Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 127 of 292
Found at i:37804928 original size:96 final size:96
Alignment explanation
Indices: 37804764--37804940 Score: 275
Period size: 96 Copynumber: 1.8 Consensus size: 96
37804754 GTAAATTGTT
* *
37804764 GATGCCATATCCCAGACATTGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
* *
37804829 ATGGTCTTATACTAGCTCTCGTCTCAATGCC
66 ATGGTCTAACACTAGCTCTCGTCTCAATGCC
* * *
37804860 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGA
1 GATGCCATATCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATGTCCCAGA
37804924 CATGGTCTAACACTAGC
65 CATGGTCTAACACTAGC
37804941 ACACCTATCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (96 bp):
GATGCCATATCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTAACACTAGCTCTCGTCTCAATGCC
Found at i:37805242 original size:7 final size:7
Alignment explanation
Indices: 37805230--37805267 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
37805220 AATTTATTTA
37805230 TTTAGGG
1 TTTAGGG
37805237 TTTAGGG
1 TTTAGGG
**
37805244 TTTATAG
1 TTTAGGG
37805251 TTTAGGG
1 TTTAGGG
37805258 TTTAGGG
1 TTTAGGG
37805265 TTT
1 TTT
37805268 GTAGTAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:37805255 original size:21 final size:21
Alignment explanation
Indices: 37805230--37805272 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37805220 AATTTATTTA
37805230 TTTAGGGTTTAGGGTTTATAG
1 TTTAGGGTTTAGGGTTTATAG
*
37805251 TTTAGGGTTTAGGGTTTGTAG
1 TTTAGGGTTTAGGGTTTATAG
37805272 T
1 T
37805273 AACCCTAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTATAG
Found at i:37808668 original size:39 final size:39
Alignment explanation
Indices: 37808614--37808924 Score: 514
Period size: 39 Copynumber: 8.0 Consensus size: 39
37808604 AAGACACTGA
*
37808614 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
37808653 AAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
37808692 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
37808731 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* * *
37808770 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTACTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
37808809 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
37808848 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
** *
37808887 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTG
37808925 ATAATAATAC
Statistics
Matches: 256, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 256 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:37812184 original size:30 final size:30
Alignment explanation
Indices: 37812121--37812184 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
37812111 GGGGTAGACC
* *
37812121 TGTGTCACACACGGCCTAGACCCACCTCTG
1 TGTGTCACACACGGCCTAGACACAACTCTG
37812151 TGTGTCACACACGGCCTAGACACATACTC-G
1 TGTGTCACACACGGCCTAGACACA-ACTCTG
37812181 TGTG
1 TGTG
37812185 GACAAAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (30 bp):
TGTGTCACACACGGCCTAGACACAACTCTG
Found at i:37813114 original size:48 final size:48
Alignment explanation
Indices: 37812972--37813228 Score: 202
Period size: 48 Copynumber: 5.4 Consensus size: 48
37812962 AATGCCAATT
* * ** * *
37812972 CCATATCCCAGACATCGTCTTACACTGGCTCAT-ATGTCGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAACGTGGTCGATG
* * * * *
37813020 CCATGT-CCAAACATGGCCTTACACTAGCTCTTATCTTAA--T-GCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTC---TCATAACGTGGTCGATG
* * *
37813067 CCATGTCCCAAATATGGTCTTACATTGGCTCTCATAACGTGGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGTCGATG
* * * * ***
37813115 ACATGTCCCAGACATGGTCTTACACTAG-TACCCATATCAACGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCT-CTCATAACGTGGTCGATG
* * * *
37813163 CCATGTACCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGTCGATG
37813211 CCATGTCCCAGACATGGT
1 CCATGTCCCAGACATGGT
37813229 TTTATACTAG
Statistics
Matches: 163, Mismatches: 37, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
45 5 0.03
47 35 0.21
48 119 0.73
49 3 0.02
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGTCGATG
Found at i:37813180 original size:96 final size:96
Alignment explanation
Indices: 37813062--37813238 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
37813052 ATCTTAATGC
* * * * *
37813062 CGATGCCATGTCCCAAATATGGTCTTACATTGGCTCTCATAACGTGGTCGATGACATGTCCCAGA
1 CGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGACATGTCCCAGA
37813127 CATGGTCTTACACTAGTACCCATATCAACGT
66 CATGGTCTTACACTAGTACCCATATCAACGT
* * *
37813158 CGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCCATGTCCCAGA
1 CGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGACATGTCCCAGA
* *
37813223 CATGGTTTTATACTAG
66 CATGGTCTTACACTAG
37813239 CACACCTATC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGACATGTCCCAGA
CATGGTCTTACACTAGTACCCATATCAACGT
Found at i:37813249 original size:96 final size:96
Alignment explanation
Indices: 37812983--37813249 Score: 261
Period size: 96 Copynumber: 2.8 Consensus size: 96
37812973 CATATCCCAG
* ** * * * * *
37812983 ACATCGTCTTACACTGGCTCAT-ATGTCGAGGCCGATGCCATGT-CCAAACATGGCCTTACACTA
1 ACATGGTCTTACACTGGCTC-TCATAACGTGGCCAATGACATGTCCCAGACATGGTCTTACACTA
* ** * * * * *
37813046 GCTCTTATCTTAATGCCGATGCCATGTCCCAA
65 GCACCCATATCAACGTCGATGCCATGTACCAA
* * * *
37813078 ATATGGTCTTACATTGGCTCTCATAACGTGGTCGATGACATGTCCCAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGACATGTCCCAGACATGGTCTTACACTAG
* *
37813143 TACCCATATCAACGTCGATGCCATGTACCAG
66 CACCCATATCAACGTCGATGCCATGTACCAA
* * * *
37813174 ACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCCATGTCCCAGACATGGTTTTATACTAG
1 ACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGACATGTCCCAGACATGGTCTTACACTAG
37813239 CACACC-TATCA
66 CAC-CCATATCA
37813250 CCCAAATGTC
Statistics
Matches: 140, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
94 1 0.01
95 33 0.24
96 104 0.74
97 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
ACATGGTCTTACACTGGCTCTCATAACGTGGCCAATGACATGTCCCAGACATGGTCTTACACTAG
CACCCATATCAACGTCGATGCCATGTACCAA
Found at i:37814800 original size:52 final size:52
Alignment explanation
Indices: 37814671--37814880 Score: 210
Period size: 52 Copynumber: 4.1 Consensus size: 52
37814661 TTTTTATGAG
* * * ** * *
37814671 AAAAATGTCTTCATTCTTTGAAACCATCCATGGTCATGCATTTGAATGGGAA
1 AAAAATGTATTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAA
* * *
37814723 AAAAACTATTTTCATGCATTGAAACCATCCATTCTCATGTATTTGAATGAGAA
1 AAAAA-TGTATTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAA
* *
37814776 AAAAATGTATTCATGCACTGAAACCATCCATACTTATGTATTTGAATGAGAA
1 AAAAATGTATTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAA
** * * * * *
37814828 AAAGGTCTA-T-ATGCATTGAAACCCTCTATGCTTCA-ATATTTGAATGAGAA
1 AAAAATGTATTCATGCATTGAAACCATCCATAC-TCATGTATTTGAATGAGAA
37814878 AAA
1 AAA
37814881 CATCTCTATA
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
50 34 0.25
51 3 0.02
52 53 0.40
53 44 0.33
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (52 bp):
AAAAATGTATTCATGCATTGAAACCATCCATACTCATGTATTTGAATGAGAA
Found at i:37814949 original size:19 final size:19
Alignment explanation
Indices: 37814911--37814977 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
37814901 GTCCATGTTT
* *
37814911 CATGCTTAAAAGCTTCCATC
1 CATGCTTGAAA-CGTCCATC
*
37814931 CATGCTTGAAATGTCCATC
1 CATGCTTGAAACGTCCATC
*
37814950 TATGCTTGAAACGTCCATC
1 CATGCTTGAAACGTCCATC
37814969 CATGCTTGA
1 CATGCTTGA
37814978 TGCTTGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 31 0.76
20 10 0.24
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGCTTGAAACGTCCATC
Found at i:37818232 original size:29 final size:28
Alignment explanation
Indices: 37818190--37818250 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
37818180 CCCTCAATTC
*
37818190 TTCTTTCTAGCTCATTCTCTCTCTTTT-TT
1 TTCTCTCTAGCTCATT-T-TCTCTTTTCTT
*
37818219 TTCTCTCTTGCTCATTTTCTCTTTTCTT
1 TTCTCTCTAGCTCATTTTCTCTTTTCTT
37818247 TTCT
1 TTCT
37818251 TTTTTCTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.28
28 7 0.24
29 14 0.48
ACGTcount: A:0.05, C:0.28, G:0.03, T:0.64
Consensus pattern (28 bp):
TTCTCTCTAGCTCATTTTCTCTTTTCTT
Found at i:37820574 original size:97 final size:97
Alignment explanation
Indices: 37820396--37820581 Score: 239
Period size: 97 Copynumber: 1.9 Consensus size: 97
37820386 ATGGAATATA
* * * *
37820396 TTTTGACAAAAGAAAATTTTCAGTTCCTCCAAACCACACCAAAAGTTGTAAAATGGCTTCAAAAA
1 TTTTGACAAAAGAAAATTTTCACTACCACCAAACCACACCAAAAGTTGTAAAATGACTTCAAAAA
* * *
37820461 CACTAATCACATAAGAAATTTTTTATTGCAAT
66 CACTAAACACACAAGAAAATTTTTATTGCAAT
* * *** *
37820493 TTTTTACAAAAGAAAATTTTTACTACCACCAAATTGCACCAAAAGATT-TAAAATGACTTCAATA
1 TTTTGACAAAAGAAAATTTTCACTACCACCAAACCACACCAAAAG-TTGTAAAATGACTTCAAAA
37820557 ACACTAAACACACAAGAAAATTTTT
65 ACACTAAACACACAAGAAAATTTTT
37820582 GCTACCGTTC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
97 73 0.97
98 2 0.03
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.30
Consensus pattern (97 bp):
TTTTGACAAAAGAAAATTTTCACTACCACCAAACCACACCAAAAGTTGTAAAATGACTTCAAAAA
CACTAAACACACAAGAAAATTTTTATTGCAAT
