Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 189 of 253
Found at i:61834446 original size:49 final size:49
Alignment explanation
Indices: 61834393--61834569 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 49
61834383 TGTTGTGTGT
** * *
61834393 CAGTGTAAGAATTGTCCGGGACATGACATCGACACT-GATAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGAC-CTCGATAAATGAAAGC
* * * *
61834442 CAGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGATAAATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAAATGAAAGC
* * * * **
61834491 CAGTGTAAGACCTGTCTGGGACACGACATTGA-CT--TTAATGTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAA-ATGAAAGC
*
61834538 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGACATCG
61834570 GCATTTGATC
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
46 3 0.03
47 16 0.15
48 20 0.19
49 67 0.63
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAAATGAAAGC
Found at i:61834519 original size:98 final size:96
Alignment explanation
Indices: 61834391--61834567 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 96
61834381 CTTGTTGTGT
* *
61834391 GTCAGTGTAAGAATTGTCCGGGACATGACATCGACACTGATAAATGAG-AGCCAGTGTAAGACC-
1 GTCAGTGTAAGAACTGTCCGGGACACGACATCG--ACT--TAAATGAGCAGCCAGTGTAAGACCA
61834454 TGTCTGGGACATGGCATTGGCCTCGATAAATGAAA
62 TGTCTGGGACATGGCATTGGCCTCGATAAATGAAA
* * * * *
61834489 GTCAGTGTAAGACCTGTCTGGGACACGACATTGACTTTAATGTGCTAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGAACTGTCCGGGACACGACATCGACTTAAATGAGC-AGCCAGTGTAAGACCATGT
61834554 CTGGGACATGGCAT
65 CTGGGACATGGCAT
61834568 CGGCATTTGA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
94 6 0.09
96 18 0.26
97 17 0.25
98 28 0.41
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
GTCAGTGTAAGAACTGTCCGGGACACGACATCGACTTAAATGAGCAGCCAGTGTAAGACCATGTC
TGGGACATGGCATTGGCCTCGATAAATGAAA
Found at i:61838690 original size:50 final size:50
Alignment explanation
Indices: 61838606--61838843 Score: 253
Period size: 50 Copynumber: 4.7 Consensus size: 50
61838596 AACAATCTGG
*
61838606 TACACGTAGTAGCCTGCATTTAGTACTACACATGTGACCTAACCATCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAA
* * * * * *** ***
61838656 TACATGTAATAGCCTGCACTTAGTATTACACATGTGATCGAAGGTTTCGGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTAA
* * **
61838707 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAA
*
61838757 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTACAACCATCTTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATC-TAA
* * *
61838810 -ACACATAATAGCCTGCACATAGTACTACACATGT
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGT
61838844 ATTCTCACAA
Statistics
Matches: 152, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
50 77 0.51
51 37 0.24
52 37 0.24
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAA
Found at i:61838779 original size:101 final size:101
Alignment explanation
Indices: 61838604--61838793 Score: 299
Period size: 101 Copynumber: 1.9 Consensus size: 101
61838594 TCAACAATCT
* * * *
61838604 GGTACACGTAGTAGCCTGCATTTAGTACTACACATGTGACCTAACCATCTAATACATGTAATAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTAATACACGTAATAGC
* *
61838669 CTGCACTTAGTATTACACATGTGATCGAAGGTTTCG
66 CTGCACTTAGTACTACACACGTGATCGAAGGTTTCG
** *
61838705 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTAATACACGTAATAGC
61838770 CTGCACTTAGTACTACACACGTGA
66 CTGCACTTAGTACTACACACGTGA
61838794 CCTACAACCA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 80 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTAATACACGTAATAGC
CTGCACTTAGTACTACACACGTGATCGAAGGTTTCG
Found at i:61841979 original size:79 final size:79
Alignment explanation
Indices: 61841848--61842006 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
61841838 AGGAAAGACT
61841848 TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
1 TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
61841913 CATTCATTACTTCA
66 CATTCATTACTTCA
* *
61841927 TGGTATTTAAGCAGTCTTAATGACTTACCTCACTTTCTTTACAACCCTACCTGGTGTTCAGTTTT
1 TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
61841992 CATTCATTACTTCA
66 CATTCATTACTTCA
61842006 T
1 T
61842007 TCTTGCAATG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (79 bp):
TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
CATTCATTACTTCA
Found at i:61844100 original size:13 final size:13
Alignment explanation
Indices: 61844082--61844106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61844072 GCCATCAGCA
61844082 AAGGAGCAAAGCG
1 AAGGAGCAAAGCG
61844095 AAGGAGCAAAGC
1 AAGGAGCAAAGC
61844107 AGCATTGTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.36, T:0.00
Consensus pattern (13 bp):
AAGGAGCAAAGCG
Found at i:61852000 original size:16 final size:16
Alignment explanation
Indices: 61851967--61851998 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
61851957 TATTATTATT
61851967 ATTATTAATTTTTTAA
1 ATTATTAATTTTTTAA
61851983 ATTATT-ATTTTTTAA
1 ATTATTAATTTTTTAA
61851998 A
1 A
61851999 ATATGCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTAATTTTTTAA
Found at i:61856117 original size:28 final size:27
Alignment explanation
Indices: 61856085--61856211 Score: 116
Period size: 28 Copynumber: 4.6 Consensus size: 27
61856075 ATTTGATACC
*
61856085 GAGCACTAAGTGTGCGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATTGGT-ATT
* *
61856113 GAGCACTAAGTGTGC-AACTTGGTTTT
1 GAGCACTAAGTGTGCGAAATTGGTATT
* * * *
61856139 AAGCATTAAGTGTG-TAATTTGG-ATTT
1 GAGCACTAAGTGTGCGAAATTGGTA-TT
*
61856165 CCGAGCACTAAGTGTACGAAATTGGTTATT
1 --GAGCACTAAGTGTGCGAAATTGG-TATT
61856195 GAGCACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
61856212 GAAAATTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
26 22 0.28
27 6 0.08
28 42 0.53
29 6 0.08
30 2 0.03
31 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATTGGTATT
Found at i:61862298 original size:40 final size:40
Alignment explanation
Indices: 61862197--61862417 Score: 333
Period size: 40 Copynumber: 5.6 Consensus size: 40
61862187 TATTCGAATG
*
61862197 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
61862237 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61862276 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
61862316 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61862356 ATATCTGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-A-TTGACT
*
61862396 ATATCCGGG-TAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61862418 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 50 0.30
40 114 0.68
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:61870470 original size:40 final size:40
Alignment explanation
Indices: 61870415--61870635 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
61870405 TATTCGAATG
61870415 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61870455 ATATCTGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
61870495 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
61870534 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
61870574 ATATCCGGGCTAAGACCCGAATGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-A-TTGACT
* *
61870614 ATATCC-AGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61870636 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 50 0.30
40 111 0.68
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:61870548 original size:79 final size:79
Alignment explanation
Indices: 61870415--61870635 Score: 313
Period size: 79 Copynumber: 2.8 Consensus size: 79
61870405 TATTCGAATG
* * *
61870415 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCTGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
61870480 TTTGTGCTATTGACT
65 TTTGTGCTATTGACT
*
61870495 ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
61870560 TTGTGCTATTGACT
66 TTGTGCTATTGACT
* * * *
61870574 ATATCCGGGCTAAGACCCGAATGCATTTGTG-TGAGTTG-CTATATCC-AGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCT-AG-TGACTATATCCGGGCTAAGTCCCGAAGG
61870636 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
79 88 0.68
80 40 0.31
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCTATTGACT
Found at i:61873794 original size:46 final size:45
Alignment explanation
Indices: 61873744--61873919 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
61873734 ATGTTGGGCA
61873744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
61873790 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
61873837 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
61873883 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61873920 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:61873851 original size:93 final size:93
Alignment explanation
Indices: 61873740--61873911 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
61873730 TAGGATGTTG
* *
61873740 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61873805 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
61873833 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
61873898 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61873912 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:61876859 original size:15 final size:15
Alignment explanation
Indices: 61876820--61876897 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
61876810 GTATCTTGGG
*
61876820 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
61876835 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
61876850 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
61876863 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
61876878 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
61876892 TTTCTT
1 TTTCTT
61876898 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:61876886 original size:28 final size:28
Alignment explanation
Indices: 61876811--61876893 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
