Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 72 of 172
Found at i:20273993 original size:20 final size:20
Alignment explanation
Indices: 20273955--20273993 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20273945 CGTTTTTGAG
* **
20273955 CATTTCATTCGTATTTTCAT
1 CATTTCATTCGAAACTTCAT
20273975 CATTTCATTCGAAACTTCA
1 CATTTCATTCGAAACTTCA
20273994 ACTGTGTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.46
Consensus pattern (20 bp):
CATTTCATTCGAAACTTCAT
Found at i:20283138 original size:123 final size:123
Alignment explanation
Indices: 20282948--20283291 Score: 512
Period size: 123 Copynumber: 2.8 Consensus size: 123
20282938 TCGAGTTCAT
* *
20282948 GTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTA-TTGAGAAGAATTTGTAAAATC
*
20283013 GCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCGTGGAAGAAAT-AATTTTTTTGAC
65 GCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTGAC
*
20283071 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTAGAGAAGAATTTGTAAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATT-GAGAAGAATTTGTAAAATC
* * * *
20283136 GCGCCCTCATGGACGTGCTTTTGTTACAGTCA-GTCATGGAAGAAATAAATTTTTTTGAT
65 GCGCCCTCGTGGACGCGCTTTTGCTACAGT-AGGTCATGGAAGAAATAAATTTTTTTGAC
* * *
20283195 GTTTCTGAGCAAATAGTATACAATCGCTTCTAGCAGGATGCTATCTGAGAAAAATTTGTAAAATC
1 GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT-TGAGAAGAATTTGTAAAATC
* * *
20283260 GCACCCTCGTAGATGCGCTTTTGCTACAGTAG
65 GCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
20283292 CATGTTTGGG
Statistics
Matches: 198, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
122 2 0.01
123 100 0.51
124 95 0.48
125 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (123 bp):
GTTTCTGAACAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTGAGAAGAATTTGTAAAATCG
CGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTGAC
Found at i:20286419 original size:17 final size:17
Alignment explanation
Indices: 20286352--20286419 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
20286342 TATGTGAATG
*
20286352 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
20286368 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
20286387 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
20286406 TAAAATTATTAATT
1 TAAAATTATTAATT
20286420 GTTAGTACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:20286443 original size:116 final size:116
Alignment explanation
Indices: 20286238--20286481 Score: 418
Period size: 116 Copynumber: 2.1 Consensus size: 116
20286228 TAAGTTTGTG
*
20286238 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
** * *
20286303 TTGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAATGTA
66 TTGTTAGTACCAGGAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
20286354 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
*
20286418 TTGTTAGTACTAGGAAATAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCAGGAAA-AACATTTTTCCAAATCTAACATTATGTGAAAGTA
20286470 AAATTATTAATT
1 AAATTATTAATT
20286482 TAGTTTAGGG
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
115 43 0.36
116 78 0.64
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGGAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:20286581 original size:28 final size:23
Alignment explanation
Indices: 20286476--20286724 Score: 244
Period size: 23 Copynumber: 10.9 Consensus size: 23
20286466 AGTAAAATTA
*
20286476 TTAATTTAGTTTAGGGTTTTTAA-
1 TTAA-TTAGGTTAGGGTTTTTAAG
20286499 TTAAATTAGGTTAGGGTTTTTAA-
1 TT-AATTAGGTTAGGGTTTTTAAG
20286522 TTAAATTAGGTTAGGGTTTTTAAG
1 TT-AATTAGGTTAGGGTTTTTAAG
20286546 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
***
20286569 TTAAGGGGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* * * *
20286592 TTTA-GAGTTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
* *
20286614 TTAATTAGGTTA-GGATTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
*
20286636 TTAATTAGGTTAGGGCTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
***
20286659 -T--TTAGGGTTTAATATTTTTAA-
1 TTAATTA-GG-TTAGGGTTTTTAAG
* *
20286680 TTAAACTAGGTTAGGGTTTTTAAT
1 TT-AATTAGGTTAGGGTTTTTAAG
20286704 TTAATTAGGTTAGGGTTTTTA
1 TTAATTAGGTTAGGGTTTTTA
20286725 TACATGTCTA
Statistics
Matches: 192, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
20 3 0.02
21 2 0.01
22 50 0.26
23 127 0.66
24 8 0.04
25 2 0.01
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (23 bp):
TTAATTAGGTTAGGGTTTTTAAG
Found at i:20286649 original size:45 final size:45
Alignment explanation
Indices: 20286493--20286722 Score: 209
Period size: 45 Copynumber: 5.1 Consensus size: 45
20286483 AGTTTAGGGT
* * *
20286493 TTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGA
* * *** *
20286539 TTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGT
1 TTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGA
* *
20286585 TTTTAAGTTT-A-GAGTTTAGGGTTTTTAATTTAATTAGGTTAGGA
1 TTTTAA-TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGA
* * **
20286629 TTTTAATTTAATTAGGTTAGGGCTTTTAAGTTT-A--GGGTTTAATA
1 TTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGA
* * *
20286673 TTTTTAATTAAACTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG
1 -TTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGA
20286719 TTTT
1 TTTT
20286723 TATACATGTC
Statistics
Matches: 147, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
43 5 0.03
44 16 0.11
45 70 0.48
46 52 0.35
47 4 0.03
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (45 bp):
TTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGA
Found at i:20286657 original size:90 final size:90
Alignment explanation
Indices: 20286492--20286722 Score: 286
Period size: 90 Copynumber: 2.6 Consensus size: 90
20286482 TAGTTTAGGG
** * *
20286492 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAATTAGGTT
1 TTTTTAATTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTA-GGATTTTAAGTTAATTAGGTT
* * *
20286557 AGGGTTTTTAAGTTAAGGGGGTTAGGG
65 AGGGCTTTTAAGTTAA-GGGGTTAAGA
* * *
20286584 TTTTTAAGTT-TA-GAGTTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTAATTTAATTAGGTT
1 TTTTTAA-TTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTAAGTTAATTAGGTT
* * *
20286647 AGGGCTTTTAAGTTTAGGGTTTAATA
65 AGGGCTTTTAAGTTAAGGGGTTAAGA
* *
20286673 TTTTTAATTAAACTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTT
1 TTTTTAATTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTT
20286723 TATACATGTC
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
88 2 0.02
89 14 0.12
90 67 0.56
91 27 0.22
92 8 0.07
93 2 0.02
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (90 bp):
TTTTTAATTAAACGAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTAAGTTAATTAGGTTA
GGGCTTTTAAGTTAAGGGGTTAAGA
Found at i:20291761 original size:48 final size:47
Alignment explanation
Indices: 20291690--20291789 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 47
20291680 CATTCCATGA
*
20291690 GTAAATAAGTTTTAATAAGTGAAAACACC-CAAAATATTATGTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCTCAAAAT-GT-TGTGAATTG
*
20291738 GTAAATAAGTTTTAATAAGTGAAAACACCTTAAAATGTTGTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCTCAAAATGTTGTGAATTG
20291785 GTAAA
1 GTAAA
20291790 GTCGAACATG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 14 0.29
48 30 0.61
49 5 0.10
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (47 bp):
GTAAATAAGTTTTAATAAGTGAAAACACCTCAAAATGTTGTGAATTG
Found at i:20293302 original size:14 final size:14
Alignment explanation
Indices: 20293283--20293309 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20293273 TGCATCTTCC
20293283 CATGCATGAATCTA
1 CATGCATGAATCTA
20293297 CATGCATGAATCT
1 CATGCATGAATCT
20293310 GTCCAATGTA
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:20301652 original size:20 final size:20
Alignment explanation
Indices: 20301589--20301653 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
20301579 CAGAGAATAG
20301589 GAAATCTATCTAGAAGACAC
1 GAAATCTATCTAGAAGACAC
* * *
20301609 GAAATGC---CTGACAAGAATAG
1 GAAAT-CTATCT-AGAAG-ACAC
20301629 GAAATCTATCTAGAAGACAC
1 GAAATCTATCTAGAAGACAC
20301649 GAAAT
1 GAAAT
20301654 GCCATTGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 19 0.58
21 5 0.15
22 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAATCTATCTAGAAGACAC
Found at i:20304438 original size:15 final size:15
Alignment explanation
Indices: 20304420--20304455 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
20304410 TCAAAATTTA
20304420 TAACATTCCATTACT
1 TAACATTCCATTACT
20304435 TAACATTCCATTACT
1 TAACATTCCATTACT
20304450 TAACAT
1 TAACAT
20304456 AAACTAGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (15 bp):
TAACATTCCATTACT
Found at i:20305767 original size:51 final size:50
Alignment explanation
Indices: 20305707--20305843 Score: 150
Period size: 51 Copynumber: 2.7 Consensus size: 50
20305697 ACCCGGTTCA
*** *
20305707 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCAGACACT
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCAAGCT-ATTC-GACACG
* * * * **
20305758 CGTAGTAGCCTGCACATACTACTACACACGTGATCGAAGCTATTCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACATGTGA-CCAAGCTATTCGACACG
20305809 CATAGTAGCCTGCACATAGTACTACACATGTGACC
1 CATAGTAGCCTGCACATAGTACTACACATGTGACC
20305844 TATCATTTCG
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
50 1 0.01
51 64 0.91
52 5 0.07
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCAAGCTATTCGACACG
Found at i:20308545 original size:16 final size:16
Alignment explanation
Indices: 20308524--20308573 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
20308514 TAAATTCCAA
20308524 TACTTAGCTTCCATTT
1 TACTTAGCTTCCATTT
**
20308540 TACTTA-CTGACA--T
1 TACTTAGCTTCCATTT
20308553 T-CTTAGCTTCCATTT