Found at i:37823066 original size:40 final size:40
Alignment explanation
Indices: 37822874--37823059 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
37822864 TCGAATGATG
* * * *
37822874 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
37822914 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
37822954 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
37822994 TTCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37823035 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37823060 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37824645 original size:29 final size:29
Alignment explanation
Indices: 37824613--37824705 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
37824603 AAAGTCTATG
37824613 TTCATGTATTTGAATGAGAAAAAATTGTC
1 TTCATGTATTTGAATGAGAAAAAATTGTC
* * * *
37824642 TTCATGTTCATTCT---T-TGAAAAAGTCTATG
1 TTCATG-T-ATT-TGAATGAGAAAAAAT-TGTC
37824671 TTCATGTATTTGAATGAGAAAAAATTGTC
1 TTCATGTATTTGAATGAGAAAAAATTGTC
37824700 TTCATG
1 TTCATG
37824706 CATTGAAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 8 0.17
29 24 0.50
30 8 0.17
31 3 0.06
32 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (29 bp):
TTCATGTATTTGAATGAGAAAAAATTGTC
Found at i:37824680 original size:58 final size:58
Alignment explanation
Indices: 37824590--37824705 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
37824580 GAAAAATGTT
37824590 TTCATTCTTTGAAAAAGTCTATGTTCATGTATTTGAATGAGAAAAAATTGTCTTCATG
1 TTCATTCTTTGAAAAAGTCTATGTTCATGTATTTGAATGAGAAAAAATTGTCTTCATG
37824648 TTCATTCTTTGAAAAAGTCTATGTTCATGTATTTGAATGAGAAAAAATTGTCTTCATG
1 TTCATTCTTTGAAAAAGTCTATGTTCATGTATTTGAATGAGAAAAAATTGTCTTCATG
37824706 CATTGAAACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (58 bp):
TTCATTCTTTGAAAAAGTCTATGTTCATGTATTTGAATGAGAAAAAATTGTCTTCATG
Found at i:37824729 original size:52 final size:54
Alignment explanation
Indices: 37824566--37824745 Score: 187
Period size: 58 Copynumber: 3.4 Consensus size: 54
37824556 ACCCATGCAA
* * **
37824566 ATGTATTTGGATGAG-AAAAA-TGTTTTCAT-TC-TTTGAAAAAGTCTATGTTC
1 ATGTATTTGAATGAGAAAAAATTGTCTTCATGTCATTTGAAAAAGTCTATGCCC
**
37824616 ATGTATTTGAATGAGAAAAAATTGTCTTCATGTTCATTCTTTGAAAAAGTCTATGTTC
1 ATGTATTTGAATGAGAAAAAATTGTCTTCATG-TCA---TTTGAAAAAGTCTATGCCC
*
37824674 ATGTATTTGAATGAGAAAAAATTGTCTTCATG-CA-TTGAAACCA-TAC-ATGCCC
1 ATGTATTTGAATGAGAAAAAATTGTCTTCATGTCATTTGAAA-AAGT-CTATGCCC
37824726 ATGTATTTGAATGAGAAAAA
1 ATGTATTTGAATGAGAAAAA
37824746 CATCTTTTTG
Statistics
Matches: 115, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
50 14 0.12
51 5 0.04
52 39 0.34
53 2 0.02
54 2 0.02
56 2 0.02
58 51 0.44
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (54 bp):
ATGTATTTGAATGAGAAAAAATTGTCTTCATGTCATTTGAAAAAGTCTATGCCC
Found at i:37824859 original size:19 final size:19
Alignment explanation
Indices: 37824758--37824861 Score: 91
Period size: 19 Copynumber: 5.2 Consensus size: 19
37824748 TCTTTTTGAA
37824758 TTGAAACTATCCATACTCCATGC
1 TTGAAAC-ATCCAT-CT--ATGC
* *
37824781 TTGAAATCATCCATCTTTAC
1 TTGAAA-CATCCATCTATGC
* * *
37824801 TTGAAACATCCATATTTGT
1 TTGAAACATCCATCTATGC
*
37824820 TTGAAACATCCATCTACGC
1 TTGAAACATCCATCTATGC
* *
37824839 TTGAAACACCCATCCATGC
1 TTGAAACATCCATCTATGC
37824858 TTGA
1 TTGA
37824862 TGCTTGAAGA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
19 45 0.66
20 8 0.12
22 2 0.03
23 12 0.18
24 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (19 bp):
TTGAAACATCCATCTATGC
Found at i:37827304 original size:26 final size:26
Alignment explanation
Indices: 37827275--37827340 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
37827265 TCTGACCCAC
*
37827275 AGCTCGTGTGAGTAGGCCTATTTCAT
1 AGCTCGTGTGAGCAGGCCTATTTCAT
* *
37827301 AGCTGGTGTGAGCAGGCTTATTTCAT
1 AGCTCGTGTGAGCAGGCCTATTTCAT
*
37827327 AGCTCGTGTAAGCA
1 AGCTCGTGTGAGCA
37827341 ATAATGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCTATTTCAT
Found at i:37829246 original size:27 final size:28
Alignment explanation
Indices: 37829179--37829249 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
37829169 TTGGCTGGAG
* *
37829179 CTAAAACATATTAAAATTATGTAATAGG
1 CTAAGACATATTAAAATTATGTAATAGA
* * *
37829207 CTAAGAAAAATTAATAA-TATGTATTA-A
1 CTAAGACATATTAA-AATTATGTAATAGA
37829234 CTAAGACATATTAAAA
1 CTAAGACATATTAAAA
37829250 ACATGCATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.06
27 12 0.34
28 19 0.54
29 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (28 bp):
CTAAGACATATTAAAATTATGTAATAGA
Found at i:37845383 original size:40 final size:40
Alignment explanation
Indices: 37845301--37845505 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
37845291 TATTCGGATG
* *
37845301 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
37845340 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
37845380 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* * *
37845420 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
37845460 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
37845500 ATATCC
1 ATATCC
37845506 AGCTAAATCT
Statistics
Matches: 147, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 27 0.18
40 115 0.78
41 5 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:37845450 original size:80 final size:80
Alignment explanation
Indices: 37845301--37845505 Score: 315
Period size: 80 Copynumber: 2.6 Consensus size: 80
37845291 TATTCGGATG
* *
37845301 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
*
37845364 AGTTGTGCTATTGACT
65 AGTTGTGCTAGTGACT
* * *
37845380 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTGCTATATCCGGGCTAAGTCCTGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
37845445 TTTGTGCTAGTGACT
66 GTTGTGCTAGTGACT
*
37845460 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC
37845506 AGCTAAATCT
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 25 0.22
80 88 0.77
81 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
GTTGTGCTAGTGACT
Found at i:37848101 original size:15 final size:14
Alignment explanation
Indices: 37848078--37848113 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
37848068 AAATAATCCA
*
37848078 AATAAAAATGAATT
1 AATAAAAATGAATG
37848092 AATAAGAAATGAATG
1 AATAA-AAATGAATG
37848107 AATAAAA
1 AATAAAA
37848114 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:37849378 original size:24 final size:24
Alignment explanation
Indices: 37849351--37849486 Score: 134
Period size: 24 Copynumber: 5.7 Consensus size: 24
37849341 GAAATGACTT
*
37849351 TGGCACTGTGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
37849375 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
37849399 CGGCACTATGTGTGTGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
37849423 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
37849447 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
37849472 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
37849487 GGTAAACATG
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
24 87 0.96
25 3 0.03
26 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:37849476 original size:72 final size:72
Alignment explanation
Indices: 37849351--37849484 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 72
37849341 GAAATGACTT
* * * ** *
37849351 TGGCACTGTGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGCACTATGTGTGTGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGTGG
37849416 ATTTATA
66 ATTTATA
* * *
37849423 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTG
37849485 CGGGTAAACA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.36
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGTGG
ATTTATA
Found at i:37849498 original size:72 final size:72
Alignment explanation
Indices: 37849351--37849512 Score: 180
Period size: 72 Copynumber: 2.2 Consensus size: 72
37849341 GAAATGACTT
* * * ** * *
37849351 TGGCACTGTGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGCACTATGTGTGTGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
** *
37849416 ATTTATA
66 ATAAACA
* * *
37849423 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
*
37849488 GTAAACA
66 ATAAACA
* *
37849495 TGGCACTTTGGGTGCGAA
1 TGGCACTATGTGTGCGAA
37849513 ATTCCTTGCT
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.33
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
ATAAACA
Found at i:37856081 original size:15 final size:14
Alignment explanation
Indices: 37856058--37856093 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
37856048 AAATAATCCA
*
37856058 AATAAAAATGAATT
1 AATAAAAATGAATG
37856072 AATAAGAAATGAATG
1 AATAA-AAATGAATG
37856087 AATAAAA
1 AATAAAA
37856094 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:37858723 original size:20 final size:20
Alignment explanation
Indices: 37858663--37858723 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
37858653 ATAAATATGG
*
37858663 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
37858683 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
37858703 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
37858723 T
1 T
