Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 90 of 199
Found at i:27704671 original size:22 final size:21
Alignment explanation
Indices: 27704618--27704672 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
27704608 AGAGAACAAC
*
27704618 AAAAATAAAATCTAATCTAAA
1 AAAAATGAAATCTAATCTAAA
27704639 AAAAAGGTGAAA-CTAATCTAAA
1 AAAAA--TGAAATCTAATCTAAA
27704661 AATGAAATGAAA
1 AA--AAATGAAA
27704673 AGAAAGAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 5 0.17
22 17 0.59
23 4 0.14
24 3 0.10
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAAATGAAATCTAATCTAAA
Found at i:27715589 original size:20 final size:21
Alignment explanation
Indices: 27715561--27715602 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27715551 GCTTAATTTT
*
27715561 TTTTCTTGAAATAAG-AGATG
1 TTTTATTGAAATAAGTAGATG
*
27715581 TTTTATTGAAATTAGTAGATG
1 TTTTATTGAAATAAGTAGATG
27715602 T
1 T
27715603 AATGAAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTTATTGAAATAAGTAGATG
Found at i:27720283 original size:50 final size:50
Alignment explanation
Indices: 27720201--27720490 Score: 355
Period size: 50 Copynumber: 5.7 Consensus size: 50
27720191 AGCTTTGTAC
* * * * * ** *
27720201 TGCCAATGCCATATCTCAGATATTGTCTTACATGAGAGTTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
27720251 TGCCAACACCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
27720301 TGCCAACGCCATGTCCCAGCCATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
27720351 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * * *
27720401 TGCCAACTCCTTGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCTC---GG
*
27720457 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
27720491 GGATCTCTTT
Statistics
Matches: 207, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 170 0.82
53 5 0.02
56 32 0.15
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:27720865 original size:30 final size:30
Alignment explanation
Indices: 27720831--27720889 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27720821 TCCTTAACTC
*
27720831 AAAC-TTTGACAAAATTACATTTTTGTCCCT
1 AAACTTTTG-CAAAATTACACTTTTGTCCCT
* *
27720861 AAACTTTTGCATATTTACACTTTTGTCCC
1 AAACTTTTGCAAAATTACACTTTTGTCCC
27720890 AAAGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGTCCCT
Found at i:27727829 original size:13 final size:13
Alignment explanation
Indices: 27727811--27727837 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27727801 TTTAGTTATT
27727811 TTAATTAATTAAA
1 TTAATTAATTAAA
27727824 TTAATTAATTAAA
1 TTAATTAATTAAA
27727837 T
1 T
27727838 AATATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:27728418 original size:14 final size:14
Alignment explanation
Indices: 27728399--27728426 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27728389 GTCTCACACT
27728399 AAGCACATGTATTA
1 AAGCACATGTATTA
27728413 AAGCACATGTATTA
1 AAGCACATGTATTA
27728427 TTCTGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AAGCACATGTATTA
Found at i:27742389 original size:36 final size:36
Alignment explanation
Indices: 27742342--27742416 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
27742332 GATAACGACA
27742342 GAGATGAGCTTAGCCTCTAAGATCCACCTTAACCGT
1 GAGATGAGCTTAGCCTCTAAGATCCACCTTAACCGT
*
27742378 GAGATGAGCTTAGGCTCTAAGATCCACCTTAACCGT
1 GAGATGAGCTTAGCCTCTAAGATCCACCTTAACCGT
27742414 GAG
1 GAG
27742417 TTTAAAAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (36 bp):
GAGATGAGCTTAGCCTCTAAGATCCACCTTAACCGT
Found at i:27744334 original size:29 final size:29
Alignment explanation
Indices: 27744301--27744362 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
27744291 CACAAGGCAG
*
27744301 TGTGAGCCACACGGGCTCTCACATGGCCA
1 TGTGAGCCACACGGGCTCTCACAGGGCCA
*
27744330 TGTGAGCCACACGGGCTGTCACAGGGCCA
1 TGTGAGCCACACGGGCTCTCACAGGGCCA
27744359 TGTG
1 TGTG
27744363 CCAGATTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.19, C:0.31, G:0.32, T:0.18
Consensus pattern (29 bp):
TGTGAGCCACACGGGCTCTCACAGGGCCA
Found at i:27745454 original size:21 final size:19
Alignment explanation
Indices: 27745429--27745471 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 19
27745419 ATTTAGCTAT
27745429 TTTTTACTTTAATATTTTAATA
1 TTTTTA-TTTAAT-TTTT-ATA
27745451 TTTTTATTTAATTTTTATA
1 TTTTTATTTAATTTTTATA
27745470 TT
1 TT
27745472 CTAATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 6 0.29
22 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTATTTAATTTTTATA
Found at i:27745458 original size:14 final size:14
Alignment explanation
Indices: 27745440--27745480 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
27745430 TTTTACTTTA
27745440 ATATTTTAATATTTT
1 ATATTTTAAT-TTTT
27745455 -TA-TTTAATTTTT
1 ATATTTTAATTTTT
*
27745467 ATATTCTAATTTTT
1 ATATTTTAATTTTT
27745481 CATTAGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 11 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTTAATTTTT
Found at i:27745478 original size:19 final size:21
Alignment explanation
Indices: 27745436--27745478 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
27745426 TATTTTTTAC
* *
27745436 TTTAATATTTTAATATTTTTA
1 TTTAATATTTTAATATTCTAA
27745457 TTTAAT-TTTT-ATATTCTAA
1 TTTAATATTTTAATATTCTAA
27745476 TTT
1 TTT
27745479 TTCATTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 4 0.20
21 6 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTAATATTTTAATATTCTAA
Found at i:27748781 original size:50 final size:49
Alignment explanation
Indices: 27748727--27748860 Score: 124
Period size: 53 Copynumber: 2.6 Consensus size: 49
27748717 GTATAAGACT
* * *
27748727 GTAACTAGTGGTTGATGGCATCATATGGAAAGATAATGTCATGTAAGAAC
1 GTAACTAGTGGTT-ATGGCATCATATGGAAAGACAATATAATGTAAGAAC
* * * *
27748777 GTAACTGGTGGGTTATGACATCATATAGGGAGAAGACCATATAATGTAAGACC
1 GTAACTAGT-GGTTATGGCATCATAT--GGA-AAGACAATATAATGTAAGAAC
* **
27748830 GTAATTGACAGGTTATGGCATCATATGGAAA
1 GTAACT-AGTGGTTATGGCATCATATGGAAA
27748861 AATTTAGGGA
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
50 21 0.31
51 7 0.10
52 3 0.04
53 36 0.54
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (49 bp):
GTAACTAGTGGTTATGGCATCATATGGAAAGACAATATAATGTAAGAAC
Found at i:27752032 original size:60 final size:60
Alignment explanation
Indices: 27751897--27752025 Score: 179
Period size: 60 Copynumber: 2.1 Consensus size: 60
27751887 ACATAAGCTA
* * *
27751897 ACAATATATCAAGGTTGCTCACACAAGCTGACATTATAATAACGCTCCTCACTCAAACTG
1 ACAATATATCAAGGTTGCTCACACAAGCTGACATTATAACAACGCTACTCACACAAACTG
* * *
27751957 ACAATATATCAAGGTTGCTCACACAAG-TAGACATTATAACAAGGGTACTCACACAAGCTG
1 ACAATATATCAAGGTTGCTCACACAAGCT-GACATTATAACAACGCTACTCACACAAACTG
*
27752017 ACATTATAT
1 ACAATATAT
27752026 TGAGGTTACT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.02
60 60 0.98
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (60 bp):
ACAATATATCAAGGTTGCTCACACAAGCTGACATTATAACAACGCTACTCACACAAACTG
Found at i:27752037 original size:30 final size:30
Alignment explanation
Indices: 27751891--27752024 Score: 126
Period size: 30 Copynumber: 4.5 Consensus size: 30
27751881 TTTTGAACAT
* * * *
27751891 AAGCTAACAATATATCAAGGTTGCTCACAC
1 AAGCTGACATTATAACAAGGTTACTCACAC
* * * * *
27751921 AAGCTGACATTATAATAACGCTCCTCACTC
1 AAGCTGACATTATAACAAGGTTACTCACAC
* * * *
27751951 AAACTGACAATATATCAAGGTTGCTCACAC
1 AAGCTGACATTATAACAAGGTTACTCACAC
*
27751981 AAG-TAGACATTATAACAAGGGTACTCACAC
1 AAGCT-GACATTATAACAAGGTTACTCACAC
27752011 AAGCTGACATTATA
1 AAGCTGACATTATA
27752025 TTGAGGTTAC
Statistics
Matches: 81, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
29 1 0.01
30 79 0.98
31 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (30 bp):
AAGCTGACATTATAACAAGGTTACTCACAC
Found at i:27762694 original size:22 final size:22
Alignment explanation
Indices: 27762668--27762712 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27762658 CTACTTCAAG
*
27762668 TGTGGACCCGAATACTTTCGAA
1 TGTGGACCCGAACACTTTCGAA
***
27762690 TGTGGGTTCGAACACTTTCGAA
1 TGTGGACCCGAACACTTTCGAA
27762712 T
1 T
27762713 CAAACACAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (22 bp):
TGTGGACCCGAACACTTTCGAA
Found at i:27763045 original size:22 final size:20
Alignment explanation
Indices: 27763017--27763064 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
27763007 TAAAAACTAG
27763017 TAGAATTGTTATTCCTAGAAAA
1 TAGAATT-TTATT-CTAGAAAA
27763039 TAGAA-TTTATTCTAGAAAA
1 TAGAATTTTATTCTAGAAAA
27763058 TA-AATTT
1 TAGAATTT
27763065 CCACTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 12 0.48
20 5 0.20
21 1 0.04
22 5 0.20
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (20 bp):
TAGAATTTTATTCTAGAAAA
Found at i:27765574 original size:28 final size:28
Alignment explanation
Indices: 27765543--27765598 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27765533 ACCCATAAAT
27765543 CCTTTTTGAAATTTGATAAAGATGATGG
1 CCTTTTTGAAATTTGATAAAGATGATGG
27765571 CCTTTTTGAAATTTGATAAAGATGATGG
1 CCTTTTTGAAATTTGATAAAGATGATGG
27765599 AGGAAATGAG
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:0.32, C:0.07, G:0.21, T:0.39
Consensus pattern (28 bp):
CCTTTTTGAAATTTGATAAAGATGATGG
Found at i:27767221 original size:29 final size:30
Alignment explanation
Indices: 27767189--27767245 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
27767179 TGGTTTAATT
*
27767189 TGTAATTGTATATAT-AAATTTTGATTTTG
1 TGTAATTGTATACATGAAATTTTGATTTTG
*
27767218 TGTAATTTTATACATGAAATTTTGATTT
1 TGTAATTGTATACATGAAATTTTGATTT
27767246 GATCCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTAATTGTATACATGAAATTTTGATTTTG
Found at i:27768090 original size:26 final size:27
Alignment explanation
Indices: 27768061--27768119 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
27768051 AATGTTAGTG
* *
27768061 TTTTGTTTT-TTAAAGTA-AGGTTAGGA
1 TTTTGTTTTCTTAAAATAGA-GTTAAGA
27768087 TTTTGTTTTCTTAAAATAGAGTTAAGA
1 TTTTGTTTTCTTAAAATAGAGTTAAGA
27768114 TTTTGT
1 TTTTGT
27768120 GGATTGTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.53
Consensus pattern (27 bp):
TTTTGTTTTCTTAAAATAGAGTTAAGA
Found at i:27768464 original size:32 final size:33
Alignment explanation
Indices: 27768412--27768478 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
27768402 CGTTATTTAT
* * *
27768412 AGTGCATTTTTTTTTTAACATTCAGAT-AGGTTC
