAATAATAAAGAAAAAGAAACTACC
66 AAAAAGAAATGAAAGGAAATTAAAGAAGGTTGAAGATAGACAATAATAAAG-AAAA-AAACTACA
*
4641053 GAAAAAGAAAAAGTATATGTTTAGATAAAT
129 GAAAAAGAAAAA-TATATATTTAGATAAAT
* * * * **
4641083 AATAATAAAGGAAAATAAATAAAATTAAAAGAGAGAAAAAGAGGTATGCTTAGATAGATAATGAT
1 AATAATAAAAGAAAATAAATAAAATTAAAAGAGAAAAAAAAAGATATGCTTAGATAGATAACAAT
* * * * * *
4641148 AAAAGGAAATGAAAGGAAATTAAGGAAGGTTGAGGATAGACAATTATAAAGAAAAAAATTATAGA
66 AAAAAGAAATGAAAGGAAATTAAAGAAGGTTGAAGATAGACAATAATAAAGAAAAAAACTACAGA
*
4641213 GAAAGAAAAATATATATTTAGATAAAT
131 AAAAGAAAAATATATATTTAGATAAAT
* * *
4641240 AATAATAAAA-AAATATGAAA-AAAA-GAAAATGAGAAGAAAAAAAGAAAGGTG-TAAGATAGAT
1 AATAATAAAAGAAA-AT-AAATAAAATTAAAA-GAGAA-AAAAAAAGATA--TGCTTAGATAGAT
* *
4641301 AATAATAAAAAAAAATAGAAA
60 AACAATAAAAAGAAAT-GAAA
4641322 AAAAGATAAA
Statistics
Matches: 203, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
156 7 0.03
157 35 0.17
158 27 0.13
159 57 0.28
160 77 0.38
ACGTcount: A:0.63, C:0.02, G:0.16, T:0.20
Consensus pattern (157 bp):
AATAATAAAAGAAAATAAATAAAATTAAAAGAGAAAAAAAAAGATATGCTTAGATAGATAACAAT
AAAAAGAAATGAAAGGAAATTAAAGAAGGTTGAAGATAGACAATAATAAAGAAAAAAACTACAGA
AAAAGAAAAATATATATTTAGATAAAT
Found at i:4641209 original size:15 final size:16
Alignment explanation
Indices: 4641189--4641226 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4641179 GAGGATAGAC
4641189 AATTATAAAGAAA-AA
1 AATTATAAAGAAAGAA
*
4641204 AATTATAGAGAAAGAA
1 AATTATAAAGAAAGAA
*
4641220 AAATATA
1 AATTATA
4641227 TATTTAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (16 bp):
AATTATAAAGAAAGAA
Found at i:4641440 original size:38 final size:37
Alignment explanation
Indices: 4641387--4641464 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
4641377 GGAGGGAACG
*
4641387 AAAAGAAGATTGAAAACAGACAATAATAAGAAGAAAAA
1 AAAAGAAGATCGAAAACAGACAATAATAA-AAGAAAAA
* * * *
4641425 AAAAGAAGGTCGAAAATAGATAATAATAAAATAAAAA
1 AAAAGAAGATCGAAAACAGACAATAATAAAAGAAAAA
4641462 AAA
1 AAA
4641465 GGTAAATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.69, C:0.04, G:0.14, T:0.13
Consensus pattern (37 bp):
AAAAGAAGATCGAAAACAGACAATAATAAAAGAAAAA
Found at i:4645862 original size:30 final size:32
Alignment explanation
Indices: 4645819--4645885 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
4645809 AATTGGACGG
* *
4645819 ATTAGATTAATTTT-AGGTTGTATAA-TTTTGA
1 ATTAAATTAATTTTGA-GTTGTAAAATTTTTGA
*
4645850 ATTAAATT-ATTTTGAGTTTTAAAATTTTTGA
1 ATTAAATTAATTTTGAGTTGTAAAATTTTTGA
4645881 ATTAA
1 ATTAA
4645886 TTTTAAGTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
ATTAAATTAATTTTGAGTTGTAAAATTTTTGA
Found at i:4646918 original size:5 final size:5
Alignment explanation
Indices: 4646908--4646960 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
4646898 TTTTATCAAC
**
4646908 TTAAA TTAAA TTAAA TT-AA TT-AA TT-AA TTAAA TT-TT TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
4646954 TTTAAA T
1 -TTAAA T
4646961 ACAAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 14 0.34
5 22 0.54
6 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (5 bp):
TTAAA
Found at i:4647246 original size:15 final size:14
Alignment explanation
Indices: 4647209--4647250 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
4647199 TAATTAAAAA
4647209 ATAATATAAA-TAT
1 ATAATATAAATTAT
* *
4647222 ATATTTTAAATCTAT
1 ATAATATAAAT-TAT
4647237 ATAATATAAATTAT
1 ATAATATAAATTAT
4647251 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.35
14 3 0.13
15 12 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATATAAATTAT
Found at i:4647422 original size:13 final size:13
Alignment explanation
Indices: 4647373--4647445 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
4647363 GACGATGATT
4647373 ATATAAATATA-A
1 ATATAAATATATA
*
4647385 A-ATAGATATATTA
1 ATATAAATATA-TA
*
4647398 AT-TAAAAATATA
1 ATATAAATATATA
4647410 ATATAAATATATA
1 ATATAAATATATA
* *
4647423 TTTTAAATTTATATA
1 ATATAAA--TATATA
4647438 ATATAAAT
1 ATATAAAT
4647446 TATTTAAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.17
12 5 0.11
13 23 0.49
15 11 0.23
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (13 bp):
ATATAAATATATA
Found at i:4647422 original size:28 final size:29
Alignment explanation
Indices: 4647390--4647452 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
4647380 TATAAAATAG
4647390 ATATATTAATTAAA-AATATAATATAAAT
1 ATATATTAATTAAATAATATAATATAAAT
*
4647418 ATATATT--TTAAATTTATATAATATAAAT
1 ATATATTAATTAAA-TAATATAATATAAAT
4647446 -TAT-TTAA
1 ATATATTAA
4647453 ATATTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
26 7 0.23
27 3 0.10
28 20 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
ATATATTAATTAAATAATATAATATAAAT
Found at i:4647430 original size:24 final size:24
Alignment explanation
Indices: 4647376--4647456 Score: 58
Period size: 26 Copynumber: 3.3 Consensus size: 24
4647366 GATGATTATA
* * *
4647376 TAAATATAAAATAGATATATTAATTA
1 TAAATATAATATAAATATA-T-ATTT
*
4647402 AAAATATAATATAAATATATATTT
1 TAAATATAATATAAATATATATTT
* *
4647426 TAAAT-TTATAT-AATATAAATTATT
1 TAAATATAATATAAATATATA-T-TT
4647450 TAAATAT
1 TAAATAT
4647457 TAAATTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.16
23 6 0.13
24 14 0.31
25 2 0.04
26 16 0.36
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (24 bp):
TAAATATAATATAAATATATATTT
Found at i:4647446 original size:15 final size:15
Alignment explanation
Indices: 4647405--4647446 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4647395 TTAATTAAAA
4647405 ATATAATATAAA--T
1 ATATAATATAAATTT
* *
4647418 ATATATTTTAAATTT
1 ATATAATATAAATTT
4647433 ATATAATATAAATT
1 ATATAATATAAATT
4647447 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
15 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATAATATAAATTT
Found at i:4647593 original size:27 final size:28
Alignment explanation
Indices: 4647550--4647604 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
4647540 TGATAGACGG
*
4647550 TAATTATATAAATATAAAATAGATATAT
1 TAATTATAAAAATATAAAATAGATATAT
*
4647578 TAATTA-AAAAATATAATATAGATATAT
1 TAATTATAAAAATATAAAATAGATATAT
4647605 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
TAATTATAAAAATATAAAATAGATATAT
Found at i:4647723 original size:201 final size:200
Alignment explanation
Indices: 4647468--4648044 Score: 840
Period size: 201 Copynumber: 2.9 Consensus size: 200
4647458 AAATTTTATT
* * * * *
4647468 TGGTGTCATTTTGTACTTTTTTTTTTAGCCTTT-AGAGTCTGTCTATCTTAACATCATTAATTTT
1 TGGTGCCATTTTGTATTTTTTTTTTTAGCTTTTAAG-GTCTATCCATCTTAACATCATTAATTTT
* * *
4647532 TTTACAAATGATAGACGGTAATTATATAAATATAAAATAGATATATTAATTAAAAAATATAATAT
65 TTTACAGATGATAGACGGTGATTATATAAATATAAGATAGATATATTAATTAAAAAATATAATAT
* *
4647597 AGATATATATTTTAAATTTATATAATATAAATTATTTAAATATTAAATTTTGTCGGGCCGATAAT
130 AGATATATATTTTAAATTTATATAATATAAATTATTTAAATATTAAATTTTATCGGGCCGACAAT
*
4647662 AGTACC
195 AGTACA
*
4647668 TGGTGCCATTTTGTATTTTTGTTTTTTAGCTTTTAAGGTCTATCCATCTTAACATCATTAACTTT
1 TGGTGCCATTTTGTATTTTT-TTTTTTAGCTTTTAAGGTCTATCCATCTTAACATCATTAATTTT
* *
4647733 TTTATAGGTGATAGACGGTGATTATATAAATATAAGATAGATATATTAATTAAAAAATATAATAT
65 TTTACAGATGATAGACGGTGATTATATAAATATAAGATAGATATATTAATTAAAAAATATAATAT
* ** *
4647798 AGATATATATTTTAAATTTATATAATATAAATTATTTAAATATTAAATTTTATGGGGTTGGCAAT
130 AGATATATATTTTAAATTTATATAATATAAATTATTTAAATATTAAATTTTATCGGGCCGACAAT
4647863 AGTACA
195 AGTACA
* ** *
4647869 TGGTACCA-TTTG--TCCTTTTTTTTAG-TCTTTAGGGTCTATCCATCTTAACATCATTAATTTT
1 TGGTGCCATTTTGTATTTTTTTTTTTAGCT-TTTAAGGTCTATCCATCTTAACATCATTAATTTT
* * ***
4647930 TTTACTGAGGATAGATATTGATTATATAAATATAAGATAGATATATTAATTAAAAAATATAATAT
65 TTTACAGATGATAGACGGTGATTATATAAATATAAGATAGATATATTAATTAAAAAATATAATAT
*
4647995 AGATATATATTTTAAATTAATATAATATAAATTATTTAAATATTAAATTT
130 AGATATATATTTTAAATTTATATAATATAAATTATTTAAATATTAAATTT
4648045 AATAATTATA
Statistics
Matches: 343, Mismatches: 31, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
196 1 0.00
197 147 0.43
198 3 0.01
200 22 0.06
201 168 0.49
202 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (200 bp):
TGGTGCCATTTTGTATTTTTTTTTTTAGCTTTTAAGGTCTATCCATCTTAACATCATTAATTTTT
TTACAGATGATAGACGGTGATTATATAAATATAAGATAGATATATTAATTAAAAAATATAATATA
GATATATATTTTAAATTTATATAATATAAATTATTTAAATATTAAATTTTATCGGGCCGACAATA
GTACA
Found at i:4648009 original size:27 final size:28
Alignment explanation
Indices: 4647944--4648023 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
4647934 CTGAGGATAG
* * *
4647944 ATATTGATTATATAAATATAAGATAGAT
