Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 147 of 311
Found at i:49970270 original size:46 final size:46
Alignment explanation
Indices: 49970110--49970282 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
49970100 AACCCGCCCC
* * *
49970110 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTACATCCA
* * *
49970156 TAAATGAACTCGGACTCAACTTAACGAGTTCGGATACCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--A-C-ATTTACATCCA
* * *
49970204 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
49970249 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49970283 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 5 0.05
46 57 0.54
47 27 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:49970739 original size:30 final size:30
Alignment explanation
Indices: 49970705--49970764 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49970695 ATTTAATACG
49970705 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
49970735 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
49970765 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:49971697 original size:52 final size:50
Alignment explanation
Indices: 49971574--49971708 Score: 153
Period size: 52 Copynumber: 2.7 Consensus size: 50
49971564 TCAGGATATT
* * * * * **
49971574 ACATAGTAGTCTGGACTTAGTACTTCACATGCGACCTAACTATCTGGTAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGAAAC
* * *
49971624 ACGTAGTAACCTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAAAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGAAAC
*
49971676 ACATAGTAGCCTGCACATAGTACTACACATGTG
1 ACATAGTAGCCTGCACTTAGTACTACACATGTG
49971709 TTCTCACAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
50 31 0.44
52 39 0.56
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGAAAC
Found at i:49981558 original size:29 final size:29
Alignment explanation
Indices: 49981482--49981558 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
49981472 TAGTTATACC
*
49981482 GATTTGGCTTCAGGCCATGCATATCGGAT
1 GATTTGGCTTCGGGCCATGCATATCGGAT
49981511 GATTTGGCTTCGGGCCATGCATATCGGAT
1 GATTTGGCTTCGGGCCATGCATATCGGAT
* *
49981540 GATTTGGCTTTGGGTCATG
1 GATTTGGCTTCGGGCCATG
49981559 ATAATTATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.34
Consensus pattern (29 bp):
GATTTGGCTTCGGGCCATGCATATCGGAT
Found at i:49995323 original size:9 final size:9
Alignment explanation
Indices: 49995309--49995334 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49995299 TACATGCCAT
49995309 TGAACAAAA
1 TGAACAAAA
49995318 TGAACAAAA
1 TGAACAAAA
49995327 TGAACAAA
1 TGAACAAA
49995335 GTCTCGATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (9 bp):
TGAACAAAA
Found at i:50003875 original size:43 final size:41
Alignment explanation
Indices: 50003828--50003966 Score: 98
Period size: 43 Copynumber: 3.3 Consensus size: 41
50003818 GCACGTCTGA
50003828 GACATTGGCATCGATTTGAAATTACGTGTAAGACCATATCTCG
1 GACATTGGCATCGATTTG--ATTACGTGTAAGACCATATCTCG
** * * * * * *
50003871 GACATCAGCATCATATTTGATTTCGTGTAAGACCCTGTTTGG
1 GACATTGGCATC-GATTTGATTACGTGTAAGACCATATCTCG
* * * ** *
50003913 GACAATGGCATCGATATTTGATTACATGTATGACCACGTCTGG
1 GACATTGGCATCG--ATTTGATTACGTGTAAGACCATATCTCG
*
50003956 GACGTTGGCAT
1 GACATTGGCAT
50003967 TATACTAGTT
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
42 27 0.37
43 41 0.56
44 5 0.07
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
GACATTGGCATCGATTTGATTACGTGTAAGACCATATCTCG
Found at i:50003916 original size:42 final size:43
Alignment explanation
Indices: 50003852--50003935 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 43
50003842 TTTGAAATTA
50003852 CGTGTAAGACCATATCTCGGAC-ATCAGCATC-ATATTTGATTT
1 CGTGTAAGACCATATCTCGGACAAT-AGCATCGATATTTGATTT
* * * * *
50003894 CGTGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGATT
1 CGTGTAAGACCATATCTCGGACAATAGCATCGATATTTGATT
50003936 ACATGTATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 23 0.66
43 12 0.34
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATATCTCGGACAATAGCATCGATATTTGATTT
Found at i:50011929 original size:20 final size:20
Alignment explanation
Indices: 50011904--50011944 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50011894 GGTGAATAAA
50011904 AGAGTTAAATTTGAATTTAT
1 AGAGTTAAATTTGAATTTAT
50011924 AGAGTTAAATTTGAATTTAT
1 AGAGTTAAATTTGAATTTAT
50011944 A
1 A
50011945 TAGGTCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
AGAGTTAAATTTGAATTTAT
Found at i:50012355 original size:43 final size:43
Alignment explanation
Indices: 50012308--50012393 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
50012298 TGTTGACATC
*
50012308 ATATTTGATTTC-GTGTAAGACC-CTGTCTGGGACAGTGGCATTG
1 ATATTTGATTACAG-GTAAGACCAC-GTCTGGGACAGTGGCATTG
*
50012351 ATATTTGATTACAGGTAAGACCACGTCTGGGACATTGGCATTG
1 ATATTTGATTACAGGTAAGACCACGTCTGGGACAGTGGCATTG
50012394 TACGAGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 37 0.95
44 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
ATATTTGATTACAGGTAAGACCACGTCTGGGACAGTGGCATTG
Found at i:50016085 original size:43 final size:43
Alignment explanation
Indices: 50016024--50016109 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
50016014 AAATTACATG
*
50016024 TGTCACGTACATCATGAACTCAGACCAACTCAATGAGCTCAGA
1 TGTCACATACATCATGAACTCAGACCAACTCAATGAGCTCAGA
* * *
50016067 TGTCACATATATCATGAACTCAGACCAACTTAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCAACTCAATGAGCTCAGA
50016110 ACACATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (43 bp):
TGTCACATACATCATGAACTCAGACCAACTCAATGAGCTCAGA
Found at i:50021779 original size:24 final size:24
Alignment explanation
Indices: 50021730--50021782 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
50021720 ATCCAATTTT
*
50021730 CACACATAGTGCTCGTCACACTCG
1 CACACATAGTGCTAGTCACACTCG
50021754 CACACATAGTGCCATAGT-ACAC-CG
1 CACACATAGTG-C-TAGTCACACTCG
50021778 CACAC
1 CACAC
50021783 TCAGTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 18 0.69
25 5 0.19
26 3 0.12
ACGTcount: A:0.30, C:0.38, G:0.15, T:0.17
Consensus pattern (24 bp):
CACACATAGTGCTAGTCACACTCG
Found at i:50025367 original size:39 final size:40
Alignment explanation
Indices: 50025310--50025409 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 40
50025300 TGGATGAAAA
*
50025310 CCGGGCTAAGTCCCGAAGGCATCGGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATCGGCACGAGTGACTAAAT
* ** ** *
50025349 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATCGGCACGAGTGACTAAAT
50025389 CCGGGCTAAGTCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
50025410 ATTGTGCGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.56
40 23 0.44
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCGGCACGAGTGACTAAAT
Found at i:50025400 original size:40 final size:39
Alignment explanation
Indices: 50025310--50025460 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 39
50025300 TGGATGAAAA
** ** * *
50025310 CCGGGCTAAGTCCCGAAGGCATCGGCACTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
50025349 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
50025389 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
50025429 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
50025461 AGTTATATCC
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 29 0.30
40 64 0.66
41 2 0.02
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:50025521 original size:14 final size:14
Alignment explanation
Indices: 50025502--50025528 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50025492 GATTTGGGAA
50025502 TGAGCATAATGTTT
1 TGAGCATAATGTTT
50025516 TGAGCATAATGTT
1 TGAGCATAATGTT
50025529 ATAGTCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (14 bp):
TGAGCATAATGTTT
Found at i:50035398 original size:48 final size:47
Alignment explanation
Indices: 50035301--50035618 Score: 197
Period size: 48 Copynumber: 6.7 Consensus size: 47
50035291 GTGAATTGCC
* * * * ***
50035301 GATGCCATGTCCTAGACATGGTCTTACATTGGCTCACATGTCGA-GGCT
1 GATGCCATGTCCCA-ACATGGTCTTACACTAGCTCTCAT-AAAATGGCT
* *
50035349 GATGCCTTGTCCCAGACATGGTCTTACACTAGCTCTCGTCAAAAT-GCT
1 GATGCCATGTCCCA-ACATGGTCTTACACTAGCTCTCAT-AAAATGGCT
* * * *
50035397 GA-GACCATGT-CCAACATGGTCTTACACTGGCTCTCATATAGTGGCC
1 GATG-CCATGTCCCAACATGGTCTTACACTAGCTCTCATAAAATGGCT
* * * * * * *
50035443 GATGCCGTGTCCTAAACATGGTTTTACACTGGCTCACA-ATCAATGTC-
1 GATGCCATGTCC-CAACATGGTCTTACACTAGCTCTCATA-AAATGGCT
* * *
50035490 GATGCCATGT-CCAACATGGTCTTACACTGGCTCTCATAACATAG-T
1 GATGCCATGTCCCAACATGGTCTTACACTAGCTCTCATAAAATGGCT
* * * * * *
50035535 CGATGCCATGTTTCAAACTTGGTCTTACACTAGC-AT-ATGAAATGTGGCC
1 -GATGCCATG-TCCCAACATGGTCTTACACTAGCTCTCAT-AAA-ATGGCT
50035584 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 GATGCCATGTCCCA-ACATGGTCTTACACTAGCTC
50035619 ACATGTCACC
Statistics
Matches: 210, Mismatches: 43, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
45 27 0.13
46 44 0.21
47 23 0.11
48 116 0.55
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAACATGGTCTTACACTAGCTCTCATAAAATGGCT
Found at i:50035523 original size:93 final size:92
Alignment explanation
Indices: 50035300--50035618 Score: 270
Period size: 94 Copynumber: 3.4 Consensus size: 92
50035290 GGTGAATTGC
* * * * * * *
50035300 CGATGCCATGTCCTAGACATGGTCTTACATTGGCTCACATGTCGAGGCTGATGCCTTGTCCCAGA
1 CGATGCCATGTCC-A-ACATGGTCTTACACTGGCTCTCATATAGAGGCCGATGCCGTGTCCCAAA
* *
50035365 CATGGTCTTACACTAGCTCTCGTCAAAATG
64 CATGGTCTTACACTAGCTCACATC-AAATG
* *
50035395 CTGA-GACCATGTCCAACATGGTCTTACACTGGCTCTCATATAGTGGCCGATGCCGTGTCCTAAA
1 C-GATG-CCATGTCCAACATGGTCTTACACTGGCTCTCATATAGAGGCCGATGCCGTGTCCCAAA
* *
50035459 CATGGTTTTACACTGGCTCACAATC-AATG
64 CATGGTCTTACACTAGCTCAC-ATCAAATG
* * * * **
50035488 TCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATA-ACATAGTCGATGCCATGTTTCAAA
1 -CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATAGA-GGCCGATGCCGTGTCCCAAA
* * *
50035552 CTTGGTCTTACACTAG--CATATGAAATGTGG
64 CATGGTCTTACACTAGCTCACATCAAA--T-G
*
50035582 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 -CGATGCCATGT-CCA-ACATGGTCTTACACTGGCTC
50035619 ACATGTCACC
Statistics
Matches: 184, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
90 2 0.01
91 4 0.02
92 1 0.01
93 68 0.37
94 72 0.39
95 8 0.04
96 29 0.16
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATAGAGGCCGATGCCGTGTCCCAAACA
