Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 33 of 198
Found at i:9488937 original size:24 final size:25
Alignment explanation
Indices: 9488890--9488937 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
9488880 TGAGTATATA
9488890 AACATAAAAAATTAATAATGTTAAC
1 AACATAAAAAATTAATAATGTTAAC
*
9488915 AACAT-AATAATTAACTAAT-TTAA
1 AACATAAAAAATTAA-TAATGTTAA
9488938 TAATATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (25 bp):
AACATAAAAAATTAATAATGTTAAC
Found at i:9492642 original size:106 final size:106
Alignment explanation
Indices: 9492457--9492668 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 106
9492447 ATCAGTCTTT
*
9492457 CCATCCTGTCTCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
1 CCATCCTGTCCCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
*
9492522 TTTACCTAAAATCTGAACAAGCATAAGTTCTATGTTTTAGC
66 TTTACCTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
*
9492563 CCATCCTGTCCCTACATCAATGGCTTACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
1 CCATCCTGTCCCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
*
9492628 TTTACTTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
66 TTTACCTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
9492669 TTTTAGATTA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (106 bp):
CCATCCTGTCCCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
TTTACCTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
Found at i:9493394 original size:18 final size:18
Alignment explanation
Indices: 9493373--9493417 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
9493363 TTTTAACTGA
*
9493373 TTTACCTTTTAATTTAAT
1 TTTACATTTTAATTTAAT
9493391 TTTACATTTTAATTTAAT
1 TTTACATTTTAATTTAAT
9493409 ATTT-CATTT
1 -TTTACATTT
9493418 ACTATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTACATTTTAATTTAAT
Found at i:9495843 original size:3 final size:3
Alignment explanation
Indices: 9495835--9495886 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
9495825 AAATGAGCAA
9495835 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9495883 AAT A
1 AAT A
9495887 TGAAAACATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9505275 original size:44 final size:44
Alignment explanation
Indices: 9505207--9505301 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
9505197 TCAGATGTAT
* *
9505207 TTTTATTCTATTCAAGTCAGTTTTTTCATGCACCCAATACAAGG
1 TTTTATTCTATTAAAGTCAATTTTTTCATGCACCCAATACAAGG
* *
9505251 TTTTATTCTATTAAAGTCAATTTTTTCATTCACCCAATACACGG
1 TTTTATTCTATTAAAGTCAATTTTTTCATGCACCCAATACAAGG
9505295 TATTTAT
1 T-TTTAT
9505302 ATACTTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 41 0.89
45 5 0.11
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.44
Consensus pattern (44 bp):
TTTTATTCTATTAAAGTCAATTTTTTCATGCACCCAATACAAGG
Found at i:9510407 original size:3 final size:3
Alignment explanation
Indices: 9510399--9510443 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
9510389 TTGAGAGTAA
* * *
9510399 AAG AAG AAG ATG TAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9510444 GGTTCATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:9511211 original size:19 final size:20
Alignment explanation
Indices: 9511172--9511211 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9511162 TTCTCGCTAC
*
9511172 TAGATTTTCGCTACTAAAAA
1 TAGATTTTCGCTACGAAAAA
*
9511192 TAGATTTTCG-TCCGAAAAA
1 TAGATTTTCGCTACGAAAAA
9511211 T
1 T
9511212 CATCATTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
TAGATTTTCGCTACGAAAAA
Found at i:9515837 original size:20 final size:20
Alignment explanation
Indices: 9515807--9515852 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9515797 TCGCCTATGA
* *
9515807 ATAACTTTATAATTCATATAT
1 ATAA-TTTATAAATAATATAT
9515828 ATAATTTATAAATAATATAT
1 ATAATTTATAAATAATATAT
*
9515848 GTAAT
1 ATAAT
9515853 CCAAAGGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAATTTATAAATAATATAT
Found at i:9522269 original size:17 final size:17
Alignment explanation
Indices: 9522210--9522323 Score: 90
Period size: 17 Copynumber: 6.6 Consensus size: 17
9522200 AGCTCTCATG
*
9522210 TTTGGTGAGCTCGCAGT
1 TTTGGTGAGCTAGCAGT
* *
9522227 CTTTGGTGAGCTTTGCACT
1 -TTTGGTGAGC-TAGCAGT
9522246 TTT-GTGAGCTAGCAGT
1 TTTGGTGAGCTAGCAGT
* *
9522262 TTTGGTGAGCTCGTAGT
1 TTTGGTGAGCTAGCAGT
* *
9522279 TCTGGTGAGCTCA-TAGT
1 TTTGGTGAGCT-AGCAGT
* *
9522296 TCTGGTGAGCT-GACAAT
1 TTTGGTGAGCTAG-CAGT
9522313 TTTGGTGAGCT
1 TTTGGTGAGCT
9522324 CGTAGTTCGC
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
16 8 0.10
17 54 0.68
18 13 0.16
19 5 0.06
ACGTcount: A:0.15, C:0.16, G:0.32, T:0.38
Consensus pattern (17 bp):
TTTGGTGAGCTAGCAGT
Found at i:9531555 original size:56 final size:51
Alignment explanation
Indices: 9531461--9531707 Score: 216
Period size: 50 Copynumber: 4.8 Consensus size: 51
9531451 ATTTGGGTAA
* *** *
9531461 AGAGATCTCATGTAAGACCATGTCTGGGACACAACATTGGCATCATTGAGGTTATG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G-TATG
*
9531517 AGAGGTCTCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAG-ATG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
* ** *
9531567 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-TATG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
** * * * * *
9531617 AGAACTCTCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTA-CAAG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGTATG
* ** *
9531666 AAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCA
9531708 TGTTATTATC
Statistics
Matches: 160, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 80 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 37 0.23
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (51 bp):
AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
Found at i:9533331 original size:6 final size:6
Alignment explanation
Indices: 9533320--9533354 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9533310 ATGTAGATGA
9533320 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
9533355 AAATATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:9538884 original size:16 final size:16
Alignment explanation
Indices: 9538847--9538886 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
9538837 TTAATAAAAT
* *
9538847 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
9538863 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
9538879 TAAAATTA
1 TAAAATTA
9538887 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:9538886 original size:22 final size:22
Alignment explanation
Indices: 9538819--9538871 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
9538809 TAATTAAAAT
* * *
9538819 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
9538841 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
9538863 TAAAATTAA
1 TAAAATTAA
9538872 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:9538993 original size:68 final size:67
Alignment explanation
Indices: 9538875--9539084 Score: 359
Period size: 68 Copynumber: 3.1 Consensus size: 67
9538865 AAATTAATTG
* *
9538875 TTAGTAAAATTATCAAATTATTAAT-TGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAATTTATCAAATTATTAATGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
9538939 GA
66 GA
*
9538941 TTAGTAAATTTATCAAATTATTAACTGTATTAATTGTATTAATTTTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAA-TGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9539006 TGA
65 TGA
*
9539009 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAA-TGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9539074 TGA
65 TGA
9539077 TTAGTAAA
1 TTAGTAAA
9539085 ACAAACTTGA
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
66 23 0.17
67 1 0.01
68 112 0.82
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (67 bp):
TTAGTAAATTTATCAAATTATTAATGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
GA
Found at i:9539039 original size:9 final size:9
Alignment explanation
Indices: 9539027--9539054 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9539017 TTTATCAAAT
9539027 TATTAATTG
1 TATTAATTG
9539036 TATTAATTG
1 TATTAATTG
9539045 TATTAATTG
1 TATTAATTG
9539054 T
1 T
9539055 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:9540317 original size:22 final size:22
Alignment explanation
Indices: 9540289--9540340 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
9540279 AGCCTTAATA
9540289 ATAAAACCCTAATTAATAAACC
1 ATAAAACCCTAATTAATAAACC
*
9540311 ATAAAACACTAATTAATAAACC
1 ATAAAACCCTAATTAATAAACC
*
9540333 CTAAAACC
1 ATAAAACC
9540341 TTAAAAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (22 bp):
ATAAAACCCTAATTAATAAACC
Found at i:9540513 original size:26 final size:27
Alignment explanation
Indices: 9540457--9540523 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 27
9540447 AAAACGGCCC
* * *
9540457 ATTTCCGTTATTTTTAAAAAAATTGACTT