61876801 CATAGTATCG
* * * *
61876811 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
61876841 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
61876869 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
61876894 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:61882837 original size:35 final size:36
Alignment explanation
Indices: 61882754--61882838 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 36
61882744 CCTTACAATC
* *
61882754 TTTTTGTT-TTT-TTTAAAGATTTTGGGTTCTTTGT
1 TTTTTGTTATTTGTTTAAAGATGTTGGGTTCTTTAT
*
61882788 TTGTTAT-TTA-TTGTTTAATG-TGTTGGGTTCTTTAT
1 TT-TT-TGTTATTTGTTTAAAGATGTTGGGTTCTTTAT
61882823 TTTTTGTTATTTGTTT
1 TTTTTGTTATTTGTTT
61882839 TTCTTAATGG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
33 1 0.02
34 7 0.17
35 27 0.64
36 7 0.17
ACGTcount: A:0.12, C:0.02, G:0.18, T:0.68
Consensus pattern (36 bp):
TTTTTGTTATTTGTTTAAAGATGTTGGGTTCTTTAT
Found at i:61883448 original size:12 final size:13
Alignment explanation
Indices: 61883431--61883463 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
61883421 TTTCCTTTTA
61883431 TTTAACATAA-TT
1 TTTAACATAAGTT
61883443 TTTAAC-TAAGTT
1 TTTAACATAAGTT
61883455 TTTAACATA
1 TTTAACATA
61883464 TAAACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 14 0.74
13 2 0.11
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (13 bp):
TTTAACATAAGTT
Found at i:61884054 original size:20 final size:21
Alignment explanation
Indices: 61884017--61884055 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
61884007 GAAATTGAAG
*
61884017 AAGGAAAGGGAAATACTAGCA
1 AAGGAAAGGGAAAAACTAGCA
61884038 AAGGAAA-GGAAAAACTAG
1 AAGGAAAGGGAAAAACTAG
61884056 TGGATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.08, G:0.28, T:0.08
Consensus pattern (21 bp):
AAGGAAAGGGAAAAACTAGCA
Found at i:61886943 original size:49 final size:49
Alignment explanation
Indices: 61886886--61886979 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
61886876 CTTTTGAATG
61886886 CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAACTTC
1 CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAACTTC
*
61886935 CCAAAATGTATGACATATTTTTTATGCTTTAATGGATTAAGGTAA
1 CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAA
61886980 GTTTAGTAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (49 bp):
CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAACTTC
Found at i:61887819 original size:13 final size:13
Alignment explanation
Indices: 61887801--61887840 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
61887791 GAAGTAATCG
*
61887801 CACACGGGCGTGT
1 CACACGAGCGTGT
*
61887814 CACACGAGTGTGT
1 CACACGAGCGTGT
61887827 CACACGAGCGTGT
1 CACACGAGCGTGT
61887840 C
1 C
61887841 CCTGTCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
CACACGAGCGTGT
Found at i:61908029 original size:21 final size:21
Alignment explanation
Indices: 61908003--61908045 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61907993 AAAATTAAAC
61908003 TAAAGAATCCAACAACTAAGT
1 TAAAGAATCCAACAACTAAGT
61908024 TAAAGAATCCAACAACTAAGT
1 TAAAGAATCCAACAACTAAGT
61908045 T
1 T
61908046 CACAAGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAAGAATCCAACAACTAAGT
Found at i:61908112 original size:20 final size:20
Alignment explanation
Indices: 61908087--61908126 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
61908077 CCTAAACTTT
61908087 TAACAACTTCACAAATTAAC
1 TAACAACTTCACAAATTAAC
61908107 TAACAACTTCACAAATTAAC
1 TAACAACTTCACAAATTAAC
61908127 CCTTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (20 bp):
TAACAACTTCACAAATTAAC
Found at i:61910599 original size:22 final size:22
Alignment explanation
Indices: 61910571--61910617 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
61910561 AATAGACTCA
61910571 AGAGATAGAGCAACGTTTGTAT
1 AGAGATAGAGCAACGTTTGTAT
61910593 AGAGATAGAGCAACGTTTGTAT
1 AGAGATAGAGCAACGTTTGTAT
61910615 AGA
1 AGA
61910618 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.26
Consensus pattern (22 bp):
AGAGATAGAGCAACGTTTGTAT
Found at i:61911261 original size:16 final size:16
Alignment explanation
Indices: 61911240--61911274 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
61911230 TCACGAAACA
61911240 CATGGTAACCCGCTCC
1 CATGGTAACCCGCTCC
61911256 CATGGTAACCCGCTCC
1 CATGGTAACCCGCTCC
61911272 CAT
1 CAT
61911275 TTTCATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (16 bp):
CATGGTAACCCGCTCC
Found at i:61914681 original size:178 final size:178
Alignment explanation
Indices: 61914382--61914713 Score: 628
Period size: 178 Copynumber: 1.9 Consensus size: 178
61914372 GTTAAATACA
* *
61914382 TAGGCTAACTTATTAAAAACAAGACATAGCTAAGTAATTTCTTCAACTCAAATCTCAACAAAAAT
1 TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCAACAAAAAT
61914447 AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
66 AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
61914512 AAGAAATGGCTTGTTAGGCTCAAGAGGATTTACTAGGGATCAAATTAT
131 AAGAAATGGCTTGTTAGGCTCAAGAGGATTTACTAGGGATCAAATTAT
*
61914560 TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCGACAAAAAT
1 TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCAACAAAAAT
*
61914625 AGGGATTAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
66 AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
61914690 AAGAAATGGCTTGTTAGGCTCAAG
131 AAGAAATGGCTTGTTAGGCTCAAG
61914714 GGGGTTTATT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 150 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (178 bp):
TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCAACAAAAAT
AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
AAGAAATGGCTTGTTAGGCTCAAGAGGATTTACTAGGGATCAAATTAT
Found at i:61924596 original size:18 final size:18
Alignment explanation
Indices: 61924573--61924608 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
61924563 GTTGGAGGTA
61924573 GCTGATTGCCTTAATTTT
1 GCTGATTGCCTTAATTTT
61924591 GCTGATTGCCTTAATTTT
1 GCTGATTGCCTTAATTTT
61924609 CAACCATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
GCTGATTGCCTTAATTTT
Found at i:61933957 original size:39 final size:40
Alignment explanation
Indices: 61933912--61934135 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
61933902 GCTCCTCGTT
* * * *
61933912 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61933952 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61933991 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
61934031 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
61934070 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61934111 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61934136 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 65 0.42
40 77 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61934068 original size:79 final size:78
Alignment explanation
Indices: 61933912--61934135 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 78
61933902 GCTCCTCGTT
* * *
61933912 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
61933977 TTTAATGACTCGCA
66 TTTAAT-ACTCGCA
* * * *
61933991 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
61934055 AACTTGT-AT-CTCGCA
65 -A-TT-TAATACTCGCA
* ** * * * * * *
61934070 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACTTAACCCG
61934134 GA
64 GA
61934136 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 88 0.73
80 24 0.20
81 4 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
TTTAATACTCGCA
Found at i:61934144 original size:41 final size:41
Alignment explanation
Indices: 61934067--61934144 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61934057 CTTGTATCTC
* * *
61934067 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61934108 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61934145 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:61940114 original size:15 final size:15
Alignment explanation
Indices: 61940094--61940123 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61940084 TCTCTTCTAG
61940094 TCAACAGAACAATTC
1 TCAACAGAACAATTC
61940109 TCAACAGAACAATTC
1 TCAACAGAACAATTC
61940124 AACATGCATC
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:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (15 bp):
TCAACAGAACAATTC
Found at i:61940461 original size:15 final size:15
Alignment explanation
Indices: 61940443--61940486 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
61940433 GAAGCCCAGA
61940443 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
61940458 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
61940473 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
61940487 TTTACATTAC
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:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61956905 original size:25 final size:26
Alignment explanation
Indices: 61956834--61956905 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
61956824 TATTTTCTTG
* * *
61956834 AAATTTTACCAAGGGCAAAATCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
*
61956860 AAATTTTACTAGGGGTAAAATCGTCA
1 AAATTTTACTAGGGGTAAAATCATCA
61956886 AAATTTTGA-T-GGGGTAAAAT
1 AAATTTT-ACTAGGGGTAAAAT
61956906 AAGGATGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 10 0.24
26 30 0.73
27 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCATCA
Found at i:61959994 original size:25 final size:26
Alignment explanation
Indices: 61959957--61960009 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
61959947 TCAAACATGC
61959957 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
61959983 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
61960009 A
1 A
61960010 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:61961529 original size:26 final size:26
Alignment explanation
Indices: 61961498--61961579 Score: 130
Period size: 26 Copynumber: 3.2 Consensus size: 26
61961488 TGAAATGCCC