1 TACTTAGCTTCCATTT
20308568 TACTTA
1 TACTTA
20308574 CTGACATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
15 6 0.23
16 10 0.38
ACGTcount: A:0.22, C:0.24, G:0.06, T:0.48
Consensus pattern (16 bp):
TACTTAGCTTCCATTT
Found at i:20308566 original size:28 final size:28
Alignment explanation
Indices: 20308526--20308581 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
20308516 AATTCCAATA
20308526 CTTAGCTTCCATTTTACTTACTGACATT
1 CTTAGCTTCCATTTTACTTACTGACATT
20308554 CTTAGCTTCCATTTTACTTACTGACATT
1 CTTAGCTTCCATTTTACTTACTGACATT
20308582 TATTCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.46
Consensus pattern (28 bp):
CTTAGCTTCCATTTTACTTACTGACATT
Found at i:20308709 original size:42 final size:42
Alignment explanation
Indices: 20308629--20308710 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
20308619 CGTTTTCTCT
* **
20308629 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
20308671 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
20308711 CACACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:20317240 original size:10 final size:11
Alignment explanation
Indices: 20317221--20317254 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
20317211 ACGATATTTA
20317221 TTTATTTTATT
1 TTTATTTTATT
20317232 TTT-TTTTATT
1 TTTATTTTATT
*
20317242 TTTATTTTCTT
1 TTTATTTTATT
20317253 TT
1 TT
20317255 CAAGTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:20328975 original size:17 final size:18
Alignment explanation
Indices: 20328938--20328975 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20328928 TTATCTAGAT
* *
20328938 TTTTATCCAACATTTATA
1 TTTTATCCAACACTAATA
20328956 TTTTATCCAAC-CTAATA
1 TTTTATCCAACACTAATA
20328973 TTT
1 TTT
20328976 ATTTTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTATCCAACACTAATA
Found at i:20330585 original size:50 final size:50
Alignment explanation
Indices: 20330484--20330627 Score: 128
Period size: 50 Copynumber: 2.9 Consensus size: 50
20330474 TCTTGTACTA
** * * ** ** *
20330484 CCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGCCCTAGACAAGGTCTTACGGGGGACCTCTCATATCAGTG
* * ** *
20330534 CCCATGTCATGTCCC-AGACATTGTCTTACGGGGGACCTCTCATCTCAGTG
1 CCAATGCCATG-CCCTAGACAAGGTCTTACGGGGGACCTCTCATATCAGTG
* *
20330584 CCAATGCCATGCCCTAGATAAGGTCTTACGTGGGACCTCTCATA
1 CCAATGCCATGCCCTAGACAAGGTCTTACGGGGGACCTCTCATA
20330628 ACCTCAATAA
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
49 3 0.04
50 68 0.93
51 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGCCCTAGACAAGGTCTTACGGGGGACCTCTCATATCAGTG
Found at i:20332522 original size:16 final size:17
Alignment explanation
Indices: 20332501--20332542 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
20332491 AGATTAGAAG
20332501 GTCAAAACTTCAA-TTT
1 GTCAAAACTTCAATTTT
20332517 GTCAAAACTTCAATTTT
1 GTCAAAACTTCAATTTT
*
20332534 GACAAAACT
1 GTCAAAACT
20332543 AGCTAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (17 bp):
GTCAAAACTTCAATTTT
Found at i:20335388 original size:39 final size:39
Alignment explanation
Indices: 20335184--20335406 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
20335174 TTGAATGCTG
* * * * * *
20335184 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
20335224 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
20335264 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
20335304 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
20335344 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
20335383 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20335407 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:20335426 original size:79 final size:80
Alignment explanation
Indices: 20335259--20335441 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
20335249 GTGCGAGATA
* * *
20335259 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
20335324 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
20335339 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
20335403 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
20335418 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
20335442 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:20342665 original size:39 final size:39
Alignment explanation
Indices: 20342461--20342683 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
20342451 TTGAATGCTG
* * * * * *
20342461 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
20342501 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
20342541 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
20342581 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
20342621 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
20342660 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20342684 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:20342703 original size:79 final size:80
Alignment explanation
Indices: 20342536--20342718 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
20342526 GTGCGAGATA
* * *
20342536 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
20342601 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
20342616 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
20342680 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
20342695 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
20342719 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:20343802 original size:20 final size:20
Alignment explanation
Indices: 20343777--20343820 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
20343767 AGAGATATCC
20343777 CAGTCGTAATGGGAAAAGGT
1 CAGTCGTAATGGGAAAAGGT
20343797 CAGTCGTAATGGGAAAAGGT
1 CAGTCGTAATGGGAAAAGGT
20343817 CAGT
1 CAGT
20343821 GTAGTCCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (20 bp):
CAGTCGTAATGGGAAAAGGT
Found at i:20344741 original size:56 final size:51
Alignment explanation
Indices: 20344655--20344954 Score: 213
Period size: 50 Copynumber: 5.9 Consensus size: 51
20344645 GACATTAAGT
* *
20344655 GAATGAGA--TCCCAAGTAAGAGCATGTCTGGGACATGGCATTGGCATCATTGA
1 GAATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CA--GA
* * *
20344707 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGA
1 GA--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAGA
* * * *
20344760 G-ATGAGAGGTTCCATATAAGACCATGTCTGGGATATGGCGTTGGCACCA-A
1 GAATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CAGA
** * * *
20344810 -AATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATCGCATGGGCACCGA
1 GAATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAGA
* ** * * * * * * *
20344860 -TATGAGAACTCCCATGTAAGACCATATATAGGATATGACATTGGCAGTACA
1 GAATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CAGA
** * * *
20344911 GAA--A-ACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GAATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
20344955 TGTATTATCA
Statistics
Matches: 194, Mismatches: 45, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
49 31 0.16
50 115 0.59
51 2 0.01
52 3 0.02
53 3 0.02
54 6 0.03
55 1 0.01
56 33 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (51 bp):
GAATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACAGA
Found at i:20344766 original size:50 final size:50
Alignment explanation
Indices: 20344656--20344884 Score: 228
Period size: 50 Copynumber: 4.5 Consensus size: 50
20344646 ACATTAAGTG
* * * *
20344656 AATGAGA--TCCCAAGTAAGAGCATGTCTGGGACATGGCATTGGCATCATTGA
1 AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA
*
20344707 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGA
1 -A--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* * * * *
20344760 GATGAGAGGTTCCATATAAGACCATGTCTGGGATATGGCGTTGGCACCAA
1 AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
** * * *
20344810 AATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATCGCATGGGCACCGA
1 AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* **
20344860 TATGAGAACTCCCATGTAAGACCAT
1 AATGAGAGGTCCCATGTAAGACCAT
20344885 ATATAGGATA
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
50 104 0.71
52 1 0.01
53 2 0.01
54 6 0.04
55 1 0.01
56 33 0.22
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:20344894 original size:100 final size:100
Alignment explanation
Indices: 20344711--20344905 Score: 246
Period size: 100 Copynumber: 1.9 Consensus size: 100
20344701 CATTGAGATT
* * * * ** *
20344711 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGAGGTTCCATA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATCGCATGAGCACCGAGATGAGAACTCCCATA
* * * * *
20344776 TAAGACCATGTCTGGGATATGGCGTTGGCACCAAA
66 TAAGACCATATATAGGATATGACATTGGCACCAAA
* * * *
20344811 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATCGCATGGGCACCGATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATCGCATGAGCACCGAGATGAGAACTCCCATA
20344876 TAAGACCATATATAGGATATGACATTGGCA
66 TAAGACCATATATAGGATATGACATTGGCA
20344906 GTACAGAAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATCGCATGAGCACCGAGATGAGAACTCCCATA
TAAGACCATATATAGGATATGACATTGGCACCAAA
Found at i:20345171 original size:12 final size:12
Alignment explanation
Indices: 20345154--20345192 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20345144 ATGAGTTATT
20345154 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
20345166 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
20345178 TAAGTGAGTAAG
1 TAAGTAAGCAAG
20345190 TAA
1 TAA
20345193 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:20348600 original size:37 final size:37
Alignment explanation
Indices: 20348497--20348591 Score: 136
Period size: 37 Copynumber: 2.6 Consensus size: 37
20348487 GAATGAAAGA
* *
20348497 TATTTGAAAAGTCATGTTTCTTCACTTGTTCCATGTC
1 TATTTGAAAAGTCATGTCTCTTCACTTGATCCATGTC
* * *
