Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 135 of 276
Found at i:43761678 original size:14 final size:14
Alignment explanation
Indices: 43761659--43761689 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43761649 TCTTCTTGGC
*
43761659 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
43761673 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
43761687 CGG
1 CGG
43761690 ACCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:43766876 original size:5 final size:5
Alignment explanation
Indices: 43766866--43766893 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43766856 GCTAGGCATA
43766866 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
43766894 TTGGGTAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (5 bp):
TTTGG
Found at i:43773771 original size:5 final size:5
Alignment explanation
Indices: 43773761--43773788 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43773751 GCTAGGCATA
43773761 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
43773789 TTGGGTAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (5 bp):
TTTGG
Found at i:43779176 original size:40 final size:40
Alignment explanation
Indices: 43778989--43779169 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
43778979 ATGATGTCCA
* * * *
43778989 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * * *
43779029 GACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
43779069 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
43779108 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
43779148 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
43779170 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 33 0.28
40 77 0.65
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:43779191 original size:79 final size:79
Alignment explanation
Indices: 43779038--43779202 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
43779028 GGACTAAGAT
* * **
43779038 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43779103 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
43779117 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43779180 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43779196 CCGAAGG
1 CCGAAGG
43779203 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43781957 original size:46 final size:46
Alignment explanation
Indices: 43781890--43782067 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
43781880 TGTAACCCGC
* *
43781890 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * * * * *
43781936 CCATAGGTGAACTCAGACTCAACACAACAAGTTCGGATG-CCTACTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTC-GCAT
* * * * * **
43781982 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
43782029 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
43782068 CTCAACCATC
Statistics
Matches: 97, Mismatches: 30, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
45 3 0.03
46 63 0.65
47 29 0.30
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:43782065 original size:93 final size:93
Alignment explanation
Indices: 43781897--43782068 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
43781887 CGCCCATAAG
*** *
43781897 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGGTGAACTCAGACTCAACACA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACACA
*
43781962 ACAAGTTCGGATGCCTACTTACATTTCA
66 ACAAGCTCGGATGCCTACTTACATTTCA
* * * *
43781990 CGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACACA
*
43782055 ACGAGCTCGGATGC
66 ACAAGCTCGGATGC
43782069 TCAACCATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACACA
ACAAGCTCGGATGCCTACTTACATTTCA
Found at i:43784542 original size:15 final size:15
Alignment explanation
Indices: 43784454--43784542 Score: 76
Period size: 15 Copynumber: 6.0 Consensus size: 15
43784444 CAAAGATAAC
*
43784454 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
43784468 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
* **
43784483 GAGAAAGTCGGA-ATA
1 AAGAAA-TCCAAGATA
43784498 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
43784513 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
43784528 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
43784543 CGATACTATG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
13 1 0.02
14 12 0.20
15 42 0.71
16 4 0.07
ACGTcount: A:0.57, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:43786171 original size:27 final size:27
Alignment explanation
Indices: 43786133--43786186 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
43786123 AATCGACTAA
*
43786133 ACCTGCTCTGATACTACTAAATGTAAT
1 ACCTGCTCTGATACCACTAAATGTAAT
43786160 ACCTGCTCTGATACCACTAAATGTAAT
1 ACCTGCTCTGATACCACTAAATGTAAT
43786187 GCCCCATACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (27 bp):
ACCTGCTCTGATACCACTAAATGTAAT
Found at i:43787647 original size:93 final size:93
Alignment explanation
Indices: 43787488--43787659 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
43787478 CGCCCATAAG
* * * * *
43787488 CGAACTCGAACTCAACTCAAGGAGCTCGGGCGTTCTCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43787553 ACAAGTTCGGATGCCTAGTTACATTTCA
66 ACAAGCTCGGATGCCTAGTTACATTTCA
* * *
43787581 CGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43787646 ACGAGCTCGGATGC
66 ACAAGCTCGGATGC
43787660 TCAACCATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATTTCA
Found at i:43790367 original size:56 final size:56
Alignment explanation
Indices: 43790307--43790442 Score: 227
Period size: 56 Copynumber: 2.4 Consensus size: 56
43790297 GTCCCAGACA
* *
43790307 TGGTCTTACTCACACACATATATCGGAATCACATATTGATGCCAACGTATTAAATG
1 TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAATG
* *
43790363 TGGTCTTACTCGCACATATATATTGGAATCACATATCGATGCCAACGTATTAAATG
1 TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAATG
*
43790419 TGGTCTTACCCGCACACATATATC
1 TGGTCTTACTCGCACACATATATC
43790443 AATGCCATGG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (56 bp):
TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAATG
Found at i:43791602 original size:14 final size:15
Alignment explanation
Indices: 43791585--43791613 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43791575 ACACAAAAAG
43791585 TTCACACA-TATAAA
1 TTCACACATTATAAA
43791599 TTCACACATTATAAA
1 TTCACACATTATAAA
43791614 CATAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:43795558 original size:30 final size:30
Alignment explanation
Indices: 43795524--43795586 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
43795514 AGCATCAAAA
43795524 CATGTTATATTATCAACATAGCCAAATAAG
1 CATGTTATATTATCAACATAGCCAAATAAG
43795554 CATGTTATATTATCAACATAGCCAAATAAG
1 CATGTTATATTATCAACATAGCCAAATAAG
43795584 CAT
1 CAT
43795587 TTTAAACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (30 bp):
CATGTTATATTATCAACATAGCCAAATAAG
Found at i:43799391 original size:21 final size:21
Alignment explanation
Indices: 43799367--43799410 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43799357 GACTATAGTC
*
43799367 ATATTTGACGAGAATTCGACT
1 ATATTTGACAAGAATTCGACT
*
43799388 ATATTTGACAAGAATTCGGCT
1 ATATTTGACAAGAATTCGACT
43799409 AT
1 AT
43799411 GTATGGCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATATTTGACAAGAATTCGACT
Found at i:43799534 original size:41 final size:40
Alignment explanation
Indices: 43799406--43799535 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 40
43799396 CAAGAATTCG
* * * *
43799406 GCTATGTATGGCACTTAGTGTGCGATTCGGGATAGCGTCA
1 GCTATGTATAGCACTTAGTGTGCGATTTGAGATAGCTTCA
* * * *
43799446 ACTATGTATAGCACTTCGTGAGCGATTTGAGATAGCTTCG
1 GCTATGTATAGCACTTAGTGTGCGATTTGAGATAGCTTCA
* *
43799486 GCTATGTATAGCACTTAGTGTGCGATATTAAAATAGCTTCA
1 GCTATGTATAGCACTTAGTGTGCGAT-TTGAGATAGCTTCA
43799527 GCTATGTAT
1 GCTATGTAT
43799536 TGGCGCATAG
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 55 0.73
41 20 0.27
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (40 bp):
GCTATGTATAGCACTTAGTGTGCGATTTGAGATAGCTTCA
Found at i:43802494 original size:48 final size:48
Alignment explanation
Indices: 43802422--43802566 Score: 161
Period size: 48 Copynumber: 3.0 Consensus size: 48
43802412 TGTCATTAGG
* * * *
43802422 GATACATTGATTTGGCTT-TGGGCCATGATATTAGCACTTTGGGTGCGA
1 GATACATTGATTTGGCTTCT-GGCCATGATACTGGCACTTAGAGTGCGA
* * * *
43802470 GATACATTGATTTGGCTTCTGGCCATGATACCGGAACTTCGAGTGTGA
1 GATACATTGATTTGGCTTCTGGCCATGATACTGGCACTTAGAGTGCGA
* *
43802518 -ATTACTTTGATTTGGCTTC-GGCCATGATACTGGCACTTAGTGTGCGA
1 GA-TACATTGATTTGGCTTCTGGCCATGATACTGGCACTTAGAGTGCGA
43802565 GA
1 GA
43802567 CTCTTGAGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
47 24 0.30
48 56 0.69
49 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (48 bp):
GATACATTGATTTGGCTTCTGGCCATGATACTGGCACTTAGAGTGCGA