61961498 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
61961524 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
61961550 ATCATAGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
61961576 ATCA
1 ATCA
61961580 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
25 2 0.04
26 50 0.96
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:61964613 original size:17 final size:17
Alignment explanation
Indices: 61964591--61964625 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61964581 ATTACAAAAT
*
61964591 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
61964608 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
61964625 C
1 C
61964626 TTTCTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:61965152 original size:3 final size:3
Alignment explanation
Indices: 61965144--61965185 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
61965134 ACTAATTCAT
61965144 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61965186 AAAACTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61971132 original size:3 final size:3
Alignment explanation
Indices: 61971124--61971189 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
61971114 TAGTCACCTT
61971124 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61971172 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
61971190 GGCATTTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61971950 original size:7 final size:7
Alignment explanation
Indices: 61971940--61971975 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
61971930 CACCGAACCC
61971940 TGGACCT
1 TGGACCT
61971947 TGGACCT
1 TGGACCT
61971954 TGGACCT
1 TGGACCT
61971961 TGGA-CT
1 TGGACCT
*
61971967 TGAACCT
1 TGGACCT
61971974 TG
1 TG
61971976 AACATTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.31
Consensus pattern (7 bp):
TGGACCT
Found at i:61972101 original size:6 final size:7
Alignment explanation
Indices: 61972084--61972131 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
61972074 TTGGGTTTGG
61972084 GGTTCAA
1 GGTTCAA
61972091 GGTTCAA
1 GGTTCAA
*
61972098 -GTTCGA
1 GGTTCAA
*
61972104 GGTTCGA
1 GGTTCAA
*
61972111 GGTTCGA
1 GGTTCAA
*
61972118 GGTTTAA
1 GGTTCAA
61972125 GGTTCAA
1 GGTTCAA
61972132 AGTTTTGAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 5 0.14
7 31 0.86
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (7 bp):
GGTTCAA
Found at i:61973577 original size:19 final size:20
Alignment explanation
Indices: 61973553--61973592 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
61973543 TTAAATTTTT
*
61973553 AGCACTGAATTT-TATTATA
1 AGCACTAAATTTATATTATA
61973572 AGCACTAAATTTATATTATA
1 AGCACTAAATTTATATTATA
61973592 A
1 A
61973593 AATTGTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (20 bp):
AGCACTAAATTTATATTATA
Found at i:61984799 original size:34 final size:34
Alignment explanation
Indices: 61984756--61984825 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
61984746 TAAAGAAAGA
*
61984756 AAGAAAGAAAAATAAGCAAATGAATTGAACTGAT
1 AAGAAAGAAAAATAAGCAAATGAATTAAACTGAT
*
61984790 AAGAAAGAAAAATAAGCAAATGGATTAAACTGAT
1 AAGAAAGAAAAATAAGCAAATGAATTAAACTGAT
61984824 AA
1 AA
61984826 ACTAATCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (34 bp):
AAGAAAGAAAAATAAGCAAATGAATTAAACTGAT
Found at i:61989118 original size:17 final size:17
Alignment explanation
Indices: 61989096--61989130 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61989086 ATTACAAAAT
*
61989096 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
61989113 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
61989130 C
1 C
61989131 TTTCTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:61996043 original size:67 final size:69
Alignment explanation
Indices: 61995960--61996088 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 69
61995950 ATAAACAATA
* **
61995960 TAATGGTTTTGCCTTTTAAC-TT-AATGGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
1 TAATGGTTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
61996023 AACT
66 AACT
* *
61996027 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAGTTTTGCC
1 TAATGGTTTTGACTTTTAACTTTA-AAAAGGTAAACAATTATCAAAACAACATAGTTTTGCC
61996089 GTTTCTTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 19 0.35
68 2 0.04
70 33 0.61
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (69 bp):
TAATGGTTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
AACT
Found at i:62003350 original size:16 final size:17
Alignment explanation
Indices: 62003322--62003366 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
62003312 GAACAGAATT
*
62003322 GAAGAAGAAAAAGA-AGA
1 GAAGAA-AAAAAGAGAAA
*
62003339 GATGAAAAAAAGAGAAA
1 GAAGAAAAAAAGAGAAA
62003356 GAAGAAAAAAA
1 GAAGAAAAAAA
62003367 ATAACGTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (17 bp):
GAAGAAAAAAAGAGAAA
Found at i:62013314 original size:27 final size:27
Alignment explanation
Indices: 62013274--62013337 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
62013264 CCACCAAAAT
** * *
62013274 AATAAACACGGGATAGTCTGCCGGGAC
1 AATAAACATAGGATAGCCCGCCGGGAC
*
62013301 AATAAACATAGGATAGCCCGCTGGGAC
1 AATAAACATAGGATAGCCCGCCGGGAC
62013328 AATAAACATA
1 AATAAACATA
62013338 AGGTAGTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (27 bp):
AATAAACATAGGATAGCCCGCCGGGAC
Found at i:62016577 original size:11 final size:11
Alignment explanation
Indices: 62016561--62016590 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
62016551 ATCCCTAGGG
62016561 TTCTTTTTCTT
1 TTCTTTTTCTT
*
62016572 TTCTTTTTTTT
1 TTCTTTTTCTT
62016583 TTCTTTTT
1 TTCTTTTT
62016591 AATTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:62022208 original size:37 final size:37
Alignment explanation
Indices: 62022158--62022302 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
62022148 ACCTTTAGCT
* * *
62022158 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
62022195 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
62022232 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
62022269 CGGACATACTCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
62022303 TAGAGCTCGG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:62022490 original size:47 final size:47
Alignment explanation
Indices: 62022421--62022743 Score: 484
Period size: 47 Copynumber: 6.6 Consensus size: 47
62022411 CCCTTCGGGA
* *
62022421 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62022468 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62022515 CTTATCACATATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62022569 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62022616 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62022665 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62022712 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
62022744 TCAAATATAC
Statistics
Matches: 256, Mismatches: 9, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
47 141 0.55
49 68 0.27
50 1 0.00
51 1 0.00
54 45 0.18
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62022555 original size:25 final size:25
Alignment explanation
Indices: 62022471--62022556 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 25
62022461 ATTAGGCCTT
62022471 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
62022496 ATCACATCGGCCAT-TAGGC-CTTATCACA-T-
1 ATCACAT-----ATATA--CACTT-TCACATTC
62022525 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
62022550 ATCACAT
1 ATCACAT
62022557 CGGCTATTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 24
0.67 0.00 0.33
Matches are distributed among these distances:
23 6 0.12
24 6 0.12
25 16 0.33
29 9 0.18
30 6 0.12
31 6 0.12
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:62022694 original size:96 final size:96
Alignment explanation
Indices: 62022421--62022743 Score: 533
Period size: 96 Copynumber: 3.3 Consensus size: 96
62022411 CCCTTCGGGA
*
62022421 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62022484 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
62022515 CTTATCACATATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 CTTATCAC--AT---ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
62022580 TATACACTTTCACATTCATCACATTGGCCATTAGGC
61 TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62022616 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
62022681 ACTTTCACATTCATCACATCGACCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62022712 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
62022744 TCAAATATAC
Statistics
Matches: 214, Mismatches: 8, Indels: 12
0.91 0.03 0.05
Matches are distributed among these distances:
94 8 0.04
96 115 0.54
99 2 0.01
100 1 0.00
101 88 0.41
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62026228 original size:12 final size:12
Alignment explanation
Indices: 62026211--62026238 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62026201 GCTTGGGCAG
62026211 CAGCTCGCCACT
1 CAGCTCGCCACT
62026223 CAGCTCGCCACT
1 CAGCTCGCCACT
62026235 CAGC
1 CAGC
62026239 AATAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.50, G:0.18, T:0.14
Consensus pattern (12 bp):
CAGCTCGCCACT
Found at i:62040250 original size:24 final size:25
Alignment explanation
Indices: 62040213--62040265 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
62040203 TATTCTTATG
*
62040213 TTTTCTTTGTAATTTTA-GTTTTAGA
1 TTTTCCTTGTAA-TTTAGGTTTTAGA
*
62040238 TTTTCCTT-TAATTTAGGTTTTAGG
1 TTTTCCTTGTAATTTAGGTTTTAGA
62040262 TTTT
1 TTTT
62040266 AGGTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.17, C:0.06, G:0.13, T:0.64
Consensus pattern (25 bp):
TTTTCCTTGTAATTTAGGTTTTAGA
Found at i:62043927 original size:40 final size:40
Alignment explanation
Indices: 62043793--62043929 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
62043783 GCGTTTGGAC
* * * * * *