1 ATATTAATTAAATAAATATAATATAGAT
4647972 ATATTAATTAAA-AAATATAATATAGAT
1 ATATTAATTAAATAAATATAATATAGAT
* *
4647999 ATA-TATTTTAAATTAATATAATATA
1 ATATTA-ATTAAATAAATATAATATA
4648024 AATTATTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 22 0.49
28 21 0.47
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (28 bp):
ATATTAATTAAATAAATATAATATAGAT
Found at i:4648055 original size:31 final size:31
Alignment explanation
Indices: 4648006--4648140 Score: 110
Period size: 31 Copynumber: 4.0 Consensus size: 31
4647996 GATATATATT
* *
4648006 TTAAA-TTAATATAATATAAATTATTTAAATA
1 TTAAATTTAATA-ATTATAAAATATTTAAATA
4648037 TTAAATTTAATAATTATAAAATATTCTAAATATAA
1 TTAAATTTAATAATTATAAAATATT-T-AA-AT-A
* * * *
4648072 TTATAATATAATACAAATAAATAAATTATTTATATA
1 TTA-AATTTAAT---AAT-TATAAAATATTTAAATA
4648108 TTAAATTTAATAATTATAAAATATTTTAAATA
1 TTAAATTTAATAATTATAAAATA-TTTAAATA
4648140 T
1 T
4648141 AATTATAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
31 23 0.28
32 18 0.22
33 2 0.02
34 2 0.02
35 11 0.13
36 11 0.13
37 2 0.02
38 1 0.01
39 4 0.05
40 9 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAAATTTAATAATTATAAAATATTTAAATA
Found at i:4648066 original size:25 final size:25
Alignment explanation
Indices: 4648038--4648143 Score: 73
Period size: 25 Copynumber: 4.4 Consensus size: 25
4648028 ATTTAAATAT
4648038 TAAATTTAATAATTATAAAATATTC
1 TAAATTTAATAATTATAAAATATTC
* *
4648063 TAAA--T-ATAATTATAATATAATAC
1 TAAATTTAATAATTATAAAAT-ATTC
* **
4648086 -AAA-TAAATAAATTAT-TTATATAT-
1 TAAATTTAAT-AATTATAAAATAT-TC
*
4648109 TAAATTTAATAATTATAAAATATTT
1 TAAATTTAATAATTATAAAATATTC
*
4648134 TAAATATAAT
1 TAAATTTAAT
4648144 TATAATATGA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
22 15 0.24
23 6 0.10
24 15 0.24
25 27 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATTTAATAATTATAAAATATTC
Found at i:4648096 original size:71 final size:71
Alignment explanation
Indices: 4648016--4648185 Score: 274
Period size: 71 Copynumber: 2.4 Consensus size: 71
4648006 TTAAATTAAT
4648016 ATAATATAAATTATTTAAATATTAAATTTAATAATTATAAAATATTCTAAATATAATTATAATAT
1 ATAA-ATAAATTATTTAAATATTAAATTTAATAATTATAAAATATTCTAAATATAATTATAATAT
4648081 AATACAA
65 AATACAA
* * *
4648088 ATAAATAAATTATTTATATATTAAATTTAATAATTATAAAATATTTTAAATATAATTATAATATG
1 ATAAATAAATTATTTAAATATTAAATTTAATAATTATAAAATATTCTAAATATAATTATAATATA
*
4648153 ATATAA
66 ATACAA
4648159 ATAAATAAATTA-TTAAATA-T-AATTTAA
1 ATAAATAAATTATTTAAATATTAAATTTAA
4648186 ACACTCTTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
68 7 0.08
69 1 0.01
70 6 0.06
71 75 0.81
72 4 0.04
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (71 bp):
ATAAATAAATTATTTAAATATTAAATTTAATAATTATAAAATATTCTAAATATAATTATAATATA
ATACAA
Found at i:4648159 original size:22 final size:21
Alignment explanation
Indices: 4648046--4648182 Score: 79
Period size: 22 Copynumber: 6.3 Consensus size: 21
4648036 ATTAAATTTA
* *
4648046 ATAATTATAAAATATTCTAAAT
1 ATAATTATAATATA-TATAAAT
*
4648068 ATAATTATAATATAATACAAAT
1 ATAATTATAATAT-ATATAAAT
*
4648090 AAATAAATTAT-TTATATATTAAATTT
1 --AT-AATTATAATATATA-TAAA--T
* *
4648116 AATAATTATAAAATATTTTAAAT
1 -ATAATTATAATATA-TATAAAT
4648139 ATAATTATAATATGATATAAAT
1 ATAATTATAATAT-ATATAAAT
4648161 A-AA-TA-AAT-TAT-TAAAT
1 ATAATTATAATATATATAAAT
4648177 ATAATT
1 ATAATT
4648183 TAAACACTCT
Statistics
Matches: 93, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
16 6 0.06
17 4 0.04
18 2 0.02
19 3 0.03
20 2 0.02
21 2 0.02
22 36 0.39
23 6 0.06
24 14 0.15
25 16 0.17
26 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATTATAATATATATAAAT
Found at i:4651571 original size:13 final size:14
Alignment explanation
Indices: 4651541--4651573 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4651531 AACCACCGCC
4651541 ATTAAAAGAAAAAA
1 ATTAAAAGAAAAAA
*
4651555 ATTAAAA-AAAGAA
1 ATTAAAAGAAAAAA
4651568 ATTAAA
1 ATTAAA
4651574 TTTAAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
ATTAAAAGAAAAAA
Found at i:4656461 original size:2 final size:2
Alignment explanation
Indices: 4656454--4656512 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
4656444 GGCTATATCA
4656454 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4656496 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
4656513 ATGGAGGGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4659910 original size:14 final size:14
Alignment explanation
Indices: 4659891--4659917 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4659881 GAGAAATCAA
4659891 CCCCCACCCCCCCC
1 CCCCCACCCCCCCC
4659905 CCCCCACCCCCCC
1 CCCCCACCCCCCC
4659918 GGGGGCAAAA
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:0.07, C:0.93, G:0.00, T:0.00
Consensus pattern (14 bp):
CCCCCACCCCCCCC
Found at i:4664343 original size:2 final size:2
Alignment explanation
Indices: 4664332--4664366 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4664322 CTTCTAGAAA
4664332 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4664367 TCTTTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4664954 original size:28 final size:30
Alignment explanation
Indices: 4664893--4664956 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
4664883 ATTTCTAGAT
* *
4664893 GAAAATATAATGTTATAAAAAATTATGAAT
1 GAAAATATAATGTTATAAAAAATGATGAAC
* *
4664923 GAAAATATAAT-TT-TTAAAAATGATTAAC
1 GAAAATATAATGTTATAAAAAATGATGAAC
4664951 GAAAAT
1 GAAAAT
4664957 GAAACATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 17 0.57
29 2 0.07
30 11 0.37
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (30 bp):
GAAAATATAATGTTATAAAAAATGATGAAC
Found at i:4665057 original size:2 final size:2
Alignment explanation
Indices: 4665050--4665078 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4665040 TTTCCTTGAA
4665050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4665079 AATAATTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4668236 original size:111 final size:111
Alignment explanation
Indices: 4668042--4668264 Score: 437
Period size: 111 Copynumber: 2.0 Consensus size: 111
4668032 ATAGTGTTAC
4668042 TTGTGCTCATTCTAAGAAGACCATTGACAACGGGGAAAGCCATCCCCAGATGGCGGTTGCAGAGG
1 TTGTGCTCATTCTAAGAAGACCATTGACAACGGGGAAAGCCATCCCCAGATGGCGGTTGCAGAGG
4668107 GGTCCGTCTGCGAAATACCTGGATGCAGTGCTAGGATGATGACTAA
66 GGTCCGTCTGCGAAATACCTGGATGCAGTGCTAGGATGATGACTAA
*
4668153 TTGTGCTCATTCTAAGAAGACCATTGATAACGGGGAAAGCCATCCCCAGATGGCGGTTGCAGAGG
1 TTGTGCTCATTCTAAGAAGACCATTGACAACGGGGAAAGCCATCCCCAGATGGCGGTTGCAGAGG
4668218 GGTCCGTCTGCGAAATACCTGGATGCAGTGCTAGGATGATGACTAA
66 GGTCCGTCTGCGAAATACCTGGATGCAGTGCTAGGATGATGACTAA
4668264 T
1 T
4668265 AAGCAGGGTA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (111 bp):
TTGTGCTCATTCTAAGAAGACCATTGACAACGGGGAAAGCCATCCCCAGATGGCGGTTGCAGAGG
GGTCCGTCTGCGAAATACCTGGATGCAGTGCTAGGATGATGACTAA
Found at i:4674006 original size:43 final size:41
Alignment explanation
Indices: 4673937--4674019 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
4673927 AATTTCATGT
* *
4673937 AAATTATATATTTCACATCAAGTATATATAAATATATGTAC
1 AAATTATATATATCACATCAAATATATATAAATATATGTAC
* *
4673978 AAATTATATATATCACATCAAATATATATATATATATATAC
1 AAATTATATATATCACATCAAATATATATAAATATATGTAC
4674019 A
1 A
4674020 CACACATACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (41 bp):
AAATTATATATATCACATCAAATATATATAAATATATGTAC
Found at i:4674748 original size:2 final size:2
Alignment explanation
Indices: 4674741--4674784 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4674731 TTCAACACCG
4674741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4674783 TA
1 TA
4674785 ATCATAATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4674809 original size:3 final size:3
Alignment explanation
Indices: 4674801--4674826 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4674791 ATCTGGTGAC
4674801 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4674827 GATTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4675740 original size:24 final size:25
Alignment explanation
Indices: 4675702--4675751 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
4675692 TAGATCCGAT
*
4675702 AATTTTTTTGGTTAC-TTTTCAATC
1 AATTTTTTTAGTTACATTTTCAATC
* *
4675726 AATTTTTTTATTTACATTTTTAATC
1 AATTTTTTTAGTTACATTTTCAATC
4675751 A
1 A
4675752 TCATTTACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.60
Consensus pattern (25 bp):
AATTTTTTTAGTTACATTTTCAATC
Found at i:4676663 original size:3 final size:3
