Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 296 of 318
Found at i:92857675 original size:8 final size:8
Alignment explanation
Indices: 92857662--92857691 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
92857652 AAATCGGCAC
92857662 AAGCCGAA
1 AAGCCGAA
92857670 AAGCCGAA
1 AAGCCGAA
*
92857678 ATGCCGAA
1 AAGCCGAA
92857686 AAGCCG
1 AAGCCG
92857692 GTATTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:92858122 original size:27 final size:27
Alignment explanation
Indices: 92858084--92858167 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
92858074 AAGCGTCCTA
*
92858084 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
92858111 GTGGCTCTGCCAC-ATATATCTGTTCTG
1 GTGGCTCTGCCACAAT-TATCTGATCTG
* *
92858138 GTGGCTCCGCTACAA-TATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
92858165 GTG
1 GTG
92858168 ACTTCGTCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.16
27 40 0.82
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:92858179 original size:27 final size:26
Alignment explanation
Indices: 92858094--92858185 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 26
92858084 GTGGCTATGC
92858094 CACAATTATCTG-ATCTGGTGGC-TCTG
1 CACAA-TATCTGTATCTGGTGGCTTC-G
*
92858120 CCACATATATCTGT-TCTGGTGGCTCCG
1 -CACA-ATATCTGTATCTGGTGGCTTCG
*
92858147 CTACAATATCTGTATCTGGTGACTTCG
1 C-ACAATATCTGTATCTGGTGGCTTCG
92858174 TCACAATATCTG
1 -CACAATATCTG
92858186 GCAGCCTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
26 9 0.16
27 44 0.79
28 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTTCG
Found at i:92864684 original size:17 final size:17
Alignment explanation
Indices: 92864652--92864685 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92864642 ATCCTTTATT
*
92864652 TTTTTTAATGTATTTAA
1 TTTTTTAATCTATTTAA
*
92864669 TTTTTTAATCTTTTTAA
1 TTTTTTAATCTATTTAA
92864686 AGACTTACAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTTAATCTATTTAA
Found at i:92875159 original size:46 final size:46
Alignment explanation
Indices: 92875097--92875366 Score: 302
Period size: 46 Copynumber: 6.0 Consensus size: 46
92875087 AGTGTGCTCT
92875097 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
92875143 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
92875189 CTGATATGAAACGTGTAAGACCATGGTTGAAAG-----ATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
92875230 CTGATATGAAATGTTTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** * *
92875276 GTGACGGGGAAATGAATAAGACCTTGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92875323 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92875367 TCATGTCGAA
Statistics
Matches: 194, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
41 38 0.20
45 1 0.01
46 117 0.60
47 38 0.20
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92875259 original size:87 final size:88
Alignment explanation
Indices: 92875109--92875275 Score: 264
Period size: 87 Copynumber: 1.9 Consensus size: 88
92875099 GATAGAAAAT
*
92875109 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCATGGTTGAA
1 GTGTAAGACCATGGTTGAAAG--A--ATGGCAACCTGATATGAAACGTGTAAGACCATAGTTGAA
92875174 AGATACCATGGCAACCTGATATGAAAC
62 AGATACCATGGCAACCTGATATGAAAC
* *
92875201 GTGTAAGACCATGGTTGAAAG-ATGGCAACCTGATATGAAATGTTTAAGACCATAGTTGAAAGAT
1 GTGTAAGACCATGGTTGAAAGAATGGCAACCTGATATGAAACGTGTAAGACCATAGTTGAAAGAT
92875265 ACCATGGCAAC
66 ACCATGGCAAC
92875276 GTGACGGGGA
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
87 51 0.71
92 21 0.29
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (88 bp):
GTGTAAGACCATGGTTGAAAGAATGGCAACCTGATATGAAACGTGTAAGACCATAGTTGAAAGAT
ACCATGGCAACCTGATATGAAAC
Found at i:92875352 original size:134 final size:133
Alignment explanation
Indices: 92875097--92875356 Score: 335
Period size: 134 Copynumber: 1.9 Consensus size: 133
92875087 AGTGTGCTCT
* * * **
92875097 CTGATAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAG
1 CTGATAGAAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAGAGGAAACGAATAAG
* * * *
92875162 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCATGGTTGAAAGATGGC
66 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGATGGC
92875227 AAC
131 AAC
* * * *
92875230 CTGATATG-AAATGTTTAAGACCATAGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATA
1 CTGATA-GAAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGA-GAGGAAACGAATA
* * *
92875294 AGACCTTGGTTGAATGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
64 AGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAACGAGTAAGACCATAGTTGAAAGA
92875357 CACTATGGCA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
133 46 0.43
134 62 0.57
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (133 bp):
CTGATAGAAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAGAGGAAACGAATAAG
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGATGGC
AAC
Found at i:92881781 original size:2 final size:2
Alignment explanation
Indices: 92881774--92881806 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
92881764 CGGACATAAA
92881774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92881807 AAACAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92882806 original size:30 final size:30
Alignment explanation
Indices: 92882770--92882830 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
92882760 AATCTTTCGT
92882770 TACCATTTACTGGTGAAGTGATTTATTTAA
1 TACCATTTACTGGTGAAGTGATTTATTTAA
92882800 TACCATTTACTGGTGAAGTGATTTATTTAA
1 TACCATTTACTGGTGAAGTGATTTATTTAA
92882830 T
1 T
92882831 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (30 bp):
TACCATTTACTGGTGAAGTGATTTATTTAA
Found at i:92885871 original size:12 final size:12
Alignment explanation
Indices: 92885831--92885864 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
92885821 CAAAACCCAA
*
92885831 TTTTTCCTT-TC
1 TTTTTCTTTCTC
92885842 TTTTTCTTTCTC
1 TTTTTCTTTCTC
92885854 TTTTTCTTTCT
1 TTTTTCTTTCT
92885865 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:92885884 original size:25 final size:25
Alignment explanation
Indices: 92885873--92885921 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
92885863 CTTTCTTTCC
92885873 CTCCTCTGTTTCGTCCCTTTCTCCT
1 CTCCTCTGTTTCGTCCCTTTCTCCT
92885898 CTCCTCTGTTTCGTCCCTTTCTCC
1 CTCCTCTGTTTCGTCCCTTTCTCC
92885922 CTTCTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.00, C:0.45, G:0.08, T:0.47
Consensus pattern (25 bp):
CTCCTCTGTTTCGTCCCTTTCTCCT
Found at i:92888390 original size:194 final size:194
Alignment explanation
Indices: 92888063--92888643 Score: 1130
Period size: 194 Copynumber: 3.0 Consensus size: 194
92888053 CCGTTCAGTT
92888063 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTA--TGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
*
92888126 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCCATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
92888191 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
92888255 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
92888320 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
92888385 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
*
92888449 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAATGTATTTGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
92888514 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
92888579 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
92888643 A
1 A
92888644 GGAAACAAGG
Statistics
Matches: 385, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
192 50 0.13
194 335 0.87
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (194 bp):
ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
Found at i:92893134 original size:35 final size:30
Alignment explanation
Indices: 92893078--92893168 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
92893068 TCTTTCATCA
92893078 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
92893108 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
92893138 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