20348534 TAGTTGAAAAGCCATGTCTCTTCACTTGATCCATGTG
1 TATTTGAAAAGTCATGTCTCTTCACTTGATCCATGTC
*
20348571 TATTTGAATAGTCATGTCTCT
1 TATTTGAAAAGTCATGTCTCT
20348592 ATGCTTGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (37 bp):
TATTTGAAAAGTCATGTCTCTTCACTTGATCCATGTC
Found at i:20348985 original size:46 final size:48
Alignment explanation
Indices: 20348928--20349044 Score: 141
Period size: 49 Copynumber: 2.5 Consensus size: 48
20348918 CTTATGCTTG
* *
20348928 AACTTAATTAACATATAAGATGCATAAATGCA-A-GT-CTTAAAATACA
1 AACTTAATTAACATATAAGATGCAT-AATGCAGACATAATTAAAATACA
* * * *
20348974 AACTTATTTAACATATGAGTTTCATAATGCATGACATAATTAAAATACA
1 AACTTAATTAACATATAAGATGCATAATGCA-GACATAATTAAAATACA
20349023 AACTTAATTAACATATAAGATG
1 AACTTAATTAACATATAAGATG
20349045 TTTTTATGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
45 6 0.11
46 21 0.37
47 1 0.02
48 1 0.02
49 28 0.49
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (48 bp):
AACTTAATTAACATATAAGATGCATAATGCAGACATAATTAAAATACA
Found at i:20350088 original size:7 final size:7
Alignment explanation
Indices: 20350076--20350113 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
20350066 CAAATTGCTA
20350076 CACACTC
1 CACACTC
20350083 CACACTC
1 CACACTC
20350090 CACACTC
1 CACACTC
20350097 CACACTC
1 CACACTC
20350104 CACACTC
1 CACACTC
20350111 CAC
1 CAC
20350114 CTTTCTTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.58, G:0.00, T:0.13
Consensus pattern (7 bp):
CACACTC
Found at i:20351484 original size:33 final size:33
Alignment explanation
Indices: 20351445--20351518 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
20351435 AAACATATTT
* *
20351445 TTATTATTGTATTTTTATTAAATATTATAGGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
20351478 TTATTATTGTATTATTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
20351511 TTATTATT
1 TTATTATT
20351519 ATTAAAGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (33 bp):
TTATTATTGTATTATTATTAAATATTATAAGTA
Found at i:20351535 original size:24 final size:25
Alignment explanation
Indices: 20351487--20351543 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 25
20351477 ATTATTATTG
*
20351487 TATTATTATTAAATATTATAAGTAT
1 TATTATTATTAAAGATTATAAGTAT
20351512 TATTATTATTAAAGA-TATAAGTAT
1 TATTATTATTAAAGATTATAAGTAT
20351536 TATTATTA
1 TATTATTA
20351544 AACATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (25 bp):
TATTATTATTAAAGATTATAAGTAT
Found at i:20354927 original size:18 final size:19
Alignment explanation
Indices: 20354904--20354948 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
20354894 AAATGTACTA
*
20354904 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTAGACCAC
20354922 ATTAATTTCTTTAGACCAC
1 ATTAATTTCTTTAGACCAC
20354941 ATTAATTT
1 ATTAATTT
20354949 AAGATCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTAGACCAC
Found at i:20362877 original size:16 final size:16
Alignment explanation
Indices: 20362856--20362887 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20362846 GTTTTGTTGC
*
20362856 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
20362872 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
20362888 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:20363086 original size:46 final size:43
Alignment explanation
Indices: 20363011--20363109 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
20363001 AATAATAACA
*
20363011 GATACACGGTGGATTCAGCACACAACAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAACAACCA-CC-TTATAATCAAT
* * *
20363057 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAACAACCACCTTATAATCAAT
20363101 GATACCGGT
1 GATACCGGT
20363110 TCACATAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 13 0.28
45 2 0.04
46 23 0.49
47 4 0.09
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAACAACCACCTTATAATCAAT
Found at i:20363173 original size:51 final size:51
Alignment explanation
Indices: 20363115--20363301 Score: 197
Period size: 51 Copynumber: 3.7 Consensus size: 51
20363105 CCGGTTCACA
* *
20363115 TAGTAGCCTGCACATAGTACTACACTTGTGACCATCACTATTC-GATACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT-ACTATTCTGATACACG
* * *
20363166 TAGTAGCCTACACATAGTACTACACATGTGATCGA-AGCTATCCTGTATGCA--
1 TAGTAGCCTACACATAGTACTACACATGTGA-CCATA-CTATTCTG-ATACACG
** *
20363217 TAGTAGCCTACACATAGTACTACACATGCCACC-TA-TCATTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATACT-ATTCTGATACACG
* *
20363267 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT
20363302 CACTTTCACT
Statistics
Matches: 112, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
48 4 0.04
49 5 0.04
50 32 0.29
51 64 0.57
52 3 0.03
53 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATACTATTCTGATACACG
Found at i:20363281 original size:101 final size:102
Alignment explanation
Indices: 20363113--20363297 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 102
20363103 TACCGGTTCA
* * **
20363113 CATAGTAGCCTGCACATAGTACTACACTTGTGACCATCACTATTCGATACACGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATGCCACCATCACTATTCGATACACGTAGTAGCCTACA
*
20363178 CATAGTACTACACATGTGATCGAAGCTATCCTGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCTGTATG
* *
20363215 CATAGTAGCCTACACATAGTACTACACATGCCACC-T-A-TCATTCTGGTACACGTAGTAGCCTG
1 CATAGTAGCCTACACATAGTACTACACATGCCACCATCACT-ATTC-GATACACGTAGTAGCCTA
20363277 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
20363298 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.07
101 37 0.50
102 31 0.42
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCCACCATCACTATTCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCCTGTATG
Found at i:20363320 original size:101 final size:102
Alignment explanation
Indices: 20363108--20363331 Score: 246
Period size: 101 Copynumber: 2.2 Consensus size: 102
20363098 AATGATACCG
* * **
20363108 GTTCACATAGTAGCCTGCACATAGTACTACACTTGTGACCATCACTATTCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCCACCATCACTATTCGATACACGTAGTAGC
* *
20363173 CTACACATAGTACTACACATGTGATCGAAGCTATCCT
66 CTACACATAGTACTACACACGTGATCCAAGCTATCCT
* *
20363210 GTAT-GCATAGTAGCCTACACATAGTACTACACATGCCACC-T-A-TCATTCTGGTACACGTAGT
1 GT-TCACATAGTAGCCTACACATAGTACTACACATGCCACCATCACT-ATTC-GATACACGTAGT
* *
20363271 AGCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCACT
63 AGCCTACACATAGTACTACACACGTGATCCA--AGCTATC-CT
*
20363312 -TTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTACACA
20363332 CAATCCATGC
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
99 1 0.01
100 8 0.08
101 57 0.55
102 36 0.35
103 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCCACCATCACTATTCGATACACGTAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCCT
Found at i:20368519 original size:33 final size:33
Alignment explanation
Indices: 20368482--20368563 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
20368472 TGGCCCTGCC
* * * *
20368482 ATGGTCTTA-CATTCGTAGTGCCATAACTCAGTT
1 ATGGTCTTATCA-TCATAATGCCATAACCCAGCT
*
20368515 ATGGTCTTATCATCATAATGCCATAGCCCAGCT
1 ATGGTCTTATCATCATAATGCCATAACCCAGCT
20368548 ATGGTCTT-TCAT-ATAA
1 ATGGTCTTATCATCATAA
20368564 ACACTGCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 4 0.09
32 4 0.09
33 33 0.77
34 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (33 bp):
ATGGTCTTATCATCATAATGCCATAACCCAGCT
Found at i:20370994 original size:46 final size:46
Alignment explanation
Indices: 20370943--20371037 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
20370933 ATAGTGTGAC
* *
20370943 GTTCATCATATACTAAGGTTCCTATCATCCTTTATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
20370989 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
20371035 GTT
1 GTT
20371038 TTTTCTTTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:20372505 original size:19 final size:20
Alignment explanation
Indices: 20372468--20372506 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20372458 TTTAATCTAG
* *
20372468 TTTAATTTTTTTTGATTAAT
1 TTTAAATTTTTATGATTAAT
20372488 TTTAAATTTTTATG-TTAAT
1 TTTAAATTTTTATGATTAAT
20372507 AAATGGGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTAAATTTTTATGATTAAT
Found at i:20385242 original size:26 final size:26
Alignment explanation
Indices: 20385184--20385245 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
20385174 CATTCCAACC
* * *
20385184 CACAGCTCATGTGAGTAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATCT
* * *
20385210 CATAGCTCGTGTGAGCATACTCATCT
1 CACAGCTCGTGTGAGCAGACCCATCT
20385236 CACAGCTCGT
1 CACAGCTCGT
20385246 CAAATCGTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATCT
Found at i:20387824 original size:27 final size:27
Alignment explanation
Indices: 20387794--20387971 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20387784 ATATTGAGTC
* * * *
20387794 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
20387821 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20387848 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
20387876 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
20387903 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
20387930 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20387957 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20387972 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:20387933 original size:82 final size:81
Alignment explanation
Indices: 20387815--20387970 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20387805 TGCTATATAA
* *
20387815 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
20387880 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20387897 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
20387961 CACTTAGTGC
65 CACTTAGTGC
20387971 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20395917 original size:40 final size:40