Alignment explanation
Indices: 4676655--4676689 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4676645 TGGGGCACTA
4676655 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4676690 ATTCAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4678067 original size:2 final size:2
Alignment explanation
Indices: 4678055--4678088 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4678045 GACCTATTAC
*
4678055 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4678089 GCAAATAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4688209 original size:21 final size:21
Alignment explanation
Indices: 4688141--4688209 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
4688131 AGGGATGGAA
*
4688141 CAGTGGAAGGATCAATTAGAG
1 CAGTGGAAGAATCAATTAGAG
* *
4688162 CAG-GTGAAGATTCAATTGGAG
1 CAGTG-GAAGAATCAATTAGAG
* *
4688183 CCGTGGAAGAATCAGTTAGAG
1 CAGTGGAAGAATCAATTAGAG
4688204 CAGTGG
1 CAGTGG
4688210 TTGCATCAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (21 bp):
CAGTGGAAGAATCAATTAGAG
Found at i:4691780 original size:2 final size:2
Alignment explanation
Indices: 4691773--4691803 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4691763 GCTTCACTCG
*
4691773 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4691804 TACATATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4692017 original size:4 final size:4
Alignment explanation
Indices: 4692003--4692031 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
4691993 TTAACGCTGC
4692003 ATTT A-TT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
4692032 CTTCTTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:4692628 original size:2 final size:2
Alignment explanation
Indices: 4692621--4692673 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4692611 GCTCCTCAGG
4692621 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4692663 TC TC TC TC TC T
1 TC TC TC TC TC T
4692674 AAGGTTGGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4700160 original size:17 final size:17
Alignment explanation
Indices: 4700138--4700179 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
4700128 AAATTTAAGT
4700138 TTAAATTTAAACATAAA
1 TTAAATTTAAACATAAA
**
4700155 TTAAATTTAAATTTAAA
1 TTAAATTTAAACATAAA
*
4700172 TTATATTT
1 TTAAATTT
4700180 TATTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATTTAAACATAAA
Found at i:4700161 original size:5 final size:6
Alignment explanation
Indices: 4700128--4700173 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
4700118 TTAATAATAA
* **
4700128 AAATTT AAGTTT AAATTT AAACAT AAA-TT AAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATT
4700174 ATATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
AAATTT
Found at i:4700936 original size:18 final size:20
Alignment explanation
Indices: 4700896--4700940 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
4700886 TGAGAAAAAT
*
4700896 AAAA-ATAAAATATTATATT
1 AAAATATAAAATATTATATA
4700915 AAAATATAAAAT-TTA-ATA
1 AAAATATAAAATATTATATA
4700933 AAAATATA
1 AAAATATA
4700941 TAACTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
20 7 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATAAAATATTATATA
Found at i:4710973 original size:14 final size:14
Alignment explanation
Indices: 4710954--4710980 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4710944 TCAAATATAA
4710954 AAAAATTAATGAGT
1 AAAAATTAATGAGT
4710968 AAAAATTAATGAG
1 AAAAATTAATGAG
4710981 CTCCAATAAT
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:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
AAAAATTAATGAGT
Found at i:4715867 original size:30 final size:32
Alignment explanation
Indices: 4715833--4715893 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
4715823 AGGGTGAAAG
*
4715833 AAGCAGAACATG-TAAAGAAAGAA-AGAGAGA
1 AAGCAGAAAATGATAAAGAAAGAATAGAGAGA
*
4715863 AAGCAGAAAATGAATAGAGAAAGAATAGAGA
1 AAGCAGAAAATG-ATAAAGAAAGAATAGAGA
4715894 AAGAATGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
32 10 0.38
33 5 0.19
ACGTcount: A:0.61, C:0.05, G:0.26, T:0.08
Consensus pattern (32 bp):
AAGCAGAAAATGATAAAGAAAGAATAGAGAGA
Found at i:4715908 original size:13 final size:11
Alignment explanation
Indices: 4715874--4715904 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4715864 AGCAGAAAAT
4715874 GAATAGAGAAA
1 GAATAGAGAAA
4715885 GAATAGAGAAA
1 GAATAGAGAAA
*
4715896 GAATGGAGA
1 GAATAGAGA
4715905 GAAAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.10
Consensus pattern (11 bp):
GAATAGAGAAA
Found at i:4720764 original size:30 final size:32
Alignment explanation
Indices: 4720729--4720789 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
4720719 AGAGTGAAAG
*
4720729 AAGCAGAACATG-TAAAGAAAGAA-AGAGAGA
1 AAGCAGAAAATGATAAAGAAAGAATAGAGAGA
*
4720759 AAGCAGAAAATGAATAGAGAAAGAATAGAGA
1 AAGCAGAAAATG-ATAAAGAAAGAATAGAGA
4720790 AAGAATGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
32 10 0.38
33 5 0.19
ACGTcount: A:0.61, C:0.05, G:0.26, T:0.08
Consensus pattern (32 bp):
AAGCAGAAAATGATAAAGAAAGAATAGAGAGA
Found at i:4720804 original size:13 final size:11
Alignment explanation
Indices: 4720770--4720800 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4720760 AGCAGAAAAT
4720770 GAATAGAGAAA
1 GAATAGAGAAA
4720781 GAATAGAGAAA
1 GAATAGAGAAA
*
4720792 GAATGGAGA
1 GAATAGAGA
4720801 GAAAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.10
Consensus pattern (11 bp):
GAATAGAGAAA
Found at i:4723606 original size:36 final size:36
Alignment explanation
Indices: 4723520--4724210 Score: 562
Period size: 36 Copynumber: 20.2 Consensus size: 36
4723510 TTTGCCCTTG
* * *
4723520 CTTGTCTGCTGAACTCAGGGTCTGCGGCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * *
4723556 CTTG-CTTGCAGAACTCGTGGTCTGCGCCTGCACTTT
1 CTTGTC-TGCCGAACTCATGGTCTGCGCCTGCACTTC
* *
4723592 CTTATCTGCGGAACT--T-G--TG-GCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * * *
4723622 CTTGTCTACTGAACTCATGATCTGCGCCTGCGCTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* *
4723658 CTT-TCCTGCGGAAC-C-T-G--TG-GCATGCACTTC
1 CTTGT-CTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * * **
4723688 TTTGTCAGCCAAACTCATGGTCTGAACCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
*
4723724 CTTGTCTGCGGAACTC---G--TG-GCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * * *
4723754 TTTGTCTGCTGAACTCATGGTCTGAGCCTGGACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* *
4723790 CTTGTCCGCGGAACT--T--T-TGC-CCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
4723820 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * *
4723856 CTTGTCCGCAGAACT--T-G--TG-GTCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* *
4723886 CTTGTCTGCCGAGCTCATGGTCTGTGCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* *
4723922 CTCGTCTGCCGCACTCATGGTCTGCGCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * *
4723958 CTTGTCGGCAGAACT--T-G--TG-GTCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* ** *
4723988 CTTGTCTGCCGAGCTCATGGTCTGTTCCTGCGCTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
*
4724024 CTTGTCTGCCGCACTCATGGTCTGCGCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * *
4724060 CTTGTCTGCTGAACTCGTGGTCTGCGCCTCCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * * * ** *
4724096 TTTGTCTACAGAATTTGTGGCCTGCGCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* * *
4724132 CTTTTCAGCCAAACTCATGGTCTGCGCCTGCACTTC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
* *
4724168 CTTGTCTGCTGAACT--TGCGCTCTGCGCCTCCACTTC
1 CTTGTCTGCCGAACTCATG-G-TCTGCGCCTGCACTTC
4724204 CTTGTCT
1 CTTGTCT
4724211 ATGGAACTCT
Statistics
Matches: 521, Mismatches: 92, Indels: 84
0.75 0.13 0.12
Matches are distributed among these distances:
30 129 0.25
31 14 0.03
32 6 0.01
33 8 0.02
34 8 0.02
35 17 0.03
36 338 0.65
37 1 0.00
ACGTcount: A:0.12, C:0.33, G:0.23, T:0.33
Consensus pattern (36 bp):
CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTC
Found at i:4723667 original size:66 final size:67
Alignment explanation
Indices: 4723547--4724314 Score: 524
Period size: 66 Copynumber: 11.4 Consensus size: 67
4723537 GGGTCTGCGG
* * * *
4723547 CTGCACTTCCTTG-CTTGCAGAACTCGTGGTCTGCGCCTGCACTTTCTTAT-CTGCGGAACTTGT
1 CTGCACTTCCTTGTC-TGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACTTGT
4723610 GGC
65 GGC
* * * * *