92893168 T
1 T
92893169 CTTGAACCTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (30 bp):
TGTAATCAATTTAAACATGTTTTGTTTTGT
Found at i:92897118 original size:20 final size:20
Alignment explanation
Indices: 92897082--92897119 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92897072 GAAACCAAGA
*
92897082 AAGAAACTACAAATTGAACC
1 AAGAAACTAAAAATTGAACC
92897102 AAGAAAC-AAAAAGTTGAA
1 AAGAAACTAAAAA-TTGAA
92897120 TATAGACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (20 bp):
AAGAAACTAAAAATTGAACC
Found at i:92900759 original size:13 final size:13
Alignment explanation
Indices: 92900722--92900760 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
92900712 AAGCACAACT
92900722 TGAGTTTTGAA-A
1 TGAGTTTTGAATA
*
92900734 TGAGTTTTAAATA
1 TGAGTTTTGAATA
*
92900747 TGAGATTTGAATA
1 TGAGTTTTGAATA
92900760 T
1 T
92900761 TTGATCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (13 bp):
TGAGTTTTGAATA
Found at i:92908639 original size:17 final size:17
Alignment explanation
Indices: 92908617--92908654 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
92908607 ATCAAACACA
92908617 TATATGTATAATCTATG
1 TATATGTATAATCTATG
92908634 TATATGTATAATCTATG
1 TATATGTATAATCTATG
92908651 TATA
1 TATA
92908655 ATCAAGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (17 bp):
TATATGTATAATCTATG
Found at i:92911737 original size:44 final size:45
Alignment explanation
Indices: 92911647--92911775 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
92911637 GACAGAACGA
*
92911647 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
92911693 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
92911737 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
92911776 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:92919113 original size:44 final size:45
Alignment explanation
Indices: 92919023--92919151 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
92919013 GACAGAACGA
*
92919023 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
92919069 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
92919113 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
92919152 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:92928504 original size:24 final size:24
Alignment explanation
Indices: 92928473--92928550 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
92928463 AATAGTAACA
92928473 TCCCAACGGTCAAATTTCAAATCC
1 TCCCAACGGTCAAATTTCAAATCC
* * *
92928497 TCCTAACGATCAATTTTCAAATCC
1 TCCCAACGGTCAAATTTCAAATCC
* ***
92928521 GCCCATTAGTCAAATTTCAAATCC
1 TCCCAACGGTCAAATTTCAAATCC
92928545 TCCCAA
1 TCCCAA
92928551 TGGCTAGTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.33, C:0.32, G:0.06, T:0.28
Consensus pattern (24 bp):
TCCCAACGGTCAAATTTCAAATCC
Found at i:92932994 original size:46 final size:46
Alignment explanation
Indices: 92932944--92933119 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
92932934 TATTTGGGCA
92932944 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
92932990 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
92933037 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
92933083 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92933120 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:92933099 original size:93 final size:93
Alignment explanation
Indices: 92932940--92933111 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
92932930 TGGATATTTG
* *
92932940 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92933005 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
92933033 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92933098 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
92933112 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:92936054 original size:15 final size:15
Alignment explanation
Indices: 92936034--92936102 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
92936024 GTATCTTGGG
92936034 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
92936049 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
92936064 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
92936079 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
92936094 TTTCTTTAT
1 TTTCTTTAT
92936103 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:92936103 original size:30 final size:30
Alignment explanation
Indices: 92936025--92936112 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
92936015 CATAGTATCG
* * * *
92936025 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
92936055 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
92936085 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
92936113 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:92938546 original size:46 final size:46
Alignment explanation
Indices: 92938496--92938671 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
92938486 TATTTGGGCA
92938496 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
92938542 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
92938589 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
92938635 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92938672 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:92938651 original size:93 final size:93
Alignment explanation
Indices: 92938492--92938663 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
92938482 TGGATATTTG
* *
92938492 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92938557 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
92938585 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92938650 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
92938664 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:92943212 original size:21 final size:22
Alignment explanation
Indices: 92943166--92943208 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
92943156 TGTAAAAGTG
*
92943166 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
92943188 ATTTC-CTATC-ATAAACTTTC
1 ATTTCTCTATCAATAAACTTTC
92943208 A
1 A
92943209 ATTTATAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:92943590 original size:16 final size:17
Alignment explanation
Indices: 92943569--92943600 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92943559 ACTTCTCACT
92943569 TTTAATCC-TATAACTA
1 TTTAATCCTTATAACTA
92943585 TTTAATCCTTATAACT
1 TTTAATCCTTATAACT
92943601 TCTAGGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATCCTTATAACTA
Found at i:92948957 original size:30 final size:30
Alignment explanation
Indices: 92948881--92948957 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
92948871 TGGCTTGGGA
* *
92948881 CATGGCCGTGTGGCCAACCCGTGGGGATCC
1 CATGGCCGTGTGGCCAGCCCGTGGGGACCC
*
92948911 CATAGCCGTGTGGCCAGCCCGTGGGGACCC
1 CATGGCCGTGTGGCCAGCCCGTGGGGACCC
*
92948941 CATGGCCGTGTAGCCAG
1 CATGGCCGTGTGGCCAG
92948958 GCTGTGTGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.14, C:0.34, G:0.36, T:0.16
Consensus pattern (30 bp):
CATGGCCGTGTGGCCAGCCCGTGGGGACCC
Found at i:92950067 original size:32 final size:32
Alignment explanation
Indices: 92949979--92950190 Score: 120
Period size: 33 Copynumber: 6.4 Consensus size: 32
92949969 TGCACATTCT
* *
92949979 CTTTTCAAGTGGTACACACGA-AGTGTACATACC
1 CTTTTCAAAT-GTACACAC-ATAGTGTACATAAC
* *
92950012 CTTTTCAATTTGTACACACATAGTGCACATAAC
1 CTTTTCAA-ATGTACACACATAGTGTACATAAC
* * **
92950045 CTTTTCAAATGTACACATATAGTGTACTTTTC
1 CTTTTCAAATGTACACACATAGTGTACATAAC
* * * * **
92950077 CTTTTCAAATGGTATACACAAAGTATACCTTTC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
* * * * * **
92950110 CTTTTCATATGGTATACACAAAGTATACCTTTC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
* * * * *
92950143 CTTTTCATATAGTATACACAAAGTATACCTAAC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
92950176 CTTTTCAAATTGTAC
1 CTTTTCAAA-TGTAC
92950191 CATTTGGGTC
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
32 29 0.19
33 124 0.80
34 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (32 bp):
