Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 186 of 318
Found at i:58104895 original size:27 final size:27
Alignment explanation
Indices: 58104817--58104898 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58104807 AAATTTGTAC
* *
58104817 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
58104845 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
58104872 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
58104899 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:58120142 original size:40 final size:40
Alignment explanation
Indices: 58120097--58120264 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
58120087 CGGAATATAA
58120097 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
58120137 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
58120177 CCGGATGTAGCCACTAACACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58120217 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
58120257 CCGGATAT
1 CCGGATAT
58120265 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58120247 original size:80 final size:80
Alignment explanation
Indices: 58120114--58120262 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
58120104 TAATCACGTG
*
58120114 CACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGCC
1 CACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGCC
58120178 CGGATGTAGCCACTAA
65 CGGATGTAGCCACTAA
* * * * *
58120194 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAGC
1 CACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAGC
58120257 CCGGAT
64 CCGGAT
58120263 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
CACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCCC
GGATGTAGCCACTAA
Found at i:58126824 original size:7 final size:7
Alignment explanation
Indices: 58126807--58126840 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
58126797 TACTACATAG
58126807 TTTTTTA
1 TTTTTTA
58126814 -TTTTTA
1 TTTTTTA
58126820 TTTTTTA
1 TTTTTTA
*
58126827 TTTATTA
1 TTTTTTA
58126834 TTTTTTA
1 TTTTTTA
58126841 GAACAAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:58126825 original size:13 final size:14
Alignment explanation
Indices: 58126807--58126840 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
58126797 TACTACATAG
58126807 TTTTTTATTT-TTA
1 TTTTTTATTTATTA
58126820 TTTTTTATTTATTA
1 TTTTTTATTTATTA
58126834 TTTTTTA
1 TTTTTTA
58126841 GAACAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTATTTATTA
Found at i:58131623 original size:30 final size:30
Alignment explanation
Indices: 58131579--58131647 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
58131569 CAAAGATAAC
*
58131579 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
58131608 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
58131638 AAGAAACCCA
1 AAGAAACCCA
58131648 AGATACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:58131652 original size:15 final size:15
Alignment explanation
Indices: 58131590--58131652 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
58131580 AGAAAACCGA
*
58131590 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
58131605 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
58131619 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
58131635 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
58131650 ATA
1 ATA
58131653 CGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:58134406 original size:46 final size:45
Alignment explanation
Indices: 58134339--58134513 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
58134329 TGTAACCCGC
*
58134339 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
58134385 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
58134431 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
58134478 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
58134514 ATGCCCAAAC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 67 0.61
47 32 0.29
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:58134459 original size:93 final size:93
Alignment explanation
Indices: 58134347--58134518 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
58134337 GCCCATAAGT
*
58134347 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58134411 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
58134440 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58134505 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
58134519 CAAACATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58134533 original size:46 final size:46
Alignment explanation
Indices: 58134344--58134533 Score: 160
Period size: 46 Copynumber: 4.1 Consensus size: 46
58134334 CCCGCCCATA
* * * *
58134344 AGTGAACTCGGACTCAACTCAACGAGCTC--AGGCGT-TCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-ACATCC-T
*
58134389 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
58134439 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
58134482 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
58134529 AGTGA
1 AGTGA
58134534 CATTTCACTT
Statistics
Matches: 118, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 63 0.53
47 29 0.25
48 10 0.08
50 5 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:58135787 original size:14 final size:14
Alignment explanation
Indices: 58135765--58135795 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58135755 TCATGCATGT
*
58135765 TTTTTTTTTATTTA
1 TTTTATTTTATTTA
58135779 TTTTATTTTATTTA
1 TTTTATTTTATTTA
58135793 TTT
1 TTT
58135796 GTTAGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:58137034 original size:40 final size:40
Alignment explanation
Indices: 58136940--58137157 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
58136930 TGGATGATAA
* *
58136940 CCGGGCTAAGTCCTGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
58136981 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58137021 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58137061 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58137101 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
58137140 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58137158 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 103 0.65
41 22 0.14
42 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58150622 original size:36 final size:36
Alignment explanation
Indices: 58150560--58150649 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
58150550 TTAGCTCTTA
*
58150560 TGAGCATCTGGCGTG-TTTGGAGGGATTGGCTCATG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCATG
* *
58150595 TGAGCATATGGTGTGTTTTGGAGGGATTGGCTCGTG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCATG
* *
58150631 TAAGCTTCTGGTGTGTTTT
1 TGAGCATCTGGTGTGTTTT
58150650 TGGTTGGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 13 0.27
36 35 0.73
ACGTcount: A:0.13, C:0.11, G:0.38, T:0.38
Consensus pattern (36 bp):
TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCATG
Found at i:58151569 original size:12 final size:12
Alignment explanation
Indices: 58151552--58151581 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58151542 TTCGAAAGAT
58151552 ACATGGCCTAGC
1 ACATGGCCTAGC
*
58151564 ACATGGCCTTGC
1 ACATGGCCTAGC
58151576 ACATGG
1 ACATGG
58151582 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:58154894 original size:24 final size:24
Alignment explanation
Indices: 58154842--58155031 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
58154832 GCTTTATCAT
*
58154842 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
58154867 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
58154891 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
58154914 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
58154938 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
58154962 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
58154986 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
58155009 ATAACTGGGGCACAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58155032 TCACTTCCTC
Statistics
Matches: 152, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 42 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58154918 original size:47 final size:48
Alignment explanation
Indices: 58154841--58155032 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
58154831 TGCTTTATCA
* *
58154841 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
58154890 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
58154937 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
58154985 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCACAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
58155032 T
1 T
58155033 CACTTCCTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 69 0.52
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:58154942 original size:71 final size:72
Alignment explanation
Indices: 58154842--58155032 Score: 280
Period size: 71 Copynumber: 2.7 Consensus size: 72
58154832 GCTTTATCAT
*
58154842 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
58154906 GCCC-TTTA
64 GCCCTTTTA
* * * *
58154914 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGC
*
58154979 CCTTTTG
66 CCTTTTA
*