1 ATTTCCGTAATTTTGAAAAAAA-T-AATT
9540486 ATTTCCGTAATTTTGAAAAAAA-AATT
1 ATTTCCGTAATTTTGAAAAAAATAATT
*
9540512 ATTT-GGTAATTT
1 ATTTCCGTAATTT
9540524 AGTCAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 7 0.21
29 20 0.59
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.46
Consensus pattern (27 bp):
ATTTCCGTAATTTTGAAAAAAATAATT
Found at i:9546213 original size:20 final size:20
Alignment explanation
Indices: 9546188--9546228 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9546178 CGCGGGATTG
*
9546188 AGTACAATTGTTCTGTGCCA
1 AGTACAATCGTTCTGTGCCA
9546208 AGTACAATCGTTCTGTGCCA
1 AGTACAATCGTTCTGTGCCA
9546228 A
1 A
9546229 AGGATGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (20 bp):
AGTACAATCGTTCTGTGCCA
Found at i:9549819 original size:2 final size:2
Alignment explanation
Indices: 9549812--9549845 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9549802 ATAATCTAGA
9549812 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
9549846 GCACACACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9556337 original size:23 final size:23
Alignment explanation
Indices: 9556311--9556356 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9556301 ATTTCCCAAT
9556311 ATTGTTTTTGGAGCAAACTCCAG
1 ATTGTTTTTGGAGCAAACTCCAG
9556334 ATTGTTTTTGGAGCAAACTCCAG
1 ATTGTTTTTGGAGCAAACTCCAG
9556357 CAACTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTGTTTTTGGAGCAAACTCCAG
Found at i:9558469 original size:21 final size:20
Alignment explanation
Indices: 9558417--9558477 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
9558407 TGTAATACAG
9558417 TTTATAATAATTAAAATATT
1 TTTATAATAATTAAAATATT
9558437 TTTATAACTAATTAAAAT-TT
1 TTTATAA-TAATTAAAATATT
* *
9558457 TATTATTTATAATTGAAATAT
1 T-TTA-TAATAATTAAAATAT
9558478 ATTAAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 10 0.29
21 22 0.63
22 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATAATAATTAAAATATT
Found at i:9569038 original size:22 final size:22
Alignment explanation
Indices: 9569010--9569051 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9569000 TTTGATTAAC
9569010 TAAAGATTTATTAACCACTAAT
1 TAAAGATTTATTAACCACTAAT
*
9569032 TAAAGATTTGTTAACCACTA
1 TAAAGATTTATTAACCACTA
9569052 CACCACTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAAGATTTATTAACCACTAAT
Found at i:9569194 original size:17 final size:17
Alignment explanation
Indices: 9569164--9569196 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9569154 TTAGTTGATT
9569164 TTAGATTTAATAATTAG
1 TTAGATTTAATAATTAG
9569181 TTAG-TTTAATTAATTA
1 TTAGATTTAA-TAATTA
9569197 AGTTGAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTAGATTTAATAATTAG
Found at i:9573811 original size:23 final size:23
Alignment explanation
Indices: 9573785--9573836 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9573775 CTAATAATAT
9573785 ATATTTTAT-TTTAAAAATATTAA
1 ATATTTTATATTTAAAAAT-TTAA
**
9573808 ATATTAAATATTTAAAAATTTAA
1 ATATTTTATATTTAAAAATTTAA
9573831 A-ATTTT
1 ATATTTT
9573837 CTAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTTTATATTTAAAAATTTAA
Found at i:9582375 original size:20 final size:20
Alignment explanation
Indices: 9582350--9582408 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
9582340 AACATTAAAT
9582350 TAAATTTCATATTAAGATAA
1 TAAATTTCATATTAAGATAA
*
9582370 TAAATTTAATATTAA-ATTAA
1 TAAATTTCATATTAAGA-TAA
* *
9582390 TAAAATAC-TATTAAGATAA
1 TAAATTTCATATTAAGATAA
9582409 GTATTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
TAAATTTCATATTAAGATAA
Found at i:9583716 original size:16 final size:16
Alignment explanation
Indices: 9583695--9583735 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
9583685 ACCATGAACG
*
9583695 TCACAAGTGAATTAAT
1 TCACAAATGAATTAAT
9583711 TCACAAATGAATTAAT
1 TCACAAATGAATTAAT
9583727 TCACAAATG
1 TCACAAATG
9583736 GATTTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (16 bp):
TCACAAATGAATTAAT
Found at i:9584095 original size:16 final size:16
Alignment explanation
Indices: 9584074--9584104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9584064 CTATGTATGC
*
9584074 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
9584090 AAAATACAAAAGACA
1 AAAATACAAAAGACA
9584105 TAATAGTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:9589774 original size:50 final size:49
Alignment explanation
Indices: 9589688--9589875 Score: 200
Period size: 50 Copynumber: 3.8 Consensus size: 49
9589678 AAAGTGAAAG
*
9589688 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * * *
9589737 TGATAGGTCGCATGTGTAGTACTATGTGTAGGTTACTATGCGTACCAG-A
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * * * *
9589786 TAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTAATACGTG-ATCGGATAA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-C-CAGAA
9589839 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
9589876 TGTGAACTAG
Statistics
Matches: 111, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
49 6 0.05
50 69 0.62
51 32 0.29
52 2 0.02
53 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
Found at i:9589809 original size:101 final size:101
Alignment explanation
Indices: 9589694--9589877 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
9589684 AAAGTGATGG
* *
9589694 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTG-TAC-CAGAATGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGAT-CGCAGAATGAT-GGTCACATGTGTAGT
* *
9589757 ACTATGTGTAGGTTACTATGCGTACCAGATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* *
9589795 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGATCGGATAATGATGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGATCGCAGAATGATGGTCACATGTGTAGTAC
9589860 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
9589878 TGAACTAGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
101 67 0.89
102 8 0.11
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGATCGCAGAATGATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:9590124 original size:16 final size:16
Alignment explanation
Indices: 9590103--9590134 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9590093 TGATTGAAAG
*
9590103 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
9590119 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
9590135 GCAACAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:9592773 original size:17 final size:16
Alignment explanation
Indices: 9592746--9592784 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9592736 TGAATATCCC
*
9592746 CCCTC-AAATTTTACTT
1 CCCTCAAAATTTT-CCT
9592762 CCCTCAAAATTTTCCT
1 CCCTCAAAATTTTCCT
9592778 CCCTCAA
1 CCCTCAA
9592785 CCCTTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (16 bp):
CCCTCAAAATTTTCCT
Found at i:9593608 original size:72 final size:72
Alignment explanation
Indices: 9593479--9593631 Score: 216
Period size: 72 Copynumber: 2.1 Consensus size: 72
9593469 TTTGTGATGG
* * *
9593479 TTGAATGTGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAATTAGTATGTTCTGATAA
1 TTGAATATGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAACTAGCATGTTCTGATAA
9593544 GTTTTAT
66 GTTTTAT
* * * **
9593551 TTGAATATGTCAATAGCATGTTTTTGATCTATTAAACTATATGTGTAACTAGCATGTTCTGATTT
1 TTGAATATGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAACTAGCATGTTCTGATAA
9593616 GTTTTAT
66 GTTTTAT
* *
9593623 CTGCATATG
1 TTGAATATG
9593632 GGAATGTCTA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (72 bp):
TTGAATATGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAACTAGCATGTTCTGATAA
GTTTTAT
Found at i:9602683 original size:14 final size:14
Alignment explanation
Indices: 9602664--9602690 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9602654 CTAAATTACC
9602664 AATTGGACCACACA
1 AATTGGACCACACA
9602678 AATTGGACCACAC
1 AATTGGACCACAC
9602691 CCACCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (14 bp):
AATTGGACCACACA
Found at i:9603687 original size:20 final size:19
Alignment explanation
Indices: 9603649--9603693 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
9603639 TTATATATTT
*
9603649 TTAAAAAATATATATAATA
1 TTAAAAAATATATAAAATA
9603668 TATAAAAAATACTA-AAAATA
1 T-TAAAAAATA-TATAAAATA
9603688 TTAAAA
1 TTAAAA
9603694 TAAATATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAAAATATATAAAATA
Found at i:9606169 original size:49 final size:49
Alignment explanation
Indices: 9606073--9606164 Score: 134
Period size: 47 Copynumber: 1.9 Consensus size: 49
9606063 ATGGTTATGA
* * *
9606073 GATTGTCAATTATTTATTTTTCCTTTTTTGGTTGAATCTCTGTGTTTTC
1 GATTGACAATTATTTATTTTCCCGTTTTTGGTTGAATCTCTGTGTTTTC
*
9606122 GATTGACAATT-TTT-TTTTCCCGTTTTTGGTTGAATCTTTGTGT
1 GATTGACAATTATTTATTTTCCCGTTTTTGGTTGAATCTCTGTGT
9606165 GTTTTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 26 0.67
48 3 0.08
49 10 0.26
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.58