37858724 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:37858799 original size:24 final size:24
Alignment explanation
Indices: 37858772--37858957 Score: 251
Period size: 24 Copynumber: 8.0 Consensus size: 24
37858762 GGAGGAAGTG
*
37858772 AAAAAGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
37858796 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
37858820 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
37858844 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
37858867 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
37858889 -AAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
37858911 GAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
37858934 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
37858958 ATGATAAAGC
Statistics
Matches: 152, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
21 21 0.14
22 9 0.06
23 40 0.26
24 74 0.49
25 8 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:37859208 original size:30 final size:31
Alignment explanation
Indices: 37859148--37859210 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
37859138 CGTTTACAGT
37859148 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
37859179 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
37859209 AA
1 AA
37859211 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:37866861 original size:11 final size:11
Alignment explanation
Indices: 37866825--37866881 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
37866815 TATGGTATGT
37866825 ATGATATGCAC
1 ATGATATGCAC
* *
37866836 ATGACATG--T
1 ATGATATGCAC
37866845 ATGATATGCAC
1 ATGATATGCAC
*
37866856 ATGATATG--T
1 ATGATATGCAC
37866865 ATGATATGCAC
1 ATGATATGCAC
37866876 ATGATA
1 ATGATA
37866882 ATCATAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:37866880 original size:20 final size:20
Alignment explanation
Indices: 37866820--37866881 Score: 115
Period size: 20 Copynumber: 3.1 Consensus size: 20
37866810 ATAAATATGG
37866820 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
37866840 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
37866860 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
37866880 TA
1 TA
37866882 ATCATAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:37866955 original size:24 final size:23
Alignment explanation
Indices: 37866928--37867093 Score: 237
Period size: 24 Copynumber: 7.0 Consensus size: 23
37866918 GAGGAAGTGA
37866928 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
37866951 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
37866975 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
37866999 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
37867022 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
37867045 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
37867069 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
37867093 A
1 A
37867094 TGATAAAGCA
Statistics
Matches: 134, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.16
23 24 0.18
24 79 0.59
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:37867050 original size:69 final size:70
Alignment explanation
Indices: 37866928--37867093 Score: 246
Period size: 69 Copynumber: 2.3 Consensus size: 70
37866918 GAGGAAGTGA
37866928 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT--AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
37866993 AGTTA-T
64 AGTTATT
** *
37866999 AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
37867064 TTATT
66 TTATT
*
37867069 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
37867094 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
69 42 0.48
70 11 0.12
71 35 0.40
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATT
Found at i:37867342 original size:30 final size:31
Alignment explanation
Indices: 37867282--37867344 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
37867272 CGTTTACAGT
37867282 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
37867313 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
37867343 AA
1 AA
37867345 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:37868541 original size:24 final size:24
Alignment explanation
Indices: 37868513--37868648 Score: 150
Period size: 24 Copynumber: 5.7 Consensus size: 24
37868503 GAAATGACTT
*
37868513 TGGCACTATGTGTACGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
37868537 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
37868561 CGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
37868585 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
37868609 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
37868634 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
37868649 GGTAAACATG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
24 92 0.97
25 2 0.02
26 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:37868638 original size:72 final size:72
Alignment explanation
Indices: 37868513--37868649 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
37868503 GAAATGACTT
* * ** *
37868513 TGGCACTATGTGTACGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGCACTATGTGTGCGG
1 TGGCACTATGTGTACGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
37868578 ATTTGTA
66 ATTTGTA
* * * *
37868585 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTACGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
37868650 GTAAACATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (72 bp):
TGGCACTATGTGTACGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
ATTTGTA
Found at i:37868660 original size:72 final size:72
Alignment explanation
Indices: 37868513--37868674 Score: 180
Period size: 72 Copynumber: 2.2 Consensus size: 72
37868503 GAAATGACTT
* * * ** *
37868513 TGGCACTATGTGTACGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
****
37868578 ATTTGTA
66 ATAAACA
* * *
37868585 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
*
37868650 GTAAACA
66 ATAAACA
* *
37868657 TGGCACTTTGGGTGCGAA
1 TGGCACTATGTGTGCGAA
37868675 ATTCCTTGCT
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
ATAAACA
Found at i:37873190 original size:64 final size:64
Alignment explanation
Indices: 37873082--37873202 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
37873072 CAAGCACAAT
* ** * * *
37873082 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCGCACGAA
* * *
37873146 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 TGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGC
37873203 CCGGGTATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (64 bp):
TGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCGCACGAA
Found at i:37881197 original size:40 final size:40
Alignment explanation
Indices: 37881137--37881300 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
37881127 CGGGATTTAA
* ** *
37881137 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
37881177 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
37881217 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
37881257 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
37881297 CCGG
1 CCGG
37881301 TATCATTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:37881284 original size:80 final size:80
Alignment explanation
Indices: 37881123--37881300 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
37881113 GAGTCACGTA
* * * * **
37881123 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
37881187 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
37881202 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
37881266 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
37881282 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37881301 TATCATTCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:37885556 original size:113 final size:113
Alignment explanation
Indices: 37885428--37885654 Score: 377
Period size: 113 Copynumber: 2.0 Consensus size: 113
37885418 TTTATGTTGG
*
37885428 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAA-AAAATAATTTGTTTTTATATTTA
1 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAGAAAATAA-AT-TTTTTATATTTA
*
37885492 ATATA-TTTTTTAATTTCAAAATACATAGTGACAAAAACCAGAAGATATT
64 ATATATTTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
* *
37885541 TATCAATTTCACATTTTATCTTTAAGATAACTTTTTATTAAGAAATTAAATTTTTTATATTTAAT
1 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAGAAAATAAATTTTTTATATTTAAT
*
37885606 ATATTTTTTTAATTTCAAAATACATAGTAACAAAAATCAGAAGATATT
66 ATATTTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
37885654 T
1 T
37885655 GAAGCAACTA
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
112 17 0.16
113 84 0.79
114 6 0.06
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (113 bp):
TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAGAAAATAAATTTTTTATATTTAAT
ATATTTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
Found at i:37888381 original size:5 final size:5
Alignment explanation
Indices: 37888371--37888396 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37888361 AAGTTAGAAA
37888371 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