58154986 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCACAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTT
58155033 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:58155105 original size:9 final size:9
Alignment explanation
Indices: 58155091--58155167 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
58155081 ATCTCGTGTG
58155091 CATATCATA
1 CATATCATA
*
58155100 CATATCATGTG
1 CATATCA--TA
58155111 CATATCATA
1 CATATCATA
* *
58155120 CATGTCATGTG
1 CATATCA--TA
58155131 CATATCATA
1 CATATCATA
*
58155140 CATATCATGTG
1 CATATCA--TA
58155151 CATATCATA
1 CATATCATA
58155160 CATATCAT
1 CATATCAT
58155168 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:58155110 original size:20 final size:20
Alignment explanation
Indices: 58155087--58155169 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
58155077 GAACATCTCG
58155087 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
58155107 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
58155127 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
58155147 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
58155167 TGT
1 TGT
58155170 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:58155116 original size:11 final size:11
Alignment explanation
Indices: 58155087--58155158 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
58155077 GAACATCTCG
58155087 TGTGCATATCA
1 TGTGCATATCA
*
58155098 --TACATATCA
1 TGTGCATATCA
58155107 TGTGCATATCA
1 TGTGCATATCA
* *
58155118 --TACATGTCA
1 TGTGCATATCA
58155127 TGTGCATATCA
1 TGTGCATATCA
*
58155138 --TACATATCA
1 TGTGCATATCA
58155147 TGTGCATATCA
1 TGTGCATATCA
58155158 T
1 T
58155159 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:58155252 original size:25 final size:25
Alignment explanation
Indices: 58155206--58155253 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
58155196 ATATATAAAC
* * * *
58155206 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
58155231 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
58155254 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:58157202 original size:22 final size:22
Alignment explanation
Indices: 58157177--58157297 Score: 140
Period size: 22 Copynumber: 5.4 Consensus size: 22
58157167 GTCATGGTCG
58157177 GTAAGCTCCT-TTGAGCTGAATA
1 GTAAGCT-CTATTGAGCTGAATA
58157199 GTAAGCTCTATTGAGCTGAATA
1 GTAAGCTCTATTGAGCTGAATA
*
58157221 GTAAGCTCTATTGAGTTGAA-A
1 GTAAGCTCTATTGAGCTGAATA
*
58157242 CGGTAAGCTCTAATGAGCTGAAT-
1 --GTAAGCTCTATTGAGCTGAATA
* *
58157265 GATAAGCTCCAATGAGCTGAAATA
1 G-TAAGCTCTATTGAGCTG-AATA
58157289 GTAAGCTCT
1 GTAAGCTCT
58157298 TACGAGCTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
21 4 0.05
22 54 0.62
23 28 0.32
24 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAATA
Found at i:58157305 original size:45 final size:45
Alignment explanation
Indices: 58157177--58157305 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
58157167 GTCATGGTCG
*
58157177 GTAAGCTCCTTTGAGCTG-AATAGTAAGCTC-TATTGAGCTGAATA
1 GTAAGCTCCATTGAGCTGAAATAGTAAGCTCTTA-TGAGCTGAATA
* * ** *
58157221 GTAAGCTCTATTGAGTTGAAACGGTAAGCTCTAATGAGCTGAAT-
1 GTAAGCTCCATTGAGCTGAAATAGTAAGCTCTTATGAGCTGAATA
* *
58157265 GATAAGCTCCAATGAGCTGAAATAGTAAGCTCTTACGAGCT
1 G-TAAGCTCCATTGAGCTGAAATAGTAAGCTCTTATGAGCT
58157306 ATGGTGAGTC
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 16 0.23
45 52 0.75
46 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (45 bp):
GTAAGCTCCATTGAGCTGAAATAGTAAGCTCTTATGAGCTGAATA
Found at i:58159591 original size:22 final size:22
Alignment explanation
Indices: 58159566--58159611 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
58159556 TTGTTGATAG
58159566 ATAAACAACTTTTGTAAAGTGA
1 ATAAACAACTTTTGTAAAGTGA
58159588 ATAAACAACTTTTGTAAAGTGA
1 ATAAACAACTTTTGTAAAGTGA
58159610 AT
1 AT
58159612 TTTGATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (22 bp):
ATAAACAACTTTTGTAAAGTGA
Found at i:58160350 original size:64 final size:63
Alignment explanation
Indices: 58160245--58160372 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 63
58160235 CGAGCATCCC
*
58160245 GATCGGTAGTGATCCTGCATGTGTTGCATACATACCACAGCTCGTTT-TGAGCGTCCTATTATAT
1 GATCGGTAGTGATCCTGCATGTGTTGCAGACATACCACAGCTC-TTTATGAGCGTCCTATT-TAT
* * * *
58160309 GATCGGTAGTGATCTTGCATGTGTTGCGGACATATCGCAGCTCTTTATGAGCGTCCTATTTAT
1 GATCGGTAGTGATCCTGCATGTGTTGCAGACATACCACAGCTCTTTATGAGCGTCCTATTTAT
58160372 G
1 G
58160373 GATCTCTGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
63 7 0.12
64 51 0.88
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (63 bp):
GATCGGTAGTGATCCTGCATGTGTTGCAGACATACCACAGCTCTTTATGAGCGTCCTATTTAT
Found at i:58165061 original size:27 final size:26
Alignment explanation
Indices: 58164998--58165071 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 26
58164988 TTATCATCCC
*
58164998 AATTTTACCCCAA-TAAATTTTTTGAT
1 AATTTTACCCCAAGTAAA-ATTTTGAT
58165024 AATTTTACCCCAAGTAAAATTTTGAT
1 AATTTTACCCCAAGTAAAATTTTGAT
* *
58165050 GATTTTACCCCCAGTAAAATTT
1 AATTTTACCCCAAGTAAAATTT
58165072 CAAGAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.41
Consensus pattern (26 bp):
AATTTTACCCCAAGTAAAATTTTGAT
Found at i:58165193 original size:6 final size:6
Alignment explanation
Indices: 58165182--58165216 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
58165172 AAGATTGCAA
* *
58165182 ATTTTC ATTTTC ATTTTC ATTTCC ATTTCC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
58165217 TGGAAACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTTC
Found at i:58168346 original size:38 final size:35
Alignment explanation
Indices: 58168289--58168406 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
58168279 TCAATCATGC
*
58168289 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
58168328 ACTGGGCTGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
58168359 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
58168390 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
58168407 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 48 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 10 0.13
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:58168350 original size:31 final size:31
Alignment explanation
Indices: 58168312--58168406 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
58168302 CCTTTTCATA
* *
58168312 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
58168343 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
58168374 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
58168405 TT
1 TT
58168407 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:58168649 original size:24 final size:24
Alignment explanation
Indices: 58168598--58168740 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
58168588 GCTTTATCAT
*
58168598 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
58168623 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
58168647 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
58168670 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
58168694 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
58168718 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58168741 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58168677 original size:47 final size:48
Alignment explanation
Indices: 58168598--58168739 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
58168588 GCTTTATCAT
* *
58168598 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
58168647 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
58168694 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
58168740 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:58168698 original size:71 final size:72
Alignment explanation
Indices: 58168597--58168740 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
58168587 TGCTTTATCA
*
58168597 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
58168662 GCCCTTT
66 GCCCTTT
* * **
58168669 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
58168732 AGCCCTTT
65 AGCCCTTT
58168740 T
1 T
58168741 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:58168819 original size:20 final size:20
Alignment explanation
Indices: 58168791--58168850 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
58168781 TATGATTACC
*
58168791 TCATATGCATATCATACATA
1 TCATGTGCATATCATACATA
*
58168811 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
58168831 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
58168851 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:58168925 original size:25 final size:25
Alignment explanation
Indices: 58168893--58168940 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58168883 ATACATAAAC
* * *
58168893 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
58168918 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
58168941 CATAGTATAC
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:58182442 original size:40 final size:40
Alignment explanation
Indices: 58182397--58182563 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
58182387 CGGAATATAA
58182397 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58182437 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58182477 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58182517 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58182556 CCGGATAT