Consensus pattern (49 bp):
GATTGACAATTATTTATTTTCCCGTTTTTGGTTGAATCTCTGTGTTTTC
Found at i:9615495 original size:45 final size:45
Alignment explanation
Indices: 9615431--9615529 Score: 189
Period size: 45 Copynumber: 2.2 Consensus size: 45
9615421 TCCATCAGGT
9615431 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
1 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
9615476 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
1 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
*
9615521 CAAAAGGTA
1 CGAAAGGTA
9615530 TTAATTAGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.27
Consensus pattern (45 bp):
CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
Found at i:9616586 original size:22 final size:21
Alignment explanation
Indices: 9616561--9616618 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
9616551 AAGTTGTATT
9616561 GTCTCGAGACAAATGAGTG-TAC
1 GTCTCGAGACAAA-GAG-GCTAC
*
9616583 GTCTCGAGACAAAGAGGCTTAT
1 GTCTCGAGACAAAGAGGC-TAC
9616605 GTCTCGAGACAAAG
1 GTCTCGAGACAAAG
9616619 TCCAATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 29 0.88
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (21 bp):
GTCTCGAGACAAAGAGGCTAC
Found at i:9620501 original size:21 final size:22
Alignment explanation
Indices: 9620477--9620519 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9620467 CAATTCTAAT
9620477 ATTATAA-TAGAAA-ATTTTTAA
1 ATTATAATTA-AAATATTTTTAA
9620498 ATTATAATTAAAATATTTTTAA
1 ATTATAATTAAAATATTTTTAA
9620520 CATCTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTATAATTAAAATATTTTTAA
Found at i:9623302 original size:2 final size:2
Alignment explanation
Indices: 9623297--9623332 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9623287 TTGAATTTTA
9623297 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
9623333 GCATCATTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9625275 original size:3 final size:3
Alignment explanation
Indices: 9625269--9625302 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
9625259 AGAAAAAGAA
* *
9625269 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAA GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
9625303 GTGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:9625283 original size:9 final size:9
Alignment explanation
Indices: 9625272--9625313 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
9625262 AAAAGAAGAT
*
9625272 GATGATGAT
1 GATGATGAA
9625281 GATGATGAA
1 GATGATGAA
9625290 GATGATGAA
1 GATGATGAA
*
9625299 GATGGTGAA
1 GATGATGAA
*
9625308 AATGAT
1 GATGAT
9625314 CAAGCGTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (9 bp):
GATGATGAA
Found at i:9626491 original size:4 final size:4
Alignment explanation
Indices: 9626482--9626529 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
9626472 GGATAGTTTA
* * *
9626482 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
9626530 TTCCGTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:9626810 original size:3 final size:3
Alignment explanation
Indices: 9626802--9626846 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
9626792 CTCCTCTGGT
*
9626802 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC GTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9626847 ATTTGTGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:9640982 original size:45 final size:46
Alignment explanation
Indices: 9640925--9641085 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 46
9640915 TGCCATAGTT
* * *
9640925 TCTTTCAACTATGGTCTTA-TTCGTTTGATTCGTGATGCGATAACA
1 TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
* * *
9640970 TCTTTCAGCTATGGTCTTACTCCG-TAGAATCGTGATGCCATAACG
1 TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
* * * * *
9641015 TCTTTCAGTTATGGTCATACTT-GATGGAGTCGTGATGCCATAACA
1 TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
* *
9641060 TCTTTCGGCTATTGTCTTAC-TCGTTT
1 TCTTTCAGCTATGGTCTTACTTCGTTT
9641086 CTAGTATGGT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
44 2 0.02
45 90 0.95
46 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (46 bp):
TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
Found at i:9644479 original size:12 final size:12
Alignment explanation
Indices: 9644461--9644490 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9644451 TAGGTTTCCA
9644461 AAAATGGAAATG
1 AAAATGGAAATG
*
9644473 GAAATGGAAATG
1 AAAATGGAAATG
9644485 AAAATG
1 AAAATG
9644491 AAGGAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:9653265 original size:37 final size:36
Alignment explanation
Indices: 9653215--9653290 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
9653205 ATTCTAAAAA
*
9653215 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTACTTTAATAGTATT-ATATT-AATTTAATAT
*
9653251 TAATACTTACTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTACTTTAATAGTATTATATTAATTTAATAT
9653288 TAA
1 TAA
9653291 AATGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTACTTTAATAGTATTATATTAATTTAATAT
Found at i:9653311 original size:68 final size:71
Alignment explanation
Indices: 9653233--9653370 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 71
9653223 TTTTAATAGT
*
9653233 TTAATATTAAATTTAATTTAATACTTA-CTT-TA-AT-AGTATTTTATTAATTTAATATTAAAAT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAG-ATTCTATTAATTTAATATTAAAAT
9653294 GATTATC
65 GATTATC
* ** *
9653301 TTAATGTTAAATTTAATTTAATGTTTATCTTGTAGATAAAGATTCTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGAT-AAGATTCTATTAATTTAATATTAAAAT
9653366 GATTA
65 GATTA
9653371 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
68 24 0.40
69 3 0.05
70 2 0.03
71 2 0.03
72 27 0.45
73 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (71 bp):
TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAGATTCTATTAATTTAATATTAAAATG
ATTATC
Found at i:9658651 original size:50 final size:50
Alignment explanation
Indices: 9658485--9658726 Score: 182
Period size: 50 Copynumber: 4.7 Consensus size: 50
9658475 GGGGATGAGA
* * * **
9658485 TCCCATGTAAGACCATGTCTAGGACATGGAATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA---TATGAGAAC
* * * * * * **
9658541 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATTAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAAC
** *
9658591 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAAC
* * * * * *
9658641 TCTCATGTAAGACCATATCTGGGATATGGCATTTGCAGT-ATAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAAC
* * *
9658689 ATCCCATGTAAGACCATGTTTGGGACATGACTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
9658727 TGTTATTATC
Statistics
Matches: 151, Mismatches: 34, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
48 3 0.02
49 35 0.23
50 79 0.52
53 3 0.02
56 31 0.21
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATATGAGAAC
Found at i:9660900 original size:17 final size:16
Alignment explanation
Indices: 9660874--9660905 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9660864 TGATAAATCT
9660874 TCGACGAGCTTCCAAA
1 TCGACGAGCTTCCAAA
9660890 TCGATCGAGCTTCCAA
1 TCGA-CGAGCTTCCAA
9660906 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (16 bp):
TCGACGAGCTTCCAAA
Found at i:9662154 original size:138 final size:137
Alignment explanation
Indices: 9661898--9662170 Score: 327
Period size: 138 Copynumber: 2.0 Consensus size: 137
9661888 GCCATAAATG
*
9661898 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAACTACACAATGCCACTCATACAAGATGACGAG
1 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAACTACACAATGCCACTCACACAAGATGACGAG
*** * *
9661963 TATCTGTAAAAAATGTCAGAACTCAACCATAGGTAGGACATTCAGGACTAGCACCCTG-AACATG
66 TATCCACAAAAAATGTCAGAACTCAACCATAGGTAGGACATTCAAGACCAGCACCC-GAAACATG
9662027 GTAACCTA
130 GTAACCTA
* * ** * *
9662035 GGTCTGCTCACACAAGCTGATGGTCGGAATGTAAGCTACACAATGCTGCTCACACAAGCTGATGA
1 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAA-CTACACAATGCCACTCACACAAGATGACGA
* * ** * *
9662100 GTATCCACAACAAATGTCGGGCCT-AAGCCATCA-GTAGGGCATTTAAGACCAGCACCCGAAACA
65 GTATCCACAAAAAATGTCAGAACTCAA-CCAT-AGGTAGGACATTCAAGACCAGCACCCGAAACA
9662163 TGGTAACC
128 TGGTAACC
9662171 CTAATGACTT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
137 35 0.31
138 78 0.68
139 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (137 bp):
GGTCTGCTCACACAAGCTAACGGTCGGAATGTAACTACACAATGCCACTCACACAAGATGACGAG
TATCCACAAAAAATGTCAGAACTCAACCATAGGTAGGACATTCAAGACCAGCACCCGAAACATGG
TAACCTA
Found at i:9662260 original size:38 final size:38
Alignment explanation
Indices: 9662209--9662287 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
9662199 ATTCCTAAGG
*
9662209 TTCAAACGGGGCTCGATAGTCATCGTACGTCCTTGGAT
1 TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
9662247 TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
1 TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