1 AGTGCATTTATTTTTGAACATTAAGATCA-GTTC
27768445 AGTGCA-TTATTTTTGAACATTAAGATCAGTTC
1 AGTGCATTTATTTTTGAACATTAAGATCAGTTC
27768477 AG
1 AG
27768479 AAAATATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (33 bp):
AGTGCATTTATTTTTGAACATTAAGATCAGTTC
Found at i:27768756 original size:14 final size:14
Alignment explanation
Indices: 27768737--27768765 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27768727 TACAGAGTTC
27768737 AATAGATCGGACCA
1 AATAGATCGGACCA
27768751 AATAGATCGGACCA
1 AATAGATCGGACCA
27768765 A
1 A
27768766 GGCATTGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
AATAGATCGGACCA
Found at i:27771049 original size:14 final size:14
Alignment explanation
Indices: 27771032--27771066 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
27771022 AAAACAAGAA
27771032 TAAATAAAATTAGT
1 TAAATAAAATTAGT
27771046 TAAATAAAATTAGT
1 TAAATAAAATTAGT
27771060 TAAATAA
1 TAAATAA
27771067 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (14 bp):
TAAATAAAATTAGT
Found at i:27771070 original size:3 final size:3
Alignment explanation
Indices: 27771062--27771090 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27771052 AAATTAGTTA
27771062 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27771091 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27775893 original size:30 final size:30
Alignment explanation
Indices: 27775859--27775920 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
27775849 AAAATGAGTA
27775859 TGTGATTACAATCATCTGATGATTGGTCTT
1 TGTGATTACAATCATCTGATGATTGGTCTT
27775889 TGTGATTACAATCATCTGATGATTGGTCTT
1 TGTGATTACAATCATCTGATGATTGGTCTT
27775919 TG
1 TG
27775921 GGCATACTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (30 bp):
TGTGATTACAATCATCTGATGATTGGTCTT
Found at i:27785995 original size:28 final size:28
Alignment explanation
Indices: 27785956--27786017 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
27785946 AAATAAAATA
**
27785956 AAATAGACGTTGGTCCCAACGGCTAATT
1 AAATAGACGTTGGTCCCAACAACTAATT
*
27785984 AAATAGCCGTTGGTCCCAACAACTAATT
1 AAATAGACGTTGGTCCCAACAACTAATT
27786012 AAATAG
1 AAATAG
27786018 TCATTAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (28 bp):
AAATAGACGTTGGTCCCAACAACTAATT
Found at i:27786275 original size:28 final size:29
Alignment explanation
Indices: 27786215--27786270 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
27786205 TGTTATTCGC
*
27786215 TAAAAATAGTCTAATCTCGTAATTTTTCA
1 TAAAAATAGTCTAATCTAGTAATTTTTCA
27786244 TAAAAATAGTCTAATCTAGTAATTTTT
1 TAAAAATAGTCTAATCTAGTAATTTTT
27786271 TTAAAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (29 bp):
TAAAAATAGTCTAATCTAGTAATTTTTCA
Found at i:27790549 original size:13 final size:13
Alignment explanation
Indices: 27790531--27790557 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27790521 AGCTTTTTTT
27790531 TGTTTTTAATTAA
1 TGTTTTTAATTAA
27790544 TGTTTTTAATTAA
1 TGTTTTTAATTAA
27790557 T
1 T
27790558 AAATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TGTTTTTAATTAA
Found at i:27790652 original size:20 final size:22
Alignment explanation
Indices: 27790612--27790654 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
27790602 TATAAAATCA
*
27790612 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
27790634 AATAA-AAATATAT-ATTATAT
1 AATAATAAATATATAATTATAT
27790654 A
1 A
27790655 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:27802994 original size:25 final size:24
Alignment explanation
Indices: 27802964--27803155 Score: 170
Period size: 25 Copynumber: 7.7 Consensus size: 24
27802954 AAACGAATTA
27802964 TTTGGAAAGCCTTTGTAGTGTATTG
1 TTTGGAAAGCCTTTGT-GTGTATTG
* * *
27802989 TCTGGAAAGCCTTTGTG-GCTAATC
1 TTTGGAAAGCCTTTGTGTG-TATTG
* *
27803013 TTATGAAAAGTCTTTGTGGTGTATTG
1 TT-TGGAAAGCCTTTGT-GTGTATTG
** * *
27803039 TTTGGAAAGCCTTTGTGACTAATC
1 TTTGGAAAGCCTTTGTGTGTATTG
*
27803063 TTGTGAAAAGCCTTTGTGTCGTATTG
1 TT-TGGAAAGCCTTTGTGT-GTATTG
** * *
27803089 TTTGGAAAGCCTTTGTGACTAATC
1 TTTGGAAAGCCTTTGTGTGTATTG
*
27803113 TTGTGAAAAGCCTTTGTGTCGTATTG
1 TT-TGGAAAGCCTTTGTGT-GTATTG
27803139 TTTGGAAAGCCTTTGTG
1 TTTGGAAAGCCTTTGTG
27803156 GCATGTTATG
Statistics
Matches: 129, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
23 1 0.01
24 16 0.12
25 95 0.74
26 16 0.12
27 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (24 bp):
TTTGGAAAGCCTTTGTGTGTATTG
Found at i:27803035 original size:50 final size:50
Alignment explanation
Indices: 27802969--27803155 Score: 306
Period size: 50 Copynumber: 3.7 Consensus size: 50
27802959 AATTATTTGG
* * *
27802969 AAAGCCTTTGTAGT-GTATTGTCTGGAAAGCCTTTGTGGCTAATCTTATGA
1 AAAGCCTTTGT-GTCGTATTGTTTGGAAAGCCTTTGTGACTAATCTTGTGA
*
27803019 AAAGTCTTTGTGGT-GTATTGTTTGGAAAGCCTTTGTGACTAATCTTGTGA
1 AAAGCCTTTGT-GTCGTATTGTTTGGAAAGCCTTTGTGACTAATCTTGTGA
27803069 AAAGCCTTTGTGTCGTATTGTTTGGAAAGCCTTTGTGACTAATCTTGTGA
1 AAAGCCTTTGTGTCGTATTGTTTGGAAAGCCTTTGTGACTAATCTTGTGA
27803119 AAAGCCTTTGTGTCGTATTGTTTGGAAAGCCTTTGTG
1 AAAGCCTTTGTGTCGTATTGTTTGGAAAGCCTTTGTG
27803156 GCATGTTATG
Statistics
Matches: 130, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
49 2 0.02
50 128 0.98
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (50 bp):
AAAGCCTTTGTGTCGTATTGTTTGGAAAGCCTTTGTGACTAATCTTGTGA
Found at i:27805997 original size:14 final size:15
Alignment explanation
Indices: 27805978--27806014 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
27805968 ACATACATAA
27805978 CAAAATATCAATC-T
1 CAAAATATCAATCAT
27805992 CAAAATATCAATCAT
1 CAAAATATCAATCAT
*
27806007 CATAATAT
1 CAAAATAT
27806015 TCATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (15 bp):
CAAAATATCAATCAT
Found at i:27806274 original size:47 final size:48
Alignment explanation
Indices: 27806181--27806284 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 48
27806171 TCTGATTTGT
* * *
27806181 AGATAAATTGCCACTGATAACATTTTGTGGACAGGCCACCAATTATGC
1 AGATAAATTGACACTGATAACACTTTGTGGACAAGCCACCAATTATGC
* * *
27806229 AGATAAATTGACACTGA-AACACTTTGTGGACAAGCTACCACTTATGT
1 AGATAAATTGACACTGATAACACTTTGTGGACAAGCCACCAATTATGC
27806276 AGATAAATT
1 AGATAAATT
27806285 TTCACATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
47 34 0.68
48 16 0.32
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (48 bp):
AGATAAATTGACACTGATAACACTTTGTGGACAAGCCACCAATTATGC
Found at i:27808290 original size:22 final size:22
Alignment explanation
Indices: 27808246--27808293 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
27808236 CAAGCCACCT
* **
27808246 CATAATTGCCGATAAGTTACCA
1 CATAATTGCAGATAAACTACCA
*
27808268 CATAATTGCAGATAAACTGCCA
1 CATAATTGCAGATAAACTACCA
27808290 CATA
1 CATA
27808294 TCCCTTTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (22 bp):
CATAATTGCAGATAAACTACCA
Found at i:27813451 original size:184 final size:183
Alignment explanation
Indices: 27813139--27813506 Score: 546
Period size: 184 Copynumber: 2.0 Consensus size: 183
27813129 TGTCTATCTA
27813139 GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGATATGTACATT
1 GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGATATGTACATT
*
27813204 TCAAGCTCAAAATTCTTCTCCAGATCCCTACTTTCTGCCTAATATTTGTCCGAAGCTCTTTTAAT
66 TCAAGCTCAAAATTCTTCTCCAGATCCCTACTTTCT-CCTAATATTTGTCCAAAGCTCTTTTAAT
* *
27813269 GTTATGCTCTGGTTAAAAGCCAAACTTTTAGATTGGGCTGATACAAAAACATGC
130 GTTATGCTCCGGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACATGC
* * * **
27813323 GATGTCCCTTGTGATCTTAAATATGTCATATCTAATAGGGTTCAATGATGTTA-ACTATGTACAT
1 GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGA-TATGTACAT
* * * *
27813387 TTCAAGCTCAAAATTCTTTTTCGGAT-CCTCACTTT-TCATCTAATCTTTGTCCAAAGGC-CTTT
65 TTCAAGCTCAAAATTCTTCTCCAGATCCCT-ACTTTCTC--CTAATATTTGTCCAAA-GCTCTTT
27813449 TAATGTTATGCTCCGGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACATGC
126 TAATGTTATGCTCCGGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACATGC
27813507 CCAATTTCAA
Statistics
Matches: 167, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
182 1 0.01
183 5 0.03
184 159 0.95
185 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (183 bp):
GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGATATGTACATT
TCAAGCTCAAAATTCTTCTCCAGATCCCTACTTTCTCCTAATATTTGTCCAAAGCTCTTTTAATG
TTATGCTCCGGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACATGC
Found at i:27815477 original size:141 final size:141
Alignment explanation
Indices: 27815239--27815492 Score: 296
Period size: 141 Copynumber: 1.8 Consensus size: 141
27815229 AACATTAATT
* * * * **
27815239 AAAAGAAAGCTTGAAACAACATGAAAAAAATATAAATGTGCTTAGAAGAAGAATTAACCTTGAGA
1 AAAAAAAACCTTGAAACAACATAAAAAAAATACAAATGTGAGTAGAAGAAGAATTAACCTTGAGA
* ** * ** *
27815304 CTCAAGGTTAAAATCACTATTATGTAACCATCTAAACAAAGGAGCTAAGATGATGAAAACATTAA
66 CTCAAAGACAAAACCACTAACATGTAACCATCTAAACAAAAGAGCTAAGATGATGAAAACATTAA
27815369 TTAAAAATAGG
131 TTAAAAATAGG
* *
27815380 AAAAAAAACCTTGAAACAACATAAAAAAAATACAAATGTGAGTAGGAGAATAATTGAA-CTT-AG
1 AAAAAAAACCTTGAAACAACATAAAAAAAATACAAATGTGAGTAGAAGAAGAATT-AACCTTGA-
* * * * *
27815443 GACTTAAAGACAAAACCACTAACATTTAATCATCTGACCAAAAGAGCTAA
64 GACTCAAAGACAAAACCACTAACATGTAACCATCTAAACAAAAGAGCTAA
27815493 TACATTAAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
140 1 0.01
141 88 0.97
142 2 0.02
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.21
Consensus pattern (141 bp):
AAAAAAAACCTTGAAACAACATAAAAAAAATACAAATGTGAGTAGAAGAAGAATTAACCTTGAGA
CTCAAAGACAAAACCACTAACATGTAACCATCTAAACAAAAGAGCTAAGATGATGAAAACATTAA
TTAAAAATAGG
Found at i:27818846 original size:35 final size:34
Alignment explanation
Indices: 27818789--27818864 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 34
27818779 GTTATCGACT
* * *
27818789 GGTCCTTTGAGGCGAGAACGTGTAAACGGTAAATA
1 GGTCCTTTGAGGCAACAACGTGTAAACGAT-AATA
* * *
27818824 GGTCCTTTGAGGTAACACCGTGTAAATGATAATA
1 GGTCCTTTGAGGCAACAACGTGTAAACGATAATA
27818858 GGTCCTT
1 GGTCCTT
27818865 CAGGGTGACA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 11 0.31
35 24 0.69
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (34 bp):
GGTCCTTTGAGGCAACAACGTGTAAACGATAATA
Found at i:27818884 original size:34 final size:34
Alignment explanation
Indices: 27818820--27818904 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 34
27818810 GTAAACGGTA
*