Alignment explanation
Indices: 20395782--20396070 Score: 328
Period size: 39 Copynumber: 7.4 Consensus size: 40
20395772 CTCCTGTTCA
* * * * *
20395782 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
20395821 AATGCCTTCGGGACATATCCCGGATTTAACAACTCGCA-G
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
20395860 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20395900 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20395940 -ATGCCTTCGGGACTTAA-CCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
20395978 AATGCCTTC-GGACTTAA-CCGGATTTAGTATCT-GCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
20396014 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
*
20396054 AAAGCCTTCGGGACTTA
1 AATGCCTTCGGGACTTA
20396071 GCCGGACAGC
Statistics
Matches: 224, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
36 11 0.05
37 9 0.04
38 52 0.23
39 93 0.42
40 56 0.25
41 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20397824 original size:30 final size:29
Alignment explanation
Indices: 20397790--20397847 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
20397780 ATACTTTAGA
*
20397790 AACATTTAGGACTAAA-TTGGAAATATTTGG
1 AACATTTAGGA-AAAATTTGGAAA-ATTTGG
20397820 AACATTTAGGAAAAATTTGGAAAATTTG
1 AACATTTAGGAAAAATTTGGAAAATTTG
20397848 AACTGCGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (29 bp):
AACATTTAGGAAAAATTTGGAAAATTTGG
Found at i:20397837 original size:20 final size:20
Alignment explanation
Indices: 20397808--20397846 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20397798 GGACTAAATT
* *
20397808 GGAAATATTTGGAACATTTA
1 GGAAAAATTTGGAAAATTTA
20397828 GGAAAAATTTGGAAAATTT
1 GGAAAAATTTGGAAAATTT
20397847 GAACTGCGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (20 bp):
GGAAAAATTTGGAAAATTTA
Found at i:20404535 original size:13 final size:13
Alignment explanation
Indices: 20404517--20404547 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
20404507 TCTCAATGCC
20404517 TCATTTTCCAAAA
1 TCATTTTCCAAAA
20404530 TCATTTTCCAAAA
1 TCATTTTCCAAAA
20404543 TCATT
1 TCATT
20404548 GACTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (13 bp):
TCATTTTCCAAAA
Found at i:20405346 original size:18 final size:18
Alignment explanation
Indices: 20405323--20405357 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
20405313 ATAAATGCTG
20405323 AAATGAAAATTTTCAATC
1 AAATGAAAATTTTCAATC
20405341 AAATGAAAATTTTCAAT
1 AAATGAAAATTTTCAAT
20405358 AATTTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (18 bp):
AAATGAAAATTTTCAATC
Found at i:20407834 original size:13 final size:13
Alignment explanation
Indices: 20407816--20407843 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20407806 TTTTCACATG
20407816 ATTATATATAATA
1 ATTATATATAATA
20407829 ATTATATATAATA
1 ATTATATATAATA
20407842 AT
1 AT
20407844 GGTAAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTATATATAATA
Found at i:20411085 original size:13 final size:13
Alignment explanation
Indices: 20411067--20411091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20411057 AGATGACAGA
20411067 ATCAAATATACAT
1 ATCAAATATACAT
20411080 ATCAAATATACA
1 ATCAAATATACA
20411092 AAATCCTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ATCAAATATACAT
Found at i:20421270 original size:4 final size:4
Alignment explanation
Indices: 20421261--20421298 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
20421251 ACACTGTATG
20421261 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
20421299 AAATTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:20421524 original size:4 final size:4
Alignment explanation
Indices: 20421515--20421552 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
20421505 TCTTGTTTTC
20421515 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
20421553 CTGGACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:20423493 original size:29 final size:30
Alignment explanation
Indices: 20423418--20423482 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
20423408 TTAAAATTTA
* * *
20423418 TTATTAAAAT-ACAATTTAATATTAAATAAT
1 TTATTAAAATAATAAATT-ATATTAAACAAT
20423448 TTATTAAAATAATAAATTATATT-AACAAT
1 TTATTAAAATAATAAATTATATTAAACAAT
20423477 TTATTA
1 TTATTA
20423483 TATTATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.35
30 15 0.48
31 5 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAATAAATTATATTAAACAAT
Found at i:20423560 original size:13 final size:13
Alignment explanation
Indices: 20423518--20423573 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
20423508 ATATATTTAA
*
20423518 TAATATTGAAAATT
1 TAATATTTAAAA-T
* *
20423532 ATAATATTTGATAT
1 -TAATATTTAAAAT
20423546 TAATATTTAAAAT
1 TAATATTTAAAAT
*
20423559 TAA-AATTAAAAT
1 TAATATTTAAAAT
20423571 TAA
1 TAA
20423574 AAATTTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 11 0.31
13 14 0.40
14 1 0.03
15 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (13 bp):
TAATATTTAAAAT
Found at i:20424177 original size:30 final size:30
Alignment explanation
Indices: 20424135--20424213 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
20424125 ATGCGATTTG
*
20424135 ATACATG-AACTTTAATTTGGTGC-AAT-T
1 ATACATGAAACTTTAATTTAGTGCAAATGT
* *
20424162 ATACATATGAAACTTTGATTGTAGTTCAAATGT
1 ATAC--ATGAAACTTTAATT-TAGTGCAAATGT
20424195 ATACATGAAACTTTAATTT
1 ATACATGAAACTTTAATTT
20424214 TCATTCAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
27 4 0.10
29 3 0.07
30 10 0.24
31 17 0.40
32 3 0.07
33 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (30 bp):
ATACATGAAACTTTAATTTAGTGCAAATGT
Found at i:20425066 original size:20 final size:20
Alignment explanation
Indices: 20425043--20425099 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
20425033 CAGCTCCTTT
* *
20425043 AGCTCGTTTCAGCTCCAATC
1 AGCTCATTTCAGCTCAAATC
*
20425063 AGCTCATTTGAGCTCAAATC
1 AGCTCATTTCAGCTCAAATC
20425083 AGCTCA-TTCGAGCTCAA
1 AGCTCATTTC-AGCTCAA
20425100 TTTAGCTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAAATC
Found at i:20425106 original size:20 final size:20
Alignment explanation
Indices: 20425053--20425099 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
20425043 AGCTCGTTTC
* *
20425053 AGCTCCAATCAGCTCATTTG
1 AGCTCAAATCAGCTCATTCG
20425073 AGCTCAAATCAGCTCATTCG
1 AGCTCAAATCAGCTCATTCG
20425093 AGCTCAA
1 AGCTCAA
20425100 TTTAGCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (20 bp):
AGCTCAAATCAGCTCATTCG
Found at i:20432832 original size:52 final size:52
Alignment explanation
Indices: 20432689--20432832 Score: 173
Period size: 52 Copynumber: 2.8 Consensus size: 52
20432679 TAAATTTTTG
* *
20432689 TGTGATGAAATGTATATGCAAGTTTTCATTGCATTAAATGCATGAACAGTTT
1 TGTGATGAAATGTATACGCAAGTTTTCATTGCATTGAATGCATGAACAGTTT
* * * * *
20432741 TGTGATGAAATGTATACACAAATTTTCTTTGCATCGAATGCTTGAACTA-TTT
1 TGTGATGAAATGTATACGCAAGTTTTCATTGCATTGAATGCATGAAC-AGTTT
** * *
20432793 TGTGATGAAATGTATACGTGAGTTGTCATTGTATTGAATG
1 TGTGATGAAATGTATACGCAAGTTTTCATTGCATTGAATG
20432833 TGTGAATTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
52 75 0.99
53 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (52 bp):
TGTGATGAAATGTATACGCAAGTTTTCATTGCATTGAATGCATGAACAGTTT
Found at i:20433080 original size:28 final size:28
Alignment explanation
Indices: 20433048--20433107 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
20433038 GTAAGCATCC
* * *
20433048 ATGTGTAAACTGACTCCGTAATCTACTT
1 ATGTGCAAACCGACTCCGTAATCTACAT
*
20433076 ATGTGCAAACCGACTTCGTAATCTACAT
1 ATGTGCAAACCGACTCCGTAATCTACAT
20433104 ATGT
1 ATGT
20433108 ACGATCCGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (28 bp):
ATGTGCAAACCGACTCCGTAATCTACAT
Found at i:20442309 original size:50 final size:50
Alignment explanation
Indices: 20442117--20442363 Score: 176
Period size: 50 Copynumber: 4.8 Consensus size: 50
20442107 TGATAATAAA
** * * *
20442117 TGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATA-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** ** *
20442166 TACCAATTCCATATCCCAGATATGGTCTTACATAAGAGTTCTCATATCGG
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** * *
20442216 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGGCTTCTCATCTCGG
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
20442266 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGG
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC---GG
* * * *
20442322 TGCCAATGCCGTGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCT
20442364 TTACGCAAAT
Statistics
Matches: 154, Mismatches: 35, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.23
50 76 0.49
53 3 0.02
56 39 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:20445046 original size:32 final size:32
Alignment explanation
Indices: 20444993--20445066 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
20444983 AGTAGTCTTT
* *
20444993 GGTGTGAACATATGGACTTGGAAGGTTCC-TTG
1 GGTGTGAACATATGAACTTGGAAGG-TCCATCG
* *
20445025 GGTGTGAACATCA-GAATTTGGATGGTCCATCG
1 GGTGTGAACAT-ATGAACTTGGAAGGTCCATCG
20445057 GGTGTGAACA
1 GGTGTGAACA
20445067 AAGGCAGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 32 0.89
33 1 0.03
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (32 bp):
GGTGTGAACATATGAACTTGGAAGGTCCATCG
Found at i:20451795 original size:23 final size:22
Alignment explanation
Indices: 20451752--20451795 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
20451742 TTTCAAGTCA
20451752 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
20451775 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
20451796 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:20452029 original size:51 final size:51
Alignment explanation
Indices: 20451959--20452153 Score: 198
Period size: 51 Copynumber: 3.8 Consensus size: 51
