Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 133 of 310
Found at i:43044049 original size:28 final size:28
Alignment explanation
Indices: 43044007--43044121 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
43043997 TACCTGTATC
* *
43044007 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
43044035 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
43044064 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* * *
43044093 TGGCTCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
43044121 T
1 T
43044122 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:43044068 original size:57 final size:58
Alignment explanation
Indices: 43043998--43044108 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
43043988 AATTTCACAT
* * *
43043998 ACCTGTATCTGGCCCATTAAGCC-CAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCTAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
43044055 ACCTGTATATGGCCCATTAGGCCTAAATCACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCTAAATCACATTCATATGGCCCATTAGGCCCA
43044109 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCTAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:43044202 original size:17 final size:18
Alignment explanation
Indices: 43044180--43044213 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43044170 TGCCTATTAT
43044180 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
43044197 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
43044214 TTTGGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:43044375 original size:16 final size:16
Alignment explanation
Indices: 43044332--43044383 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
43044322 GTAGCCAAAC
*
43044332 TTTTGGCTTTTCGACA
1 TTTTGGCTTTTCGGCA
*
43044348 TTTTGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
43044364 TTTTGGCATTTCGGC-
1 TTTTGGCTTTTCGGCA
43044379 TTTTG
1 TTTTG
43044384 CCGATTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.10, C:0.17, G:0.21, T:0.52
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:43052049 original size:29 final size:30
Alignment explanation
Indices: 43052003--43052059 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
43051993 GTGGAACTTG
43052003 GCCGAATAGAAGAAAG-AAAAAGAAGGGAA
1 GCCGAATAGAAGAAAGAAAAAAGAAGGGAA
*
43052032 GCCGAATAGAAGAGAGAAAAAAGAAGGG
1 GCCGAATAGAAGAAAGAAAAAAGAAGGG
43052060 GAAAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.56, C:0.07, G:0.33, T:0.04
Consensus pattern (30 bp):
GCCGAATAGAAGAAAGAAAAAAGAAGGGAA
Found at i:43053592 original size:40 final size:40
Alignment explanation
Indices: 43053270--43053581 Score: 468
Period size: 40 Copynumber: 7.8 Consensus size: 40
43053260 GGATGATAAT
* *
43053270 CGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
*
43053310 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
* *
43053350 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACAAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
*
43053390 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
*
43053430 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
* *
43053470 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATTC
* *
43053510 CGGGCTAAGTCTCGAAGGCATTTGTGCGAACT-ACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TC
*
43053550 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG
43053582 GCTATATCCG
Statistics
Matches: 255, Mismatches: 12, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 3 0.01
40 245 0.96
41 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
Found at i:43056385 original size:30 final size:30
Alignment explanation
Indices: 43056349--43056406 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
43056339 TAAATGAGTG
43056349 AATTTCATCATGTTAGATCAAGAAAATCAT
1 AATTTCATCATGTTAGATCAAGAAAATCAT
43056379 AATTTCATCATGTTAGATCAAGAAAATC
1 AATTTCATCATGTTAGATCAAGAAAATC
43056407 GAGATTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (30 bp):
AATTTCATCATGTTAGATCAAGAAAATCAT
Found at i:43056906 original size:47 final size:47
Alignment explanation
Indices: 43056846--43057162 Score: 185
Period size: 47 Copynumber: 6.6 Consensus size: 47
43056836 ATTGTGGGCT
* * *
43056846 AGTGCAAGACATGTTTGGGACAT-GCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGAGCC
43056892 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGA-GACGAGACC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATATGATGA-GAG-CC
* *
43056939 TAGTGTAAGACATGTCTAGGACAT-GCATTGGCC-TCGA-GATGTA-AGCC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGGCCAT--ATGATG-AGAGCC
* *
43056986 AGTGTAAGACATGTCTGGGACATGGCATCGGAACAGATATG-TGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGG--C-CATATGATGAGAGCC
* * * * * * *
43057035 AGTGTGTAAGACCATTTCTGGGACACGGCGTCGGCC-TCGAT-TTCAATAGTC
1 A--GTGTAAGA-CATGTCTGGGACATGGCATCGGCCAT--ATGAT-GAGAGCC
* * * *
43057086 AGTGTAAGACCAAGTCTGGGATATGGCATC-G--ATTTGATGGATGAACC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATATGAT-GA-GAGCC
*
43057133 AGTGTAAGACTATGTCTGGGTCATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATC
43057163 AGCATTATAC
Statistics
Matches: 210, Mismatches: 32, Indels: 57
0.70 0.11 0.19
Matches are distributed among these distances:
45 3 0.01
46 45 0.21
47 68 0.32
48 23 0.11
49 33 0.16
50 6 0.03
51 13 0.06
52 19 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGAGCC
Found at i:43056999 original size:46 final size:44
Alignment explanation
Indices: 43056846--43057016 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 44
43056836 ATTGTGGGCT
* * **
43056846 AGTGCAAGACATGTTTGGGACATGCATCGGCCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CAT-CGA-GACGAGCC
*
43056892 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGACC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAG-CC
* * * *
43056939 TAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG--AGCC
43056986 AGTGTAAGACATGTCTGGGACATGGCATCGG
1 AGTGTAAGACATGTCTGGGACAT-GCATCGG
43057017 AACAGATATG
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
46 48 0.45
47 39 0.36
48 18 0.17
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGCC
Found at i:43062416 original size:10 final size:9
Alignment explanation
Indices: 43062394--43062418 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43062384 TTGGTGTTGA
43062394 TTTTTGATG
1 TTTTTGATG
43062403 TTTTTGATG
1 TTTTTGATG
43062412 TTTTTGA
1 TTTTTGA
43062419 GATCCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
TTTTTGATG
Found at i:43065640 original size:29 final size:29
Alignment explanation
Indices: 43065598--43065715 Score: 107
Period size: 29 Copynumber: 4.1 Consensus size: 29
43065588 GTGAGCATGA
*
43065598 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
43065626 ATATAAAGGTGATTTGGGCGTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * * *
43065655 ATATGAATATGAATAGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
***
43065684 ATATAAATAAGA-TTGGG-CTAAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
43065712 ATAT
1 ATAT
43065716 GCATGTTTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 3 0.04
28 18 0.24
29 54 0.72
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:43082978 original size:27 final size:28
Alignment explanation
Indices: 43082941--43083053 Score: 117
Period size: 27 Copynumber: 4.2 Consensus size: 28
43082931 AGCATGGCTG
* *
43082941 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
43082967 CCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* * * *
43082994 CTAGAAATAGATATTTGTGCCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
43083022 CTAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
43083049 CCAGA
1 CCAGA
43083054 ACGCTTCCTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 50 0.69
28 17 0.24
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:43083039 original size:55 final size:54
Alignment explanation
Indices: 43082948--43083054 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 54
43082938 CTGCCAGAAC
* *
43082948 AGATATTGTGACAGAGTCACCAGATACAGATATTGTGGTAGAGCCACTAGAAAT
1 AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGTAGAGCCACCAGAAAT
* *
43083002 AGATATTTGTGCCAGAGCCACTAGAT-CAGATATTTGTGGTAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAGATA-TTGTGGTAGAGCCACCAGAA
43083055 CGCTTCCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
54 11 0.23
55 36 0.77
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGTAGAGCCACCAGAAAT
Found at i:43088985 original size:16 final size:15
Alignment explanation
Indices: 43088961--43088990 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43088951 AACTGTTTTA
43088961 TTACAAATTTCACTC
1 TTACAAATTTCACTC
43088976 TTACATAATTTCACT
1 TTACA-AATTTCACT
43088991 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:43089436 original size:101 final size:100
Alignment explanation
Indices: 43089194--43089483 Score: 368
Period size: 101 Copynumber: 2.9 Consensus size: 100
43089184 GAAGCTATCT
* * * *
43089194 GGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGTAATAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * *
43089258 CTGCACTTAGTACAACACACATGACGTAACCATCT
66 CTGCACTTAGTACTACACACGTGACGTAACCATCG
* * * *
43089293 GATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* ***
43089358 CTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCG
66 CTGCACTTAGTACTACACACGTGACGT-AA-CCATCG
* * *
43089394 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACATGTAGTACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* *
43089459 CTACACTTAGTACTACACATGTGAC
66 CTGCACTTAGTACTACACACGTGAC
43089484 CTAAAACCAT
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
99 38 0.23
100 44 0.27
101 82 0.50
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACGTAACCATCG
Found at i:43089467 original size:151 final size:148
Alignment explanation
Indices: 43089188--43089487 Score: 368
Period size: 151 Copynumber: 2.0 Consensus size: 148
43089178 GTAACAGAAG
* * *
43089188 CTATCTGGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTA
1 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCCGGTACACATA
* * *
43089253 ATAGCCTGCACTTAGTACAACACACATGACGTAACCATCTGATACACGTAGTAGCCTGCACTTAG
66 ATAGCCTGCACTTAGTACAACACACA-GACCTAACCATCTGATACACGTAGTACCCTACACTTAG
43089318 TACTACACATGTGACCTAA
130 TACTACACATGTGACCTAA
* * ** *** * *
43089337 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
1 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-CAATCCGGTACACA
* * * * *
43089402 TAGTAGCCTGCACTTAGTACTACACATGCA-ACCTAACTATCTGGTACATGTAGTACCCTACACT
64 TAATAGCCTGCACTTAGTACAACACA--CAGACCTAACCATCTGATACACGTAGTACCCTACACT
43089466 TAGTACTACACATGTGACCTAA
127 TAGTACTACACATGTGACCTAA
43089488 AACCATCTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
149 41 0.32
150 2 0.02
151 82 0.65
153 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (148 bp):
CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCCGGTACACATA
ATAGCCTGCACTTAGTACAACACACAGACCTAACCATCTGATACACGTAGTACCCTACACTTAGT
ACTACACATGTGACCTAA
Found at i:43089486 original size:50 final size:50
Alignment explanation
Indices: 43089188--43089533 Score: 354
Period size: 50 Copynumber: 6.9 Consensus size: 50
43089178 GTAACAGAAG
* * *
43089188 CTATCTGGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * ** *
43089237 CAATCCGGTACACGTAATAGCCTGCACTTAGTACAACACACATGACGTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
43089287 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
43089337 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * **
43089387 GTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
43089438 CTATCTGGTACATGTAGTACCCTACACTTAGTACTACACATGTGACCTAAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AA
* *** * * * *
43089490 CCATCTTAAACACATAATAGCCTGCACATAGTACTAGACATGTG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
43089534 TTCTCACAAT
Statistics
Matches: 239, Mismatches: 52, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
49 38 0.16
50 126 0.53
51 39 0.16
52 36 0.15
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:43092449 original size:15 final size:15
Alignment explanation
Indices: 43092431--43092461 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43092421 ACTAGGATTA
*
43092431 AGAAGTCCAAGATAC
1 AGAAATCCAAGATAC
43092446 AGAAATCCAAGATAC
1 AGAAATCCAAGATAC
43092461 A
1 A
43092462 ATATCATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAC
Found at i:43095760 original size:16 final size:15
Alignment explanation
Indices: 43095736--43095765 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43095726 ATTGTTTTTT
43095736 TTACAAATTTCACTG
1 TTACAAATTTCACTG
43095751 TTACATAATTTCACT
1 TTACA-AATTTCACT
43095766 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTG
Found at i:43096096 original size:50 final size:50
Alignment explanation
Indices: 43095963--43096557 Score: 463
Period size: 50 Copynumber: 11.8 Consensus size: 50
43095953 GTAACCGAAG
* * *
43095963 CTATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
43096012 CAAT-TAGGTACACGA-AATAGCCTGCACTTCGTACTACACATGTGACCTAA
1 CTATCT-GGTACAC-ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* ** * * * * *
43096062 CCATCTGACACACATAGTAGCCTACACTTTGTACTAAACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * *
43096112 GTTGTCAGGTACGCATAGTAGCCTGCACTTATTACTACACATGTGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
43096163 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * ** * * *
43096213 GT-TGTTGGGTATGCATAATAGCCTGCGCTTAGTACTACACACGTGA-TTGAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * *
43096264 GT-TGTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
43096315 CTATCTAGTACACGTATTAGCCTGCTCTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
43096365 CCATTTGATACA-AGTAGTAGCCTCCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * ** * *
43096415 GT-TGTTGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
43096466 CTATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGACCTAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* *** * **
43096517 ATCATCTTAAACACATAGTAGCCTACAAATAGTACTACACA
1 CT-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
43096558 TGTGTTCTCA
Statistics
Matches: 431, Mismatches: 94, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.00
49 43 0.10
50 197 0.46
51 154 0.36
52 36 0.08
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:43096152 original size:101 final size:101
Alignment explanation
Indices: 43095965--43096510 Score: 507
Period size: 101 Copynumber: 5.4 Consensus size: 101
43095955 AACCGAAGCT
* * * * * ** *
43095965 ATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACAAT-T-AGGTACACGA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTCAGGTACGC-A
* *
43096027 -AATAGCCTGCACTTCGTACTACACATGTGACCTAACC
64 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
43096064 ATCTGACACACATAGTAGCCTACACTTTGTACTAAACACGTGATCGAAGTTGTCAGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
* *
43096129 GTAGCCTGCACTTATTACTACACATGTGACCTAACT
66 GTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * ** *
43096165 ATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
* * * * *
43096230 ATAGCCTGCGCTTAGTACTACACACGTGA-TTGAA-G
66 GTAGCCTGCACTTAGTACTACACATGTGACCT-AACC
* * * * * * * * *
43096265 TTGTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCTA-GTACAC
1 ATCT-GA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC-AGGTACGC
* * * *
43096328 GTATTAGCCTGCTCTTAGTACTACACACGTGACCTAACC
63 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * ** *
43096367 ATTTGATACA-AGTAGTAGCCTCCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCAT
1 ATCTGATACACA-TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCAT
* *
43096431 AGTAGCCTGCACTTAGTACTACACATGCGACCTAACT
65 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * *
43096468 ATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA
43096511 CCTAAAATCA
Statistics
Matches: 356, Mismatches: 77, Indels: 26
0.78 0.17 0.06
Matches are distributed among these distances:
99 37 0.10
100 42 0.12
101 238 0.67
102 39 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (101 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
GTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:43100703 original size:13 final size:13
Alignment explanation
Indices: 43100685--43100709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43100675 ACATTGAAAG
43100685 TTGTGTAAAAAAT
1 TTGTGTAAAAAAT
43100698 TTGTGTAAAAAA
1 TTGTGTAAAAAA
43100710 AAGGTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTGTAAAAAAT
Found at i:43103103 original size:40 final size:40
Alignment explanation
Indices: 43103048--43103394 Score: 613
Period size: 40 Copynumber: 8.7 Consensus size: 40
43103038 AGCATTGGAT
43103048 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103088 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103128 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103168 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103208 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103248 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103288 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43103328 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* *
43103368 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
43103395 ATGTGTTTGC
Statistics
Matches: 292, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 292 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:43109878 original size:14 final size:15
Alignment explanation
Indices: 43109828--43109884 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
43109818 GAGATGACAT
*
43109828 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
43109843 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
43109858 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
43109873 -AAATCCAAGATA
1 GAAATCCAAGATA
43109885 CATTATCATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:43113558 original size:26 final size:26
Alignment explanation
Indices: 43113529--43113636 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
43113519 TGGTCCAAAT
*
43113529 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
43113555 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43113581 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
43113607 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43113633 TGAT
1 TGAT
43113637 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:43119035 original size:31 final size:31
Alignment explanation
Indices: 43118999--43119059 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
43118989 GTGGCCTGGA
* *
43118999 CTTAAACGAGAAGTAACGGAGTTTGTAGGGG
1 CTTAAACGAGAAGTAACGGAATTGGTAGGGG
43119030 CTTAAACGAGAAGTAACGGAATTGGTAGGG
1 CTTAAACGAGAAGTAACGGAATTGGTAGGG
43119060 AAATGTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.21
Consensus pattern (31 bp):
CTTAAACGAGAAGTAACGGAATTGGTAGGGG
Found at i:43120593 original size:26 final size:26
Alignment explanation
Indices: 43120564--43120646 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
43120554 ATGGTACAAA
43120564 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
* * *
43120590 ATGATAATGGATTAGGTAAATATTCT
1 ATGATAATGGGTTAGGTAAATGTTCC
43120616 ATGATAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGGTTAGGTAAATGTTCC
43120642 ATGAT
1 ATGAT
43120647 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
ATGATAATGGGTTAGGTAAATGTTCC
Found at i:43121336 original size:27 final size:28