1 CCGGATAT
58182564 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58182547 original size:80 final size:79
Alignment explanation
Indices: 58182413--58182563 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58182403 ATAATCACGT
*
58182413 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
58182478 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
58182493 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
58182556 CCGGATAT
64 CCGGATAT
58182564 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:58183827 original size:58 final size:55
Alignment explanation
Indices: 58183755--58183867 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 55
58183745 CCCCCTTTTC
58183755 CCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTCTTT
1 CCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTTT-TTTTCTTT
***
58183813 CCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTTCTTT
1 CCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTTCTTT
58183868 TTTCTTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
55 8 0.16
56 8 0.16
58 30 0.60
59 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (55 bp):
CCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTTCTTT
Found at i:58188339 original size:7 final size:7
Alignment explanation
Indices: 58188327--58188351 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58188317 TTTAAAATAG
58188327 TATATAA
1 TATATAA
58188334 TATATAA
1 TATATAA
58188341 TATATAA
1 TATATAA
58188348 TATA
1 TATA
58188352 ATAACATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATATAA
Found at i:58188710 original size:42 final size:45
Alignment explanation
Indices: 58188649--58188744 Score: 105
Period size: 46 Copynumber: 2.2 Consensus size: 45
58188639 AATAAAGATT
*
58188649 ATATAATA-AAATGTAATAT-AAAC-ATATA-AGA-AAATAATAG
1 ATATAATATAAATGTAATATAAAACAATATATAGATAAATAATAA
* *
58188689 ATATAATATAAA-GTAACATATAAAACAATATATATATAATTAATAA
1 ATATAATATAAATGT-A-ATATAAAACAATATATAGATAAATAATAA
58188735 ATATAATATA
1 ATATAATATA
58188745 TGTGAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
40 10 0.22
41 4 0.09
42 4 0.09
43 4 0.09
44 5 0.11
45 2 0.04
46 17 0.37
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (45 bp):
ATATAATATAAATGTAATATAAAACAATATATAGATAAATAATAA
Found at i:58188801 original size:3 final size:3
Alignment explanation
Indices: 58188795--58188853 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
58188785 ATTTAAGAAA
* *
58188795 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
58188843 AAT AA- AAT AAT
1 AAT AAT AAT AAT
58188854 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 30 0.65
4 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:58188808 original size:7 final size:6
Alignment explanation
Indices: 58188795--58188853 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
58188785 ATTTAAGAAA
* *
58188795 AATAAT ACATAAT AAGTAAT AATAAT ATATAATT AA-AAT AATACT TATAAT
1 AATAAT A-ATAAT AA-TAAT AATAAT A-ATAA-T AATAAT AATAAT AATAAT
58188846 AA-AAT AAT
1 AATAAT AAT
58188854 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.19
6 16 0.37
7 17 0.40
8 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:58188821 original size:36 final size:34
Alignment explanation
Indices: 58188775--58188881 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 34
58188765 TAAAAGAGAT
58188775 GTAAAATAATATTTAAGAAAAATAATACATAATAA
1 GTAAAATAATATTTAAGAAAAATAATAC-TAATAA
* ** *
58188810 GTAATAATAATATATAATTAAAATAATACTTATAA
1 GTAA-AATAATATTTAAGAAAAATAATACTAATAA
* *
58188845 -TAAAATAAT-TTTATA-ATATATAATA-TAA-AA
1 GTAAAATAATATTTA-AGAAAAATAATACTAATAA
58188875 GTAAAAT
1 GTAAAAT
58188882 TAAAATAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 10 0.17
33 7 0.12
34 3 0.05
35 9 0.15
36 21 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (34 bp):
GTAAAATAATATTTAAGAAAAATAATACTAATAA
Found at i:58188826 original size:17 final size:17
Alignment explanation
Indices: 58188795--58188908 Score: 57
Period size: 17 Copynumber: 6.8 Consensus size: 17
58188785 ATTTAAGAAA
58188795 AATAATACATA-ATAAGT
1 AATAATA-ATATATAAGT
*
58188812 AATAATAATATATAATT
1 AATAATAATATATAAGT
58188829 AA-AATAATACTTATAA-T
1 AATAATAATA--TATAAGT
*
58188846 AA-AATAAT-T-TTA-T
1 AATAATAATATATAAGT
*
58188859 AATATATAATATAAAAGT
1 AATA-ATAATATATAAGT
* *
58188877 AA-AATTAAAATA-AAGCA
1 AATAA-TAATATATAAG-T
58188894 AATAATAAATATATA
1 AATAAT-AATATATA
58188909 TATAGAATAA
Statistics
Matches: 77, Mismatches: 7, Indels: 24
0.71 0.06 0.22
Matches are distributed among these distances:
13 5 0.06
14 2 0.03
15 5 0.06
16 15 0.19
17 34 0.44
18 15 0.19
19 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
AATAATAATATATAAGT
Found at i:58188836 original size:16 final size:16
Alignment explanation
Indices: 58188775--58188881 Score: 76
Period size: 16 Copynumber: 6.4 Consensus size: 16
58188765 TAAAAGAGAT
*
58188775 GTAAAATAATATTTAA
1 GTAAAATAATATATAA
*
58188791 GAAAAATAATACATAATAA
1 GTAAAATAAT--AT-ATAA
58188810 GTAATAATAATATATAA
1 GTAA-AATAATATATAA
*
58188827 TTAAAATAATACTTATAA
1 GTAAAATAATA--TATAA
*
58188845 -TAAAATAATTTTATAA
1 GTAAAATAA-TATATAA
* *
58188861 -T-ATATAATATAAAA
1 GTAAAATAATATATAA
58188875 GTAAAAT
1 GTAAAAT
58188882 TAAAATAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 25 0.34
17 15 0.21
18 10 0.14
19 6 0.08
20 6 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
GTAAAATAATATATAA
Found at i:58191005 original size:25 final size:25
Alignment explanation
Indices: 58190972--58191023 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
58190962 AAAATTTCAA
*
58190972 ACTTACAATT-TCATATATAACATAT
1 ACTTACAATTATCAAATAT-ACATAT
*
58190997 ACTTTCAATTAGTCAAATATACATAT
1 ACTTACAATTA-TCAAATATACATAT
58191023 A
1 A
58191024 TCCAATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 7 0.30
27 7 0.30
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.38
Consensus pattern (25 bp):
ACTTACAATTATCAAATATACATAT
Found at i:58192834 original size:59 final size:60
Alignment explanation
Indices: 58192738--58192870 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
58192728 GACAAGATTG
* * *
58192738 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
58192798 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
58192857 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58192871 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:58192883 original size:29 final size:29
Alignment explanation
Indices: 58192768--58192870 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
58192758 AAAATTGTAC
*
58192768 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
58192797 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
58192827 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
58192856 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58192871 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:58194481 original size:20 final size:20
Alignment explanation
Indices: 58194458--58194519 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
58194448 TCCATAAACA
58194458 CATATATTTTTCATTTACAT
1 CATATATTTTTCATTTACAT
* *
58194478 CATATA----TGATTAACA-
1 CATATATTTTTCATTTACAT
58194493 CATATATTTTTCATTTACAT
1 CATATATTTTTCATTTACAT
58194513 CATATAT
1 CATATAT
58194520 GATTTGCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
19 7 0.21
20 13 0.39
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (20 bp):
CATATATTTTTCATTTACAT
Found at i:58194494 original size:35 final size:35
Alignment explanation
Indices: 58194454--58194523 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
58194444 ACTTTCCATA
58194454 AACACATATATTTTTCATTTACATCATATATGATT
1 AACACATATATTTTTCATTTACATCATATATGATT
58194489 AACACATATATTTTTCATTTACATCATATATGATT
1 AACACATATATTTTTCATTTACATCATATATGATT
58194524 TGCAACACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (35 bp):
AACACATATATTTTTCATTTACATCATATATGATT
Found at i:58194787 original size:41 final size:43
Alignment explanation
Indices: 58194707--58194800 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 43
58194697 TCCCATACGT
* * *
58194707 GGTCTTACATGATATCACATATCGATGCCACTGTCCCAAACAG
1 GGTCTTACACGATATCAAATATCAATGCCACTGTCCCAAACAG
*
58194750 GGTCTTACACGA-ATCAAATA-CAATGCCGA-TGTCCCAAACAT
1 GGTCTTACACGATATCAAATATCAATGCC-ACTGTCCCAAACAG
58194791 GGTCTTACAC
1 GGTCTTACAC
58194801 ATAACCACAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 27 0.59
42 8 0.17
43 11 0.24
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGATATCAAATATCAATGCCACTGTCCCAAACAG
Found at i:58194855 original size:45 final size:44
Alignment explanation
Indices: 58194690--58194860 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 44
58194680 ATCGTACAAC
* * *
58194690 GCCAACGTCCCATACGTGGTCTTACATGATATCAC-ATATCGAT
1 GCCAACGTCCCAAACGTGGTCTTACACGATAACACAATATCGAT
* *
58194733 GCC-ACTGTCCCAAACAG-GGTCTTACACGA-ATCA-AATA-CAAT
1 GCCAAC-GTCCCAAAC-GTGGTCTTACACGATAACACAATATCGAT
* * * *
58194774 GCCGATGTCCCAAACATGGTCTTACAC-ATAACCACATATATTGAT
1 GCCAACGTCCCAAACGTGGTCTTACACGATAA-CACA-ATATCGAT