9662285 TTC
1 TTC
9662288 CATCATTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.30
Consensus pattern (38 bp):
TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
Found at i:9664679 original size:2 final size:2
Alignment explanation
Indices: 9664672--9664720 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9664662 TTCATCACTC
9664672 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
9664714 AT AT AT A
1 AT AT AT A
9664721 CTAAATCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9665241 original size:22 final size:22
Alignment explanation
Indices: 9665216--9665258 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9665206 AAATGCTAAT
* *
9665216 AGAGGCACCGTAGTGCAAATAC
1 AGAGGAACCGAAGTGCAAATAC
*
9665238 AGAGGAACTGAAGTGCAAATA
1 AGAGGAACCGAAGTGCAAATA
9665259 GTGGCACTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.28, T:0.14
Consensus pattern (22 bp):
AGAGGAACCGAAGTGCAAATAC
Found at i:9686990 original size:40 final size:40
Alignment explanation
Indices: 9686932--9687014 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
9686922 AAGATAATGT
*
9686932 TTAAACTTCGAACATTAAAATTTTACACTGAAATCTCACA
1 TTAAACTTCAAACATTAAAATTTTACACTGAAATCTCACA
* * *
9686972 TTAAACTTCAAACGTTAAAATTTTACATTGAAGTCTCACA
1 TTAAACTTCAAACATTAAAATTTTACACTGAAATCTCACA
9687012 TTA
1 TTA
9687015 CCCGAGAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (40 bp):
TTAAACTTCAAACATTAAAATTTTACACTGAAATCTCACA
Found at i:9709022 original size:26 final size:26
Alignment explanation
Indices: 9708991--9709040 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9708981 AATAAAGTGC
9708991 AGAAAATCAGAA-AGGATGAGAGAAAA
1 AGAAAAT-AGAAGAGGATGAGAGAAAA
*
9709017 AGAAAATAGAAGGGGATGAGAGAA
1 AGAAAATAGAAGAGGATGAGAGAA
9709041 TTGAAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.32, T:0.08
Consensus pattern (26 bp):
AGAAAATAGAAGAGGATGAGAGAAAA
Found at i:9716199 original size:32 final size:31
Alignment explanation
Indices: 9716130--9716419 Score: 181
Period size: 32 Copynumber: 9.2 Consensus size: 31
9716120 TAAATTTAAA
* * *
9716130 TGTATATGTTTTATATATTGACGAATTTG-AT
1 TGTATATATGTTATATATTGCCGAA-TTGAAT
*
9716161 T-CATATATGGTTATATATTGCCGAATTGAAT
1 TGTATATAT-GTTATATATTGCCGAATTGAAT
*
9716192 TGTATATAT-ATACTTATATTGCCGAATTGAAT
1 TGTATATATGTTA--TATATTGCCGAATTGAAT
* * *
9716224 TG--TATAGGTATACACCTATTGTCGAA-TGAAT
1 TGTATATATGT-TATA--TATTGCCGAATTGAAT
*
9716255 TGTATATAT-ATACTTATATTGCCGAATTGAAT
1 TGTATATATGTTA--TATATTGCCGAATTGAAT
* *
9716287 TG--TATAGGTATACACCTATTGCCGAATTGAAT
1 TGTATATATGT-TATA--TATTGCCGAATTGAAT
* *
9716319 TGTATATATATATTTATATTGCCGAATTGAAT
1 TGTATATATGT-TATATATTGCCGAATTGAAT
* *
9716351 TG--TATAGGTATACACTTATTGCCGAATTGAAT
1 TGTATATATGT-TATA--TATTGCCGAATTGAAT
* *
9716383 TGTGTATAT-ATACTTATATTGCCGAATTGAAT
1 TGTATATATGTTA--TATATTGCCGAATTGAAT
9716415 TGTAT
1 TGTAT
9716420 GGTATACACC
Statistics
Matches: 204, Mismatches: 29, Indels: 51
0.72 0.10 0.18
Matches are distributed among these distances:
30 28 0.14
31 36 0.18
32 122 0.60
33 5 0.02
34 13 0.06
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
TGTATATATGTTATATATTGCCGAATTGAAT
Found at i:9716250 original size:64 final size:64
Alignment explanation
Indices: 9716176--9716452 Score: 495
Period size: 64 Copynumber: 4.4 Consensus size: 64
9716166 TATGGTTATA
9716176 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
9716240 TATTGTCGAA-TGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* *
9716303 TATTGCCGAATTGAATTGTATATATATATTTATATTGCCGAATTGAATTGTATAGGTATACACT
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
9716367 TATTGCCGAATTGAATTGTGTATATATACTTATATTGCCGAATTGAATTGTAT-GGTATACACC
1 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
9716430 TATTGCCAAATTGAATTGTATAT
1 TATTGCCGAATTGAATTGTATAT
9716453 GTATTTATAT
Statistics
Matches: 203, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
63 92 0.45
64 111 0.55
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (64 bp):
TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
Found at i:9716464 original size:127 final size:127
Alignment explanation
Indices: 9716176--9716465 Score: 494
Period size: 127 Copynumber: 2.3 Consensus size: 127
9716166 TATGGTTATA
*
9716176 TATTGCCGAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACCT
1 TATTGCCGAATTGAATTGTATATATATATTTATATTGCCGAATTGAATTGTATAGGTATACACCT
*
9716241 ATTGTCGAATGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
66 ATTGCCGAATGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
*
9716303 TATTGCCGAATTGAATTGTATATATATATTTATATTGCCGAATTGAATTGTATAGGTATACACTT
1 TATTGCCGAATTGAATTGTATATATATATTTATATTGCCGAATTGAATTGTATAGGTATACACCT
*
9716368 ATTGCCGAATTGAATTGTGTATATATACTTATATTGCCGAATTGAATTGTAT-GGTATACACC
66 ATTGCCGAA-TGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
* *
9716430 TATTGCCAAATTGAATTGTATATGTAT-TTATATATT
1 TATTGCCGAATTGAATTGTATATATATATT-TATATT
9716466 TTTGATTTGA
Statistics
Matches: 155, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
126 2 0.01
127 112 0.72
128 41 0.26
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (127 bp):
TATTGCCGAATTGAATTGTATATATATATTTATATTGCCGAATTGAATTGTATAGGTATACACCT
ATTGCCGAATGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
Found at i:9716650 original size:43 final size:43
Alignment explanation
Indices: 9716602--9716718 Score: 132
Period size: 41 Copynumber: 2.8 Consensus size: 43
9716592 GGTGTAATTT
9716602 CGTGTAAGACCATGTCTGGGACATTGGCATCAAAGTG-AGGAAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATC-AAGTGTAGGAAA
* * * **
9716645 CGTGTAAGACTATGTCTGGGACATTAGCATC--GTGTATGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAAGTGTAGGAAA
* * *
9716686 CGTATAATACCATGTCTGGGACAGTGGCATCAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAA
9716719 TATGTGTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 3 0.05
41 29 0.48
43 29 0.48
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCAAGTGTAGGAAA
Found at i:9719460 original size:57 final size:57
Alignment explanation
Indices: 9719353--9719496 Score: 211
Period size: 57 Copynumber: 2.5 Consensus size: 57
9719343 CAAACTACAT
* * *
9719353 AGAATATTTACTGTTCA-TGCGTC-TTTCTTGCAGGGAATATTTACTGTTTACGCCAA
1 AGAATATTTCCTGTTCACT-TGTCTTTTCTTGCAGGGAATATTTACTATTTACGCCAA
* *
9719409 AGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATGTTTACTATTTACGCCAG
1 AGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTATTTACGCCAA
*
9719466 AGAATATTTCCTATTCACTTGTCTTTTCTTG
1 AGAATATTTCCTGTTCACTTGTCTTTTCTTG
9719497 TATCATCTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
56 19 0.24
57 61 0.76
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (57 bp):
AGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTATTTACGCCAA
Found at i:9726027 original size:44 final size:44
Alignment explanation
Indices: 9725979--9726067 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
9725969 AAAATTGATC
9725979 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
1 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
9726023 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
1 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
9726067 A
1 A
9726068 CTTGTACAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (44 bp):
AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
Found at i:9729493 original size:3 final size:3
Alignment explanation
Indices: 9729485--9729534 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
9729475 CTTAACAGAG
9729485 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9729533 AA
1 AA
9729535 AAGAGACTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9729622 original size:3 final size:3
Alignment explanation
Indices: 9729614--9729641 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9729604 ATGTCTTTGC
9729614 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
9729642 GGCTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:9735679 original size:34 final size:34
Alignment explanation
Indices: 9735621--9735686 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 34
9735611 CAAACACTAG
9735621 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATTATTTTAC-GAAAAGT
9735656 AAAATATTTTCTC-G-AAATTATTTTACGAAAA
1 AAAATATTTTC-CAGTAAATTATTTTACGAAAA
9735687 ATATTTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 12 0.40
36 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATTATTTTACGAAAAGT
Found at i:9739532 original size:49 final size:49
Alignment explanation
Indices: 9739460--9739567 Score: 189
Period size: 49 Copynumber: 2.2 Consensus size: 49
9739450 GATTGGTGTT
* *
9739460 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCGAACCGTTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAACCATTTAATTA
*
9739509 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAACCATTTAATTA
9739558 CCTTTCCAGT
1 CCTTTCCAGT
9739568 TTCCATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (49 bp):
CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAACCATTTAATTA
Found at i:9747230 original size:10 final size:10
Alignment explanation
Indices: 9747211--9747242 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
9747201 ATTCTAAATT
*
9747211 TTTTAAATAA
1 TTTTATATAA
9747221 TTTTATATAA
1 TTTTATATAA
9747231 TTTTATATAA
1 TTTTATATAA
9747241 TT
1 TT
9747243 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTATATAA
Found at i:9748015 original size:22 final size:22
Alignment explanation
Indices: 9747982--9748027 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9747972 CAACTGTTAA
*
9747982 ATATATACAATATTTTAGATTG
1 ATATATACAATATATTAGATTG
*
9748004 ATATGATA-AATATATTGGATTG
1 ATAT-ATACAATATATTAGATTG
9748026 AT
1 AT
9748028 TCAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (22 bp):
ATATATACAATATATTAGATTG
Found at i:9749172 original size:16 final size:17
Alignment explanation
Indices: 9749153--9749190 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9749143 TGTTATAAAA
*
9749153 ATATTACAT-TAATTAT
1 ATATTAAATATAATTAT
9749169 ATATTAAATAATAATTAT
1 ATATTAAAT-ATAATTAT
9749187 ATAT
1 ATAT
9749191 ATTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAATATAATTAT
Found at i:9749353 original size:39 final size:37
Alignment explanation
Indices: 9749308--9749386 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
9749298 AAAAATTATA
* *
9749308 TTTAATACAATAAAAATATTTATTATATTTATTTGTGTT
1 TTTAATACAAT-AAAACATTTATTATATTTA-TGGTGTT
* *
9749347 TTTAATATAATAAGACATTTATTATATTTATGGTGTT
1 TTTAATACAATAAAACATTTATTATATTTATGGTGTT
9749384 TTT
1 TTT
9749387 TTAATGTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 9 0.25
38 17 0.47
39 10 0.28
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (37 bp):
TTTAATACAATAAAACATTTATTATATTTATGGTGTT
Found at i:9752029 original size:8 final size:8
Alignment explanation
Indices: 9751984--9752027 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
9751974 AATTATAAAG
9751984 TATATTAT
1 TATATTAT
9751992 TATATTAT
1 TATATTAT
9752000 TATATTAAT
1 TATATT-AT
9752009 TATATTA-
1 TATATTAT
9752016 TAT-TT-T
1 TATATTAT
9752022 TATATT
1 TATATT
9752028 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 5 0.15
7 5 0.15
8 15 0.45
9 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATTAT
Found at i:9755177 original size:9 final size:9
Alignment explanation
Indices: 9755163--9755202 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
9755153 GTAGTGATTC
9755163 AATTCGGTT
1 AATTCGGTT
*
9755172 AATTCGGGT
1 AATTCGGTT
9755181 AATTCGGTT
1 AATTCGGTT
9755190 AATTCGGTT
1 AATTCGGTT
9755199 AATT
1 AATT
9755203 TTTAACTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9759721 original size:46 final size:46
Alignment explanation
Indices: 9759657--9760075 Score: 567
Period size: 46 Copynumber: 9.6 Consensus size: 46
9759647 TTTGAGTACT
* *
9759657 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
9759703 TCTCATCAAGTGACAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
9759739 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
9759785 TCTGATCAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
9759821 TCTGATCAAGTGACAAAGTGATAAGTGTTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
9759867 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACAC-TA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
9759912 TTTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
9759958 TCTGATCAAGTGACAAACTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
9760004 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAAACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
9760050 TCTGATCAAGTGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
9760076 ATCATACGTA
Statistics
Matches: 338, Mismatches: 14, Indels: 43
0.86 0.04 0.11
Matches are distributed among these distances:
36 61 0.18
37 5 0.01
40 4 0.01
42 4 0.01
45 61 0.18
46 203 0.60
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:9759734 original size:36 final size:36
Alignment explanation
Indices: 9759693--9759893 Score: 195
Period size: 36 Copynumber: 5.0 Consensus size: 36
9759683 GGTAGCTTTA
*
9759693 GCTACACTTATCTCATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
9759729 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
9759774 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
9759811 ACTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGTTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
9759856 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
9759893 G
1 G
9759894 TTAGCTTTAG
Statistics
Matches: 140, Mismatches: 5, Indels: 40
0.76 0.03 0.22
Matches are distributed among these distances:
36 62 0.44
37 4 0.03
40 4 0.03
42 4 0.03
45 4 0.03
46 62 0.44
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:9759794 original size:82 final size:82
Alignment explanation
Indices: 9759657--9760075 Score: 543
Period size: 82 Copynumber: 4.9 Consensus size: 82
9759647 TTTGAGTACT
* * *
9759657 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTCATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
9759722 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
9759739 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
9759804 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
* *
9759821 TCTGATCAAGTGACAAAGTGATAAGTGTTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
9759886 GATAAGTGTTAGCTTTAGCTACACTA
66 GATAA--G-T-GC--TA-C-AC-TTA
* * *
9759912 TTTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAACT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
9759977 GATAAGTGGTAGCCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* *
9760004 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAAACTTATCTGATCAAGTGAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
9760068 GATAAGTG
66 GATAAGTG
9760076 ATCATACGTA
Statistics
Matches: 303, Mismatches: 17, Indels: 35
0.85 0.05 0.10
Matches are distributed among these distances:
81 1 0.00
82 147 0.49
84 1 0.00
85 3 0.01
86 1 0.00
88 2 0.01
89 1 0.00
90 3 0.01
91 73 0.24
92 59 0.19
93 2 0.01
94 1 0.00
95 3 0.01
97 6 0.02
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:9759923 original size:91 final size:92
Alignment explanation
Indices: 9759812--9760075 Score: 442
Period size: 91 Copynumber: 2.9 Consensus size: 92
9759802 GTGATAAGTA
*
9759812 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGTTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAG
* *
9759877 TGACAAAGTGATAAGTGTTAGCTTTAG
66 TGACAAAGTGATAAGTGGTAGCCTTAG
*
9759904 CTACAC-TATTTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAG
*
9759968 TGACAAACTGATAAGTGGTAGCCTTAG
66 TGACAAAGTGATAAGTGGTAGCCTTAG
* * *
9759995 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAAACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAG
9760060 TGAC-AAGTGATAAGTG
66 TGACAAAGTGATAAGTG
9760076 ATCATACGTA
Statistics
Matches: 161, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
91 97 0.60
92 64 0.40
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (92 bp):
CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAG
TGACAAAGTGATAAGTGGTAGCCTTAG
Found at i:9760068 original size:137 final size:132
Alignment explanation
Indices: 9759729--9760076 Score: 519
Period size: 137 Copynumber: 2.6 Consensus size: 132
9759719 AGTGATAAGT
*
9759729 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
* * **
9759794 GTGACAAAGTGAT-A---AGTACTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGTTT
66 GTGACAAAGTGATAAGTGAGTACTACACTTATCTGATCAAGTGACAAACTGATAAGTGGTAGCCT
9759855 TA
131 TA
* *
9759857 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACAC-TATTTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
9759921 GTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAACTGATAAGTGG
66 GTGACAAAGTGATAAGTG--AG---TA-CTACACTTATCTGATCAAGTGACAAACTGATAAGTGG
9759986 TAGCCTTA
125 TAGCCTTA
* *
9759994 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAAACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
9760059 GTGAC-AAGTGATAAGTGA
66 GTGACAAAGTGATAAGTGA
9760077 TCATACGTAA
Statistics
Matches: 198, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
127 23 0.12
128 52 0.26
133 2 0.01
135 1 0.01
136 2 0.01
137 103 0.52
138 15 0.08
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (132 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
GTGACAAAGTGATAAGTGAGTACTACACTTATCTGATCAAGTGACAAACTGATAAGTGGTAGCCT
TA
Found at i:9762080 original size:17 final size:17
Alignment explanation
Indices: 9762058--9762091 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9762048 CCTTAGAAGA