TGGTCTTACACTAGCTCACATCAAATG
Found at i:50035595 original size:141 final size:142
Alignment explanation
Indices: 50035298--50035622 Score: 360
Period size: 141 Copynumber: 2.3 Consensus size: 142
50035288 TGGGTGAATT
* * * *
50035298 GCCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCACATGTCGAGGCTGATGCCTTGTCCCA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCAAGGCTGATGCCATGTCCCA
* * *
50035363 GACATGGTCTTACACTAGCTCTCGTCAAAATGCTGAGACCATGTCCAACATGGTCTTACACTGGC
66 GACATGGTCTTACACTAGCTCTCATCAAAATGCTGAGACCATGTCAAACATGGTCTTACACTAGC
* *
50035428 TCTCATATAGTG
131 TATCAAATAGTG
* * * *
50035440 GCCGATGCCGTGTCCTAAACATGGTTTTACACTGGCTCACA-ATCAATG-TCGATGCCATGT-CC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCAAGGCT-GATGCCATGTCCC
* * *
50035502 A-ACATGGTCTTACACTGGCTCTCAT-AACATAG-TCGATG-CCATGTTTCAAACTTGGTCTTAC
65 AGACATGGTCTTACACTAGCTCTCATCAAAAT-GCT-GA-GACCATG--TCAAACATGGTCTTAC
*
50035563 ACTAGCATATGAAAT-GTG
125 ACTAGC-TATCAAATAGTG
* *
50035581 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT
50035623 GTCACCCCAA
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
138 5 0.03
139 30 0.20
140 5 0.03
141 71 0.46
142 42 0.27
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (142 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCAAGGCTGATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCATCAAAATGCTGAGACCATGTCAAACATGGTCTTACACTAGC
TATCAAATAGTG
Found at i:50037427 original size:48 final size:48
Alignment explanation
Indices: 50037335--50037464 Score: 161
Period size: 48 Copynumber: 2.7 Consensus size: 48
50037325 GGTTATGTGT
* * * *
50037335 GATCTCATGTAAAACCATCTCTGGGACATGGTATTGGCACCGATATGA
1 GATCTCATGTAAGACCATATCTGGGACATGGCATTAGCACCGATATGA
* * * *
50037383 GATCCCATGTAAGACCATATCTGGGATATGGCATTAGCATCGATATGT
1 GATCTCATGTAAGACCATATCTGGGACATGGCATTAGCACCGATATGA
* * *
50037431 GATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 GATCTCATGTAAGACCATATCTGGGACATGGCAT
50037465 CGATATGAGA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCTCATGTAAGACCATATCTGGGACATGGCATTAGCACCGATATGA
Found at i:50039083 original size:26 final size:26
Alignment explanation
Indices: 50039054--50039134 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
50039044 TTTAGCATGA
50039054 AATGATTTGGTAAGGCATGATGTTAT
1 AATGATTTGGTAAGGCATGATGTTAT
* * * ** *
50039080 AATGCA--TGCTAGATG-ATGGTGCGAA
1 AATG-ATTTGGTA-AGGCATGATGTTAT
50039105 AATGATTTGGTAAGGCATGATGTTAT
1 AATGATTTGGTAAGGCATGATGTTAT
50039131 AATG
1 AATG
50039135 CATGCTAGAT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.33
Consensus pattern (26 bp):
AATGATTTGGTAAGGCATGATGTTAT
Found at i:50046645 original size:22 final size:21
Alignment explanation
Indices: 50046613--50046655 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
50046603 AATAATTCAT
*
50046613 AACATATAGCATACATTTATCA
1 AACATAAAGCATACA-TTATCA
*
50046635 AACATAAAGCATTCATTATCA
1 AACATAAAGCATACATTATCA
50046656 TAAATCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (21 bp):
AACATAAAGCATACATTATCA
Found at i:50051697 original size:46 final size:46
Alignment explanation
Indices: 50051625--50051791 Score: 130
Period size: 46 Copynumber: 3.6 Consensus size: 46
50051615 TGTAACCCGC
* * *
50051625 CCATAAGCGAACTCAGACTCACCTCAATGAGCTCGAG-CGTTCGCAT
1 CCATAAG-GAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
* * * * *
50051671 CCATAAGTGAACTCGGACTCAACTCAACAAGTTTGGATGCCTAGTT-ACAT
1 CCATAAG-GAACTCGGACTCAACTCAACGAG-CTCGA-GAC--GTTCGCAT
*
50051721 -C-TCAA-GAACTCGGACTCAACTCAACGAGCTCG-GACATTCGCAT
1 CCAT-AAGGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
*
50051764 CCATAAGAGAACTTGGACTCAACTCAAC
1 CCATAAG-GAACTCGGACTCAACTCAAC
50051792 CAGTTCGGAT
Statistics
Matches: 95, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 5 0.05
45 1 0.01
46 47 0.49
47 25 0.26
48 2 0.02
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
Found at i:50051750 original size:93 final size:93
Alignment explanation
Indices: 50051633--50051804 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
50051623 GCCCATAAGC
* * * *
50051633 GAACTCAGACTCACCTCAATGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGAGAACTCGGACTCAACTCA
*
50051697 ACAAGTTTGGATGCCTAGTTACATCTCAA
65 ACAAGTTCGGATGCCTAGTTACATCTCAA
* *
50051726 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
*
50051791 CCAGTTCGGATGCC
66 CAAGTTCGGATGCC
50051805 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAA
Found at i:50053526 original size:47 final size:47
Alignment explanation
Indices: 50053448--50053994 Score: 869
Period size: 47 Copynumber: 11.6 Consensus size: 47
50053438 CCCTTCGGGA
* * * * * *
50053448 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50053495 CCTGTCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50053542 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50053589 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50053636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50053683 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50053732 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50053779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50053826 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50053875 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50053922 TTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50053969 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
50053995 CACAATTATC
Statistics
Matches: 465, Mismatches: 31, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 373 0.80
49 92 0.20
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50053761 original size:143 final size:143
Alignment explanation
Indices: 50053448--50053994 Score: 895
Period size: 143 Copynumber: 3.9 Consensus size: 143
50053438 CCCTTCGGGA
* * * * * * * *
50053448 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
50053513 TTCCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
50053576 TCGGCTATTAGGC
131 TCGGCCATTAGGC
*
50053589 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50053654 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
50053719 TTGGCCATTCGGC
131 TCGGCCATTAGGC
*
50053732 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50053797 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
50053862 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * *
50053875 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCTTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
50053940 TTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATATACA--TTCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
50053995 CACAATTATC
Statistics
Matches: 383, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 98 0.26
143 285 0.74
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:50053769 original size:190 final size:188
Alignment explanation
Indices: 50053448--50053994 Score: 898
Period size: 190 Copynumber: 2.9 Consensus size: 188
50053438 CCCTTCGGGA
* * * * * * * *
50053448 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * *
50053513 TTCCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
50053578 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50053636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
50053701 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
50053766 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50053826 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50053891 ACTTTCACATTCATCACATTGGCCATTCGGCTTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
50053956 TCGG-TCATTAGGCCTTATCACATATATATACATTCACAT
129 TCGGCT-ATTAGGCCTTATCACATATATACACTTTCACAT
50053995 CACAATTATC
Statistics
Matches: 338, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
188 47 0.14
189 1 0.00
190 243 0.72
192 47 0.14
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50072293 original size:37 final size:37
Alignment explanation
Indices: 50072243--50072316 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
50072233 CCGAGTTAGA
*
50072243 GAAAATTCGCAATGTGTTTCATGTATCGATGTTGCAT
1 GAAAATCCGCAATGTGTTTCATGTATCGATGTTGCAT
50072280 GAAAATCCGCAATGTGTTTCATGTATCGATGTTGCAT
1 GAAAATCCGCAATGTGTTTCATGTATCGATGTTGCAT
50072317 TGATATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (37 bp):
GAAAATCCGCAATGTGTTTCATGTATCGATGTTGCAT
Found at i:50078741 original size:42 final size:43
Alignment explanation
Indices: 50078643--50078794 Score: 150
Period size: 42 Copynumber: 3.6 Consensus size: 43
50078633 AATGCCAACA
*
50078643 TCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCAAATATCGATGCCACTG
* *
50078686 -CCCAGACACGGTCTTACATGAAATCAAATA-CGATGTCGA-TG
1 TCCCAGACATGGTCTTACATGAAATCAAATATCGATG-CCACTG
* * * * *
50078727 TCCCAAACATGGTCTTACACGTAAATCATAA-GTCGATGCTAATG
1 TCCCAGACATGGTCTTACATG-AAATCA-AATATCGATGCCACTG
* * *
50078771 TCCCAGACGTGGCCTTACACGAAA
1 TCCCAGACATGGTCTTACATGAAA
50078795 ACACATATTA
Statistics
Matches: 92, Mismatches: 11, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 7 0.08
42 47 0.51
43 11 0.12
44 27 0.29
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCAAATATCGATGCCACTG
Found at i:50080389 original size:43 final size:43
Alignment explanation
Indices: 50080325--50080497 Score: 203
Period size: 43 Copynumber: 4.0 Consensus size: 43
50080315 CATAGGATTT
*
50080325 TCGATATGTG-TTCTCATGTAAGACCATGTCTAGGACGTTGGCA
1 TCGATATGTGATT-TCATGTAAGACCATGTCTGGGACGTTGGCA
*
50080368 TCGATATGTGATTTCGA-GTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTTC-ATGTAAGACCATGTCTGGGACGTTGGCA
* *
50080411 TCG-TAATTGTGA-TTCGTGTAAGACCGTGTCTGGGACAG-TGGCA
1 TCGAT-A-TGTGATTTCATGTAAGACCATGTCTGGGAC-GTTGGCA
* * *
50080454 TCGACATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACGTTGGCA
50080497 T
1 T
50080498 TGTACGATAC
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 7 0.06
43 96 0.86
44 8 0.07
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTGGGACGTTGGCA
Found at i:50088146 original size:54 final size:53
Alignment explanation
Indices: 50088064--50088230 Score: 228
Period size: 54 Copynumber: 3.1 Consensus size: 53
50088054 GGCTAATCAA
*
50088064 TCATTTTACCTTACAGGGGTATTACAGTCATTTTATCCTATAGGGGTATTACAG
1 TCATTTTA-CTTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTACAG
50088118 TCATTTTATCTTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTACAG
1 TCATTTTA-CTTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTACAG
* * * * * *
50088172 TAATTTTACTCTACAGGAGTATTTCGGTCATTTTACCCTATTA-GGGTATTTCGG
1 TCATTTTACT-TACAGGGGTATTACAGTCATTTTACCCTA-TAGGGGTATTACAG
50088226 TCATT
1 TCATT
50088231 CTGCCTTCTG
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 2 0.02
54 98 0.96
55 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (53 bp):
TCATTTTACTTACAGGGGTATTACAGTCATTTTACCCTATAGGGGTATTACAG
Found at i:50088220 original size:27 final size:27
Alignment explanation
Indices: 50088064--50088230 Score: 192
Period size: 27 Copynumber: 6.2 Consensus size: 27
50088054 GGCTAATCAA
* *
50088064 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTACAG
*
50088091 TCATTTTATCCTATAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTACAG
* * *
50088118 TCATTTTATCTTACAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTACAG
50088145 TCATTTTACCCTATAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTACAG
* * * * * *
50088172 TAATTTTACTCTACAGGAGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTACAG
* *
50088199 TCATTTTACCCTATTA-GGGTATTTCGG
1 TCATTTTACCCTA-TAGGGGTATTACAG
50088226 TCATT
1 TCATT
50088231 CTGCCTTCTG
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 120 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACAG
Found at i:50092692 original size:28 final size:29
Alignment explanation
Indices: 50092617--50092704 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
50092607 AGCATGGCTG
* * * *
50092617 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
50092644 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
*
50092673 CCAGA-ATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
50092701 CCAG
1 CCAG
50092705 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 12 0.24
28 24 0.48
29 14 0.28
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:50092857 original size:28 final size:28
Alignment explanation
Indices: 50092810--50092874 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50092800 AAATTAACCC
*
50092810 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
50092838 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
50092866 TAGGGGTAT
1 TAGGGGTAT
50092875 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:50100000 original size:19 final size:19
Alignment explanation
Indices: 50099964--50100002 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50099954 TTTTCATCAT
* *
50099964 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
50099983 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
50100002 A
1 A
50100003 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:50100525 original size:28 final size:28
Alignment explanation
Indices: 50100440--50100516 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
50100430 AGCATGGCTG
* * *
50100440 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCAGTG-CA
*
50100467 CCAGATACAGATATTTTGTGGCAGTGCA
1 CCAGATACAGATAATTTGTGGCAGTGCA
50100495 CCAGA-ACAGATAATTTGTGGCA
1 CCAGATACAGATAATTTGTGGCA
50100517 TAGCCACCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
27 27 0.63
28 8 0.19
29 8 0.19
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (28 bp):
CCAGATACAGATAATTTGTGGCAGTGCA
Found at i:50100679 original size:28 final size:28
Alignment explanation
Indices: 50100632--50100696 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50100622 AAATTAACCC
*
50100632 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
50100660 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
50100688 TAGGGGTAT
1 TAGGGGTAT
50100697 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:50105499 original size:30 final size:30
Alignment explanation
Indices: 50105463--50105533 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
50105453 CACACGAACA
50105463 GACACACGGCCGTGTCTCTAGACCGTGTGT
1 GACACACGGCCGTGTCTCTAGACCGTGTGT
50105493 GACACACGGCCGTGTCTCTAGACCGTGTGT
1 GACACACGGCCGTGTCTCTAGACCGTGTGT
50105523 GACACACGGCC
1 GACACACGGCC
50105534 TGGTACATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.18, C:0.32, G:0.30, T:0.20
Consensus pattern (30 bp):
GACACACGGCCGTGTCTCTAGACCGTGTGT
Found at i:50110630 original size:30 final size:30
Alignment explanation
Indices: 50110594--50110654 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50110584 CATTTAATAC
* * *
50110594 AAACTTTGGCAAAATTATATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTCTTGCCCCT
* *
50110624 AAACTTTTGCATAATTACACTCTTGCCCCT
1 AAACTTTGGCAAAATTACACTCTTGCCCCT
50110654 A
1 A
50110655 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTCTTGCCCCT
Found at i:50116430 original size:60 final size:60
Alignment explanation
Indices: 50116333--50116472 Score: 262
Period size: 60 Copynumber: 2.3 Consensus size: 60
50116323 TTACGGTGGG
*
50116333 ATTACCAGTCCAGGCTAAATCCCTTGTAGTGACAAACAGCTATAATGAGCTCGGATCTAA
1 ATTACCAGTCCAGGCTAAATCCCTTGTAGTGAAAAACAGCTATAATGAGCTCGGATCTAA
*
50116393 ATTACCAGTCCAGGCTACATCCCTTGTAGTGAAAAACAGCTATAATGAGCTCGGATCTAA
1 ATTACCAGTCCAGGCTAAATCCCTTGTAGTGAAAAACAGCTATAATGAGCTCGGATCTAA
50116453 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
50116473 TCAAACCCTA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (60 bp):
ATTACCAGTCCAGGCTAAATCCCTTGTAGTGAAAAACAGCTATAATGAGCTCGGATCTAA
Found at i:50117021 original size:15 final size:15
Alignment explanation
Indices: 50117001--50117030 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50116991 TTTGCCCCTA
50117001 ACCTTTCACATTATT
1 ACCTTTCACATTATT
50117016 ACCTTTCACATTATT
1 ACCTTTCACATTATT
50117031 TACGATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (15 bp):
ACCTTTCACATTATT
Found at i:50129936 original size:46 final size:46
Alignment explanation
Indices: 50129886--50130061 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
50129876 TGGTTGAGCA
50129886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50129932 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50129977 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50130025 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50130062 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50130042 original size:93 final size:93
Alignment explanation
Indices: 50129883--50130054 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50129873 GGATGGTTGA
* *
50129883 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50129948 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50129976 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50130041 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
50130055 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50145648 original size:9 final size:9
Alignment explanation
Indices: 50145634--50145658 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50145624 AAAAACTTAG
50145634 AAATTGGGC
1 AAATTGGGC
50145643 AAATTGGGC
1 AAATTGGGC
50145652 AAATTGG
1 AAATTGG
50145659 TCTTTAAGAA
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:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (9 bp):
AAATTGGGC
Found at i:50149705 original size:54 final size:54
Alignment explanation
Indices: 50149639--50149747 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
50149629 TCTAGCAAGG
*
50149639 TAGGGCACAACACCTCGAATCTCAGAGAGTAAGCATTTTATTCAAAACTCGTAT
1 TAGGGCACAACACCTCGAATCGCAGAGAGTAAGCATTTTATTCAAAACTCGTAT
*
50149693 TAGGGCATAACACCTCGAATCGCAGAGAGTAAGCATTTTATTCAAAACTCGTAT
1 TAGGGCACAACACCTCGAATCGCAGAGAGTAAGCATTTTATTCAAAACTCGTAT
50149747 T
1 T
50149748 GCGATTTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (54 bp):
TAGGGCACAACACCTCGAATCGCAGAGAGTAAGCATTTTATTCAAAACTCGTAT
Found at i:50150312 original size:3 final size:3
Alignment explanation
Indices: 50150300--50150476 Score: 159
Period size: 3 Copynumber: 60.7 Consensus size: 3
50150290 AATAGGTAAA
* *
50150300 AAT AAT -AT AAT AAT AAT -AT AAT AGT AAT AAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
50150345 AAT AAT AAT -AT AAT AAT AAT AGT AGT AAT AGT AAT AA- AGAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * * * *
50150389 AGT TAT AAA AAT AAT ACT AAT AGT AAT AAT AAG AAT AAG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
50150437 AAT AAT -AT ATT TAT AAT AAT AAT AAT AGT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50150477 GATTAACTAA
Statistics
Matches: 137, Mismatches: 30, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
2 11 0.08
3 125 0.91
4 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50151256 original size:21 final size:22
Alignment explanation
Indices: 50151231--50151272 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50151221 AGATTTGCTA
*
50151231 TTTTGA-TGTTTGAATCTCCCT
1 TTTTGATTGTTTCAATCTCCCT
*
50151252 TTTTGATTGTTTCAATGTCCC
1 TTTTGATTGTTTCAATCTCCC
50151273 CAAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (22 bp):
TTTTGATTGTTTCAATCTCCCT
Found at i:50152028 original size:41 final size:42
Alignment explanation
Indices: 50151971--50152635 Score: 246
Period size: 45 Copynumber: 14.7 Consensus size: 42
50151961 ATTTTTAGTG
*
50151971 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TTTTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTGATC
* * *
50152012 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA--T-TTGATTT-T-G-----ATC
* * * * * **
50152064 TGTTCCACAGCAACTTTAGGGAAATAAGATTTGCTATCTACAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG--ATTTTGA-TC
* * * * * ** *
50152109 TGCTTCACTGCAACTTCAGAGAGATAAAACTAGTGACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGATTTTGATC
* * * *
50152153 TGCTCCACTACAACTTCAAGGATATAAGGTTTG-TTTTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTGATC
* * * *
50152194 TACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAACTTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGATTT-TGA--TC
* * * *
50152241 AAT-CTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTT
1 --TGC---TCCACTGCAACTTCAGGGAGATAAGATTTG--ATTTTGA-TC
* * * ** *
50152290 TGCTCCACTACAACTTCAGGGAGATAAGACTAGTGACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGATTTTGATC
* * *
50152334 TGCTCCACCGCAACTTTAGGGAGATAAGGTTTG-TTTTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTGATC
** * * *
50152375 TGCTTTATTGCAACTTCAGAGAGATAAGATCTGAGATTTATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGATTT-T-G-----ATC
* ** * *
50152426 TGTTCCACTATAACTTCAGGGA-ATTAAGATTTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGA-TAAGATTTG--ATTTTGA-TC
* *
50152471 TGCTCCAATGCAACTTCAGGGAGATAAGGTTTGA-TTTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTGATC
* *
50152512 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGATTT-T-G-----ATC
* * * * * *
50152563 T-ATCCATTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG--ATTTTGA-TC
50152607 TGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA
50152636 CTAGTGACTT
Statistics
Matches: 450, Mismatches: 113, Indels: 118
0.66 0.17 0.17
Matches are distributed among these distances:
41 108 0.24
42 10 0.02
43 11 0.02
44 63 0.14
45 112 0.25
46 6 0.01
47 8 0.02
48 4 0.01
49 9 0.02
50 32 0.07
51 61 0.14
52 26 0.06
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (42 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATTTTGATC
Found at i:50152044 original size:137 final size:138
Alignment explanation
Indices: 50151836--50152135 Score: 467
Period size: 137 Copynumber: 2.2 Consensus size: 138
50151826 TTTCAGCCTA
* *
50151836 CTCCACTACAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTTAGAAAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAAAGATA
* *
50151901 AGATCTGTTTATTTATAGCTTCAATCTGTTCCA-TGCAACTTTAGGGAAATAAGATTCACTATTT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACAGCAACTTTAGGGAAATAAGATTCACTATCT
** *
50151965 TTAGTGTG
131 ACAGTCTG
* * *
50151973 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAAAGATA
**
50152038 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACAGCAACTTTAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACAGCAACTTTAGGGAAATAAGATTCACTATCT
50152103 ACAGTCTG
131 ACAGTCTG
* *
50152111 CTTCACTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
50152136 AACTAGTGAC
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 93 0.63
138 55 0.37
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (138 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAAAGATA
AGATCTGTTTATTTATAGCTTCAATCTGTTCCACAGCAACTTTAGGGAAATAAGATTCACTATCT
ACAGTCTG
Found at i:50152253 original size:92 final size:92
Alignment explanation
Indices: 50152144--50152498 Score: 303
Period size: 92 Copynumber: 3.8 Consensus size: 92
50152134 AAAACTAGTG
* * * * *
50152144 ACTTCAACCTGCTCCACTACAACTTCAAGGATATAAGGTTTGTTTTGATCTACTCTACTGCAACT
1 ACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGGTTTGTTTTGATCTGCTCTACTGCAACT
50152209 TCAGAGAGATAAGATCTGTGATTTATA
66 TCAGAGAGATAAGATCTGTGATTTATA
* * * * * * *
50152236 ACTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTTTGCTCCACTAC
1 ACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGGTTTG-T-T-TTGA-TCTGCTCTACTGC
*
50152301 AACTTCAGGGAGATAAGA-CTAGTG-------
62 AACTTCAGAGAGATAAGATCT-GTGATTTATA
* * ** * * * *
50152325 ACTTCAACCTGCTCCACCGCAACTTTAGGGAGATAAGGTTTGTTTTGATCTGCTTTATTGCAACT
1 ACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGGTTTGTTTTGATCTGCTCTACTGCAACT
*
50152390 TCAGAGAGATAAGATCTGAGATTTATA
66 TCAGAGAGATAAGATCTGTGATTTATA
* * * * * * *
50152417 GCTTCAATCTGTTCCACTATAACTTCAGGGAATTAAGATTTGCTATCTTCAGTCTGCTCCAATGC
1 ACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGGTTTG-T-T-TTGA-TCTGCTCTACTGC
*
50152482 AACTTCAGGGAGATAAG
62 AACTTCAGAGAGATAAG
50152499 GTTTGATTTG
Statistics
Matches: 203, Mismatches: 43, Indels: 30
0.74 0.16 0.11
Matches are distributed among these distances:
85 27 0.13
86 5 0.02
87 1 0.00
88 1 0.00
89 35 0.17
92 67 0.33
93 2 0.01
94 2 0.01
95 8 0.04
96 55 0.27
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (92 bp):
ACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGGTTTGTTTTGATCTGCTCTACTGCAACT
TCAGAGAGATAAGATCTGTGATTTATA
Found at i:50152324 original size:181 final size:181
Alignment explanation
Indices: 50151971--50152498 Score: 831
Period size: 181 Copynumber: 2.9 Consensus size: 181
50151961 ATTTTTAGTG
50151971 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
* * *
50152036 TAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACAGCAACTTTAGGGAAATAAGATTTGCTAT
66 TAAGATCTG-TGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
* * * *
50152101 CTACAGTCTGCTTCACTGCAACTTCAGAGAGATAAAACTAGTGACTTCAACC
130 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACC
* * * *
50152153 TGCTCCACTACAACTTCAAGGATATAAGGTTTGTTTTGATCTACTCTACTGCAACTTCAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
* *
50152218 TAAGATCTGTGATTTATAACTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
66 TAAGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
* *
50152283 TTCAGTTTGCTCCACTACAACTTCAGGGAGATAAGACTAGTGACTTCAACC
131 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACC
* * * *
50152334 TGCTCCACCGCAACTTTAGGGAGATAAGGTTTGTTTTGATCTGCTTTATTGCAACTTCAGAGAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
* ** *
50152399 TAAGATCTGAGATTTATAGCTTCAATCTGTTCCACTATAACTTCAGGGAATTAAGATTTGCTATC
66 TAAGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
*
50152464 TTCAGTCTGCTCCAATGCAACTTCAGGGAGATAAG
131 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
50152499 GTTTGATTTG
Statistics
Matches: 314, Mismatches: 32, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
181 244 0.78
182 70 0.22
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (181 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
TAAGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACC
Found at i:50152492 original size:137 final size:136
Alignment explanation
Indices: 50152293--50152634 Score: 508
Period size: 137 Copynumber: 2.5 Consensus size: 136
50152283 TTCAGTTTGC
* * * ** * *
50152293 TCCACTACAACTTCAGGGAGATAAGACTAG-TGA-CTTCAACCTGCTCCACCGCAACTTTAGGGA
1 TCCACTACAACTTCAGGGAAATAAGATTTGCT-ATCTTCAGTCTGCTCCACTGCAACTTCAGGGA
* * *
50152356 GATAAGGTTTGTTTTGATCTGCTTTATTGCAACTTCAGAGAGATAAGATCTGAGATTTATAGCTT
65 GATAAGGTTTGATTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGAGATTTATAGCTT
*
50152421 CAATCTGT
130 CAATCT-A
* * *
50152429 TCCACTATAACTTCAGGGAATTAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
*
50152494 ATAAGGTTTGATTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTC
66 ATAAGGTTTGATTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGAGATTTATAGCTTC
50152559 AATCTA
131 AATCTA
*
50152565 TCCATTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
50152630 ATAAG
66 ATAAG
50152635 ACTAGTGACT
Statistics
Matches: 185, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
136 92 0.50
137 93 0.50
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (136 bp):
TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGGTTTGATTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGAGATTTATAGCTTC
AATCTA
Found at i:50152495 original size:96 final size:94
Alignment explanation
Indices: 50151974--50152498 Score: 423
Period size: 89 Copynumber: 5.7 Consensus size: 94
50151964 TTTAGTGTGC
* * * *
50151974 TCCACTGCAACTTCAGGGAGATAAGGTTTG-T-T-TTGA-TCTGCTCTACTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGGGA-ATAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAG
**
50152035 ATAAGATCTGTTTATTTATAGCTTCAATCTGT
65 ATAAGATCTG-AGATTTATA-CTTCAATCTGT
* * * * *
50152067 TCCACAGCAACTTTAGGGAAATAAGATTTGCTATCTACAGTCTGCTTCACTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGGG-AATAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAG
* * * *
50152132 ATAA-AACT-AG---T-GACTTCAACCTGC
65 ATAAGATCTGAGATTTATACTTCAATCTGT
* * * * * * *
50152156 TCCACTACAACTTCAAGGATATAAGGTTTG-T-T-TTGA-TCTACTCTACTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGGGA-ATAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAG
* *
50152217 ATAAGATCTGTGATTTATAACTTCAATCTAT
65 ATAAGATCTGAGATTTAT-ACTTCAATCTGT
* * * *
50152248 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTTTGCTCCACTACAACTTCAGGGAG
1 TCCACTGCAACTTCAGGG-AATAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAG
* * *
50152313 ATAAGA-CT-AG---T-GACTTCAACCTGC
65 ATAAGATCTGAGATTTATACTTCAATCTGT
* * * * ** *
50152337 TCCACCGCAACTTTAGGGAGATAAGGTTTG-T-T-TTGA-TCTGCTTTATTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGGGA-ATAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAG
50152398 ATAAGATCTGAGATTTATAGCTTCAATCTGT
65 ATAAGATCTGAGATTTATA-CTTCAATCTGT
** *
50152429 TCCACTATAACTTCAGGGAATTAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAA-TAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAG
50152494 ATAAG
65 ATAAG
50152499 GTTTGATTTG
Statistics
Matches: 335, Mismatches: 66, Indels: 59
0.73 0.14 0.13
Matches are distributed among these distances:
85 51 0.15
86 10 0.03
87 5 0.01
88 4 0.01
89 66 0.20
90 3 0.01
91 4 0.01
92 66 0.20
93 28 0.08
94 5 0.01
95 9 0.03
96 57 0.17
97 27 0.08
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (94 bp):
TCCACTGCAACTTCAGGGAATAAGATTTGCTATCTTCAGTCTGCTCCAATGCAACTTCAGAGAGA
TAAGATCTGAGATTTATACTTCAATCTGT
Found at i:50164405 original size:31 final size:29
Alignment explanation
Indices: 50164370--50164433 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
50164360 ATAAGAGCAA
*
50164370 AAAATAAATAAATG-AATAAAACGAATAAGCT
1 AAAATAAA-AAAGGAAATAAAA--AATAAGCT
*
50164401 AAAATAAAAAAGGAAATAATAAATAAGCT
1 AAAATAAAAAAGGAAATAAAAAATAAGCT
50164430 AAAA
1 AAAA
50164434 AATATTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.40
30 4 0.13
31 14 0.47
ACGTcount: A:0.69, C:0.05, G:0.09, T:0.17
Consensus pattern (29 bp):
AAAATAAAAAAGGAAATAAAAAATAAGCT
Found at i:50164541 original size:15 final size:15
Alignment explanation
Indices: 50164498--50164541 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
50164488 ATTTTAAAAA
* *
50164498 AATGATAGTAATAGT
1 AATGATAATAATATT
50164513 AATGATAATAATATT
1 AATGATAATAATATT
*
50164528 AATGGTAATAATAT
1 AATGATAATAATAT
50164542 AAGTAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (15 bp):
AATGATAATAATATT
Found at i:50164679 original size:3 final size:3
Alignment explanation
Indices: 50164667--50164792 Score: 105
Period size: 3 Copynumber: 43.0 Consensus size: 3
50164657 AGGTAAAAAC
* * * *