Found at i:43810615 original size:17 final size:18
Alignment explanation
Indices: 43810574--43810616 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
43810564 GTATACAATC
43810574 TTTAAAAATTTTCATAACT
1 TTTAAAAATTTTCA-AACT
*
43810593 TATAAAAATTTTC-AACT
1 TTTAAAAATTTTCAAACT
43810610 TTTAAAA
1 TTTAAAA
43810617 GGTCAAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAAAATTTTCAAACT
Found at i:43812041 original size:30 final size:30
Alignment explanation
Indices: 43812007--43812067 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43811997 TTCCCGAGCC
43812007 TAGGGACAAAAGTGTAAATATGCAAAAGTT
1 TAGGGACAAAAGTGTAAATATGCAAAAGTT
* * * *
43812037 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGACAAAAGTGTAAATATGCAAAAGTT
43812067 T
1 T
43812068 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGACAAAAGTGTAAATATGCAAAAGTT
Found at i:43812883 original size:64 final size:64
Alignment explanation
Indices: 43812734--43812985 Score: 186
Period size: 68 Copynumber: 3.8 Consensus size: 64
43812724 TACAGATAGT
* ** * * * * *
43812734 ATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
43812798 TATG
62 TA-A
* * * *
43812802 ATGTAGCTAGGTCGCATGGGCGATACTAAGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
43812866 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGGGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGAT
43812931 AA
63 AA
* * * **
43812933 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTTACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
43812986 CGAACTATAT
Statistics
Matches: 146, Mismatches: 33, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
62 1 0.01
63 17 0.12
64 25 0.17
65 2 0.01
66 23 0.16
67 31 0.21
68 46 0.32
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:43819067 original size:44 final size:44
Alignment explanation
Indices: 43819005--43819089 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
43818995 TGTAGGATAG
43819005 TTTTTCTCATGCAGCTTCAACTGTCGTGCAGAATAGGCTATACT
1 TTTTTCTCATGCAGCTTCAACTGTCGTGCAGAATAGGCTATACT
*
43819049 TTTTTCTCATGCAGCTTCAACTGTCGTGCAGCATAGGCTAT
1 TTTTTCTCATGCAGCTTCAACTGTCGTGCAGAATAGGCTAT
43819090 TACCTTGCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (44 bp):
TTTTTCTCATGCAGCTTCAACTGTCGTGCAGAATAGGCTATACT
Found at i:43828822 original size:39 final size:39
Alignment explanation
Indices: 43828767--43828844 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
43828757 TATACTCCTC
* *
43828767 ATTCCTGCAATCAATCTCATCAAGATAGGGCTTTAATCG
1 ATTCCTGCAATCAATCTCATCAAAATAAGGCTTTAATCG
* * *
43828806 ATTCCTGCTATTAATCTCATCAAAATAAGGTTTTAATCG
1 ATTCCTGCAATCAATCTCATCAAAATAAGGCTTTAATCG
43828845 GGTGTTGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (39 bp):
ATTCCTGCAATCAATCTCATCAAAATAAGGCTTTAATCG
Found at i:43831672 original size:39 final size:40
Alignment explanation
Indices: 43831572--43831756 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
43831562 TTGAATGATG
*
43831572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
43831611 ATCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
43831652 TCCGGGCTAAG-GCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
43831691 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
43831730 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43831757 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
39 36 0.29
40 73 0.59
41 13 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:43831778 original size:79 final size:79
Alignment explanation
Indices: 43831625--43831789 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
43831615 GGACCAAGAT
* * ** *
43831625 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGGCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
43831690 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
43831704 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
43831766 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
43831783 CCGAAGG
1 CCGAAGG
43831790 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.63
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:43833935 original size:51 final size:50
Alignment explanation
Indices: 43833864--43834023 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
43833854 CTGATCACAT
43833864 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
43833915 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
43833965 TTCTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
43834016 TTGTCACT
1 TTATCACT
43834024 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:43841745 original size:51 final size:50
Alignment explanation
Indices: 43841674--43841827 Score: 245
Period size: 51 Copynumber: 3.0 Consensus size: 50
43841664 CTGATCACAT
43841674 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
43841725 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
43841775 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
43841826 TT
1 TT
43841828 GCCACTGATC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.48
51 49 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:43843463 original size:89 final size:89
Alignment explanation
Indices: 43843312--43843490 Score: 279
Period size: 89 Copynumber: 2.0 Consensus size: 89
43843302 TCATCAATTT
* * * *
43843312 TCCTGCTGATTTCATTCCTCTTGCCGTCCACCCCAAATAGCCCTTGGGTCTATTTGCCTTTTAAA
1 TCCTGCTGATTTCATGCCTCTTGCCATCCACCCCAAATAGACCTGGGGTCTATTTGCCTTTTAAA
*
43843377 CCCTCTCTCTTTTATCATTTAAGC
66 CCCTATCTCTTTTATCATTTAAGC
*
43843401 TCCTGCTGATTTCATGCAC-CTTGCCATCCAGCCCAAATAGACCTGGGGTCTATTTGCCTTTTAA
1 TCCTGCTGATTTCATGC-CTCTTGCCATCCACCCCAAATAGACCTGGGGTCTATTTGCCTTTTAA
*
43843465 ACCCTATTTCTTTTATCATTTAAGC
65 ACCCTATCTCTTTTATCATTTAAGC
43843490 T
1 T
43843491 ATTTAATCAT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 81 0.99
90 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (89 bp):
TCCTGCTGATTTCATGCCTCTTGCCATCCACCCCAAATAGACCTGGGGTCTATTTGCCTTTTAAA
CCCTATCTCTTTTATCATTTAAGC
Found at i:43852961 original size:25 final size:26
Alignment explanation
Indices: 43852927--43852978 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
43852917 CTAGCCGAAC
43852927 CCTAAAACTCTTTTTCTTTT-TTTTT
1 CCTAAAACTCTTTTTCTTTTCTTTTT
43852952 CCTAAAACTCTTTTTCTTTTCTTTTT
1 CCTAAAACTCTTTTTCTTTTCTTTTT
43852978 C
1 C
43852979 TTGCCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (26 bp):
CCTAAAACTCTTTTTCTTTTCTTTTT
Found at i:43861797 original size:16 final size:16
Alignment explanation
Indices: 43861776--43861808 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43861766 ATTTATTTTC
*
43861776 ATTTGCATCATATATA
1 ATTTGCATCACATATA
43861792 ATTTGCATCACATATA
1 ATTTGCATCACATATA
43861808 A
1 A
43861809 AGTAACCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:43862025 original size:43 final size:42
Alignment explanation
Indices: 43861968--43862090 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 42
43861958 AACACCAATC
43861968 TCCCAGAC-GTGGTCTTACATGTAGTCACATATCGATG-CCACTG
1 TCCCAGACAG-GGTCTTACATGTA-TCACATATCGATGTCCA-TG
* * * *
43862011 TCCCAGACAGGGTCTTACACGGATCAAATA-CGATGTCGATG
1 TCCCAGACAGGGTCTTACATGTATCACATATCGATGTCCATG
* *
43862052 TCCCAGACATGGTCTTACATGTAATCACATATTGATGTC
1 TCCCAGACAGGGTCTTACATGT-ATCACATATCGATGTC
43862091 AACGTATAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
41 26 0.39
42 15 0.22
43 25 0.37
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGTATCACATATCGATGTCCATG
Found at i:43862806 original size:15 final size:15
Alignment explanation
Indices: 43862783--43862812 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43862773 TCAAAAATTC
43862783 TAATACAAAACATAT
1 TAATACAAAACATAT
*
43862798 TAATCCAAAACATAT
1 TAATACAAAACATAT
43862813 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:43863349 original size:14 final size:15
Alignment explanation
Indices: 43863332--43863360 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43863322 ACACGAAAAT
43863332 TTCACAC-ATATAAA
1 TTCACACAATATAAA
43863346 TTCACACAATATAAA
1 TTCACACAATATAAA
43863361 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACAATATAAA
Found at i:43872590 original size:12 final size:12
Alignment explanation
Indices: 43872573--43872618 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
43872563 GTGATCGGTT
43872573 GGAGAGATTTTA
1 GGAGAGATTTTA
*
43872585 GGAGAG-TATTA
1 GGAGAGATTTTA
*
43872596 -AAG-GATTTTA
1 GGAGAGATTTTA
43872606 GGAGAGATTTTA
1 GGAGAGATTTTA
43872618 G
1 G
43872619 TTGATGCCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
9 1 0.04
10 6 0.22
11 6 0.22
12 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (12 bp):
GGAGAGATTTTA
Found at i:43879177 original size:19 final size:20
Alignment explanation