9762058 ATGTATTTAAGATCAAT
1 ATGTATTTAAGATCAAT
9762075 ATGTATTTAAGATCAAT
1 ATGTATTTAAGATCAAT
9762092 TTTGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
ATGTATTTAAGATCAAT
Found at i:9763759 original size:22 final size:22
Alignment explanation
Indices: 9763734--9763779 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9763724 GATAGATAAT
9763734 GAATGTTTGAAGTGCTAATTAC
1 GAATGTTTGAAGTGCTAATTAC
9763756 GAATGTTTGAAGTGCTAATTAC
1 GAATGTTTGAAGTGCTAATTAC
9763778 GA
1 GA
9763780 GTTTTACTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (22 bp):
GAATGTTTGAAGTGCTAATTAC
Found at i:9764230 original size:18 final size:17
Alignment explanation
Indices: 9764197--9764235 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9764187 TTTTATAAAT
9764197 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9764215 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9764232 TGTG
1 TGTG
9764236 GAAGGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9764365 original size:8 final size:8
Alignment explanation
Indices: 9764352--9764380 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9764342 CACTAAAGAC
9764352 CAGTGTTA
1 CAGTGTTA
9764360 CAGTGTTA
1 CAGTGTTA
9764368 CAGTGTTA
1 CAGTGTTA
9764376 CAGTG
1 CAGTG
9764381 AGTCTCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9764494 original size:23 final size:23
Alignment explanation
Indices: 9764468--9764588 Score: 158
Period size: 23 Copynumber: 5.3 Consensus size: 23
9764458 GTGTTATTGA
9764468 TCAGTGGTAGCTTCGGCTACAAT
1 TCAGTGGTAGCTTCGGCTACAAT
*
9764491 TCAGTGGTAGCTACGGCTACATAT
1 TCAGTGGTAGCTTCGGCTACA-AT
*
9764515 T-AGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACAAT
*
9764537 TCAGTGGTAGCTACGGCTAC-AT
1 TCAGTGGTAGCTTCGGCTACAAT
*
9764559 ATCAGTTGTAGCTTCGGCTAC-AT
1 -TCAGTGGTAGCTTCGGCTACAAT
9764582 ATCAGTG
1 -TCAGTG
9764589 TGGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
22 3 0.03
23 81 0.93
24 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACAAT
Found at i:9764523 original size:46 final size:46
Alignment explanation
Indices: 9764467--9764588 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
9764457 AGTGTTATTG
9764467 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
* *
9764513 ATTAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
*
9764559 ATCAGTTGTAGCTTCGGCTAC-ATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACAAT-TCAGTG
9764589 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.01
46 69 0.99
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACAATTCAGTGGTAGCTACGGCTACAT
Found at i:9769280 original size:23 final size:22
Alignment explanation
Indices: 9769237--9769332 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 22
9769227 AAAAAGTATC
* *
9769237 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9769258 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9769281 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
9769300 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
9769319 TACATATCATATCT
1 TACAAATCATATCT
9769333 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
19 37 0.57
21 3 0.05
22 15 0.23
23 10 0.15
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9769297 original size:19 final size:19
Alignment explanation
Indices: 9769273--9769345 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
9769263 AATCATATCT
9769273 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9769292 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
9769311 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
9769330 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
9769346 CTGGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9773044 original size:45 final size:45
Alignment explanation
Indices: 9772995--9773165 Score: 184
Period size: 45 Copynumber: 3.8 Consensus size: 45
9772985 ACCAGAAATA
* * *
9772995 AGTAAGACCATAACTGAAAGACGTTATGGCATCATGATTTTAAT-G
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCT-ATCG
9773040 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG
* * * * * *
9773085 AGTAAGAACATAGCT-AAACGACGCTATGACATCACGAATCAAACG
1 AGTAAGACCATAGCTGAAA-GACGTTATGGCATCACGATTCTATCG
* * ** *
9773130 AATAAGACCATAGTTGAAAGACACTATGGCAACACG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACG
9773166 GCAAAAAATG
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
44 5 0.05
45 100 0.93
46 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG
Found at i:9773240 original size:45 final size:46
Alignment explanation
Indices: 9773130--9773251 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 46
9773120 GAATCAAACG
* *
9773130 AATAAGACCATAGTTGAAAGACACTATGGCAACACGGCAAAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACAAGGCAAAAAATA
* * * *
9773176 AATAAGACCATGGTTGAAAGACACTATGGCATCAAGTC-AAGAATA
1 AATAAGACCATAGTTGAAAGACACTATGGCAACAAGGCAAAAAATA
* * *
9773221 AATAAGGCCACAGTTGAAAGACACCATGGCA
1 AATAAGACCATAGTTGAAAGACACTATGGCA
9773252 CCCTCCGATC
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 32 0.48
46 34 0.52
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (46 bp):
AATAAGACCATAGTTGAAAGACACTATGGCAACAAGGCAAAAAATA
Found at i:9774885 original size:20 final size:20
Alignment explanation
Indices: 9774846--9774885 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9774836 GCATAATTGT
*
9774846 TTCTGTTTTGATGTTGAATG
1 TTCTGTTTTGATGGTGAATG
9774866 TTCTGTTTTGTATGGT-AATG
1 TTCTGTTTTG-ATGGTGAATG
9774886 CTCCATAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.15, C:0.05, G:0.25, T:0.55
Consensus pattern (20 bp):
TTCTGTTTTGATGGTGAATG
Found at i:9788587 original size:20 final size:20
Alignment explanation
Indices: 9788562--9788601 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9788552 AATCCCTATC
9788562 AGCGTCTCTTTCTCTCCTTA
1 AGCGTCTCTTTCTCTCCTTA
9788582 AGCGTCTCTTTCTCTCCTTA
1 AGCGTCTCTTTCTCTCCTTA
9788602 GGTTTCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.35, G:0.10, T:0.45
Consensus pattern (20 bp):
AGCGTCTCTTTCTCTCCTTA
Found at i:9796082 original size:27 final size:26
Alignment explanation
Indices: 9796052--9796125 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
9796042 GTGTCCCAAC
9796052 GGACTACCCTACTTTTAATGTCACGT
1 GGACTACCCTACTTTTAATGTCACGT
* * *
9796078 AGGACTATCCC-GCTTTTAATATCCCGT
1 -GGACTA-CCCTACTTTTAATGTCACGT
** *
9796105 GGACTATTCTTCTTTTAATGT
1 GGACTACCCTACTTTTAATGT
9796126 TCCGATAGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 15 0.39
27 19 0.50
28 3 0.08
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (26 bp):
GGACTACCCTACTTTTAATGTCACGT
Found at i:9804093 original size:57 final size:61
Alignment explanation
Indices: 9804019--9804166 Score: 198
Period size: 57 Copynumber: 2.5 Consensus size: 61
9804009 ACCCTAATTC
* * *
9804019 GGATTACCCGTCCGGGCTAAATCCATTTTC-CACATATTCTTCAGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCACACATATTCTTCAGGAGGGCTATATCGATA
* *
9804077 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTCTATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCACACATATTCTTCAGGAGGGCTATATC--GATA
9804138 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
9804167 ACCGTCAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.08
57 43 0.55
60 1 0.01
61 1 0.01
62 21 0.27
63 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (61 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCACACATATTCTTCAGGAGGGCTATATCGATA
Found at i:9807355 original size:49 final size:49
Alignment explanation
Indices: 9807299--9807445 Score: 215
Period size: 49 Copynumber: 3.0 Consensus size: 49
9807289 TTTATTTTCT
*
9807299 CGATGCCATAGTCCAACTATGGTCTTACAC-GTAATCACATATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACAG-AATCACATATCACATAC
*
9807348 CGATGCCATAGCCCAACTATGGTCTTACACAGAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACAGAATCACATATCACATAC
* * *
9807397 TGATGCCATAGCCCAGCTATGGTCTTACACGGAAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACAG-AATCACAT-ATCACAT
9807446 TTTCACATGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
49 74 0.83
50 9 0.10
51 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.25
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACAGAATCACATATCACATAC
Found at i:9809271 original size:56 final size:57
Alignment explanation
Indices: 9809206--9809313 Score: 182
Period size: 57 Copynumber: 1.9 Consensus size: 57
9809196 CGAATTACCT
9809206 ATCCGGGCTAAACCATTTTC-CACATATTCTTCGGGAGGGCTATATCAAGATCACCC
1 ATCCGGGCTAAACCATTTTCACACATATTCTTCGGGAGGGCTATATCAAGATCACCC
* * *
9809262 ATCCGGGCTAGATCTTTTTCACACATATTCTTCGGGAGGGCTATATCAAGAT
1 ATCCGGGCTAAACCATTTTCACACATATTCTTCGGGAGGGCTATATCAAGAT
9809314 AGGATCACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 17 0.35
57 31 0.65
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (57 bp):