27818820 AATAGGTCCTT-TGAGGTAACACCGTGTAAAT-GAT
1 AATAGGTCCTTCAG-GGTAACACCGTGTAAATAG-T
* * *
27818854 AATAGGTCCTTCAGGGTGACATCGTTTAAATAGT
1 AATAGGTCCTTCAGGGTAACACCGTGTAAATAGT
*
27818888 ATGTAGGTCCTTCAGGG
1 A-ATAGGTCCTTCAGGG
27818905 CTACACATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 27 0.63
35 16 0.37
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (34 bp):
AATAGGTCCTTCAGGGTAACACCGTGTAAATAGT
Found at i:27820321 original size:43 final size:43
Alignment explanation
Indices: 27820274--27820418 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 43
27820264 AGAACATGAC
* *
27820274 CTTTAGCGGCGTTTTTGGGAAAAACACCACTAAATGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
* * * * **
27820317 CTTTAACGGCGTCTGTGGGAAAAGCGCTGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
* * ** *
27820360 CTCTAGCAGCGTTTTTCTGAGAAACGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
* *
27820403 CTATAGCGTCGTTTTT
1 CTTTAGCGGCGTTTTT
27820419 CACATAAATG
Statistics
Matches: 80, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
Found at i:27821193 original size:41 final size:41
Alignment explanation
Indices: 27821136--27821231 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
27821126 TAGTTTGAGT
*
27821136 TTTAATTATGCGTCTTTAAATGTGTGTCTTAAATACTACAC
1 TTTAATTATGTGTCTTTAAATGTGTGTCTTAAATACTACAC
*
27821177 TTTAATTATGTGTCTTTAAATGTGTGTCTTAAATACTGCAC
1 TTTAATTATGTGTCTTTAAATGTGTGTCTTAAATACTACAC
27821218 TTTAATTATGTGTC
1 TTTAATTATGTGTC
27821232 CTAGTTTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (41 bp):
TTTAATTATGTGTCTTTAAATGTGTGTCTTAAATACTACAC
Found at i:27828139 original size:15 final size:14
Alignment explanation
Indices: 27828113--27828147 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
27828103 ATGATAATTA
27828113 TATTTTGTTTATTC
1 TATTTTGTTTATTC
*
27828127 TATTTTAGTTTATTT
1 TATTTT-GTTTATTC
27828142 TATTTT
1 TATTTT
27828148 TATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (14 bp):
TATTTTGTTTATTC
Found at i:27828737 original size:23 final size:27
Alignment explanation
Indices: 27828693--27828743 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
27828683 TTTCAATTTT
27828693 TTAAAAATATGTTTATATTATTTTTAA
1 TTAAAAATATGTTTATATTATTTTTAA
* *
27828720 TTAAAAAT-TTTTTATATTTTTTTT
1 TTAAAAATATGTTTATATTATTTTT
27828744 CATTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTAAAAATATGTTTATATTATTTTTAA
Found at i:27830865 original size:17 final size:17
Alignment explanation
Indices: 27830843--27830879 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27830833 ATAAATGTTT
*
27830843 TTATCAAAACAATTCAA
1 TTATCAAAACAATCCAA
*
27830860 TTATCAAACCAATCCAA
1 TTATCAAAACAATCCAA
27830877 TTA
1 TTA
27830880 CCAATTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (17 bp):
TTATCAAAACAATCCAA
Found at i:27834781 original size:20 final size:20
Alignment explanation
Indices: 27834743--27834781 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27834733 ATAATATAAA
*
27834743 TTAAAAATTACAATTATTTT
1 TTAAAAATTACAATGATTTT
* *
27834763 TTAAAATTTATAATGATTT
1 TTAAAAATTACAATGATTT
27834782 ATCAAAGTTA
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:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAAAAATTACAATGATTTT
Found at i:27838607 original size:27 final size:26
Alignment explanation
Indices: 27838562--27838617 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
27838552 AATAAAATAC
* *
27838562 ATTCTTTATTGCTTTCATATTTTCTTT
1 ATTCTTTATTGCTTCCATA-TCTCTTT
27838589 ATTCTTTATT-CTCTCCATATCTCTTT
1 ATTCTTTATTGCT-TCCATATCTCTTT
27838615 ATT
1 ATT
27838618 TTATAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTCTTTATTGCTTCCATATCTCTTT
Found at i:27844010 original size:21 final size:21
Alignment explanation
Indices: 27843984--27844024 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27843974 CAATGTGGCA
27843984 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
27844005 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
27844025 AGTCCCGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:27846576 original size:23 final size:24
Alignment explanation
Indices: 27846546--27846596 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
27846536 ACACACTTAC
27846546 CTTTTGGAATTAACCATTTTC-TT
1 CTTTTGGAATTAACCATTTTCTTT
*
27846569 CTTTTGGAATTAACTATTTTCTTT
1 CTTTTGGAATTAACCATTTTCTTT
27846593 CTTT
1 CTTT
27846597 CTTTCATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.57
Consensus pattern (24 bp):
CTTTTGGAATTAACCATTTTCTTT
Found at i:27847798 original size:18 final size:18
Alignment explanation
Indices: 27847777--27847828 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
27847767 TGGTAAATTA
*
27847777 ATAAAAATATCAAAATGT
1 ATAAAAATATTAAAATGT
27847795 ATAATAAA-ATTAAAATGT
1 ATAA-AAATATTAAAATGT
27847813 ATAAAAATATTAAAAT
1 ATAAAAATATTAAAAT
27847829 AAAATTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 25 0.81
19 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAAAAATATTAAAATGT
Found at i:27854221 original size:7 final size:7
Alignment explanation
Indices: 27854209--27854260 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
27854199 TATGCATGTC
27854209 ATATGAT
1 ATATGAT
27854216 ATATGAT
1 ATATGAT
27854223 ATAAAT-AT
1 AT--ATGAT
*
27854231 GTATGAT
1 ATATGAT
27854238 ATATGAT
1 ATATGAT
27854245 ATATGAT
1 ATATGAT
27854252 -TATGAT
1 ATATGAT
27854258 ATA
1 ATA
27854261 CATGTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 8 0.21
7 26 0.67
8 3 0.08
9 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (7 bp):
ATATGAT
Found at i:27854519 original size:5 final size:5
Alignment explanation
Indices: 27854510--27854576 Score: 53
Period size: 5 Copynumber: 13.4 Consensus size: 5
27854500 CTATGTTACA
* * ** * ** *
27854510 ATATG GTATG ATATG CTACA ATATG ATATG ATATG CTACA ATATG TTATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
27854560 ATATG ATAAG ATATG AT
1 ATATG ATATG ATATG AT
27854577 CATTATGAAA
Statistics
Matches: 44, Mismatches: 18, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (5 bp):
ATATG
Found at i:27854563 original size:10 final size:10
Alignment explanation
Indices: 27854486--27854574 Score: 52
Period size: 10 Copynumber: 8.9 Consensus size: 10
27854476 TAGAACAGGA
*
27854486 TATGCTATGC
1 TATGATATGC
* *
27854496 TATGCTATGT
1 TATGATATGC
** *
27854506 TACAATATGG
1 TATGATATGC
27854516 TATGATATGC
1 TATGATATGC
** *
27854526 TACAATATGA
1 TATGATATGC
27854536 TATGATATGC
1 TATGATATGC
** *
27854546 TACAATATGT
1 TATGATATGC
*
27854556 TATGATATGA
1 TATGATATGC
*
27854566 TAAGATATG
1 TATGATATG
27854575 ATCATTATGA
Statistics
Matches: 58, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
10 58 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (10 bp):
TATGATATGC
Found at i:27854574 original size:20 final size:20
Alignment explanation
Indices: 27854491--27854564 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
27854481 CAGGATATGC
* * *
27854491 TATGCTATGCTATGTTACAA
1 TATGATATGATATGCTACAA
*
27854511 TATGGTATGATATGCTACAA
1 TATGATATGATATGCTACAA
27854531 TATGATATGATATGCTACAA
1 TATGATATGATATGCTACAA
*
27854551 TATGTTATGATATG
1 TATGATATGATATG
27854565 ATAAGATATG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (20 bp):
TATGATATGATATGCTACAA
Found at i:27863965 original size:52 final size:52
Alignment explanation
Indices: 27863887--27863990 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
27863877 CACGCCTGTG
27863887 TGCCCAAGGGACACGACCATGTGGAAATCGACAAAAATCCCCAAATCAACCA
1 TGCCCAAGGGACACGACCATGTGGAAATCGACAAAAATCCCCAAATCAACCA
*
27863939 TGCCCAAGGGACACGACCATGTGGAAATCGACAAAAATCCTCAAATCAACCA
1 TGCCCAAGGGACACGACCATGTGGAAATCGACAAAAATCCCCAAATCAACCA
27863991 CACGACCGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.40, C:0.30, G:0.17, T:0.12
Consensus pattern (52 bp):
TGCCCAAGGGACACGACCATGTGGAAATCGACAAAAATCCCCAAATCAACCA
Found at i:27865110 original size:41 final size:41
Alignment explanation
Indices: 27865065--27865143 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
27865055 CTAAATTAAA
27865065 AATAA-AAGAAATAAAAACCTATCAATTTTAAACAGTAACAG
1 AATAACAA-AAATAAAAACCTATCAATTTTAAACAGTAACAG
** *
27865106 AATAACAACTATAAAAACCTATCAATTTTAAATAGTAA
1 AATAACAAAAATAAAAACCTATCAATTTTAAACAGTAA
27865144 TAGACTGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (41 bp):
AATAACAAAAATAAAAACCTATCAATTTTAAACAGTAACAG
Found at i:27867001 original size:28 final size:28
Alignment explanation
Indices: 27866970--27867023 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
27866960 ATGAAAGATA
* *
27866970 TGGAAGTCCGCCAAGATTATCTTATATG
1 TGGAAGTCCACCAAGACTATCTTATATG
*
27866998 TGGAAGTCCACCAGGACTATCTTATA
1 TGGAAGTCCACCAAGACTATCTTATA
27867024 AGTAGAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (28 bp):
TGGAAGTCCACCAAGACTATCTTATATG
Found at i:27868030 original size:40 final size:40
Alignment explanation
Indices: 27867975--27868142 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
27867965 GCGTTTGATC
* *
27867975 AAAAAACGCCGCTATAGATCGCGCATTAGCGACGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
* * * *
27868015 GAAAAACACCACTATAGATCAAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
27868055 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCG-TTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
* ** * * ** *
27868094 -CAAAACGTGTTGCTATAGGTTGAGCATTAGTAGCGCTTTCT
1 AAAAAAC--GCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
27868135 AAAAAACG
1 AAAAAACG
27868143 ATGCAAAAAA
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 5 0.05
39 5 0.05
40 86 0.82
41 4 0.04
42 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
Found at i:27868249 original size:40 final size:39
Alignment explanation
Indices: 27868200--27868293 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
27868190 TGGCATTAAT
* *
27868200 GGCGCTTTTTGAAAATCATCGCTATAGA-TCAAGCATTAGC
1 GGCGTTTTTTGAAAA-CACCGCTATAGATTCAA-CATTAGC
* *
27868240 GGCGTTTTTTAGAAAACGCCGCTATAGATTGAACATTAGC
1 GGCGTTTTTT-GAAAACACCGCTATAGATTCAACATTAGC
*
27868280 GGC-TTTTTTCAAAA
1 GGCGTTTTTTGAAAA
27868294 AGCGTTGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 4 0.09
39 6 0.13
40 29 0.62
41 8 0.17