62043793 AAAAAATGCCACTATAGATCAAGCATTAACGGCGCTATTT
1 AAAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTT
* * * *
62043833 CAAAAACGCCACTATAGA-ATGAGCATTAGCTGCACTTTTT
1 AAAAAACGCCGCTATAGATA-AAGCATTAGCGGCACTTTTT
62043873 AAAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTT
1 AAAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTT
*
62043913 AAAAAACGCTGCTATAG
1 AAAAAACGCCGCTATAG
62043930 GTCGACCATT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 81 0.99
41 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTT
Found at i:62043951 original size:80 final size:80
Alignment explanation
Indices: 62043793--62043952 Score: 178
Period size: 80 Copynumber: 2.0 Consensus size: 80
62043783 GCGTTTGGAC
* * * * *
62043793 AAAAAATGCCACTATAGATCAAGCATTAACGGCGCTATTTCAAAAACGCCACTATAGAATGAGCA
1 AAAAAACGCCACTATAGATAAAGCATTAACGGCACTATTTAAAAAACGCCACTATAGAATGACCA
**
62043858 TTAGCTGCACTTTTT
66 TTAGCAACACTTTTT
* * * ** *
62043873 AAAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTTAAAAAACGCTGCTATAG-GTCGACC
1 AAAAAACGCCACTATAGATAAAGCATTAACGGCACTATTTAAAAAACGCCACTATAGAAT-GACC
*
62043937 ATTAGCAACGCTTTTT
65 ATTAGCAACACTTTTT
62043953 TGAAAAATGC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
79 1 0.02
80 64 0.98
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (80 bp):
AAAAAACGCCACTATAGATAAAGCATTAACGGCACTATTTAAAAAACGCCACTATAGAATGACCA
TTAGCAACACTTTTT
Found at i:62043953 original size:41 final size:40
Alignment explanation
Indices: 62043834--62043952 Score: 105
Period size: 40 Copynumber: 3.0 Consensus size: 40
62043824 GCGCTATTTC
* * * **
62043834 AAAAACGCCACTATAGA-ATGAGCATTAGCTGCACTTTTTA
1 AAAAACGCCGCTATAGATA-AACCATTAGCAACACTTTTTA
* **
62043874 AAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTTA
1 AAAAACGCCGCTATAGATAAACCATTAGCAACACTTTTTA
* * ** *
62043914 AAAAACGCTGCTATAGGTCGACCATTAGCAACGCTTTTT
1 AAAAACGCCGCTATAGATAAACCATTAGCAACACTTTTT
62043953 TGAAAAATGC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 66 0.99
41 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATAAACCATTAGCAACACTTTTTA
Found at i:62045012 original size:46 final size:46
Alignment explanation
Indices: 62044962--62045134 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
62044952 TGGTTGAGCA
*
62044962 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
62045008 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
62045055 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
62045101 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62045135 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:62045118 original size:93 final size:93
Alignment explanation
Indices: 62044959--62045129 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
62044949 GGATGGTTGA
* *
62044959 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
62045024 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
62045052 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
62045117 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62045130 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62045396 original size:19 final size:20
Alignment explanation
Indices: 62045359--62045396 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62045349 ATAAGGTGGT
62045359 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
62045379 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
62045397 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:62052133 original size:46 final size:46
Alignment explanation
Indices: 62052083--62052253 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
62052073 GTTGAGCATT
* *
62052083 CGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * *
62052129 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
* *
62052176 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * *
62052221 TCGAGCTCGTTGAATTGAGTCTGAGTTCACTTA
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62052254 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 55 0.54
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:62052247 original size:93 final size:93
Alignment explanation
Indices: 62052078--62052248 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
62052068 GGATGGTTGA
* * * *
62052078 GCATTCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAAT
62052143 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
62052171 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAA
*
62052235 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
62052249 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAAT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62052515 original size:19 final size:20
Alignment explanation
Indices: 62052478--62052515 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62052468 ATAAGGTGGT
62052478 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
62052498 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
62052516 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:62059020 original size:42 final size:42
Alignment explanation
Indices: 62058899--62059097 Score: 177
Period size: 42 Copynumber: 4.7 Consensus size: 42
62058889 ATAAATTTTT
* *
62058899 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTG-GAAAAGCGCCGC
* * ** * *
62058942 TAAAAGTCTAT-TT-TATAGTTGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTC-ATGTTCTTTAGCGGCGTTT-TTGGAAAAGCGCCGC
* **
62058984 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGGAAAGCATCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
* * * * *
62059026 TAAAGATCATGTTCTTTAGCGGCGTATGTCGAAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGT-TTTTGGAAAAGCGCCGC
* * *
62059069 TAAAGATCATGTTCTATAGCGGCATTTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTT
62059098 TTCATAAACG
Statistics
Matches: 122, Mismatches: 29, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
41 2 0.02
42 66 0.54
43 52 0.43
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
Found at i:62059062 original size:85 final size:85
Alignment explanation
Indices: 62058899--62059097 Score: 224
Period size: 85 Copynumber: 2.3 Consensus size: 85
62058889 ATAAATTTTT
* * **
62058899 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAAGTCTATTTTATAGTTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCATCGCTAAAAGTCTATTTTATAGCGGC
* * *
62058964 ATTTGTGGGAAAAGCGCCGC
66 ATATGTCGAAAAAGCGCCGC
* *
62058984 TAAAGGTCATGTTCTTTAGCGGCGTTTTTG-GGAAAGCATCGCT-AAAGATC-ATGTTCTTTAGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCATCGCTAAAAG-TCTAT-TT-TATAGC
* *
62059046 GGCGTATGTCGAAAAAGTGCCGC
63 GGCATATGTCGAAAAAGCGCCGC
* * *
62059069 TAAAGATCATGTTCTATAGCGGCATTTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTT
62059098 TTCATAAACG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
83 6 0.06
84 15 0.15
85 76 0.78
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (85 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCATCGCTAAAAGTCTATTTTATAGCGGC
ATATGTCGAAAAAGCGCCGC
Found at i:62059488 original size:21 final size:20
Alignment explanation
Indices: 62059454--62059499 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
62059444 CTTGTAGAAA
* * *
62059454 ATATTTTTTTAATGTAATGT
1 ATATTTTATTAATGCAATGC
62059474 ATATTTCTATTAATGCAATGC
1 ATATTT-TATTAATGCAATGC
62059495 ATATT
1 ATATT
62059500 GCTTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (20 bp):
ATATTTTATTAATGCAATGC
Found at i:62068308 original size:11 final size:11
Alignment explanation
Indices: 62068292--62068317 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62068282 TAGTTTTATC
62068292 TGCTAATTGAA
1 TGCTAATTGAA
62068303 TGCTAATTGAA
1 TGCTAATTGAA
62068314 TGCT
1 TGCT
62068318 CATCCTAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (11 bp):
TGCTAATTGAA
Found at i:62081264 original size:23 final size:23
Alignment explanation
Indices: 62081225--62081269 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62081215 AAATAAATAA
62081225 AAAAATAAAGAAATATG-AGAAT
1 AAAAATAAAGAAATATGTAGAAT
* *
62081247 AAAAATAGAATAATTATGTAGAA
1 AAAAATA-AAGAAATATGTAGAA
62081270 AACCACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (23 bp):
AAAAATAAAGAAATATGTAGAAT
Found at i:62100675 original size:16 final size:17
Alignment explanation
Indices: 62100654--62100688 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
62100644 AAGTGTTATT
62100654 ATTGAATTGAATGA-AA
1 ATTGAATTGAATGATAA
62100670 ATTGAATTGAATGATAA
1 ATTGAATTGAATGATAA
62100687 AT
1 AT
62100689 ATGTATTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
ATTGAATTGAATGATAA
Found at i:62100748 original size:11 final size:11
Alignment explanation
Indices: 62100732--62100780 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
62100722 AGTGGAAAAG
62100732 TGAATTTGAAT
1 TGAATTTGAAT
62100743 TGAATTGTG-AT
1 TGAATT-TGAAT
* *
62100754 TGAATTTAAAG
1 TGAATTTGAAT
62100765 TGAATTTGAAAT
1 TGAATTTG-AAT
62100777 TGAA
1 TGAA
62100781 AAGTGAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 22 0.71
12 8 0.26
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (11 bp):
TGAATTTGAAT
Found at i:62104233 original size:19 final size:19
Alignment explanation
Indices: 62104209--62104266 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
62104199 CAAAGTATAA
62104209 ATTTTTACCCATGATAGAT
1 ATTTTTACCCATGATAGAT
**
62104228 ATTTTT--GTAT-ATA-A-
1 ATTTTTACCCATGATAGAT
62104242 ATTTTTACCCATGATAGAT
1 ATTTTTACCCATGATAGAT
62104261 ATTTTT
1 ATTTTT
62104267 GTATTTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 6 0.20
15 1 0.03
16 5 0.17
17 5 0.17
18 1 0.03
19 12 0.40
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTTTTACCCATGATAGAT
Found at i:62104243 original size:33 final size:33
Alignment explanation
Indices: 62104204--62104270 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