CTTTTCAAATGTACACACATAGTGTACATAAC
Found at i:92950115 original size:33 final size:33
Alignment explanation
Indices: 92950044--92950185 Score: 187
Period size: 33 Copynumber: 4.3 Consensus size: 33
92950034 GTGCACATAA
* * * * *
92950044 CCTTTTCAAAT-GTACACATATAGTGTACTTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
92950076 CCTTTTCAAATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
*
92950109 CCTTTTCATATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
* * **
92950142 CCTTTTCATATAGTATACACAAAGTATACCTAA
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
92950175 CCTTTTCAAAT
1 CCTTTTCAAAT
92950186 TGTACCATTT
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 11 0.11
33 88 0.89
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (33 bp):
CCTTTTCAAATGGTATACACAAAGTATACCTTT
Found at i:92950914 original size:21 final size:22
Alignment explanation
Indices: 92950868--92950910 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
92950858 TGTAAAAGTG
*
92950868 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
92950890 ATTTC-CTATC-ATAAACTTTC
1 ATTTCTCTATCAATAAACTTTC
92950910 A
1 A
92950911 ATTTACAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:92956151 original size:26 final size:24
Alignment explanation
Indices: 92956111--92956170 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
92956101 TTATTTCATT
* * *
92956111 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
92956135 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
92956161 AAATAAATAT
1 AAATAAATAT
92956171 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:92956182 original size:22 final size:22
Alignment explanation
Indices: 92956141--92956199 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
92956131 ATAATAAATC
* *
92956141 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
92956161 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
92956183 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
92956200 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:92962504 original size:17 final size:16
Alignment explanation
Indices: 92962475--92962523 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
92962465 GAGTAAAAAT
92962475 ATAGTTTTATATTTTA
1 ATAGTTTTATATTTTA
*
92962491 ATAGTTTATATATTTTT
1 ATAGTTT-TATATTTTA
*
92962508 ATATTTTTATAATTTT
1 ATAGTTTTAT-ATTTT
92962524 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATAGTTTTATATTTTA
Found at i:92962510 original size:8 final size:8
Alignment explanation
Indices: 92962474--92962525 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
92962464 AGAGTAAAAA
*
92962474 TATAGTTT
1 TATATTTT
92962482 TATATTTT
1 TATATTTT
* *
92962490 AATAGTTTA
1 TATA-TTTT
92962499 TATATTTT
1 TATATTTT
92962507 TATATTTT
1 TATATTTT
92962515 TATAATTTT
1 TAT-ATTTT
92962524 TA
1 TA
92962526 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 24 0.65
9 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TATATTTT
Found at i:92962549 original size:25 final size:25
Alignment explanation
Indices: 92962520--92962568 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
92962510 ATTTTTATAA
*
92962520 TTTTTAAAAAATTAAAT-TAATTTT
1 TTTTTTAAAAATTAAATATAATTTT
92962544 TTTTTTAAAAATTAAATATAATTTT
1 TTTTTTAAAAATTAAATATAATTTT
92962569 ATTATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTTTAAAAATTAAATATAATTTT
Found at i:92962576 original size:25 final size:24
Alignment explanation
Indices: 92962526--92962581 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
92962516 ATAATTTTTA
* *
92962526 AAAAATTAAATTAATTTTTTTTTT
1 AAAAATTAAATTAATTTTATTATT
92962550 AAAAATTAAATATAATTTTATTATT
1 AAAAATTAAAT-TAATTTTATTATT
*
92962575 AATAATT
1 AAAAATT
92962582 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AAAAATTAAATTAATTTTATTATT
Found at i:92962775 original size:17 final size:17
Alignment explanation
Indices: 92962755--92962787 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92962745 AAATAAATTT
92962755 ATAGAAAACTCAAATAC
1 ATAGAAAACTCAAATAC
*
92962772 ATAGAATACTCAAATA
1 ATAGAAAACTCAAATA
92962788 TAATGTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
ATAGAAAACTCAAATAC
Found at i:92968365 original size:2 final size:2
Alignment explanation
Indices: 92968358--92968390 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
92968348 TACAAAACAC
92968358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92968391 AATTTAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92970131 original size:13 final size:13
Alignment explanation
Indices: 92970109--92970150 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
92970099 TATTATTGAA
92970109 TTTTTATTTTG-T
1 TTTTTATTTTGCT
*
92970121 TATTTTGTTTTGCT
1 T-TTTTATTTTGCT
*
92970135 TTTTTATTTTGGT
1 TTTTTATTTTGCT
92970148 TTT
1 TTT
92970151 GGTATGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTGCT
Found at i:92970141 original size:18 final size:20
Alignment explanation
Indices: 92970115--92970151 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
92970105 TGAATTTTTA
92970115 TTTTGTTATTTT-GTTTTGC
1 TTTTGTTATTTTGGTTTTGC
92970134 TTTT-TTATTTTGGTTTTG
1 TTTTGTTATTTTGGTTTTG
92970152 GTATGGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.03, G:0.16, T:0.76
Consensus pattern (20 bp):
TTTTGTTATTTTGGTTTTGC
Found at i:92985608 original size:43 final size:43
Alignment explanation
Indices: 92985464--92985612 Score: 147
Period size: 43 Copynumber: 3.5 Consensus size: 43
92985454 ATGCCATATT
* * ** * **
92985464 TGGTCTTACATGTTATCACATATTGAA-GCCATTGTCCCTCACA
1 TGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAAACA
* ** * *
92985507 GGGTCTTACACAAAATCATAATATAATGCCAATGTCCCAAACA
1 TGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACA
* *
92985550 TGGTCTTACACGTAATCACAATACAATGCCAATGTCCTAGACA
1 TGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACA
*
92985593 TGGTCTTACATGTAATCACA
1 TGGTCTTACACGTAATCACA
92985613 TTTCGATAAC
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 4 0.05
43 82 0.95
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACA
Found at i:92990036 original size:26 final size:26
Alignment explanation
Indices: 92990000--92990052 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
92989990 GAATTTCACA
*
92990000 TAGTTTAAGTTAATTACACCAGGCAT
1 TAGTTTAAGTTAATAACACCAGGCAT
*
92990026 TAGTTTGAGTTAATAACACCAGGCAT
1 TAGTTTAAGTTAATAACACCAGGCAT
92990052 T
1 T
92990053 CCTAAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (26 bp):
TAGTTTAAGTTAATAACACCAGGCAT
Found at i:92990816 original size:15 final size:16
Alignment explanation
Indices: 92990785--92990820 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
92990775 TTAAATTATA
92990785 TATTAAATAATTATTT
1 TATTAAATAATTATTT
*
92990801 TATTAAATGATT-TTT
1 TATTAAATAATTATTT
92990816 TATTA
1 TATTA
92990821 TTTATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTAAATAATTATTT
Found at i:92992707 original size:2 final size:2
Alignment explanation
Indices: 92992702--92992726 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92992692 GATATATGTG
92992702 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
92992727 TTCCTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:92995813 original size:2 final size:2
Alignment explanation
Indices: 92995806--92995834 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92995796 ATGTTTTGTC
92995806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92995835 AAAGGTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92997088 original size:24 final size:24
Alignment explanation
Indices: 92997044--92997089 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
92997034 TTCAACTGCT
* *
92997044 TTTAGTTTAACTAATTTATTTTAA
1 TTTAATTTAACTAATTGATTTTAA
92997068 TTTAATTTAACATAA-TGATTTT
1 TTTAATTTAAC-TAATTGATTTT
92997090 TCCGGAGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAATTTAACTAATTGATTTTAA
Found at i:92997769 original size:21 final size:23
Alignment explanation