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (39 bp):
GGCGTTTTTTGAAAACACCGCTATAGATTCAACATTAGC
Found at i:27868382 original size:7 final size:7
Alignment explanation
Indices: 27868302--27868384 Score: 53
Period size: 7 Copynumber: 11.9 Consensus size: 7
27868292 AAAGCGTTGG
*
27868302 GGTTTAT
1 GGTTTAA
27868309 GGTTT-A
1 GGTTTAA
* *
27868315 GGATTAT
1 GGTTTAA
27868322 GGTTTATA
1 GGTTTA-A
27868330 -GTTTAA
1 GGTTTAA
27868336 GGTTTAA
1 GGTTTAA
*
27868343 GGTTTAG
1 GGTTTAA
* *
27868350 GGGTTAG
1 GGTTTAA
*
27868357 GGGTTAA
1 GGTTTAA
**
27868364 GGGTTTGG
1 -GGTTTAA
27868372 GGTTTAA
1 GGTTTAA
27868379 GGTTTA
1 GGTTTA
27868385 TATTTTATTA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 5 0.08
7 50 0.85
8 4 0.07
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:27872240 original size:23 final size:23
Alignment explanation
Indices: 27872210--27872576 Score: 378
Period size: 23 Copynumber: 16.1 Consensus size: 23
27872200 GGTGGTGGAT
27872210 CTGTAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
27872233 CTGTAAATTGAAGTGTTTAAGTG
1 CTGTAAATTGAAGTGTTTAAATG
* * **
27872256 TTGCAAATTGAAGTGTTTAGTTG
1 CTGTAAATTGAAGTGTTTAAATG
* *
27872279 CTGGAAATTG-AGATGTTT-TATCG
1 CTGTAAATTGAAG-TGTTTAAAT-G
*
27872302 CTGT-AATTG-AGTTGTATAAATG
1 CTGTAAATTGAAG-TGTTTAAATG
* *
27872324 TTGTTAATTG-AGATG-TTAAAGTG
1 CTGTAAATTGAAG-TGTTTAAA-TG
*
27872347 CTGCAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
27872370 ATGTAAATTGAAGTG-TTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
27872392 CTGCAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
27872415 ATGTAAATTGAAGTG-TTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
**
27872437 CTACAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
27872460 CTGTAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
27872483 TTGTAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
* * *
27872506 TTGTTAATCG-AGATG-TTAAAGTG
1 CTGTAAATTGAAG-TGTTTAAA-TG
* *
27872529 CTGCAAATTGAAGTGTTTTAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
27872552 TTGTAAATTGAAGTG-TTAAAGTG
1 CTGTAAATTGAAGTGTTTAAA-TG
27872575 CT
1 CT
27872577 ACTTTCCATT
Statistics
Matches: 288, Mismatches: 42, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
22 72 0.25
23 203 0.70
24 13 0.05
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
CTGTAAATTGAAGTGTTTAAATG
Found at i:27872375 original size:68 final size:69
Alignment explanation
Indices: 27872210--27872576 Score: 387
Period size: 68 Copynumber: 5.4 Consensus size: 69
27872200 GGTGGTGGAT
* *
27872210 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
**
27872275 GTTG
66 AATG
* * * * **
27872279 CTGGAAATTG-AGATGTTT-TATCGCTGT-AATTG-AGTTGTATAAATGTTGTTAATTG-AGATG
1 CTGTAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAG-TGTTTAAATGCTGCAAATTGAAG-TG
27872339 -TTAAAGTG
62 TTTAAA-TG
* *
27872347 CTGCAAATTGAAGTGTTTAAATGATGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
27872411 AATG
66 AATG
* ** *
27872415 ATGTAAATTGAAGTG-TTAAATGCTACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
27872479 AATG
66 AATG
* * * *
27872483 TTGTAAATTGAAGTGTTTAAATGTTGTTAATCG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTT
1 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTGCAAATTGAAGTGTT
*
27872546 TTAATG
64 TAAATG
*
27872552 TTGTAAATTGAAGTG-TTAAAGTGCT
1 CTGTAAATTGAAGTGTTTAAA-TGCT
27872577 ACTTTCCATT
Statistics
Matches: 252, Mismatches: 30, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
67 26 0.10
68 132 0.52
69 92 0.37
70 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (69 bp):
CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTA
AATG
Found at i:27872571 original size:91 final size:91
Alignment explanation
Indices: 27872210--27872576 Score: 458
Period size: 91 Copynumber: 4.0 Consensus size: 91
27872200 GGTGGTGGAT
* * *
27872210 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
** * **
27872275 GTTGCTGGAAATTG-AGATGTTTTATCG
66 AATGCTGTAAATTGAAG-TGTTAAAT-G
* *
27872302 CTGT-AATTG-AGTTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTT
1 CTGTAAATTGAAG-TGTTTAAATGTTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTT
*
27872364 TAAATGATGTAAATTGAAGTGTTAAATG
64 TAAATGCTGTAAATTGAAGTGTTAAATG
* * *
27872392 CTGCAAATTGAAGTGTTTAAATGATGTAAATTGAAGTGTTAAA-TGCTACAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
27872456 AATGCTGTAAATTGAAGTGTTTAAATG
66 AATGCTGTAAATTGAAGTG-TTAAATG
* * *
27872483 TTGTAAATTGAAGTGTTTAAATGTTGTTAATCG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTT
1 CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTT
* *
27872547 TAATGTTGTAAATTGAAGTGTTAAAGTG
65 AAATGCTGTAAATTGAAGTGTTAAA-TG
27872575 CT
1 CT
27872577 ACTTTCCATT
Statistics
Matches: 239, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
90 48 0.20
91 141 0.59
92 50 0.21
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (91 bp):
CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
AATGCTGTAAATTGAAGTGTTAAATG
Found at i:27873510 original size:43 final size:43
Alignment explanation
Indices: 27873437--27873658 Score: 288
Period size: 43 Copynumber: 5.2 Consensus size: 43
27873427 TTTCATGACG
* * *
27873437 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCAAGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* *
27873480 TTTAGCGGCGTTTGTGGGAAAAACGTCGCTAAA-AGTCAT-TT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-TCATGTTC
* ** * * *
27873521 TTTAGTGGTTTTTGTGGTAAAAGCGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* *
27873564 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
27873607 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
*
27873650 TATAGCGGC
1 TTTAGCGGC
27873659 TTTTTTTTAC
Statistics
Matches: 153, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
41 31 0.20
42 4 0.03
43 118 0.77
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
Found at i:27873578 original size:84 final size:86
Alignment explanation
Indices: 27873437--27873658 Score: 322
Period size: 84 Copynumber: 2.6 Consensus size: 86
27873427 TTTCATGACG
* *
27873437 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCAAGTTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
27873502 ACGTCGCTAAAAGTCAT-TT-
66 ACGTCGCTAAAAGTCATGTTC
* ** * * *
27873521 TTTAGTGGTTTTTGTGGTAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
* *
27873586 GCGTCGCTAAAGGTCATGTTC
66 ACGTCGCTAAAAGTCATGTTC
* *
27873607 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGCGGC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGC
27873659 TTTTTTTTAC
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
84 73 0.61
85 2 0.02
86 45 0.38
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
ACGTCGCTAAAAGTCATGTTC
Found at i:27874414 original size:138 final size:138
Alignment explanation
Indices: 27874257--27874540 Score: 478
Period size: 138 Copynumber: 2.1 Consensus size: 138
27874247 TAGAAAAATG
*
27874257 AATTATATTATTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
* *
27874322 TATAACTGTTTATATTAATAAATTCGGTACAATATATACAATTAATATTTTGTATGAATTAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
27874387 CATATATT
131 CATATATT
* * ** * *
27874395 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTGATTAC
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
27874460 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
27874525 TATATATT
131 CATATATT
27874533 AATTATAT
1 AATTATAT
27874541 CTATGTTCTC
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:27894465 original size:132 final size:136
Alignment explanation
Indices: 27894306--27894581 Score: 416
Period size: 132 Copynumber: 2.0 Consensus size: 136
27894296 AAAAAGGAAC
*
27894306 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATAT
* * *
27894371 AACTGTTTGTATTAATAAATTC-GGCAAA-ACAT-ATTAATATTTTGTATGAATCACATTCATAT
66 AACTGTTTATATTAATAAATTCAGGAAAATACATAATTAATATTTTGTATGAATCAAATTCATAT
27894433 ATTAAT
131 ATTAAT
* * *
27894439 TATATTCTTTTC-AAAGAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATAT
* * *
27894503 AACTGTTTATATTATTAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
66 AACTGTTTATATTAATAAATTCAGGAAAATACAT--AATTAATATTTTGTATGAATCAAATTCAT
27894568 ATATTAAT
129 ATATTAAT
27894576 TATATT
1 TATATT
27894582 TATGTTCTCT
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
132 69 0.54
133 15 0.12
134 3 0.02
137 41 0.32
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (136 bp):
TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATAT
AACTGTTTATATTAATAAATTCAGGAAAATACATAATTAATATTTTGTATGAATCAAATTCATAT
ATTAAT
Found at i:27900800 original size:39 final size:39
Alignment explanation
Indices: 27900745--27900882 Score: 197
Period size: 39 Copynumber: 3.5 Consensus size: 39
27900735 AAATATATTT
* *
27900745 ATTTTTTAAAATTTTAAAATATTTTTTACATACTTTTTTA
1 ATTTTTT-AAATTTTAAAATATTTTTAAAATACTTTTTTA
* * *
27900785 ATTTTTTTAATTTTAAAATAATTTTAAAATAATTTTTTA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTA
27900824 ATTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTA
*
27900862 ATTTTTAAAATTTTTAAAATA
1 ATTTTTTAAA-TTTTAAAATA
27900883 AAAATGGGCC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 35 0.40
39 36 0.41
40 17 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (39 bp):
ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:27900806 original size:11 final size:11
Alignment explanation
Indices: 27900792--27900883 Score: 60
Period size: 11 Copynumber: 9.3 Consensus size: 11
27900782 TTAATTTTTT
27900792 TAATTTTAAAA
1 TAATTTTAAAA
27900803 TAATTTTAAAA
1 TAATTTTAAAA
*
27900814 TAATTTT---T
1 TAATTTTAAAA
*
27900822 TAATTTT---T
1 TAATTTTAAAA
27900830 TAATTTTAAAA
1 TAATTTTAAAA
*
27900841 TATTTTTAAAA
1 TAATTTTAAAA
* **
27900852 TACTTTTTTAA
1 TAATTTTAAAA
27900863 T--TTTTAAAA
1 TAATTTTAAAA
27900872 T--TTTTAAAA
1 TAATTTTAAAA
27900881 TAA
1 TAA
27900884 AAATGGGCCG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
8 15 0.22
9 16 0.24
11 37 0.54
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:27900874 original size:29 final size:30
Alignment explanation
Indices: 27900825--27900882 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