62104194 ATAATCAAAG
62104204 TATAAATTTTTACCCATGATAGATATTTTTGTA
1 TATAAATTTTTACCCATGATAGATATTTTTGTA
62104237 TATAAATTTTTACCCATGATAGATATTTTTGTA
1 TATAAATTTTTACCCATGATAGATATTTTTGTA
62104270 T
1 T
62104271 TTTGATGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (33 bp):
TATAAATTTTTACCCATGATAGATATTTTTGTA
Found at i:62107174 original size:48 final size:47
Alignment explanation
Indices: 62107071--62107391 Score: 204
Period size: 46 Copynumber: 6.8 Consensus size: 47
62107061 TTATTTGTGT
62107071 GCTAGTGTAAGAC-ATGTCTGGGACATGCATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACTATGTCTGGGACATGCATCGG---CATTGAAATGAGA
* * * * * *
62107117 GCCAATGTAAGACTGTGTCTAGTACATGGCATCGGCATTGAAACGAGA
1 GCTAGTGTAAGACTATGTCTGGGACAT-GCATCGGCATTGAAATGAGA
* * *
62107165 GCTAGTGTAAAAC-ATGTTTGGGACATGCGTCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACTATGTCTGGGACATGCATCGG---CATTGAAATGAGA
* *
62107211 GAC-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAATGAGA
1 G-CTAGTGTAAGACTATGTCTGGGACAT-GCATCGGCATTGAAATGAGA
* *
62107259 GCTAGTGTAAGAC-ATGTCTGGGACATGCATCGGC-TATGAGAT--GT
1 GCTAGTGTAAGACTATGTCTGGGACATGCATCGGCAT-TGAAATGAGA
* ** *
62107303 G-TAAGTGTAAGACCATGTCTGGGACATGGCATCAACA-CGAATATGAGAGA
1 GCT-AGTGTAAGACTATGTCTGGGACAT-GCATCGGCATTGAA-AT--GAGA
* * * *
62107353 GCTAATGTAAGACCATGTCAGGGACATGGCATCGACATT
1 GCTAGTGTAAGACTATGTCTGGGACAT-GCATCGGCATT
62107392 ATACCCTATG
Statistics
Matches: 217, Mismatches: 31, Indels: 49
0.73 0.10 0.16
Matches are distributed among these distances:
43 1 0.00
44 12 0.06
45 24 0.11
46 52 0.24
47 46 0.21
48 44 0.20
49 4 0.02
50 33 0.15
51 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACTATGTCTGGGACATGCATCGGCATTGAAATGAGA
Found at i:62107238 original size:94 final size:94
Alignment explanation
Indices: 62107071--62107386 Score: 363
Period size: 94 Copynumber: 3.3 Consensus size: 94
62107061 TTATTTGTGT
* * **
62107071 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACTGTGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
* * *
62107136 TAGTACATGGCATCGGCATTGAAACGAGA
66 TGGGACATGGCATCGACATTGAAACGAGA
* * *
62107165 GCTAGTGTAAAACATGTTTGGGACATGCGTCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
*
62107230 TGGGACATGGCATCGACATTGAAATGAGA
66 TGGGACATGGCATCGACATTGAAACGAGA
* * *
62107259 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GATGTGTA-AGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAG-ACAGTGTAAGACCATG
* * *
62107320 TCTGGGACATGGCATCAACA-CGAATATGAGAGA
64 TCTGGGACATGGCATCGACATTGAA-A--CGAGA
* *
62107353 GCTAATGTAAGACCATGTCAGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
62107387 ACATTATACC
Statistics
Matches: 193, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
91 5 0.03
92 39 0.20
93 2 0.01
94 128 0.66
95 13 0.07
96 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
TGGGACATGGCATCGACATTGAAACGAGA
Found at i:62107268 original size:142 final size:139
Alignment explanation
Indices: 62107071--62107393 Score: 324
Period size: 142 Copynumber: 2.3 Consensus size: 139
62107061 TTATTTGTGT
*
62107071 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAATGTAAGACTGTG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTATGAGAGCCAATGTAAGAC-ATG
* * *
62107134 TCTAGTACATGGCATCGGC-ATTGAAACGA-GAGCT-AGTGTAA-AACATGTTTGGGACAT-GCG
62 TCTAGGACAT-GCATCGGCTA-TG--A-GATGAG-TAAGTGTAAGAACATGTCTGGGACATGGCA
** *
62107194 TCGGCCAC-ATTATGAGAGA
121 TC-AACACGAATATGAGAGA
* *
62107213 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAATGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT---ATGAGAGCCAATGTAAGACATGT
* * *
62107276 CTGGGACATGCATCGGCTATGAGATGTGTAAGTGTAAGACCATGTCTGGGACATGGCATCAACAC
63 CTAGGACATGCATCGGCTATGAGATGAGTAAGTGTAAGAACATGTCTGGGACATGGCATCAACAC
62107341 GAATATGAGAGA
128 GAATATGAGAGA
* *
62107353 GCTAATGTAAGACCATGTCAGGGACATGGCATCGACATTAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAT
62107394 ACCCTATGTT
Statistics
Matches: 154, Mismatches: 14, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
137 3 0.02
138 10 0.06
139 24 0.16
140 33 0.21
141 28 0.18
142 56 0.36
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (139 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTATGAGAGCCAATGTAAGACATGTCTA
GGACATGCATCGGCTATGAGATGAGTAAGTGTAAGAACATGTCTGGGACATGGCATCAACACGAA
TATGAGAGA
Found at i:62107377 original size:50 final size:49
Alignment explanation
Indices: 62107204--62107385 Score: 172
Period size: 50 Copynumber: 3.9 Consensus size: 49
62107194 TCGGCCACAT
* *
62107204 TATGAGAGA-C-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAA
1 TATGAGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC-ACA-CGAA
* **
62107253 -AT--GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCAT----CGGC
1 TATGAGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCACACGAA
*
62107293 TATGAGATGTG-TAAGTGTAAGACCATGTCTGGGACATGGCATCAACACGAA
1 TATGAGA-GAGCTAA-TGTAAGACCATGTCTGGGACATGGCATC-ACACGAA
*
62107344 TATGAGAGAGCTAATGTAAGACCATGTCAGGGACATGGCATC
1 TATGAGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC
62107386 GACATTATAC
Statistics
Matches: 109, Mismatches: 9, Indels: 29
0.74 0.06 0.20
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
43 4 0.04
44 9 0.08
45 14 0.13
46 12 0.11
47 15 0.14
48 11 0.10
50 29 0.27
51 12 0.11
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (49 bp):
TATGAGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCACACGAA
Found at i:62110453 original size:62 final size:62
Alignment explanation
Indices: 62110387--62110514 Score: 247
Period size: 62 Copynumber: 2.1 Consensus size: 62
62110377 TAGAGGTTTT
62110387 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
1 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
*
62110449 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTCTG
1 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
62110511 CATA
1 CATA
62110515 AGTTTCGGCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (62 bp):
CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
Found at i:62111972 original size:39 final size:39
Alignment explanation
Indices: 62111918--62112043 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
62111908 GATATTGATG
*
62111918 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
62111957 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
62111996 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
62112035 TATGTCCGG
1 TATATCCGG
62112044 GCTAAAGTCT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:62112058 original size:39 final size:39
Alignment explanation
Indices: 62111918--62112081 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
62111908 GATATTGATG
* * *
62111918 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
62111957 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
62111996 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
62112035 TATGTCCGGGC-TAAAGTCTCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGTC-CGCAGGCTACGTGCTGGAAT
62112074 TATA-CCGG
1 TATATCCGG
62112082 GTTTAAATTC
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
38 10 0.09
39 102 0.91
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:62118137 original size:15 final size:15
Alignment explanation
Indices: 62118119--62118149 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62118109 TTATTTTTCT
*
62118119 TATATTTTTATGGTC
1 TATAATTTTATGGTC
62118134 TATAATTTTATGGTC
1 TATAATTTTATGGTC
62118149 T
1 T
62118150 GTGAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (15 bp):
TATAATTTTATGGTC
Found at i:62120433 original size:46 final size:45
Alignment explanation
Indices: 62120383--62120555 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
62120373 TGGTTGAGCA
*
62120383 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AATG
* * * *
62120429 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA-T--G
*
62120474 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AATG
* *
62120522 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62120556 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAATG
Found at i:62120539 original size:93 final size:93
Alignment explanation
Indices: 62120380--62120550 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62120370 GGATGGTTGA
* *
62120380 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTCAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTCAACGCCCGAACTCGTTGAGT
*
62120445 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
62120473 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTCAACGCCCGAACTCGTTGAGT
62120538 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62120551 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTCAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:62137679 original size:38 final size:38
Alignment explanation
Indices: 62137637--62137746 Score: 177
Period size: 38 Copynumber: 2.9 Consensus size: 38
62137627 GCAGGCTATG
62137637 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCA
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCA
* *
62137675 TGCTGGTAA-TATATCCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCA
*
62137713 TGCTGGAATTATGTCCGGGTTAAATCCCGCAGGC
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGC
62137747 CTAGTGCTAG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
37 2 0.03
38 62 0.94
39 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCA
Found at i:62137754 original size:38 final size:38
Alignment explanation
Indices: 62137627--62137794 Score: 171
Period size: 38 Copynumber: 4.4 Consensus size: 38
62137617 TTAAAGACTT
62137627 GCAGG-CTATGTGCTGGAATTATATCCGGGTTAAATCCC
1 GCAGGCCTA-GTGCTGGAATTATATCCGGGTTAAATCCC
*
62137665 GCAGGCTTCA-TGCTGGTAA-TATATCCGGGTTAAATCCC
1 GCAGGCCT-AGTGCTGG-AATTATATCCGGGTTAAATCCC
* * * *
62137703 GTAGGCTTCGTGCTGGAATTATGTCCGGGTTAAATCCC