50164667 TAA T-A TAA TAA TAA T-A TAA TAA TAG TAG TAA TAG TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * *
50164713 TGG TAA TAA AAA TAA TAC TAA TAG TAA TAA TAA TAA GAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
50164760 TAT TTA TAA TAA TAA TAA TAG TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50164793 GATTAACTAA
Statistics
Matches: 94, Mismatches: 26, Indels: 6
0.75 0.21 0.05
Matches are distributed among these distances:
2 6 0.06
3 88 0.94
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:50165476 original size:16 final size:15
Alignment explanation
Indices: 50165451--50165491 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
50165441 AAGTAGATTT
50165451 GAAAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
* *
50165466 TAAATAAAAAAGGAAA
1 GAAA-AAAAAAGAAAA
50165482 GAAAAAAAAA
1 GAAAAAAAAA
50165492 CAACAGTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (15 bp):
GAAAAAAAAAGAAAA
Found at i:50170202 original size:19 final size:19
Alignment explanation
Indices: 50170176--50170219 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
50170166 AATTATGCTT
50170176 TGATTTCTTCATGAATATG
1 TGATTTCTTCATGAATATG
*
50170195 TTATTTCTTCATGAATATG
1 TGATTTCTTCATGAATATG
50170214 TGATTT
1 TGATTT
50170220 GGTGCTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (19 bp):
TGATTTCTTCATGAATATG
Found at i:50170430 original size:45 final size:44
Alignment explanation
Indices: 50170346--50170430 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
50170336 ATGTAATCTA
*
50170346 AACTCATTGAATTGTGTCTGAGTTCATGATATATGTGACATCCG
1 AACTCATTGAATTGTGTCTGAGTTCATGATATATATGACATCCG
* * *
50170390 AACTCATTGAATTTTGGTCTGAGTTCGTGATATGTATGACA
1 AACTCATTGAATTGT-GTCTGAGTTCATGATATATATGACA
50170431 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 14 0.39
45 22 0.61
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (44 bp):
AACTCATTGAATTGTGTCTGAGTTCATGATATATATGACATCCG
Found at i:50189050 original size:15 final size:15
Alignment explanation
Indices: 50189030--50189060 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50189020 TTGTCCTTTA
50189030 AAACTTTCAGTTTTC
1 AAACTTTCAGTTTTC
50189045 AAACTTTCAGTTTTC
1 AAACTTTCAGTTTTC
50189060 A
1 A
50189061 CCCTTATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (15 bp):
AAACTTTCAGTTTTC
Found at i:50192707 original size:21 final size:22
Alignment explanation
Indices: 50192678--50192724 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
50192668 CAGAAGGAGT
*
50192678 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
50192700 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
50192721 GAGT
1 GAGT
50192725 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:50203263 original size:7 final size:8
Alignment explanation
Indices: 50203237--50203265 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
50203227 TGAAATTTGG
50203237 ATTTTAAA
1 ATTTTAAA
50203245 ATTTTAAA
1 ATTTTAAA
50203253 ATTTT-AA
1 ATTTTAAA
50203260 ATTTTA
1 ATTTTA
50203266 TATGAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTAAA
Found at i:50203776 original size:41 final size:41
Alignment explanation
Indices: 50203719--50203801 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
50203709 AAGCTATAAG
50203719 ATCTATTGTCTTTTATCCTTTGTTTAGCATTACTTTTTCAA
1 ATCTATTGTCTTTTATCCTTTGTTTAGCATTACTTTTTCAA
50203760 ATCTATTGTCTTTTATCCTTTGTTTAGCATTACTTTTTCAA
1 ATCTATTGTCTTTTATCCTTTGTTTAGCATTACTTTTTCAA
50203801 A
1 A
50203802 GTATTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.55
Consensus pattern (41 bp):
ATCTATTGTCTTTTATCCTTTGTTTAGCATTACTTTTTCAA
Found at i:50205295 original size:42 final size:43
Alignment explanation
Indices: 50205093--50205316 Score: 215
Period size: 43 Copynumber: 5.2 Consensus size: 43
50205083 TAAAAAAATA
* * * * *
50205093 CCGCTAAAGACCAT-GACCTTTAGTGGCACTTTTCTCAAAAATG
1 CCGCTAAAGA-CATAGACCTTTAGCGGCGCTTTTCCCACAAACG
** * *
50205136 CTACTAAAGACCAT-GACCTTTAGCAGCGCTTTTCCCGCAAACG
1 CCGCTAAAGA-CATAGACCTTTAGCGGCGCTTTTCCCACAAACG
**
50205179 CCGCTAAAGACTATAG-CCTTTAGCGGCGCTTTTCCCGGAAACG
1 CCGCTAAAGAC-ATAGACCTTTAGCGGCGCTTTTCCCACAAACG
* * * * *
50205222 CCGCTAAAGACCAT-GGCCTTTAGCGGTGCTTTTTCTACAAACT
1 CCGCTAAAGA-CATAGACCTTTAGCGGCGCTTTTCCCACAAACG
* *
50205265 CCGCTATAGA-ATAGACCTTTAGCGGCGCTTTTCTCACAAACG
1 CCGCTAAAGACATAGACCTTTAGCGGCGCTTTTCCCACAAACG
50205307 CCGCTAAAGA
1 CCGCTAAAGA
50205317 ATATAACTTT
Statistics
Matches: 149, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.01
42 34 0.23
43 111 0.74
44 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGACATAGACCTTTAGCGGCGCTTTTCCCACAAACG
Found at i:50208778 original size:39 final size:42
Alignment explanation
Indices: 50208735--50208830 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 42
50208725 AGTAATGGTC
50208735 TTTTGCGGCGTTTTCAACAAAAATAC-C-A-T-TAGCTCAATT
1 TTTTGCGGCGTTTTCAACAAAAA-ACGCTACTATAGCTCAATT
* * * *
50208774 TTTTGCGTCGTTTT-TACTAAAAACGCTACTATAGCTTAATT
1 TTTTGCGGCGTTTTCAACAAAAAACGCTACTATAGCTCAATT
*
50208815 TTTTGTGGCGTTTTCA
1 TTTTGCGGCGTTTTCA
50208831 GAAAACGCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
37 2 0.04
38 7 0.16
39 14 0.31
40 1 0.02
41 21 0.47
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.43
Consensus pattern (42 bp):
TTTTGCGGCGTTTTCAACAAAAAACGCTACTATAGCTCAATT
Found at i:50208819 original size:41 final size:39
Alignment explanation
Indices: 50208764--50208855 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
50208754 AAAATACCAT
* * *
50208764 TAGCTCAATTTTTTGCGTCGTTTTTACTA-AAAACGCTACTA
1 TAGCTTAATTTTTTGCGGCG-TTTT-C-AGAAAACGCCACTA
*
50208805 TAGCTTAATTTTTTGTGGCGTTTTCAGAAAACGCCACTA
1 TAGCTTAATTTTTTGCGGCGTTTTCAGAAAACGCCACTA
*
50208844 TTGCTTAATTTT
1 TAGCTTAATTTT
50208856 AATTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 1 0.02
39 23 0.51
40 4 0.09
41 17 0.38
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (39 bp):
TAGCTTAATTTTTTGCGGCGTTTTCAGAAAACGCCACTA
Found at i:50208991 original size:7 final size:7
Alignment explanation
Indices: 50208979--50209003 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50208969 ATATAGACTA
50208979 AAATATT
1 AAATATT
50208986 AAATATT
1 AAATATT
50208993 AAATATT
1 AAATATT
50209000 AAAT
1 AAAT
50209004 TTTTTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:50209024 original size:15 final size:15
Alignment explanation
Indices: 50208998--50209045 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
50208988 ATATTAAATA
*
50208998 TTAAATTTTTTAGTTT
1 TTAAA-TTTTTAATTT
*
50209014 TTTAATTTTTAATTT
1 TTAAATTTTTAATTT
*
50209029 TTAAATTTTAAATTT
1 TTAAATTTTTAATTT
50209044 TT
1 TT
50209046 TTTGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 24 0.86
16 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:50209039 original size:14 final size:15
Alignment explanation
Indices: 50208984--50209045 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
50208974 GACTAAAATA
* *
50208984 TTAAATATTAAA-TA
1 TTAAATTTTAAATTT
* *
50208998 TTAAATTTTTTAGTTT
1 TTAAA-TTTTAAATTT
* *
50209014 TTTAATTTTTAATTT
1 TTAAATTTTAAATTT
50209029 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
50209044 TT
1 TT
50209046 TTTGAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 5 0.13
15 28 0.74
16 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:50209064 original size:8 final size:7
Alignment explanation
Indices: 50209012--50209045 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50209002 ATTTTTTAGT
50209012 TTTTTAA
1 TTTTTAA
50209019 TTTTTAA
1 TTTTTAA
50209026 TTTTTAAA
1 TTTTT-AA
*
50209034 TTTTAAA
1 TTTTTAA
50209041 TTTTT
1 TTTTT
50209046 TTTGAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:50209072 original size:8 final size:8
Alignment explanation
Indices: 50208998--50209045 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
50208988 ATATTAAATA
50208998 TTAAATTT
1 TTAAATTT
* *
50209006 TTTAGTTT
1 TTAAATTT
*
50209014 TTTAATTT
1 TTAAATTT
50209022 TT-AATTT
1 TTAAATTT
50209029 TTAAA-TT
1 TTAAATTT
50209036 TTAAATTT
1 TTAAATTT
50209044 TT
1 TT
50209046 TTTGAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTAAATTT
Found at i:50209574 original size:21 final size:21
Alignment explanation
Indices: 50209560--50209606 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50209550 CCTAACACTT
50209560 AACCCCTAACCCCTAAGCCTTA
1 AACCCC-AACCCCTAAGCCTTA
* * *
50209582 AACCCCAACCCTTAAACCATA
1 AACCCCAACCCCTAAGCCTTA
50209603 AACC
1 AACC
50209607 ATAATCCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.38, C:0.45, G:0.02, T:0.15
Consensus pattern (21 bp):
AACCCCAACCCCTAAGCCTTA
Found at i:50209596 original size:14 final size:15
Alignment explanation
Indices: 50209567--50209599 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50209557 CTTAACCCCT
*
50209567 AACCCCTAAGCCTTA
1 AACCCCTAACCCTTA
50209582 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
50209596 AACC
1 AACC
50209600 ATAAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.36, C:0.45, G:0.03, T:0.15
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:50209633 original size:15 final size:15
Alignment explanation
Indices: 50209588--50209635 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
50209578 CTTAAACCCC
* *
50209588 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
50209603 AA-CCATAATCCCTA
1 AACCCATAATCCATA
*
50209617 AACCCATAATTCATA
1 AACCCATAATCCATA
50209632 AACC
1 AACC
50209636 TTAAAATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:50209640 original size:22 final size:21
Alignment explanation
Indices: 50209591--50209683 Score: 55
Period size: 22 Copynumber: 4.3 Consensus size: 21
50209581 AAACCCCAAC
*
50209591 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* **
50209612 CCCTAAACCCATAATTCATAAA
1 CCTTAAA-CCATAAACCATAAA
*
50209634 CCTTAAA--ATAGTAACTCATATA
1 CCTTAAACCATA--AAC-CATAAA
* * *
50209656 CTTTAAACCCTAAACCCTAAA
1 CCTTAAACCATAAACCATAAA
*
50209677 CCCTAAA
1 CCTTAAA
50209684 TTATAATGAT
Statistics
Matches: 52, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
19 3 0.06
21 16 0.31
22 31 0.60
24 2 0.04
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:50209671 original size:7 final size:7
Alignment explanation
Indices: 50209659--50209683 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50209649 TCATATACTT