27900815 AATTTTTTAA
27900825 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAATAC
*
27900855 TTTTTTAATTTTTAAA-ATTTTTAAAATA
1 TTTTTTAATTTTAAAATATTTTTAAAATA
27900883 AAAATGGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:27900875 original size:8 final size:9
Alignment explanation
Indices: 27900747--27900881 Score: 51
Period size: 11 Copynumber: 14.1 Consensus size: 9
27900737 ATATATTTAT
27900747 TTTTTAAAA
1 TTTTTAAAA
*
27900756 TTTTAAAATA
1 TTTTTAAA-A
*
27900766 TTTTTTACATAC
1 -TTTTTA-A-AA
*
27900778 TTTTT-TAA
1 TTTTTAAAA
**
27900786 TTTTTTTAA
1 TTTTTAAAA
27900795 -TTTTAAAA
1 TTTTTAAAA
27900803 TAATTTTAAAA
1 T--TTTTAAAA
**
27900814 TAATTTTTTAA
1 T--TTTTAAAA
*
27900825 TTTTT-TAA
1 TTTTTAAAA
*
27900833 TTTTAAAATA
1 TTTTTAAA-A
27900843 TTTTTAAAA
1 TTTTTAAAA
**
27900852 TACTTTTTTAA
1 T--TTTTAAAA
27900863 TTTTTAAAA
1 TTTTTAAAA
27900872 TTTTTAAAA
1 TTTTTAAAA
27900881 T
1 T
27900882 AAAAATGGGC
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
8 19 0.19
9 33 0.34
10 9 0.09
11 35 0.36
12 1 0.01
13 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:27907093 original size:6 final size:6
Alignment explanation
Indices: 27907082--27907151 Score: 70
Period size: 6 Copynumber: 11.8 Consensus size: 6
27907072 AAAAGAAGAG
* * * *
27907082 CAAAAT CAAAAT CAAAAA CAAAA- AAAAAG AAAAAT CAAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
* * *
27907129 CAAAGT CAAAAT GAAAAT GAAAA
1 CAAAAT CAAAAT CAAAAT CAAAA
27907152 AAAGATAAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
5 4 0.07
6 52 0.93
ACGTcount: A:0.71, C:0.11, G:0.06, T:0.11
Consensus pattern (6 bp):
CAAAAT
Found at i:27907104 original size:29 final size:29
Alignment explanation
Indices: 27907069--27907132 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 29
27907059 TCCAATCCAA
27907069 AAAAAAAGAAGAGCAAAATCAAAATCAAAAAC
1 AAAAAAA-AAGA--AAAATCAAAATCAAAAAC
*
27907101 AAAAAAAAAGAAAAATCAAAATCAAAATC
1 AAAAAAAAAGAAAAATCAAAATCAAAAAC
27907130 AAA
1 AAA
27907133 GTCAAAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 20 0.65
31 4 0.13
32 7 0.23
ACGTcount: A:0.75, C:0.11, G:0.06, T:0.08
Consensus pattern (29 bp):
AAAAAAAAAGAAAAATCAAAATCAAAAAC
Found at i:27907139 original size:35 final size:34
Alignment explanation
Indices: 27907066--27907132 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
27907056 AGATCCAATC
*
27907066 CAAAAAAAAAGAAGAGCAAAATCAAAATCAAAAA
1 CAAAAAAAAAGAAAAGCAAAATCAAAATCAAAAA
*
27907100 CAAAAAAAAAGAAAAATCAAAATCAAAATCAAA
1 CAAAAAAAAAG-AAAAGCAAAATCAAAATCAAA
27907133 GTCAAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.75, C:0.12, G:0.06, T:0.07
Consensus pattern (34 bp):
CAAAAAAAAAGAAAAGCAAAATCAAAATCAAAAA
Found at i:27907185 original size:21 final size:22
Alignment explanation
Indices: 27907142--27907186 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
27907132 AGTCAAAATG
* *
27907142 AAAATGAAAAAAAGATAAGGAA
1 AAAAGGAAAAAAAGATAAAGAA
*
27907164 AAAAGGAAAAAAGGA-AAAGAA
1 AAAAGGAAAAAAAGATAAAGAA
27907185 AA
1 AA
27907187 GGAGAGGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAAGGAAAAAAAGATAAAGAA
Found at i:27908050 original size:6 final size:7
Alignment explanation
Indices: 27908030--27908079 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
27908020 TGAGTAAAAA
27908030 AAAAGATG
1 AAAA-ATG
27908038 AAAAATG
1 AAAAATG
27908045 -AAAATG
1 AAAAATG
27908051 AAAAATG
1 AAAAATG
27908058 AAAAATG
1 AAAAATG
*
27908065 AAAAAAG
1 AAAAATG
27908072 TAAAAATG
1 -AAAAATG
27908080 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 6 0.16
7 22 0.58
8 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:27908058 original size:20 final size:21
Alignment explanation
Indices: 27908030--27908068 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
27908020 TGAGTAAAAA
27908030 AAAAGATGAAAAATGAAAATG
1 AAAAGATGAAAAATGAAAATG
27908051 AAAA-ATGAAAAATGAAAA
1 AAAAGATGAAAAATGAAAA
27908069 AAGTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAGATGAAAAATGAAAATG
Found at i:27908076 original size:15 final size:14
Alignment explanation
Indices: 27908025--27908079 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 14
27908015 GACTTTGAGT
*
27908025 AAAAAA-AAAGATG
1 AAAAAAGAAAAATG
*
27908038 AAAAATG-AAAATG
1 AAAAAAGAAAAATG
*
27908051 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
27908065 AAAAAAGTAAAAATG
1 AAAAAAG-AAAAATG
27908080 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 17 0.47
14 12 0.33
15 7 0.19
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.13
Consensus pattern (14 bp):
AAAAAAGAAAAATG
Found at i:27909576 original size:128 final size:128
Alignment explanation
Indices: 27909359--27909741 Score: 599
Period size: 128 Copynumber: 3.0 Consensus size: 128
27909349 AAGTCCTAAT
* * * *
27909359 TCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCAGAGCA
1 TCCCTGATCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
* * *
27909424 GATCGAAGACGGTGAATCTTATCTTCAAGTGTAAAGAAGCAGATTTAAGCCACAAGTCCTATA
66 GATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAATCCTATA
* *
27909487 TCCCTGATCAGTAGTGAAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
1 TCCCTGATCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
27909552 GATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAATCCTATA
66 GATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAATCCTATA
* * *
27909615 TCCCT-ATTCAACAGTGGAATACGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGC
1 TCCCTGA-TCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGC
* * *
27909679 AGATC-AAGGACGGCGAATCTTATCTTCAAGAGTAAGGAAACATATTTAAGCCACAAATCCTAT
65 AGATCGAA-GACGGTGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAATCCTAT
27909742 CTTCCTGAAA
Statistics
Matches: 236, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
127 3 0.01
128 233 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (128 bp):
TCCCTGATCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
GATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCATATTTAAGCCACAAATCCTATA
Found at i:27909976 original size:218 final size:218
Alignment explanation
Indices: 27909734--27910138 Score: 652
Period size: 218 Copynumber: 1.9 Consensus size: 218
27909724 TTAAGCCACA
* *
27909734 AATCCTATCTTCCTGAAATTGTAGTGGAGCAGATTAAAGTAATGGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* * * * * * *
27909799 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAG
66 CAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCGAGAAAGCAA
* * *
27909864 GTTTTATCCCCTTGAAGTTGCAGTGGGGCAGA-TCGA-AGATGGCAAATCTTATCTCCCTAAAGT
131 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT-GAGA-ATAGCAAATCTTATCTCCCTAAAGT
27909927 TGCAGTGGAGCATATTGAAGTCGAT
194 TGCAGTGGAGCATATTGAAGTCGAT
*
27909952 AATCCTATCTCCCTGAAATTGTAGTGGAGTAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
*
27910017 CTGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCGAGAAAGCAA
66 CAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCGAGAAAGCAA
27910082 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAAATCTTATCTCCC
131 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAAATCTTATCTCCC
27910139 AGGCGGTGTA
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
218 169 0.99
219 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (218 bp):
AATCCTATCTCCCTGAAATTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
CAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCGAGAAAGCAA
GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAAATCTTATCTCCCTAAAGTTG
CAGTGGAGCATATTGAAGTCGAT
Found at i:27910088 original size:44 final size:45
Alignment explanation
Indices: 27909820--27910138 Score: 142
Period size: 44 Copynumber: 7.3 Consensus size: 45
27909810 ATCGCATCAG
* * * * *
27909820 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTA-AGCAG
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACCGAGAATAGCAA
* * * * *
27909864 GTTTTATC-CCCTTGAAGTTGCAGTGGGGCAGATCGA-AGATGGCAA
1 GTCTTATCTCCC-TGAAGTTGCAGCGGAGCAGACCGAGA-ATAGCAA
* * * * ** * *
27909909 ATCTTATCTCCCTAAAGTTGCAGTGGAGCATATTGA-AGTCG-ATA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACCGAGAATAGCA-A
* * * * * * ***
27909953 ATCCTATCTCCCTGAAATTGTAGTGGAGTAGATTAAAGTAATAG--A
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CCGAG-AATAGCAA
* * * * * * *
27909998 -TCTTATCTCTCTGAAGTTGCTGCAGAGTAGATC-A-CAT--CAG
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACCGAGAATAGCAA
*
27910038 GTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCGAGAA-AGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACCGAGAATAGCAA
* * * *
27910082 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACCGAGAATAGCAA
*
27910127 ATCTTATCTCCC
1 GTCTTATCTCCC
27910139 AGGCGGTGTA
Statistics
Matches: 208, Mismatches: 51, Indels: 31
0.72 0.18 0.11
Matches are distributed among these distances:
40 2 0.01
41 27 0.13
42 2 0.01
43 6 0.03
44 117 0.56
45 48 0.23
46 3 0.01
47 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACCGAGAATAGCAA
Found at i:27910328 original size:99 final size:100
Alignment explanation
Indices: 27910126--27910380 Score: 275
Period size: 99 Copynumber: 2.6 Consensus size: 100
27910116 GAGAATAGCA
* * * *
27910126 AATCTTATCTCCCAGGCGGTGTAGTGGAATAGATTAAAGCCACAACGGCGAATCTTGCTTTCCCG
1 AATCTTATCTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTCCCG
* * *
27910191 ACATTGCAGTTAAAAAGAGTAAAGCTACATCAGTG
66 ACATTGCAATTAAAAAGAGTAAAGCTACAACAGCG
** ** **
27910226 AATCTTATCT-CCAGGCGGTGCAGTGGAGCAGATTGAAGCTATGACGGCGAATCTTACTTTTTCG
1 AATCTTATCTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTCCCG
* * * *
27910290 ACATTGCAATTAAAAAGATTGAAG-TCGCAACGGCG
66 ACATTGCAATTAAAAAGAGTAAAGCT-ACAACAGCG
* * *
27910325 AATCTTA-CTTCCCTA-GCGATGCAGTGGAATAGATTGAAGCTACAACAGTGAATCTT
1 AATCTTATC-TCCC-AGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTT
27910381 GTTCTCTGAC
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
98 2 0.02
99 78 0.61
100 46 0.36
101 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (100 bp):
AATCTTATCTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTCCCG
ACATTGCAATTAAAAAGAGTAAAGCTACAACAGCG