Indices: 43879153--43879190 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43879143 GGTACCACCA
43879153 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43879172 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43879191 ACCACCTTAT
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:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43879529 original size:93 final size:93
Alignment explanation
Indices: 43879419--43879589 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
43879409 GCCCCTAAGT
* * * *
43879419 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
43879484 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* * * *
43879512 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
43879577 CGAGTTCGGATGC
66 CAAGTTCGGATGC
43879590 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:43886805 original size:15 final size:15
Alignment explanation
Indices: 43886781--43886810 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43886771 CTAATGTATT
43886781 TTTTGAGGTTTCAGC
1 TTTTGAGGTTTCAGC
*
43886796 TTTTGTGGTTTCAGC
1 TTTTGAGGTTTCAGC
43886811 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.27, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCAGC
Found at i:43895552 original size:19 final size:20
Alignment explanation
Indices: 43895528--43895565 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43895518 GGTACCACCA
43895528 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43895547 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43895566 ACCAACTTAT
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:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43895836 original size:69 final size:69
Alignment explanation
Indices: 43895736--43895875 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
43895726 ATACACGGAT
* *
43895736 AATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCACCCCTAAGTGAACTCGG
1 AATTTGCACATAAGTGCCACATATGTAATCAAGAAATCATGTAACCCACCCCTAAGTGAACTCAG
43895801 ACTC
66 ACTC
*
43895805 AATTTGCACATAAGTGCCACATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAACTCAG
1 AATTTGCACATAAGTGCCACATATGTAATCAAGAAATCATGTAACCCACCCCTAAGTGAACTCAG
43895870 ACTC
66 ACTC
43895874 AA
1 AA
43895876 CTCAACGAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (69 bp):
AATTTGCACATAAGTGCCACATATGTAATCAAGAAATCATGTAACCCACCCCTAAGTGAACTCAG
ACTC
Found at i:43895928 original size:46 final size:45
Alignment explanation
Indices: 43895861--43896028 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
43895851 CGCCCCTAAG
* *
43895861 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATAAA
* * * * *
43895907 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTAA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA-TAAA
** * * *
43895954 CAAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATAAA
*
43896000 TGAACTTGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
43896029 ATGCTCAACC
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.61
47 34 0.35
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCATAAA
Found at i:43895974 original size:93 final size:93
Alignment explanation
Indices: 43895863--43896032 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
43895853 CCCCTAAGTG
* *
43895863 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
43895928 GAGTTCGGATGCCTAGTTACATTTAACA
66 GAGTTCGGATGCCTAGTTACATTTAACA
* * * * *
43895956 AACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
43896021 GAGTTCGGATGC
66 GAGTTCGGATGC
43896033 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTAACA
Found at i:43899629 original size:16 final size:16
Alignment explanation
Indices: 43899608--43899638 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43899598 ATATATTTTC
*
43899608 ATTTGCATCATATATA
1 ATTTGCATCACATATA
43899624 ATTTGCATCACATAT
1 ATTTGCATCACATAT
43899639 CAAGTAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:43899848 original size:43 final size:42
Alignment explanation
Indices: 43899793--43899962 Score: 204
Period size: 43 Copynumber: 4.0 Consensus size: 42
43899783 ATATCGTACA
*
43899793 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
43899836 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATAAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCACATATCG
* *
43899877 ATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
43899919 ATGCCAACGTCCCAGACGTGGTCTTACATGAGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-ATCACATATCG
43899962 A
1 A
43899963 AAATCCTATG
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
40 20 0.18
41 15 0.14
42 17 0.16
43 56 0.51
44 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:43900285 original size:15 final size:16
Alignment explanation
Indices: 43900267--43900303 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
43900257 ATCTAAACAT
43900267 ATTCAAAT-TAAATTC
1 ATTCAAATATAAATTC
*
43900282 ATTCAAATATAATTTC
1 ATTCAAATATAAATTC
43900298 ATTCAA
1 ATTCAA
43900304 TTTAGTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTCAAATATAAATTC
Found at i:43902902 original size:48 final size:48
Alignment explanation
Indices: 43902829--43903008 Score: 227
Period size: 48 Copynumber: 3.8 Consensus size: 48
43902819 CATTAGGGGA
* *
43902829 ACATTGATCTGGCTTCGGGCAATGATATTAGCACTTTGGGTGCGAGAT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
* * *** *
43902877 ACATTGGTTTGGCTTCGAGCCATGATACCGGCACTTCGGGTGCGA-ATT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGA-T
* *
43902925 ACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCAAGAT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
* * *
43902973 ATATTGAGTTGGCTTCGGGCCATGATATTGGCACTT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTT
43903009 ATAGTGTGTG
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 108 0.98
49 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (48 bp):
ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
Found at i:43902996 original size:96 final size:96
Alignment explanation
Indices: 43902832--43903008 Score: 275
Period size: 96 Copynumber: 1.8 Consensus size: 96
43902822 TAGGGGAACA
*
43902832 TTGATCTGGCTTCGGGCAATGATATTAGCACTTTGGGTGCGAGATACATTGGTTTGGCTTCGAGC
1 TTGATCTGGCTTCGGGCAATGATATTAGCACTTTGGGTGCAAGATACATTGGTTTGGCTTCGAGC
43902897 CATGATACCGGCACTTCGGGTGCGAATTACT
66 CATGATACCGGCACTTCGGGTGCGAATTACT
* * * *
43902928 TTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCAAGATATATTGAG-TTGGCTTCGGG
1 TTGATCTGGCTTCGGGCAATGATATTAGCACTTTGGGTGCAAGATACATTG-GTTTGGCTTCGAG
**
43902992 CCATGATATTGGCACTT
65 CCATGATACCGGCACTT
43903009 ATAGTGTGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (96 bp):
TTGATCTGGCTTCGGGCAATGATATTAGCACTTTGGGTGCAAGATACATTGGTTTGGCTTCGAGC
CATGATACCGGCACTTCGGGTGCGAATTACT
Found at i:43912327 original size:28 final size:27
Alignment explanation
Indices: 43912261--43912357 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
43912251 ATATTAAGTC
* * *
43912261 CGCACACTCAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTACATAATCAACT
*
43912288 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
43912316 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
43912343 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43912358 GCACAATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 38 0.61
28 24 0.39
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43915032 original size:50 final size:48
Alignment explanation
Indices: 43914848--43915036 Score: 191
Period size: 51 Copynumber: 3.8 Consensus size: 48
43914838 GTAGCCGAAG
* *
43914848 CTATCTGGTA-AGCATAGTTGTCTGCACTTAGTACTACACATGCGACAA
1 CTATCTGGTACA-CATAGTAGCCTGCACTTAGTACTACACATGCGACAA
* * ** ***
43914896 CAATCTGGTAAATGTAGTAGCCTGCACTTAGTACTACACACATGATCAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-AA
* * *
43914946 GTTGTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-AA
* *
43914997 CTATCTGGTACACATAGTAGCCTACACTTATTACTACACA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
43915037 CATGACCTAA
Statistics
Matches: 112, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
48 35 0.31
49 2 0.02
50 37 0.33
51 38 0.34
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (48 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACAA
Found at i:43915035 original size:26 final size:26
Alignment explanation
Indices: 43914955--43915036 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
43914945 AGTTGTCGGG
* *
43914955 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTACACTTATTAC
* **
43914981 TACACAT-G-CGACCTA-AC-TATCTGG
1 TACACATAGTAG-CCTACACTTAT-TAC
43915005 TACACATAGTAGCCTACACTTATTAC
1 TACACATAGTAGCCTACACTTATTAC
43915031 TACACA
1 TACACA
43915037 CATGACCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