* *
58194819 GCCAACGTCCCAGACGTGGTCTTACACGAGAACAC-ATATCGA
1 GCCAACGTCCCAAACGTGGTCTTACACGATAACACAATATCGA
58194861 AAATCCTATG
Statistics
Matches: 103, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
40 1 0.01
41 26 0.25
42 12 0.12
43 29 0.28
44 4 0.04
45 28 0.27
46 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (44 bp):
GCCAACGTCCCAAACGTGGTCTTACACGATAACACAATATCGAT
Found at i:58197828 original size:21 final size:21
Alignment explanation
Indices: 58197804--58197843 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58197794 AAAACCCCTC
*
58197804 TTAAAATAAAAGAAACCTTAA
1 TTAAAATAAAAAAAACCTTAA
**
58197825 TTAACTTAAAAAAAACCTT
1 TTAAAATAAAAAAAACCTT
58197844 TTAGTTACGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
TTAAAATAAAAAAAACCTTAA
Found at i:58205058 original size:40 final size:40
Alignment explanation
Indices: 58205014--58205165 Score: 259
Period size: 40 Copynumber: 3.8 Consensus size: 40
58205004 CCAGCATGAT
** *
58205014 TGCTCTTCGGGACCTAGCTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
58205054 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
*
58205094 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
*
58205134 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGGATTTAGCCCGGATACATCACT
58205166 CTCAATTCTC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
Found at i:58206577 original size:37 final size:37
Alignment explanation
Indices: 58206450--58206561 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
58206440 ATCACGAAGC
58206450 CATCGGGTCTTACCCGGGCATACTCTCCACACGTAGT
1 CATCGGGTCTTACCCGGGCATACTCTCCACACGTAGT
* * * *
58206487 CATCGGGTCTTACCCGGACATCCTCTCTAGACGTAGT
1 CATCGGGTCTTACCCGGGCATACTCTCCACACGTAGT
*
58206524 CATCGGGTCTTACCCGGGCATAATCTCCACACGTAGT
1 CATCGGGTCTTACCCGGGCATACTCTCCACACGTAGT
58206561 C
1 C
58206562 GTCGAGTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.20, C:0.34, G:0.21, T:0.25
Consensus pattern (37 bp):
CATCGGGTCTTACCCGGGCATACTCTCCACACGTAGT
Found at i:58206782 original size:50 final size:50
Alignment explanation
Indices: 58206728--58206876 Score: 239
Period size: 50 Copynumber: 3.0 Consensus size: 50
58206718 CATCGCCTAC
*
58206728 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATACATATCTCATATAT
*
58206778 ATATTTCACATTGACCATCCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATATAT
58206828 ATATTTCACATTGACCATTCGGCTTTACCACATATATGCATAT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATA--CATATCTCATAT
58206877 TCACCACATT
Statistics
Matches: 93, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
50 81 0.87
51 7 0.08
52 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:58206912 original size:47 final size:47
Alignment explanation
Indices: 58206833--58207073 Score: 338
Period size: 47 Copynumber: 5.1 Consensus size: 47
58206823 TATATATATT
* * * * *
58206833 TCACATTGACCATTCGGCTTTACCACATATATGCATATTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
58206880 CCACATTGGCTATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
58206927 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
58206974 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
58207021 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58207068 TCACAT
1 TCACAT
58207074 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 170 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58206940 original size:94 final size:94
Alignment explanation
Indices: 58206833--58207073 Score: 401
Period size: 94 Copynumber: 2.6 Consensus size: 94
58206823 TATATATATT
* * * *
58206833 TCACATTGACCATTCGGCTTTACCACATATATGCATATTCATATTCACCACATTGGCTATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCATATTCACCACATTGGCCATTCGGC
58206898 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
*
58206927 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCATATTCACCACATTGGCCATTCGGC
58206992 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
* * * *
58207021 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCATATTCACCACAT
58207074 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 137 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCA
Found at i:58210247 original size:12 final size:13
Alignment explanation
Indices: 58210221--58210254 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
58210211 ATACAAGTTT
*
58210221 AAAAAAAATTCCG
1 AAAAAAAAATCCG
58210234 AAAAAAAAAT-CG
1 AAAAAAAAATCCG
58210246 AAAAAAAAA
1 AAAAAAAAA
58210255 GTGATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAAAAAATCCG
Found at i:58222140 original size:40 final size:39
Alignment explanation
Indices: 58222096--58222288 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
58222086 GTTCAAAACA
* * ** * *
58222096 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
58222136 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
58222176 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
58222215 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
58222254 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
58222289 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:58222207 original size:39 final size:39
Alignment explanation
Indices: 58222126--58222288 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
58222116 TATGGTAACC
* *
58222126 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
58222166 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58222205 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58222244 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
58222283 CGCACA
1 CGCACA
58222289 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:58230094 original size:40 final size:40
Alignment explanation
Indices: 58230050--58230232 Score: 142
Period size: 38 Copynumber: 4.7 Consensus size: 40
58230040 GTTCAAAACA
* * ***
58230050 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * *
58230090 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * * * * *
58230130 CCTTC-GG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* * ** *
58230168 CCTTC-GG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
* *
58230206 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACATAACCCGGATATCACAA
58230233 TTCGCACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 68 0.53
39 23 0.18
40 37 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACATAACCCGGATATCACAACCCGCACAAATG
Found at i:58230160 original size:38 final size:39
Alignment explanation
Indices: 58230080--58230240 Score: 245
Period size: 38 Copynumber: 4.2 Consensus size: 39
58230070 TATGGTAACC
* *
58230080 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
58230120 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58230158 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58230196 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
58230235 CGCACA
1 CGCACA
58230241 TTCATTCACA
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 68 0.60
39 31 0.27
40 14 0.12
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:58241172 original size:45 final size:45
Alignment explanation
Indices: 58241089--58241174 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
58241079 ATCAAATACA
* *
58241089 ATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATATCG
* * *
58241134 ATGCCAATGTCCCAGACGTGGTTTTACATG-AGAACACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTA-AACACATAT
58241175 CGAAAATCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATATCG
Found at i:58244156 original size:37 final size:37
Alignment explanation
Indices: 58244101--58244203 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
58244091 CGAATAGTCC
* * * *
58244101 CCACTCGTAGTTAGCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTAACCCGGACAAAATCT
* *
58244138 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTAACCCGGACAAAATCT
*
58244175 CCACACGTAGTCATCGGGTATAACCCGGA
1 CCACACGTAGTCATCGGGTCTAACCCGGA
58244204 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.21
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTAACCCGGACAAAATCT
Found at i:58244402 original size:48 final size:48
Alignment explanation
Indices: 58244344--58244633 Score: 474
Period size: 48 Copynumber: 6.0 Consensus size: 48
58244334 ATATACACAC
* * *
58244344 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58244392 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58244440 ATCTCATACATATTTTACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
58244488 ATCTCATACATATTTCACACTAGCCATTTGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
58244536 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
58244584 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58244632 AT
1 AT
58244634 ATTTGTCTTG
Statistics
Matches: 226, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 1 0.00
48 224 0.99
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:58248863 original size:15 final size:15
Alignment explanation
Indices: 58248843--58248878 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
58248833 TAGGGAAGGG
*
58248843 AATGATCCTAGTCTC
1 AATGATCATAGTCTC
*
58248858 AATGATCATGGTCTC
1 AATGATCATAGTCTC
58248873 AATGAT
1 AATGAT