Found at i:27910574 original size:129 final size:127
Alignment explanation
Indices: 27910414--27910710 Score: 450
Period size: 129 Copynumber: 2.3 Consensus size: 127
27910404 TGAAAGAAAT
27910414 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
1 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
* * *
27910479 TAGTGGAGCAGATCGCATCAAGTCGTATCTCCCTAAGCACTACTGGAGCAGACGAAAAAAAAAC
66 TAGTGAAGCAAATCGCATCAAGTCGTATCTCCCTAAGCACTACTGCAGCAGAC--AAAAAAAAC
* * * *
27910543 CAATCCTATCTCCCTAAAGTTCCAGTGGAGTGGATTAAAACCGCAGATCTTATCTCCTTAAGCAG
1 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
* * * * *
27910608 TAGTGAAGCAAATCGCATCAAGTCTTATCTCTCTAAGCAGTAGTGCAGCAGACAAAAGAAAC
66 TAGTGAAGCAAATCGCATCAAGTCGTATCTCCCTAAGCACTACTGCAGCAGACAAAAAAAAC
* *
27910670 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
1 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAC
27910711 GATGAATCAT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
127 46 0.30
129 107 0.70
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (127 bp):
CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
TAGTGAAGCAAATCGCATCAAGTCGTATCTCCCTAAGCACTACTGCAGCAGACAAAAAAAAC
Found at i:27910779 original size:44 final size:44
Alignment explanation
Indices: 27910681--27910783 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 44
27910671 AATCCTATCT
* * * *
27910681 CCCTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCATATAC
1 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACGAATCATATAC
*
27910725 CTCTGAAGTTGCAGTGGAGCAGACTAAAACCACGAATC-TCAT-C
1 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACGAATCAT-ATAC
*
27910768 CCCATGGAGTTGCAGT
1 CCC-TGAAGTTGCAGT
27910784 AAAGTAGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGACTAAAACCACGAATCATATAC
Found at i:27911321 original size:13 final size:13
Alignment explanation
Indices: 27911303--27911332 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27911293 GCACTAAAAG
*
27911303 ACAACAGAAGCAA
1 ACAACAGAAACAA
27911316 ACAACAGAAACAA
1 ACAACAGAAACAA
27911329 ACAA
1 ACAA
27911333 AAACAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.23, G:0.10, T:0.00
Consensus pattern (13 bp):
ACAACAGAAACAA
Found at i:27911498 original size:23 final size:23
Alignment explanation
Indices: 27911472--27911521 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
27911462 ACTTTTTCGG
* *
27911472 TTTTTT-TGCATTTTATTTTTAT
1 TTTTTTATTCATTTTATTTTCAT
**
27911494 TTTTTTATTTTTTTTATTTTCAT
1 TTTTTTATTCATTTTATTTTCAT
27911517 TTTTT
1 TTTTT
27911522 ACTAAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTATTCATTTTATTTTCAT
Found at i:27911499 original size:14 final size:14
Alignment explanation
Indices: 27911481--27911521 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
27911471 GTTTTTTTGC
27911481 ATTTTATTTTTATTT
1 ATTTTATTTTT-TTT
27911496 -TTTTATTTTTTTT
1 ATTTTATTTTTTTT
27911509 ATTTTCATTTTTT
1 ATTTT-ATTTTTT
27911522 ACTAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.12
14 14 0.58
15 7 0.29
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (14 bp):
ATTTTATTTTTTTT
Found at i:27913762 original size:18 final size:19
Alignment explanation
Indices: 27913739--27913781 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
27913729 GAGATGGCAA
27913739 AGATGAGAAATG-AATATG
1 AGATGAGAAATGAAATATG
*
27913757 AGATGATAAATGAAATATG
1 AGATGAGAAATGAAATATG
*
27913776 AAATGA
1 AGATGA
27913782 TAAAATGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:27913775 original size:19 final size:18
Alignment explanation
Indices: 27913739--27913785 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
27913729 GAGATGGCAA
*
27913739 AGATGAGAAATGAATATG
1 AGATGATAAATGAATATG
27913757 AGATGATAAATGAAATATG
1 AGATGATAAATG-AATATG
*
27913776 AAATGATAAA
1 AGATGATAAA
27913786 ATGAGATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.23
Consensus pattern (18 bp):
AGATGATAAATGAATATG
Found at i:27920499 original size:16 final size:16
Alignment explanation
Indices: 27920476--27920515 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
27920466 TTTTTCTTGG
27920476 AATA-ATTTTTA-TAT
1 AATATATTTTTAGTAT
27920490 AATATTATTTTTAGTAT
1 AATA-TATTTTTAGTAT
27920507 AATATATTT
1 AATATATTT
27920516 GTATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.17
16 12 0.52
17 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AATATATTTTTAGTAT
Found at i:27921003 original size:2 final size:2
Alignment explanation
Indices: 27920996--27921041 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
27920986 GTGTAAATTA
27920996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27921038 AT AT
1 AT AT
27921042 GCACATTGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27921281 original size:19 final size:19
Alignment explanation
Indices: 27921265--27921325 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
27921255 ACTAAAAATT
27921265 TATTTTAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
*
27921284 TATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATA---AAAAAA
*
27921306 TATTTTAAAATTAAAAAAA
1 TATTTTAAAAATAAAAAAA
27921325 T
1 T
27921326 TAAAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 19 0.53
22 17 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAA
Found at i:27921295 original size:11 final size:11
Alignment explanation
Indices: 27921279--27921315 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
27921269 TTAAAAATAA
27921279 AAAAATATTTT
1 AAAAATATTTT
27921290 AAAAATATTTT
1 AAAAATATTTT
27921301 AAAAATATTTT
1 AAAAATATTTT
27921312 AAAA
1 AAAA
27921316 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:27921704 original size:3 final size:3
Alignment explanation
Indices: 27921696--27921720 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27921686 ATTGTTATAG
27921696 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
27921721 TAAAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27924086 original size:18 final size:17
Alignment explanation
Indices: 27924058--27924093 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
27924048 AAATTTTATT
27924058 TTAAAAATTAAAAAAAG
1 TTAAAAATTAAAAAAAG
27924075 TTAAAAAGTTAAAAAAAG
1 TTAAAAA-TTAAAAAAAG
27924093 T
1 T
27924094 ATTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (17 bp):
TTAAAAATTAAAAAAAG
Found at i:27924134 original size:11 final size:11
Alignment explanation
Indices: 27924118--27924175 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
27924108 TTAAAAAAAA
27924118 TTAAAAGTATT
1 TTAAAAGTATT
*
27924129 TTAAAAATATT
1 TTAAAAGTATT
27924140 TT-AAA--ATT
1 TTAAAAGTATT
**
27924148 AAAAAAGTATT
1 TTAAAAGTATT
27924159 TTAAAAGTATT
1 TTAAAAGTATT
27924170 TTAAAA
1 TTAAAA
27924176 TTAAAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 3 0.08
11 30 0.77
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
TTAAAAGTATT
Found at i:27924156 original size:30 final size:30
Alignment explanation
Indices: 27924120--27924183 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
27924110 AAAAAAAATT
27924120 AAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAGTATTTTAAAAATATTTTAAAATTAA
*
27924150 AAAAGTATTTTAAAAGTATTTTAAAATTAA
1 AAAAGTATTTTAAAAATATTTTAAAATTAA
27924180 AAAA
1 AAAA
27924184 TAAAAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (30 bp):
AAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:27934054 original size:19 final size:19
Alignment explanation
Indices: 27934030--27934091 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
27934020 GAGATCTTAG
27934030 AGTTTGTATCGAAATGTTT
1 AGTTTGTATCGAAATGTTT
* * *
27934049 AGTTTG---CCAATAAGTTAA
1 AGTTTGTATCGAA-ATGTT-T
27934067 AGTTTGTATCGAAATGTTT
1 AGTTTGTATCGAAATGTTT
27934086 AGTTTG
1 AGTTTG
27934092 CCAATAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 6 0.19
19 12 0.38
20 4 0.12
21 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (19 bp):
AGTTTGTATCGAAATGTTT
Found at i:27934071 original size:37 final size:37
Alignment explanation
Indices: 27934030--27934105 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
27934020 GAGATCTTAG
27934030 AGTTTGTATCGAAATGTTTAGTTTGCCAATAAGTTAA
1 AGTTTGTATCGAAATGTTTAGTTTGCCAATAAGTTAA
27934067 AGTTTGTATCGAAATGTTTAGTTTGCCAATAAGTTAA
1 AGTTTGTATCGAAATGTTTAGTTTGCCAATAAGTTAA
27934104 AG
1 AG
27934106 CCAAGCATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (37 bp):
AGTTTGTATCGAAATGTTTAGTTTGCCAATAAGTTAA
Found at i:27944523 original size:17 final size:16
Alignment explanation
Indices: 27944501--27944544 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
27944491 TGAAATTTTT
*
27944501 TTTATATGTTTTATAAA
1 TTTATAT-TTTTAAAAA
*
27944518 TTTATATATTTAAAAA
1 TTTATATTTTTAAAAA
*
27944534 ATTATATTTTT
1 TTTATATTTTT
27944545 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTATATTTTTAAAAA
Found at i:27944652 original size:170 final size:171
Alignment explanation
Indices: 27944475--27944828 Score: 640
Period size: 171 Copynumber: 2.1 Consensus size: 171
27944465 AGACACCATT
***
27944475 TGTTTAGGTTCATTCTTGAAATTTTTTTTATATGTTTTATAAATTTATATATTTAAAAAATTATA
1 TGTTTAGGTTCATTCTTGAAAGAATTTTTATATGTTTTATAAATTTATATATTTAAAAAATTATA
27944540 -TTTTTTAATTTTTAAATAATAATAAAAAAGCTAATATCTTAT-AAGTGTTTGAAAAAATATAAA
66 TTTTTTTAATTTTTAAATAATAATAAAAAAGCTAATATCTTATAAAG-GTTTGAAAAAATATAAA
*
27944603 ATTATTTAAAAATTAAGTCCATAATGTATCTAGACAAACTGA
130 ATTATTTAAAAATTAAGTCCATAATGTATCTAGACAAACAGA
27944645 TGTTTAGGTTCATTCTTGAAAGAATTTTTATATGTTTTATAAATTTATATATTTAAAAAATTATA
1 TGTTTAGGTTCATTCTTGAAAGAATTTTTATATGTTTTATAAATTTATATATTTAAAAAATTATA
*
27944710 TTTTTTTAATTTTTAAATAATAATATAAAAGCTAATATCTTATAAAGGTTTGAAAAAATATAAAA
66 TTTTTTTAATTTTTAAATAATAATAAAAAAGCTAATATCTTATAAAGGTTTGAAAAAATATAAAA
27944775 TTATTTAAAAATTAAGTCCATAATGTATCTAGACAAACAGA
131 TTATTTAAAAATTAAGTCCATAATGTATCTAGACAAACAGA
27944816 TGTTTAGGTTCAT
1 TGTTTAGGTTCAT
27944829 CTGAACTTGA
Statistics
Matches: 177, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
170 62 0.35
171 112 0.63
172 3 0.02
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (171 bp):
TGTTTAGGTTCATTCTTGAAAGAATTTTTATATGTTTTATAAATTTATATATTTAAAAAATTATA
TTTTTTTAATTTTTAAATAATAATAAAAAAGCTAATATCTTATAAAGGTTTGAAAAAATATAAAA
TTATTTAAAAATTAAGTCCATAATGTATCTAGACAAACAGA