37888397 TTCCCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:37889366 original size:13 final size:13
Alignment explanation
Indices: 37889348--37889373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37889338 AGAATTTTGT
37889348 ATATCTGAATCTG
1 ATATCTGAATCTG
37889361 ATATCTGAATCTG
1 ATATCTGAATCTG
37889374 GATCTGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
ATATCTGAATCTG
Found at i:37890969 original size:18 final size:18
Alignment explanation
Indices: 37890943--37890980 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37890933 TTGAATCGAA
* *
37890943 CTTGGGACCTCTCTCACT
1 CTTGAGACCTCTCGCACT
37890961 CTTGAGACCTCTCGCACT
1 CTTGAGACCTCTCGCACT
37890979 CT
1 CT
37890981 AAGTGAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.39, G:0.16, T:0.32
Consensus pattern (18 bp):
CTTGAGACCTCTCGCACT
Found at i:37894709 original size:39 final size:40
Alignment explanation
Indices: 37894652--37894844 Score: 266
Period size: 40 Copynumber: 4.9 Consensus size: 40
37894642 CCTAGTTATA
* *
37894652 GTAATTCGCACAATTGCCTTCGGGACTTAACCCGG-TTTG
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
37894691 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
37894731 GTAACTCGCACAAATGCCTTCGGGA-TT-ACCCGGTTTTG
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
* * * *
37894769 GTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTA
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
* * * *
37894809 GTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 GTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGG
37894845 ATACCATTCG
Statistics
Matches: 140, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 36 0.26
39 37 0.26
40 42 0.30
41 25 0.18
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
Found at i:37894792 original size:78 final size:78
Alignment explanation
Indices: 37894650--37894844 Score: 266
Period size: 78 Copynumber: 2.5 Consensus size: 78
37894640 AGCCTAGTTA
* *
37894650 TAGTAATTCGCACAATTGCCTTCGGGACTTAACCCGGTTTGGTAACTCGCACAAATGCCTTCGGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTT-ACCCGGTTTGGTAACTCGCACAAATGCCTTCGGG
* *
37894715 ACTTAACCCGGTTT
65 AATTAACCCGGATT
*
37894729 TGGTAACTCGCACAAATGCCTTCGGGA-TTACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTACCCGG-TTTGGTAACTCGCACAAATGCCTTCGGG
*
37894793 AATTGACCCGGATT
65 AATTAACCCGGATT
* * *
37894807 TAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTA-CCCGG
37894845 ATACCATTCG
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
77 6 0.06
78 46 0.45
79 42 0.41
80 3 0.03
81 5 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (78 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTACCCGGTTTGGTAACTCGCACAAATGCCTTCGGGA
ATTAACCCGGATT
Found at i:37902706 original size:39 final size:40
Alignment explanation
Indices: 37902658--37902825 Score: 139
Period size: 39 Copynumber: 4.3 Consensus size: 40
37902648 GACTCGCTCG
* * *
37902658 ATTGTCTTCGGGACATAGCCC-GTTATAGTAATTCACACA
1 ATTGCCTTCGGGACATAACCCGGTTATAGTAACTCACACA
* * * *
37902697 ATTGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATAACCCGGTTATAGTAACTCACACA
* * * * *
37902737 AATGCCTTC-GGACTTAACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATAACCCGGTTATAGTAACTCACACA
* * * * *
37902776 AATGCCTTC-GG--ATTACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATAACCCGGTTATAGTAACTCACACA
*
37902813 AATGCCTTCGGGA
1 ATTGCCTTCGGGA
37902826 ATTGACCCGA
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
37 33 0.28
38 2 0.02
39 59 0.51
40 22 0.19
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAACCCGGTTATAGTAACTCACACA
Found at i:37902743 original size:40 final size:40
Alignment explanation
Indices: 37902693--37902875 Score: 241
Period size: 39 Copynumber: 4.7 Consensus size: 40
37902683 TAGTAATTCA
*
37902693 CACAATTGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
37902733 CACAAATGCCTTC-GGACTTAACCCGGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
37902772 CACAAATGCCTTC-GGA-TT-ACCCGGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
* * * * * *
37902809 CACAAATGCCTTCGGGAATTGACCC-GATTTAGTCACTTAG
1 CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC-TCG
* *
37902849 CACAAAAGCCTTCGGGACTTAGCCCGG
1 CACAAATGCCTTCGGGACTTAACCCGG
37902876 ATACCATTCG
Statistics
Matches: 129, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
37 32 0.25
38 5 0.04
39 52 0.40
40 39 0.30
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
Found at i:37906585 original size:55 final size:57
Alignment explanation
Indices: 37906513--37906632 Score: 165
Period size: 56 Copynumber: 2.2 Consensus size: 57
37906503 CGTGTCCAAC
* *
37906513 ACTGACTT-TAGGACACGGCCATGACGCAC-ACCCGTGTGGCCTACCCGTGGACAAT
1 ACTGACTTATAGGACACGGCCATGACACACGACCCGTGTAGCCTACCCGTGGACAAT
* * * *
37906568 ACTGACTTATA-GACACGGCTATGGCACACGCCCCGTGTAGCCTACCTGTGGACAAT
1 ACTGACTTATAGGACACGGCCATGACACACGACCCGTGTAGCCTACCCGTGGACAAT
37906624 ACTGACTTA
1 ACTGACTTA
37906633 AAAGTTTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
55 23 0.40
56 34 0.60
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (57 bp):
ACTGACTTATAGGACACGGCCATGACACACGACCCGTGTAGCCTACCCGTGGACAAT
Found at i:37909001 original size:16 final size:16
Alignment explanation
Indices: 37908966--37909008 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
37908956 GTAGATCAGC
* *
37908966 AAAAGCCGAAATGCCG
1 AAAAGCCAAAATGCCA
*
37908982 AAAAGCCAAAATGCTA
1 AAAAGCCAAAATGCCA
*
37908998 AAAAGCTAAAA
1 AAAAGCCAAAA
37909009 GTTTGACTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (16 bp):
AAAAGCCAAAATGCCA
Found at i:37909302 original size:28 final size:28
Alignment explanation
Indices: 37909220--37909309 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 28
37909210 TGAGCATGAC
37909220 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
*
37909249 TATAAATATGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
37909278 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
37909306 TATA
1 TATA
37909310 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:37920437 original size:29 final size:29
Alignment explanation
Indices: 37920405--37920488 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
37920395 TAGCCTAGAC
37920405 GGGCCATATGAATGTGAATTGGGCCTAAT
1 GGGCCATATGAATGTGAATTGGGCCTAAT
* * *
37920434 GGGCCATATGAACGTGAATTGGGTCGAAT
1 GGGCCATATGAATGTGAATTGGGCCTAAT
* * *
37920463 GGACCATATAAATGAG-ATTGGGCCTA
1 GGGCCATATGAATGTGAATTGGGCCTA
37920489 GAGGGCTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 8 0.17
29 38 0.83
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (29 bp):
GGGCCATATGAATGTGAATTGGGCCTAAT
Found at i:37921194 original size:21 final size:18
Alignment explanation
Indices: 37921168--37921220 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 18
37921158 CACATGTATA
37921168 AATAATAAATAAGTATTATTT
1 AATAATAAATAA-TATTA--T
37921189 AATAATAATATAATATTAT
1 AATAATAA-ATAATATTAT
37921208 AATAGATAAATAA
1 AATA-ATAAATAA
37921221 AGAAACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 13 0.43
22 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AATAATAAATAATATTAT
Found at i:37921243 original size:15 final size:15
Alignment explanation
Indices: 37921223--37921252 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37921213 ATAAATAAAG
37921223 AAACAAAAGAAAGAA
1 AAACAAAAGAAAGAA
*
37921238 AAACAATAGAAAGAA
1 AAACAAAAGAAAGAA
37921253 CAGAACATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (15 bp):
AAACAAAAGAAAGAA
Found at i:37921292 original size:11 final size:11
Alignment explanation
Indices: 37921278--37921303 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37921268 AAATGGGGAG
37921278 AAAGAAAAGAA
1 AAAGAAAAGAA
37921289 AAAGAAAAGAA
1 AAAGAAAAGAA
37921300 AAAG
1 AAAG
37921304 GGAAAACTAG
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:37921927 original size:3 final size:3
Alignment explanation
Indices: 37921919--37921955 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
37921909 ATGGTAAGTT
37921919 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37921956 GGTATTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37925152 original size:3 final size:3
Alignment explanation
Indices: 37925144--37925176 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
37925134 AGATGTTTTA
37925144 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37925177 TAGTATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:37926525 original size:46 final size:45
Alignment explanation
Indices: 37926475--37926646 Score: 181
Period size: 45 Copynumber: 3.8 Consensus size: 45
37926465 TGGTTGAGCA
37926475 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * * *
37926521 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* *
37926566 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* *
37926612 CCCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
37926647 GGGGTGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 32 0.31
46 29 0.28
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:37928306 original size:8 final size:8