Alignment explanation
Indices: 43121299--43121411 Score: 117
Period size: 27 Copynumber: 4.2 Consensus size: 28
43121289 AGCATGGCTG
* *
43121299 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
43121325 CCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* * * *
43121352 CTAGAAATAGATATTTGTGCCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
43121380 CTAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
43121407 CCAGA
1 CCAGA
43121412 ACGCTTCCTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 50 0.69
28 17 0.24
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:43121397 original size:55 final size:54
Alignment explanation
Indices: 43121306--43121412 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 54
43121296 CTGCCAGAAC
* *
43121306 AGATATTGTGACAGAGTCACCAGATACAGATATTGTGGTAGAGCCACTAGAAAT
1 AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGTAGAGCCACCAGAAAT
* *
43121360 AGATATTTGTGCCAGAGCCACTAGAT-CAGATATTTGTGGTAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAGATA-TTGTGGTAGAGCCACCAGAA
43121413 CGCTTCCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
54 11 0.23
55 36 0.77
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGTAGAGCCACCAGAAAT
Found at i:43126214 original size:16 final size:15
Alignment explanation
Indices: 43126190--43126219 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43126180 AACTGTTTTA
43126190 TTACAAATTTCACTC
1 TTACAAATTTCACTC
43126205 TTACATAATTTCACT
1 TTACA-AATTTCACT
43126220 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:43126665 original size:101 final size:100
Alignment explanation
Indices: 43126423--43126712 Score: 368
Period size: 101 Copynumber: 2.9 Consensus size: 100
43126413 GAAGCTATCT
* * * *
43126423 GGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGTAATAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * *
43126487 CTGCACTTAGTACAACACACATGACGTAACCATCT
66 CTGCACTTAGTACTACACACGTGACGTAACCATCG
* * * *
43126522 GATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* ***
43126587 CTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCG
66 CTGCACTTAGTACTACACACGTGACGT-AA-CCATCG
* * *
43126623 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACATGTAGTACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* *
43126688 CTACACTTAGTACTACACATGTGAC
66 CTGCACTTAGTACTACACACGTGAC
43126713 CTAAAACCAT
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
99 38 0.23
100 44 0.27
101 82 0.50
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACGTAACCATCG
Found at i:43126696 original size:151 final size:148
Alignment explanation
Indices: 43126417--43126716 Score: 368
Period size: 151 Copynumber: 2.0 Consensus size: 148
43126407 GTAACAGAAG
* * *
43126417 CTATCTGGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTA
1 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCCGGTACACATA
* * *
43126482 ATAGCCTGCACTTAGTACAACACACATGACGTAACCATCTGATACACGTAGTAGCCTGCACTTAG
66 ATAGCCTGCACTTAGTACAACACACA-GACCTAACCATCTGATACACGTAGTACCCTACACTTAG
43126547 TACTACACATGTGACCTAA
130 TACTACACATGTGACCTAA
* * ** *** * *
43126566 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
1 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-CAATCCGGTACACA
* * * * *
43126631 TAGTAGCCTGCACTTAGTACTACACATGCA-ACCTAACTATCTGGTACATGTAGTACCCTACACT
64 TAATAGCCTGCACTTAGTACAACACA--CAGACCTAACCATCTGATACACGTAGTACCCTACACT
43126695 TAGTACTACACATGTGACCTAA
127 TAGTACTACACATGTGACCTAA
43126717 AACCATCTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
149 41 0.32
150 2 0.02
151 82 0.65
153 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (148 bp):
CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCCGGTACACATA
ATAGCCTGCACTTAGTACAACACACAGACCTAACCATCTGATACACGTAGTACCCTACACTTAGT
ACTACACATGTGACCTAA
Found at i:43126715 original size:50 final size:50
Alignment explanation
Indices: 43126417--43126762 Score: 354
Period size: 50 Copynumber: 6.9 Consensus size: 50
43126407 GTAACAGAAG
* * *
43126417 CTATCTGGTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * ** *
43126466 CAATCCGGTACACGTAATAGCCTGCACTTAGTACAACACACATGACGTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
43126516 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
43126566 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * **
43126616 GTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
43126667 CTATCTGGTACATGTAGTACCCTACACTTAGTACTACACATGTGACCTAAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AA
* *** * * * *
43126719 CCATCTTAAACACATAATAGCCTGCACATAGTACTAGACATGTG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
43126763 TTCTCACAAT
Statistics
Matches: 239, Mismatches: 52, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
49 38 0.16
50 126 0.53
51 39 0.16
52 36 0.15
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:43129678 original size:15 final size:15
Alignment explanation
Indices: 43129660--43129690 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43129650 ACTAGGATTA
*
43129660 AGAAGTCCAAGATAC
1 AGAAATCCAAGATAC
43129675 AGAAATCCAAGATAC
1 AGAAATCCAAGATAC
43129690 A
1 A
43129691 ATATCATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAC
Found at i:43132989 original size:16 final size:15
Alignment explanation
Indices: 43132965--43132994 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43132955 ATTGTTTTTT
43132965 TTACAAATTTCACTG
1 TTACAAATTTCACTG
43132980 TTACATAATTTCACT
1 TTACA-AATTTCACT
43132995 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTG
Found at i:43133325 original size:50 final size:50
Alignment explanation
Indices: 43133192--43133786 Score: 463
Period size: 50 Copynumber: 11.8 Consensus size: 50
43133182 GTAACCGAAG
* * *
43133192 CTATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
43133241 CAAT-TAGGTACACGA-AATAGCCTGCACTTCGTACTACACATGTGACCTAA
1 CTATCT-GGTACAC-ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* ** * * * * *
43133291 CCATCTGACACACATAGTAGCCTACACTTTGTACTAAACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * *
43133341 GTTGTCAGGTACGCATAGTAGCCTGCACTTATTACTACACATGTGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
43133392 CTATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * ** * * *
43133442 GT-TGTTGGGTATGCATAATAGCCTGCGCTTAGTACTACACACGTGA-TTGAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * *
43133493 GT-TGTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
43133544 CTATCTAGTACACGTATTAGCCTGCTCTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
43133594 CCATTTGATACA-AGTAGTAGCCTCCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * ** * *
43133644 GT-TGTTGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
43133695 CTATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGACCTAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* *** * **
43133746 ATCATCTTAAACACATAGTAGCCTACAAATAGTACTACACA
1 CT-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
43133787 TGTGTTCTCA
Statistics
Matches: 431, Mismatches: 94, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.00
49 43 0.10
50 197 0.46
51 154 0.36
52 36 0.08
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:43133381 original size:101 final size:101
Alignment explanation
Indices: 43133194--43133739 Score: 507
Period size: 101 Copynumber: 5.4 Consensus size: 101
43133184 AACCGAAGCT
* * * * * ** *
43133194 ATCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACAAT-T-AGGTACACGA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTCAGGTACGC-A
* *
43133256 -AATAGCCTGCACTTCGTACTACACATGTGACCTAACC
64 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
43133293 ATCTGACACACATAGTAGCCTACACTTTGTACTAAACACGTGATCGAAGTTGTCAGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
* *
43133358 GTAGCCTGCACTTATTACTACACATGTGACCTAACT
66 GTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * ** *
43133394 ATCTGGTACACCTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
* * * * *
43133459 ATAGCCTGCGCTTAGTACTACACACGTGA-TTGAA-G
66 GTAGCCTGCACTTAGTACTACACATGTGACCT-AACC
* * * * * * * * *
43133494 TTGTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCTA-GTACAC
1 ATCT-GA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTC-AGGTACGC
* * * *
43133557 GTATTAGCCTGCTCTTAGTACTACACACGTGACCTAACC
63 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * ** *
43133596 ATTTGATACA-AGTAGTAGCCTCCACTTAGTACTACACACGTGATTGAAGTTGTTGGGTATGCAT
1 ATCTGATACACA-TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCAT
* *
43133660 AGTAGCCTGCACTTAGTACTACACATGCGACCTAACT
65 AGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * *
43133697 ATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA
43133740 CCTAAAATCA
Statistics
Matches: 356, Mismatches: 77, Indels: 26
0.78 0.17 0.06
Matches are distributed among these distances:
99 37 0.10
100 42 0.12
101 238 0.67
102 39 0.11
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (101 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCAGGTACGCATA
GTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:43137933 original size:13 final size:13
Alignment explanation
Indices: 43137915--43137939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43137905 ACATTGAAAG
43137915 TTGTGTAAAAAAT
1 TTGTGTAAAAAAT
43137928 TTGTGTAAAAAA
1 TTGTGTAAAAAA
43137940 AAGGTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTGTAAAAAAT
Found at i:43140333 original size:40 final size:40
Alignment explanation
Indices: 43140278--43140424 Score: 267
Period size: 40 Copynumber: 3.7 Consensus size: 40
43140268 AGCATTGGAT
43140278 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
43140318 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
43140358 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* *