4723613 CTGCACTTCCTTGTCTACTGAACTCATGATCTGCGCCTGCGCTTCCTT-TCCTGCGGAACCTGTG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACTTGTG
4723677 GC
66 GC
* * * * ** *
4723679 ATGCACTTCTTTGTCAGCCAAACTCATGGTCTGAACCTGCACTTCCTTGT-CTGCGGAACTCGTG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACTTGTG
4723743 GC
66 GC
* * * * *
4723745 CTGCACTTCTTTGTCTGCTGAACTCATGGTCTGAGCCTGGACTTCCTTGTCC-GCGGAACTTTTG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACTTGTG
*
4723809 CC
66 GC
*
4723811 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCC-GCAGAACTTGTG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACTTGTG
*
4723875 GT
66 GC
* * * * *
4723877 CTGCACTTCCTTGTCTGCCGAGCTCATGGTCTGTGCCTGCACTTCCTCGT-CTGCCGCACTCATG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACT--T-
4723941 GTCTGCGC
63 G--TG-GC
* * * * *
4723949 CTGCACTTCCTTGTCGGCAGAACT--T-G--TG-GTCTGCACTTCCTTGT-CTGCCGAGCTCATG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACT--T-
*
4724007 GTCTGTTC
63 G--TG-GC
* * *
4724015 CTGCGCTTCCTTGTCTGCCGCACTCATGGTCTGCGCCTGCACTTCCTTGT-CTGCTGAACTCGTG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACT--T-
4724079 GTCTGCGC
63 G--TG-GC
* * * * * ** * * * **
4724087 CTCCACTTCTTTGTCTACAGAATTTGTGGCCTGCGCCTGCACTTCCTT-TTCAGCCAAACTCATG
1 CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACT--T-
4724151 GTCTGCGC
63 G--TG-GC
* * **
4724159 CTGCACTTCCTTGTCTGCTGAACT--TGCGCTCTGCGCCTCCACTTCCTTGT-CTATGGAACTCT
1 CTGCACTTCCTTGTCTGCCGAACTCATG-G-TCTGCGCCTGCACTTCCTTGTCCTGCGGAACT-T
*
4724221 -TGGG
63 GTGGC
* * *
4724225 CTGCACTTCCTTCT-TGGCCGAACTCATGGTCGTTGC-CC-GCACTT-CTT-TCTCTGCTGAACC
1 CTGCACTTCCTTGTCT-GCCGAACTCATGGTC--TGCGCCTGCACTTCCTTGTC-CTGCGGAACT
*
4724285 TGTGGT
62 TGTGGC
* *
4724291 CTGCACTTTCTTGTCTGCAGAACT
1 CTGCACTTCCTTGTCTGCCGAACT
4724315 TGTGTTCGGC
Statistics
Matches: 572, Mismatches: 100, Indels: 60
0.78 0.14 0.08
Matches are distributed among these distances:
64 1 0.00
65 7 0.01
66 381 0.67
67 11 0.02
68 7 0.01
69 3 0.01
70 3 0.01
71 7 0.01
72 151 0.26
73 1 0.00
ACGTcount: A:0.12, C:0.33, G:0.22, T:0.33
Consensus pattern (67 bp):
CTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCGGAACTTGTG
GC
Found at i:4723718 original size:102 final size:103
Alignment explanation
Indices: 4723520--4724314 Score: 496
Period size: 102 Copynumber: 7.8 Consensus size: 103
4723510 TTTGCCCTTG
* * * * *
4723520 CTTGTCTGCTGAACTCAGGGTCTGCGGCTGCACTTCCTTG-CTTGCAGAACTCGTGGTCTGCGCC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAAC-C-T-G--TG-GTC
* * * *
4723584 TGCACTTTCTTATCTGCGGAACT--T-G--TG-GCCTGCACTTC
60 TGCACTTCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
* * * * *
4723622 CTTGTCTACTGAACTCATGATCTGCGCCTGCGCTTCCTT-TCCTGCGGAACCTGTGG-CATGCAC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAACCTGTGGTC-TGCAC
* * * *
4723685 TTCTTTGTCAGCCAAACTCATGGTCTGAACCTGCACTTC
65 TTCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
* * * *
4723724 CTTGTCTGCGGAACTC---G--TG-GCCTGCACTTCTTTGT-CTGCTGAACTCATGGTCTGAGCC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAAC-C-T-G--TG-GTC
* * * *
4723782 TGGACTTCCTTGTCCGCGGAACT--T--T-TG-CCCTGCACTTC
60 TGCACTTCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
*
4723820 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCC-GCAGAACTTGTGGTCTGCACT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAACCTGTGGTCTGCACT
* *
4723884 TCCTTGTCTGCCGAGCTCATGGTCTGTGCCTGCACTTC
66 TCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
* * * *
4723922 CTCGTCTGCCGCACTCATGGTCTGCGCCTGCACTTCCTTGT-CGGCAGAACTTGTGGTCTGCACT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAACCTGTGGTCTGCACT
* * *
4723986 TCCTTGTCTGCCGAGCTCATGGTCTGTTCCTGCGCTTC
66 TCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
* *
4724024 CTTGTCTGCCGCACTCATGGTCTGCGCCTGCACTTCCTTGT-CTGCTGAA-CTCGTGGTCTGCGC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAACCT-GTGGTCT--G-
* * * * ** * **
4724087 CTCCACTTCTTTGTCTACAGAATTTGTGGCCTGCGCCTGCACTTC
62 ---CACTTCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
* * * * * *
4724132 CTTTTCAGCCAAACTCATGGTCTGCGCCTGCACTTCCTTGT-CTGCTGAACTTGCGCTCTGCGCC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAA----C-CTGTG-GTC
* *** *
4724196 TCCACTTCCTTGTCTATGGAACTCTTGG---G---CTGCACTTC
60 TGCACTTCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
* *
4724234 CTTCT-TGGCCGAACTCATGGTCGTTGC-CC-GCACTT-CTT-TCTCTGCTGAACCTGTGGTCTG
1 CTTGTCT-GCCGAACTCATGGTC--TGCGCCTGCACTTCCTTGTC-CTGCAGAACCTGTGGTCTG
* *
4724294 CACTTTCTTGTCTGCAGAACT
62 CACTTCCTTGTCTGCCGAACT
4724315 TGTGTTCGGC
Statistics
Matches: 566, Mismatches: 78, Indels: 104
0.76 0.10 0.14
Matches are distributed among these distances:
95 1 0.00
96 104 0.18
97 14 0.02
98 5 0.01
99 5 0.01
100 5 0.01
101 14 0.02
102 306 0.54
103 4 0.01
104 4 0.01
105 1 0.00
108 96 0.17
113 2 0.00
114 5 0.01
ACGTcount: A:0.12, C:0.33, G:0.23, T:0.33
Consensus pattern (103 bp):
CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCCTGCAGAACCTGTGGTCTGCACT
TCCTTGTCTGCCGAACTCATGGTCTGTACCTGCACTTC
Found at i:4723980 original size:72 final size:72
Alignment explanation
Indices: 4723520--4724210 Score: 562
Period size: 66 Copynumber: 10.1 Consensus size: 72
4723510 TTTGCCCTTG
* * * * *
4723520 CTTGTCTGCTGAACTCAGGGTCTGCGGCTGCACTTCCTTG-CTTGCAGAACTCGTGGTCTGCGCC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTC-TGCCGAACTCATGGTCTGCGCC
*
4723584 TGCACTTT
65 TGCACTTC
* * * * *
4723592 CTTATCTGCGGAACT--T-G--TG-GCCTGCACTTCCTTGTCTACTGAACTCATGATCTGCGCCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
*
4723651 GCGCTTC
66 GCACTTC
* * * * * **
4723658 CTT-TCCTGCGGAAC-C-T-G--TG-GCATGCACTTCTTTGTCAGCCAAACTCATGGTCTGAACC
1 CTTGT-CTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCC
4723716 TGCACTTC
65 TGCACTTC
* * * *
4723724 CTTGTCTGCGGAACTC---G--TG-GCCTGCACTTCTTTGTCTGCTGAACTCATGGTCTGAGCCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
*
4723783 GGACTTC
66 GCACTTC
* *
4723790 CTTGTCCGCGGAACT--T--T-TGC-CCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
4723849 GCACTTC
66 GCACTTC
* * * * *
4723856 CTTGTCCGCAGAACT--T-G--TG-GTCTGCACTTCCTTGTCTGCCGAGCTCATGGTCTGTGCCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
4723915 GCACTTC
66 GCACTTC
* * * * *
4723922 CTCGTCTGCCGCACTCATGGTCTGCGCCTGCACTTCCTTGTCGGCAGAACT--T-G--TG-GTCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
4723981 GCACTTC
66 GCACTTC
* ** * *
4723988 CTTGTCTGCCGAGCTCATGGTCTGTTCCTGCGCTTCCTTGTCTGCCGCACTCATGGTCTGCGCCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
4724053 GCACTTC
66 GCACTTC
* * * * * * * ** *
4724060 CTTGTCTGCTGAACTCGTGGTCTGCGCCTCCACTTCTTTGTCTACAGAATTTGTGGCCTGCGCCT
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
4724125 GCACTTC
66 GCACTTC
* * * *
4724132 CTTTTCAGCCAAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCTGAACT--TGCGCTCTGCGC
1 CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATG-G-TCTGCGC
*
4724195 CTCCACTTC
64 CTGCACTTC
4724204 CTTGTCT
1 CTTGTCT
4724211 ATGGAACTCT
Statistics
Matches: 512, Mismatches: 83, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
65 1 0.00
66 328 0.64
67 7 0.01
68 2 0.00
69 4 0.01
70 3 0.01
71 5 0.01
72 162 0.32
ACGTcount: A:0.12, C:0.33, G:0.23, T:0.33
Consensus pattern (72 bp):
CTTGTCTGCCGAACTCATGGTCTGCGCCTGCACTTCCTTGTCTGCCGAACTCATGGTCTGCGCCT
GCACTTC
Found at i:4724068 original size:20 final size:20
Alignment explanation
Indices: 4724014--4724068 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
4724004 ATGGTCTGTT
*
4724014 CCTGCGCTTCCTTGTCT--G
1 CCTGCACTTCCTTGTCTGCG
* *
4724032 CC-GCAC-TCATGGTCTGCG
1 CCTGCACTTCCTTGTCTGCG
4724050 CCTGCACTTCCTTGTCTGC
1 CCTGCACTTCCTTGTCTGC
4724069 TGAACTCGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
16 7 0.25
17 3 0.11
18 5 0.18
19 4 0.14
20 9 0.32
ACGTcount: A:0.05, C:0.40, G:0.22, T:0.33
Consensus pattern (20 bp):
CCTGCACTTCCTTGTCTGCG
Found at i:4724298 original size:30 final size:30
Alignment explanation
Indices: 4724263--4724389 Score: 91
Period size: 30 Copynumber: 4.2 Consensus size: 30
4724253 GTCGTTGCCC
*
4724263 GCACTTCTTTCTCTGCTGAACCTGTGGTCT
1 GCACTTCTTTATCTGCTGAACCTGTGGTCT
* * * * *
4724293 GCACTT-TCTTGTCTGCAGAACTTGTGTTCG
1 GCACTTCT-TTATCTGCTGAACCTGTGGTCT
* *
4724323 GCACTTCCTTATCAGCTGAA-CTCGTGGTCT
1 GCACTTCTTTATCTGCTGAACCT-GTGGTCT
* *
4724353 GCACCTTC-ATATCTG-TGGAACCCGTGGTCT
1 GCA-CTTCTTTATCTGCT-GAACCTGTGGTCT
*
4724383 GCTCTTC