Alignment explanation
Indices: 37928293--37928318 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37928283 CTCAGGTGAA
37928293 GGCGCATG
1 GGCGCATG
37928301 GGCGCATG
1 GGCGCATG
37928309 GGCGCATG
1 GGCGCATG
37928317 GG
1 GG
37928319 TGGACGAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.54, T:0.12
Consensus pattern (8 bp):
GGCGCATG
Found at i:37933656 original size:21 final size:21
Alignment explanation
Indices: 37933605--37933669 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
37933595 TGGATACATT
*
37933605 TTTAATAATAATATACACATGTA
1 TTTAATAATAATATA-ATAT-TA
*
37933628 -TAAATAATAA-ATAAGTATTA
1 TTTAATAATAATATAA-TATTA
37933648 TTTAATAATAATATAATATTA
1 TTTAATAATAATATAATATTA
37933669 T
1 T
37933670 AATAGTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 20 0.56
22 13 0.36
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTAATAATAATATAATATTA
Found at i:37934386 original size:3 final size:3
Alignment explanation
Indices: 37934378--37934422 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
37934368 GATTGGTAAG
37934378 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37934423 GGTATTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37935336 original size:24 final size:24
Alignment explanation
Indices: 37935309--37935360 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
37935299 TAATGAAGAG
37935309 TAAATGGTTGAAGTATTAAGACTC
1 TAAATGGTTGAAGTATTAAGACTC
37935333 TAAATGGTTGAAGTATTAAGACTC
1 TAAATGGTTGAAGTATTAAGACTC
37935357 TAAA
1 TAAA
37935361 GTAATGCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (24 bp):
TAAATGGTTGAAGTATTAAGACTC
Found at i:37936522 original size:26 final size:27
Alignment explanation
Indices: 37936493--37936547 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
37936483 AAAACCGTAA
* *
37936493 TAAGGG-AAAAATTACCGAAATACCCC
1 TAAGGGCAAAAATGACCAAAATACCCC
37936519 TAAGGGCAAAAATGACCAAAATACCCC
1 TAAGGGCAAAAATGACCAAAATACCCC
37936546 TA
1 TA
37936548 TGTGTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.47, C:0.24, G:0.15, T:0.15
Consensus pattern (27 bp):
TAAGGGCAAAAATGACCAAAATACCCC
Found at i:37940198 original size:42 final size:43
Alignment explanation
Indices: 37940148--37940251 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
37940138 GAAGCCACTA
* * *
37940148 TCCCAGACAGGGTCTTACAC-GAATC-AATATACGATGTCAATG
1 TCCCAGACATGGTCTTACACAGAATCTAA-ATACAATGCCAATG
* *
37940190 TCCCAGACATGGTCTTACACATAATCTCAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACAGAATCTAAATACAATGCCAATG
*
37940233 TCCCAAACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
37940252 TTTAATCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
42 19 0.35
43 34 0.63
44 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACAGAATCTAAATACAATGCCAATG
Found at i:37942832 original size:26 final size:26
Alignment explanation
Indices: 37942795--37942852 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
37942785 TGATACAAAT
37942795 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
37942821 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
37942847 TGATAA
1 TGATAA
37942853 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:37944907 original size:137 final size:136
Alignment explanation
Indices: 37944641--37944922 Score: 512
Period size: 137 Copynumber: 2.1 Consensus size: 136
37944631 AGTCTTCCCA
*
37944641 AATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
1 AATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
*
37944706 TCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACCACTGT
66 TCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCGGAAAAGGGCTCTGGCCCAGTACCACTGT
37944771 TACCCT-
131 TA-CCTG
37944777 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
1 AATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
*
37944842 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCGGAAAAGGGCTCTGGCCCAGTACCACTG
65 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCGGAAAAGGGCTCTGGCCCAGTACCACTG
37944907 TTACCTG
130 TTACCTG
37944914 AATGGGCTT
1 AATGGGCTT
37944923 AGGCCTAATA
Statistics
Matches: 141, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
136 19 0.13
137 122 0.87
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (136 bp):
AATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
TCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCGGAAAAGGGCTCTGGCCCAGTACCACTGT
TACCTG
Found at i:37948546 original size:27 final size:28
Alignment explanation
Indices: 37948489--37948558 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
37948479 AAATTTGTAC
**
37948489 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
37948517 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
37948544 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37948559 GACTTATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:37968475 original size:40 final size:40
Alignment explanation
Indices: 37968416--37968583 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
37968406 CATTTGAATG
* * *
37968416 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
37968456 ATATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
37968496 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
37968536 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
37968576 ATATCCGG
1 ATATCCGG
37968584 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:37980594 original size:94 final size:94
Alignment explanation
Indices: 37980433--37980622 Score: 344
Period size: 94 Copynumber: 2.0 Consensus size: 94
37980423 CAAGAAGATG
* **
37980433 TAAAACCCATCCAGGTGAGCATTTAAGAAATTTTGGCTCACTGTTACAATGCTGAAGAAGATGAA
1 TAAAACCCATCCAGGTGAGCATTTAAGAAATTTTGGCTCACTGTTACAATACCAAAGAAGATGAA
*
37980498 GAAAAAGATGATCCCCCCTGGTACCACGA
66 GAAAAAGATGATCACCCCTGGTACCACGA
37980527 TAAAACCCATCCAGGTGAGCATTTAAGAAATTTTGGCTCACTGTTACAATACCAAAGAAGATGAA
1 TAAAACCCATCCAGGTGAGCATTTAAGAAATTTTGGCTCACTGTTACAATACCAAAGAAGATGAA
37980592 GAAAAAGATGATCACCCCTGGTACCACGA
66 GAAAAAGATGATCACCCCTGGTACCACGA
37980621 TA
1 TA
37980623 TATTGTGATA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (94 bp):
TAAAACCCATCCAGGTGAGCATTTAAGAAATTTTGGCTCACTGTTACAATACCAAAGAAGATGAA
GAAAAAGATGATCACCCCTGGTACCACGA
Found at i:37982709 original size:46 final size:46
Alignment explanation
Indices: 37982642--37982781 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
37982632 AGATCAAATT
* *
37982642 GATTGAAGAAGACACAAATCCTATACCCCTGAGTTACAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
* * *
37982688 GATTGAAAAAGATACAAATCCTATACCCCTAAGCTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
* * * *
37982734 GATTGAAGATGGTACAAATCTTATACCCTTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
37982780 GA
1 GA
37982782 AGAAACCACA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
Found at i:37983438 original size:97 final size:97
Alignment explanation
Indices: 37983272--37983452 Score: 258
Period size: 97 Copynumber: 1.9 Consensus size: 97
37983262 GTTGAAGTTA
* *
37983272 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGAGAATCTCATTTCCCTAAAAT
1 AAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGATAGAGAATCTCATCTCCCTAAAAT
37983337 TGCAGT-GAAACAGATTGAAGCTATAAATAAGC
66 TGCAGTAG-AACAGATTGAAGCTATAAATAAGC
* * * * *
37983369 AAGTCTTATCTCCCTAAAGTTGTAGTGGAATAGACTGAAGATAGCAG-ATCTTATCTCCCTGAAG
1 AAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGATAG-AGAATCTCATCTCCCTAAAA
*
37983433 TTGCAGTAGAGCAGATTGAA
65 TTGCAGTAGAACAGATTGAA
37983453 ACCATAATCC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
97 71 0.96
98 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (97 bp):
AAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGATAGAGAATCTCATCTCCCTAAAAT
TGCAGTAGAACAGATTGAAGCTATAAATAAGC
Found at i:37983535 original size:90 final size:89
Alignment explanation
Indices: 37983373--37983666 Score: 263
Period size: 90 Copynumber: 3.3 Consensus size: 89
37983363 ATAAGCAAGT
* * * * * * * * *
37983373 CTTATCTCCCTAAAGTTGTAGTGGAATAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTAGAACAGACTAAAAATAGCAAATCTTATCTCCCTGAAGTTGTA
*
37983438 GTAGAGCAGATTGAAACCATAATC
66 GTGGAGCAGATTGAAACCATAATC
* * * ** *
37983462 CTTATCTCTCTAAAGTTACAGTAGAGCAGGA-TAAAAATA-CAGAAATCTTATCTCTATAAAGTT
1 CTTATCTCTCTGAAGTTGCAGTAGAACA-GACTAAAAATAGC--AAATCTTATCTCCCTGAAGTT
* * *
37983525 GTAGTGGAGCAGACTGAAGATAGCA-AGT-
63 GTAGTGGAGCAGATTG-A-A-ACCATAATC
* * * * * *
37983553 CTTATCTCCCTGAAGTTGCAGTGGAACATACTGAAGATAGCAAATCTTATCTCCCTGAAGCTGTA
1 CTTATCTCTCTGAAGTTGCAGTAGAACAGACTAAAAATAGCAAATCTTATCTCCCTGAAGTTGTA
* *
37983618 GTGGAGCAAATCGAAACCATAATC
66 GTGGAGCAGATTGAAACCATAATC
37983642 CTTATCTCTCTGAAGTTGCAGTAGA
1 CTTATCTCTCTGAAGTTGCAGTAGA
37983667 TCTCCCTGAA
Statistics
Matches: 159, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
87 3 0.02
88 4 0.03
89 52 0.33
90 63 0.40
91 30 0.19
92 4 0.03
93 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (89 bp):
CTTATCTCTCTGAAGTTGCAGTAGAACAGACTAAAAATAGCAAATCTTATCTCCCTGAAGTTGTA
GTGGAGCAGATTGAAACCATAATC