Indices: 92997744--92997792 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
92997734 ATATTGAATA
*
92997744 ATTATTTTAT-TAATATTT-TTT
1 ATTATTTCATGTAATATTTATTT
92997765 ATTA-TTCATGTAATATTTATTT
1 ATTATTTCATGTAATATTTATTT
*
92997787 TTTATT
1 ATTATT
92997793 ATTTATACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 6 0.26
23 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTATTTCATGTAATATTTATTT
Found at i:92999346 original size:3 final size:3
Alignment explanation
Indices: 92999322--92999392 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
92999312 AATATCCTTG
* * * *
92999322 TTA TTT TTA -TA TTA TTA GTA TTA TTA CTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
92999369 TGTA TTA ATA -TA TT- TTT TTA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA TTA T
92999393 GTACGTGTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 6 0.11
3 45 0.83
4 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:92999505 original size:3 final size:3
Alignment explanation
Indices: 92999492--92999521 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
92999482 TATTCCAATG
*
92999492 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
92999522 GTTTATGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:92999836 original size:11 final size:11
Alignment explanation
Indices: 92999822--92999848 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
92999812 GCATGTATTG
92999822 TATATGTTCTA
1 TATATGTTCTA
92999833 TATATGTTCTA
1 TATATGTTCTA
92999844 TATAT
1 TATAT
92999849 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:93003764 original size:33 final size:30
Alignment explanation
Indices: 93003695--93003763 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
93003685 CTAGCCTTTG
*
93003695 CCACCACCAACTCTACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
93003725 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
93003755 CCACCACCA
1 CCACCACCA
93003764 CTTGTACCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.51, G:0.06, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:93004293 original size:24 final size:24
Alignment explanation
Indices: 93004245--93004380 Score: 71
Period size: 25 Copynumber: 5.5 Consensus size: 24
93004235 TTTTTTTTGT
*
93004245 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATATTTCTTAATAATA
*
93004268 TATTATGTATATATTCTT-TTAATA
1 TATTATGTATAT-TTCTTAATAATA
* * **
93004292 TATTAGGTATA-TTCTAAATTCTA
1 TATTATGTATATTTCTTAATAATA
* * *
93004315 TATTACGTATATATATATATATTATACTA
1 TATTATGTATAT-T-TCT-TA--ATAATA
* * *
93004344 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATTTC-TTAATAATA
*
93004369 TATTATTTATAT
1 TATTATGTATAT
93004381 ATATTTTTTC
Statistics
Matches: 86, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
22 4 0.05
23 19 0.22
24 19 0.22
25 22 0.26
26 2 0.02
27 4 0.05
28 1 0.01
29 15 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTATGTATATTTCTTAATAATA
Found at i:93004354 original size:27 final size:25
Alignment explanation
Indices: 93004259--93004386 Score: 84
Period size: 25 Copynumber: 5.1 Consensus size: 25
93004249 ATTATATTTC
*
93004259 TTAATATTATATTATGTATATAT-T
1 TTAATACTATATTATGTATATATAT
* * * *
93004283 CTT-TTAATATATTAGGTATAT-T-C
1 -TTAATACTATATTATGTATATATAT
* * *
93004306 TAAATTCTATATTACGTATATATAT
1 TTAATACTATATTATGTATATATAT
* *
93004331 ATATATTATACTATTTTATGTATATATCT
1 -T-TA--ATACTATATTATGTATATATAT
*
93004360 TTAATACTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
93004385 TT
1 TT
93004387 TTTCTACATG
Statistics
Matches: 78, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.01
23 15 0.19
24 16 0.21
25 23 0.29
26 1 0.01
27 3 0.04
28 1 0.01
29 18 0.23
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:93004377 original size:29 final size:28
Alignment explanation
Indices: 93004345--93004464 Score: 98
Period size: 27 Copynumber: 4.6 Consensus size: 28
93004335 ATTATACTAT
93004345 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
93004374 TTTATATATAT-TTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
93004400 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
*
93004427 TGTATGTAT-T-TTTT--TACTATA-TA
1 TTTATGTATATATTTTAATACTATATTA
*
93004450 -TTATGTACATATTTT
1 TTTATGTATATATTTT
93004465 TTTTATATCT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
22 7 0.10
23 3 0.04
24 12 0.16
25 1 0.01
26 13 0.18
27 21 0.29
28 6 0.08
29 10 0.14
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:93004427 original size:27 final size:27
Alignment explanation
Indices: 93004345--93004453 Score: 98
Period size: 26 Copynumber: 4.0 Consensus size: 27
93004335 ATTATACTAT
93004345 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATA-TATATTA
* ** * *
93004374 TTTATATATAT-TTTTTCTACATGTTA
1 TTTATGTATATATTTTAATATATATTA
93004400 TCTTATGTATATATTTTAAT-TATATTA
1 T-TTATGTATATATTTTAATATATATTA
* * *
93004427 TGTATGTAT-TTTTTTACTATATATTA
1 TTTATGTATATATTTTAATATATATTA
93004453 T
1 T
93004454 GTACATATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
25 7 0.11
26 21 0.33
27 20 0.31
28 6 0.09
29 10 0.16
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTATGTATATATTTTAATATATATTA
Found at i:93004471 original size:22 final size:22
Alignment explanation
Indices: 93004397--93004472 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
93004387 TTTCTACATG
* **
93004397 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTTT
*
93004419 TTATATTATGTATGTATTTTTTT
1 TTATATTATGTATATA-TTTTTT
*
93004442 ACTATATATTATGTACATATTTTTT
1 --T-TATATTATGTATATATTTTTT
93004467 TTATAT
1 TTATAT
93004473 CTATTTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 19 0.43
23 5 0.11
25 7 0.16
26 13 0.30
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTTT
Found at i:93004477 original size:26 final size:27
Alignment explanation
Indices: 93004420--93004487 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
93004410 ATATTTTAAT
**
93004420 TATATTATGTATGTA-TTTTTTTACTA
1 TATATTATGTACATATTTTTTTTACTA
93004446 TATATTATGTACATATTTTTTTTA-TA
1 TATATTATGTACATATTTTTTTTACTA
* * *
93004472 TCTATTTTATACATAT
1 TATATTATGTACATAT
93004488 GTATATATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 28 0.78
27 8 0.22
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (27 bp):
TATATTATGTACATATTTTTTTTACTA
Found at i:93004556 original size:25 final size:24
Alignment explanation
Indices: 93004528--93004583 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
93004518 GTTATATTTT
*
93004528 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
93004553 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
93004576 CACTATTA
1 CACTATTA
93004584 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:93004600 original size:2 final size:2
Alignment explanation
Indices: 93004589--93004620 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
93004579 TATTACTATT
93004589 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93004621 TACGTACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93005535 original size:20 final size:21
Alignment explanation
Indices: 93005503--93005547 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
93005493 ATTTTAATTT
*
93005503 AATTTTTTATAAT-AT-ATAA
1 AATTTTTAATAATAATGATAA
93005522 AATTTTTAATTAATAATGATAA
1 AATTTTTAA-TAATAATGATAA
93005544 AATT
1 AATT
93005548 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 2 0.09
22 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTTTTAATAATAATGATAA
Found at i:93007783 original size:16 final size:17
Alignment explanation
Indices: 93007754--93007787 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
93007744 ATCACAATAA
93007754 AATAAAATTCTAATATT
1 AATAAAATTCTAATATT
*
93007771 AATAAACTT-TAATATT
1 AATAAAATTCTAATATT
93007787 A
1 A
93007788 CGATATTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAAATTCTAATATT
Found at i:93008593 original size:85 final size:84
Alignment explanation
Indices: 93008447--93008675 Score: 255
Period size: 85 Copynumber: 2.7 Consensus size: 84
93008437 TAAAAAAACG