50209659 TAAACCC
1 TAAACCC
50209666 TAAACCC
1 TAAACCC
50209673 TAAACCC
1 TAAACCC
50209680 TAAA
1 TAAA
50209684 TTATAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:50209860 original size:21 final size:21
Alignment explanation
Indices: 50209835--50209903 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
50209825 CACAAAACAG
*
50209835 AAACCTTAAACCATGAACCCTT
1 AAACCTTAAACCAT-AACACTT
* * *
50209857 AACCCTTAACCCCTAACACTT
1 AAACCTTAAACCATAACACTT
** *
50209878 AAACCTTAAACCCCAACCCTT
1 AAACCTTAAACCATAACACTT
50209899 AAACC
1 AAACC
50209904 ACCCTTAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 28 0.72
22 11 0.28
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.20
Consensus pattern (21 bp):
AAACCTTAAACCATAACACTT
Found at i:50209867 original size:14 final size:14
Alignment explanation
Indices: 50209850--50209900 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
50209840 TTAAACCATG
50209850 AACCCTTAACCCTT
1 AACCCTTAACCCTT
* *
50209864 AACCCCTAACACTT
1 AACCCTTAACCCTT
* *
50209878 AAACCTTAAACCC-C
1 AACCCTT-AACCCTT
50209892 AACCCTTAA
1 AACCCTTAA
50209901 ACCACCCTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 2 0.07
14 23 0.79
15 4 0.14
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCTTAACCCTT
Found at i:50209926 original size:25 final size:25
Alignment explanation
Indices: 50209881--50209928 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
50209871 AACACTTAAA
*
50209881 CCTTAAACCCCAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
50209906 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
50209929 CATAATCCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:50209931 original size:15 final size:15
Alignment explanation
Indices: 50209909--50209943 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50209899 AAACCACCCT
50209909 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
*
50209923 TAAACCCATAATCCG
1 TAAACCCATAATCCC
50209938 TAAACC
1 TAAACC
50209944 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:50210397 original size:53 final size:53
Alignment explanation
Indices: 50210334--50210444 Score: 159
Period size: 53 Copynumber: 2.1 Consensus size: 53
50210324 CTAAAGCCAC
* * *
50210334 AAAAACCTCAATACAAAACGATGGCGTTTTGCAAAATTCTTTTGCGGTGTTTT
1 AAAAACCTCAATACAAAACGACGGCGTTTTACAAAATTCTTTTGCGGCGTTTT
* * * *
50210387 TAAAAGCTCAATACAAAATGACGGTGTTTTACAAAATTCTTTTGCGGCGTTTT
1 AAAAACCTCAATACAAAACGACGGCGTTTTACAAAATTCTTTTGCGGCGTTTT
50210440 AAAAA
1 AAAAA
50210445 AAAAGCGCCG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (53 bp):
AAAAACCTCAATACAAAACGACGGCGTTTTACAAAATTCTTTTGCGGCGTTTT
Found at i:50210788 original size:41 final size:40
Alignment explanation
Indices: 50210743--50210829 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 40
50210733 TATAGCGACG
* *
50210743 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGTGGCA
1 TTTTTTAAAAAGCACCGCTAATGCTCATTCTTTAGCGGCA
* *
50210783 TTTTTTGAAAAGCACCGCTAATGCTCGTTCTTTAGCGGCA
1 TTTTTTAAAAAGCACCGCTAATGCTCATTCTTTAGCGGCA
50210823 TTTTTTA
1 TTTTTTA
50210830 TTCAAATGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (40 bp):
TTTTTTAAAAAGCACCGCTAATGCTCATTCTTTAGCGGCA
Found at i:50212752 original size:66 final size:66
Alignment explanation
Indices: 50212646--50212780 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 66
50212636 AACTAATAAG
*
50212646 TAAAACTCCAGAAGACATTTAGGTACCTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCA
1 TAAAACTCCAGAAGACATTTAGGTAACTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCA
50212711 A
66 A
* * *
50212712 TAAAACTCCAGAAGACATTTAGGTAATTGAACTGAAGATTAAAATAATGAAAATTAGAGATGTCA
1 TAAAACTCCAGAAGACATTTAGGTAACTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCA
50212777 A
66 A
50212778 TAA
1 TAA
50212781 GTTATGTCAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (66 bp):
TAAAACTCCAGAAGACATTTAGGTAACTGAACTGAAGATTAAAATAATGAAAATAAGAGATCTCA
A
Found at i:50214595 original size:38 final size:38
Alignment explanation
Indices: 50214552--50214718 Score: 183
Period size: 38 Copynumber: 4.4 Consensus size: 38
50214542 ACACCGACAG
** * *
50214552 AAAGCCTACTAGATACAGAGCTTGAAAAACACTAGCAC
1 AAAGCCTACTAGGCATAGAGCTTGAATAACACTAGCAC
* *
50214590 GAAGCCTATTAGGCATAGAG-TCTGAATAACACTAGCAC
1 AAAGCCTACTAGGCATAGAGCT-TGAATAACACTAGCAC
* * * *
50214628 AAAGCCAACTAGGCATAGAGCCTGAATAACACCAGTAC
1 AAAGCCTACTAGGCATAGAGCTTGAATAACACTAGCAC
* * *
50214666 AAAGCCTACTAGGCATAGAGCTCGAATAACATTGGCAC
1 AAAGCCTACTAGGCATAGAGCTTGAATAACACTAGCAC
* *
50214704 GAAGCCTGCTAGGCA
1 AAAGCCTACTAGGCA
50214719 CATAGCCCGA
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
37 1 0.01
38 105 0.99
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (38 bp):
AAAGCCTACTAGGCATAGAGCTTGAATAACACTAGCAC
Found at i:50219031 original size:39 final size:39
Alignment explanation
Indices: 50218974--50219110 Score: 238
Period size: 39 Copynumber: 3.5 Consensus size: 39
50218964 CCAACACAAT
* *
50218974 TGCCTTCGAGACTAAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
50219013 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
50219052 TGCCTTCGGGACTTAGCCCTGATATAACACCAGCATGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
50219091 TGCCTTCGGGACTTAGCCCG
1 TGCCTTCGGGACTTAGCCCG
50219111 ATCTAGGCCT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:50219793 original size:2 final size:2
Alignment explanation
Indices: 50219780--50219824 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
50219770 TAAGGCATAA
* * * *
50219780 AT AT AC AT AT AT AT AT AC AT AT AT CT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50219822 AT A
1 AT A
50219825 GTGCATGCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:50222993 original size:6 final size:6
Alignment explanation
Indices: 50222975--50223062 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
50222965 AAGAAACATT
* *
50222975 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
50223024 ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
50223063 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:50222996 original size:18 final size:18
Alignment explanation
Indices: 50222975--50223062 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
50222965 AAGAAACATT
50222975 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
50222993 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* * *
50223010 GTGACAGAATTAGAATCAAA
1 AT--CAGAATCAGAATCAGA
*
50223030 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
50223049 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
50223063 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.06
18 22 0.41
19 26 0.48
20 3 0.06
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:50223025 original size:31 final size:31
Alignment explanation
Indices: 50222984--50223062 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
50222974 TATCAGAACT
*
50222984 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
50223015 AGAATTAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
50223046 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
50223063 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:50223231 original size:27 final size:26
Alignment explanation
Indices: 50223182--50223241 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
50223172 GCGAGGCTGC
**
50223182 CAGATATTGTGACTAAGTTACCAGATA
1 CAGATATTGTGACTAAGCCACCAGA-A
* *
50223209 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACTAAGCCACCAGAA
50223235 CAGATAT
1 CAGATAT
50223242 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGACTAAGCCACCAGAA
Found at i:50223254 original size:33 final size:32
Alignment explanation
Indices: 50223203--50223266 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
50223193 ACTAAGTTAC
* *
50223203 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
50223235 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
50223267 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:50223609 original size:27 final size:27
Alignment explanation
Indices: 50223579--50223721 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
50223569 GGGTAAAATG
* * *
50223579 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTTTACCCTATAAGGGTATTTCA
* *
50223606 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTACCCTATAAGGGTATTTCA
* * *
50223633 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTTTACCCTATAAGGGTATTTCA
50223660 GT-ATTTCTACCCTATAAGGGTATTTCA
1 GTAATTT-TACCCTATAAGGGTATTTCA
*
50223687 GT-ATTTCTACCCTAAAAGGGTATTTCA
1 GTAATTT-TACCCTATAAGGGTATTTCA
50223714 GTAATTTT
1 GTAATTTT
50223722 GTAAATCGAG
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
26 3 0.03
27 97 0.93
28 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACCCTATAAGGGTATTTCA
Found at i:50223733 original size:27 final size:27
Alignment explanation
Indices: 50223703--50223995 Score: 161
Period size: 27 Copynumber: 10.9 Consensus size: 27
50223693 CTACCCTAAA
**
50223703 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*** * * *
50223730 AGGGTAAAACGGTAATTCTATAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
50223756 AGGGGTACTTT-GGTAATTTTACAAGTCG
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
* **
50223784 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
50223811 AGGGTATTTTAGTAATTTCACAAAT-T
1 AGGGTATTTCAGTAATTTTACAAATCG
** *
50223837 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCAGTAATTTTACAAATCG
* *
50223864 AGGGGTATTT-TGATAATTTTACAAA-CC
1 A-GGGTATTTCAG-TAATTTTACAAATCG
** *
50223891 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCAGTAATTTTACAAATCG
* ** *
50223918 AAGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTCAGTAATTTTACAAATCG
** * **
50223944 AGGGGTATTTTGGTAATTTTATAAATAA
1 A-GGGTATTTCAGTAATTTTACAAATCG
*
50223972 AGGGTATTTTAGTAATTTTACAAA
1 AGGGTATTTCAGTAATTTTACAAA
50223996 CCAGGGGTAT
Statistics
Matches: 222, Mismatches: 34, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
26 30 0.14
27 189 0.85
28 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:50223749 original size:81 final size:81
Alignment explanation
Indices: 50223566--50223749 Score: 190
Period size: 81 Copynumber: 2.3 Consensus size: 81
50223556 TTTAATACCC
* * * *
50223566 TAGGGGTAAAATGGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTT
1 TAGGGGTAAAACGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAAAAGGGTATTT
**
50223631 CAGTAATTCTACCCTA
66 CAGTAATTCTACCAAA
*** * * * * *
50223647 TAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTAAAAGGGTATTT
1 TAGGGGTAAAACGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAAAAGGGTATTT
***
50223712 CAGTAATT-TTGTAAA
66 CAGTAATTCTACCAAA
*
50223727 TCGAGGGTAAAACGGTAATTCTA
1 TAG-GGGTAAAACGGTAATTCTA
50223750 TAAATCAGGG
Statistics
Matches: 80, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
80 4 0.05
81 76 0.95
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (81 bp):
TAGGGGTAAAACGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAAAAGGGTATTT
CAGTAATTCTACCAAA
Found at i:50223812 original size:81 final size:80
Alignment explanation
Indices: 50223703--50224016 Score: 193
Period size: 81 Copynumber: 3.9 Consensus size: 80
50223693 CTACCCTAAA
* ** * *
50223703 AGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTATAAATCAGGGGTACTTT
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGGGGTACTTT
*
50223767 GGTAATTTTACAAGTCG
65 GGTAATTTTACAA-ACG
** **** * *
50223784 AGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTG
*
50223849 GTAATTTTACAAACT
66 GTAATTTTACAAACG
** * ***** * * * *
50223864 AGGGGTATTTTGATAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAAACCA-AGGTATTT
1 A-GGGTATTTCAATAATTTTACAAATCGA-GGGTAAAACAGTAATTTCACAAATCAGGGGTACTT
*
50223927 TGGTAATTTTACAAACT
64 TGGTAATTTTACAAACG
*** * ** **** * * *
50223944 AGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 A-GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTT
50224009 GGTAATTT
65 GGTAATTT
50224017 GGTAAACTAA
Statistics
Matches: 197, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
80 76 0.39
81 118 0.60
82 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (80 bp):
AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTG
GTAATTTTACAAACG
Found at i:50223962 original size:107 final size:107
Alignment explanation
Indices: 50223813--50224016 Score: 331
Period size: 107 Copynumber: 1.9 Consensus size: 107
50223803 ACAGGTCGAG
* *
50223813 GGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTT-G
1 GGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAAAGGGTATTTTAG
50223876 ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAA
65 -TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAA
* * *
50223920 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTAGT
1 GGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTTAGT
50223985 AATTTTACAAACCAGGGGTATTTTGGTAATTT
66 AATTTTACAAACCAGGGGTATTTTGGTAATTT
50224017 GGTAAACTAA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
106 1 0.01
107 88 0.98
108 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (107 bp):
GGTATTTTAGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTTAGT
AATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAA
Found at i:50224023 original size:27 final size:27
Alignment explanation
Indices: 50223740--50224016 Score: 290
Period size: 27 Copynumber: 10.3 Consensus size: 27
50223730 AGGGTAAAAC
* * * *
50223740 GGTAATTCTATAAATCAGGGGTACTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
** *
50223767 GGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTACAAACCAG-GGGTATTTT
** ***
50223794 AATAATTTTACAGGTC-GAGGGTATTTT
1 GGTAATTTTACAAACCAG-GGGTATTTT
* * **
50223821 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
50223848 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
50223875 GATAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
50223902 GGTAATTTTACAAACCA-AGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
50223928 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* ** *
50223955 GGTAATTTTATAAATAAAGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
50223982 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
50224009 GGTAATTT
1 GGTAATTT
50224017 GGTAAACTAA
Statistics
Matches: 214, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 25 0.12
27 188 0.88
28 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAACCAGGGGTATTTT
Found at i:50227500 original size:39 final size:40
Alignment explanation
Indices: 50227455--50227679 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
50227445 GCTCCTCGTT
* * * *
50227455 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
50227495 C-AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
* *
50227534 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
50227574 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
50227614 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
50227655 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
50227680 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 36 0.23
40 102 0.65
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:50227620 original size:80 final size:80
Alignment explanation
Indices: 50227455--50227679 Score: 251
Period size: 80 Copynumber: 2.8 Consensus size: 80
50227445 GCTCCTCGTT
* * * * *
50227455 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACCTCGCACAAAGCCTTCGGGACTTAACCCGGA
50227519 ATTTAATACTTCGCA
66 ATTTAATACTTCGCA
* * *
50227534 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACCTCGCACAAA-GCCTTCGGGACTTAACCCGG
*
50227599 AATTT-GTA-TCTCGCA
65 AATTTAATACT-TCGCA
* * * * * *
50227614 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ACCTCGCACAAAGCCTTCGGGACTTAACCCG
50227678 GA
64 GA
50227680 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 41 0.33
80 68 0.55
81 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACCTCGCACAAAGCCTTCGGGACTTAACCCGGA
ATTTAATACTTCGCA
Found at i:50227688 original size:41 final size:41
Alignment explanation
Indices: 50227611--50227688 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
50227601 TTTGTATCTC
* * *
50227611 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
50227652 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
50227689 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:50232627 original size:39 final size:39
Alignment explanation
Indices: 50232571--50232753 Score: 294
Period size: 39 Copynumber: 4.7 Consensus size: 39
50232561 CCAACACAAT
*
50232571 TGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
50232610 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * *
50232649 TGCCTTTGGAACTTAGCCCAGATATAACACCAGCATGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
50232688 TGCCTTCGGGACTTAGCCCTGATATAACACCAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
50232727 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
50232754 ATCTCACACA
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:50239537 original size:35 final size:35
Alignment explanation
Indices: 50239498--50239568 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
50239488 TCTAGGATCA
*
50239498 CATATCTTTGAAGA-TCCTATTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACT-TTCCATATTTGCCAAG
50239533 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
50239568 C
1 C
50239569 TCTGAAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 31 0.91
36 3 0.09
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
Found at i:50244711 original size:35 final size:35
Alignment explanation
Indices: 50244672--50244742 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
50244662 TCTAGGATCA
*
50244672 CATATCTTTGAAGATCCCCTTT-CATATTTGCCAAG
1 CATATCTTTGAAGAT-CACTTTCCATATTTGCCAAG
*
50244707 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACTTTCCATATTTGCCAAG
50244742 C
1 C
50244743 TCCGAAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACTTTCCATATTTGCCAAG
Found at i:50247212 original size:50 final size:52
Alignment explanation
Indices: 50247102--50247233 Score: 178
Period size: 50 Copynumber: 2.6 Consensus size: 52
50247092 ATGAACAAAT
* * *
50247102 GAGTTACTTAATGCATGACTTAATTTAATGATACAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATACAAACTTTAACTAACATGA
* * *
50247154 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATACAAACTTTAACTAACATGA
* *
50247204 GAGTTACATAATGCATGACATTATTAAATG
1 GAGTTACATAATGCATGACATAATTTAATG
50247234 CAGAACACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 34 0.49
51 13 0.19
52 23 0.33
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATACAAACTTTAACTAACATGA
Found at i:50247300 original size:39 final size:39
Alignment explanation
Indices: 50247246--50247326 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
50247236 GAACACATAT
* *
50247246 TAATGATGTTCAAACTATGACATAATTAAAGACTCACAC
1 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
50247285 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
1 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
50247324 TAA
1 TAA
50247327 AATAACTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (39 bp):
TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
Found at i:50248491 original size:44 final size:44
Alignment explanation
Indices: 50248391--50248508 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 44
50248381 AGCTTGTACA
* * *
50248391 ATGCCAATGTCCCAGACATGGTCTTACATG-TAAACAAATATAG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAAAACAAATATAG
* * * *
50248434 ATGCCACTATCCCAGACAGGGTCTTACACGAAAAACAGAA-GTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAAAACA-AATATAG
*
50248478 ATGCCAAGGTCCCAGAC-GTGGTCTTACACGA
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGA
50248509 TAACATATCG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 27 0.44
44 33 0.53
45 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAAAACAAATATAG
Found at i:50257903 original size:42 final size:41
Alignment explanation
Indices: 50257836--50257967 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 41
50257826 TTACATGTAG
*
50257836 TCAAATATCGATGCCACTGTCCCAGACAGGGTCTTAGACAAAA
1 TCAAATA-CGATGCCA-TGTCCCAGACAGGGTCTTACACAAAA
* * *
50257879 TCAAATACGATGCCGATGTCCCAGACATGGTTTTACACGTAAATG
1 TCAAATACGATGCC-ATGTCCCAGACAGGGTCTTACAC--AAA-A
*
50257924 TCAAAT-CGATGCCAACGTCCCAGAC-GTGGTCTTACACAAAA
1 TCAAATACGATGCC-ATGTCCCAGACAG-GGTCTTACACAAAA
50257965 TCA
1 TCA
50257968 CATATCAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