43140398 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
43140425 ATGTGTTTGC
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:43146908 original size:14 final size:15
Alignment explanation
Indices: 43146858--43146914 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
43146848 GAGATGACAT
*
43146858 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
43146873 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
43146888 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
43146903 -AAATCCAAGATA
1 GAAATCCAAGATA
43146915 CATTATCATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:43164584 original size:47 final size:47
Alignment explanation
Indices: 43164530--43165077 Score: 898
Period size: 47 Copynumber: 11.6 Consensus size: 47
43164520 TATTTGAATA
43164530 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43164577 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43164624 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43164671 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43164718 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGTTGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
43164767 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43164814 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43164861 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43164910 AATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43164957 AATGTGAAAGTGAATATATGTGATAAGGCCTGATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
43165004 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43165051 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43165078 TCCCGAAGGG
Statistics
Matches: 467, Mismatches: 30, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 378 0.81
49 89 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43164800 original size:143 final size:143
Alignment explanation
Indices: 43164530--43165077 Score: 890
Period size: 143 Copynumber: 3.9 Consensus size: 143
43164520 TATTTGAATA
* *
43164530 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-T-TGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
43164593 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
43164658 GGCCGATGTGATG
131 GGCCGATGTGATG
*
43164671 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
43164736 TATGTGATAAGGCCTAATGGCCGTTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
43164801 GGCCGATGTGATG
131 GGCCGATGTGATG
* * *
43164814 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
43164879 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
43164944 GGCCGATGTGATG
131 GGCCGATGTGATG
*
43164957 AATGTGAAAGTGAATATATGTGATAAGGCCTG-ATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 AATGTGAAAGTGTATATATGTGATAAGGCC-GAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * * *
43165019 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
65 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43165078 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
141 107 0.28
142 1 0.00
143 272 0.72
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:43164855 original size:190 final size:188
Alignment explanation
Indices: 43164530--43165077 Score: 898
Period size: 190 Copynumber: 2.9 Consensus size: 188
43164520 TATTTGAATA
*
43164530 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
43164595 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
43164660 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
43164718 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGTTGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
43164783 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * *
43164848 AGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43164910 AATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGAATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
43164975 TGTGATAAGGCCTGATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
43165040 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43165078 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
188 26 0.08
190 265 0.79
192 44 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (188 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:43165334 original size:37 final size:37
Alignment explanation
Indices: 43165196--43165333 Score: 213
Period size: 37 Copynumber: 3.7 Consensus size: 37
43165186 CTGAGCTCTA
* *
43165196 AAGACCCGATGACTACGTGTGGAGATTATGTTCGAGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
43165233 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
43165270 AAGACCCGATGACTACGTATGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
43165307 AAGACCCGATAACTTCATGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
43165334 TCATCTGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:43167006 original size:40 final size:40
Alignment explanation
Indices: 43166626--43166994 Score: 569
Period size: 40 Copynumber: 9.2 Consensus size: 40
43166616 GGCTAAATCT
*
43166626 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
*
43166666 CGAAGAGCATTCGTGCTGGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
43166706 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
43166746 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* * *
43166786 CGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAAGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
*
43166826 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTT
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
43166866 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* ***
43166906 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
* * * * * * *
43166946 CGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
43166986 CGAAGAGCA
1 CGAAGAGCA
43166995 ATCATGCTGG
Statistics
Matches: 306, Mismatches: 21, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 304 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:43172310 original size:101 final size:101
Alignment explanation
Indices: 43172188--43172388 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
43172178 TAAAATATGC
43172188 AATCAAGGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCTTGTGAGCAAAGAAGTTTCCTATAA
1 AATCAAGGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCTTGTGAGCAAAGAAGTTTCCTATAA
*
43172253 AGAGTTATTTAAAGTTGTGTGAGACGGTGTCAGAAA
66 AGAGATATTTAAAGTTGTGTGAGACGGTGTCAGAAA
43172289 AATCAAGGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCTTGTGAGCAAAGAAGTTTCCTATAA
1 AATCAAGGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCTTGTGAGCAAAGAAGTTTCCTATAA
43172354 AGAGATATTTAAAGTTGTGTGAGACGGTGTCAGAA
66 AGAGATATTTAAAGTTGTGTGAGACGGTGTCAGAA
43172389 TGACTCCGAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (101 bp):
AATCAAGGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCTTGTGAGCAAAGAAGTTTCCTATAA
AGAGATATTTAAAGTTGTGTGAGACGGTGTCAGAAA
Found at i:43173051 original size:47 final size:47
Alignment explanation
Indices: 43172997--43173955 Score: 1783
Period size: 47 Copynumber: 20.3 Consensus size: 47
43172987 TATTTGAATA
43172997 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173044 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173091 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173138 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173185 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173232 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173279 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173326 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173373 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173420 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173467 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173514 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173561 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173608 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173655 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
**
43173702 AATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
43173749 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
**
43173798 AATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
43173845 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
* * *
43173894 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
43173941 AATGTGAAAGTGTAT
1 AATGTGAAAGTGTAT
43173956 TATCAGTTGC
Statistics
Matches: 897, Mismatches: 11, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 807 0.90
49 90 0.10
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:43177687 original size:40 final size:40
Alignment explanation
Indices: 43177574--43177719 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
43177564 TTGAATGATG
* * * * *
43177574 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
43177614 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
43177654 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
43177695 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
43177720 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43177726 original size:40 final size:40
Alignment explanation
Indices: 43177613--43177726 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
43177603 AGGTGACCAT
43177613 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
*
43177653 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTA-A
* * *
43177694 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGT
43177727 AGCTATATCC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 64 0.96
41 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
Found at i:43179827 original size:20 final size:20
Alignment explanation