* ** * * * *
93008447 CCGCTAAAGACCATGACTTTTAGCGACGCTTTT-TTTACAACGCCGTTAAAGACCATAACCTTTA
1 CCGCTAAAGATCATGACTTTTAGCGACGCTTTTCTCAAAAACGCCGCTAAA-ATCATGACCTTTA
*
93008511 GCGGCGCTTTTC-CAAAAAA
65 ACGGCGCTTTTCTCAAAAAA
* * *
93008530 CACAGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAATCATGACCTTT
1 C-C-GCTAAAGATCATGACTTTTAGCGACGCTTTTCTCAAAAACGCCGCTAAAATCATGACCTTT
**
93008595 AACGGCGCTTTTCTCACAAATG
64 AACGGCGCTTTTCTCA-AAAAA
* * *
93008617 CCGCTAAAAATCATGACCTTTAGCGACGCTTTTCTCACAAACGCCGCTAAAAATCATGA
1 CCGCTAAAGATCATGACTTTTAGCGACGCTTTTCTCAAAAACGCCGCT-AAAATCATGA
93008676 ACTTCAAAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 91 0.75
86 24 0.20
87 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (84 bp):
CCGCTAAAGATCATGACTTTTAGCGACGCTTTTCTCAAAAACGCCGCTAAAATCATGACCTTTAA
CGGCGCTTTTCTCAAAAAA
Found at i:93008601 original size:42 final size:43
Alignment explanation
Indices: 93008440--93008675 Score: 233
Period size: 43 Copynumber: 5.5 Consensus size: 43
93008430 GTTTATTTAA
* * * * **
93008440 AAAAACGCCGCTAAAGACCATGACTTTTAGCGACGCTTTT-TT
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTCCC
* * * * * * *
93008482 TACAACGCCGTTAAAGACCATAACCTTTAGCGGCGCTTTTCCA
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
93008525 AAAAACACAGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTCCC
* * *
93008568 AAAAATGCCGCT-AAAATCATGACCTTTAACGGCGCTTTTCTC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
93008610 ACAAATGCCGCTAAAAATCATGACCTTTAGCGACGCTTTTCTC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTCCC
*
93008653 ACAAACGCCGCTAAAAATCATGA
1 AAAAACGCCGCTAAAAATCATGA
93008676 ACTTCAAAAA
Statistics
Matches: 164, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 71 0.43
43 93 0.57
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTCCC
Found at i:93010460 original size:21 final size:22
Alignment explanation
Indices: 93010428--93010480 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
93010418 CAACTTTCAG
93010428 ACACCATAAA-TTGCAGCATTTA
1 ACACC-TAAATTTGCAGCATTTA
**
93010450 ACACCTAAATTTTTAGCATTTA
1 ACACCTAAATTTGCAGCATTTA
*
93010472 ACACATAAA
1 ACACCTAAA
93010481 ATGGTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (22 bp):
ACACCTAAATTTGCAGCATTTA
Found at i:93012652 original size:6 final size:6
Alignment explanation
Indices: 93012641--93012683 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
93012631 TTTCAAAACT
*
93012641 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG GAAGGG A
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG A
93012684 TCGTATGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:93012911 original size:40 final size:40
Alignment explanation
Indices: 93012832--93012912 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
93012822 AAAATGATCG
*
93012832 TTTGTGGCGTTTTTTTAAAAAACGCCACTATTGCTTATTT
1 TTTGTGGCGTTTTTTTAAAAAACGCCACTAATGCTTATTT
* *
93012872 TTTGTGGCG-TTTTTTATATAAATGCCACTAAT-CTCTATTT
1 TTTGTGGCGTTTTTTTA-AAAAACGCCACTAATGCT-TATTT
93012912 T
1 T
93012913 ATATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 9 0.25
40 27 0.75
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (40 bp):
TTTGTGGCGTTTTTTTAAAAAACGCCACTAATGCTTATTT
Found at i:93012937 original size:13 final size:14
Alignment explanation
Indices: 93012907--93012943 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
93012897 CACTAATCTC
93012907 TATTTTATATATTTT
1 TATTTT-TATATTTT
93012922 TATTTTTATA-TTT
1 TATTTTTATATTTT
93012935 TATTTTTAT
1 TATTTTTAT
93012944 TTATTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.55
14 4 0.18
15 6 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTATATTTT
Found at i:93012950 original size:13 final size:12
Alignment explanation
Indices: 93012916--93012950 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
93012906 CTATTTTATA
93012916 TATTTTTATTTT
1 TATTTTTATTTT
93012928 TATATTTTATTTT
1 TAT-TTTTATTTT
93012941 TATTTATTAT
1 TATTT-TTAT
93012951 CAAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:93012958 original size:19 final size:20
Alignment explanation
Indices: 93012936--93012973 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
93012926 TTTATATTTT
93012936 ATTTTTATTTA-TTATCAAA
1 ATTTTTATTTATTTATCAAA
93012955 ATTTTTATTTATTTATCAA
1 ATTTTTATTTATTTATCAA
93012974 TGTTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATTTATTTATCAAA
Found at i:93012964 original size:6 final size:6
Alignment explanation
Indices: 93012916--93012950 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
93012906 CTATTTTATA
93012916 TATTTT TATTTT TATATTT TATTTT TATTTAT TAT
1 TATTTT TATTTT TAT-TTT TATTTT TATTT-T TAT
93012951 CAAAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.63
7 10 0.37
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:93013624 original size:18 final size:18
Alignment explanation
Indices: 93013592--93013627 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
93013582 AAGGTTATAG
93013592 ATTAGTGTTTAGGGTTTT
1 ATTAGTGTTTAGGGTTTT
*
93013610 ATTAG-GTTTAGGGGTTT
1 ATTAGTGTTTAGGGTTTT
93013627 A
1 A
93013628 AGAGTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (18 bp):
ATTAGTGTTTAGGGTTTT
Found at i:93014126 original size:21 final size:22
Alignment explanation
Indices: 93014087--93014127 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
93014077 TGTTTTTTAG
*
93014087 AGTTTAGGGTTTTAGGGGTTAT
1 AGTTTAGGGTTTTAAGGGTTAT
*
93014109 AGTTTA-GTTTTTAAGGGTT
1 AGTTTAGGGTTTTAAGGGTT
93014128 TTTAAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (22 bp):
AGTTTAGGGTTTTAAGGGTTAT
Found at i:93014279 original size:41 final size:41
Alignment explanation
Indices: 93014215--93014368 Score: 170
Period size: 41 Copynumber: 3.8 Consensus size: 41
93014205 ATTATATGAC
** * *
93014215 TTTTAGCGATGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
93014256 TTTTAGCGGCGTTTTACCAAAAGCGCCGCT-ATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*** * *
93014296 TTTTAGCGGCGTTTTTGGTAAAA-CGCCGCTATTGCTCT-AT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
93014336 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTAA
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAA
93014369 AGCCCTATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.04
40 44 0.46
41 48 0.50
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:93014377 original size:41 final size:40
Alignment explanation
Indices: 93014238--93014379 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
93014228 TTATCGAAAG
* * *
93014238 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAG
1 CGCCGCTAATGCTCT-ATTTTTAGCGGCGTTTTACAAAAAA
* ****
93014279 CGCCGCT-ATGCTCTGGTTTTTAGCGGCGTTTTTGGTAAAA
1 CGCCGCTAATGCTCT-ATTTTTAGCGGCGTTTTACAAAAAA
*
93014319 CGCCGCTATTGCTCTATTTTTAGCGGCGTTTTAACAAAAAA
1 CGCCGCTAATGCTCTATTTTTAGCGGCGTTTT-ACAAAAAA
* *
93014360 CGCCGCTAAAGCCCTATTTT
1 CGCCGCTAATGCTCTATTTT
93014380 CCTGTAGTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
40 51 0.60
41 34 0.40
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (40 bp):
CGCCGCTAATGCTCTATTTTTAGCGGCGTTTTACAAAAAA
Found at i:93015119 original size:2 final size:2
Alignment explanation
Indices: 93015112--93015151 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
93015102 AAACTATTGG
93015112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93015152 AAACAAGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93028377 original size:20 final size:20
Alignment explanation
Indices: 93028354--93028396 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
93028344 AACTATTTAA
** *
93028354 ATAATATTATTTGAATATTT
1 ATAATATTAAATGAATAATT
93028374 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
93028394 ATA
1 ATA
93028397 TGTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:93031711 original size:19 final size:20
Alignment explanation
Indices: 93031670--93031711 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
93031660 AAATTTTTTA
* *
93031670 ATATTAGAATTGATATGTGC