58248879 GATCCAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (15 bp):
AATGATCATAGTCTC
Found at i:58252205 original size:49 final size:49
Alignment explanation
Indices: 58252133--58252402 Score: 195
Period size: 49 Copynumber: 5.6 Consensus size: 49
58252123 TGTGTGTGCT
* * *
58252133 AGTGTAAAACCTATCTGGGACATGGCATCGGCACCGATAGATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAAAGTC
* * *
58252182 AGTGTAAGACCTGTCTGGGACATGGCATCAGC-CTC-A-AGATACGCAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATAGAT--GAAAGTC
* * * * ** * *
58252231 TGTGTAAAACTTGTCTGGGACATGGTATCGGC-TTG--AGGTG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAAAGTC
* * * *
58252275 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATA-AGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGA-TGAAAGTC
* * * *
58252324 AGTGTAAGACCTGTCTAGGACATGACATCGG-ACTTC-AT-GTATGGAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAC--CGATAG-ATGAAAGTC
58252373 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
58252403 AATTAGATGT
Statistics
Matches: 171, Mismatches: 36, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
44 29 0.17
45 1 0.01
46 1 0.01
47 7 0.04
48 7 0.04
49 125 0.73
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAAAGTC
Found at i:58252329 original size:93 final size:97
Alignment explanation
Indices: 58252133--58252403 Score: 236
Period size: 98 Copynumber: 2.8 Consensus size: 97
58252123 TGTGTGTGCT
* * * * *
58252133 AGTGTAAAACCTATCTGGGACATGGCATCGGCAC--CGATAG-ATGAAAGCCAGTGTAAGACCTG
1 AGTGTAAAACCTGTCTAGGACATGACATCGG-ACTTC-AT-GTATGGAAGTCAGTGTAAGACCTG
* * * **
58252195 TCTGGGACATGGCATCAGCCTCAAGATACGCAAGTT
63 TCTGGGACATGGCATC-GACACAAGATAAGCAAGCC
* * * ** * * *
58252231 TGTGTAAAACTTGTCTGGGACATGGTATCGG-CTTGA-G-GT-G-TGTCAGTGTAAGACCTGTCT
1 AGTGTAAAACCTGTCTAGGACATGACATCGGACTTCATGTATGGAAGTCAGTGTAAGACCTGTCT
*
58252291 GGGACATGGCATCGACAC-AGATAAGTGAGAGCC
66 GGGACATGGCATCGACACAAGATAAG-CA-AGCC
* *
58252324 AGTGTAAGACCTGTCTAGGACATGACATCGGACTTCATGTATGGAAGTTAGTGTAAGACCTGTCT
1 AGTGTAAAACCTGTCTAGGACATGACATCGGACTTCATGTATGGAAGTCAGTGTAAGACCTGTCT
58252389 GGGACATGGCATCGA
66 GGGACATGGCATCGA
58252404 ATTAGATGTG
Statistics
Matches: 139, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
91 6 0.04
92 4 0.03
93 58 0.42
94 4 0.03
95 3 0.02
96 2 0.01
97 2 0.01
98 60 0.43
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (97 bp):
AGTGTAAAACCTGTCTAGGACATGACATCGGACTTCATGTATGGAAGTCAGTGTAAGACCTGTCT
GGGACATGGCATCGACACAAGATAAGCAAGCC
Found at i:58252388 original size:142 final size:144
Alignment explanation
Indices: 58252124--58252402 Score: 368
Period size: 142 Copynumber: 2.0 Consensus size: 144
58252114 TTTGGGTGAT
* *
58252124 GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGGCACCGATAGATGAAAGCCAGTGTAA
1 GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGACACAGATAGATGAAAGCCAGTGTAA
* * * *
58252189 GACCTGTCTGGGACATGGCATCAGCCTCAAGATACGCAAGTTTGTGTAAAACTTGTCTGGGACAT
66 GACCTGTCTAGGACATGACATCAGCCTCAAGATACGCAAGTTAGTGTAAAACCTGTCTGGGACAT
*
58252254 GGTATCGGCTTGAG
131 GGCATCGGCTTGAG
* * *
58252268 GTGTGT-C-AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATA-AGTGAGAGCCAGTGTA
1 GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGACACAGATAGA-TGAAAGCCAGTGTA
* * * * * *
58252330 AGACCTGTCTAGGACATGACATCGGACTTCATG-TATGGAAGTTAGTGTAAGACCTGTCTGGGAC
65 AGACCTGTCTAGGACATGACATCAG-CCTCAAGATACGCAAGTTAGTGTAAAACCTGTCTGGGAC
58252394 ATGGCATCG
129 ATGGCATCG
58252403 AATTAGATGT
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
141 1 0.01
142 104 0.89
143 6 0.05
144 6 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (144 bp):
GTGTGTGCTAGTGTAAAACCTATCTGGGACATGGCATCGACACAGATAGATGAAAGCCAGTGTAA
GACCTGTCTAGGACATGACATCAGCCTCAAGATACGCAAGTTAGTGTAAAACCTGTCTGGGACAT
GGCATCGGCTTGAG
Found at i:58261644 original size:21 final size:22
Alignment explanation
Indices: 58261601--58261646 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
58261591 AACTTAAATT
58261601 TTAATTGATAGATAATTTTAAAA
1 TTAATTGATAGATAA-TTTAAAA
58261624 TTAATTGAGTA-ATAA-TTAAAA
1 TTAATTGA-TAGATAATTTAAAA
58261645 TT
1 TT
58261647 TTTAGAGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
TTAATTGATAGATAATTTAAAA
Found at i:58266222 original size:40 final size:39
Alignment explanation
Indices: 58266057--58266240 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58266047 AAATTGAATG
* * *
58266057 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58266097 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58266137 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58266177 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58266216 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58266241 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:58266265 original size:80 final size:81
Alignment explanation
Indices: 58266097--58266285 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58266087 GCTGGAAATT
* * * *
58266097 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58266162 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58266178 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58266241 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58266257 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58266286 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58274244 original size:40 final size:40
Alignment explanation
Indices: 58274142--58274323 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
58274132 AAATTGAATG
* * * * * *
58274142 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
58274182 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
58274222 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * *
58274261 A-ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
58274300 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
58274324 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
38 26 0.22
39 16 0.14
40 76 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:58274275 original size:38 final size:38
Alignment explanation
Indices: 58274181--58274292 Score: 145
Period size: 38 Copynumber: 2.9 Consensus size: 38
58274171 TGCTGGAAAT
* *
58274181 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTAGC
* *
58274221 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTGT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTAGC
58274260 TA-ATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
58274293 AATCGTGATA
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
38 28 0.42
39 11 0.17
40 27 0.41
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTAGC
Found at i:58279325 original size:22 final size:24
Alignment explanation
Indices: 58279293--58279338 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
58279283 TGTACCCCTA
58279293 TAAATACTTCAAA-AACAT-TATC
1 TAAATACTTCAAATAACATCTATC
*
58279315 TAAATATTTCAAATAACATCTATC
1 TAAATACTTCAAATAACATCTATC
58279339 AAAACCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 5 0.24
24 4 0.19
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATACTTCAAATAACATCTATC
Found at i:58281855 original size:20 final size:20
Alignment explanation
Indices: 58281827--58281873 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
58281817 TTAACATTTG
* *
58281827 TTAGACTCGACATCGCCTTT
1 TTAGGCTCGACATCGCCGTT
58281847 TTAGGCTCGACATCGCCGTT
1 TTAGGCTCGACATCGCCGTT
58281867 TTAGGCT
1 TTAGGCT
58281874 TACAAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (20 bp):
TTAGGCTCGACATCGCCGTT
Found at i:58282036 original size:94 final size:94
Alignment explanation
Indices: 58281875--58282144 Score: 342
Period size: 94 Copynumber: 2.9 Consensus size: 94
58281865 TTTTAGGCTT
* * ** * *
58281875 ACAAAGTTATAAAGCAGACACCTCGAGAGGAAATTGCTCATTAAGTTTACTAGAAGAATCGTTTC
1 ACAAAGTTATAAAGTAGACACCTCAAGAGGAAATTGCTCGCTAAGTTTAATAGAAGAATCGCTTC
* *
58281940 TAGCCTTTTAAGGTACCTGGCTAAATTGA
66 TAGCCTTTTAAGGCACCTAGCTAAATTGA
* *
58281969 ACAAAGTTATAAAGTAGACACCTCAAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGCTTC
1 ACAAAGTTATAAAGTAGACACCTCAAGAGGAAATTGCTCGCTAAGTTTAATAGAAGAATCGCTTC
* * * **
58282034 TAGCCTCTTAAGGCACTTAGTTAAATTTT
66 TAGCCTTTTAAGGCACCTAGCTAAATTGA
* * * * * *
58282063 ACAAAGTTACAAAATAGACACCCCAAATAGGAAGTTGCTCGCTAAGTTTAATAGAATAATCGCTT
1 ACAAAGTTATAAAGTAGACACCTC-AAGAGGAAATTGCTCGCTAAGTTTAATAGAAGAATCGCTT
58282128 CTAGCCTTTTAAGGCAC
65 CTAGCCTTTTAAGGCAC
58282145 TTAGGCAAAA
Statistics
Matches: 151, Mismatches: 24, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
94 100 0.66
95 51 0.34
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (94 bp):
ACAAAGTTATAAAGTAGACACCTCAAGAGGAAATTGCTCGCTAAGTTTAATAGAAGAATCGCTTC
TAGCCTTTTAAGGCACCTAGCTAAATTGA
Found at i:58282133 original size:95 final size:95
Alignment explanation
Indices: 58281873--58282244 Score: 347
Period size: 95 Copynumber: 3.9 Consensus size: 95
58281863 CGTTTTAGGC
* ** * * ** * * *
58281873 TTACAAAGTTATAAAGCAGACACCTC-GAGAGGAAATTGCTCATTAAGTTTACTAGAAGAATCGT
1 TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
* * * *
58281937 TTCTAGCCTTTTAAGGTACCTGGCTAAATT
66 TTCTAGCCTCTTAAGGCACTTAGCTAAATT