Found at i:27946136 original size:11 final size:11
Alignment explanation
Indices: 27946090--27946143 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
27946080 AATAAATAAA
*
27946090 TATTAGTTTAT
1 TATTATTTTAT
*
27946101 TAATATTTTA-
1 TATTATTTTAT
*
27946111 -ATTGATATT-T
1 TATT-ATTTTAT
27946121 TATTATTTTAT
1 TATTATTTTAT
27946132 TATTATTTTAT
1 TATTATTTTAT
27946143 T
1 T
27946144 TAGTATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
9 2 0.06
10 8 0.24
11 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:27949029 original size:28 final size:28
Alignment explanation
Indices: 27948988--27949113 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
27948978 TGACTTTCGA
*
27948988 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
27949016 CACTAAGTGCGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
27949044 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
27949072 CACTAAGTGTGCGAGTTTGATTATTGAA-
1 CACTAAGTGTGCGAGTTTAATT-GTAAAG
27949100 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
27949114 ACTTATTAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 85 0.98
29 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:27949872 original size:23 final size:23
Alignment explanation
Indices: 27949810--27950155 Score: 264
Period size: 23 Copynumber: 14.9 Consensus size: 23
27949800 TCTAAAATTG
*
27949810 GTATATATATGCTGCCCAATTTT
1 GTATATATATGCTGTCCAATTTT
*
27949833 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATATATGCTGTCCAATTTT
*
27949857 GTATATACATGCTGTCCAATTTT
1 GTATATATATGCTGTCCAATTTT
* *
27949880 GTGTATA-AGTGCTGTCCAA-ATT
1 GTATATATA-TGCTGTCCAATTTT
* *
27949902 GCTACATATATGCTGCCCAATTTT
1 G-TATATATATGCTGTCCAATTTT
*
27949926 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATATATGCTGTCCAATTTT
* *
27949950 GTATATACATGCTGTCAAATTTT
1 GTATATATATGCTGTCCAATTTT
* * *
27949973 GTGTATA-AGTGCTGTCGAA-ATT
1 GTATATATA-TGCTGTCCAATTTT
* *
27949995 GCTACATATATGCTGCCCAATTTT
1 G-TATATATATGCTGTCCAATTTT
* *
27950019 GGTGA-ATAAATGCTATCCAATTTT
1 -GT-ATATATATGCTGTCCAATTTT
* *
27950043 GTATATACATGCTGTCAAATTTT
1 GTATATATATGCTGTCCAATTTT
* *
27950066 GTGTATA-AGTGCTGTCCAA-ATT
1 GTATATATA-TGCTGTCCAATTTT
*
27950088 GCTACATATATGCTG-CCTAATTTT
1 G-TATATATATGCTGTCC-AATTTT
*
27950112 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATATATGCTGTCCAATTTT
*
27950136 GTATATATATGCTATCCAAT
1 GTATATATATGCTGTCCAAT
27950156 AGTGCTGTCG
Statistics
Matches: 261, Mismatches: 36, Indels: 51
0.75 0.10 0.15
Matches are distributed among these distances:
22 18 0.07
23 155 0.59
24 79 0.30
25 9 0.03
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (23 bp):
GTATATATATGCTGTCCAATTTT
Found at i:27949919 original size:93 final size:93
Alignment explanation
Indices: 27949804--27950680 Score: 1371
Period size: 93 Copynumber: 9.5 Consensus size: 93
27949794 TAATGGTCTA
* *
27949804 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
*
27949869 TGTCCAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
27949897 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
*
27949962 TGTCAAATTTTGTGTATAAGTGCTGTCG
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
*
27949990 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
27950055 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* *
27950083 AAATTGCTACATATATGCTGCCTAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
* * *
27950148 TATC-CA--------AT-AGTGCTGTCG
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
*
27950166 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
27950231 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* *
27950259 AAATTGCTACATATATGCTGCCTAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATATATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
* * *
27950324 TATCCAATTTTGTGTATAAGTGTTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* * * *
27950352 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTTCAATTTTGTATATGCATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
27950417 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* * *
27950445 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
27950510 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* * *
27950538 AAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
27950603 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* * * * * *
27950631 AAATTGGTATATACATGCTGCTCAATTTCTGATGTATAAGA-GCTGTCCAA
1 AAATTGCTACATATATGCTGCCCAATTT-TGGTGAATAA-ATGCTGTCCAA
27950681 ACAGGGTAGA
Statistics
Matches: 729, Mismatches: 43, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
83 74 0.10
84 3 0.00
92 3 0.00
93 631 0.87
94 17 0.02
95 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (93 bp):
AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
TGTCAAATTTTGTGTATAAGTGCTGTCC
Found at i:27950239 original size:23 final size:22
Alignment explanation
Indices: 27950203--27950655 Score: 253
Period size: 23 Copynumber: 19.5 Consensus size: 22
27950193 TTGGTGAATA
* *
27950203 AATGCTATCCAATTTTGTATAT
1 AATGCTGTCAAATTTTGTATAT
*
27950225 ACATGCTGTCAAATTTTGTGTAT
1 A-ATGCTGTCAAATTTTGTATAT
*
27950248 AAGTGCTGTCCAAA--TTGCTACAT
1 AA-TGCTGT-CAAATTTTG-TATAT
* *
27950271 ATATGCTGCCTAATTTTGGTGA-AT
1 A-ATGCTGTCAAATTTT-GT-ATAT
*
27950295 AAATGCTGTCCAATTTTGTATAT
1 -AATGCTGTCAAATTTTGTATAT
* * *
27950318 ATATGCTATCCAATTTTGTGTAT
1 A-ATGCTGTCAAATTTTGTATAT
* *
27950341 AAGTGTTGTCCAAA-TTGGTATAT
1 AA-TGCTGT-CAAATTTTGTATAT
* *
27950364 ATATGCTGCCCAATTTTGGTGA-AT
1 A-ATGCTGTCAAATTTT-GT-ATAT
27950388 AAATGCTGTTC-AATTTTGTATAT
1 -AATGCTG-TCAAATTTTGTATAT
* *
27950411 GCATGCTGTCAAATTTTGTGTAT
1 -AATGCTGTCAAATTTTGTATAT
*
27950434 AAGTGCTGTCCAAA-TTGGTATAT
1 AA-TGCTGT-CAAATTTTGTATAT
* *
27950457 ATATGCTGCCCAATTTTGGTGA-AT
1 A-ATGCTGTCAAATTTT-GT-ATAT
* *
27950481 AAATGTTGTCCAATTTTGTATAT
1 -AATGCTGTCAAATTTTGTATAT
*
27950504 ACATGCTGTCAAATTTTGTGTAT
1 A-ATGCTGTCAAATTTTGTATAT
*
27950527 AAGTGCTGTCCAAA-TTGGTATAT
1 AA-TGCTGT-CAAATTTTGTATAT
** *
27950550 ATATGCTACCCAATTTTGGTGA-AT
1 A-ATGCTGTCAAATTTT-GT-ATAT
*
27950574 AAATGCTGTCCAATTTTGTATAT
1 -AATGCTGTCAAATTTTGTATAT
*
27950597 ACATGCTGTCAAATTTTGTGTAT
1 A-ATGCTGTCAAATTTTGTATAT
*
27950620 AAGTGCTGTCCAAA-TTGGTATAT
1 AA-TGCTGT-CAAATTTTGTATAT
27950643 ACATGCTGCTCAA
1 A-ATGCTG-TCAA
27950656 TTTCTGATGT
Statistics
Matches: 340, Mismatches: 47, Indels: 87
0.72 0.10 0.18
Matches are distributed among these distances:
22 30 0.09
23 207 0.61
24 93 0.27
25 10 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (22 bp):
AATGCTGTCAAATTTTGTATAT
Found at i:27950479 original size:362 final size:365
Alignment explanation
Indices: 27949804--27950680 Score: 1375
Period size: 362 Copynumber: 2.4 Consensus size: 365
27949794 TAATGGTCTA
27949804 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
*
27949869 TGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATA
66 TGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATA
* *
27949934 AATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCGAAATTGCTA
131 AATGCTGTCCAATTTTGTATATACATGCTATCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTA
27949999 CATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGCTGTCAAATT
196 CATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGCTGTCAAATT
*
27950064 TTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCTAATTTTGGTGAATAAATGCTGTC
261 TTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
* * *
27950129 CAATTTTGTATATATATGCTATC-CA-AT-AGTGCTGTCG
326 CAATTTTGTATATACATGCTATCAAATATAAGTGCTGTCC
* * *
27950166 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGC
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
*
27950231 TGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCTAATTTTGGTGAATA
66 TGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATA
* * * *
27950296 AATGCTGTCCAATTTTGTATATATATGCTATCCAATTTTGTGTATAAGTGTTGTCCAAATTGGTA
131 AATGCTGTCCAATTTTGTATATACATGCTATCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTA
* * * *
27950361 TATATATGCTGCCCAATTTTGGTGAATAAATGCTGTTCAATTTTGTATATGCATGCTGTCAAATT
196 CATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGCTGTCAAATT
* * *
27950426 TTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGTTGTC
261 TTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
*
27950491 CAATTTTGTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCC
326 CAATTTTGTATATACATGCTATCAAA-------TATAAGTGCTGTCC
*
27950538 AAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
* * * * * *
27950603 TGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATACATGCTGCTCAATTTCTGATGTAT
66 TGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTT-TGGTGAAT
27950668 AAGA-GCTGTCCAA
130 AA-ATGCTGTCCAA
27950681 ACAGGGTAGA
Statistics
Matches: 469, Mismatches: 34, Indels: 13
0.91 0.07 0.03
Matches are distributed among these distances:
362 327 0.70
363 1 0.00
371 2 0.00
372 121 0.26
373 17 0.04
374 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (365 bp):
AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
TGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATA
AATGCTGTCCAATTTTGTATATACATGCTATCAAATTTTGTGTATAAGTGCTGTCCAAATTGCTA
CATATATGCTGCCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGCTGTCAAATT
TTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
CAATTTTGTATATACATGCTATCAAATATAAGTGCTGTCC
Found at i:27959455 original size:16 final size:16
Alignment explanation
Indices: 27959434--27959464 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27959424 TTATTTATAT
27959434 TTATTAATATAATAAG
1 TTATTAATATAATAAG
27959450 TTATTAATATAATAA
1 TTATTAATATAATAA
27959465 ATATAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAG
Found at i:27959470 original size:22 final size:22
Alignment explanation
Indices: 27959431--27959488 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
27959421 TAATTATTTA
* *
27959431 TATT-TATTAATATA-ATAAGT
1 TATTATATTAATAAATATAAAT
27959451 TATTA-ATATAATAAATATAAAT
1 TATTATAT-TAATAAATATAAAT
27959473 TATTATATTAATAAAT
1 TATTATATTAATAAAT
27959489 TATTTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.19
21 6 0.19
22 18 0.56