1 ATATTAGAATTGAAATGTAC
*
93031690 ATATTAGTA-TGAAATGTAC
1 ATATTAGAATTGAAATGTAC
93031709 ATA
1 ATA
93031712 GATTGCCGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
ATATTAGAATTGAAATGTAC
Found at i:93040709 original size:29 final size:29
Alignment explanation
Indices: 93040676--93040745 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
93040666 TAAAAAAAAT
93040676 TAATTACAAAAAAGGTATAGAAAATAGAA
1 TAATTACAAAAAAGGTATAGAAAATAGAA
*
93040705 TAATTACGAAAAAGGTATAGAAAATAGAA
1 TAATTACAAAAAAGGTATAGAAAATAGAA
93040734 TAATTACAAAAA
1 TAATTACAAAAA
93040746 GACGCATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.21
Consensus pattern (29 bp):
TAATTACAAAAAAGGTATAGAAAATAGAA
Found at i:93047879 original size:22 final size:22
Alignment explanation
Indices: 93047854--93047904 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
93047844 TTTATATTAT
* * *
93047854 TTTTTCTGTCTATTGACACGGG
1 TTTTTCTGCCCATTGACACGGA
*
93047876 TTTTGTCTGCCCATTGATACGGA
1 TTTT-TCTGCCCATTGACACGGA
93047899 TTTTTC
1 TTTTTC
93047905 CTTTTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (22 bp):
TTTTTCTGCCCATTGACACGGA
Found at i:93052465 original size:35 final size:35
Alignment explanation
Indices: 93052426--93052591 Score: 197
Period size: 35 Copynumber: 4.6 Consensus size: 35
93052416 CATGGCAAAG
93052426 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
93052461 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
93052496 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** *
93052536 TAAGAAATGTAGGTATGGCATTGGCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
93052571 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
93052592 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
35 79 0.70
37 2 0.02
38 4 0.04
40 28 0.25
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:93052516 original size:40 final size:40
Alignment explanation
Indices: 93052437--93052553 Score: 140
Period size: 40 Copynumber: 3.0 Consensus size: 40
93052427 GTGAAATGTA
93052437 GGTATGGTATCATCCATACTGAGTTGTGATA--T--GTA-
1 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
93052472 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
1 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
** *
93052512 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTATC--ATCCATACTGAGTTGTGATATGTAGGTAT
93052552 GG
1 GG
93052554 CATTGGCCAT
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
35 31 0.43
37 1 0.01
38 4 0.06
39 3 0.04
40 33 0.46
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (40 bp):
GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
Found at i:93052547 original size:75 final size:75
Alignment explanation
Indices: 93052426--93052596 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 75
93052416 CATGGCAAAG
** * * *
93052426 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGATATGTAGGTATGGTATCATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCAGC
*
93052486 CATACTGAGT
66 CATACCGAGT
* **
93052496 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTGGC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCAGC
93052561 CATACCGAGT
66 CATACCGAGT
*
93052571 TGTAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
93052597 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 4 0.05
75 60 0.71
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCAGC
CATACCGAGT
Found at i:93054183 original size:41 final size:39
Alignment explanation
Indices: 93054126--93054263 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 39
93054116 CTATTATAAT
*
93054126 CTCGCACACTAAGTGCCTTTCATAGCCGAATCT-TTCTCAA
1 CTCGCACACTAAGTGCCTTT-ATAGCCGAAGCTATTC-CAA
*
93054166 CCTCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAA
1 -CTCGCACACTAAGTGCC-TTTATAGCCGAAGCTATTCCAA
* * * *
93054207 TTTGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAA
1 CTCGCACACTAAGTGCCTT-TATAGCCGAAGCTAT-TCCAA
* *
93054248 -ACGCAAACTAAGTGCC
1 CTCGCACACTAAGTGCC
93054264 AAACATAGTC
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 41 0.50
41 35 0.43
42 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (39 bp):
CTCGCACACTAAGTGCCTTTATAGCCGAAGCTATTCCAA
Found at i:93054229 original size:40 final size:42
Alignment explanation
Indices: 93054126--93054241 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 42
93054116 CTATTATAAT
* *
93054126 CTCGCACACTAAGTGCCTTT-CATAGCCGAATCT-TTCTCAAC
1 CTCGCACACTAAGTG-CTTTATATAGCCGAAGCTATTCTCAAC
**
93054167 CTCGCACACTAAGTGCCATATATAGCCGAAGCTATTC-CAA-
1 CTCGCACACTAAGTGCTTTATATAGCCGAAGCTATTCTCAAC
* *
93054207 TTTGCACACTAAGTGCTTTATATAGCCGAAGCTAT
1 CTCGCACACTAAGTGCTTTATATAGCCGAAGCTAT
93054242 CTCGAAACGC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
40 33 0.51
41 29 0.45
42 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
CTCGCACACTAAGTGCTTTATATAGCCGAAGCTATTCTCAAC
Found at i:93054232 original size:81 final size:83
Alignment explanation
Indices: 93054084--93054270 Score: 197
Period size: 81 Copynumber: 2.3 Consensus size: 83
93054074 TACTTGATAT
*
93054084 CTCGCACACTAAGTGCCAAAGCATAACCAAAACTATTATAATCTCGCACACTAAGTGCCTTTCAT
1 CTCGCACACTAAGTGCCAAAGCATAACCAAAACTATTACAATCTCGCACACTAAGTGCCTTTCAT
93054149 AGCCGAATCTTTCTCAAC
66 AGCCGAATCTTTCTCAAC
* * * * * * * *
93054167 CTCGCACACTAAGTGCCATA-TATAGCCGAAGCTATTCCAAT-TTGCACACTAAGTG-CTTTATA
1 CTCGCACACTAAGTGCCAAAGCATAACCAAAACTATTACAATCTCGCACACTAAGTGCCTTT-CA
* *
93054229 TAGCCGAAGCTATCTCGAA-
65 TAGCCGAATCTTTCTC-AAC
* *
93054248 -ACGCAAACTAAGTGCCAAA-CATA
1 CTCGCACACTAAGTGCCAAAGCATA
93054271 GTCGATTTGT
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
80 23 0.26
81 28 0.32
82 17 0.20
83 19 0.22
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (83 bp):
CTCGCACACTAAGTGCCAAAGCATAACCAAAACTATTACAATCTCGCACACTAAGTGCCTTTCAT
AGCCGAATCTTTCTCAAC
Found at i:93059336 original size:4 final size:4
Alignment explanation
Indices: 93059327--93059361 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
93059317 TTACTACTAA
93059327 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
93059362 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:93060585 original size:18 final size:19
Alignment explanation
Indices: 93060560--93060606 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
93060550 ATTTTAAAAG
*
93060560 ATAAATAAAGAT-AAAAGTA
1 ATAAATAAAAATGAAAA-TA
93060579 A-AAATAAAAATGAAAATA
1 ATAAATAAAAATGAAAATA
93060597 ATAAATAAAA
1 ATAAATAAAA
93060607 GTCTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
ATAAATAAAAATGAAAATA
Found at i:93060586 original size:29 final size:29
Alignment explanation
Indices: 93060527--93060587 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
93060517 AAATAGTATT
***
93060527 AAAGAGAAATAAAATGAAAAGTAATTTTA
1 AAAGAGAAATAAAATGAAAAGTAAAAATA
*
93060556 AAAGATAAATAAAGAT-AAAAGTAAAAATA
1 AAAGAGAAATAAA-ATGAAAAGTAAAAATA
93060585 AAA
1 AAA
93060588 ATGAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (29 bp):
AAAGAGAAATAAAATGAAAAGTAAAAATA
Found at i:93060588 original size:6 final size:6
Alignment explanation
Indices: 93060562--93060606 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
93060552 TTTAAAAGAT
* * *
93060562 AAATAA AGATAA AAGTAA AAATAA AAATGA AAATAA TAAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AA
93060607 GTCTTCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:93061843 original size:35 final size:35
Alignment explanation
Indices: 93061797--93061867 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
93061787 ATAGTATTTG
93061797 TCATAGTGTGCCTGCGAAATAATAGAATATAAATA
1 TCATAGTGTGCCTGCGAAATAATAGAATATAAATA
93061832 TCATAGTGTGCCTGCGAAATAATAGAATATAAATA
1 TCATAGTGTGCCTGCGAAATAATAGAATATAAATA
93061867 T
1 T
93061868 TGTCTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (35 bp):
TCATAGTGTGCCTGCGAAATAATAGAATATAAATA
Found at i:93071013 original size:42 final size:42
Alignment explanation
Indices: 93070964--93071090 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