Indices: 43179802--43179844 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43179792 ACATTTATGT
43179802 ATGATAATTCAATGCACTTC
1 ATGATAATTCAATGCACTTC
43179822 ATGATAATTCAATGCACTTC
1 ATGATAATTCAATGCACTTC
43179842 ATG
1 ATG
43179845 TACCATAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGATAATTCAATGCACTTC
Found at i:43182569 original size:45 final size:44
Alignment explanation
Indices: 43182404--43182562 Score: 117
Period size: 45 Copynumber: 3.6 Consensus size: 44
43182394 CATCCATTAT
* * * * * * *
43182404 GAACTCGGACCAACTCAATGAGCTCAGA-TGCTCGCATCTGTAAT
1 GAACTCGGACCAACTCAACGAGCTCAGATTTC-CACATATATCAC
* *
43182448 GAACTCGGACCAACTCAACGATCTC-GAATGCTT-CACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCAG-AT--TTCCACATATATCAC
* * * * *
43182493 TAACTTGGACCAACTAAACAAGTTCAGATTTCCCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAGATTT-CCACATATATCAC
*
43182538 GAACTCGGACCAACTCAATGAGCTC
1 GAACTCGGACCAACTCAACGAGCTC
43182563 GAATTTCTTA
Statistics
Matches: 86, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
43 3 0.03
44 24 0.28
45 57 0.66
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAGATTTCCACATATATCAC
Found at i:43182714 original size:24 final size:24
Alignment explanation
Indices: 43182682--43182729 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43182672 GCGCTATCCA
43182682 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
43182706 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
43182730 ATAATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGTACCAATTGCCCATTCATGGC
Found at i:43182811 original size:14 final size:16
Alignment explanation
Indices: 43182779--43182817 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
43182769 ATTTGCATAA
*
43182779 CATATATCACATATTT
1 CATATATCACATATGT
43182795 CATATATCAC-T-TGT
1 CATATATCACATATGT
43182809 CATATATCA
1 CATATATCA
43182818 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:43183564 original size:12 final size:12
Alignment explanation
Indices: 43183547--43183571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43183537 AGAGATTGAT
43183547 AGTGAAAAAGAA
1 AGTGAAAAAGAA
43183559 AGTGAAAAAGAA
1 AGTGAAAAAGAA
43183571 A
1 A
43183572 AAAAAAGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:43185171 original size:46 final size:46
Alignment explanation
Indices: 43185121--43185479 Score: 394
Period size: 46 Copynumber: 7.7 Consensus size: 46
43185111 TGGTTGAGCA
*
43185121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
43185167 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
*
43185212 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
43185260 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
*
43185305 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
43185353 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
* * *
43185398 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
43185446 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43185480 GGGGCGGGTT
Statistics
Matches: 264, Mismatches: 28, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
43 18 0.07
45 12 0.05
46 118 0.45
47 87 0.33
48 12 0.05
50 17 0.06
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:43185277 original size:93 final size:93
Alignment explanation
Indices: 43185118--43185474 Score: 669
Period size: 93 Copynumber: 3.8 Consensus size: 93
43185108 GGATGGTTGA
43185118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
43185183 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
43185211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
43185276 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
43185304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
43185369 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
43185397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
43185462 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43185475 ACTTAGGGGC
Statistics
Matches: 259, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43185741 original size:19 final size:20
Alignment explanation
Indices: 43185704--43185741 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43185694 ATAAGGTGGT
43185704 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
43185724 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
43185742 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:43188155 original size:21 final size:21
Alignment explanation
Indices: 43188131--43188170 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43188121 TCAACCCATC
*
43188131 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
43188152 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
43188171 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:43188274 original size:35 final size:35
Alignment explanation
Indices: 43188223--43188299 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
43188213 TTTAGTTTAA
* * *
43188223 TTAATTAATTTTCTGGAATAAATTACTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATCACTCATCTTAG
*
43188258 TTAATTAAGTTGCTGGAATAAATCACTCGTCTTAG
1 TTAATTAAGTTGCTGGAATAAATCACTCATCTTAG
*
43188293 TTCATTA
1 TTAATTA
43188300 TGTTCATCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (35 bp):
TTAATTAAGTTGCTGGAATAAATCACTCATCTTAG
Found at i:43188409 original size:19 final size:19
Alignment explanation
Indices: 43188385--43188429 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
43188375 TAAGTCTAAT
*
43188385 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
43188404 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
43188423 ATGTGTT
1 ATGTGTT
43188430 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:43188424 original size:10 final size:10
Alignment explanation
Indices: 43188394--43188430 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
43188384 TATGTGTTCA
43188394 AATGT-TTTT
1 AATGTGTTTT
43188403 AATGTG-TTT
1 AATGTGTTTT
*
43188412 AATGAGTTTT
1 AATGTGTTTT
43188422 AATGTGTTT
1 AATGTGTTT
43188431 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:43189137 original size:48 final size:48
Alignment explanation
Indices: 43189046--43189138 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
43189036 TCGAGTGTGG
** *
43189046 CGTTCATATACCTTTGATTCCTATCAGTTTTTATAGTGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCAGTTTTTATAACGAGTCAAGGTT
* *
43189094 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGAGTCAAG
1 CGTTCATATACCTTTGATTCCTATCAGTTTTTATAACGAGTCAAG
43189139 CTCCTTTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCAGTTTTTATAACGAGTCAAGGTT
Found at i:43189655 original size:28 final size:28
Alignment explanation
Indices: 43189615--43189672 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
43189605 TAAAGTTGCA
43189615 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
43189643 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
43189671 AA
1 AA
43189673 CATATAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTGTATT
Found at i:43202760 original size:27 final size:27
Alignment explanation
Indices: 43202716--43202988 Score: 341
Period size: 27 Copynumber: 10.1 Consensus size: 27
43202706 TGGATAAGTT
* *
43202716 GTAGAATTACTAAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
43202743 GTAGAATTACTGACATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
43202770 ATAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
43202797 GTAGAATTACCGAAATACTCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* ** * **
43202824 ATAGAATTACCAAAATACCCTTGTAAA
1 GTAGAATTACTGAAATACCCCTGTAGG
*
43202851 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
43202878 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
43202905 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
43202932 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * **
43202959 GTAGGACTACTGATTTACCCCTAG-AGG
1 GTAGAATTACTGAAATACCCCT-GTAGG
43202986 GTA
1 GTA
43202989 AAGTGACTAT
Statistics
Matches: 215, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 214 1.00
28 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:43203667 original size:27 final size:26
Alignment explanation
Indices: 43203623--43203674 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43203613 CTCGCTGCAA
*
43203623 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
43203650 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
43203675 GCAGTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:43206500 original size:31 final size:30
Alignment explanation
Indices: 43206443--43206501 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
43206433 GTAAATACTC
* *
43206443 AAAATTTAAGGGATTAAAGTGTAAATATGA
1 AAAATTTAAGGGACTAAAGTGCAAATATGA
43206473 AAAATTTGAAGGG-CTAATAGTGCAAATAT
1 AAAATTT-AAGGGACTAA-AGTGCAAATAT
43206502 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTAAGGGACTAAAGTGCAAATATGA
Found at i:43206787 original size:11 final size:11
Alignment explanation
Indices: 43206771--43206795 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43206761 ATATGATATT
43206771 TTATTATTTTA
1 TTATTATTTTA
43206782 TTATTATTTTA
1 TTATTATTTTA
43206793 TTA
1 TTA
43206796 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:43212110 original size:26 final size:26
Alignment explanation
Indices: 43212080--43212134 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
43212070 CACATATCAC
43212080 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
43212106 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
43212132 TTT
1 TTT
43212135 CTTTCTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTACATATTTTGAAATTTAATCCT
Found at i:43212198 original size:17 final size:18
Alignment explanation
Indices: 43212176--43212216 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
43212166 TATTTCCTTA
*
43212176 TCATTTCCATATATC-CT