23 2 0.05
24 11 0.26
25 9 0.21
26 17 0.40
27 3 0.07
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTACACTTATTAC
Found at i:43915035 original size:101 final size:99
Alignment explanation
Indices: 43914860--43915041 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 99
43914850 ATCTGGTAAG
* * ** *
43914860 CATAGTTGTCTGCACTTAGTACTACACATGCGACAACAATCTGGTAAATGTAGTAGCCTGCACTT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACAACAATCTGGTAAACATAGTAGCCTACACTT
43914925 AGTACTACACACATGATCAAAGTTGTCGGGTACA
66 AGTACTACACACATGATCAAAGTTGTCGGGTACA
* *
43914959 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACATAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-C-AACAATCTGGTAAACATAGTAGCCTACAC
*
43915024 TTATTACTACACACATGA
64 TTAGTACTACACACATGA
43915042 CCTAAAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 31 0.42
100 1 0.01
101 41 0.56
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACAACAATCTGGTAAACATAGTAGCCTACACTT
AGTACTACACACATGATCAAAGTTGTCGGGTACA
Found at i:43915044 original size:50 final size:51
Alignment explanation
Indices: 43914910--43915046 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 51
43914900 CTGGTAAATG
* * * *
43914910 TAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTGTCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAAGCTATCGGGTACACA
*** *
43914961 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CTATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAAGCTATCGGGTACACA
* *
43915011 TAGTAGCCTACACTTATTACTACACACATGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAA
43915047 AACCATCTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 42 0.58
51 31 0.42
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCTAAGCTATCGGGTACACA
Found at i:43915066 original size:52 final size:50
Alignment explanation
Indices: 43914956--43915081 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 50
43914946 GTTGTCGGGT
* ** * **
43914956 ACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGT
1 ACACATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCTGAA
* * *
43915006 ACACATAGTAGCCTACACTTATTACTACACACATGACCTAAAACCATCTTAA
1 ACACATAGTAGCCTACACTTAGTACTACACACACGACCT--AACCATCTGAA
* *
43915058 ACACATAGTAGTCTACACATAGTA
1 ACACATAGTAGCCTACACTTAGTA
43915082 GTCTGCACAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
50 34 0.55
52 28 0.45
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (50 bp):
ACACATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCTGAA
Found at i:43915077 original size:14 final size:14
Alignment explanation
Indices: 43915058--43915092 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
43915048 ACCATCTTAA
43915058 ACACATAGTAGTCT
1 ACACATAGTAGTCT
43915072 ACACATAGTAGTCT
1 ACACATAGTAGTCT
*
43915086 GCACATA
1 ACACATA
43915093 ATACTACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (14 bp):
ACACATAGTAGTCT
Found at i:43916510 original size:22 final size:22
Alignment explanation
Indices: 43916482--43916534 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
43916472 ACTTTCACAT
43916482 TCATCACATTGGCCATTCGGCC
1 TCATCACATTGGCCATTCGGCC
43916504 TCATCACATTGGCCATTCGGCC
1 TCATCACATTGGCCATTCGGCC
*
43916526 TTATCACAT
1 TCATCACAT
43916535 AATTAATACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.30
Consensus pattern (22 bp):
TCATCACATTGGCCATTCGGCC
Found at i:43922105 original size:9 final size:9
Alignment explanation
Indices: 43922093--43922126 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
43922083 CATGGCTTAC
43922093 TAAGCTTTT
1 TAAGCTTTT
**
43922102 TAAGCTTAC
1 TAAGCTTTT
43922111 TAAGCTTTT
1 TAAGCTTTT
43922120 TAAGCTT
1 TAAGCTT
43922127 ACTTTGTGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (9 bp):
TAAGCTTTT
Found at i:43922110 original size:18 final size:18
Alignment explanation
Indices: 43922087--43922129 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
43922077 TTTGCTCATG
43922087 GCTTACTAAGCTTTTTAA
1 GCTTACTAAGCTTTTTAA
43922105 GCTTACTAAGCTTTTTAA
1 GCTTACTAAGCTTTTTAA
43922123 GCTTACT
1 GCTTACT
43922130 TTGTGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.44
Consensus pattern (18 bp):
GCTTACTAAGCTTTTTAA
Found at i:43925584 original size:17 final size:18
Alignment explanation
Indices: 43925562--43925607 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
43925552 TAGATTATCA
43925562 GAAGCTCGATCGA-TTTG
1 GAAGCTCGATCGAGTTTG
43925579 GAAGCTCGATC-AGTTTG
1 GAAGCTCGATCGAGTTTG
43925596 GAAGCTCG-TCGA
1 GAAGCTCGATCGA
43925608 AGATCTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (18 bp):
GAAGCTCGATCGAGTTTG
Found at i:43927015 original size:48 final size:48
Alignment explanation
Indices: 43926944--43927123 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 48
43926934 ACCATGCTAA
* * * *
43926944 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGAATCGGTGATGATAT
1 ATGTGTCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
43926992 ATGTGTCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGTCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
43927040 GTGTG-CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGTCTA-TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
43927088 GAGGAT-TC-ATGTAAGACCATGTCGGGGACATGGCAT
1 -ATG-TGTCTATGTAAGACCATGTCTGGGACATGGCAT
43927124 TGGTACTTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 3 0.03
48 111 0.94
49 2 0.02
50 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (48 bp):
ATGTGTCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:43929952 original size:21 final size:21
Alignment explanation
Indices: 43929926--43929969 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43929916 AAAACCTCAA
43929926 AGGAATCTGGGTAGTGGAACG
1 AGGAATCTGGGTAGTGGAACG
43929947 AGGAATCTGGGTAGTGGAACG
1 AGGAATCTGGGTAGTGGAACG
43929968 AG
1 AG
43929970 TAGTAAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.43, T:0.18
Consensus pattern (21 bp):
AGGAATCTGGGTAGTGGAACG
Found at i:43934441 original size:48 final size:48
Alignment explanation
Indices: 43934338--43934557 Score: 205
Period size: 48 Copynumber: 4.6 Consensus size: 48
43934328 AAATGTGACT
* * * * *
43934338 GTGTAAGACCATGTCTGGCACATGGCATCAGCGACGATCTATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCA
* *
43934386 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTATGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCA
** * ** *
43934434 GAATAAGACCATGTCTGGGACAGGGCATTGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCA
* * * * * *
43934482 GTGCAAGACCATGTCTAGGACGTGGCATCCA-CAATGATAT-TTTGATTC-
1 GTGTAAGACCATGTCTGGGACATGGCAT-CAGCGATGATATGTGTG--CCA
43934530 GTGTAAGACCATG-CTAGGGACATGGCAT
1 GTGTAAGACCATGTCT-GGGACATGGCAT
43934558 TGGTATTTTA
Statistics
Matches: 138, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
47 5 0.04
48 132 0.96
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCA
Found at i:43934537 original size:96 final size:96
Alignment explanation
Indices: 43934338--43934561 Score: 240
Period size: 96 Copynumber: 2.3 Consensus size: 96
43934328 AAATGTGACT
* ** * * * * *
43934338 GTGTAAGACCATGTCTGGCACATGGCATCAGCGACGATCTATGTGCCTGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATTGGTGACGATATATGTGCCAGTGCAAGACCATGTCTA
*
43934403 GGACATGGCATCAGCGATGATATGTATGTCA
66 GGACATGGCATCAGCAATGATATGTATGTCA
** * * *
43934434 GAATAAGACCATGTCTGGGACAGGGCATTGGTGATGATATGTGTGCCAGTGCAAGACCATGTCTA
1 GTGTAAGACCATGTCTGGGACATGGCATTGGTGACGATATATGTGCCAGTGCAAGACCATGTCTA
* *
43934499 GGACGTGGCATCCA-CAATGATAT-TTTGATTC-
66 GGACATGGCAT-CAGCAATGATATGTATG--TCA
43934530 GTGTAAGACCATG-CTAGGGACATGGCATTGGT
1 GTGTAAGACCATGTCT-GGGACATGGCATTGGT
43934562 ATTTTAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
95 5 0.05
96 96 0.91
97 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATTGGTGACGATATATGTGCCAGTGCAAGACCATGTCTA
GGACATGGCATCAGCAATGATATGTATGTCA
Found at i:43935827 original size:18 final size:18
Alignment explanation
Indices: 43935804--43935848 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
43935794 ACACGGCCTG
43935804 GGGACACAAGTGTGTCAA
1 GGGACACAAGTGTGTCAA
**
43935822 GGGACACGTGTGTGTCAA
1 GGGACACAAGTGTGTCAA
43935840 GGGCACACA
1 GGG-ACACA
43935849 GGCGTGTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.29, C:0.20, G:0.36, T:0.16
Consensus pattern (18 bp):
GGGACACAAGTGTGTCAA
Found at i:43935855 original size:19 final size:18
Alignment explanation
Indices: 43935815--43935856 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43935805 GGACACAAGT
*
43935815 GTGTCAAGGGACACGTGT
1 GTGTCAAGGGACACGTGC
43935833 GTGTCAAGGGCACACAG-GC
1 GTGTCAAGGG-ACAC-GTGC
43935852 GTGTC
1 GTGTC
43935857 CTTATGTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 10 0.48