93070954 CTTCGTTTTC
** * *
93070964 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* * *
93071007 T-GATGCCATAGCCCGGCTATGGTCTTCCACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
93071048 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
93071089 TC
1 TC
93071091 TCACTGATGC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 10 0.14
42 60 0.83
43 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:93071186 original size:31 final size:31
Alignment explanation
Indices: 93071143--93071291 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
93071133 CTTGTCACTT
* *
93071143 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
93071174 GTAGGC-GGAGCTACCATTTTTCACTGATCAG
1 GTA-GCAGAAGCTACCACTTTTCACTGATCAG
* * *
93071205 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
93071236 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
93071267 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
93071292 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.96
32 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:93071373 original size:50 final size:51
Alignment explanation
Indices: 93071267--93071395 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
93071257 CACTGATCAG
* * *
93071267 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
93071318 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
93071368 GTAGCCTAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
93071396 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:93074953 original size:5 final size:5
Alignment explanation
Indices: 93074943--93074981 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
93074933 AAATATAAGC
93074943 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
93074982 AATAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATTAG
Found at i:93076712 original size:14 final size:14
Alignment explanation
Indices: 93076675--93076715 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93076665 AAAAATTAAA
*
93076675 ATATGTAATAATA-
1 ATATGTAATAGTAT
93076688 ATATG--ATAGTAT
1 ATATGTAATAGTAT
93076700 ATATGTAATAGTAT
1 ATATGTAATAGTAT
93076714 AT
1 AT
93076716 GATAGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 5 0.21
14 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (14 bp):
ATATGTAATAGTAT
Found at i:93078919 original size:41 final size:41
Alignment explanation
Indices: 93078862--93078943 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
93078852 TCTTGAAAGG
93078862 TACAGATTGTAATATAAGTTGGTTTGAAAATAATATGATAA
1 TACAGATTGTAATATAAGTTGGTTTGAAAATAATATGATAA
93078903 TACAGATTGTAATATAAGTTGGTTTGAAAATAATATGATAA
1 TACAGATTGTAATATAAGTTGGTTTGAAAATAATATGATAA
93078944 CACATTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (41 bp):
TACAGATTGTAATATAAGTTGGTTTGAAAATAATATGATAA
Found at i:93079622 original size:2 final size:2
Alignment explanation
Indices: 93079615--93079641 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93079605 ATTAATGTTG
93079615 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
93079642 GCATTATACG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93079967 original size:54 final size:54
Alignment explanation
Indices: 93079896--93080005 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
93079886 AAGAAAAGTC
93079896 AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATACGAGAAAGATTTT
1 AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATACGAGAAAGATTTT
*
93079950 AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATGCGAGAAAGATTTT
1 AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATACGAGAAAGATTTT
93080004 AA
1 AA
93080006 CTGCTGCAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (54 bp):
AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATACGAGAAAGATTTT
Found at i:93083457 original size:21 final size:21
Alignment explanation
Indices: 93083432--93083475 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
93083422 AAAATCCTTC
93083432 TAATCATAATGAAACTTTTCT
1 TAATCATAATGAAACTTTTCT
93083453 TAATCATAATGAAACTTTTCT
1 TAATCATAATGAAACTTTTCT
93083474 TA
1 TA
93083476 GCTCTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (21 bp):
TAATCATAATGAAACTTTTCT
Found at i:93086143 original size:26 final size:26
Alignment explanation
Indices: 93086114--93086191 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
93086104 TGAGCTTTCT
* *
93086114 AATGTGCAAGCTACAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
*
93086140 AATGTGCAAGCTGCAAGCTTAG-TAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
93086165 AATGT-CAAAGCTGCAAGCTTAGCAAA
1 AATGTGC-AAGCTGCAAGCTTAGCAAA
93086191 A
1 A
93086192 TATCAAAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 22 0.48
26 23 0.50
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTTAGCAAA
Found at i:93086175 original size:25 final size:25
Alignment explanation
Indices: 93086121--93086203 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
93086111 TCTAATGTGC
* *
93086121 AAGCTACAAGCTCAGCAAAAATGTGC-
1 AAGCTGCAAGCTTAGC-AAAATGT-CA
*
93086147 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
*
93086172 AAGCTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
93086197 AAGCTGC
1 AAGCTGC
93086204 GAGCCTGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.02
25 37 0.73
26 13 0.25
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGCAAAATGTCA
Found at i:93087344 original size:25 final size:25
Alignment explanation
Indices: 93087290--93087372 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
93087280 TCCAATGTGC
* *
93087290 AAGCTGCAAGCTCAACAAAAATGTGC-
1 AAGCTGCAAGCTTAGC-AAAATGT-CA
*
93087316 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
*
93087341 AAGCTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
93087366 AAGCTGC
1 AAGCTGC
93087373 GAGCCTGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.02
25 37 0.73
26 13 0.25
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGCAAAATGTCA
Found at i:93087650 original size:31 final size:31
Alignment explanation
Indices: 93087608--93087667 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
93087598 GTCCACTTTT
93087608 ATACTCATCTGTCTACAAGGAGAAAAAAACC
1 ATACTCATCTGTCTACAAGGAGAAAAAAACC
* *
93087639 ATACTCCTCTGTCTACAAGGGGAAAAAAA
1 ATACTCATCTGTCTACAAGGAGAAAAAAA
93087668 ACCTGGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (31 bp):
ATACTCATCTGTCTACAAGGAGAAAAAAACC
Found at i:93088481 original size:26 final size:26
Alignment explanation
Indices: 93088452--93088529 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
93088442 TGAGCTTTCT
*
93088452 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
*
93088478 AATGTGCAAGCTGCAAGCTTAG-TAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
*
93088503 AATGT-CAAAGTTGCAAGCTTAGCAAA
1 AATGTGC-AAGCTGCAAGCTTAGCAAA
93088529 A
1 A
93088530 TATCAAAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 21 0.46
26 24 0.52
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTTAGCAAA
Found at i:93088517 original size:25 final size:25
Alignment explanation
Indices: 93088459--93088541 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
93088449 TCTAATGTGC
*
93088459 AAGCTGCAAGCTCAGCAAAAATGTGC-
1 AAGCTGCAAGCTTAGC-AAAATGT-CA
*
93088485 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
* *
93088510 AAGTTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
93088535 AAGCTGC
1 AAGCTGC
93088542 GAGCCTGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.02
25 35 0.70
26 14 0.28
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGCAAAATGTCA
Found at i:93088815 original size:31 final size:31
Alignment explanation
Indices: 93088777--93088838 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
93088767 GTCCACTTTT
*
93088777 ATACTCCTCTGTCTACAAGGAGAAAAAAACC
1 ATACTCCTCTATCTACAAGGAGAAAAAAACC
*
93088808 ATACTCCTCTATCTACAAGGGGAAAAAAACC
1 ATACTCCTCTATCTACAAGGAGAAAAAAACC
93088839 TGGAAAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (31 bp):