1 GCACTTC
4724390 CTTGTTTGCT
Statistics
Matches: 75, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
29 7 0.09
30 63 0.84
31 5 0.07
ACGTcount: A:0.13, C:0.29, G:0.21, T:0.36
Consensus pattern (30 bp):
GCACTTCTTTATCTGCTGAACCTGTGGTCT
Found at i:4729684 original size:29 final size:30
Alignment explanation
Indices: 4729615--4729692 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
4729605 TTTCATTTTG
*
4729615 AAATAAAAATTTATTTAAATATAAATTAAA
1 AAATAAATATTTATTTAAATATAAATTAAA
* *
4729645 AAATAAATATTTATTTGAGTAT-AA-TAAA
1 AAATAAATATTTATTTAAATATAAATTAAA
4729673 AATATAAATATTTATTTAAA
1 AA-ATAAATATTTATTTAAA
4729693 ACTATAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.14
29 17 0.40
30 19 0.45
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
AAATAAATATTTATTTAAATATAAATTAAA
Found at i:4729699 original size:28 final size:28
Alignment explanation
Indices: 4729615--4729701 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
4729605 TTTCATTTTG
*
4729615 AAATAAAAATTTATTT-AAATATAAATTAAA
1 AAATAAATATTTATTTGAAA-AT-AA-TAAA
**
4729645 AAATAAATATTTATTTGAGTATAATAAA
1 AAATAAATATTTATTTGAAAATAATAAA
4729673 AATATAAATATTTATTT-AAAACT-ATAAA
1 AA-ATAAATATTTATTTGAAAA-TAATAAA
4729701 A
1 A
4729702 TAGTTCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 14 0.29
29 17 0.35
30 17 0.35
31 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATAAATATTTATTTGAAAATAATAAA
Found at i:4730917 original size:2 final size:2
Alignment explanation
Indices: 4730905--4730949 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
4730895 AATGGAAGAC
* * * *
4730905 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4730947 AT A
1 AT A
4730950 AAGAAAAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:4732883 original size:16 final size:16
Alignment explanation
Indices: 4732864--4732895 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4732854 AATTATCTTC
4732864 AATTATTATTAAATTA
1 AATTATTATTAAATTA
4732880 AATTATTATTAAATTA
1 AATTATTATTAAATTA
4732896 TATTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATTATTAAATTA
Found at i:4733055 original size:12 final size:12
Alignment explanation
Indices: 4733040--4733066 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4733030 GAAATTGATT
4733040 AAAGAAAAATAA
1 AAAGAAAAATAA
4733052 AAAGAAAAATAA
1 AAAGAAAAATAA
4733064 AAA
1 AAA
4733067 ATATCAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAGAAAAATAA
Found at i:4733543 original size:13 final size:13
Alignment explanation
Indices: 4733527--4733561 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
4733517 AATATTTAGA
4733527 AAAAAATTAAAAT
1 AAAAAATTAAAAT
4733540 AAAAAA-TAAAAT
1 AAAAAATTAAAAT
*
4733552 AAATAATTAA
1 AAAAAATTAA
4733562 TAGAAGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:4735373 original size:4 final size:4
Alignment explanation
Indices: 4735366--4735414 Score: 71
Period size: 4 Copynumber: 12.2 Consensus size: 4
4735356 TGTGAAAAGC
* * *
4735366 TTTA TTTA TTTA TTTA TTTA TTTA TTTA GTTA GTTA GTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
4735414 T
1 T
4735415 GAATAGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:4735444 original size:15 final size:15
Alignment explanation
Indices: 4735421--4735495 Score: 78
Period size: 16 Copynumber: 4.7 Consensus size: 15
4735411 TTATGAATAG
*
4735421 AAAGAAGAGAAAAAGA
1 AAAG-AGAGAAAAAAA
4735437 AAAGAGAGAAAAAAA
1 AAAGAGAGAAAAAAA
*
4735452 AAAGAATAGAAAGAAAA
1 AAAG-AGAGAAA-AAAA
4735469 GAAAGAGAGAAAAAAA
1 -AAAGAGAGAAAAAAA
*
4735485 TAGAGAGAGAA
1 -AAAGAGAGAA
4735496 GATTTGTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
15 14 0.27
16 23 0.45
17 10 0.20
18 4 0.08
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
AAAGAGAGAAAAAAA
Found at i:4735453 original size:20 final size:20
Alignment explanation
Indices: 4735419--4735468 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4735409 ATTTATGAAT
* *
4735419 AGAAAGAAGAGAAAAAGAAA
1 AGAAAGAAAAAAAAAAGAAA
* *
4735439 AGAGAGAAAAAAAAAAGAAT
1 AGAAAGAAAAAAAAAAGAAA
4735459 AGAAAGAAAA
1 AGAAAGAAAA
4735469 GAAAGAGAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAAAAAAAAGAAA
Found at i:4735463 original size:31 final size:33
Alignment explanation
Indices: 4735421--4735484 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4735411 TTATGAATAG
*
4735421 AAAGAAGAGAAA-AAGA-AAAGAGAGAAAAAAA
1 AAAGAAGAGAAAGAAAAGAAAGAGAGAAAAAAA
*
4735452 AAAGAATAGAAAGAAAAGAAAGAGAGAAAAAAA
1 AAAGAAGAGAAAGAAAAGAAAGAGAGAAAAAAA
4735485 TAGAGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.38
32 3 0.10
33 15 0.52
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (33 bp):
AAAGAAGAGAAAGAAAAGAAAGAGAGAAAAAAA
Found at i:4736307 original size:26 final size:26
Alignment explanation
Indices: 4736272--4736328 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
4736262 AAAAATATAA
* * * *
4736272 TAAAACATTGTAATCAATTAATTTTT
1 TAAAAAATTGAAATAAATTAATGTTT
4736298 TAAAAAATTGAAATAAATTAATGTTT
1 TAAAAAATTGAAATAAATTAATGTTT
*
4736324 CAAAA
1 TAAAA
4736329 CATGTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (26 bp):
TAAAAAATTGAAATAAATTAATGTTT
Found at i:4736337 original size:26 final size:26
Alignment explanation
Indices: 4736273--4736337 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
4736263 AAAATATAAT
* * *
4736273 AAAACATTGT-AATCAATTAATTTTTT
1 AAAACA-TGTAAATAAATTAATGTTTC
*
4736299 AAAAAAT-TGAAATAAATTAATGTTTC
1 AAAACATGT-AAATAAATTAATGTTTC
4736325 AAAACATGTAAAT
1 AAAACATGTAAAT
4736338 TTTTATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 28 0.90
27 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (26 bp):
AAAACATGTAAATAAATTAATGTTTC
Found at i:4739418 original size:48 final size:48
Alignment explanation
Indices: 4739346--4739438 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
4739336 TCATTTTTTG
* * *
4739346 GTCAAATTCAGTTGTCAAACCCTTTTGTG-ATTATCTTTCAACAATGTT
1 GTCAAATTCAGTCGTCAAAACCTTTCGTGCA-TATCTTTCAACAATGTT
*
4739394 GTCAAATTCAGTCGTCAAAACCTTTCGTGCATATCTTTCAGCAAT
1 GTCAAATTCAGTCGTCAAAACCTTTCGTGCATATCTTTCAACAAT
4739439 AAGAGGACAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (48 bp):
GTCAAATTCAGTCGTCAAAACCTTTCGTGCATATCTTTCAACAATGTT
Found at i:4741683 original size:4 final size:4
Alignment explanation
Indices: 4741676--4741720 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
4741666 TGTGAAAAGC
* * * *
4741676 TTTA TTTA TTTA TTTA TTTA GTTA GTTA GTTA GTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
4741721 GAATAGAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:4741693 original size:12 final size:12
Alignment explanation
Indices: 4741676--4741719 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
4741666 TGTGAAAAGC
*
4741676 TTTATTTATTTA
1 TTTATTTAGTTA
4741688 TTTATTTAGTTA
1 TTTATTTAGTTA
* *
4741700 GTTAGTTAGTTA
1 TTTATTTAGTTA
4741712 TTTATTTA
1 TTTATTTA
4741720 TGAATAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (12 bp):
TTTATTTAGTTA
Found at i:4741762 original size:21 final size:21
Alignment explanation
Indices: 4741736--4741775 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4741726 GAAAGAAGAG
*
4741736 AAAAAGAAAAGAGAGAAAAAA
1 AAAAAGAAAAGAAAGAAAAAA
*
4741757 AAAAAGAATAGAAAGAAAA
1 AAAAAGAAAAGAAAGAAAA
4741776 GAAAGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAAGAAAGAAAAAA
Found at i:4741770 original size:32 final size:34
Alignment explanation
Indices: 4741727--4741791 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
4741717 TTATGAATAG
*
4741727 AAAGAAGAGAAA-AAGA-AAAGAGAGAAAAAAAA
1 AAAGAAGAGAAAGAAAAGAAAGAGAGAAAAAAAA
*
4741759 AAAGAATAGAAAGAAAAGAAAGAGAGAAAAAAA
1 AAAGAAGAGAAAGAAAAGAAAGAGAGAAAAAAA
4741792 TAGAGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 11 0.38
33 3 0.10
34 15 0.52
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (34 bp):
AAAGAAGAGAAAGAAAAGAAAGAGAGAAAAAAAA
Found at i:4741771 original size:9 final size:9
Alignment explanation
Indices: 4741725--4741787 Score: 55
Period size: 9 Copynumber: 7.6 Consensus size: 9
4741715 ATTTATGAAT
4741725 AGAAAGAAG
1 AGAAAGAAG
4741734 AGAAA-AAG
1 AGAAAGAAG
4741742 A-AAAG-AG
1 AGAAAGAAG
*
4741749 AGAAA-AAA
1 AGAAAGAAG
* *
4741757 AAAAAGAAT
1 AGAAAGAAG
*
4741766 AGAAAGAAA
1 AGAAAGAAG
4741775 AGAAAG-AG
1 AGAAAGAAG
4741783 AGAAA
1 AGAAA
4741788 AAAATAGAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.14
8 18 0.41