** * * * *
58281967 GAACAAAGTTATAAAGTAGACACCTC-AAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGC
1 TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
*
58282031 TTCTAGCCTCTTAAGGCACTTAGTTAAATT
66 TTCTAGCCTCTTAAGGCACTTAGCTAAATT
* * * *
58282061 TTACAAAGTTACAAAATAGACACCCCAAATAGGAAGTTGCTCGCTAAGTTTAATAGAATAATCGC
1 TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
* *
58282126 TTCTAGCCTTTTAAGGCACTTAGGC-AAAAT
66 TTCTAGCCTCTTAAGGCACTTA-GCTAAATT
* * * * * * * * * * *
58282156 TTA-ATATTTTCAAAAGCAGACACCCCAAAGAGAAAACTACTTGCTAAGTTTAACAAAAGAAGCA
1 TTACAAAGTTACAAAA-TAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCG
*
58282220 CTTCTAGCCTCTTAAAGCACTTAGC
65 CTTCTAGCCTCTTAAGGCACTTAGC
58282245 CAAAATTCAA
Statistics
Matches: 230, Mismatches: 45, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
94 111 0.48
95 118 0.51
96 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (95 bp):
TTACAAAGTTACAAAATAGACACCCCAAAGAGGAAATTGCTCGCTAAGTTTAATAAAAGAATCGC
TTCTAGCCTCTTAAGGCACTTAGCTAAATT
Found at i:58282249 original size:95 final size:95
Alignment explanation
Indices: 58281979--58282318 Score: 315
Period size: 95 Copynumber: 3.6 Consensus size: 95
58281969 ACAAAGTTAT
* * * * * *
58281979 AAAGTAGACACCTC-AAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGCTTCTAGCCTCTT
1 AAAGCAGACACCCCAAAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTT
** * * * *
58282043 AAGGCACTTAGTTAAATTTTACAAAGTTACA
66 AAGGCACTTAGCCAAAATTTA-ATATTTTCA
* * ** * * * * *
58282074 AAA-TAGACACCCCAAATAGGAAGTTGCTCGCTAAGTTTAATAGAATAATCGCTTCTAGCCTTTT
1 AAAGCAGACACCCCAAAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTT
*
58282138 AAGGCACTTAGGCAAAATTTAATATTTTCA
66 AAGGCACTTAGCCAAAATTTAATATTTTCA
* * * *
58282168 AAAGCAGACACCCCAAAGAGAAAACTACTTGCTAAGTTTAACAAAAGAAGCACTTCTAGCCTCTT
1 AAAGCAGACACCCCAAAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTT
* * ** *
58282233 AAAGCACTTAGCCAAAATTCAATATAATCT
66 AAGGCACTTAGCCAAAATTTAATATTTTCA
* * * * * * *
58282263 TAAGCTGACACCTCAAAGAGGAAACTGTTTGATAAGTTTAATAGAAGAACCACTTC
1 AAAGCAGACACCCCAAAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTC
58282319 AGACACTGTA
Statistics
Matches: 201, Mismatches: 42, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
94 18 0.09
95 183 0.91
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (95 bp):
AAAGCAGACACCCCAAAGAGGAAACTGCTTGCTAAGTTTAATAAAAGAATCACTTCTAGCCTCTT
AAGGCACTTAGCCAAAATTTAATATTTTCA
Found at i:58283665 original size:20 final size:20
Alignment explanation
Indices: 58283605--58283669 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
58283595 TGCAATTCAA
*
58283605 GGGTATCGAAGTACAAACA-
1 GGGTACCGAAGTACAAACAG
* * *
58283624 GGG-ACACGTATGTGCAATCAG
1 GGGTAC-CG-AAGTACAAACAG
58283645 GGGTACCGAAGTACAAACAG
1 GGGTACCGAAGTACAAACAG
58283665 GGGTA
1 GGGTA
58283670 TATATGTGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 22 0.63
21 5 0.14
22 2 0.06
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.15
Consensus pattern (20 bp):
GGGTACCGAAGTACAAACAG
Found at i:58283676 original size:40 final size:40
Alignment explanation
Indices: 58283578--58283681 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
58283568 ACCAGAGTGT
*
58283578 AAACAGGGGAATGTATGTGCAATTCAAGGGTATCGAAGTAC
1 AAACAGGGGAATGTATGTGCAA-TCAAGGGTACCGAAGTAC
* *
58283619 AAACA-GGGACACGTATGTGCAATCAGGGGTACCGAAGTAC
1 AAACAGGGGA-ATGTATGTGCAATCAAGGGTACCGAAGTAC
* *
58283659 AAACAGGGGTATATATGTGCAAT
1 AAACAGGGGAATGTATGTGCAAT
58283682 TTAGGGAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 36 0.65
41 19 0.35
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (40 bp):
AAACAGGGGAATGTATGTGCAATCAAGGGTACCGAAGTAC
Found at i:58289219 original size:17 final size:17
Alignment explanation
Indices: 58289197--58289230 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58289187 GAATAGATTT
58289197 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
58289214 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
58289231 ACCCAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:58289958 original size:18 final size:17
Alignment explanation
Indices: 58289920--58289958 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58289910 GGTTTGAAAA
58289920 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
58289938 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
58289954 ATTTT
1 -TTTT
58289959 CATCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:58292026 original size:63 final size:63
Alignment explanation
Indices: 58291915--58292089 Score: 185
Period size: 63 Copynumber: 2.8 Consensus size: 63
58291905 TGGACACACT
** * * * * *
58291915 CCCGTGTCTTTGGCCAGTGTGTCTCTAATTCTAAAACAGTGAGTTACACAGCCTAGACATACG
1 CCCGTGTCCCTGGCCAGTGTGACTCTAATTCCAAAATAGTGAGTTACACAGCCTAGACACAAG
* * * *
58291978 CCCGTGTCCCTGGCCTGTGTGACTCTAATTCCAAAATAGTAAGATACACAGCCTGGACACAAG
1 CCCGTGTCCCTGGCCAGTGTGACTCTAATTCCAAAATAGTGAGTTACACAGCCTAGACACAAG
* *
58292041 CTCGT-ACCCTTGGCCCA-TGTGACTCTAACTT-CAAAATAGTGAGTTACAC
1 CCCGTGTCCC-TGG-CCAGTGTGACTCTAA-TTCCAAAATAGTGAGTTACAC
58292090 GGGCTATCAC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
62 3 0.03
63 86 0.92
64 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (63 bp):
CCCGTGTCCCTGGCCAGTGTGACTCTAATTCCAAAATAGTGAGTTACACAGCCTAGACACAAG
Found at i:58294492 original size:43 final size:42
Alignment explanation
Indices: 58294444--58294655 Score: 210
Period size: 43 Copynumber: 4.9 Consensus size: 42
58294434 ACGCCGCAAA
* *
58294444 CTTTAGCGGCG-TTTATCTAAAAAATGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGCTTT-TCT-ACAAACGCCGCTAAAGGTCATGAC
* * * * *
58294487 CTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAAGTCAAGAC
1 CTTTAGCGGCGCTTT-TCTACAAACGCCGCTAAAGGTCATGAC
* * *
58294530 CTTTAGCGGCGCTTTTCCTACAAACGCCGATAAAAGTCAAGAC
1 CTTTAGCGGCGCTTTT-CTACAAACGCCGCTAAAGGTCATGAC
* * *
58294573 TTTTAGCGGCACTTTTTCTACAAACGCCGCTAAAGATCATGAC
1 CTTTAGCGGCGC-TTTTCTACAAACGCCGCTAAAGGTCATGAC
* * * *
58294616 CTTTAGCGACGCTTTTCCCAAAAACACCGCTAAAGGTCAT
1 CTTTAGCGGCGCTTTT-CTACAAACGCCGCTAAAGGTCAT
58294656 AAAATTTAAA
Statistics
Matches: 140, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.03
43 128 0.91
44 8 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCTACAAACGCCGCTAAAGGTCATGAC
Found at i:58299169 original size:3 final size:3
Alignment explanation
Indices: 58299163--58299206 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
58299153 TTTTTCTCTT
58299163 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
58299207 TACTAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58299876 original size:42 final size:43
Alignment explanation
Indices: 58299804--58299887 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
58299794 ACCTTAAACC
* *
58299804 CCATAAACCGTAAACCCTAACTCTTAACCCC-TAAACTCTAAG
1 CCATAAAACATAAACCCTAACTCTTAACCCCTTAAACTCTAAG
*
58299846 CCATAAAACATAAACCCTAAACT-TCT-ACCCCTTAACCTCTAA
1 CCATAAAACATAAACCCT-AACTCT-TAACCCCTTAAACTCTAA
58299888 CACTTACCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 22 0.61
43 14 0.39
ACGTcount: A:0.39, C:0.36, G:0.02, T:0.23
Consensus pattern (43 bp):
CCATAAAACATAAACCCTAACTCTTAACCCCTTAAACTCTAAG
Found at i:58301687 original size:25 final size:25
Alignment explanation
Indices: 58301596--58301682 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
58301586 GATACGCCAC
* *
58301596 AGCTTGTATGAGCTTACCGATTTGT
1 AGCTCGTATGAGCTTACCGATTTAT
* *
58301621 AGCTCGTATGAGCTTACTGATTTAC
1 AGCTCGTATGAGCTTACCGATTTAT
*
58301646 AGCTCGTGA-GAG-TATACCGATTCAT
1 AGCTCGT-ATGAGCT-TACCGATTTAT
58301671 AGCTCGTATGAG
1 AGCTCGTATGAG
58301683 TATACATGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.04
25 49 0.94
26 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTTAT
Found at i:58304562 original size:26 final size:26
Alignment explanation
Indices: 58304509--58304560 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58304499 ATTTTAAATA
*
58304509 AATTAAAACCCTAATTCTCCTAATTT
1 AATTAAAACCCTAATTATCCTAATTT
* *
58304535 AATTTAAACTCCTAATTATCTTAATT
1 AATTAAAAC-CCTAATTATCCTAATT
58304561 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAAAACCCTAATTATCCTAATTT
Found at i:58304604 original size:52 final size:52
Alignment explanation
Indices: 58304533--58304698 Score: 155
Period size: 52 Copynumber: 3.2 Consensus size: 52
58304523 TTCTCCTAAT
58304533 TTAATTTAAACTCCTAATTATCTTAATTAAAATCTAAATTATTATTTAACCTA
1 TTAATTTAAACTCCTAATTATCTTAATTAAAAT-TAAATTATTATTTAACCTA
* * * *
58304586 TTAA-TTAAAGTCCCAATTAT-TTGATGT-AAATTAAA--ACTCTAATT-ACCTAA
1 TTAATTTAAACTCCTAATTATCTTAAT-TAAAATTAAATTA-T-TATTTAACCT-A
* * * *
58304636 TTCAATTTAAACTCCTATTTATCTCAAATAAAATTTAAATTATTATCTAACCTA
1 TT-AATTTAAACTCCTAATTATCTTAATTAAAA-TTAAATTATTATTTAACCTA
58304690 TTAATTTAA
1 TTAATTTAA
58304699 TTTCTCAATC
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
48 1 0.01
49 5 0.06
50 11 0.12
51 10 0.11
52 29 0.33
53 16 0.18
54 11 0.12
55 5 0.06
56 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.43
Consensus pattern (52 bp):
TTAATTTAAACTCCTAATTATCTTAATTAAAATTAAATTATTATTTAACCTA
Found at i:58304668 original size:104 final size:105
Alignment explanation
Indices: 58304507--58304695 Score: 299
Period size: 104 Copynumber: 1.8 Consensus size: 105