Found at i:37983569 original size:45 final size:45
Alignment explanation
Indices: 37983366--37983625 Score: 224
Period size: 45 Copynumber: 5.8 Consensus size: 45
37983356 GCTATAAATA
* * **
37983366 AGCAAGTCTTATCTCCCTAAAGTTGTAGTGGAATAGACTGAAGAT
1 AGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT
* * * *
37983411 AGCAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-A-A-
1 AGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT
* * * * * *
37983453 ACCATAATCCTTATCTCTCTAAAGTTACAGTAGAGCAGGA-TAAAAAT
1 AGCA-AAT-CTTATCTCCCTAAAGTTGCAGTGGAGCA-GACTGAAGAT
** *
37983500 A-CAGAAATCTTATCTCTATAAAGTTGTAGTGGAGCAGACTGAAGAT
1 AGC--AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT
* * * *
37983546 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAACATACTGAAGAT
1 AGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT
* * *
37983591 AGCAAATCTTATCTCCCTGAAGCTGTAGTGGAGCA
1 AGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
37983626 AATCGAAACC
Statistics
Matches: 174, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 27 0.16
45 103 0.59
46 32 0.18
47 5 0.03
48 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
AGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT
Found at i:37983675 original size:21 final size:21
Alignment explanation
Indices: 37983645--37983684 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37983635 CATAATCCTT
*
37983645 ATCTCTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTAG
37983666 ATCTCCCTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGT
37983685 GGAGCAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (21 bp):
ATCTCCCTGAAGTTGCAGTAG
Found at i:37983720 original size:44 final size:45
Alignment explanation
Indices: 37983666--37983822 Score: 178
Period size: 45 Copynumber: 3.6 Consensus size: 45
37983656 GTTGCAGTAG
*** *
37983666 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TAGTAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAGTCTT
* *
37983710 ATCTTCCTGAAGTTGCAATGGAGCAAACTGAAGATAGCAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAGTCTT
* *
37983755 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC-AGATC-T
1 ATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAG-TCTT
* * *
37983799 -TCTCCCTGAAATTACATTGGAGCA
1 ATCTCCCTGAAGTTGCAGTGGAGCA
37983823 GACCAAAGCC
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
43 20 0.21
44 31 0.32
45 46 0.47
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAGTCTT
Found at i:37983767 original size:45 final size:45
Alignment explanation
Indices: 37983666--37983913 Score: 204
Period size: 44 Copynumber: 5.6 Consensus size: 45
37983656 GTTGCAGTAG
** *
37983666 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TAGTAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTT
* * *
37983710 ATCTTCCTGAAGTTGCAATGGAGCAAACTGAAGATAGCAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTT
*
37983755 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC-AGATC-T
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAG-TCTT
* * * ** **
37983799 -TCTCCCTGAAATTACATTGGAGCAGACCAAAGCCA-CAA-TCCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT-CTT
* * * * * * **
37983842 ATCTCTCTAAAGTTGCAGTAGAGCAGGA-TAAAAATACACAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGATA-GCAAGTCTT
*
37983888 ATCTCCCTGAAGTTACAGTGGAGCAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAG
37983914 GTTAAAGTTA
Statistics
Matches: 161, Mismatches: 33, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 29 0.18
44 53 0.33
45 49 0.30
46 27 0.17
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTT
Found at i:37983888 original size:46 final size:46
Alignment explanation
Indices: 37983832--37983919 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
37983822 AGACCAAAGC
* * *
37983832 CACAATCCTTATCTCTCTAAAGTTGCAGTAGAGCAGGATAAAAATA
1 CACAAACCTTATCTCCCTAAAGTTACAGTAGAGCAGGATAAAAATA
* * *
37983878 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAA
1 CACAAACCTTATCTCCCTAAAGTTACAGTAGAGCAGGATAAA
37983920 GTTACCAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (46 bp):
CACAAACCTTATCTCCCTAAAGTTACAGTAGAGCAGGATAAAAATA
Found at i:37984088 original size:44 final size:44
Alignment explanation
Indices: 37984006--37984141 Score: 137
Period size: 44 Copynumber: 3.1 Consensus size: 44
37983996 GGGGTAATTG
* * * *
37984006 AAGCTACAAGTCTAATCTTCCTGAAGTTGTAGTAAAGCAGATTA
1 AAGCTACAAGTCTAGTCTTCCTAAAGTTGCAGTGAAGCAGATTA
* * * *
37984050 AAGCTACAAGTCTAGCCTCCCTAAACTTGCAGTGAAGCATATTA
1 AAGCTACAAGTCTAGTCTTCCTAAAGTTGCAGTGAAGCAGATTA
* ** * * * *
37984094 AAGTTATGAGTCTAGTCTTTCTAAAGTTACAGTGGAGTAGATTA
1 AAGCTACAAGTCTAGTCTTCCTAAAGTTGCAGTGAAGCAGATTA
37984138 AAGC
1 AAGC
37984142 AATAAATCCT
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
AAGCTACAAGTCTAGTCTTCCTAAAGTTGCAGTGAAGCAGATTA
Found at i:37987009 original size:5 final size:5
Alignment explanation
Indices: 37986999--37987024 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37986989 TTTTTGGGAA
37986999 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
37987025 TTTCTAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:37989971 original size:112 final size:114
Alignment explanation
Indices: 37989746--37989973 Score: 379
Period size: 112 Copynumber: 2.0 Consensus size: 114
37989736 TAGTTGCTTC
*
37989746 AAATATCTTCTGATTTTTGTTACTATGTATTTTGAAATTAAAAAAAATATATTAAATATAAAAAA
1 AAATATCTTCTGATTTTTGTCACTATGTATTTTGAAATT-AAAAAAATATATTAAATATAAAAAA
*
37989811 ATTTGATGTCTTAATAAAAAGTTATCTTAAAGATAAAATGTGAAATTGAT
65 AATTGATGTCTTAATAAAAAGTTATCTTAAAGATAAAATGTGAAATTGAT
*
37989861 AAATATCTTCTGGTTTTTGTCACTATGTATTTTGAAATT-AAAAAATATATTAAATATAAAAAAA
1 AAATATCTTCTGATTTTTGTCACTATGTATTTTGAAATTAAAAAAATATATTAAATATAAAAAAA
* * *
37989925 ATT-ATTTTTTAATGAAAAGTTATCTTAAAGATAAAATGTGAAATTGAT
66 ATTGATGTCTTAATAAAAAGTTATCTTAAAGATAAAATGTGAAATTGAT
37989973 A
1 A
37989974 CCAACATAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
112 43 0.40
113 27 0.25
115 37 0.35
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (114 bp):
AAATATCTTCTGATTTTTGTCACTATGTATTTTGAAATTAAAAAAATATATTAAATATAAAAAAA
ATTGATGTCTTAATAAAAAGTTATCTTAAAGATAAAATGTGAAATTGAT
Found at i:37997008 original size:18 final size:18
Alignment explanation
Indices: 37996968--37997009 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
37996958 AATAAGTATA
37996968 AAATTAACCGAATTAATC
1 AAATTAACCGAATTAATC
* *
37996986 GAATTAACCTAATT-ATCC
1 AAATTAACCGAATTAAT-C
37997004 AAATTA
1 AAATTA
37997010 TTTGTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATTAACCGAATTAATC
Found at i:37997040 original size:6 final size:6
Alignment explanation
Indices: 37997029--37997081 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
37997019 AATTATATGT
* *
37997029 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
37997079 TTT
1 TTT
37997082 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:37997743 original size:5 final size:6
Alignment explanation
Indices: 37997706--37997744 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 6
37997696 TTTTCACATT
37997706 TAAAAGA TAAAAA TTAAAATA TAAAAA TAAAAA TAAAAA
1 TAAAA-A TAAAAA -TAAAA-A TAAAAA TAAAAA TAAAAA
37997745 AGTCACTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 14 0.47
7 15 0.50
8 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:37997905 original size:24 final size:24
Alignment explanation
Indices: 37997858--37997933 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 24
37997848 ATTTATTGAA
*
37997858 TAATGAGTTTTTATTTATAGAATTTAT
1 TAATGAG-TTTTA--TATAAAATTTAT
*
37997885 TAATGAGTTTTATATAAAATTGAT
1 TAATGAGTTTTATATAAAATTTAT
*
37997909 GAAT-A-TTTTATATTTAAAATTTAT
1 TAATGAGTTTTATA--TAAAATTTAT
37997933 T
1 T
37997934 CAATATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 7 0.17
23 1 0.02
24 22 0.52
26 5 0.12
27 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (24 bp):
TAATGAGTTTTATATAAAATTTAT
Found at i:37999050 original size:37 final size:37
Alignment explanation
Indices: 37999000--37999075 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
37998990 TTTCATTTAA
37999000 AACTAGACTCAATAAGGAATCTAGGCATATAAACTAT
1 AACTAGACTCAATAAGGAATCTAGGCATATAAACTAT
37999037 AACTAGACTCAATAAGGAATCTAGGCATATAAACTAT
1 AACTAGACTCAATAAGGAATCTAGGCATATAAACTAT
37999074 AA
1 AA
37999076 TTCTTAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (37 bp):
AACTAGACTCAATAAGGAATCTAGGCATATAAACTAT
Found at i:37999700 original size:67 final size:65
Alignment explanation
Indices: 37999593--37999744 Score: 193
Period size: 67 Copynumber: 2.3 Consensus size: 65
37999583 AACACTTAGT
* * * * *
37999593 ACCACCCATGTGACCTAGC--CATTTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCT
1 ACCACACATGTGACCTAGCTACATTTTATCCCGTAGCTCTCTTGTCTACATGGTATACATC-CC-
37999656 GGA
64 -GA
*
37999659 ACCACACATGTGACCTAGCTACA-TTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCCGT
1 ACCACACATGTGACCTAGCTACATTTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCCGA
*
37999723 ATCACACATGTGACCTAGCTAC
1 ACCACACATGTGACCTAGCTAC