9 20 0.45
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (9 bp):
AGAAAGAAG
Found at i:4741791 original size:16 final size:16
Alignment explanation
Indices: 4741725--4741802 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
4741715 ATTTATGAAT
*
4741725 AGAAAGA-AGAGAAAA
1 AGAAAGAGAGAAAAAA
4741740 AGAAAAGAGAGAAAAAA
1 AG-AAAGAGAGAAAAAA
* *
4741757 AAAAAGAATAGAAAGAAA
1 AGAAAG-AGAGAAA-AAA
4741775 AGAAAGAGAGAAAAAA
1 AGAAAGAGAGAAAAAA
* *
4741791 ATAGAGAGAGAA
1 AGAAAGAGAGAA
4741803 GATTTGTGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
15 2 0.04
16 22 0.42
17 20 0.38
18 8 0.15
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (16 bp):
AGAAAGAGAGAAAAAA
Found at i:4745891 original size:57 final size:57
Alignment explanation
Indices: 4745675--4745884 Score: 276
Period size: 57 Copynumber: 3.7 Consensus size: 57
4745665 CGCTGAAGCA
* * * * **
4745675 AAAACTGTTGTCAAATTCAGTGGTCAAACCCTTTTGTGATTGTCTTTCAAGCATAAG
1 AAAACAGTTGTCAACTTCAGTCGTCAAACCCTTTTGTGATTATCTTTCAAAAATAAG
* * * *
4745732 AAAACAGTTGCCAACTTCAGCCGTTAAACCCTTTTGTGATTATCTTACAAAAATAAG
1 AAAACAGTTGTCAACTTCAGTCGTCAAACCCTTTTGTGATTATCTTTCAAAAATAAG
* *
4745789 AAAACAGTTGTCAACTTCAGTCGTCAATCCCTTTTGTGATTATCTTTCAAAAATTAG
1 AAAACAGTTGTCAACTTCAGTCGTCAAACCCTTTTGTGATTATCTTTCAAAAATAAG
* * * *
4745846 AGAACAGTTGTCAACTTCAGTTGCCAAACCCTTCTGTGA
1 AAAACAGTTGTCAACTTCAGTCGTCAAACCCTTTTGTGA
4745885 ACATCTTCAA
Statistics
Matches: 132, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 132 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (57 bp):
AAAACAGTTGTCAACTTCAGTCGTCAAACCCTTTTGTGATTATCTTTCAAAAATAAG
Found at i:4747066 original size:19 final size:17
Alignment explanation
Indices: 4747042--4747082 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
4747032 TCAAATAAAA
*
4747042 TTTTATTTTTTTTATATAT
1 TTTTATTTATTTTA-AT-T
4747061 TTTTATTTATTTTAATT
1 TTTTATTTATTTTAATT
4747078 TTTTA
1 TTTTA
4747083 ATCTGATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTATTTTAATT
Found at i:4750267 original size:3 final size:3
Alignment explanation
Indices: 4750235--4750312 Score: 113
Period size: 3 Copynumber: 25.7 Consensus size: 3
4750225 AATTCCCATT
* *
4750235 TTC TTC CTC TCTC TTC TGC TT- TTCC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC T-TC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC
4750281 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
4750313 AGGCTCGTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
2 2 0.03
3 61 0.90
4 5 0.07
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:4752306 original size:3 final size:3
Alignment explanation
Indices: 4752293--4752329 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
4752283 CTAGACTGAT
*
4752293 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4752330 TACTTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4753765 original size:21 final size:21
Alignment explanation
Indices: 4753739--4753780 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4753729 AGGTGTAAGT
*
4753739 CTCAAAAGTGTAACGAAAATG
1 CTCAAAAGTGTAACCAAAATG
*
4753760 CTCAAAAGTGTAGCCAAAATG
1 CTCAAAAGTGTAACCAAAATG
4753781 TTCAGGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (21 bp):
CTCAAAAGTGTAACCAAAATG
Found at i:4754631 original size:213 final size:213
Alignment explanation
Indices: 4754250--4754670 Score: 657
Period size: 213 Copynumber: 2.0 Consensus size: 213
4754240 CAATATTTTG
* * * *
4754250 CTGCAATCCGTTATCAGAGATGGAATTTGGAGAACTTAATGGAAAACCTTGATCATTATTTTCAC
1 CTGCAATCCATCAGCAGAGATGGAATTTGGAGAACATAATGGAAAACCTTGATCATTATTTTCAC
* *
4754315 CAGCGTCACCACTAAGACCCTTTTGCACTGCACCATTTTCAACATAATTAGATTCATCTATCACA
66 CAGCATCACCACTAAGACCCTTTTGCACTGCACCATTTTCAACATAATTAGATTCAGCTATCACA
* * * *
4754380 ACATTTTGGCAAGGTCTCTCTCGATGCTTTTGCTGAACCATAACATCAGCATCAGAATTTTGGAC
131 AAATTTTGGCAAGGTCTATCTCCATCCTTTTGCTGAACCATAACATCAGCATCAGAATTTTGGAC
4754445 ATTCTCCATCTGACTGTC
196 ATTCTCCATCTGACTGTC
* * *
4754463 CTGCAATCCATCAGCAGAGATGGAATTTGG-GTAACATGATGGAAAACCTTGGTCATTGTTTTCA
1 CTGCAATCCATCAGCAGAGATGGAATTTGGAG-AACATAATGGAAAACCTTGATCATTATTTTCA
* *
4754527 CCAGCATCACCACTAAGATCCTTTTGCAGTGCACCATTTTCAACATAATTAGATTCAGCTATCAC
65 CCAGCATCACCACTAAGACCCTTTTGCACTGCACCATTTTCAACATAATTAGATTCAGCTATCAC
*
4754592 AAAATTTTGGCAAGGTCTATCTCCATCCTTATT-CTGAACCATAACATCAGCATCAGCATTTTGG
130 AAAATTTTGGCAAGGTCTATCTCCATCCTT-TTGCTGAACCATAACATCAGCATCAGAATTTTGG
*
4754656 GCATTCTCCATCTGA
194 ACATTCTCCATCTGA
4754671 ATTTCCCGCA
Statistics
Matches: 189, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
212 1 0.01
213 186 0.98
214 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (213 bp):
CTGCAATCCATCAGCAGAGATGGAATTTGGAGAACATAATGGAAAACCTTGATCATTATTTTCAC
CAGCATCACCACTAAGACCCTTTTGCACTGCACCATTTTCAACATAATTAGATTCAGCTATCACA
AAATTTTGGCAAGGTCTATCTCCATCCTTTTGCTGAACCATAACATCAGCATCAGAATTTTGGAC
ATTCTCCATCTGACTGTC
Found at i:4755102 original size:57 final size:57
Alignment explanation
Indices: 4755014--4755122 Score: 191
Period size: 57 Copynumber: 1.9 Consensus size: 57
4755004 TCATCATCAT
*
4755014 TGTCATTAAACCTCGATGTACGCACATTTTCATCACCATCAACAAGAGGGACACCGC
1 TGTCATTAAACCTCGATGTACGCACATTTTCATCACCATCAACAACAGGGACACCGC
* *
4755071 TGTCATTTAACCTCGATGTAGGCACATTTTCATCACCATCAACAACAGGGAC
1 TGTCATTAAACCTCGATGTACGCACATTTTCATCACCATCAACAACAGGGAC
4755123 TTCCCCCATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (57 bp):
TGTCATTAAACCTCGATGTACGCACATTTTCATCACCATCAACAACAGGGACACCGC
Found at i:4755537 original size:324 final size:323
Alignment explanation
Indices: 4754924--4755535 Score: 829
Period size: 324 Copynumber: 1.9 Consensus size: 323
4754914 AGTAAATTTC
* *
4754924 TTTCAAGCAATCCATCTTGCAACACTACATTATCATTTTCGGTAGTTTGGGGAATTAAGTTACCC
1 TTTCAAGCAATCCA-CTTGCAACACTACATTATCATTTTCGGTAGTTTGAGGAATCAAGTTACCC
* * ** * *
4754989 TCTTGAATATTATTTTCATCATCATTGTCATTAAACCTCGATGTACGCACATTTTCATCACCATC
65 TCTTGAATATCATTATCATCATCACCGTCAGTAAACCTCAATGTACGCACATTTTCATCACCATC
* * * * * *
4755054 AACAAGAGGGACACCGCTGTCATTTAACCTCGATGTAGGCACATTTTCATCACCATCAACAACAG
130 AACAACAGGAACACCACTGTCACTAAACCTCGATGTAGGCACATTCTCATCACCATCAACAACAG
* * * * *
4755119 GGACTTCCCCCATGATTGGACCTTTAAACTGTTCCAAGAAGGTTCAATAAGAAATGATAAATAAA
195 GCACTTCCCCCATCATTGAACCTTTAAACTGTTCCAAAAAGGATCAATAAGAAATG---AATAAA
4755184 TAAATAAGAACATGAGCGCAAAAAAAAAAAGGCAGGAAGGGGGGGAGGGGGGAGATTGATACCCA
257 TAAATAAGAACATGAGCGCAAAAAAAAAAAGGCAGGAAGGGGGGGAGGGGGGAGATTGATACCCA
4755249 TT
322 TT
* *
4755251 TTTCAAGCAA-CC-CTTGCAACACTTCCTTATCAGTTTT-GGTAGTTTGAGGAATCAAGTTACCC
1 TTTCAAGCAATCCACTTGCAACACTACATTATCA-TTTTCGGTAGTTTGAGGAATCAAGTTACCC
* * *
4755313 TCTTGATTATCATTATGATCATCACCGTCAGTAAACCTCAATTTACGCACATTTTCATCACCATC
65 TCTTGAATATCATTATCATCATCACCGTCAGTAAACCTCAATGTACGCACATTTTCATCACCATC
* * ** *
4755378 AACAACAGGAACATCACTGTCACTAAACTTCGATGTAGGCAGGTTCTCATCACCATCAACAATAG
130 AACAACAGGAACACCACTGTCACTAAACCTCGATGTAGGCACATTCTCATCACCATCAACAACAG
* *
4755443 GCATTTCCCCCGA-CATTGAACCTTTCAACTGTTCCAAAAAAGGATCAATAAGAAATG-ATAAAT
195 GCACTTCCCCC-ATCATTGAACCTTTAAACTGTTCC-AAAAAGGATCAATAAGAAATGAATAAAT
*
4755506 AAATAAGAACATGAGTGCCAAAAAAAAAAA
258 AAATAAGAACATGAGCG-CAAAAAAAAAAA
4755536 AAAGAGAATG
Statistics
Matches: 249, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
321 22 0.09
322 12 0.05
324 179 0.72
325 24 0.10
326 2 0.01
327 10 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (323 bp):
TTTCAAGCAATCCACTTGCAACACTACATTATCATTTTCGGTAGTTTGAGGAATCAAGTTACCCT
CTTGAATATCATTATCATCATCACCGTCAGTAAACCTCAATGTACGCACATTTTCATCACCATCA
ACAACAGGAACACCACTGTCACTAAACCTCGATGTAGGCACATTCTCATCACCATCAACAACAGG
CACTTCCCCCATCATTGAACCTTTAAACTGTTCCAAAAAGGATCAATAAGAAATGAATAAATAAA
TAAGAACATGAGCGCAAAAAAAAAAAGGCAGGAAGGGGGGGAGGGGGGAGATTGATACCCATT
Found at i:4761603 original size:15 final size:15
Alignment explanation
Indices: 4761583--4761612 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4761573 CGAGTCATTG
4761583 GCTTTACTACGACAA
1 GCTTTACTACGACAA
*
4761598 GCTTTATTACGACAA
1 GCTTTACTACGACAA
4761613 TTGATAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (15 bp):
GCTTTACTACGACAA
Found at i:4763082 original size:30 final size:30
Alignment explanation
Indices: 4763047--4763112 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
4763037 GGCGTATTGG
*
4763047 GGTGGGAAGCCATGGTGATATACATCTTGA
1 GGTGGGAAGCCATGGTGATAGACATCTTGA
* *
4763077 GGTGGGTAGCCATGGTGATAGACATCTTGG
1 GGTGGGAAGCCATGGTGATAGACATCTTGA
4763107 GGTGGG