58304497 GTATTTTAAA
* * * *
58304507 TAAATTAAAACCCTAATTCTCCTAATTTAATTTAAACTCCTAATTATCTTAATTAAAATCTAAAT
1 TAAATTAAAACCCTAATTCACCTAATTCAATTTAAACTCCTAATTATCTCAAATAAAATCTAAAT
*
58304572 TATTATTTAACCTATTAATTAAAGTCCCAATTATTTGATG
66 TATTATCTAACCTATTAATTAAAGTCCCAATTATTTGATG
* * *
58304612 TAAATTAAAACTCTAATT-ACCTAATTCAATTTAAACTCCTATTTATCTCAAATAAAATTTAAAT
1 TAAATTAAAACCCTAATTCACCTAATTCAATTTAAACTCCTAATTATCTCAAATAAAATCTAAAT
58304676 TATTATCTAACCTATTAATT
66 TATTATCTAACCTATTAATT
58304696 TAATTTCTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
104 59 0.78
105 17 0.22
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (105 bp):
TAAATTAAAACCCTAATTCACCTAATTCAATTTAAACTCCTAATTATCTCAAATAAAATCTAAAT
TATTATCTAACCTATTAATTAAAGTCCCAATTATTTGATG
Found at i:58305360 original size:17 final size:17
Alignment explanation
Indices: 58305318--58305365 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
58305308 ATTTCAAATT
58305318 TATAAAAATTTATACCA
1 TATAAAAATTTATACCA
* * * *
58305335 TGTATAAATTTATTCTA
1 TATAAAAATTTATACCA
*
58305352 TATAAAAATATATA
1 TATAAAAATTTATA
58305366 TTTTTATATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (17 bp):
TATAAAAATTTATACCA
Found at i:58313925 original size:11 final size:11
Alignment explanation
Indices: 58313906--58313972 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
58313896 GGGCTTTGTC
* *
58313906 AGAAGAAAAGG
1 AGAAAAAAAGA
*
58313917 AGAAAAAAAGT
1 AGAAAAAAAGA
*
58313928 ATAAAAAAAG-
1 AGAAAAAAAGA
58313938 AGACAAAAAAGA
1 AGA-AAAAAAGA
58313950 ATGAAAAATAAGA
1 A-GAAAAA-AAGA
58313963 ATGAAAAAAA
1 A-GAAAAAAA
58313973 TAAAAGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 2 0.04
11 25 0.52
12 7 0.15
13 14 0.29
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.07
Consensus pattern (11 bp):
AGAAAAAAAGA
Found at i:58313936 original size:22 final size:23
Alignment explanation
Indices: 58313911--58313972 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
58313901 TTGTCAGAAG
*
58313911 AAAAGGAGAAAAAAAGTAT-AAA
1 AAAAGGAGAAAAAAAGAATGAAA
58313933 AAAA-GAGACAAAAAAGAATGAAA
1 AAAAGGAGA-AAAAAAGAATGAAA
*
58313956 AATAAGAATGAAAAAAA
1 AA-AAGGA-GAAAAAAA
58313973 TAAAAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
23 5 0.15
24 2 0.06
25 7 0.21
26 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (23 bp):
AAAAGGAGAAAAAAAGAATGAAA
Found at i:58313962 original size:13 final size:12
Alignment explanation
Indices: 58313918--58313972 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 12
58313908 AAGAAAAGGA
*
58313918 GAAAAAAAGTAT
1 GAAAAAAAGAAT
58313930 -AAAAAAAG-A-
1 GAAAAAAAGAAT
58313939 GACAAAAAAGAAT
1 GA-AAAAAAGAAT
58313952 GAAAAATAAGAAT
1 GAAAAA-AAGAAT
58313965 GAAAAAAA
1 GAAAAAAA
58313973 TAAAAGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.05
11 15 0.39
12 7 0.18
13 14 0.37
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.09
Consensus pattern (12 bp):
GAAAAAAAGAAT
Found at i:58315188 original size:22 final size:22
Alignment explanation
Indices: 58315163--58315209 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
58315153 TTTTGTACAT
58315163 ATGGATTCGAAGGGCATTGTTG
1 ATGGATTCGAAGGGCATTGTTG
58315185 ATGGATTCGAAGGGCATTGTTG
1 ATGGATTCGAAGGGCATTGTTG
58315207 ATG
1 ATG
58315210 AACAATCTGT
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:0.23, C:0.09, G:0.36, T:0.32
Consensus pattern (22 bp):
ATGGATTCGAAGGGCATTGTTG
Found at i:58319426 original size:6 final size:6
Alignment explanation
Indices: 58319417--58319456 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
58319407 ATGAAAAAGA
*
58319417 AAATAC AAATAC AAATAC AAATAT AAATAC AAATAC AAAT
1 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAAT
58319457 TAAATAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAC
Found at i:58319469 original size:18 final size:18
Alignment explanation
Indices: 58319417--58319462 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
58319407 ATGAAAAAGA
*
58319417 AAATACAAATACAAATAC
1 AAATATAAATACAAATAC
58319435 AAATATAAATACAAATAC
1 AAATATAAATACAAATAC
58319453 AAAT-TAAATA
1 AAATATAAATA
58319463 GTAAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATATAAATACAAATAC
Found at i:58323244 original size:2 final size:2
Alignment explanation
Indices: 58323237--58323261 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58323227 TAATTAAATG
58323237 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
58323262 GCTGAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58330383 original size:30 final size:30
Alignment explanation
Indices: 58330347--58330421 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
58330337 CAAGACCAAT
58330347 TTGGGCGTGTGGGCCACACGGGCAAACCAC
1 TTGGGCGTGTGGGCCACACGGGCAAACCAC
*
58330377 TTGGGCGTGTGGGCCACATGGGCAAACCAC
1 TTGGGCGTGTGGGCCACACGGGCAAACCAC
*
58330407 ATGGGCGTGTGGGCC
1 TTGGGCGTGTGGGCC
58330422 CATTTAGCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.17, C:0.27, G:0.40, T:0.16
Consensus pattern (30 bp):
TTGGGCGTGTGGGCCACACGGGCAAACCAC
Found at i:58330534 original size:2 final size:2
Alignment explanation
Indices: 58330527--58330553 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58330517 TGTGACCTGA
58330527 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
58330554 ATGTGTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58333612 original size:68 final size:70
Alignment explanation
Indices: 58333540--58333737 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
58333530 ACACCCTGTA
* * * *
58333540 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58333602 ATAAAT
65 ATAAAT
*
58333608 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
58333673 ATAAAT
65 ATAAAT
*
58333679 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
58333738 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58333651 original size:41 final size:41
Alignment explanation
Indices: 58333606--58333723 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58333596 TGAAAGATAA
58333606 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58333647 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58333677 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58333718 ATGTAG
1 ATGTAG
58333724 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58333663 original size:71 final size:71
Alignment explanation
Indices: 58333574--58333737 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58333564 GAGATGTATC
58333574 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58333639 AGGACA
66 AGGACA
58333645 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58333710 AGGACA
66 AGGACA
58333716 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58333738 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58335717 original size:15 final size:15
Alignment explanation
Indices: 58335697--58335726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58335687 GGCAATCGAT
58335697 CATTCTTAAAACCAA
1 CATTCTTAAAACCAA
*
58335712 CATTCTTAAGACCAA
1 CATTCTTAAAACCAA
58335727 AGAGTCGGAG
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:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
CATTCTTAAAACCAA
Found at i:58337072 original size:23 final size:22
Alignment explanation
Indices: 58337023--58337081 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 22
58337013 TAATTTAGTC
*
58337023 GTTTTTACTTTTATTACATTTT
1 GTTTTTATTTTTATTACATTTT
*
58337045 ATTTTTATTTTTAGTTTA-ATTTT
1 GTTTTTATTTTTA--TTACATTTT
58337068 GTTTTCTAATTTTT
1 GTTTT-T-ATTTTT
58337082 CTTTTGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 11 0.37
23 9 0.30
24 4 0.13
25 6 0.20
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (22 bp):
GTTTTTATTTTTATTACATTTT
Found at i:58342291 original size:16 final size:17
Alignment explanation
Indices: 58342270--58342303 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58342260 TTGGGCTTAT
58342270 TGGG-CCACACGGGCTG
1 TGGGCCCACACGGGCTG
*
58342286 TGGGCCCACATGGGCTG
1 TGGGCCCACACGGGCTG
58342303 T
1 T
58342304 ATTATGGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.12, C:0.29, G:0.41, T:0.18
Consensus pattern (17 bp):
TGGGCCCACACGGGCTG
Found at i:58352485 original size:12 final size:12
Alignment explanation
Indices: 58352468--58352498 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
58352458 CTATTGTTCT
58352468 AAAAAAAAGTGA
1 AAAAAAAAGTGA
58352480 AAAAAAAAGTGA
1 AAAAAAAAGTGA
58352492 AAAAAAA
1 AAAAAAA
58352499 TACATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (12 bp):
AAAAAAAAGTGA
Found at i:58359463 original size:43 final size:43
Alignment explanation
Indices: 58359403--58359694 Score: 460
Period size: 43 Copynumber: 6.8 Consensus size: 43
58359393 TTTATTGGAA
* *
58359403 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
** *
58359446 AAAAGCGCCGCTAAAGGTCATTACTTTTAGCGGCGTTTGTGAG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
*
58359489 AAAAGCGCCGCTAAAGGTCATTGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
58359532 AAAAGCGCCGCTAAAGGTCA-GGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
*
58359574 AAAAGCGCCGCTAAAGGTCATTGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* *