ATCCGGGCTAAACCATTTTCACACATATTCTTCGGGAGGGCTATATCAAGATCACCC
Found at i:9811676 original size:31 final size:30
Alignment explanation
Indices: 9811641--9811700 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
9811631 GGAGGTGGGA
*
9811641 TGGGAAGGAAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGGAAATAAAAATTTTAGGGGAAAAG
* * *
9811672 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGGAAATAAAAATTTTAGGGGAAAA
9811701 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGGAAATAAAAATTTTAGGGGAAAAG
Found at i:9817376 original size:23 final size:23
Alignment explanation
Indices: 9817348--9817391 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9817338 TAATACCGTT
9817348 TAATAA-TGGTAACAATAGTAAAA
1 TAATAAGTGG-AACAATAGTAAAA
*
9817371 TAATAAGTGGAACATTAGTAA
1 TAATAAGTGGAACAATAGTAA
9817392 TAACCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (23 bp):
TAATAAGTGGAACAATAGTAAAA
Found at i:9828207 original size:20 final size:20
Alignment explanation
Indices: 9828169--9828217 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9828159 TATCATTTCT
* *
9828169 TTGCTT-CTTCTTTAGTTAC
1 TTGCTTACTTGTTTACTTAC
9828188 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
9828208 TTGCTTACTT
1 TTGCTTACTT
9828218 AAATAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.12, C:0.22, G:0.08, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:9828543 original size:50 final size:50
Alignment explanation
Indices: 9828419--9828660 Score: 188
Period size: 50 Copynumber: 4.7 Consensus size: 50
9828409 GAAAAAAACT
* * *
9828419 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACG-TTTCATAT-CGG
* * * *
9828468 CGCTAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTT-TCATATCGG
* * * *
9828518 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTTTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACGTTTCATATCGG
* * * * * **
9828568 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGAACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTTCAT-A--TC---GG
*
9828624 TGCCAATGCCATGTCCCAGACATGATCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
9828661 TCTCATTCCC
Statistics
Matches: 153, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
47 2 0.01
48 4 0.03
49 37 0.24
50 71 0.46
51 4 0.03
53 2 0.01
56 33 0.22
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTTCATATCGG
Found at i:9830386 original size:16 final size:16
Alignment explanation
Indices: 9830365--9830395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9830355 TAGGTTAGAT
9830365 TTTCTTTCTCTTTTCC
1 TTTCTTTCTCTTTTCC
*
9830381 TTTCTTTTTCTTTTC
1 TTTCTTTCTCTTTTC
9830396 ATTTTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCTCTTTTCC
Found at i:9835925 original size:16 final size:16
Alignment explanation
Indices: 9835904--9835934 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9835894 CTTGTTTTAT
9835904 TATTATAATAATATAA
1 TATTATAATAATATAA
9835920 TATTATAATAATATA
1 TATTATAATAATATA
9835935 CTATAACAAT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTATAATAATATAA
Found at i:9837974 original size:217 final size:217
Alignment explanation
Indices: 9837598--9838033 Score: 721
Period size: 217 Copynumber: 2.0 Consensus size: 217
9837588 CACCACAATA
* * * *
9837598 CTCTATCGCCAAAAATAGAACTAGAAGAGAGATTAAACCTCTAAAGAAGTATGTCGAAGCTGATC
1 CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
*
9837663 TAGTTGCTTATACTTTAAATGTGGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
66 TAGTTGCTTATACTTTAAATGTAGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
* *
9837728 AAGGCAATTAGTTGTGAAGACTTAGAAAAGTAGATATTTGCTATGCAAGAGGAGATGGAATCACT
131 AAGGCAATTAGCTGTGAAGACTCAGAAAAGTAGATATTTGCTATGCAAGAGGAGATGGAATCACT
9837793 CCACAAAAATC-GAACATGGGAT
196 CCACAAAAA-CAGAACATGGGAT
* *
9837815 CTCTATCGCCAAAAGCAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGTTGATC
1 CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
* *
9837880 TAGTTGCTTATGCTTTAAATGTAGCTGAAGATATAGATGCAAACCAAGAGCCATCTAATTATTCT
66 TAGTTGCTTATACTTTAAATGTAGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
* * * *
9837945 AAGGCGATTAGCTGTGAAGACTCAGAAAAGTGGATATTTTCTATGCAAGAGGAGATGGAATCATT
131 AAGGCAATTAGCTGTGAAGACTCAGAAAAGTAGATATTTGCTATGCAAGAGGAGATGGAATCACT
9838010 CCACAAAAACAGAACATGGGAT
196 CCACAAAAACAGAACATGGGAT
9838032 CT
1 CT
9838034 TGTGAAACTT
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 202 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (217 bp):
CTCTATCGCCAAAAACAAAACTAGAAGAGAGATTAAACCTCCAAAGAAGTATGTCAAAGCTGATC
TAGTTGCTTATACTTTAAATGTAGCTGAAGATATAGATACAAACCAAGAGCCATCTAATTATTCT
AAGGCAATTAGCTGTGAAGACTCAGAAAAGTAGATATTTGCTATGCAAGAGGAGATGGAATCACT
CCACAAAAACAGAACATGGGAT
Found at i:9844815 original size:21 final size:21
Alignment explanation
Indices: 9844785--9844825 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9844775 GCCTAAAACC
* *
9844785 TAGAACCCCAGACCCTAAATT
1 TAGAACCCCAAACCCAAAATT
*
9844806 TAGAATCCCAAACCCAAAAT
1 TAGAACCCCAAACCCAAAAT
9844826 CCAATAGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.32, G:0.07, T:0.17
Consensus pattern (21 bp):
TAGAACCCCAAACCCAAAATT
Found at i:9847454 original size:18 final size:18
Alignment explanation
Indices: 9847431--9847479 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9847421 TTTCGGGTAA
9847431 AACCGAATTAATTCGGTT
1 AACCGAATTAATTCGGTT
***
9847449 AACCGACCGAATTCGGTT
1 AACCGAATTAATTCGGTT
*
9847467 AACCAAATTAATT
1 AACCGAATTAATT
9847480 TGGTCAGGGG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
AACCGAATTAATTCGGTT
Found at i:9852482 original size:24 final size:23
Alignment explanation
Indices: 9852439--9852490 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
9852429 TGAGATATAT
* *
9852439 AATTTATATTTACTTAATACTTA
1 AATTTATATTTAATTAATACCTA
* *
9852462 ATATTTTTATTTAATTGATACCTA
1 A-ATTTATATTTAATTAATACCTA
9852486 AATTT
1 AATTT
9852491 GAAAACAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTTATATTTAATTAATACCTA
Found at i:9855110 original size:98 final size:98
Alignment explanation
Indices: 9854941--9855137 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
9854931 GTGCAATAAA
9854941 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATT
9855006 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
9855039 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATT
9855104 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
9855137 A
1 A
9855138 TTATTTTTAG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:9857414 original size:132 final size:132
Alignment explanation
Indices: 9857177--9857662 Score: 794
Period size: 132 Copynumber: 3.7 Consensus size: 132
9857167 CTTGTAGCTT
* * *
9857177 CACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTTAATCTGTTTCCCACTATCTTGGAAAGATAA
1 CACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAA
* * *
9857242 GATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTC
66 GATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTC
9857307 TC
131 TC
* *
9857309 CACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAATATAA
1 CACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAA
* * *
9857374 GATTCATCGTCTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTC
66 GATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTC
9857439 -C
131 TC
*
9857440 CAGCTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATA
1 CA-CTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATA
* * *
9857505 AGATTCGCTGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTT
65 AGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTT
9857570 CTC
130 CTC
* * *
9857573 CGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTTCTTCCCACTATCTTGGAAAGATAA
1 CACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAA
9857638 GATTCACCGTCTTCGATCTGCTCCA
66 GATTCACCGTCTTCGATCTGCTCCA
9857663 TTGCAATTTC
Statistics
Matches: 325, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 3 0.01
132 320 0.98
133 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
CACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAA
GATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTC
TC
Found at i:9875595 original size:26 final size:26
Alignment explanation
Indices: 9875556--9875646 Score: 121
Period size: 26 Copynumber: 3.5 Consensus size: 26
9875546 TGGTTATCCG
9875556 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
*
9875581 GAGCTTCCTGTTTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* * * *
9875607 GAGCTTCCTAATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
*
9875633 GAACTTCCTGATTA
1 GAGCTTCCTGATTA
9875647 TGGCTATTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 4 0.07
26 53 0.93
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTCGT
Found at i:9882386 original size:18 final size:18