41 3 0.04
42 29 0.39
43 8 0.11
44 29 0.39
45 6 0.08
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (41 bp):
TCAAATACGATGCCATGTCCCAGACAGGGTCTTACACAAAA
Found at i:50268544 original size:38 final size:38
Alignment explanation
Indices: 50268498--50268586 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
50268488 CCCAAATAGC
*
50268498 GCTA-GCACAAAGCCTGAATAACACCAACACAAAGAC-T
1 GCTAGGCACAAAGCCCGAATAACACCAACACAAAG-CTT
* *
50268535 GCTAGGCACAAAGCCCGAATAACACCGACACGAAGCTT
1 GCTAGGCACAAAGCCCGAATAACACCAACACAAAGCTT
*
50268573 GTTAGGCACAAAGC
1 GCTAGGCACAAAGC
50268587 TTGCTAGGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 5 0.11
38 41 0.89
ACGTcount: A:0.40, C:0.29, G:0.19, T:0.11
Consensus pattern (38 bp):
GCTAGGCACAAAGCCCGAATAACACCAACACAAAGCTT
Found at i:50268579 original size:98 final size:98
Alignment explanation
Indices: 50268403--50268582 Score: 227
Period size: 98 Copynumber: 1.8 Consensus size: 98
50268393 AAGTCTGGTA
** * * * * ** *
50268403 AGCACAAAGCCTGAATAACACCGGCACAAAGCCTGCAAGGCATAGAACCCGAATTACACTGGTAT
1 AGCACAAAGCCTGAATAACACCAACACAAAGACTGCAAGGCACAGAACCCGAATAACACCGACAC
50268468 AAAGCCTGCTAGGCACAGAGCCCAAATAGCGCT
66 AAAGCCTGCTAGGCACAGAGCCCAAATAGCGCT
*
50268501 AGCACAAAGCCTGAATAACACCAACACAAAGACTGCTAGGCACA-AAGCCCGAATAACACCGACA
1 AGCACAAAGCCTGAATAACACCAACACAAAGACTGCAAGGCACAGAA-CCCGAATAACACCGACA
* * *
50268565 CGAAGCTTGTTAGGCACA
65 CAAAGCCTGCTAGGCACA
50268583 AAGCTTGCTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
97 2 0.03
98 66 0.97
ACGTcount: A:0.39, C:0.29, G:0.20, T:0.12
Consensus pattern (98 bp):
AGCACAAAGCCTGAATAACACCAACACAAAGACTGCAAGGCACAGAACCCGAATAACACCGACAC
AAAGCCTGCTAGGCACAGAGCCCAAATAGCGCT
Found at i:50268588 original size:16 final size:16
Alignment explanation
Indices: 50268567--50268605 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
50268557 CACCGACACG
*
50268567 AAGCTTGTTAGGCACA
1 AAGCTTGCTAGGCACA
50268583 AAGCTTGCTAGGCACA
1 AAGCTTGCTAGGCACA
*
50268599 AAACTTG
1 AAGCTTG
50268606 AATAACTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (16 bp):
AAGCTTGCTAGGCACA
Found at i:50268633 original size:38 final size:38
Alignment explanation
Indices: 50268578--50268764 Score: 169
Period size: 38 Copynumber: 4.9 Consensus size: 38
50268568 AGCTTGTTAG
* * * *
50268578 GCACAAAGCTTGCTAGGCACAAAACTTGAATAACTCCG
1 GCACAAAGCCTGCTAGGCACAAAACCTGAATAACACCA
* * * *
50268616 GCAAAAAGCCTACTAGGCACAGAGCCTGAATAACACCA
1 GCACAAAGCCTGCTAGGCACAAAACCTGAATAACACCA
* * * *
50268654 GTACAAAGCCTGCTAGGCTCAGAGCCTGAATAACACCA
1 GCACAAAGCCTGCTAGGCACAAAACCTGAATAACACCA
* * * ** *
50268692 GCACGAAGCCTGCTAAGCA-TAAAGTTCGAATAACACCG
1 GCACAAAGCCTGCTAGGCACAAAACCT-GAATAACACCA
* * *
50268730 GCACGAAGCCTGCTAGGCACAAAGCCCGAATAACA
1 GCACAAAGCCTGCTAGGCACAAAACCTGAATAACA
50268765 TTATGCTTCT
Statistics
Matches: 119, Mismatches: 28, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
37 2 0.02
38 115 0.97
39 2 0.02
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.14
Consensus pattern (38 bp):
GCACAAAGCCTGCTAGGCACAAAACCTGAATAACACCA
Found at i:50268685 original size:76 final size:76
Alignment explanation
Indices: 50268578--50268764 Score: 196
Period size: 76 Copynumber: 2.5 Consensus size: 76
50268568 AGCTTGTTAG
* * * * * * *
50268578 GCACAAAGCTTGCTAGGCACAAAACTTGAATAACTCCGGCAAAAAGCCTACTAGGCACAGAGC-C
1 GCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCAGCAAAAAGCCTACTAAGCACAAAGCTC
50268642 TGAATAACACCA
66 -GAATAACACCA
* * * ** * * *
50268654 GTACAAAGCCTGCTAGGCTCAGAGCCTGAATAACACCAGCACGAAGCCTGCTAAGCATAAAGTTC
1 GCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCAGCAAAAAGCCTACTAAGCACAAAGCTC
*
50268719 GAATAACACCG
66 GAATAACACCA
* *
50268730 GCACGAAGCCTGCTAGGCACAAAGCCCGAATAACA
1 GCACAAAGCCTGCTAGGCACAAAGCCTGAATAACA
50268765 TTATGCTTCT
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
76 88 0.99
77 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.14
Consensus pattern (76 bp):
GCACAAAGCCTGCTAGGCACAAAGCCTGAATAACACCAGCAAAAAGCCTACTAAGCACAAAGCTC
GAATAACACCA
Found at i:50275082 original size:38 final size:38
Alignment explanation
Indices: 50274835--50275097 Score: 195
Period size: 38 Copynumber: 6.9 Consensus size: 38
50274825 AGCTTACTAG
* * *
50274835 GCACAAAGCCTGCTAGGCACAGAATCC-AAATAACACTA
1 GCACAAAGCCTGCTAGGCACAG-AGCCTGAATAACACCA
* ** * * ** ***
50274873 ACACAAAGTTTGCTAGACACAGAGCCCGAATAGTATTG
1 GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACCA
* * * * **
50274911 GTACAAAGCCTGCTAGACATAGAGCCTGAAAAACACTG
1 GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACCA
** * **
50274949 GCATGAAGCCTGCTAGGCACAGAGTCTGAATAACACTG
1 GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACCA
** * *
50274987 GCACAAAGCCAACTAGGCATAGAGCCTGAATGACACCA
1 GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACCA
* * * *
50275025 GTACAAAGCCTACTAGGCACAGAGCTTGAATAATACCA
1 GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACCA
* * *
50275063 GCACGAAGCCTGCTAGGCACAAAGCCCGAATAACA
1 GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACA
50275098 TTATGTTTCT
Statistics
Matches: 175, Mismatches: 49, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
37 3 0.02
38 172 0.98
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (38 bp):
GCACAAAGCCTGCTAGGCACAGAGCCTGAATAACACCA
Found at i:50276345 original size:19 final size:19
Alignment explanation
Indices: 50276321--50276364 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
50276311 TAGAAGAATC
50276321 ATTATTAAAATTTGCTATG
1 ATTATTAAAATTTGCTATG
50276340 ATTATTAAAATTTGCTATG
1 ATTATTAAAATTTGCTATG
50276359 ATTATT
1 ATTATT
50276365 GTTGAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTATTAAAATTTGCTATG
Found at i:50288139 original size:47 final size:47
Alignment explanation
Indices: 50287994--50288419 Score: 656
Period size: 47 Copynumber: 9.1 Consensus size: 47
50287984 CCCTTCGGGA
* * ** * * * *
50287994 CTTATCACATTTATGCACTTTCACACCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50288041 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50288087 CTTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50288134 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50288181 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50288228 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50288275 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50288322 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50288369 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50288416 CTTA
1 CTTA
50288420 CTATCATTTC
Statistics
Matches: 352, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 39 0.11
47 313 0.89
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50288143 original size:22 final size:22
Alignment explanation
Indices: 50288070--50288143 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
50288060 TTCACATTCA
50288070 CACATCGGCCATTAGGCCTTAT
1 CACATCGGCCATTAGGCCTTAT
*** *** *
50288092 CACATACATACACTTTCACATTCAT
1 CACAT-CGGCCA-TTAGGCCTT-AT
50288117 CACATCGGCCATTAGGCCTTAT
1 CACATCGGCCATTAGGCCTTAT
50288139 CACAT
1 CACAT
50288144 ATATACACTT
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 12 0.34
23 8 0.23
24 8 0.23
25 7 0.20
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.28
Consensus pattern (22 bp):
CACATCGGCCATTAGGCCTTAT
Found at i:50290740 original size:24 final size:24
Alignment explanation
Indices: 50290713--50290758 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
50290703 GAATTTAACA
50290713 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
*
50290737 TTCAACTACGCACACATAGTGC
1 TTCAAATACGCACACATAGTGC
50290759 TAGTATCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:50298100 original size:14 final size:14
Alignment explanation
Indices: 50298081--50298107 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50298071 TCTAAATAGA
50298081 AAACAAACAAACAC
1 AAACAAACAAACAC
50298095 AAACAAACAAACA
1 AAACAAACAAACA
50298108 AAAATGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACAAACAAACAC
Found at i:50303720 original size:5 final size:5
Alignment explanation
Indices: 50303695--50303740 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
50303685 ATTAAGAAAT
*
50303695 TAATA TAATA -ATATA TTAATA CAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TA-ATA -TAATA TAATA TAATA TAATA TAATA TAATA
50303741 ATAAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 1 0.03
5 31 0.86
6 3 0.08
7 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:50303734 original size:28 final size:26
Alignment explanation
Indices: 50303691--50303765 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 26
50303681 AGTAATTAAG
*
50303691 AAAT-TAATATAATAATATATTAATA
1 AAATATAATATAATAATATAATAATA
*
50303716 CAATATAATATAATATAATATAATAATA
1 AAATATAATAT-A-ATAATATAATAATA
* *
50303744 AAATAAAACATAA-AATA-AATAA
1 AAATATAATATAATAATATAATAA
50303766 AGAAACAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
24 5 0.12
25 7 0.17
26 7 0.17
27 2 0.05
28 21 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATATAATATAATAATATAATAATA
Found at i:50303756 original size:18 final size:18
Alignment explanation
Indices: 50303720--50303766 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
50303710 TTAATACAAT
* * *
50303720 ATAATATAATATAATATA
1 ATAATAAAATAAAACATA
50303738 ATAATAAAATAAAACATA
1 ATAATAAAATAAAACATA
50303756 A-AAT-AAATAAA
1 ATAATAAAATAAA
50303767 GAAACAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 7 0.27
17 3 0.12
18 16 0.62
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAAAATAAAACATA
Found at i:50314126 original size:27 final size:27
Alignment explanation
Indices: 50313997--50314124 Score: 143
Period size: 27 Copynumber: 4.7 Consensus size: 27
50313987 AAATTGTACA
*
50313997 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
50314024 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
50314051 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
50314078 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
50314105 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
50314125 TTGTATAGCA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
27 83 0.97
28 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Done.