ATACTCCTCTATCTACAAGGAGAAAAAAACC
Found at i:93091224 original size:89 final size:91
Alignment explanation
Indices: 93091044--93091224 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 91
93091034 TTGTTTTTTT
* * * ** * **
93091044 TTTTTTTTTGCACTCAATTGAGCACTTGAACTTTTAAAATGCATCAAAAAGGCCTTCAAACTTTT
1 TTTTTTTTTGCACTCAATTGAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAAAATTT
*
93091109 TTCACAAAAAGCAATTAAGCCCCTAC
66 TTCACAAAAAACAATTAAGCCCCTAC
* * *
93091135 TTTTTTTTT-CACTCAATTGGGTACTTGAACATTCAAAATTCATAAAAAAAACCCTCAAAAATTT
1 TTTTTTTTTGCACTCAATTGAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAAAATTT
93091199 TTCA-AAAAAACAATTAAGCCCCTAC
66 TTCACAAAAAACAATTAAGCCCCTAC
93091224 T
1 T
93091225 CTTATTAAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 21 0.27
90 48 0.62
91 9 0.12
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (91 bp):
TTTTTTTTTGCACTCAATTGAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAAAATTT
TTCACAAAAAACAATTAAGCCCCTAC
Found at i:93091307 original size:10 final size:10
Alignment explanation
Indices: 93091226--93091312 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
93091216 GCCCCTACTC
93091226 TTATTAAAAA
1 TTATTAAAAA
**
93091236 TTAGAAAAAA
1 TTATTAAAAA
93091246 TTATATAAATAA
1 TTAT-TAAA-AA
* * *
93091258 TAAATAATAAG
1 TTATTAA-AAA
93091269 TT-TTAGAAAA
1 TTATTA-AAAA
**
93091279 TTTATTAAATT
1 -TTATTAAAAA
*
93091290 TTAATAAAAA
1 TTATTAAAAA
93091300 TTATTAAAAA
1 TTATTAAAAA
93091310 TTA
1 TTA
93091313 GATTGTCCCG
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
10 34 0.62
11 13 0.24
12 8 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:93091447 original size:17 final size:18
Alignment explanation
Indices: 93091425--93091472 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
93091415 TTTAAAACTT
*
93091425 AAATTTTGA-AAACTTAA
1 AAATTTGGAGAAACTTAA
*
93091442 AAATTTGGAGACACTTAA
1 AAATTTGGAGAAACTTAA
93091460 AAATTTGGAGAAA
1 AAATTTGGAGAAA
93091473 TGAGTTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (18 bp):
AAATTTGGAGAAACTTAA
Found at i:93091650 original size:24 final size:21
Alignment explanation
Indices: 93091593--93091639 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
93091583 ATCCCTTACA
93091593 TCATTACATAA-TTGAAACTT
1 TCATTACATAATTTGAAACTT
93091613 TCATTACATAATTTGAAACTT
1 TCATTACATAATTTGAAACTT
93091634 TCATTA
1 TCATTA
93091640 TTATCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (21 bp):
TCATTACATAATTTGAAACTT
Found at i:93091699 original size:9 final size:9
Alignment explanation
Indices: 93091685--93091739 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
93091675 TAATTTTTAT
93091685 ATAAAAATC
1 ATAAAAATC
*
93091694 ATAAAAA-A
1 ATAAAAATC
93091702 ATAAAAAATC
1 AT-AAAAATC
*
93091712 ATAAAAATTTT
1 ATAAAAA--TC
93091723 ATAAAAATC
1 ATAAAAATC
93091732 ATAAAAAT
1 ATAAAAAT
93091740 TAATTACCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 26 0.68
10 2 0.05
11 8 0.21
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (9 bp):
ATAAAAATC
Found at i:93091730 original size:20 final size:20
Alignment explanation
Indices: 93091681--93091741 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
93091671 TTTTTAATTT
93091681 TTATATAAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
*
93091701 -AATA-AAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
*
93091719 TTTTATAAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
93091739 TTA
1 TTA
93091742 ATTACCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 16 0.46
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TTATATAAAAATCATAAAAA
Found at i:93092016 original size:8 final size:8
Alignment explanation
Indices: 93092005--93092139 Score: 52
Period size: 8 Copynumber: 16.8 Consensus size: 8
93091995 AATTTTACAT
93092005 TTTTTATA
1 TTTTTATA
93092013 TTTTT-TA
1 TTTTTATA
93092020 TGATTTT-TA
1 T--TTTTATA
*
93092029 TTTTTCTA
1 TTTTTATA
93092037 TTTTTA-A
1 TTTTTATA
93092044 TTTTT-TA
1 TTTTTATA
* *
93092051 --ATTAAA
1 TTTTTATA
* *
93092057 ATTTAATA
1 TTTTTATA
93092065 TTTTTATA
1 TTTTTATA
93092073 TTTTTAT-
1 TTTTTATA
93092080 TGATTTTACT-
1 T--TTTTA-TA
* *
93092090 TTTATAATT
1 TTT-TTATA
*
93092099 TTTTTGTA
1 TTTTTATA
93092107 TTTTTATA
1 TTTTTATA
93092115 TATTTTATA
1 T-TTTTATA
*
93092124 TATTTTGTGA
1 T-TTTTAT-A
93092134 TTTTTA
1 TTTTTA
93092140 CAAAATTCTA
Statistics
Matches: 98, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 15 0.15
8 41 0.42
9 35 0.36
10 4 0.04
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.70
Consensus pattern (8 bp):
TTTTTATA
Found at i:93092092 original size:23 final size:24
Alignment explanation
Indices: 93092066--93092110 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
93092056 AATTTAATAT
93092066 TTTTAT-ATTTTTATTG-ATTTTAC
1 TTTTATAATTTTT-TTGTATTTTAC
93092089 TTTTATAATTTTTTTGTATTTT
1 TTTTATAATTTTTTTGTATTTT
93092111 TATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTATAATTTTTTTGTATTTTAC
Found at i:93092100 original size:60 final size:62
Alignment explanation
Indices: 93091968--93092101 Score: 163
Period size: 60 Copynumber: 2.2 Consensus size: 62
93091958 TTTTTATATA
*
93091968 TTTTATAATTTTTACAATTTTTATAAAAATTTTACATTTTTTATATTTTTTATGATTTTTAT
1 TTTTATAATTTTTACAATTTTTATAAAAATTTTACATTTTTTATATTTTTTATGATTTTTAC
* * *
93092030 TTTTCT-ATTTTTA-ATTTTTTAATTAAAA-TTTA-ATATTTTTATA-TTTTTATTGA-TTTTAC
1 TTTTATAATTTTTACAATTTTT-ATAAAAATTTTACAT-TTTTTATATTTTTTA-TGATTTTTAC
93092089 TTTTATAATTTTT
1 TTTTATAATTTTT
93092102 TTGTATTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
59 18 0.29
60 27 0.43
61 13 0.21
62 5 0.08
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (62 bp):
TTTTATAATTTTTACAATTTTTATAAAAATTTTACATTTTTTATATTTTTTATGATTTTTAC
Found at i:93092125 original size:11 final size:10
Alignment explanation
Indices: 93091940--93092129 Score: 71
Period size: 9 Copynumber: 19.3 Consensus size: 10
93091930 CTTTATAAAA
93091940 TTTTATA-AT
1 TTTTATATAT
* *
93091949 TTTTTTGTAT
1 TTTTATATAT
93091959 TTTTATATA-
1 TTTTATATAT
93091968 TTTTATA-AT
1 TTTTATATAT
*
93091977 TTTTACA-AT
1 TTTTATATAT
* *
93091986 TTTTATAAAAA
1 TTTTAT-ATAT
*
93091997 TTTTACAT-T
1 TTTTATATAT
93092006 TTTTATAT-T
1 TTTTATATAT
*
93092015 TTTTATGATTTT
1 TTTTAT-A-TAT
* *
93092027 TATTTTTCTAT
1 T-TTTATATAT
93092038 TTTTA-AT-T
1 TTTTATATAT
*
93092046 TTTTA-ATTAAA
1 TTTTATA-T-AT
*
93092057 ATTTA-ATAT
1 TTTTATATAT
*
93092066 TTTTATATTT
1 TTTTATATAT
* *
93092076 TTATTGATTTTAC
1 TT-TT-A-TATAT
93092089 TTTTATA-AT
1 TTTTATATAT
* *
93092098 TTTTTTGTAT
1 TTTTATATAT
93092108 TTTTATATA-
1 TTTTATATAT
93092117 TTTTATATAT
1 TTTTATATAT
93092127 TTT
1 TTT
93092130 GTGATTTTTA
Statistics
Matches: 134, Mismatches: 30, Indels: 33
0.68 0.15 0.17
Matches are distributed among these distances:
8 8 0.06
9 61 0.46
10 34 0.25
11 18 0.13
12 5 0.04
13 8 0.06
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:93092263 original size:10 final size:10
Alignment explanation
Indices: 93092250--93092275 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
93092240 TTGGTTTTAT
93092250 TTTTTTATAA
1 TTTTTTATAA
93092260 TTTTTTATAA
1 TTTTTTATAA
93092270 TTTTTT
1 TTTTTT
93092276 TCGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:93092282 original size:22 final size:21
Alignment explanation
Indices: 93092248--93092291 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
93092238 TATTGGTTTT
*
93092248 ATTTTTTTATAATTTTTTATA
1 ATTTTTTTATAATTTTTAATA
*
93092269 ATTTTTTTCGTAATTTTTAATA
1 ATTTTTTT-ATAATTTTTAATA
93092291 A
1 A
93092292 AAATATGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTTTTTATAATTTTTAATA
Found at i:93099531 original size:18 final size:18
Alignment explanation
Indices: 93099508--93099543 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93099498 CAAAATCAGC
*
93099508 ATGCTTTTAGTCCAAATT
1 ATGCTTTTAGTCAAAATT
*
93099526 ATGCTTTTGGTCAAAATT
1 ATGCTTTTAGTCAAAATT
93099544 GGACTCCAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (18 bp):
ATGCTTTTAGTCAAAATT
Done.