Alignment explanation
Indices: 9882340--9882386 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
9882330 CTTTTTTTTA
*
9882340 TTTCTTTC-TTTTTCTCT
1 TTTCTTTCATTTTTCTCG
*
9882357 TTTCTTTTATTTTTCTTCG
1 TTTCTTTCATTTTTC-TCG
9882376 TTT-TTTCATTT
1 TTTCTTTCATTT
9882387 ACTAGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.28
18 13 0.52
19 5 0.20
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTCTTTCATTTTTCTCG
Found at i:9899146 original size:45 final size:45
Alignment explanation
Indices: 9899082--9899175 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
9899072 AACAGATACT
* *
9899082 CGGTGGATTCAGCACATAGCAACCACCTTATTAACCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAACCAATGATGTC
** *
9899127 CGGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAACCAATGATGTC
9899172 CGGT
1 CGGT
9899176 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAACCAATGATGTC
Found at i:9899259 original size:51 final size:50
Alignment explanation
Indices: 9899181--9899366 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 50
9899171 TCGGTTCACA
* * *
9899181 TAGTAGCCTGCACAAAGTACTATACATGTAACCATTATCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCA-TATCATCCGATACACG
* * * * * * *
9899232 TAGTAGCTTGTACATAGTACTACACATGTGATCGA-AACTATCCGGA-ACCCA
1 TAGTAGCCTGCACATAGTACTACACATGT-AACCATATC-ATCC-GATACACG
* * ** *
9899283 CAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTAACCATATCA-TCCGATACACG
*
9899333 TAGTAGCCTGCACATAGTACTACACACGTAACCA
1 TAGTAGCCTGCACATAGTACTACACATGTAACCA
9899367 CCAGTTCCAC
Statistics
Matches: 103, Mismatches: 25, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
49 2 0.02
50 39 0.38
51 57 0.55
52 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTAACCATATCATCCGATACACG
Found at i:9904787 original size:23 final size:22
Alignment explanation
Indices: 9904744--9904787 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
9904734 TTCTAAGTCG
9904744 ATATTCAATTCAATTCCACACCA
1 ATATTCAATTCAATT-CACACCA
9904767 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
9904788 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCA
Found at i:9904944 original size:51 final size:51
Alignment explanation
Indices: 9904877--9905072 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 51
9904867 TAATGATGTT
* * * *
9904877 CGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * ** *
9904928 CGTTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * * * *
9904979 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TC
* *
9905029 CGGTACATGTAGTGGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
9905073 CACTTTCACT
Statistics
Matches: 118, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 78 0.66
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
Found at i:9905066 original size:101 final size:101
Alignment explanation
Indices: 9904884--9905068 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
9904874 GTTCGGTTCA
* * *
9904884 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTACCATCCGTTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGGTACACGTAGTAGCCTGCA
9904949 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * *
9904986 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAGTGGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGGTACACGTAGTAGCCTGCA
9905050 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
9905069 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:9908424 original size:50 final size:50
Alignment explanation
Indices: 9908349--9908591 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
9908339 ATTTGGGTAA
*
9908349 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* *
9908399 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* *
9908449 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
9908499 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** *
9908549 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
9908592 TGTTATTATC
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 141 0.81
51 34 0.19
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:9908845 original size:45 final size:46
Alignment explanation
Indices: 9908781--9908873 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
9908771 TAAGTTATGT
9908781 ACACAAGTATTCTAAGTAAACAAGC-AGAGAACTAGTATGAGATTA
1 ACACAAGTATTCTAAGTAAACAAGCAAGAGAACTAGTATGAGATTA
9908826 ACACAAGTATTCTAAGTAAACAAGCAAGAGAACTAGTATGAGATTA
1 ACACAAGTATTCTAAGTAAACAAGCAAGAGAACTAGTATGAGATTA
9908872 AC
1 AC
9908874 TAAAGAGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 25 0.53
46 22 0.47
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (46 bp):
ACACAAGTATTCTAAGTAAACAAGCAAGAGAACTAGTATGAGATTA
Found at i:9910501 original size:45 final size:45
Alignment explanation
Indices: 9910436--9910525 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
9910426 GGAAACCTTG
* * *
9910436 ACTCTTTGAGTGCCATGAAACTGGTAGATCAATCTCCATCGATTA
1 ACTCTTTGAGTGCCACGAAACTAGCAGATCAATCTCCATCGATTA
*
9910481 ACTCTTTGAGTGCCACGAAACTAGCAGATTAATCTCCATCGATTA
1 ACTCTTTGAGTGCCACGAAACTAGCAGATCAATCTCCATCGATTA
9910526 TCAATATTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (45 bp):
ACTCTTTGAGTGCCACGAAACTAGCAGATCAATCTCCATCGATTA
Found at i:9912048 original size:27 final size:27
Alignment explanation
Indices: 9911999--9912052 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9911989 TGAACTTTTG
*
9911999 AGAATTGGGACTGCCCACAACCCTCTA
1 AGAATTGGGACTACCCACAACCCTCTA
* * *
9912026 AGAATTGGGGCTACTCACGACCCTCTA
1 AGAATTGGGACTACCCACAACCCTCTA
9912053 GTAATTGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (27 bp):
AGAATTGGGACTACCCACAACCCTCTA
Found at i:9913969 original size:24 final size:24
Alignment explanation
Indices: 9913922--9913969 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9913912 AGATTTTATG
* *
9913922 CTAATAAATGCTAAATATATTATA
1 CTAATAAATACTAAATATACTATA
9913946 CTAATAAATACTAAATCAT-CTATA
1 CTAATAAATACTAAAT-ATACTATA
9913970 AAGAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (24 bp):
CTAATAAATACTAAATATACTATA
Found at i:9917552 original size:178 final size:180
Alignment explanation
Indices: 9917243--9917602 Score: 521
Period size: 178 Copynumber: 2.0 Consensus size: 180
9917233 AAGTTTTGAG
** * * * *
9917243 TCTAAACTCAAAAAAAAAAAATCTTATTTGTTTTAGAATAAAAAAGTAAATCAATTAAATTAAGT
1 TCTAAACTCAAAAAAAAAAAATCTTATTTACTTAAAAATAAAAAAGTAAAACAAGTAAATTAAGT
* * * *
9917308 TCAGATCATGTTGATGTCGTGTCTCCTATTAAATTTTGCTTTCGGAATGGATTTACTTTTCTTAA
66 TCAGATCATGTCGAAGTCGGGTCTCCTATTAAATTTTGATTTCGGAATGGATTTACTTTTCTTAA
* *
9917373 GAGTCGGGGCCAGGTGGGGCA-GATTAGTCAAGCTTCGAGTTGAGCAAAAA
131 GAGTCGGGACCAGGTGGGG-AGGATTAGTCAAGCTTCGAGTCGAGCAAAAA
* *
9917423 TCTAAACT-AAAAAAAAACAATTTTATTTACTTAAAAATAAAAAA-TAAAACAAGTAAATTAAGT
1 TCTAAACTCAAAAAAAAAAAATCTTATTTACTTAAAAATAAAAAAGTAAAACAAGTAAATTAAGT
*
9917486 TCAGATCATGTCGAAGTCGGGTCTCCTATTAAATTTTGATTTCAGG-ATGGATTTATTTTTCTTA
66 TCAGATCATGTCGAAGTCGGGTCTCCTATTAAATTTTGATTTC-GGAATGGATTTACTTTTCTTA
* *
9917550 AGAGTCGGGATCATGTGGGGAGGATTAGTCAAGCTTCGAGTCGAGCAAAAA
130 AGAGTCGGGACCAGGTGGGGAGGATTAGTCAAGCTTCGAGTCGAGCAAAAA
9917601 TC
1 TC
9917603 CACTCTGTCC
Statistics
Matches: 161, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
177 1 0.01
178 120 0.75
179 32 0.20
180 8 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (180 bp):
TCTAAACTCAAAAAAAAAAAATCTTATTTACTTAAAAATAAAAAAGTAAAACAAGTAAATTAAGT
TCAGATCATGTCGAAGTCGGGTCTCCTATTAAATTTTGATTTCGGAATGGATTTACTTTTCTTAA
GAGTCGGGACCAGGTGGGGAGGATTAGTCAAGCTTCGAGTCGAGCAAAAA
Found at i:9918802 original size:27 final size:25
Alignment explanation
Indices: 9918750--9918805 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
9918740 TAAAACGGTA
**
9918750 ATTTTACCCTAGGGGTATTTTGGTC
1 ATTTTACCCTAGGGGTATTTAAGTC
*
9918775 ATTTTACCCTTCGAGGGTATTTAAGTC
1 ATTTTACCC-TAG-GGGTATTTAAGTC
9918802 ATTT
1 ATTT
9918806 AACAACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 15 0.58
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (25 bp):
ATTTTACCCTAGGGGTATTTAAGTC
Found at i:9920782 original size:3 final size:3
Alignment explanation
Indices: 9920774--9920798 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9920764 AGCTTTCCTT
9920774 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
9920799 AGCTTTAACC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9927819 original size:29 final size:29
Alignment explanation
Indices: 9927782--9927846 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
9927772 CTGTCGACGC
* *
9927782 CACACGGCCATGTGCCAGGCCGTGTGTGA
1 CACACGGCCATGTACCAGGACGTGTGTGA
* *
9927811 CACATGGCCATGTACGAGGACGTGTGTGA
1 CACACGGCCATGTACCAGGACGTGTGTGA
9927840 CACACGG
1 CACACGG
9927847 TCTAGGCCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.17
Consensus pattern (29 bp):
CACACGGCCATGTACCAGGACGTGTGTGA
Done.