20451949 ATTAATGATA
* * * *
20451959 CCGGTTCACATAGTAGCCTGCACACAGTACTACACATGTGACCATCA-CTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTAT
* *
20452010 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTAT
* * * * * * * * * *
20452061 TCGGTACGCATCGTAGCCTACACAAAGTACTACACATGCGACC-TATCTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTAT
*
20452111 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
20452154 GTCACTTTCA
Statistics
Matches: 114, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
50 40 0.35
51 72 0.63
52 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTAT
Found at i:20452181 original size:101 final size:101
Alignment explanation
Indices: 20451962--20452185 Score: 265
Period size: 101 Copynumber: 2.2 Consensus size: 101
20451952 AATGATACCG
* * *
20451962 GTTCACATAGTAGCCTGCACACAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACAAAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGC
* *
20452027 CTGCACATAGTACTACACACGTGATCGAAGCTATTCG
65 CTGCACATAGTACTACACACGTGACCGAAGCTATTCC
* * * * * *
20452064 GTACGCATCGTAGCCTACACAAAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTACACAAAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGC
*
20452128 CTGCACATAGTACTACACACGTGACCGTCA-CT-TTCAC
65 CTGCACATAGTACTACACACGTGACCG-AAGCTATTC-C
* *
20452165 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTACACA
20452186 CAGTCCGTGC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
100 4 0.04
101 63 0.62
102 35 0.34
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (101 bp):
GTTCACATAGTAGCCTACACAAAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGACCGAAGCTATTCC
Found at i:20455768 original size:9 final size:9
Alignment explanation
Indices: 20455754--20455784 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20455744 TTAAAATCTT
20455754 TTTTTTTTA
1 TTTTTTTTA
20455763 TTTTTTTTA
1 TTTTTTTTA
20455772 TTTTTGTTTA
1 TTTTT-TTTA
20455782 TTT
1 TTT
20455785 ATCCGCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:20456494 original size:14 final size:13
Alignment explanation
Indices: 20456470--20456524 Score: 74
Period size: 14 Copynumber: 4.1 Consensus size: 13
20456460 TTGTTACCGC
*
20456470 TATTATGTTATAT
1 TATTATTTTATAT
*
20456483 CATTAGTTTTATAT
1 TATTA-TTTTATAT
20456497 TATTATTGTTATAT
1 TATTATT-TTATAT
20456511 TATTATTTTATAT
1 TATTATTTTATAT
20456524 T
1 T
20456525 TACTTAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 13 0.35
14 24 0.65
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:20456500 original size:27 final size:27
Alignment explanation
Indices: 20456470--20456524 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
20456460 TTGTTACCGC
20456470 TATTA-TGTTATATCATTAGTTTTATAT
1 TATTATTGTTATATCATTA-TTTTATAT
*
20456497 TATTATTGTTATATTATTATTTTATAT
1 TATTATTGTTATATCATTATTTTATAT
20456524 T
1 T
20456525 TACTTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (27 bp):
TATTATTGTTATATCATTATTTTATAT
Found at i:20456603 original size:22 final size:22
Alignment explanation
Indices: 20456578--20456640 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
20456568 TTATAGCTAT
* *
20456578 TTATATATATCTTTGTATCTTA
1 TTATATATATCTATATATCTTA
20456600 TTATATATATCTATATATCTTA
1 TTATATATATCTATATATCTTA
20456622 TTATATATA--TATATATCTT
1 TTATATATATCTATATATCTT
20456641 TATAAACGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.26
22 29 0.74
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATATATCTATATATCTTA
Found at i:20463253 original size:24 final size:24
Alignment explanation
Indices: 20463220--20463272 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
20463210 TGTCCTAAAG
*
20463220 TTACAGTGGACTT-AACCTTGAAGA
1 TTACAATGGA-TTGAACCTTGAAGA
**
20463244 TTACAATGGATTGAAGTTTGAAGA
1 TTACAATGGATTGAACCTTGAAGA
20463268 TTACA
1 TTACA
20463273 GTGGGGGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (24 bp):
TTACAATGGATTGAACCTTGAAGA
Found at i:20463622 original size:44 final size:44
Alignment explanation
Indices: 20463557--20464061 Score: 326
Period size: 44 Copynumber: 11.4 Consensus size: 44
20463547 GTGAAGATAG
*
20463557 CAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAGACAC
1 CAGAT-TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
* * * * *
20463602 CAGCTTTGCCTCCCTGTACTGGCAGCGGAGCAGA-CTGAAGATAG
1 CAGATTTGCCTTCCTGTACTGGCAGCGAAGCAGATC-GAAGACAC
* * * * * *
20463646 CAGATCATACCTTCCTGTACTGGTAGTGAAGCAAATAGAAGACAC
1 CAGAT-TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
* * * * * * *
20463691 TAGTTTTGCCTCCCTGTACTGGCAGTGGAGCAGA-CTGAAGATAG
1 CAGATTTGCCTTCCTGTACTGGCAGCGAAGCAGATC-GAAGACAC
* * * *
20463735 CAGATCATGCCTTCCTGTACTGGCAGTGAAGCAAATCGAACACAC
1 CAGAT-TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
* * * * * *
20463780 CAGCTTTGCC-TCCTTGTA-TTGCAG-TAGAGTAGA-CTGAAGATAG
1 CAGATTTGCCTTCC-TGTACTGGCAGCGA-AGCAGATC-GAAGACAC
* * * * *
20463823 TAGATCATGCCTTCTTGTACTGACAGCGAAGCAGATTGAAGACAC
1 CAGAT-TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
* * * * *
20463868 CAGCTTTGCC-TCTCTGTACTGGCAGCGGAGCAGA-CTAAGATAG
1 CAGATTTGCCTTC-CTGTACTGGCAGCGAAGCAGATCGAAGACAC
* *
20463911 CAGATCTTGCCTTCCTGTACTAGCAACGAAGCAGATCGAAGACAC
1 CAGAT-TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
* * * * * * * * *
20463956 CAGCTTTGCCTTCCTATGCTGACAGCGGAGTAGAAT-GAAAATAA
1 CAGATTTGCCTTCCTGTACTGGCAGCGAAGCAG-ATCGAAGACAC
* * ** *
20464000 CAGATCATGCCTTCCTATACTGATAGTGAAGCAGATCGAAGACAC
1 CAGAT-TTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
*
20464045 CAGCTTTGCCTTCCTGT
1 CAGATTTGCCTTCCTGT
20464062 GCTGACTTTA
Statistics
Matches: 341, Mismatches: 98, Indels: 43
0.71 0.20 0.09
Matches are distributed among these distances:
42 2 0.01
43 32 0.09
44 171 0.50
45 134 0.39
46 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (44 bp):
CAGATTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACAC
Found at i:20463699 original size:89 final size:89
Alignment explanation
Indices: 20463548--20464061 Score: 663
Period size: 89 Copynumber: 5.8 Consensus size: 89
20463538 AACAGATCGG
* *
20463548 TGAAGATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
20463613 CCCTGTACTGGCAGCGGAGCAGAC
66 CCCTGTACTGGCAGCGGAGCAGAC
* * * * * * *
20463637 TGAAGATAGCAGATCATACCTTCCTGTACTGGTAGTGAAGCAAATAGAAGACACTAGTTTTGCCT
1 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
*
20463702 CCCTGTACTGGCAGTGGAGCAGAC
66 CCCTGTACTGGCAGCGGAGCAGAC
* * *
20463726 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGTGAAGCAAATCGAACACACCAGCTTTGCCT
1 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
* * ** *
20463791 CCTTGTA-TTGCAGTAGAGTAGAC
66 CCCTGTACTGGCAGCGGAGCAGAC
* * * *
20463814 TGAAGATAGTAGATCATGCCTTCTTGTACTGACAGCGAAGCAGATTGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
*
20463879 CTCTGTACTGGCAGCGGAGCAGAC
66 CCCTGTACTGGCAGCGGAGCAGAC
* * *
20463903 T-AAGATAGCAGATCTTGCCTTCCTGTACTAGCAACGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
* * * * * *
20463967 TCCTATGCTGACAGCGGAGTAGAA
66 CCCTGTACTGGCAGCGGAGCAGAC
* * * ** *
20463991 TGAAAATAACAGATCATGCCTTCCTATACTGATAGTGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
*
20464056 TCCTGT
66 CCCTGT
20464062 GCTGACTTTA
Statistics
Matches: 366, Mismatches: 57, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
88 150 0.41
89 216 0.59
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
CCCTGTACTGGCAGCGGAGCAGAC
Found at i:20463887 original size:177 final size:177
Alignment explanation
Indices: 20463548--20464061 Score: 692
Period size: 177 Copynumber: 2.9 Consensus size: 177
20463538 AACAGATCGG
*
20463548 TGAAGATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
* * * * *
20463613 CCCTGTACTGGCAGCGGAGCAGACTGAAGATAGCAGATCATACCTTCCTGTACTGGTAGTGAAGC
66 CCTTGTA-TTGCAGCGGAGTAGACTGAAGATAGCAGATCATGCCTTCCTGTACTGATAGTGAAGC
* * * *
20463678 AAATAGAAGACACTAGTTTTGCCTCCCTGTACTGGCAGTGGAGCAGAC
130 AGATAGAAGACACCAGCTTTGCCTCCCTGTACTGGCAGCGGAGCAGAC
* * * *
20463726 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGTGAAGCAAATCGAACACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
** * * * *
20463791 CCTTGTATTGCAGTAGAGTAGACTGAAGATAGTAGATCATGCCTTCTTGTACTGACAGCGAAGCA
66 CCTTGTATTGCAGCGGAGTAGACTGAAGATAGCAGATCATGCCTTCCTGTACTGATAGTGAAGCA
* *
20463856 GATTGAAGACACCAGCTTTGCCTCTCTGTACTGGCAGCGGAGCAGAC
131 GATAGAAGACACCAGCTTTGCCTCCCTGTACTGGCAGCGGAGCAGAC
* *
20463903 T-AAGATAGCAGATCTTGCCTTCCTGTACTAGCAACGAAGCAGATCGAAGACACCAGCTTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCC-
* * * * *
20463967 TCCTATG--CTGACAGCGGAGTAGAATGAAAATAACAGATCATGCCTTCCTATACTGATAGTGAA
65 TCCT-TGTATTG-CAGCGGAGTAGACTGAAGATAGCAGATCATGCCTTCCTGTACTGATAGTGAA
* *
20464030 GCAGATCGAAGACACCAGCTTTGCCTTCCTGT
128 GCAGATAGAAGACACCAGCTTTGCCTCCCTGT
20464062 GCTGACTTTA
Statistics
Matches: 291, Mismatches: 42, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
176 58 0.20
177 165 0.57
178 68 0.23
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (177 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGACACCAGCTTTGCCT
CCTTGTATTGCAGCGGAGTAGACTGAAGATAGCAGATCATGCCTTCCTGTACTGATAGTGAAGCA
GATAGAAGACACCAGCTTTGCCTCCCTGTACTGGCAGCGGAGCAGAC
Found at i:20479692 original size:28 final size:28
Alignment explanation
Indices: 20479659--20479757 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
20479649 TTTAATAAGT
* * *
20479659 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
20479687 ACGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
20479715 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
20479743 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
20479758 CAATCTCCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:20489139 original size:55 final size:55