1 GCAGGCCTAGTGCTGGAATTATATCCGGGTTAAATCCC
* * * *
62137741 GCAGGCCTAGTGCTAGTATTATATCTGAGCTTAAAGTCCC
1 GCAGGCCTAGTGCTGGAATTATATCCG-GGTTAAA-TCCC
* *
62137781 GCGGGCTTAGTGCT
1 GCAGGCCTAGTGCT
62137795 AGTGACTGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
37 2 0.02
38 81 0.74
39 9 0.08
40 17 0.16
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
GCAGGCCTAGTGCTGGAATTATATCCGGGTTAAATCCC
Found at i:62145148 original size:38 final size:38
Alignment explanation
Indices: 62145106--62145259 Score: 177
Period size: 38 Copynumber: 4.0 Consensus size: 38
62145096 TTGCAAGCTA
*
62145106 TATGCTGGAATTATATCCGGGTTAAATCCCGCAGGTTT
1 TATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
62145144 TATGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTT
1 TATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTT
** * *
62145182 CGTGCTGGAATTATGTCCGGGTTAAATCCCGCAGGC-C
1 TATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
* * * *
62145219 TAGTGCTGGTATTATATCTGAGCTTAAAGTCCTGCAGGCTT
1 TA-TGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGGCTT
62145260 AGTGCTAATG
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
37 2 0.02
38 78 0.80
39 8 0.08
40 9 0.09
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
Found at i:62145201 original size:76 final size:78
Alignment explanation
Indices: 62145108--62145265 Score: 214
Period size: 76 Copynumber: 2.1 Consensus size: 78
62145098 GCAAGCTATA
** *
62145108 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGTTTTA-TGCTGGTAATATATCCG-GGTTAAA-
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGG-CCTAGTGCTGGTAATATATCCGAGCTTAAAG
*
62145170 TCCCGCAGGCTTCG
65 TCCCGCAGGCTTAG
* * *
62145184 TGCTGGAATTATGTCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGAGCTTAAAGT
*
62145249 CCTGCAGGCTTAG
66 CCCGCAGGCTTAG
62145262 TGCT
1 TGCT
62145266 AATGACTGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
75 2 0.03
76 47 0.66
77 6 0.08
78 16 0.23
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (78 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGAGCTTAAAGT
CCCGCAGGCTTAG
Found at i:62151793 original size:37 final size:36
Alignment explanation
Indices: 62151739--62151815 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
62151729 ATTCCTCGCT
**
62151739 TCCTTTGACTCTGACACTCCTCCCCTTCATCTAGCG
1 TCCTTTGACTCCAACACTCCTCCCCTTCATCTAGCG
*
62151775 TCCTTTCGACTCCAACACTCCTCCCTTTCATCTAGCG
1 TCCTTT-GACTCCAACACTCCTCCCCTTCATCTAGCG
62151812 TCCT
1 TCCT
62151816 CTAGGTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 6 0.16
37 31 0.84
ACGTcount: A:0.14, C:0.43, G:0.09, T:0.34
Consensus pattern (36 bp):
TCCTTTGACTCCAACACTCCTCCCCTTCATCTAGCG
Found at i:62160387 original size:57 final size:58
Alignment explanation
Indices: 62160292--62160423 Score: 171
Period size: 57 Copynumber: 2.3 Consensus size: 58
62160282 GAAACACACT
*
62160292 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCATACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * * *
62160348 TCGCATACATAGTGCCTCAACT-ACTGATCTGGCACACATATTGCTCGGTTGAAGAGC
1 TCGCATACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* *
62160405 TTGCACACACAGTGCCTCA
1 TCGCATACACAGTGCCTCA
62160424 TAATTCCAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 15 0.23
57 47 0.72
58 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (58 bp):
TCGCATACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:62160495 original size:40 final size:40
Alignment explanation
Indices: 62160458--62160744 Score: 484
Period size: 40 Copynumber: 7.2 Consensus size: 40
62160448 GGTTTAGCAT
62160458 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
62160498 AGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* * * *
62160538 AGATACATCACTAGCATGAATGCTCTTCGGAACTTAACCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* *
62160578 GGATATATAACTAGCACGAATGCTCTTCAGAACTTAGCCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* *
62160618 AGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
62160658 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
62160698 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
62160738 GGATATA
1 GGATATA
62160745 AATAACTCCC
Statistics
Matches: 231, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (40 bp):
GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
Found at i:62168522 original size:16 final size:16
Alignment explanation
Indices: 62168501--62168555 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
62168491 GGAATTAATG
62168501 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
* *
62168517 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCT
*
62168533 ATTACAGCCCTATT-T
1 ATTACAGCTCTATTCT
62168548 CATTACAG
1 -ATTACAG
62168556 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:62172135 original size:23 final size:23
Alignment explanation
Indices: 62172091--62172137 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
62172081 AATTAGTTTT
* *
62172091 ATAAGTGATAAAGTGACGTCATG
1 ATAAGTGATAAAGCGACATCATG
62172114 ATAAGTTGATAAA-CGACATCATG
1 ATAAG-TGATAAAGCGACATCATG
62172137 A
1 A
62172138 CGTGACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAAGTGATAAAGCGACATCATG
Found at i:62173172 original size:7 final size:7
Alignment explanation
Indices: 62173162--62173204 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
62173152 ATATTTTTCT
62173162 TTTTTAA
1 TTTTTAA
62173169 -TTTTAA
1 TTTTTAA
62173175 TTTTTAA
1 TTTTTAA
* *
62173182 TTTCTAT
1 TTTTTAA
62173189 TTTTTAAA
1 TTTTT-AA
62173197 TTTTTAA
1 TTTTTAA
62173204 T
1 T
62173205 CAAATTTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTAA
Found at i:62173178 original size:13 final size:13
Alignment explanation
Indices: 62173162--62173200 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
62173152 ATATTTTTCT
62173162 TTTTTAATTTTAA
1 TTTTTAATTTTAA
*
62173175 TTTTTAATTTCTAT
1 TTTTTAATTT-TAA
62173189 TTTTTAAATTTT
1 TTTTT-AATTTT
62173201 TAATCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 8 0.35
15 5 0.22
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:62175610 original size:228 final size:228
Alignment explanation
Indices: 62174379--62175499 Score: 1749
Period size: 228 Copynumber: 4.9 Consensus size: 228
62174369 CTCTCAAACG
* * * *
62174379 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
62174443 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * *
62174508 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
62174573 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
62174607 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
62174672 CATCGATAATGTGAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
62174737 TCTTCGCCGGAAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
62174802 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
*
62174835 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
62174900 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
62174965 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
62175030 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
*
62175063 ATGCAGATCTTCGTCAAAACCTTAACCGGTAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * *
62175128 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* *
62175193 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* * *
62175258 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGC
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
* * * * * * * * *
62175291 ATGCAGATCTTCGTGAAAACCTTGACTGGCAAGACCATCACCTTAGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * * * * * * * *
62175356 CATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * * ** * * * *
62175421 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
62175486 ACCCTTCACCTTGT
196 ACCCTCCACCTTGT
62175500 TTTGAGGCTT
Statistics
Matches: 830, Mismatches: 62, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
227 4 0.00
228 826 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.20
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
Found at i:62175618 original size:228 final size:228
Alignment explanation
Indices: 62174379--62175730 Score: 961
Period size: 228 Copynumber: 5.9 Consensus size: 228
62174369 CTCTCAAACG
* * * * * ** * * * *
62174379 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTGAAAA-CATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACA
* * * * * *
62174443 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CAATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * ** * * * *
62174508 ATCTTCGCCGGCAAA-CAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAAT
130 ATCTTTGCAGG-AAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAAT
* * * * * * *
62174572 CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
194 CCACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * * * ** * * * * * *
62174607 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * * * *
62174672 CATCGATAATGTGAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * ** * * *
62174737 TCTTCGCCGGAAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTTGCAGGAAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
* * * * * *
62174802 ACCCTCCACCTTGTCCT-ACGTCTTCGTGGGGGT
196 ACCCTTCACCTTGTTCTCA-GGCTTCGCGGAGGC
* * * * * * ** * * * * * *
62174835 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * *
62174900 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * ** * * *
62174965 TCTTCGCCGGCAAA-CAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
131 TCTTTGCAGG-AAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * * *
62175029 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * * * * ** * * * * * *
62175063 ATGCAGATCTTCGTCAAAACCTTAACCGGTAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * * *
62175128 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * ** * * *
62175193 TCTTCGCCGGCAAA-CAGCTCGAAGATGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATC
131 TCTTTGCAGG-AAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * *
62175257 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGC
195 CACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * *
62175291 ATGCAGATCTTCGTGAAAACCTTGACTGGCAAGACCATCACCTTAGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * *
62175356 CATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* *
62175421 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTTGCAGGAAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
* * *
62175486 ACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGC
196 ACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * * *
62175519 ATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGATAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * * * * *
62175584 AATTGATAATGTGAAGGCGAAGATTCAGGACAAGGAAGGTATCCCTCCAGATCAGCAAAGGCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * * *
62175649 TCTTTGCTGGAAAGCA-ATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGAGTC
131 TCTTTGCAGGAAAGCAGCTT-GAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
62175713 CACCCTTCACCTTGTTCT
195 CACCCTTCACCTTGTTCT
62175731 TCGTCTCCGT
Statistics
Matches: 1017, Mismatches: 100, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
227 11 0.01
228 1003 0.99
229 3 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (228 bp):
ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
TCTTTGCAGGAAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
ACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
Found at i:62175717 original size:684 final size:684
Alignment explanation
Indices: 62174379--62175742 Score: 1726
Period size: 684 Copynumber: 2.0 Consensus size: 684
62174369 CTCTCAAACG
* * * *
62174379 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
62174444 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTAAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* *
62174509 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* * *
62174574 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
196 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTCAAAACCTTAACCGGCAA
* * * * *
62174639 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATCCAAGACA
261 GACCATCACCCTAGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATCCAAGACA
* * * * *
62174704 AGGAAGGCATCCCACCAGACCAGCAGCGTCTCATCTTCGCCGGAAAACAGCTCGAAGATGGCCGT
326 AGGAAGGCATCCCACCAGACCAACAACGTCTCATCTTCGCAGGAAAACAGCTCGAAGATGGCAGG
* *
62174769 ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGTCTTCGTGGGGG
391 ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGGCTTCGTGGAGG
* * * * * * *
62174834 TATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACA
456 CATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGACA
* * * ** *
62174899 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
521 CAATCGATAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTC
* * * * *
62174964 ATCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
586 ATCTTCGCCGGCAAACAACTCGAAGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGAATC
*
62175029 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
651 CACCCTCCACCTTGTCCTCCGTCTCCGTGGGGGT
*
62175063 ATGCAGATCTTCGTCAAAA-CCTTAACCGGTAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
1 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
*
62175127 CCATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGACAATGTAAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * *
62175192 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
* * *
62175257 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTGAAAACCTTGACTGGCA
195 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTCAAAACCTTAACCGGCA
* * * * * * *
62175322 AGACCATCACCTTAGAGGTGGAGAGTTCGGACACCATCGACAATGTAAAGGCGAAGATTCAAGAC
260 AGACCATCACCCTAGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATCCAAGAC
* * * * * * * * *
62175387 AAGGAAGGGATCCCACCAGACCAACAACGTTTGATCTTTGCAGGGAAGCAGCTTGAGGATGGGAG
325 AAGGAAGGCATCCCACCAGACCAACAACGTCTCATCTTCGCAGGAAAACAGCTCGAAGATGGCAG
* * * * **
62175452 GACCTTGGCTGATTATAACATCCAGAAGGAATCGACCCTTCACCTTGTTTTGA-GGCTTCGTGGA
390 GACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCT-ACGGCTTCGTGGA
* * * * * * * * * * *
62175516 GGCATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGA
454 GGCATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGA
* * * * * * * *
62175581 TACAATTGATAATGTGAAGGCGAAGATTCAGGACAAGGAAGGTATCCCTCCAGATCAGCAAAGGC
519 CACAATCGATAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGC
* * * * * * * * * * *
62175646 TCATCTTTGCTGG-AAAGCAATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGA
584 TCATCTTCGCCGGCAAA-CAACTCGAAGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGA
* * * *
62175710 GTCCACCCTTCACCTTGTTCTTCGTCTCCGTGG
648 ATCCACCCTCCACCTTGTCCTCCGTCTCCGTGG
62175743 TGGGCAGTGA
Statistics
Matches: 571, Mismatches: 106, Indels: 6
0.84 0.16 0.01
Matches are distributed among these distances:
683 7 0.01
684 563 0.99
685 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (684 bp):
ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGACAATGTAAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTCAAAACCTTAACCGGCAA
GACCATCACCCTAGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATCCAAGACA
AGGAAGGCATCCCACCAGACCAACAACGTCTCATCTTCGCAGGAAAACAGCTCGAAGATGGCAGG
ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGGCTTCGTGGAGG
CATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGACA
CAATCGATAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTC
ATCTTCGCCGGCAAACAACTCGAAGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGAATC
CACCCTCCACCTTGTCCTCCGTCTCCGTGGGGGT
Found at i:62177227 original size:30 final size:29
Alignment explanation
Indices: 62177168--62177236 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
62177158 ATTATTAATA
*
62177168 ATTTATAAGAATTGAACCAAATCAAAATTT
1 ATTTATAA-AATTGAACAAAATCAAAATTT
*
62177198 CATTTATAAAATT-ATACAAAATTAAAATTT
1 -ATTTATAAAATTGA-ACAAAATCAAAATTT
*
62177228 ATGTATAAA
1 ATTTATAAA
62177237 TTTACATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.26
30 17 0.50
31 8 0.24
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.36
Consensus pattern (29 bp):
ATTTATAAAATTGAACAAAATCAAAATTT
Found at i:62179379 original size:42 final size:43
Alignment explanation
Indices: 62179272--62179414 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 43
62179262 TTTATGTGAA
* *
62179272 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGCCAC-TTTCCC
1 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCACTTTTACC
* * * *
62179314 ACAAACGTCGCTAAAGGTCATGACCTTTCGCGGCGCTTTTACC
1 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCACTTTTACC
* * ** *
62179357 TAAAACGCCACTAAAAGT-ATGACCTTTAACGGCACTTTTATC
1 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCACTTTTACC
62179399 AAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
62179415 AAATGACCTT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 65 0.78
43 18 0.22
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCACTTTTACC
Found at i:62179421 original size:42 final size:42
Alignment explanation
Indices: 62179333--62179427 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
62179323 GCTAAAGGTC
** * * **
62179333 ATGACCTTTCGCGGCGCTTTTACCTAAAACGCCACTAAAAGT
1 ATGACCTTTAACGGCACTTTTACCAAAAACGCCACTAAAAAA
* *
62179375 ATGACCTTTAACGGCACTTTTATCAAAAACGCCGCTAAAAAA
1 ATGACCTTTAACGGCACTTTTACCAAAAACGCCACTAAAAAA
62179417 ATGACCTTTAA
1 ATGACCTTTAA
62179428 AAAAATTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (42 bp):
ATGACCTTTAACGGCACTTTTACCAAAAACGCCACTAAAAAA
Found at i:62185196 original size:21 final size:21
Alignment explanation
Indices: 62185172--62185214 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62185162 ACCCTAAAAA
62185172 CCTAACACTT-AACCCCTAACC
1 CCTAACACTTAAACCCC-AACC
* *
62185193 CCTACCCCTTAAACCCCAACC
1 CCTAACACTTAAACCCCAACC
62185214 C
1 C
62185215 TTAAACCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAACACTTAAACCCCAACC
Found at i:62185247 original size:15 final size:15
Alignment explanation
Indices: 62185227--62185257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62185217 AAACCGTAAT
*
62185227 CCATAATCCTTAAAC
1 CCATAATCCATAAAC
62185242 CCATAATCCATAAAC
1 CCATAATCCATAAAC
62185257 C
1 C
62185258 TTAAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:62185251 original size:22 final size:21
Alignment explanation
Indices: 62185213--62185311 Score: 83
Period size: 22 Copynumber: 4.6 Consensus size: 21
62185203 AAACCCCAAC
* *
62185213 CCTTAAACCGTAATCCATAAT
1 CCTTAAACCATAATCCATAAA
62185234 CCTTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAATCCATAAA
** *
62185256 CCTTAAAATAGTAA-CTCATACA
1 CCTTAAACCA-TAATC-CATAAA
* * * *
62185278 CTTTAAACCCTAAACCATATA
1 CCTTAAACCATAATCCATAAA
62185299 CCTTAAACCATAA
1 CCTTAAACCATAA
62185312 ACTATAATGA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
21 28 0.45
22 34 0.55
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.26
Consensus pattern (21 bp):
CCTTAAACCATAATCCATAAA
Found at i:62185304 original size:21 final size:20
Alignment explanation
Indices: 62185213--62185318 Score: 72
Period size: 21 Copynumber: 5.0 Consensus size: 20
62185203 AAACCCCAAC
* *
62185213 CCTTAAACCGTAATCCATAA
1 CCTTAAACCATAAACCATAA
*
62185233 TCCTTAAACCCATAATCCATAAA
1 -CCTTAAA-CCATAAACCAT-AA
62185256 CCTTAAA--ATAGTAACTCATACA
1 CCTTAAACCATA--AAC-CATA-A
* *
62185278 CTTTAAACCCTAAACCATATA
1 CCTTAAACCATAAACCATA-A
*
62185299 CCTTAAACCATAAACTATAA
1 CCTTAAACCATAAACCATAA