37999745 CACATAGTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
64 22 0.29
66 20 0.26
67 33 0.43
68 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (65 bp):
ACCACACATGTGACCTAGCTACATTTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCCGA
Found at i:38015081 original size:26 final size:26
Alignment explanation
Indices: 38015038--38015090 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
38015028 CTTAATGAAC
*
38015038 TTATTTTATAAC-ATTTTTATATGTTT
1 TTATTTAATAACAATTTTTAT-TGTTT
*
38015064 TTATTTAATTACAATTTTTATTGTTT
1 TTATTTAATAACAATTTTTATTGTTT
38015090 T
1 T
38015091 ATGTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (26 bp):
TTATTTAATAACAATTTTTATTGTTT
Found at i:38017963 original size:19 final size:19
Alignment explanation
Indices: 38017939--38017976 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38017929 ACAAATGACT
38017939 ACAATGAACAATTCTTCAA
1 ACAATGAACAATTCTTCAA
38017958 ACAATGAACAATTCTTCAA
1 ACAATGAACAATTCTTCAA
38017977 GCAACAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.26
Consensus pattern (19 bp):
ACAATGAACAATTCTTCAA
Found at i:38017986 original size:19 final size:19
Alignment explanation
Indices: 38017945--38017986 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38017935 GACTACAATG
**
38017945 AACAATTCTTCAAACAATG
1 AACAATTCTTCAAACAACA
*
38017964 AACAATTCTTCAAGCAACA
1 AACAATTCTTCAAACAACA
38017983 AACA
1 AACA
38017987 TAGATGGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (19 bp):
AACAATTCTTCAAACAACA
Found at i:38024090 original size:24 final size:24
Alignment explanation
Indices: 38024033--38024169 Score: 148
Period size: 24 Copynumber: 5.7 Consensus size: 24
38024023 CCATGTTTAC
* **
38024033 CCGCACACATAGTGCCTTAGTAAT
1 CCGCACACATAGTGCCATACAAAT
* * * * * *
38024057 TCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
38024081 CCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAAT
*
38024105 CCGCACACATAGTGCCGTACAAAT
1 CCGCACACATAGTGCCATACAAAT
* *
38024129 TCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
* *
38024153 TCGTACACATAGTGCCA
1 CCGCACACATAGTGCCA
38024170 AAGTCATTTC
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 93 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (24 bp):
CCGCACACATAGTGCCATACAAAT
Found at i:38024130 original size:72 final size:72
Alignment explanation
Indices: 38024033--38024169 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
38024023 CCATGTTTAC
* ** * *
38024033 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
38024098 TACAAAT
66 TACAAAT
* * * *
38024105 CCGCACACATAGTGCCGTACAAATTCGCACACATAGTGCCATTCAAATTCGTACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
38024170 AAGTCATTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:38025655 original size:24 final size:24
Alignment explanation
Indices: 38025604--38025770 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
38025594 GCTTTATCAT
* *
38025604 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
38025629 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
38025653 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
38025676 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
38025700 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
38025724 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
38025748 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38025771 TCACTTCCTC
Statistics
Matches: 134, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
23 21 0.16
24 101 0.75
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:38025704 original size:71 final size:72
Alignment explanation
Indices: 38025604--38025770 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 72
38025594 GCTTTATCAT
*
38025604 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
38025668 GCCC-TTTG
64 GCCCTTTTG
* * **
38025676 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGC
38025741 CCTTTTG
66 CCTTTTG
38025748 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38025771 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 49 0.56
72 39 0.44
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGC
CCTTTTG
Found at i:38025845 original size:20 final size:20
Alignment explanation
Indices: 38025820--38025880 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
38025810 TTATGATTAC
38025820 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38025840 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
38025860 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
38025880 A
1 A
38025881 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38033499 original size:36 final size:36
Alignment explanation
Indices: 38033454--38033525 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 36
38033444 CCAATCTCAA
38033454 CATATACTGGGCC-ATAGCCCTTTTCATATTTCATATT
1 CATATACTGGGCCGA-AG-CCTTTTCATATTTCATATT
38033491 CATA-ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 CATATACTGGGCCGAAGCCTTTTCATATTTCATATT
38033526 ACTGGGCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 19 0.56
36 10 0.29
37 5 0.15
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (36 bp):
CATATACTGGGCCGAAGCCTTTTCATATTTCATATT
Found at i:38033514 original size:35 final size:34
Alignment explanation
Indices: 38033454--38033542 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 34
38033444 CCAATCTCAA
38033454 CATATACTGGGCC-ATAGCCCTTTTCATATTTCATATT
1 CATA-ACTGGGCCGA-AG-CCTTTTCATATTTCATA-T
38033491 CATAACTGGGCCGAAGCCTTTTCATATTTCATAT
1 CATAACTGGGCCGAAGCCTTTTCATATTTCATAT
38033525 --T-ACTGGGCCGAAGCCTTT
1 CATAACTGGGCCGAAGCCTTT
38033543 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
31 17 0.33
32 1 0.02
34 1 0.02
35 17 0.33
36 10 0.20
37 5 0.10
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (34 bp):
CATAACTGGGCCGAAGCCTTTTCATATTTCATAT
Found at i:38033811 original size:22 final size:23
Alignment explanation
Indices: 38033755--38033822 Score: 111
Period size: 24 Copynumber: 3.0 Consensus size: 23
38033745 CCTAGCCTCT
*
38033755 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38033778 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
38033802 TTT-ATAACTGGGGCATAAGCC
1 TTTAATAACTGGGGCATAAGCC
38033823 ATACTGCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
22 18 0.42
23 3 0.07
24 22 0.51
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:38033867 original size:24 final size:24
Alignment explanation
Indices: 38033828--38033888 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
38033818 AAGCCATACT
38033828 GCATAAG-CCTTTTGATAACTGGG
1 GCATAAGCCCTTTTGATAACTGGG
38033851 GCATAAGCCCTTTTGATAACTGGG
1 GCATAAGCCCTTTTGATAACTGGG
38033875 GCATAAGCCCTTTT
1 GCATAAGCCCTTTT
38033889 TCACTTCCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 7 0.19
24 30 0.81
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
GCATAAGCCCTTTTGATAACTGGG
Found at i:38033969 original size:11 final size:11
Alignment explanation
Indices: 38033939--38033992 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38033929 TATGATTACC
38033939 TCATGTGCATA
1 TCATGTGCATA
*
38033950 TCA--TACATA
1 TCATGTGCATA
38033959 TCATGTGCATA
1 TCATGTGCATA
*
38033970 TCA--TACAT-
1 TCATGTGCATA
38033978 TCATGTGCATA
1 TCATGTGCATA
38033989 TCAT
1 TCAT
38033993 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:38033983 original size:19 final size:20
Alignment explanation
Indices: 38033939--38033997 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
38033929 TATGATTACC
38033939 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38033959 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
38033978 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38033998 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:38034072 original size:25 final size:25
Alignment explanation
Indices: 38034040--38034087 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38034030 ATACATAAAC
* * *
38034040 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
38034065 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
38034088 CATGGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:38037563 original size:27 final size:28
Alignment explanation
Indices: 38037506--38037575 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38037496 AAATTTGTAC
**
38037506 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38037534 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38037561 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38037576 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38037584 original size:27 final size:27
Alignment explanation
Indices: 38037506--38037587 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
38037496 AAATTTGTAC
* *
38037506 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
38037534 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
38037561 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
38037588 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:38045635 original size:26 final size:28
Alignment explanation