Alignment explanation
Indices: 20489055--20489260 Score: 263
Period size: 55 Copynumber: 3.8 Consensus size: 55
20489045 ATATTAAGTC
* * *
20489055 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
20489110 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
** * * * **
20489165 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTC-ATTT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTA-CATAATCAAACT
* * *
20489219 CGCACACTTAGTGCAACATAGTTAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
20489261 GTACAATTTA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 39 0.29
55 94 0.71
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:20489195 original size:82 final size:83
Alignment explanation
Indices: 20489055--20489259 Score: 256
Period size: 82 Copynumber: 2.5 Consensus size: 83
20489045 ATATTAAGTC
* * * *
20489055 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTT
20489119 AGTGC-TACATAGTCAACT
66 AGTGCAT-CATAGTCAACT
* ** *
20489137 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTC-AATTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTT
* **
20489201 AGTGCATCATATTCATTT
66 AGTGCATCATAGTCAACT
* *
20489219 CGCACACTTAGTGCAACATAGTTAAA-TCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGC
20489260 TGTACAATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.14
82 69 0.64
83 24 0.22
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTT
AGTGCATCATAGTCAACT
Found at i:20489202 original size:27 final size:27
Alignment explanation
Indices: 20489055--20489260 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
20489045 ATATTAAGTC
* * *
20489055 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
20489082 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
20489110 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
20489137 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
20489165 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
20489192 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* * *
20489219 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
20489246 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20489261 GTACAATTTA
Statistics
Matches: 159, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
27 108 0.68
28 51 0.32
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:20497152 original size:27 final size:27
Alignment explanation
Indices: 20497135--20497339 Score: 153
Period size: 27 Copynumber: 7.6 Consensus size: 27
20497125 ATATTAAGTC
20497135 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
20497162 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
20497190 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
20497217 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
20497245 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
20497272 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * *
20497299 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTCAGTGCTATATAATCAACT
*
20497325 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
20497340 GTACAATTTA
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
26 15 0.09
27 92 0.58
28 51 0.32
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:20497219 original size:55 final size:55
Alignment explanation
Indices: 20497135--20497339 Score: 272
Period size: 55 Copynumber: 3.8 Consensus size: 55
20497125 ATATTAAGTC
* * *
20497135 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
20497190 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
** * * * **
20497245 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTC-ATTT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTA-CATAATCAAACT
*
20497299 CGCACACTTAGTGCAACATAGTCAA-TCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
20497340 GTACAATTTA
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
53 15 0.11
54 25 0.19
55 94 0.70
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:20497275 original size:82 final size:82
Alignment explanation
Indices: 20497135--20497338 Score: 261
Period size: 82 Copynumber: 2.5 Consensus size: 82
20497125 ATATTAAGTC
* * * *
20497135 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTA
20497200 GTGC-TACATAGTCAACT
66 GTGCAT-CATAGTCAACT
* ** *
20497217 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTC-AATTCGCACACTT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTT
* **
20497281 AGTGCATCATATTCATTT
65 AGTGCATCATAGTCAACT
*
20497299 CGCACACTTAGTGCAACATAGTCAA-TCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
20497339 TGTACAATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
80 15 0.14
81 2 0.02
82 67 0.62
83 24 0.22
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTA
GTGCATCATAGTCAACT
Found at i:20497362 original size:82 final size:82
Alignment explanation
Indices: 20497135--20497364 Score: 240
Period size: 82 Copynumber: 2.8 Consensus size: 82
20497125 ATATTAAGTC
* * * * *
20497135 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCGTACA-ATTCAATCTCGCACACTT
20497199 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
20497217 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCG--C-ATGGTCAAT-TCGCACA
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTG-CGTACAAT--TCAATCTCGCACA
* **
20497278 CTTAGTGC-ATCATATTCATTT
62 CTTAGTGCTA-CATAGTCAACT
* * * *
20497299 CGCACACTTAGTGCAACATAGTCAA-TCGCACACTTAGTGCTGTACAATTTAATCCCGCGCACTT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC-GTACAATTCAATCTCGCACACTT
20497363 AG
65 AG
20497365 CGCCAATCTC
Statistics
Matches: 125, Mismatches: 12, Indels: 22
0.79 0.08 0.14
Matches are distributed among these distances:
79 1 0.01
80 15 0.12
81 8 0.06
82 76 0.61
83 24 0.19
84 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCGTACAATTCAATCTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:20505349 original size:41 final size:43
Alignment explanation
Indices: 20505300--20505408 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
20505290 AACAGTTACT
* * *
20505300 CGGTGGAATGAGCACTTAGCAACCACC-TT-ATATTC-AGTGATA
1 CGGTGGAATCAGCACTTAGCAACC-CCTTTCACAATCAAG-GATA
* *
20505342 CGG-GGAATCAGCACATAACAACCCCTTTCACAATCAAGGATA
1 CGGTGGAATCAGCACTTAGCAACCCCTTTCACAATCAAGGATA
20505384 CGGTGGAATCAGCACTTAGCAACCC
1 CGGTGGAATCAGCACTTAGCAACCC
20505409 TAACTATGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.04
41 19 0.34
42 14 0.25
43 21 0.38
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCCCTTTCACAATCAAGGATA
Found at i:20507952 original size:30 final size:30
Alignment explanation
Indices: 20507891--20507949 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20507881 ATTTTTTGAA
* * *
20507891 AATATTTACAAAATGAGGCATCTAAATTTT
1 AATATTTACAAAAAGAGGCAACCAAATTTT
20507921 AATATTTACAAAAAGA-GCAACCAAATTTT
1 AATATTTACAAAAAGAGGCAACCAAATTTT
20507950 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACCAAATTTT
Found at i:20522734 original size:39 final size:39
Alignment explanation
Indices: 20522656--20522916 Score: 318
Period size: 39 Copynumber: 6.6 Consensus size: 39
20522646 GCTCCTCGTT
* *
20522656 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
20522696 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
*
20522735 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
*
20522774 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
*
20522813 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
* *
20522852 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
20522893 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
20522917 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 15
0.89 0.05 0.07
Matches are distributed among these distances:
38 1 0.00
39 162 0.80
40 31 0.15
41 9 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:20535712 original size:104 final size:104
Alignment explanation
Indices: 20535588--20535797 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
20535578 TGAGAGCATG
20535588 TTTACATGCACAAGTGTAAAATTGAATTTTCCATATCACATACATGGGGTGGGTAATTGTGAAAG
1 TTTACATGCACAAGTGTAAAATTGAATTTTCCATATCACATACATGGGGTGGGTAATTGTGAAAG
20535653 GTCAAAGTAGTGGCAGTATATCTGCAAATCAGTGGTGGC
66 GTCAAAGTAGTGGCAGTATATCTGCAAATCAGTGGTGGC
20535692 TTTACATGCACAAGTGTAAAATTGAATTTTCCATATCACATACATGGGGTGGGTAATTGTGAAAG
1 TTTACATGCACAAGTGTAAAATTGAATTTTCCATATCACATACATGGGGTGGGTAATTGTGAAAG
20535757 GTCAAAGTAGTGGCAGTATATCTGCAAATCAGTGGTGGC
66 GTCAAAGTAGTGGCAGTATATCTGCAAATCAGTGGTGGC
20535796 TT
1 TT
20535798 GTCCACAAAA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (104 bp):
TTTACATGCACAAGTGTAAAATTGAATTTTCCATATCACATACATGGGGTGGGTAATTGTGAAAG
GTCAAAGTAGTGGCAGTATATCTGCAAATCAGTGGTGGC
Found at i:20535820 original size:49 final size:49
Alignment explanation
Indices: 20535767--20535904 Score: 186
Period size: 49 Copynumber: 2.8 Consensus size: 49
20535757 GTCAAAGTAG
*
20535767 TGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTACCAA
1 TGGCAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAATTTACCAA
* * * * * * *
20535816 TGGCAATATATATACAATTCAATGGTGGCTTGTCCATAAAATTTATCAG
1 TGGCAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAATTTACCAA
* *
20535865 TGGCAGTATATTTGCATATCAGTGGTGGCTTGTCCACAAA
1 TGGCAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAA
20535905 TGGTGTTTTC
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 74 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (49 bp):
TGGCAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAATTTACCAA
Found at i:20542117 original size:26 final size:27
Alignment explanation
Indices: 20542080--20542130 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
20542070 ACTATAGCAC
20542080 AAATCAGTCATTTACCCTCGAGGGGAA
1 AAATCAGTCATTTACCCTCGAGGGGAA
*