20 1 0.05
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.19
Consensus pattern (18 bp):
GTGTCAAGGGACACGTGC
Found at i:43937236 original size:5 final size:5
Alignment explanation
Indices: 43937226--43937254 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
43937216 TATTGGGGTT
43937226 GACAG GACAG GACAG GACAG GACAG GACA
1 GACAG GACAG GACAG GACAG GACAG GACA
43937255 AAAATGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.21, G:0.38, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:43937333 original size:46 final size:48
Alignment explanation
Indices: 43937257--43937353 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
43937247 ACAGGACAAA
* * *
43937257 AATGAGCCATGTAAGTCTATA-T-CAGTTATATGACTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTACAGTTATATGACATTGGAGACAGG
* *
43937303 AATGAGCCATGTAAGCCCATATTATA-TATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTACAGT-TATATGACATTGGAGACAGG
43937351 AAT
1 AAT
43937354 AATTCATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
46 19 0.44
47 2 0.05
48 22 0.51
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (48 bp):
AATGAGCCATGTAAGCCCATATTACAGTTATATGACATTGGAGACAGG
Found at i:43937353 original size:48 final size:46
Alignment explanation
Indices: 43937257--43937353 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
43937247 ACAGGACAAA
* * * *
43937257 AATGAGCCATGTAAGTCTATATCAGTTATATGACTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAATTATATGACATTGGAGACAGG
* *
43937303 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCA-AT-TATATGACATTGGAGACAGG
43937351 AAT
1 AAT
43937354 AATTCATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 21 0.49
47 1 0.02
48 21 0.49
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (46 bp):
AATGAGCCATGTAAGCCCATATCAATTATATGACATTGGAGACAGG
Found at i:43940855 original size:27 final size:27
Alignment explanation
Indices: 43940825--43940888 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
43940815 GTATACCTTG
** *
43940825 ACCCCAATTTGGGAAAATGACTGTTAT
1 ACCCCAATGAGGGAAAATGACTGATAT
* *
43940852 ACCCCTATGAGGTAAAATGACTGATAT
1 ACCCCAATGAGGGAAAATGACTGATAT
*
43940879 ACCCCTATGA
1 ACCCCAATGA
43940889 TATGTATGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (27 bp):
ACCCCAATGAGGGAAAATGACTGATAT
Found at i:43945440 original size:27 final size:27
Alignment explanation
Indices: 43945410--43945468 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
43945400 GTATACCTAC
** *
43945410 ACCCCAATTTGGTAAAATGACTGTTAT
1 ACCCCAATGAGGTAAAATGACTGATAT
*
43945437 ACCCCTATGAGGTAAAATGACTGATAT
1 ACCCCAATGAGGTAAAATGACTGATAT
43945464 ACCCC
1 ACCCC
43945469 TAAAATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (27 bp):
ACCCCAATGAGGTAAAATGACTGATAT
Found at i:43947761 original size:23 final size:22
Alignment explanation
Indices: 43947735--43947790 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
43947725 TATTTTTTTT
43947735 CATTTTTACATGTGTTTTTCA-TG
1 CATTTTTACAT-TG-TTTTCATTG
**
43947758 CATTCGTA-ATTGTTTTCATTG
1 CATTTTTACATTGTTTTCATTG
43947779 CATTTTCTACAT
1 CATTTT-TACAT
43947791 ATCTATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 4 0.15
23 8 0.31
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.54
Consensus pattern (22 bp):
CATTTTTACATTGTTTTCATTG
Found at i:43952943 original size:17 final size:19
Alignment explanation
Indices: 43952903--43952943 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
43952893 CATGTTTATT
*
43952903 AGTTAAGGATAATATAATA
1 AGTTTAGGATAATATAATA
43952922 A-TTTAGGA-AATA-AATA
1 AGTTTAGGATAATATAATA
43952938 AGTTTA
1 AGTTTA
43952944 ATAATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
17 8 0.40
18 6 0.30
19 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (19 bp):
AGTTTAGGATAATATAATA
Found at i:43953422 original size:43 final size:43
Alignment explanation
Indices: 43953326--43953480 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
43953316 ATCGAGATGT
* * * *
43953326 GATTACATGTAATACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGC
43953369 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTGC
** * * * * *
43953412 GATTTTGTGTAAGACCTTGTCTAGGACACTGGTATCG-ATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGC
* * * *
43953455 GATAACATGCAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
43953481 TATGGAATTG
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 83 0.92
44 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGC
Found at i:43969239 original size:67 final size:64
Alignment explanation
Indices: 43969100--43969352 Score: 174
Period size: 68 Copynumber: 3.9 Consensus size: 64
43969090 CATAATTTTG
* * * * * * *
43969100 GCTCTCTTGTAC-ACATGGCGAACACTTAGTACCACCCATGTGACCTA-C-CCAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCCCGT
43969162 A
64 A
* * * * * *
43969163 GCTCTCTTGTTTGCATGGTGTCCTTCACCTGGTACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCCCG
43969228 TA
63 TA
* * *
43969230 GCTTTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-A--TCCC
43969295 GTA
62 GTA
* * * ** *
43969298 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
43969353 CCATCTGTAT
Statistics
Matches: 149, Mismatches: 29, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
63 16 0.11
64 29 0.19
65 2 0.01
66 22 0.15
67 29 0.19
68 50 0.34
69 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:43973067 original size:43 final size:43
Alignment explanation
Indices: 43972971--43973129 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
43972961 TATCAAGATG
* * * * *
43972971 TGATTACATGTAATACCATGTCTGGGACATTGGCGTTGTATTA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAA
43973014 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-TAA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAA
* * * * * *
43973056 TCGATTTCGTGTAAG-GCACTATCTGGGACAGTGACATCG-ATATG
1 T-GATTACGTGTAAGACCA-TGTCTGGGACATTGGCATCGTATA-A
* * * *
43973100 TGATAACATGTAAGACCATATTTGGGACAT
1 TGATTACGTGTAAGACCATGTCTGGGACAT
43973130 GGAATTGTAC
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 5 0.05
43 86 0.91
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAA
Found at i:43981906 original size:42 final size:42
Alignment explanation
Indices: 43981847--43981946 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
43981837 CATTAGGGTT
* *
43981847 ACTACGTATAATACCATATCTGGGATATGGCATCAG-TATGAG
1 ACTACGTGTAAGACCATATCTGGGATATGGCAT-AGATATGAG
*
43981889 ACTACGTGTAAGACCATATCTGGGATATGGCATTGATATGAG
1 ACTACGTGTAAGACCATATCTGGGATATGGCATAGATATGAG
* *
43981931 ACTTCATGTAAGACCA
1 ACTACGTGTAAGACCA
43981947 CAGCTAGGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
ACTACGTGTAAGACCATATCTGGGATATGGCATAGATATGAG
Found at i:43983432 original size:48 final size:48
Alignment explanation
Indices: 43983359--43983587 Score: 242
Period size: 48 Copynumber: 4.8 Consensus size: 48
43983349 GCTAAGATGT
* * * *
43983359 CGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAACAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAAGGC
* * **
43983407 CGATGCCATGTTCCAAACATAGTCTTACACTAGCTCACATATTAAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAAGGC
* * * ** * * *
43983455 AGATGCCATGTCCCAGACATTGTCTTACACTAATTCTCATAACAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAAGGC
* * * ***
43983503 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAAGGC
* *
43983551 CGATGCCATGTCCCAAACATGGTCCTACACTGGCTCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCA
43983588 AATATACCCC
Statistics
Matches: 146, Mismatches: 35, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 146 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAACAAGGC
Found at i:43983528 original size:96 final size:96
Alignment explanation
Indices: 43983360--43983581 Score: 336
Period size: 96 Copynumber: 2.3 Consensus size: 96
43983350 CTAAGATGTC
* *
43983360 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAAAC
43983425 ATAGTCTTACACTAGCTCACATATTAAGGCA
66 ATAGTCTTACACTAGCTCACATATTAAGGCA
* * **
43983456 GATGCCATGTCCCAGACATTGTCTTACACTAATTCTCATAACAATGTTGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAAAC
* * * *
43983521 ATGGTCTTACACTGGCTCACATATTGAGGCC
66 ATAGTCTTACACTAGCTCACATATTAAGGCA
* *
43983552 GATGCCATGTCCCAAACATGGTCCTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
43983582 GGCTCAAATA
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 113 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAAAC
ATAGTCTTACACTAGCTCACATATTAAGGCA
Found at i:43987978 original size:48 final size:48
Alignment explanation
Indices: 43987939--43988110 Score: 281
Period size: 48 Copynumber: 3.6 Consensus size: 48
43987929 TGATCTCGTA
* *