62185319 TGATAATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
19 3 0.04
20 1 0.01
21 31 0.45
22 30 0.43
23 2 0.03
24 2 0.03
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.26
Consensus pattern (20 bp):
CCTTAAACCATAAACCATAA
Found at i:62185424 original size:7 final size:7
Alignment explanation
Indices: 62185412--62185497 Score: 57
Period size: 7 Copynumber: 12.1 Consensus size: 7
62185402 ACTAATTAAT
62185412 CTAAACC
1 CTAAACC
62185419 CTAAACTC
1 CTAAAC-C
*
62185427 CTAATCC
1 CTAAACC
*
62185434 TTAAACC
1 CTAAACC
62185441 CTAAACC
1 CTAAACC
* * *
62185448 ATGAATC
1 CTAAACC
*
62185455 CTAAAAC
1 CTAAACC
*
62185462 ATAAACC
1 CTAAACC
62185469 CTAAA-C
1 CTAAACC
*
62185475 CAATAACC
1 CTA-AACC
*
62185483 CTTAACC
1 CTAAACC
*
62185490 CTTAACC
1 CTAAACC
62185497 C
1 C
62185498 CTAGCACCTA
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
6 3 0.05
7 49 0.82
8 8 0.13
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:62185454 original size:22 final size:22
Alignment explanation
Indices: 62185413--62185461 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
62185403 CTAATTAATC
*
62185413 TAAACCCTAAACTCCTAATCCT
1 TAAACCCTAAACTCATAATCCT
62185435 TAAACCCTAAAC-CATGAATCCT
1 TAAACCCTAAACTCAT-AATCCT
*
62185457 AAAAC
1 TAAAC
62185462 ATAAACCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACTCATAATCCT
Found at i:62185457 original size:14 final size:14
Alignment explanation
Indices: 62185412--62185489 Score: 68
Period size: 14 Copynumber: 5.5 Consensus size: 14
62185402 ACTAATTAAT
*
62185412 CTAAACCCTAAACTC
1 CTAAACCATAAAC-C
* *
62185427 CTAATCCTTAAACC
1 CTAAACCATAAACC
* *
62185441 CTAAACCATGAATC
1 CTAAACCATAAACC
*
62185455 CTAAAACATAAACC
1 CTAAACCATAAACC
62185469 CTAAACCA-ATAACC
1 CTAAACCATA-AACC
*
62185483 CTTAACC
1 CTAAACC
62185490 CTTAACCCCT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
13 1 0.02
14 39 0.76
15 11 0.22
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:62186054 original size:39 final size:39
Alignment explanation
Indices: 62185972--62186054 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
62185962 TTTGTGGCGT
* * * *
62185972 TTTTTGAAAAGCGCCGCTAAATATCGAGCATTAGCGGCT
1 TTTTTAAAAAGCGCCGCTAAATATCGACCATTAGCAGCG
* *
62186011 TTTTTAAAAAGCGCCGCT-AATACTCGACCTTTAGTAGCG
1 TTTTTAAAAAGCGCCGCTAAATA-TCGACCATTAGCAGCG
62186050 TTTTT
1 TTTTT
62186055 CATTCAAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
38 4 0.11
39 33 0.89
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (39 bp):
TTTTTAAAAAGCGCCGCTAAATATCGACCATTAGCAGCG
Found at i:62191653 original size:63 final size:63
Alignment explanation
Indices: 62191576--62191702 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
62191566 TGCAAATGAT
62191576 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
1 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
*
62191639 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGGAGCTATAATTTTGAAGTAAATCTTGGTTGAA
1 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
62191702 T
1 T
62191703 ATGAGAATGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (63 bp):
TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
Found at i:62192762 original size:3 final size:3
Alignment explanation
Indices: 62192756--62192781 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62192746 TGTTGCCATG
62192756 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
62192782 GGGCGGCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62192945 original size:27 final size:27
Alignment explanation
Indices: 62192914--62192986 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 27
62192904 TTTTTTTGTT
62192914 ATAAAATTTAATTTGTATATACAAATA
1 ATAAAATTTAATTTGTATATACAAATA
*
62192941 ATAAAGA---AATAT-TATTATACAAATA
1 ATAAA-ATTTAATTTGTA-TATACAAATA
*
62192966 TTACAAATTTAATTTGTATAT
1 ATA-AAATTTAATTTGTATAT
62192987 GTAAATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
24 2 0.06
25 17 0.47
26 2 0.06
27 5 0.14
28 8 0.22
29 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (27 bp):
ATAAAATTTAATTTGTATATACAAATA
Found at i:62193115 original size:32 final size:32
Alignment explanation
Indices: 62193078--62193138 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
62193068 TTGTATGTAT
*
62193078 TGTTATTTTAAAAGTCGGTATAAATTTTTTTA
1 TGTTATTTTAAAAGTCGATATAAATTTTTTTA
*
62193110 TGTTATTTTAAAAGTTGATATAAATTTTT
1 TGTTATTTTAAAAGTCGATATAAATTTTT
62193139 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (32 bp):
TGTTATTTTAAAAGTCGATATAAATTTTTTTA
Found at i:62193398 original size:21 final size:21
Alignment explanation
Indices: 62193353--62193400 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
62193343 TTTTTACTTC
*
62193353 AATAAA-CATTAAAAATAAAT
1 AATAAATCAATAAAAATAAAT
*
62193373 TATAAATCAATAAAAATATAA-
1 AATAAATCAATAAAAATA-AAT
62193394 AATAAAT
1 AATAAAT
62193401 ACAAACATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAATCAATAAAAATAAAT
Found at i:62196022 original size:29 final size:29
Alignment explanation
Indices: 62195955--62196045 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
62195945 ATATCAAAAC
* * *
62195955 TATACATGAACTTTGATCTAATGTGTAATGT
1 TATACATGAACTTTGAT-T-TTGTTTAATTT
*
62195986 TGTACATGAACTTTGATTTTGTTTAATTT
1 TATACATGAACTTTGATTTTGTTTAATTT
* * *
62196015 TATACATGAAATTTTAATTTGATTTAATTT
1 TATACATGAACTTTGATTTTG-TTTAATTT
62196045 T
1 T
62196046 TGCAAAACAC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 25 0.49
30 10 0.20
31 16 0.31
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.51
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTTTAATTT
Found at i:62196610 original size:24 final size:23
Alignment explanation
Indices: 62196579--62196636 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
62196569 AAGTTTTTTA
62196579 AATTTTAATTAATTAAAAAATT-AT
1 AATTTTAATT--TTAAAAAATTAAT
*
62196603 AATTTTAATCTTTAAAAATTTAAT
1 AATTTTAAT-TTTAAAAAATTAAT
62196627 AA-TTTAATTT
1 AATTTTAATTT
62196637 AAACATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 2 0.06
23 15 0.48
24 13 0.42
25 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTTAATTTTAAAAAATTAAT
Found at i:62196637 original size:21 final size:21
Alignment explanation
Indices: 62196587--62196649 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
62196577 TAAATTTTAA
*
62196587 TTAA-TTAAAAAATTATAATT
1 TTAATTTAAAAATTTATAATT
62196607 TTAATCTTTAAAAATTTAATAA-T
1 TTAA--TTTAAAAATTT-ATAATT
* *
62196630 TTAATTTAAACATTTTTAAT
1 TTAATTTAAAAATTTATAAT
62196650 ATAAAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
23 14 0.40
24 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTTAAAAATTTATAATT
Found at i:62201546 original size:22 final size:22
Alignment explanation
Indices: 62201504--62201548 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
62201494 TTTTCTAATC
*
62201504 TTTTAATATATTATATTATTTA
1 TTTTAATATATTATATAATTTA
*
62201526 TTTTTATATATTATGA-AATTTA
1 TTTTAATATATTAT-ATAATTTA
62201548 T
1 T
62201549 AGCACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTAATATATTATATAATTTA
Found at i:62203943 original size:44 final size:43
Alignment explanation
Indices: 62203881--62204005 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
62203871 GATTTTGATA
62203881 TGTGATTT-CATGTAAGACCATGTTTGGGACGTTGGCATCGATT
1 TGTGATTTACATGTAAGACCATGTTTGGGACGTTGGCATCGA-T
* * * *
62203924 TGTGATTTACGTGTAAGACCCTGTCTGGGATAG-TGGCATCGAT
1 TGTGATTTACATGTAAGACCATGTTTGGGA-CGTTGGCATCGAT
* * * *
62203967 AGTTGA-TTAAATGTAATACCACGTTTGGGACGTTGGCAT
1 TG-TGATTTACATGTAAGACCATGTTTGGGACGTTGGCAT
62204006 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.02
43 34 0.52
44 30 0.45
45 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.34
Consensus pattern (43 bp):
TGTGATTTACATGTAAGACCATGTTTGGGACGTTGGCATCGAT
Found at i:62205303 original size:17 final size:17
Alignment explanation
Indices: 62205281--62205315 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
62205271 ATTCTTTCAA
62205281 TATATTCACAATTTACT
1 TATATTCACAATTTACT
*
62205298 TATATTCACACTTTACT
1 TATATTCACAATTTACT
62205315 T
1 T
62205316 CTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATTCACAATTTACT
Found at i:62206038 original size:15 final size:15
Alignment explanation
Indices: 62206018--62206046 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62206008 TTCGTTCCCA
62206018 CATTCTGTTTCTTTT
1 CATTCTGTTTCTTTT
62206033 CATTCTGTTTCTTT
1 CATTCTGTTTCTTT
62206047 CCTTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CATTCTGTTTCTTTT
Found at i:62206274 original size:21 final size:22
Alignment explanation
Indices: 62206221--62206277 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
62206211 CAATTTAAAT
*
62206221 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
62206243 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
62206264 AATAATAATAATAA
1 AATAATAATAATAA
62206278 TTTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:62210200 original size:13 final size:13
Alignment explanation
Indices: 62210182--62210209 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62210172 TTGATTTTTG
62210182 TTGTTAGTTATTA
1 TTGTTAGTTATTA
62210195 TTGTTAGTTATTA
1 TTGTTAGTTATTA
62210208 TT
1 TT
62210210 ATTGTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTTAGTTATTA
Found at i:62210208 original size:16 final size:16
Alignment explanation
Indices: 62210149--62210215 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 16
62210139 TGTTTTTGCT
62210149 GTTATTATTATTGTTGA
1 GTTATTATTATTGTT-A
* *
62210166 TTTTTATTGATTTTTGTT-
1 --GTTATT-ATTATTGTTA
62210184 GTTAGTTATTATTGTTA
1 GTTA-TTATTATTGTTA
62210201 GTTATTATTATTGTT
1 GTTATTATTATTGTT
62210216 TGTAAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
16 22 0.54
17 6 0.15
19 5 0.12
20 8 0.20
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (16 bp):
GTTATTATTATTGTTA
Done.