20542107 AAAT-AGTCATTTACCCTCTAGGGG
1 AAATCAGTCATTTACCCTCGAGGGG
20542131 CATTACGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGAA
Found at i:20554519 original size:29 final size:29
Alignment explanation
Indices: 20554484--20554726 Score: 140
Period size: 29 Copynumber: 8.4 Consensus size: 29
20554474 TCATCGACCA
*
20554484 ATGAAAAGGGATAGCTTCGACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACCATCGAAT
* ** *
20554513 ATGAAAAGGGATAGCTTTGGTCATCGATT
1 ATGAAAAGGGATAGCTTCGACCATCGAAT
* * * *
20554542 ATAAAAAGGGAT-GGTGACGACCAT-AAACT
1 ATGAAAAGGGATAGCT-TCGACCATCGAA-T
* * *
20554571 TTGAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACCATCGAA-T
* * * * *
20554600 ATAAAAAAGGAT-GGTGACGACCATTGAAT
1 ATGAAAAGGGATAGCT-TCGACCATCGAAT
* *
20554629 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACCATCGAAT
* * * *
20554658 ATGAAATGGGATAGCTTCGGCTATTG-AT
1 ATGAAAAGGGATAGCTTCGACCATCGAAT
* * *
20554686 AATGAAATA-GGATGGTTTGGACCATCGAAT
1 -ATGAAA-AGGGATAGCTTCGACCATCGAAT
20554716 ATGAAAAGGGA
1 ATGAAAAGGGA
20554727 CAATTACGAC
Statistics
Matches: 170, Mismatches: 35, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
28 6 0.04
29 158 0.93
30 6 0.04
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACCATCGAAT
Found at i:20557683 original size:17 final size:17
Alignment explanation
Indices: 20557661--20557693 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20557651 GCATTTGTTT
20557661 TTATTTTATTATATTCA
1 TTATTTTATTATATTCA
*
20557678 TTATTTTATTCTATTC
1 TTATTTTATTATATTC
20557694 TATTCTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTATTATATTCA
Found at i:20560858 original size:22 final size:22
Alignment explanation
Indices: 20560822--20560863 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20560812 TGCACCAATA
* * *
20560822 TATGAAAGTCTTTTATGGGTAG
1 TATGAAAGCCCTTTAAGGGTAG
20560844 TATGAAAGCCCTTTAAGGGT
1 TATGAAAGCCCTTTAAGGGT
20560864 GGTAAAAGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (22 bp):
TATGAAAGCCCTTTAAGGGTAG
Found at i:20562456 original size:22 final size:22
Alignment explanation
Indices: 20562430--20562474 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
20562420 AGATCAACAC
20562430 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
*
20562452 AAATATCAATCTCATCATATCA
1 AAATATCAATCACATCATATCA
20562474 A
1 A
20562475 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:20566999 original size:27 final size:27
Alignment explanation
Indices: 20566956--20567007 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
20566946 ACATAGTATC
*
20566956 AGGTGATCCTTAGCCCATTAACAGAACT
1 AGGTGATCCTAAGCCCATT-ACAGAACT
20566984 AGGTGA-CCTAAGCCCATTACAGAA
1 AGGTGATCCTAAGCCCATTACAGAA
20567008 TCAGTATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 11 0.48
28 6 0.26
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (27 bp):
AGGTGATCCTAAGCCCATTACAGAACT
Found at i:20574054 original size:40 final size:40
Alignment explanation
Indices: 20573920--20574181 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
20573910 TCCTCGTTCA
* * * * *
20573920 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
20573959 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20573999 -ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20574038 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
20574078 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
20574118 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
20574158 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20574182 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 74 0.37
40 116 0.59
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20581963 original size:40 final size:40
Alignment explanation
Indices: 20581865--20582127 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
20581855 TCCTCGTTCA
* * * * *
20581865 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
20581904 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
20581944 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20581984 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
20582024 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
20582064 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
20582104 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20582128 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20584854 original size:13 final size:12
Alignment explanation
Indices: 20584822--20584853 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20584812 TTGTAAATCC
*
20584822 AAAAAAATTTGA
1 AAAAAAAATTGA
20584834 AAAAAAAATTGA
1 AAAAAAAATTGA
20584846 AAAAAAAA
1 AAAAAAAA
20584854 AGAAGAGAAA
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:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:20586979 original size:9 final size:9
Alignment explanation
Indices: 20586963--20587032 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
20586953 GGTATTTTTC
20586963 GGTAATTCG
1 GGTAATTCG
*
20586972 GTTAATTCG
1 GGTAATTCG
*
20586981 GTTAATTCG
1 GGTAATTCG
*
20586990 GTTAATTCG
1 GGTAATTCG
20586999 GGTAATTCG
1 GGTAATTCG
20587008 GGTAATTCG
1 GGTAATTCG
20587017 GGTAATTCG
1 GGTAATTCG
20587026 GGTAATT
1 GGTAATT
20587033 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:20595696 original size:27 final size:26
Alignment explanation
Indices: 20595666--20595727 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
20595656 CCACAAGAAA
*
20595666 CATTTCTTTAGGGTACACCACGAAAGC
1 CATTTCTTTAGAGTACACCAC-AAAGC
* * * *
20595693 CATTCCTTCAGAGTACGCCACAAAGG
1 CATTTCTTTAGAGTACACCACAAAGC
*
20595719 CGTTTCTTT
1 CATTTCTTT
20595728 CAGTTTATCA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (26 bp):
CATTTCTTTAGAGTACACCACAAAGC
Found at i:20597521 original size:29 final size:28
Alignment explanation
Indices: 20597479--20597612 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 28
20597469 GTCATTAGGG
* * *
20597479 TTTATCAAGCACTATGTGCTAGTGTTATA
1 TTTATCAGGTACTATGT-ATAGTGTTATA
* * *
20597508 TTTATCAGGTACTATGTATCG-GTGACCA
1 TTTATCAGGTACTATGTATAGTGTTA-TA
* *
20597536 TATTATCAGGTACTTTGTATCGGTGTTATA
1 T-TTATCAGGTACTATGTAT-AGTGTTATA
* * * **
20597566 TTTATTAGGCATTATGTGCCAGTGTTATA
1 TTTATCAGGTACTATGT-ATAGTGTTATA
*
20597595 TTTATTAGGTACTATGTA
1 TTTATCAGGTACTATGTA
20597613 CCGGTGGCAG
Statistics
Matches: 80, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
27 3 0.04
28 4 0.05
29 67 0.84
30 3 0.04
31 3 0.04
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (28 bp):
TTTATCAGGTACTATGTATAGTGTTATA
Found at i:20608748 original size:10 final size:10
Alignment explanation
Indices: 20608733--20608766 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
20608723 ATCAACCAGA
20608733 AAATGATTTT
1 AAATGATTTT
20608743 AAATGATTTT
1 AAATGATTTT
*
20608753 AAATTAATTTT
1 AAA-TGATTTT
20608764 AAA
1 AAA
20608767 AACCTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (10 bp):
AAATGATTTT
Found at i:20612205 original size:3 final size:3
Alignment explanation
Indices: 20612199--20612255 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
20612189 TAAATAAAAA
* *
20612199 AAT AAT AGT AAT AAT AATT AAT AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
20612245 AAT AA- AAT AAT
1 AAT AAT AAT AAT
20612256 TAACTAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20615104 original size:45 final size:45
Alignment explanation
Indices: 20615040--20615134 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
20615030 TAACAGATAC
* * *
20615040 TCGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGT
1 TCGGTGGAATCAGCACATAGCAACCACCTTACTAAACAATGATGT
20615085 TCGGTGGAATCAGCACATAGCAACCACCTTACTAAACAATGATGT
1 TCGGTGGAATCAGCACATAGCAACCACCTTACTAAACAATGATGT
20615130 TCGGT
1 TCGGT
20615135 TCACATAGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
TCGGTGGAATCAGCACATAGCAACCACCTTACTAAACAATGATGT
Found at i:20615198 original size:51 final size:50
Alignment explanation
Indices: 20615131--20615326 Score: 241
Period size: 51 Copynumber: 3.9 Consensus size: 50
20615121 CAATGATGTT
* * *
20615131 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
20615182 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * * *
20615233 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
20615283 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
20615327 CACTTTCACT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.33
51 76 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:20615315 original size:101 final size:101
Alignment explanation
Indices: 20615138--20615322 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 101
20615128 GTTCGGTTCA
*
20615138 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
20615203 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
20615240 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
20615304 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
20615323 CCATCACTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.52
102 34 0.43
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:20625851 original size:185 final size:184
Alignment explanation
Indices: 20625509--20626066 Score: 866
Period size: 185 Copynumber: 3.0 Consensus size: 184
20625499 GAGATAATAA
** * *
20625509 TAAATTACATTTATTTCTAAAAATCACAATTTTGGAAAATTTACTTTATCATCCA-CGACAATAA
1 TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAATTTACTTTATCATCCATAG-CAATAA
* * *
20625573 AATAATTACATACATTCATTCGCATGCATTCCTCGAAATATGCATACAATTACAAGAATGTCACA
65 AATAATTACATACATTCATTCACATACATTCCTCGAAACATGCATACAATTACAAGAATGTCACA
20625638 TCTTATCAAATATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
130 TCTTATCAAATATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
* *