1 TCATTTACATATATCACT
*
43212193 TCATTTACATATTTCACT
1 TCATTTACATATATCACT
43212211 TCATTT
1 TCATTT
43212217 TCACATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTACATATATCACT
Found at i:43215671 original size:42 final size:42
Alignment explanation
Indices: 43215595--43215708 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
43215585 AGTACCGTGT
* * * * *
43215595 CAATGCCGTATCCCGGATATGGTCTT-TCATGAAAT-ATCATAT
1 CAATGCCATATCCCAGACATGGTCTTAT-ACGAAATCAT-ATAC
* * *
43215637 CGATGCCATGTCCCTGACATGGTCTTATACGAAATCATATAC
1 CAATGCCATATCCCAGACATGGTCTTATACGAAATCATATAC
* *
43215679 CAATTCCATATCCCAGATATGGTCTTATAC
1 CAATGCCATATCCCAGACATGGTCTTATAC
43215709 AGAATCTCGA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 55 0.95
43 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGTCTTATACGAAATCATATAC
Found at i:43216256 original size:26 final size:25
Alignment explanation
Indices: 43216208--43216259 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
43216198 TAACTCATAA
43216208 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
43216234 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
43216260 TAATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:43220294 original size:27 final size:27
Alignment explanation
Indices: 43220264--43220441 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43220254 ATATTGAGTC
* * * *
43220264 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43220291 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43220318 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43220346 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43220373 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43220400 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43220427 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43220442 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43220403 original size:82 final size:81
Alignment explanation
Indices: 43220285--43220440 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43220275 TGCTATATAA
* *
43220285 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43220350 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43220367 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43220431 CACTTAGTGC
65 CACTTAGTGC
43220441 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43226712 original size:24 final size:24
Alignment explanation
Indices: 43226662--43226715 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
43226652 AATCGAATTT
*
43226662 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
43226686 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
43226710 GCACAC
1 GCACAC
43226716 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:43234685 original size:79 final size:82
Alignment explanation
Indices: 43234574--43234758 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
43234564 GCTACTCGTT
* *
43234574 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43234637 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
43234654 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
43234717 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
43234734 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43234759 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:43234758 original size:40 final size:40
Alignment explanation
Indices: 43234555--43234758 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
43234545 CGGAATTTAA
** *
43234555 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43234595 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43234635 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43234674 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43234714 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43234754 CCGGA
1 CCGGA
43234759 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43241565 original size:80 final size:80
Alignment explanation
Indices: 43241440--43241599 Score: 275
Period size: 80 Copynumber: 2.0 Consensus size: 80
43241430 TTCAGGGTTC
*
43241440 GACTATTCTGACCTCTATGTATTACGAACAAGATATCTCTATGTACAGAGATTCAATGACTATGC
1 GACTACTCTGACCTCTATGTATTACGAACAAGATATCTCTATGTACAGAGATTCAATGACTATGC
43241505 CATTTGTCCCTAATA
66 CATTTGTCCCTAATA
* * *
43241520 GACTACTCTGACCTCTGTGTATTACGAACCAGATATCTCTCTGTACAGAGATTCAATGACTATGC
1 GACTACTCTGACCTCTATGTATTACGAACAAGATATCTCTATGTACAGAGATTCAATGACTATGC
*
43241585 CGTTTGTCCCTAATA
66 CATTTGTCCCTAATA
43241600 AAATTAGACT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (80 bp):
GACTACTCTGACCTCTATGTATTACGAACAAGATATCTCTATGTACAGAGATTCAATGACTATGC
CATTTGTCCCTAATA
Found at i:43242707 original size:24 final size:24
Alignment explanation
Indices: 43242657--43242710 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
43242647 AATCGAATTT
*
43242657 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
43242681 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
43242705 GCACAC
1 GCACAC
43242711 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:43253183 original size:18 final size:19
Alignment explanation
Indices: 43253155--43253194 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
43253145 CTATAGACAT
43253155 TAAATAAATATTAAAATAC
1 TAAATAAATATTAAAATAC
43253174 TAAA-AAATATTAAAATAC
1 TAAATAAATATTAAAATAC
43253192 TAA
1 TAA
43253195 CTCACTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATAAATATTAAAATAC
Found at i:43266786 original size:53 final size:54
Alignment explanation
Indices: 43266717--43266923 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 54
43266707 TTCCTTTTTA
* * *
43266717 AACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
43266770 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * * *
43266824 AAGTTTATCAATGCCATGTCTTAACATGATCTTACATGATTTCCTTGCCTTGTAG
1 AA-CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
43266879 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43266924 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:43269898 original size:81 final size:81
Alignment explanation
Indices: 43269762--43269923 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
43269752 GAACCCAAAG
* *
43269762 GAACTTCGAGTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGTTTGGTTA
1 GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
43269827 TCTAAACTAATTACTA
66 TCTAAACTAATTACTA
* *
43269843 GAACTTCGACTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTT
1 GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
43269908 TCTAAACTAATTACTA
66 TCTAAACTAATTACTA
43269924 ACTAAGAATG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (81 bp):
GAACTTCGACTACCAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATCAAGAGGTTTGGTTA
TCTAAACTAATTACTA
Found at i:43274924 original size:28 final size:28
Alignment explanation
Indices: 43274884--43274962 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
43274874 GCAATCAAAT
* *
43274884 ATGGCACTCAGTGTACAAAATATTAAGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
* * **
43274912 ATGGCACTTAGTGTGCGAGATATTGTGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
**
43274940 ATGAAACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
43274963 CGAATGATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTAAGA
Found at i:43275403 original size:21 final size:22
Alignment explanation
Indices: 43275372--43275412 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43275362 TAATGTATTG
*
43275372 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
43275394 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
43275413 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:43278087 original size:55 final size:55
Alignment explanation
Indices: 43277953--43278095 Score: 137
Period size: 55 Copynumber: 2.6 Consensus size: 55
43277943 TACATAGGTC
* * * *
43277953 CACGCCCGTGTTCGTTTTGGCAGTGTCGACCACAGATGGATGGCACGGGCGTGTTG
1 CACGCCCGTGTT-GTTTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGTTG
** ** * * *
43278009 CACGCCCGTGTT-TCTTTCTCAGTTTCAACCATGGTTTCAAGGCACGGGGGTGTCT-
1 CACGCCCGTGTTGT-TTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGT-TG
*
43278064 CACGCCCGTGTTGTTTTGGCAGTTTCATCCAC
1 CACGCCCGTGTTGTTTTGGCAGTTTCAACCAC
43278096 GGCCATATCG
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
54 1 0.01
55 54 0.78
56 14 0.20
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGTTTCAACCACAGATGCAAGGCACGGGCGTGTTG
Found at i:43294238 original size:28 final size:28
Alignment explanation
Indices: 43294207--43294284 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
43294197 TCAAATATGG
* *
43294207 CACTCAGTGTACGAAATATTGAGAATGC
1 CACTCAGTGTGCGAAATATTGAGAATGA
*
43294235 CACTTAGTGTGC-AAGATATTGAGAATGA
1 CACTCAGTGTGCGAA-ATATTGAGAATGA
*
43294263 CACTGAGTGTGCGAAATATTGA
1 CACTCAGTGTGCGAAATATTGA
43294285 ATGATTCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 40 0.91
29 2 0.05
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (28 bp):
CACTCAGTGTGCGAAATATTGAGAATGA
Found at i:43310995 original size:35 final size:35
Alignment explanation
Indices: 43310956--43311022 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
43310946 TTAGTAAATT
43310956 TGCATGTAAATAAATAACAACATTCTAAATGATAA
1 TGCATGTAAATAAATAACAACATTCTAAATGATAA
43310991 TGCATGTAAATAAATAACAACATTCTAAATGA
1 TGCATGTAAATAAATAACAACATTCTAAATGA
43311023 ATTATCAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (35 bp):
TGCATGTAAATAAATAACAACATTCTAAATGATAA
Found at i:43311283 original size:55 final size:53
Alignment explanation
Indices: 43311158--43311288 Score: 140
Period size: 53 Copynumber: 2.4 Consensus size: 53
43311148 TACCATTGTG
* * *
43311158 ATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCACTGCC
1 ATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACAACTGCC
* * * * *
43311211 ATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAGCTTATCAAC-GCC
1 ATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCA-CAACTGCC
43311266 ATGTCTTGACATGGTCTTACATG
1 ATGTCTTGACATGGTCTTACATG
43311289 ATTTTCGTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.03
53 30 0.47
54 1 0.02
55 28 0.44
56 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (53 bp):
ATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACAACTGCC
Found at i:43313019 original size:42 final size:42
Alignment explanation
Indices: 43312952--43313058 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
43312942 ATTAAGATGC
* ** * **
43312952 CAATGCCATGTCCCAGACGTGATCTTACATGGGATCTCACAT
1 CAATGCCATATCCCAGATATGATCTTACACGAAATCTCACAT
* * * *
43312994 CGATGCCATATCCCAGATATTATCTTATACGAAATCTCATAT
1 CAATGCCATATCCCAGATATGATCTTACACGAAATCTCACAT
*
43313036 CAACGCCATATCCCAGATATGAT
1 CAATGCCATATCCCAGATATGAT
43313059 AACACATAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGATCTTACACGAAATCTCACAT
Found at i:43320361 original size:30 final size:30
Alignment explanation
Indices: 43320327--43320386 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43320317 ATTTAATATG
43320327 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
43320357 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
43320387 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:43327430 original size:93 final size:93
Alignment explanation
Indices: 43327318--43327489 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
43327308 CGCCCATAAG
*
43327318 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
43327382 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
43327411 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43327476 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43327490 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43327484 original size:46 final size:46
Alignment explanation
Indices: 43327311--43327486 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
43327301 TGTAACCCGC
* *
43327311 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
43327357 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43327407 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43327450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43327487 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43329644 original size:96 final size:96
Alignment explanation
Indices: 43329473--43329652 Score: 270
Period size: 96 Copynumber: 1.9 Consensus size: 96
43329463 GTGTCCGAGG
* * ** * *
43329473 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
43329538 AAAAGTCGAAGCCAAGAGGGAAAATAGGAGC
66 AAAAGCCGAAGCCAAGAGGGAAAATAGGAGC
* *
43329569 AAGTCTGTCATCGAAGGGAACAATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTTGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
43329634 TAAAGCCGAAGCCAAGAGG
66 AAAAGCCGAAGCCAAGAGG
43329653 AGCAAAAAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGAAAATAGGAGC
Found at i:43331099 original size:19 final size:20
Alignment explanation
Indices: 43331077--43331115 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
43331067 TTTAAATAAT
43331077 TTTTTAT-TTTTTAAAACTA
1 TTTTTATATTTTTAAAACTA
43331096 TTTTTATAATTTTTAAAACT
1 TTTTTAT-ATTTTTAAAACT
43331116 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATATTTTTAAAACTA
Found at i:43331107 original size:9 final size:9
Alignment explanation
Indices: 43331095--43331131 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
43331085 TTTTAAAACT
*
43331095 ATTTTTATA
1 ATTTTTAAA
43331104 ATTTTTAAA
1 ATTTTTAAA
*
43331113 ACTTTTAAA
1 ATTTTTAAA
43331122 ATTTTTAAA
1 ATTTTTAAA
43331131 A
1 A
43331132 AATTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:43332493 original size:6 final size:6
Alignment explanation
Indices: 43332482--43332535 Score: 81
Period size: 6 Copynumber: 8.7 Consensus size: 6
43332472 GAAGAGGTAG
*
43332482 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAATAAA ATAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A-AAAAT
43332532 AAAA
1 AAAA
43332536 TATTTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 36 0.82
7 6 0.14
8 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:43335638 original size:18 final size:18
Alignment explanation
Indices: 43335614--43335669 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
43335604 ATGGGGTAAT
43335614 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
*
43335632 CGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
43335650 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
43335668 AG
1 AG
43335670 ATGGGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (18 bp):
AGGCCTAGTGATTACTCC
Found at i:43340560 original size:20 final size:21
Alignment explanation
Indices: 43340535--43340576 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
43340525 TTTGTCTATT
43340535 TATTTATTTATTA-TT-TTAAA
1 TATTTATTT-TTAGTTCTTAAA
43340555 TATTTATTTTTAGTTCTTAAA
1 TATTTATTTTTAGTTCTTAAA
43340576 T
1 T
43340577 TTCTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTATTTTTAGTTCTTAAA
Found at i:43341331 original size:26 final size:26
Alignment explanation
Indices: 43341301--43341353 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
43341291 AAATAAATTA
43341301 TGTAAACCTTTTTACAATAATAAGTC
1 TGTAAACCTTTTTACAATAATAAGTC
43341327 TGTAAACCTTTTTACAATAATAAGTC
1 TGTAAACCTTTTTACAATAATAAGTC
43341353 T
1 T
43341354 AAGTACTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (26 bp):
TGTAAACCTTTTTACAATAATAAGTC
Found at i:43341445 original size:13 final size:13
Alignment explanation
Indices: 43341411--43341452 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
43341401 TGCTGAAATA
*
43341411 AAAATAAATAATG
1 AAAATAAATAATC
43341424 AAAATAAATAATC
1 AAAATAAATAATC
*
43341437 AAGAA-AAATAAAC
1 AA-AATAAATAATC
43341450 AAA
1 AAA
43341453 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.88
14 2 0.08
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAATAAATAATC
Found at i:43343844 original size:18 final size:18
Alignment explanation
Indices: 43343821--43343858 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
43343811 TGTTCTTAGG
*
43343821 AAAACC-TCTATTTGCATA
1 AAAACCGTCAATTT-CATA
43343839 AAAACCGTCAATTTCATA
1 AAAACCGTCAATTTCATA
43343857 AA
1 AA
43343859 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAACCGTCAATTTCATA
Found at i:43344182 original size:24 final size:24
Alignment explanation
Indices: 43344155--43344207 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
43344145 ATATACACAG
*
43344155 TCAGAAGCAGATATAGTTTCAAAT
1 TCAGAAGCAGATATAGATTCAAAT
** * *
43344179 TCAGATTCAGATCTAGATTCAGAT
1 TCAGAAGCAGATATAGATTCAAAT
43344203 TCAGA
1 TCAGA
43344208 TTATAGAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (24 bp):
TCAGAAGCAGATATAGATTCAAAT
Found at i:43344188 original size:6 final size:6
Alignment explanation
Indices: 43344172--43344209 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
43344162 CAGATATAGT
*
43344172 TTCAAA TTCAGA TTCAGA -TCTAGA TTCAGA TTCAGA TT
1 TTCAGA TTCAGA TTCAGA TTC-AGA TTCAGA TTCAGA TT
43344210 ATAGAAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (6 bp):
TTCAGA
Found at i:43345503 original size:55 final size:55
Alignment explanation
Indices: 43345434--43345564 Score: 199
Period size: 55 Copynumber: 2.4 Consensus size: 55
43345424 CCCTTAGCCC
* *
43345434 GTGTGCAACACTGACTATAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
* * * *
43345489 GTGTACAACACTGACTTTAAAACACGACCATGACACACTCCCGTGTGGTCTGCCC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
*
43345544 GTGTTCAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
43345565 TTTTAAGTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCATGTGGCCTGCCA
Found at i:43346534 original size:47 final size:46
Alignment explanation
Indices: 43346325--43346643 Score: 222
Period size: 49 Copynumber: 6.7 Consensus size: 46
43346315 GGGATATGTT
* *
43346325 GCCGATGCCATGT-CCTGAACATGGTCTTACACTGGCTATCATCATCGAG
1 GCCGATG-CATGTCCCAG-ACAT-GTCTTACACTGGCTATCATC-TTGAG
** * ** * * *
43346374 GTTGATGCCATGTCCTAGACATGGTCTTATGCTAGCTCTCGTCTAT-ACG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCT-TGA-G
* * * * *
43346423 TGCTGATGCGTGTCCCAGACACGTCTTACACTAG--AACAGCTCTT-A-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCA--TCTTGAG
* *
43346468 GCCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TTGAG
* * *
43346515 GTCGATGCATGTCCCAGACATGTCTTACACTGG-TGCTCATTCTCT-AC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ATCA-TCT-TGAG
* * *
43346562 ACCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTTGAG
43346610 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
43346644 ACACAAATAA
Statistics
Matches: 216, Mismatches: 36, Indels: 39
0.74 0.12 0.13
Matches are distributed among these distances:
44 31 0.14
45 2 0.01
46 19 0.09
47 57 0.26
48 40 0.19
49 58 0.27
50 9 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTTGAG
Found at i:43346620 original size:95 final size:94
Alignment explanation
Indices: 43346469--43346642 Score: 278
Period size: 95 Copynumber: 1.8 Consensus size: 94
43346459 CAGCTCTTAG
* * *
43346469 CCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTTGAGGTCGATGCATGTCCCAGAC
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAGAC
43346534 ATGTCTTACACTGGTGCTCATTCTCTACA
66 ATGTCTTACACTGGTGCTCATTCTCTACA
* *
43346563 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATTGTGGCCGATGCATGTCCCAG
1 CCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAG
43346627 ACATGTCTTACACTGG
64 ACATGTCTTACACTGG
43346643 CACACAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
94 6 0.08
95 48 0.66
96 19 0.26