43987939 TAAGACCATGTCTGGGACATGGCATTGGCATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
* * * * *
43987987 TAAGACTATGTCTGGGACATGGCATCAACATTATTATCTGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
43988035 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
43988083 TAAGACCATGTCTGGGACATGGCATCGA
1 TAAGACCATGTCTGGGACATGGCATCGA
43988111 GATGAGGAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTG
Found at i:43991780 original size:45 final size:45
Alignment explanation
Indices: 43991729--43991851 Score: 185
Period size: 45 Copynumber: 2.7 Consensus size: 45
43991719 ATTTCATCGA
43991729 CATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCGG
1 CATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGG
* * *
43991774 CATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCATCGG
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
* *
43991819 AATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
43991852 TAATACCAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.96
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (45 bp):
CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
Found at i:43991892 original size:38 final size:38
Alignment explanation
Indices: 43991844--43992155 Score: 437
Period size: 38 Copynumber: 8.2 Consensus size: 38
43991834 GGCTCAAAGG
* * * *
43991844 CCCGAATATAATACCAGCACTAGGCCTGCGGCATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
43991882 ACCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
43991920 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
43991958 CCCGGATATATTACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
43991996 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
43992034 CCCAGATATATTACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
43992072 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * **
43992110 CCCGGATATAATTCCAGCA-TATAGCCTGCGGTCTTTAA
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGGATTTAA
*
43992148 ACCGGATA
1 CCCGGATA
43992156 CAAATATCAT
Statistics
Matches: 248, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 1 0.00
38 247 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:43992533 original size:43 final size:44
Alignment explanation
Indices: 43992425--43992559 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 44
43992415 ACATAACATT
*
43992425 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * * *
43992471 T-ATTTCATCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* * *
43992513 TCATTTCCCCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
43992557 TCA
1 TCA
43992560 CATTTCGATA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.03
43 33 0.44
44 10 0.13
45 29 0.39
46 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:43998071 original size:13 final size:12
Alignment explanation
Indices: 43998053--43998083 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
43998043 TTGTAGATTC
43998053 AAAAAAAAATCGA
1 AAAAAAAAAT-GA
43998066 AAAAAAAAATGA
1 AAAAAAAAATGA
43998078 AAAAAA
1 AAAAAA
43998084 TGCATACGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:44007586 original size:38 final size:38
Alignment explanation
Indices: 44007525--44007628 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
44007515 TAAAGACCCG
* ** * *
44007525 CAGGCCTCGTGCTGGTAAAATATCCGGGTTAAATCTCA
1 CAGGCCTAGTGCTGGTATTATATCCGGGATAAATCCCA
* * * * *
44007563 TAGGCTTTGTTCTGGTATTATATCCAGGATAAATCCCA
1 CAGGCCTAGTGCTGGTATTATATCCGGGATAAATCCCA
*
44007601 CAGGCCTAGTGCTGGTATTATATTCGGG
1 CAGGCCTAGTGCTGGTATTATATCCGGG
44007629 CCTTCGTGCC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
CAGGCCTAGTGCTGGTATTATATCCGGGATAAATCCCA
Found at i:44007740 original size:43 final size:43
Alignment explanation
Indices: 44007621--44007731 Score: 188
Period size: 42 Copynumber: 2.6 Consensus size: 43
44007611 GCTGGTATTA
*
44007621 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
*
44007664 TATTC-AGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
*
44007706 TATTCGGGCCTTTGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
44007732 GTAATGCCGG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 40 0.63
43 23 0.37
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
Found at i:44008127 original size:45 final size:45
Alignment explanation
Indices: 44008063--44008183 Score: 208
Period size: 45 Copynumber: 2.7 Consensus size: 45
44008053 TTGATTTTAT
44008063 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
1 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
44008108 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
1 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
* *
44008153 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAA
1 TATTCGGGCCTTT-GAGCTTAGCAGACTATAA
44008184 AGCCGGTGAA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
44 4 0.05
45 69 0.95
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
Found at i:44012516 original size:21 final size:21
Alignment explanation
Indices: 44012472--44012534 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
44012462 TTTGAACCAT
* * *
44012472 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
*
44012494 TACCATTTCATACGAATTCCA
1 TACCATTTCATACCAATTCCA
*
44012515 TACCATTTCGTACCAATTCC
1 TACCATTTCATACCAATTCC
44012535 CAAATACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 24 0.69
22 11 0.31
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:44013515 original size:30 final size:29
Alignment explanation
Indices: 44013431--44013526 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
44013421 TAAACTAAAA
* * *
44013431 TGAGCTAAGCTTTACTTGTGAGCTAAAGT
1 TGAGCTAAGATTTACTCGTGAGCTGAAGT
* * * *
44013460 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATT-TACTCGTGAGCTGAAGT
*
44013490 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTA-CTCGTGAGCTGAAGT
44013519 ATGAGCTA
1 -TGAGCTA
44013527 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
29 12 0.23
30 40 0.77
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
TGAGCTAAGATTTACTCGTGAGCTGAAGT
Found at i:44015499 original size:28 final size:27
Alignment explanation
Indices: 44015451--44015594 Score: 164
Period size: 28 Copynumber: 5.1 Consensus size: 27
44015441 AAGTCTACAT
*
44015451 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCA-TAGGCCCAATC
* *
44015479 TCATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCA-TAGGCCC-AATC
* *
44015508 ACATTCATATGGCCCATCGACCCCAATC
1 ACATTCATATGGCCCATAG-GCCCAATC
*
44015536 ACATTCATATGGCCCATCGGCCCAATC
1 ACATTCATATGGCCCATAGGCCCAATC
*
44015563 AC-TATCATATGGCCCGTCAGGCCCAATC
1 ACAT-TCATATGGCCCAT-AGGCCCAATC
44015591 ACAT
1 ACAT
44015595 CCGTAGTCAT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
26 1 0.01
27 21 0.21
28 56 0.56
29 22 0.22
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.22
Consensus pattern (27 bp):
ACATTCATATGGCCCATAGGCCCAATC
Found at i:44015523 original size:57 final size:54
Alignment explanation
Indices: 44015451--44015594 Score: 164
Period size: 57 Copynumber: 2.6 Consensus size: 54
44015441 AAGTCTACAT
* *
44015451 ACATGCATATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCA-TAGGCCCAATCACATTCATATAGCCCA-TAGGCCC-AATC
* * * *
44015508 ACATTCATATGGCCCATCGACCCCAATCACATTCATATGGCCCATCGGCCCAATC
1 ACATTCATATGGCCCATAG-GCCCAATCACATTCATATAGCCCATAGGCCCAATC
*
44015563 AC-TATCATATGGCCCGTCAGGCCCAATCACAT
1 ACAT-TCATATGGCCCAT-AGGCCCAATCACAT
44015595 CCGTAGTCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
54 1 0.01
55 29 0.39
56 9 0.12
57 36 0.48
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.22
Consensus pattern (54 bp):
ACATTCATATGGCCCATAGGCCCAATCACATTCATATAGCCCATAGGCCCAATC
Found at i:44017721 original size:26 final size:26
Alignment explanation
Indices: 44017692--44017799 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
44017682 TGGTACAAAT
44017692 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44017718 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44017744 TGATAATGGGTTAGGTAAAAGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44017770 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44017796 TGAT
1 TGAT
44017800 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44021310 original size:30 final size:30
Alignment explanation
Indices: 44021239--44021321 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
44021229 CTTTTGTTTC
* *
44021239 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
*
44021270 AAATTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
44021299 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
44021322 GCTTTTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 4 0.09
30 32 0.74
31 7 0.16
ACGTcount: A:0.14, C:0.22, G:0.01, T:0.63