1 GGTGGG
4763113 GAGTTGGGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.41, T:0.26
Consensus pattern (30 bp):
GGTGGGAAGCCATGGTGATAGACATCTTGA
Found at i:4776291 original size:27 final size:27
Alignment explanation
Indices: 4776239--4776291 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
4776229 TGATGTCATA
* *
4776239 AAAAAATTAAATGATATCATTGTAATT
1 AAAAAATTAAATAAAATCATTGTAATT
* *
4776266 AAAAAATTAAATAAAATTATTTTAAT
1 AAAAAATTAAATAAAATCATTGTAAT
4776292 CTATATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAAAATTAAATAAAATCATTGTAATT
Found at i:4776706 original size:20 final size:21
Alignment explanation
Indices: 4776672--4776724 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
4776662 TTCTGTTAAA
4776672 AATTTA-T-AAATATTTATAATT
1 AATTTATTAAAAT-TTTAT-ATT
*
4776693 -ATTTTTTAAAATTTTATATT
1 AATTTATTAAAATTTTATATT
4776713 AATTTATTAAAA
1 AATTTATTAAAA
4776725 AAATATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.26
21 16 0.59
22 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTATTAAAATTTTATATT
Found at i:4786434 original size:20 final size:20
Alignment explanation
Indices: 4786409--4786446 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4786399 CATCTGGAAA
4786409 ATAAATATAAATAATTAAAT
1 ATAAATATAAATAATTAAAT
*
4786429 ATAAATATAAATTATTAA
1 ATAAATATAAATAATTAA
4786447 TTTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAATATAAATAATTAAAT
Found at i:4789976 original size:2 final size:2
Alignment explanation
Indices: 4789971--4790010 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4789961 TGTGTGTGTC
* *
4789971 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4790011 GCAAAAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4790282 original size:3 final size:3
Alignment explanation
Indices: 4790274--4790299 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4790264 ATTCTTTTGA
4790274 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4790300 GCAAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4797049 original size:2 final size:2
Alignment explanation
Indices: 4797042--4797066 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4797032 CATAAAAGAT
4797042 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4797067 TGGATCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4797680 original size:14 final size:13
Alignment explanation
Indices: 4797660--4797702 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4797650 AAATTTTATA
* *
4797660 AAAATAATATATT
1 AAAATAAAAAATT
4797673 AAATATAAAAAATT
1 AAA-ATAAAAAATT
4797687 AAAATAAAAAA-T
1 AAAATAAAAAATT
4797699 AAAA
1 AAAA
4797703 AATTTAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 5 0.19
13 11 0.41
14 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATAAAAAATT
Found at i:4798253 original size:13 final size:14
Alignment explanation
Indices: 4798235--4798263 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4798225 AAATATTAAA
4798235 TTTATTT-TAAAAT
1 TTTATTTATAAAAT
4798248 TTTATTTATAAAAT
1 TTTATTTATAAAAT
4798262 TT
1 TT
4798264 GTTTAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTTATAAAAT
Found at i:4804880 original size:2 final size:2
Alignment explanation
Indices: 4804873--4804903 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4804863 AAATCACATC
4804873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4804904 GACTGGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4805022 original size:3 final size:3
Alignment explanation
Indices: 4805014--4805054 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4805004 ATTTGTAGGG
4805014 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4805055 ATGTGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4813499 original size:31 final size:31
Alignment explanation
Indices: 4813440--4813499 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4813430 GGTGATTAAG
* *
4813440 CTTGTATTGGATAATCAGGCCAAAAAAAACA
1 CTTGTATTGGATAATAAGGACAAAAAAAACA
*
4813471 CTTGTATTGGATAATAATGGACAGAAAAA
1 CTTGTATTGGATAATAA-GGACAAAAAAA
4813500 TAATGGAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (31 bp):
CTTGTATTGGATAATAAGGACAAAAAAAACA
Found at i:4817737 original size:17 final size:17
Alignment explanation
Indices: 4817715--4817748 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4817705 TCCTAACTAT
4817715 TTTGGTTTCCAAAACAG
1 TTTGGTTTCCAAAACAG
4817732 TTTGGTTTCCAAAACAG
1 TTTGGTTTCCAAAACAG
4817749 AACAAACTAT
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:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (17 bp):
TTTGGTTTCCAAAACAG
Found at i:4823238 original size:22 final size:20
Alignment explanation
Indices: 4823212--4823268 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
4823202 TATTTTAAAT
*
4823212 TTTAAATTTATTTATTATTCA
1 TTTAAATTTATTTATTAAT-A
*
4823233 TATTAAATTTATATATTAATA
1 T-TTAAATTTATTTATTAATA
*
4823254 TTTAAATTTAATTAT
1 TTTAAATTTATTTAT
4823269 AAATTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 12 0.39
21 3 0.10
22 16 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAAATTTATTTATTAATA
Found at i:4823254 original size:19 final size:19
Alignment explanation
Indices: 4823221--4823268 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
4823211 TTTTAAATTT
*
4823221 ATTTATTATTCATA-TTAA
1 ATTTATTATTAATATTTAA
4823239 ATTTATATATTAATATTTAA
1 ATTTAT-TATTAATATTTAA
4823259 ATTTAATTAT
1 ATTT-ATTAT
4823269 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 11 0.42
21 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTATTATTAATATTTAA
Found at i:4824399 original size:2 final size:2
Alignment explanation
Indices: 4824392--4824452 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
4824382 TAGACTTTCC
4824392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4824434 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
4824453 GATAATGGTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4826194 original size:3 final size:3
Alignment explanation
Indices: 4826188--4826224 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4826178 TATCGAGGTT
4826188 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
4826225 CGCAGCACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4826880 original size:2 final size:2
Alignment explanation
Indices: 4826873--4826897 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4826863 ATCATATGTG
4826873 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4826898 GCATAGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4827397 original size:31 final size:31
Alignment explanation
Indices: 4827362--4827422 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
4827352 TAAAATTAAA
*
4827362 TTTATTTTATATTT-TTATATGATTAT-TATAT
1 TTTATGTTATATTTATT-TA-GATTATGTATAT
4827393 TTTATGTTATATTTATTTAGATTATGTATA
1 TTTATGTTATATTTATTTAGATTATGTATA
4827423 AAATTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 6 0.22
31 19 0.70
32 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (31 bp):
TTTATGTTATATTTATTTAGATTATGTATAT
Found at i:4827493 original size:27 final size:28
Alignment explanation
Indices: 4827441--4827500 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
4827431 TAAATTAATT
* * *
4827441 AAAATTTTTAATTATTTATTTGATA-TA
1 AAAAATTTTAATAATTAATTTGATATTA
4827468 AAAAATTTTAATAATTAAATTT-ATATTA
1 AAAAATTTTAATAATT-AATTTGATATTA
4827496 AAAAA
1 AAAAA
4827501 AATTCATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
AAAAATTTTAATAATTAATTTGATATTA
Found at i:4827684 original size:12 final size:14
Alignment explanation
Indices: 4827659--4827687 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4827649 GTAGAGCAGT
4827659 ATATATTTTATAAA
1 ATATATTTTATAAA
4827673 ATATATTTTA-AAA
1 ATATATTTTATAAA
4827686 AT
1 AT
4827688 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATATTTTATAAA
Found at i:4829763 original size:3 final size:3
Alignment explanation
Indices: 4829755--4829787 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
4829745 TCTTGATATA
4829755 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
4829788 GATTGTAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4834773 original size:7 final size:7
Alignment explanation
Indices: 4834761--4834792 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
4834751 AATAATCATT
4834761 TATATTA
1 TATATTA
4834768 TATATTA
1 TATATTA
4834775 TATATTA
1 TATATTA