Indices: 38045581--38045649 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 28
38045571 AAATTTGTAC
**
38045581 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38045609 AGCACTATGTGTGCG-AGCTGATT-TAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38045635 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38045650 GACTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 17 0.46
27 6 0.16
28 14 0.38
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38050103 original size:80 final size:80
Alignment explanation
Indices: 38049937--38050104 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
38049927 CAATTGAATG
* * *
38049937 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
38050002 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * *** * *
38050017 ACATCCGGGCTAAGACCCGAAGGCATTCATGC-GAGTCGTTCTATTCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
38050081 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
38050097 ATATCCGG
1 ATATCCGG
38050105 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 5 0.07
80 68 0.93
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:38052421 original size:26 final size:26
Alignment explanation
Indices: 38052384--38052467 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
38052374 TGATACAAAT
* *
38052384 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
38052410 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
38052436 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
38052462 TGATAA
1 TGATAA
38052468 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:38054538 original size:137 final size:136
Alignment explanation
Indices: 38054257--38054526 Score: 504
Period size: 137 Copynumber: 2.0 Consensus size: 136
38054247 AGTCTCCCCT
*
38054257 AATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
1 AATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
38054322 TCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCACTGT
66 TCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCACTGT
38054387 TACCCA
131 TACCCA
*
38054393 AATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTTATGGGCCATACTGTT
1 AATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTT
*
38054458 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTG
65 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCACTG
38054523 TTAC
130 TTAC
38054527 TTGAATGGGC
Statistics
Matches: 130, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 16 0.12
137 114 0.88
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
AATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTA
TCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCACTGT
TACCCA
Found at i:38055654 original size:23 final size:23
Alignment explanation
Indices: 38055610--38055668 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
38055600 CCAATAGGAG
*
38055610 ACTTCTGTT-TTAGTCATACAGT
1 ACTTCTGTTATTAGTAATACAGT
* *
38055632 ACTTTTGTTATTAGTAATTCAGT
1 ACTTCTGTTATTAGTAATACAGT
38055655 ACTTCTGTTATTAG
1 ACTTCTGTTATTAG
38055669 CACTTTGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (23 bp):
ACTTCTGTTATTAGTAATACAGT
Found at i:38056787 original size:17 final size:18
Alignment explanation
Indices: 38056749--38056790 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
38056739 TTGTCATATG
*
38056749 AATTAAATTAATTATTAT
1 AATTAAATTAATTATGAT
*
38056767 -ATTAATTTAATT-TGAT
1 AATTAAATTAATTATGAT
38056783 AATTAAAT
1 AATTAAAT
38056791 ATTGTGCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTAAATTAATTATGAT
Found at i:38059395 original size:14 final size:14
Alignment explanation
Indices: 38059376--38059404 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38059366 CACTAGGATC
38059376 TGTATTATTATATT
1 TGTATTATTATATT
38059390 TGTATTATTATATT
1 TGTATTATTATATT
38059404 T
1 T
38059405 TAAAATGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TGTATTATTATATT
Found at i:38060396 original size:48 final size:49
Alignment explanation
Indices: 38060325--38060426 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 49
38060315 CATTCCAGGA
* * * *
38060325 GTAAATAAGTTTTAATGAGTGAAAACACGC-AATATGTTAT-TTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCT-AATTG
38060373 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCTAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCTAATTG
38060422 GTAAA
1 GTAAA
38060427 GTCGATCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
48 28 0.58
49 19 0.40
50 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (49 bp):
GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCTAATTG
Found at i:38064901 original size:39 final size:39
Alignment explanation
Indices: 38064820--38064982 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
38064810 TATGGTAACC
* *
38064820 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
38064860 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38064899 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38064938 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38064977 CGCACA
1 CGCACA
38064983 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:38072582 original size:38 final size:39
Alignment explanation
Indices: 38072485--38072646 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
38072475 TATGGTAACC
* *
38072485 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
38072525 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38072564 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38072602 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38072641 CGCACA
1 CGCACA
38072647 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:38072644 original size:77 final size:78
Alignment explanation
Indices: 38072493--38072648 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
38072483 CCCGCACAAA
38072493 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
38072558 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
38072571 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
38072635 ACAATTCGCACAT
66 ACAACTCGCACAT
38072648 T
1 T
38072649 CATACACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:38080865 original size:30 final size:29
Alignment explanation
Indices: 38080771--38080872 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
38080761 TATAGTGAAT
* * *
38080771 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
38080800 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
38080828 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
38080858 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38080873 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:38083362 original size:26 final size:26
Alignment explanation
Indices: 38083333--38083391 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
38083323 TCCATTGAAT
* *
38083333 CATTCGATATTTCACACACTAAGTTC
1 CATTCAATATCTCACACACTAAGTTC
* *
38083359 CATTCTCAATATCTCACATACTAAGTTT
1 CA-T-TCAATATCTCACACACTAAGTTC
38083387 CATTC
1 CATTC
38083392 TCAATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
26 4 0.15
27 2 0.07
28 21 0.78
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (26 bp):
CATTCAATATCTCACACACTAAGTTC
Found at i:38083375 original size:28 final size:28
Alignment explanation
Indices: 38083339--38083417 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
38083329 GAATCATTCG
38083339 ATATTTCACACACTAAGTTCCATTCTCA
1 ATATTTCACACACTAAGTTCCATTCTCA
* * *
38083367 ATATCTCACATACTAAGTTTCATTCTCA
1 ATATTTCACACACTAAGTTCCATTCTCA
** *
38083395 ATATTTTGCACACTAAGTGCCAT
1 ATATTTCACACACTAAGTTCCAT
38083418 ATTTGATGTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (28 bp):
ATATTTCACACACTAAGTTCCATTCTCA
Found at i:38086880 original size:30 final size:29
Alignment explanation
Indices: 38086844--38086911 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
38086834 ATGAATCGGA
38086844 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
38086874 AGCTTTGGCACTAAGTGTGCTATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
38086903 AGCTTTGGC
1 AGCTTTGGC
38086912 TACTTGAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:38094242 original size:30 final size:29
Alignment explanation
Indices: 38094208--38094275 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
38094198 ATGAATCAGA
**
38094208 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
38094238 AGCTTTGGCACTAAGTGTGCAATTTAACT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
38094267 AGCTTTGGC
1 AGCTTTGGC
38094276 TACTTGAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:38094339 original size:44 final size:44
Alignment explanation
Indices: 38094283--38094383 Score: 184
Period size: 44 Copynumber: 2.3 Consensus size: 44
38094273 GGCTACTTGA
*
38094283 GGCACTAAGTGTGCGATACCGACTTAGTCTCGATTATTTGAGAT
1 GGCACTAAGTGTGCGATACCGACTTAGTCTCAATTATTTGAGAT
*
38094327 GGCACTAAGTGTGCGATACTGACTTAGTCTCAATTATTTGAGAT
1 GGCACTAAGTGTGCGATACCGACTTAGTCTCAATTATTTGAGAT
38094371 GGCACTAAGTGTG
1 GGCACTAAGTGTG
38094384 TAGAAATATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
GGCACTAAGTGTGCGATACCGACTTAGTCTCAATTATTTGAGAT
Done.