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGTGCTCATTCTCTACA
Found at i:43355552 original size:55 final size:55
Alignment explanation
Indices: 43355487--43355617 Score: 208
Period size: 55 Copynumber: 2.4 Consensus size: 55
43355477 CCCTTAGCCT
* * *
43355487 GTGTGCAACACTGACTTTAAAACACGGCCATGACACATGCCCGTGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
* *
43355542 GTGTACAACACTGAATTTAAAACATGGCCATGACACACGCCCATGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
*
43355597 GTGTTCAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
43355618 TTTAAGTGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
Found at i:43356579 original size:47 final size:46
Alignment explanation
Indices: 43356375--43356691 Score: 246
Period size: 47 Copynumber: 6.7 Consensus size: 46
43356365 GATATATTAT
* *
43356375 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATTGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATC-TCGAGGC
** * * * * * **
43356424 TAATGCCATGTTCCAGACATGGTCTTATATTGGCTCTCGTCTATACGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGA-G-GC
* * * * * *
43356474 TGGTGCGT-TCCCCAGACATGTCTTACACTAGC-A-CAACTCTTA-GC
1 CGATGCATGT-CCCAGACATGTCTTACACTGGCTATCATCTC-GAGGC
*
43356518 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TCGAGGC
** * *
43356565 CGATGCATGTCCCAGACATGTCTTACACTGGCGCTCATTCTCTACGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCA-TCTCGAGGC
* * *
43356612 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAGGC
**
43356660 TAATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
43356692 ACATAGATAA
Statistics
Matches: 214, Mismatches: 42, Indels: 27
0.76 0.15 0.10
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 20 0.09
47 64 0.30
48 36 0.17
49 60 0.28
50 5 0.02
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGC
Found at i:43356667 original size:95 final size:91
Alignment explanation
Indices: 43356484--43356694 Score: 280
Period size: 95 Copynumber: 2.3 Consensus size: 91
43356474 TGGTGCGTTC
*
43356484 CCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
1 CCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
* *
43356549 CTATCATCGTCGAGGCCGATGCATGT
66 CTATCATCATCGAGGCCAATGCATGT
* * * *
43356575 CCCAGACATGTCTTACACTGGCGCTCATTCTCTACGCCGATGCCATGTCCCAGACATGGTCTTAC
1 CCCAGACATGTCTTACACTGGCAC-AACTCT-TA-GCCGATG-CATGTCCCAGACA-CGTCTTAC
* * *
43356640 ACTGGCTATCAT-ATTGTGGCTAATGCATGT
61 ACTGGCTATCATCATCGAGGCCAATGCATGT
43356670 CCCAGACATGTCTTACACTGGCACA
1 CCCAGACATGTCTTACACTGGCACA
43356695 TAGATAATCT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
91 22 0.21
92 4 0.04
93 2 0.02
94 7 0.07
95 49 0.48
96 19 0.18
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (91 bp):
CCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
CTATCATCATCGAGGCCAATGCATGT
Found at i:43361014 original size:46 final size:46
Alignment explanation
Indices: 43360957--43361083 Score: 236
Period size: 46 Copynumber: 2.8 Consensus size: 46
43360947 TAATATGTGT
*
43360957 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
1 GCTAGTATAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
43361003 GCTAGTATAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
1 GCTAGTATAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
*
43361049 GCTAGTATAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTATAAGACATGTCTGGGACATGCATTGGCC
43361084 TCGAGATATA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTATAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
Found at i:43361224 original size:49 final size:49
Alignment explanation
Indices: 43361143--43361319 Score: 171
Period size: 49 Copynumber: 3.6 Consensus size: 49
43361133 TGTTGTGTGT
* * * *
43361143 CAGTGTAATACCTGTTTGGGACATGGCATCGACAATGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
* ** * *
43361192 CACG-GTAAGACCTGTCTGGGATACGGCATCGACCTTGATATATGAAAGT
1 CA-GTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
* * ** **
43361241 CAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
*
43361288 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACACGGCATCG
43361320 GCATCTTATC
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 16 0.15
48 19 0.18
49 71 0.66
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACGGCATCGACAATGATAGATGAAAGC
Found at i:43367934 original size:16 final size:15
Alignment explanation
Indices: 43367895--43367957 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
43367885 TTTGATAATG
*
43367895 TATCTTGGATTTCTA
1 TATCTTGGATTTCTT
* *
43367910 AATCATGGAATTTCTT
1 TATCTTGG-ATTTCTT
*
43367926 TATCTTGGATATCTT
1 TATCTTGGATTTCTT
* *
43367941 TGTCTT-GACTTCTT
1 TATCTTGGATTTCTT
43367955 TAT
1 TAT
43367958 ATGGATTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
14 8 0.22
15 17 0.46
16 12 0.32
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:43369971 original size:31 final size:31
Alignment explanation
Indices: 43369936--43370000 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
43369926 AAGTAAGTGA
43369936 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
43369967 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
43369998 TTT
1 TTT
43370001 TGGAACCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTAGATGCCTATTTTTGATAATTTTTGTAC
Found at i:43370984 original size:49 final size:49
Alignment explanation
Indices: 43370878--43371099 Score: 150
Period size: 49 Copynumber: 4.6 Consensus size: 49
43370868 TATGTGTGCT
* * ** * *
43370878 AGTGTAAAACATGTCTGGGACAT-GCATC-AGCCTCGGGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGA-AAGCC
* *
43370926 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * * * *
43370975 AGTTTAAGACATGTCTGGGATACGGCATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * **
43371024 AGTGTAAGACCTGTCTGGGACGTGACATCGGCTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
43371071 AGTGCAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
43371100 GTAACACCCC
Statistics
Matches: 134, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
47 15 0.11
48 36 0.27
49 80 0.60
50 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:43372583 original size:40 final size:40
Alignment explanation
Indices: 43372485--43372747 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
43372475 TCCTCGTTCA
* * * * *
43372485 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43372524 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43372564 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43372604 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43372644 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
43372684 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43372724 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43372748 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43380536 original size:40 final size:40
Alignment explanation
Indices: 43380438--43380700 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
43380428 TCCTCGTTCA
* * * * *
43380438 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43380477 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43380517 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43380557 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43380597 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
43380637 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43380677 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43380701 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43384209 original size:13 final size:13
Alignment explanation
Indices: 43384191--43384216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43384181 TTTTGGTTTA
43384191 GTTTTGAATCAAT
1 GTTTTGAATCAAT
43384204 GTTTTGAATCAAT
1 GTTTTGAATCAAT
43384217 CCCGATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTGAATCAAT
Found at i:43397968 original size:43 final size:42
Alignment explanation
Indices: 43397921--43398019 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
43397911 TCTCAGACGT
* ** *
43397921 GGTCTTACATGTCATCAAACAGCGATGCC-ACTGTCCTAGACAA
1 GGTCTTACATGTAATCAAACA-CGACACCGA-TGTCCCAGACAA
* * *
43397964 GGTCTTACATGAAATCAAATACGACACCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAACACGACACCGATGTCCCAGACAA
43398006 GGTCTTACATGTAA
1 GGTCTTACATGTAA
43398020 AACAGAAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACACGACACCGATGTCCCAGACAA
Found at i:43399403 original size:23 final size:23
Alignment explanation
Indices: 43399377--43399459 Score: 157
Period size: 23 Copynumber: 3.6 Consensus size: 23
43399367 AGTCAAGCCT
43399377 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
43399400 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
43399423 CACACGCCCGTGTGAAGGCAAGG
1 CACACGCCCGTGTGAAGGCAAGG
*
43399446 CACATGCCCGTGTG
1 CACACGCCCGTGTG
43399460 CTTTGGGACA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.24, C:0.31, G:0.34, T:0.11
Consensus pattern (23 bp):
CACACGCCCGTGTGAAGGCAAGG
Found at i:43401343 original size:19 final size:19
Alignment explanation
Indices: 43401308--43401345 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43401298 ATGTGGGGCC
*
43401308 CACGAGCCCATTTGGCCCA
1 CACGAGCCCATTAGGCCCA
43401327 CACGA-CCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
43401346 ACGTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:43416302 original size:12 final size:12
Alignment explanation
Indices: 43416287--43416345 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
43416277 ATATAATTTT
*
43416287 AGATTCAGATTC
1 AGATTTAGATTC
* *
43416299 AGATTCAGATCC
1 AGATTTAGATTC
*
43416311 AGATTTAGATTT
1 AGATTTAGATTC
*
43416323 AGATTTAGATCC
1 AGATTTAGATTC
43416335 AGATTTAGATT
1 AGATTTAGATT
43416346 TACATAAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (12 bp):
AGATTTAGATTC
Done.