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:44021328 original size:12 final size:12
Alignment explanation
Indices: 44021297--44021321 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44021287 TTTTTCAATC
44021297 TCATTTTCTTTT
1 TCATTTTCTTTT
44021309 TCATTTTCTTTT
1 TCATTTTCTTTT
44021321 T
1 T
44021322 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:44021400 original size:5 final size:5
Alignment explanation
Indices: 44021390--44021446 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
44021380 CTCTTGCCTC
*
44021390 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
44021437 TCTTT TCTTT
1 TCTTT TCTTT
44021447 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:44021430 original size:15 final size:14
Alignment explanation
Indices: 44021390--44021446 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
44021380 CTCTTGCCTC
*
44021390 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
44021405 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
44021420 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
44021437 TCTTTTCTTT
1 TCTTTTCTTT
44021447 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:44021447 original size:21 final size:21
Alignment explanation
Indices: 44021390--44021457 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
44021380 CTCTTGCCTC
* *
44021390 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
44021411 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
44021432 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
44021452 CTCTTT
1 -TCTTT
44021458 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:44023503 original size:46 final size:46
Alignment explanation
Indices: 44023453--44023607 Score: 172
Period size: 46 Copynumber: 3.3 Consensus size: 46
44023443 TGGTTGAGCA
*
44023453 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
44023499 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
44023546 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
44023592 TCCGAGCTCGTTGAGT
1 TCCGAACTCGTTGAGT
44023608 GATACGAGTC
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.06
45 3 0.03
46 44 0.51
47 28 0.32
48 3 0.03
50 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44024630 original size:10 final size:10
Alignment explanation
Indices: 44024614--44024671 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
44024604 CAACTCCGAC
44024614 CAGCTCAATT
1 CAGCTCAATT
* *
44024624 GAGCTCATTT
1 CAGCTCAATT
44024634 CAGCTCAA-T
1 CAGCTCAATT
44024643 CGAGCTCAATT
1 C-AGCTCAATT
*
44024654 TAGCTACAATT
1 CAGCT-CAATT
44024665 CAGCTCA
1 CAGCTCA
44024672 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:44024637 original size:20 final size:20
Alignment explanation
Indices: 44024614--44024674 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
44024604 CAACTCCGAC
44024614 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
44024634 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
44024655 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
44024675 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:44034766 original size:384 final size:384
Alignment explanation
Indices: 44034057--44035235 Score: 2358
Period size: 384 Copynumber: 3.1 Consensus size: 384
44034047 TCCGAACTCG
44034057 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
44034122 ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
66 ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
44034187 TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
131 TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
44034252 TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
196 TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
44034317 TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
261 TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
44034382 TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
326 TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
44034441 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
44034506 ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
66 ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
44034571 TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
131 TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
44034636 TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
196 TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
44034701 TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
261 TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
44034766 TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
326 TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
44034825 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
44034890 ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
66 ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
44034955 TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
131 TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
44035020 TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
196 TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
44035085 TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
261 TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
44035150 TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
326 TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
44035209 TTGAGTTGAGTCCGAGTTCACTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
44035236 GCGGGTTACA
Statistics
Matches: 795, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
384 795 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (384 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGGTCCGCGCACA
ACCCAATTCCTAGGGTTTGGCCGATTGGATTTCTTTCAATTTGGGAATCAATTGATTGCTGGAAA
TTGGGCATTCTTGGCCGAATCAATTCCTTGGCAGATTCGCATCTTTTCTTTCTTCTCAATTTCGT
TTGATTCATCGATTCTATTTCTTTTCTTCTTGCTGCTCTTTTAATTGAATTTGGGAATTTTAAAT
TCAAATCTGATTCGGTTTAATCTTAATCTTTGTTTTTGATTTCAGATCTGTTCGTCTAGGATCTT
TCGTAGGAGTTTCCTGTGACTTGGCAACTCGATCTTGGTCCACGTACAACCCTATATCA
Found at i:44035304 original size:11 final size:11
Alignment explanation
Indices: 44035290--44035316 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44035280 AAATTATCCG
44035290 TGTATCCGAGT
1 TGTATCCGAGT
44035301 TGTATCCGAGT
1 TGTATCCGAGT
44035312 TGTAT
1 TGTAT
44035317 TACGATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.41
Consensus pattern (11 bp):
TGTATCCGAGT
Found at i:44036819 original size:11 final size:11
Alignment explanation
Indices: 44036782--44036819 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
44036772 TTTTTTTTTC
44036782 TTTTCGAAATTT
1 TTTTCG-AATTT
*
44036794 TTTTTGAATTT
1 TTTTCGAATTT
44036805 TTTTCGAATTT
1 TTTTCGAATTT
44036816 TTTT
1 TTTT
44036820 TGACTTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTCGAATTT
Found at i:44038570 original size:30 final size:30
Alignment explanation
Indices: 44038484--44038581 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
44038474 TTAAACTAAA
* *
44038484 ATGAGCTAAGCTTTAGCTCGTAAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
* * * * *
44038514 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
* * * *
44038544 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
44038574 ATGAGCTA
1 ATGAGCTA
44038582 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
Found at i:44050113 original size:21 final size:22
Alignment explanation
Indices: 44050076--44050120 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
44050066 GTAATGGTTC
44050076 ACTTTAACTTCCATGTACATAA
1 ACTTTAACTTCCATGTACATAA
*
44050098 ACTTTAA-TTTCATGTACATAA
1 ACTTTAACTTCCATGTACATAA
44050119 AC
1 AC
44050121 ATATATGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (22 bp):
ACTTTAACTTCCATGTACATAA
Found at i:44050252 original size:25 final size:25
Alignment explanation
Indices: 44050224--44050277 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
44050214 ATTCGAGAAT
44050224 GCTCATATGAGCACATA-AACAGGAA
1 GCTCATATGAGC-CATATAACAGGAA
* * *
44050249 GCTCTTTTGAGCCATATAACGGGAA
1 GCTCATATGAGCCATATAACAGGAA
44050274 GCTC
1 GCTC
44050278 CGGGGAGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (25 bp):
GCTCATATGAGCCATATAACAGGAA
Found at i:44050297 original size:24 final size:24
Alignment explanation
Indices: 44050257--44050321 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
44050247 AAGCTCTTTT
44050257 GAGCCATATAACGGGAAGCTCCGGG
1 GAGCCAT-TAACGGGAAGCTCCGGG
*
44050282 GAGCCATTAACGGGAAGCTTCGGG
1 GAGCCATTAACGGGAAGCTCCGGG
* *
44050306 GAGTCATTAACAGGAA
1 GAGCCATTAACGGGAA
44050322 ACTCATACGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 30 0.81
25 7 0.19
ACGTcount: A:0.31, C:0.20, G:0.34, T:0.15