20625693 TAAATTACATTTATTCTCTAGGAATCATAAATTTGGAAATTTTACTTTATCATCCATAGCAATAA
1 TAAATTACATTTATT-TCTAGGAATCACAAATTTGGAAAATTTACTTTATCATCCATAGCAATAA
* * *
20625758 ACTAATTACATACATTCATTCTCATACATTCCTCGAAACATGCATACAATTACAAGAATGTTACA
65 AATAATTACATACATTCATTCACATACATTCCTCGAAACATGCATACAATTACAAGAATGTCACA
* * *
20625823 TTTTATCAAATATAATCATACATAAAGAATAGAGAATTTTGGTCTAAGTTTACAC
130 TCTTATCAAATATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
* *
20625878 TAAATTACATTTATTTTCAAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAA
1 TAAATTACATTTA-TTTCTAGGAATCACAAATTTGGAAAATTTACTTTATCATCCATAGCAATAA
* *
20625943 ATTAATTACATACATTCATTCACATACATTTCTCGAAACATGCATACAATTACAAGAATGTCACA
65 AATAATTACATACATTCATTCACATACATTCCTCGAAACATGCATACAATTACAAGAATGTCACA
* * *
20626008 TCTTATCAAATATACTCATACATGAAGAAGAGAGAGAATTTTAGTCTCAGTTTACAC
130 TCTTATCAAATATAATCATACATAAAG-A-AGAGAGAATTTTGGTCTCAGTTTACAC
20626065 TA
1 TA
20626067 TAAACATAGT
Statistics
Matches: 341, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
184 15 0.04
185 296 0.87
186 4 0.01
187 26 0.08
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.34
Consensus pattern (184 bp):
TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAATTTACTTTATCATCCATAGCAATAAA
ATAATTACATACATTCATTCACATACATTCCTCGAAACATGCATACAATTACAAGAATGTCACAT
CTTATCAAATATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
Found at i:20627833 original size:21 final size:21
Alignment explanation
Indices: 20627809--20627852 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20627799 ATGTCGAGGA
20627809 AGAAATCTACTGAAGTGAAAG
1 AGAAATCTACTGAAGTGAAAG
* *
20627830 AGAATTCTGCTGAAGTGAAAG
1 AGAAATCTACTGAAGTGAAAG
20627851 AG
1 AG
20627853 TTGAAATCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAAATCTACTGAAGTGAAAG
Found at i:20628808 original size:16 final size:18
Alignment explanation
Indices: 20628781--20628813 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20628771 TAGAATTGAG
20628781 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
20628798 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
20628814 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:20633004 original size:20 final size:20
Alignment explanation
Indices: 20632979--20633035 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
20632969 TATATTAAGA
20632979 ATTTTATTAAATTATATATT
1 ATTTTATTAAATTATATATT
20632999 ATTTTATTAAATTATATATT
1 ATTTTATTAAATTATATATT
20633019 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
20633036 TTAATAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTATTAAATTATATATT
Found at i:20633020 original size:78 final size:78
Alignment explanation
Indices: 20632913--20633091 Score: 206
Period size: 78 Copynumber: 2.3 Consensus size: 78
20632903 AATAAAGTAG
** *
20632913 ATTATATATTATTTTTATTGTA-TATATTATGATTTT-TT-AATT-CATGTAATAATAATTATAT
1 ATTATATATTATTTTTATTAAATTATA-TATTATTTTATTAAATTACATGTAATAATAATTATAT
* *
20632974 TAAGAATTTTATTAA
65 TAA-AATATGATTAA
* * * *
20632989 ATTATATATTA-TTTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATTATTATGTT
1 ATTATATATTATTTTTATTAAATTATATATTATTTTATTAAATTACATGTAATAATAATTATATT
*
20633053 AAAATATGGTTAA
66 AAAATATGATTAA
*
20633066 ATTATTTATTATTTTTATTAAATTAT
1 ATTATATATTATTTTTATTAAATTAT
20633092 TTTTAATAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
75 16 0.18
76 17 0.20
77 22 0.25
78 32 0.37
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (78 bp):
ATTATATATTATTTTTATTAAATTATATATTATTTTATTAAATTACATGTAATAATAATTATATT
AAAATATGATTAA
Found at i:20633113 original size:58 final size:57
Alignment explanation
Indices: 20633005--20633115 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 57
20632995 TATTATTTTA
* *
20633005 TTAAATTATATATTATTTTATTAAATTATATTTAATAATTATTATGTTAAAATATGG
1 TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGG
* *
20633062 TTAAATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCT-TATTAAAAT
1 TTAAATTATATATTA-TTTTATTAAATTATATTTAATAATAAT-TATATTAAAAT
20633116 TTAATAACAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
57 14 0.29
58 33 0.69
59 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (57 bp):
TTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGG
Found at i:20633310 original size:16 final size:16
Alignment explanation
Indices: 20633291--20633332 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
20633281 ATTATAGTTT
20633291 TATTCCATTACAGCTC
1 TATTCCATTACAGCTC
*
20633307 TATTCAATTACAGCTC
1 TATTCCATTACAGCTC
20633323 TATTCCATTA
1 TATTCCATTA
20633333 TAGTGAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:20633880 original size:20 final size:21
Alignment explanation
Indices: 20633837--20633880 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20633827 TTTTTTGTTA
*
20633837 TTTATAAATTGTAAAGTTATT
1 TTTATAAATTGTAAAGTAATT
20633858 TTTATAATATT-TAAA-TAATT
1 TTTATAA-ATTGTAAAGTAATT
20633878 TTT
1 TTT
20633881 TATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 11 0.52
22 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTATAAATTGTAAAGTAATT
Found at i:20633912 original size:25 final size:25
Alignment explanation
Indices: 20633877--20633956 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
20633867 TTTAAATAAT
* *
20633877 TTTTTATTTTAAAATTTAAATTTTA
1 TTTTTAATTTAAAATATAAATTTTA
* * *
20633902 TTTTTAATTTATAATATAAGTTTAA
1 TTTTTAATTTAAAATATAAATTTTA
* *
20633927 TATTTTAATTTATCAATATAATTTTTA
1 T-TTTTAATTTA-AAATATAAATTTTA
20633954 TTT
1 TTT
20633957 ATAAAATTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
25 21 0.47
26 12 0.27
27 12 0.27
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (25 bp):
TTTTTAATTTAAAATATAAATTTTA
Found at i:20633996 original size:19 final size:19
Alignment explanation
Indices: 20633972--20634036 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
20633962 ATTATTGAAG
20633972 TAATTTATAATTTATGACA
1 TAATTTATAATTTATGACA
* *
20633991 TTATTTATAATTTTTGA-A
1 TAATTTATAATTTATGACA
*
20634009 GTAATTTATAATTTATAACA
1 -TAATTTATAATTTATGACA
*
20634029 TAAATTAT
1 TAATTTAT
20634037 TGAATTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 36 0.95
20 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATTTATAATTTATGACA
Found at i:20634017 original size:38 final size:39
Alignment explanation
Indices: 20633951--20634029 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 39
20633941 AATATAATTT
*
20633951 TTATTTATAAAATTATTGAAGTAATTTATAATTTATGACA
1 TTATTTAT-AAATTATTGAAGTAATTTATAATTTATAACA
*
20633991 TTATTTAT-AATTTTTGAAGTAATTTATAATTTATAACA
1 TTATTTATAAATTATTGAAGTAATTTATAATTTATAACA
20634029 T
1 T
20634030 AAATTATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 29 0.78
40 8 0.22
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (39 bp):
TTATTTATAAATTATTGAAGTAATTTATAATTTATAACA
Found at i:20634617 original size:5 final size:5
Alignment explanation
Indices: 20634607--20634636 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
20634597 CCAGAACCAC
20634607 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
20634637 AGTCAACTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:20635404 original size:30 final size:29
Alignment explanation
Indices: 20635368--20635439 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
20635358 GTTTAGTTAG
* *
20635368 AATTAAAATTTTAAATTTAAAAAATATAAA
1 AATTAAAATTTT-AATTCAAAAAATACAAA
*
20635398 AATTAAAATAAATTAATTCAAAAAATACAAA
1 AATTAAAAT--TTTAATTCAAAAAATACAAA
*
20635429 AACTAAAATTT
1 AATTAAAATTT
20635440 ATCAAATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 9 0.26
31 23 0.66
32 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (29 bp):
AATTAAAATTTTAATTCAAAAAATACAAA
Found at i:20645966 original size:172 final size:170
Alignment explanation
Indices: 20645638--20645961 Score: 481
Period size: 172 Copynumber: 1.9 Consensus size: 170
20645628 ACTATGCCGA
* *
20645638 AATGATGCCAAGATATTCCTGGAATGTGAGATAACAGCCCTTCAGTGTGGTATTATCAACCAACT
1 AATGATGCCAAGATATTCCTGGAATATGAGATAACAGCCCTTCAGTGTGGTATTATCAACAAACT
* *
20645703 AATAGTGCCTAAAAGGTCAAGTGTGCATAGAAGATACTGAAAACAGCGTTGCACAATCCAGAAAC
66 AATAGTGCCTAAAAAGTCAAGTGTGAATAGAAGATACTGAAAACAGCGTTGCACAATCCAGAAAC
20645768 AACAATACCTCAAAATTATTTAATTTAGTTTATAAATTACTG
131 AACAATACCTCAAAA-TA-TTAATTTAGTTTATAAATTACTG
*
20645810 AATGATGCCATGATATTCCTGGAATATGAGATAACAGCCCTTCAGTGTTGG-ATTATCAACAAAC
1 AATGATGCCAAGATATTCCTGGAATATGAGATAACAGCCCTTCAGTG-TGGTATTATCAACAAAC
* * *
20645874 TAATAGTGCCTAAAAAGTCAAGTGTGAATAGAAGATATTGAAAATAGCTTGGATGTTGCATAATC
65 TAATAGTGCCTAAAAAGTCAAGTGTGAATAGAAGATACTGAAAACAGC------GTTGCACAATC
20645939 CA-AAACAACAATACCTCAAAATA
124 CAGAAACAACAATACCTCAAAATA
20645962 ATTTAATGTT
Statistics
Matches: 137, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
172 101 0.74
173 3 0.02
176 2 0.01
177 19 0.14
178 12 0.09
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (170 bp):
AATGATGCCAAGATATTCCTGGAATATGAGATAACAGCCCTTCAGTGTGGTATTATCAACAAACT
AATAGTGCCTAAAAAGTCAAGTGTGAATAGAAGATACTGAAAACAGCGTTGCACAATCCAGAAAC
AACAATACCTCAAAATATTAATTTAGTTTATAAATTACTG
Found at i:20652453 original size:15 final size:16
Alignment explanation
Indices: 20652433--20652462 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20652423 AATATTTAAG
20652433 TTTAATAA-TAAATTA
1 TTTAATAAGTAAATTA
20652448 TTTAATAAGTAAATT
1 TTTAATAAGTAAATT
20652463 TAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTAATAAGTAAATTA
Found at i:20652508 original size:12 final size:12
Alignment explanation
Indices: 20652491--20652516 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20652481 CAGATGATAC
20652491 TATTGATTATAA
1 TATTGATTATAA
20652503 TATTGATTATAA
1 TATTGATTATAA
20652515 TA
1 TA
20652517 ATAAAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATTGATTATAA
Done.