23 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTATATTAATAAATATAAAT
Found at i:27959588 original size:15 final size:15
Alignment explanation
Indices: 27959568--27959624 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
27959558 ATTCAATATT
27959568 AATATTTTAATAATA
1 AATATTTTAATAATA
*
27959583 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
27959602 AATATATTAATAATA
1 AATATTTTAATAATA
*
27959617 AATGTTTT
1 AATATTTT
27959625 GTAGAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:27959723 original size:29 final size:31
Alignment explanation
Indices: 27959678--27959736 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
27959668 ACAAGTTTAC
*
27959678 AATTTAGTCTTTGTAC-TTTT-AATTTCAAG
1 AATTTAGTCCTTGTACTTTTTAAATTTCAAG
27959707 AATTTAGTCCCTT-TACTTTTTAAATTTCAA
1 AATTTAGT-CCTTGTACTTTTTAAATTTCAA
27959737 AATCAAGTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 11 0.42
30 7 0.27
31 8 0.31
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.51
Consensus pattern (31 bp):
AATTTAGTCCTTGTACTTTTTAAATTTCAAG
Found at i:27960456 original size:22 final size:22
Alignment explanation
Indices: 27960414--27960457 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27960404 TTCTATAAAA
* *
27960414 TTAAAAATATTTTCAATTATTT
1 TTAAAAATATTATAAATTATTT
27960436 TTAAAAA-ATTATAAATATATTT
1 TTAAAAATATTATAAAT-TATTT
27960458 AATAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAAATATTATAAATTATTT
Found at i:27963841 original size:130 final size:131
Alignment explanation
Indices: 27963620--27963918 Score: 494
Period size: 130 Copynumber: 2.3 Consensus size: 131
27963610 ATCTGCTATT
* * *
27963620 TTCAACCCACTCCACTGCTG-CTTAGAGAGATAGGACTGGTAGCTTAAATCTGCTTCCCTACTAC
1 TTCAACCTATTCCACTGCTGTC-CAGAGAGATAGGACTGGTAGCTT-AATCTGCTTCCCTACTAC
*
27963684 CTTGGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACTGTTTAGGGAGACATGATCTACA
64 CTTGGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACTATTTAGGGAGACATGATCTACA
27963749 ATC
129 ATC
*
27963752 TTCAACCTATTCCACTGCTGTCCAGAGAGATAGGACTGGTGGCTT-ATCTGCTTCCCTACTACCT
1 TTCAACCTATTCCACTGCTGTCCAGAGAGATAGGACTGGTAGCTTAATCTGCTTCCCTACTACCT
* *
27963816 TTGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACTATTTAGGGAGACATGATCTACGAT
66 TGGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACTATTTAGGGAGACATGATCTACAAT
27963881 C
131 C
*
27963882 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACT
1 TTCAACCTATTCCACTGCTGTCCAGAGAGATAGGACT
27963919 TACAATCTTC
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
130 118 0.75
132 39 0.25
133 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (131 bp):
TTCAACCTATTCCACTGCTGTCCAGAGAGATAGGACTGGTAGCTTAATCTGCTTCCCTACTACCT
TGGGAAGATAAGATTCACCGTCTTTGATCTGTTCCACTACTATTTAGGGAGACATGATCTACAAT
C
Found at i:27963896 original size:44 final size:44
Alignment explanation
Indices: 27963879--27964399 Score: 628
Period size: 44 Copynumber: 11.9 Consensus size: 44
27963869 ATGATCTACG
27963879 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
27963923 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTT-CTA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTAC-A
*
27963967 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTCCA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
*
27964011 ATCTTCAACCTATTCCACTGCTGTCCCGGGAGATAGGACTTACA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
27964055 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
*
27964099 ATCTTCAACCTATTCCACTGCTG-CCAGGGAGATAGAACTTACA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
* * *
27964142 ATCTTTAACCTATTCCACTGTTGTCCAGGGAGATAAGACTTACA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
***
27964186 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGAC-TGGT
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
** * * ** * * * *
27964229 GGCTT--ATCTGCTTCC-CTAAT-ACCTTGGGAAGATAAGA-TTCACC
1 ATCTTCAACCT-ATTCCACTGCTGTCC-AGGG-AGATAGGACTT-ACA
* ** * * * ** * * *
27964272 GTCTTTGATCTGTTCCACTACTGTTTAGGGAGACATGA-TCTACG
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACT-TACA
27964316 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
* * *
27964360 GTCTTCAACCTATTCCATTACTGTCCAGGGAGATAGGACT
1 ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACT
27964400 GGTATCTTCG
Statistics
Matches: 413, Mismatches: 50, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.00
41 9 0.02
42 12 0.03
43 49 0.12
44 327 0.79
45 14 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTTACA
Found at i:27969067 original size:21 final size:21
Alignment explanation
Indices: 27969041--27969092 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
27969031 AAGACGTCTT
27969041 TGAACTCTCGAAGTAACTCGA
1 TGAACTCTCGAAGTAACTCGA
27969062 TGAACTCTCGAAGTAACTCGA
1 TGAACTCTCGAAGTAACTCGA
27969083 TGAACTCTCG
1 TGAACTCTCG
27969093 CTTCGTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
TGAACTCTCGAAGTAACTCGA
Found at i:27971444 original size:18 final size:18
Alignment explanation
Indices: 27971400--27971455 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
27971390 ACCCACTAAA
*
27971400 TATTTTTTT-TAATTTT-
1 TATTTTTTTGTATTTTTC
27971416 TATTTGATTTTGTATTTTTC
1 TATTT--TTTTGTATTTTTC
27971436 TATTTTTTTG-ACTTTTTC
1 TATTTTTTTGTA-TTTTTC
27971454 TA
1 TA
27971456 CTGATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 5 0.15
17 1 0.03
18 17 0.50
19 6 0.18
20 5 0.15
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (18 bp):
TATTTTTTTGTATTTTTC
Found at i:27983263 original size:2 final size:2
Alignment explanation
Indices: 27983256--27983282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27983246 TTAAAATAAC
27983256 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27983283 ATGATTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27987980 original size:24 final size:24
Alignment explanation
Indices: 27987941--27987992 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27987931 AATCAATGTC
* * *
27987941 AAATATATTTTGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
27987965 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
27987989 AAAT
1 AAAT
27987993 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:27990912 original size:24 final size:24
Alignment explanation
Indices: 27990885--27990936 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27990875 AATTAATGTC
* *
27990885 AAATATATTATGCAAATAAATGCT
1 AAATATATTATACAAATAAATACT
*
27990909 AAATATATTATACTAATAAATACT
1 AAATATATTATACAAATAAATACT
27990933 AAAT
1 AAAT
27990937 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACAAATAAATACT
Found at i:27993682 original size:2 final size:2
Alignment explanation
Indices: 27993675--27993702 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27993665 AGTGAAAACG
27993675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27993703 ACTTCAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28002927 original size:16 final size:15
Alignment explanation
Indices: 28002908--28002937 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
28002898 TTCGTTTTAT
28002908 TTGCATTTAGATTAAC
1 TTGCATTTAG-TTAAC
28002924 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
28002938 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:28010992 original size:313 final size:313
Alignment explanation
Indices: 28010587--28011221 Score: 1270
Period size: 313 Copynumber: 2.0 Consensus size: 313
28010577 TGCATGACAA
28010587 TTTATTGCAAGTTGAATTTGTTTCTTTTAATTAAACTTATCTTAGATTAGTAAATAAGTTGCTGA
1 TTTATTGCAAGTTGAATTTGTTTCTTTTAATTAAACTTATCTTAGATTAGTAAATAAGTTGCTGA
28010652 TCAATTAATTCAACTCATCTTAAGTTTTTAATAATTGAGTTATTATTGAACTTTATTTAATAAGA
66 TCAATTAATTCAACTCATCTTAAGTTTTTAATAATTGAGTTATTATTGAACTTTATTTAATAAGA
28010717 TGCTTCTTACTTAATCTAGTTCCTAGGTTTACTTATTGATGCATGAGTTAAGTTCATTTAATTAT
131 TGCTTCTTACTTAATCTAGTTCCTAGGTTTACTTATTGATGCATGAGTTAAGTTCATTTAATTAT
28010782 GCTTCTTTAATTAACTAATTGCTGGAATAATTGTTGCATATGTTTTTAGTTCATTTACTTAAGTT
196 GCTTCTTTAATTAACTAATTGCTGGAATAATTGTTGCATATGTTTTTAGTTCATTTACTTAAGTT
28010847 AAGTAATAATGTGTGTTATGTTTAAATGTGATTAATAAGCTCATTTTAATGTG
261 AAGTAATAATGTGTGTTATGTTTAAATGTGATTAATAAGCTCATTTTAATGTG
28010900 TTTATTGCAAGTTGAATTTGTTTCTTTTAATTAAACTTATCTTAGATTAGTAAATAAGTTGCTGA
1 TTTATTGCAAGTTGAATTTGTTTCTTTTAATTAAACTTATCTTAGATTAGTAAATAAGTTGCTGA
28010965 TCAATTAATTCAACTCATCTTAAGTTTTTAATAATTGAGTTATTATTGAACTTTATTTAATAAGA
66 TCAATTAATTCAACTCATCTTAAGTTTTTAATAATTGAGTTATTATTGAACTTTATTTAATAAGA
28011030 TGCTTCTTACTTAATCTAGTTCCTAGGTTTACTTATTGATGCATGAGTTAAGTTCATTTAATTAT
131 TGCTTCTTACTTAATCTAGTTCCTAGGTTTACTTATTGATGCATGAGTTAAGTTCATTTAATTAT
28011095 GCTTCTTTAATTAACTAATTGCTGGAATAATTGTTGCATATGTTTTTAGTTCATTTACTTAAGTT
196 GCTTCTTTAATTAACTAATTGCTGGAATAATTGTTGCATATGTTTTTAGTTCATTTACTTAAGTT
28011160 AAGTAATAATGTGTGTTATGTTTAAATGTGATTAATAAGCTCATTTTAATGTG
261 AAGTAATAATGTGTGTTATGTTTAAATGTGATTAATAAGCTCATTTTAATGTG
28011213 TTTATTGCA
1 TTTATTGCA
28011222 GGTGTCTTTT
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
313 322 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (313 bp):
TTTATTGCAAGTTGAATTTGTTTCTTTTAATTAAACTTATCTTAGATTAGTAAATAAGTTGCTGA
TCAATTAATTCAACTCATCTTAAGTTTTTAATAATTGAGTTATTATTGAACTTTATTTAATAAGA
TGCTTCTTACTTAATCTAGTTCCTAGGTTTACTTATTGATGCATGAGTTAAGTTCATTTAATTAT
GCTTCTTTAATTAACTAATTGCTGGAATAATTGTTGCATATGTTTTTAGTTCATTTACTTAAGTT
AAGTAATAATGTGTGTTATGTTTAAATGTGATTAATAAGCTCATTTTAATGTG
Found at i:28013325 original size:37 final size:37
Alignment explanation
Indices: 28013270--28013422 Score: 152
Period size: 37 Copynumber: 4.2 Consensus size: 37
28013260 AGTACACTCT
* *
28013270 ATCGAGCCAAATCTTATTGTTATACTGAATAAAGCTCA
1 ATCGAG-CAAATCTTACTGTTATACTGAATGAAGCTCA
* * *
28013308 ATCGAGCAAAT-TATATTGTTATACTGAATG-GGCTTA
1 ATCGAGCAAATCT-TACTGTTATACTGAATGAAGCTCA
* * *
28013344 AT-GAGTAAATCTTACTGTTATACTGAATGATGTTCA
1 ATCGAGCAAATCTTACTGTTATACTGAATGAAGCTCA
* *
28013380 ATCGAGCAAAT-TCTACTGTTACACTGAGTGAAGCTCA
1 ATCGAGCAAATCT-TACTGTTATACTGAATGAAGCTCA
*
28013417 AACGAG
1 ATCGAG
28013423 TAGAAATCTA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
35 23 0.24
36 14 0.15
37 53 0.55
38 6 0.06
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (37 bp):
ATCGAGCAAATCTTACTGTTATACTGAATGAAGCTCA
Done.