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCGGG
Found at i:44052479 original size:23 final size:23
Alignment explanation
Indices: 44052453--44052517 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
44052443 AAGTTAGAAG
*
44052453 AGTGAAGAGACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
44052476 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
44052499 AGTTAAGAGGCTTGAATAT
1 AGTGAAGAGACTTGAATAT
44052518 TAAAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.43, C:0.05, G:0.28, T:0.25
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:44055818 original size:19 final size:19
Alignment explanation
Indices: 44055794--44055831 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44055784 TGAAGCAATA
44055794 ACCCAGAGCATGGTACAGC
1 ACCCAGAGCATGGTACAGC
44055813 ACCCAGAGCATGGTACAGC
1 ACCCAGAGCATGGTACAGC
44055832 CGCATCGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.11
Consensus pattern (19 bp):
ACCCAGAGCATGGTACAGC
Found at i:44056974 original size:23 final size:23
Alignment explanation
Indices: 44056948--44057016 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
44056938 AAGTTAGAAG
* *
44056948 AGTGAAGAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
44056971 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
44056994 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
44057017 GGATACACAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.46, C:0.04, G:0.26, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:44060111 original size:43 final size:43
Alignment explanation
Indices: 44060061--44060206 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 43
44060051 TTTGATATGG
*
44060061 TCTTTAGC-GACGCTTCTACTAAAAACGCCACTATAGAACATGA
1 TCTTTAGCAG-CGCTTCTACTAAAAACGCCACTAAAGAACATGA
* * *** * *
44060104 TTTTTAGCAGCGCGTCT-CGTAAAAACGTTGCTAAATAAAATGA
1 TCTTTAGCAGCGCTTCTAC-TAAAAACGCCACTAAAGAACATGA
** * *
44060147 TCTTTAGTGGCACTTCTACTAAAAACGCCATTAAAGAACATGA
1 TCTTTAGCAGCGCTTCTACTAAAAACGCCACTAAAGAACATGA
44060190 TCTTTAGCAGCGCTTCT
1 TCTTTAGCAGCGCTTCT
44060207 CTATATAAAC
Statistics
Matches: 78, Mismatches: 22, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
42 1 0.01
43 75 0.96
44 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
TCTTTAGCAGCGCTTCTACTAAAAACGCCACTAAAGAACATGA
Found at i:44074148 original size:17 final size:17
Alignment explanation
Indices: 44074126--44074159 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44074116 ATCCACTAAT
*
44074126 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
44074143 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
44074160 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:44078787 original size:17 final size:17
Alignment explanation
Indices: 44078765--44078798 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44078755 ATCCACTAAT
*
44078765 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
44078782 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
44078799 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:44081080 original size:25 final size:24
Alignment explanation
Indices: 44081045--44081095 Score: 93
Period size: 25 Copynumber: 2.1 Consensus size: 24
44081035 TTCCTTACGC
44081045 TACACGACGAGAATAATACTCTAG
1 TACACGACGAGAATAATACTCTAG
44081069 TNACACGACGAGAATAATACTCTAG
1 T-ACACGACGAGAATAATACTCTAG
44081094 TA
1 TA
44081096 AGCTGAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
TACACGACGAGAATAATACTCTAG
Found at i:44085035 original size:38 final size:38
Alignment explanation
Indices: 44084980--44085076 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
44084970 GTTAACCTTT
* *
44084980 ATAACACC-GACAATAAGCCTGCTAGACACTAAGCCTAA
1 ATAACACCAG-CACTAAGCCTGCTAGACACAAAGCCTAA
* * *
44085018 ATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGA
1 ATAACACCAGCACTAAGCCTGCTAGACACAAAGCCTAA
* *
44085056 ATAACACCAACACAAAGCCTG
1 ATAACACCAGCACTAAGCCTG
44085077 AATAACACCG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
38 49 0.98
39 1 0.02
ACGTcount: A:0.42, C:0.31, G:0.13, T:0.13
Consensus pattern (38 bp):
ATAACACCAGCACTAAGCCTGCTAGACACAAAGCCTAA
Found at i:44085072 original size:22 final size:22
Alignment explanation
Indices: 44085044--44085098 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
44085034 GCCTACTAGG
44085044 CACAAAGCCTGAATAACACCAA
1 CACAAAGCCTGAATAACACCAA
*
44085066 CACAAAGCCTGAATAACACCGA
1 CACAAAGCCTGAATAACACCAA
*
44085088 CACTAAGCCTG
1 CACAAAGCCTG
44085099 CTAGGCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.33, G:0.13, T:0.11
Consensus pattern (22 bp):
CACAAAGCCTGAATAACACCAA
Found at i:44085103 original size:60 final size:60
Alignment explanation
Indices: 44085005--44085121 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 60
44084995 AGCCTGCTAG
*
44085005 ACACTAAGCCTAAATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACCA
1 ACACAAAGCCTAAATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACCA
* * *
44085065 ACACAAAGCCTGAATAACACC-GACACTAAGCCTGCTAGGCACAAATCCTGAATAACA
1 ACACAAAGCCTAAATAACACCAG-CACTAAGCCTACTAGGCACAAAGCCTGAATAACA
44085122 GTATAGCTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.43, C:0.31, G:0.13, T:0.14
Consensus pattern (60 bp):
ACACAAAGCCTAAATAACACCAGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACCA
Found at i:44085378 original size:17 final size:17
Alignment explanation
Indices: 44085336--44085378 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44085326 AATAAGTACT
44085336 TCTAAAATTCAATTTAA
1 TCTAAAATTCAATTTAA
* * *
44085353 TCCATAATTCAATTTTA
1 TCTAAAATTCAATTTAA
*
44085370 TGTAAAATT
1 TCTAAAATT
44085379 ACTATTTTCC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (17 bp):
TCTAAAATTCAATTTAA
Found at i:44089545 original size:20 final size:20
Alignment explanation
Indices: 44089513--44089550 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44089503 ATAAAATATA
44089513 TATATAAAATCATAAAAACT
1 TATATAAAATCATAAAAACT
44089533 TATA-AAAATTCATAAAAA
1 TATATAAAA-TCATAAAAA
44089551 ATAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TATATAAAATCATAAAAACT
Found at i:44089558 original size:19 final size:19
Alignment explanation
Indices: 44089518--44089559 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
44089508 ATATATATAT
* *
44089518 AAAATCATAAAAACTTATA
1 AAAATCATAAAAACATAGA
44089537 AAAATTCATAAAAA-ATAGA
1 AAAA-TCATAAAAACATAGA
44089556 AAAA
1 AAAA
44089560 AAAGGCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATCATAAAAACATAGA
Found at i:44090117 original size:18 final size:18
Alignment explanation
Indices: 44090096--44090141 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
44090086 TGGTTTTTCA
* *
44090096 AATTTTATAGATTTATAT
1 AATTTTATAAAATTATAT
*
44090114 AATTTTAAAAAATTATAT
1 AATTTTATAAAATTATAT
*
44090132 AAATTTATAA
1 AATTTTATAA
44090142 CCTTCTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTTATAAAATTATAT
Found at i:44100574 original size:12 final size:12
Alignment explanation
Indices: 44100557--44100582 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44100547 ATACATGTAT
44100557 TTGTCACTTCAA
1 TTGTCACTTCAA
44100569 TTGTCACTTCAA
1 TTGTCACTTCAA
44100581 TT
1 TT
44100583 ATCTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (12 bp):
TTGTCACTTCAA
Found at i:44100769 original size:25 final size:27
Alignment explanation
Indices: 44100741--44100799 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
44100731 ATTTGGGAAT
*
44100741 GCTCAT-ACGAGCACATA-AATAAGAA
1 GCTCATCACGAGCACATATAACAAGAA
* *
44100766 GCTCTCTCTCGAGCACATATAACAAGAA
1 GCTC-ATCACGAGCACATATAACAAGAA
44100794 GCTCAT
1 GCTCAT
44100800 GTAAGCCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 4 0.15
26 1 0.04
27 11 0.41
28 11 0.41
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.20
Consensus pattern (27 bp):
GCTCATCACGAGCACATATAACAAGAA
Found at i:44100928 original size:24 final size:24
Alignment explanation
Indices: 44100876--44100930 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
44100866 AAACTTATGC
* **
44100876 GAGCCAATAACGGGTAGCTCCGAA
1 GAGCCATTAACGGAAAGCTCCGAA
*
44100900 GAGCCATTAACGGAAAGCTCCGGA
1 GAGCCATTAACGGAAAGCTCCGAA
*
44100924 TAGCCAT
1 GAGCCAT
44100931 ATATTGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (24 bp):
GAGCCATTAACGGAAAGCTCCGAA
Found at i:44103025 original size:23 final size:23
Alignment explanation
Indices: 44102989--44103044 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
44102979 CGGAGATAAG
* *
44102989 GGTAACCCTGACACAAAATCCAT
1 GGTAACTCTTACACAAAATCCAT
*
44103012 GGTAACTCTTACACAAAGTCCAT
1 GGTAACTCTTACACAAAATCCAT
* *
44103035 AGTAATTCTT
1 GGTAACTCTT
44103045 TCCCATTTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (23 bp):
GGTAACTCTTACACAAAATCCAT
Done.