4834782 TATATTA
1 TATATTA
4834789 TATA
1 TATA
4834793 ATACATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATATTA
Found at i:4838523 original size:14 final size:14
Alignment explanation
Indices: 4838504--4838530 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4838494 TTATGAATTA
4838504 TTATTATTATTTTG
1 TTATTATTATTTTG
4838518 TTATTATTATTTT
1 TTATTATTATTTT
4838531 TTTACTGGCC
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:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
TTATTATTATTTTG
Found at i:4838533 original size:17 final size:17
Alignment explanation
Indices: 4838501--4838532 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4838491 TTATTATGAA
4838501 TTATTATTATTATTTTG
1 TTATTATTATTATTTTG
4838518 TTATTATTATT-TTTT
1 TTATTATTATTATTTT
4838533 TACTGGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTATTATTATTATTTTG
Found at i:4838999 original size:16 final size:17
Alignment explanation
Indices: 4838968--4839000 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4838958 GCTTGAGGAA
4838968 AAGTGAAGTAGCTGCTG
1 AAGTGAAGTAGCTGCTG
*
4838985 AAGTGAA-TGGCTGCTG
1 AAGTGAAGTAGCTGCTG
4839001 TGGCACTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.24
Consensus pattern (17 bp):
AAGTGAAGTAGCTGCTG
Found at i:4846763 original size:2 final size:2
Alignment explanation
Indices: 4846756--4846788 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4846746 CTTTTCTTCC
4846756 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4846789 AATTACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4851566 original size:3 final size:3
Alignment explanation
Indices: 4851558--4851592 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4851548 GAAAAAGGGA
4851558 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4851593 CAAAAGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4854323 original size:20 final size:20
Alignment explanation
Indices: 4854295--4854369 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
4854285 TCATACCCTG
4854295 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4854315 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
4854335 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
4854355 ATGTATCGATACATT
1 ATGTATCGATACATT
4854370 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4854362 original size:40 final size:39
Alignment explanation
Indices: 4854295--4854372 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4854285 TCATACCCTG
* *
4854295 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
4854335 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
4854373 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:4858640 original size:4 final size:4
Alignment explanation
Indices: 4858633--4858659 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4858623 GATGTTCATT
4858633 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
4858660 TGCTATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:4868403 original size:12 final size:12
Alignment explanation
Indices: 4868386--4868440 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
4868376 CCTTTACACC
4868386 CAAAAAAAAAAA
1 CAAAAAAAAAAA
4868398 C--AAAAAAAAA
1 CAAAAAAAAAAA
*
4868408 CACAAAAAAAAA
1 CAAAAAAAAAAA
*
4868420 CAAAACAAAAAA
1 CAAAAAAAAAAA
4868432 CAAAAAAAA
1 CAAAAAAAA
4868441 GAAAAAATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 10 0.26
12 28 0.74
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:4868417 original size:22 final size:22
Alignment explanation
Indices: 4868389--4868440 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
4868379 TTACACCCAA
4868389 AAAAAAAAACAAAA-AAAAACAC
1 AAAAAAAAACAAAACAAAAA-AC
4868411 AAAAAAAAACAAAACAAAAAAC
1 AAAAAAAAACAAAACAAAAAAC
4868433 AAAAAAAA
1 AAAAAAAA
4868441 GAAAAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAAACAAAACAAAAAAC
Found at i:4868446 original size:22 final size:20
Alignment explanation
Indices: 4868387--4868447 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 20
4868377 CTTTACACCC
4868387 AAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAACAAAAAAAA
4868407 ACACAAAAAAAAACAAAACAAAA
1 A-A-AAAAAAAAACAAAA-AAAA
* *
4868430 AACAAAAAAAAGAAAAAA
1 AAAAAAAAAAACAAAAAA
4868448 TAGCAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 15 0.42
23 5 0.14
ACGTcount: A:0.89, C:0.10, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAACAAAAAAAA
Found at i:4868458 original size:22 final size:20
Alignment explanation
Indices: 4868386--4868459 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 20
4868376 CCTTTACACC
4868386 CAAAAAAAAAAACAAAAAAAAA
1 CAAAAAAAAAAAC--AAAAAAA
*
4868408 CACAAAAAAAAACAAAACAAA
1 CAAAAAAAAAAACAAAA-AAA
*
4868429 -AAACAAAAAAAAGAAAAAATA
1 CAAA-AAAAAAAACAAAAAA-A
4868450 GCAAAAAAAA
1 -CAAAAAAAA
4868460 TAGAAGGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
20 8 0.18
21 16 0.36
22 17 0.39
23 3 0.07
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (20 bp):
CAAAAAAAAAAACAAAAAAA
Found at i:4868459 original size:1 final size:1
Alignment explanation
Indices: 4868387--4868447 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
4868377 CTTTACACCC
* * * * * * *
4868387 AAAAAAAAAAACAAAAAAAAACACAAAAAAAAACAAAACAAAAAACAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4868448 TAGCAAAAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.89, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:4870233 original size:32 final size:30
Alignment explanation
Indices: 4869679--4870646 Score: 894
Period size: 32 Copynumber: 32.2 Consensus size: 30
4869669 TGTTCATCCC
4869679 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
4869708 TTTCAAAGCCCACA-AA-TCAGTGGCACTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
* *
4869737 TTTCAAAG-CC-CACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
* *
4869765 TTTCAAAG-CC-CACAAGTCAATGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
4869793 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
4869822 TTTCAAAGCCCACA-AA-TCAGTGGCACTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
*
4869851 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
* *
4869879 TTTCAAAG-CC-CACAACTCAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
4869907 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
*
4869936 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
*
4869964 TTTCAAAG-CC-CACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
* *
4869993 TTTCAAAG-CC-CACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
* *
4870021 TTTCAAAG-CC-CACAAGTCAGTGGTACTCC
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
4870050 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
*
4870079 TTTCAAAGCCCACA-AA-TCAGTGGCGCTCT
1 TTTCAAAGCCCACACAAGTCAGTGGCAC-CT
*
4870108 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
* *
4870136 TTTCAAAG-CC-CACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
* * *
4870164 TTTCAGAG-CC-CACAAGTTAGTGGCA-TT
1 TTTCAAAGCCCACACAAGTCAGTGGCACCT
*
4870191 CTTTCAAAGCCCACACAAGTCGGTGGCAACCAT
1 -TTTCAAAGCCCACACAAGTCAGTGGC-ACC-T
*
4870224 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
*
4870256 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* * *
4870288 TTTCAAAACCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* * *
4870320 TTCCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-AC-CT
* *
4870352 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
*
4870384 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* *
4870416 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* *
4870448 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* *
4870480 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* * *
4870512 TTTCAAAACCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* * *
4870544 TTCCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-AC-CT
* *
4870576 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
* **
4870608 TTTAAAAGCCCATGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCAGTGGC-A-CCT
4870640 TTTCAAA
1 TTTCAAA
4870647 TCACCATATT
Statistics
Matches: 868, Mismatches: 44, Indels: 51
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.01
28 229 0.26
29 200 0.23
30 24 0.03
31 9 0.01
32 395 0.46
33 5 0.01
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (30 bp):
TTTCAAAGCCCACACAAGTCAGTGGCACCT
Done.