58359617 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGCG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
* * * *
58359660 TAAAGCGCCGCTAAACGTCAAGACTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCG
58359695 CTTTTTTTAC
Statistics
Matches: 232, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 41 0.18
43 191 0.82
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:58359568 original size:128 final size:128
Alignment explanation
Indices: 58359403--58359694 Score: 485
Period size: 128 Copynumber: 2.3 Consensus size: 128
58359393 TTTATTGGAA
*
58359403 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATT
1 AAAAGCGCCGCTAAAGGTCA-GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATT
** *
58359468 ACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATTGCTTTTAGCGGCGTTTGTGGG
65 ACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGCG
*
58359532 AAAAGCGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATTG
1 AAAAGCGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATTA
*
58359597 CTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGCG
66 CTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGCG
* * *
58359660 TAAAGCGCCGCTAAACGTCAAGACTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTC-AGGCTTTTAGCGGCG
58359695 CTTTTTTTAC
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
128 120 0.78
129 33 0.22
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (128 bp):
AAAAGCGCCGCTAAAGGTCAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATTA
CTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGCG
Found at i:58359804 original size:31 final size:31
Alignment explanation
Indices: 58359769--58359849 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
58359759 GTTCCTGCAT
* *
58359769 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
58359800 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
58359831 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
58359850 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:58360119 original size:21 final size:21
Alignment explanation
Indices: 58360095--58360140 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
58360085 GCTCGTGCCT
*
58360095 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
58360116 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
58360137 CTGC
1 CTGC
58360141 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:58362735 original size:9 final size:9
Alignment explanation
Indices: 58362721--58362902 Score: 141
Period size: 9 Copynumber: 19.6 Consensus size: 9
58362711 GACTATAGAT
58362721 TTATGTAAG
1 TTATGTAAG
58362730 TTATGTAAG
1 TTATGTAAG
* *
58362739 TTATATAAA
1 TTATGTAAG
*
58362748 TTATGATATAAAA
1 TTATG---T-AAG
*
58362761 TATATTTAAG
1 T-TATGTAAG
58362771 TATTATGTAAG
1 --TTATGTAAG
58362782 TTATGTAAG
1 TTATGTAAG
* *
58362791 TTATAT-AT
1 TTATGTAAG
*
58362799 TTATCTAAG
1 TTATGTAAG
*
58362808 TTATATAAG
1 TTATGTAAG
*
58362817 TTATATAAG
1 TTATGTAAG
*
58362826 TTATGTATG
1 TTATGTAAG
*
58362835 TTATATAAG
1 TTATGTAAG
*
58362844 TTATGTATG
1 TTATGTAAG
*
58362853 TTATATAAG
1 TTATGTAAG
58362862 TTATGTAAG
1 TTATGTAAG
* *
58362871 TTATATATG
1 TTATGTAAG
*
58362880 TTATATAAG
1 TTATGTAAG
*
58362889 TTATGTAAA
1 TTATGTAAG
58362898 TTATG
1 TTATG
58362903 ATATCAAATA
Statistics
Matches: 140, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
8 6 0.04
9 115 0.82
10 2 0.01
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:58362751 original size:18 final size:18
Alignment explanation
Indices: 58362721--58362902 Score: 159
Period size: 18 Copynumber: 9.8 Consensus size: 18
58362711 GACTATAGAT
*
58362721 TTATGTAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
* *
58362739 TTATATAAATTATGATATAAAA
1 TTATATAAGTTATG---T-AAG
*
58362761 TATATTTAAGTATTATGTAAG
1 T-TATATAAG--TTATGTAAG
* * *
58362782 TTATGTAAGTTATAT-AT
1 TTATATAAGTTATGTAAG
* *
58362799 TTATCTAAGTTATATAAG
1 TTATATAAGTTATGTAAG
*
58362817 TTATATAAGTTATGTATG
1 TTATATAAGTTATGTAAG
*
58362835 TTATATAAGTTATGTATG
1 TTATATAAGTTATGTAAG
58362853 TTATATAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
* *
58362871 TTATATATGTTATATAAG
1 TTATATAAGTTATGTAAG
* *
58362889 TTATGTAAATTATG
1 TTATATAAGTTATG
58362903 ATATCAAATA
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
17 15 0.11
18 94 0.70
20 7 0.05
21 4 0.03
22 4 0.03
23 6 0.04
25 5 0.04
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (18 bp):
TTATATAAGTTATGTAAG
Found at i:58362751 original size:27 final size:27
Alignment explanation
Indices: 58362721--58362901 Score: 158
Period size: 27 Copynumber: 6.8 Consensus size: 27
58362711 GACTATAGAT
*
58362721 TTATGTAAGTTATGTAAGTTATATAAA
1 TTATGTAAGTTATGTAAGTTATATAAG
* * *
58362748 TTATG--A--TAT-AAAATATATTTAAG
1 TTATGTAAGTTATGTAAGT-TATATAAG
*
58362771 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATGTAAGTTATATAAG
* *
58362799 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATGTAAGTTATATAAG
* * * *
58362826 TTATGTATGTTATATAAGTTATGTATG
1 TTATGTAAGTTATGTAAGTTATATAAG
* *
58362853 TTATATAAGTTATGTAAGTTATATATG
1 TTATGTAAGTTATGTAAGTTATATAAG
* *
58362880 TTATATAAGTTATGTAAATTAT
1 TTATGTAAGTTATGTAAGTTAT
58362902 GATATCAAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
22 3 0.02
23 9 0.07
25 6 0.05
26 22 0.18
27 74 0.59
28 1 0.01
29 7 0.06
30 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAGTTATATAAG
Found at i:58364045 original size:275 final size:275
Alignment explanation
Indices: 58363159--58364109 Score: 1859
Period size: 275 Copynumber: 3.5 Consensus size: 275
58363149 GAAACATGCA
58363159 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
58363224 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
58363289 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
* * *
58363354 TAGTTTAATTTTTATAACTAAATTGGAAATAAATATCCAATAGTAAATGAGTTTGATAGAACTTG
196 TAGTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTG
58363419 TTTCAAGTCTTTTTG
261 TTTCAAGTCTTTTTG
58363434 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
58363499 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
58363564 TAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
58363628 TAGTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTG
196 TAGTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTG
58363693 TTTCAAGTCTTTTTG
261 TTTCAAGTCTTTTTG
58363708 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
58363773 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
58363838 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
131 TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
58363903 TAGTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTG
196 TAGTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTG
58363968 TTTCAAGTCTTTTTG
261 TTTCAAGTCTTTTTG
*
58363983 AATTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
58364048 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAA
58364110 ATAAGGTTGG
Statistics
Matches: 671, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
274 271 0.40
275 400 0.60
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (275 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATAT
TAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCG
TAGTTTAATTTTTATAACTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTTG
TTTCAAGTCTTTTTG
Found at i:58364391 original size:15 final size:15
Alignment explanation
Indices: 58364371--58364399 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58364361 AGAATTTTGA
58364371 AATAAAACGTACCTT
1 AATAAAACGTACCTT
58364386 AATAAAACGTACCT
1 AATAAAACGTACCT
58364400 GGTCTACTCC
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:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:58364824 original size:14 final size:14
Alignment explanation
Indices: 58364805--58364836 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58364795 CAATATAATT
58364805 TTACTTCATATATA
1 TTACTTCATATATA
*
58364819 TTACTTCATATATT
1 TTACTTCATATATA
58364833 TTAC
1 TTAC
58364837 AAGAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (14 bp):
TTACTTCATATATA
Found at i:58367863 original size:15 final size:15
Alignment explanation
Indices: 58367843--58367891 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
58367833 GGTAAAAATT
58367843 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
58367858 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
58367869 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
58367884 TTGGGGGA
1 TTGGGGGA
58367892 AATTTGGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 2 0.07
14 5 0.18
15 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.53, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:58367873 original size:26 final size:26
Alignment explanation
Indices: 58367842--58367902 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
58367832 GGGTAAAAAT
58367842 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
58367868 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTGGGGGAAA
58367894 TTTGGGGGA
1 TTTGGGGGA
58367903 AATCGGGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.51, T:0.21
Consensus pattern (26 bp):
TTTGGGGGAGAAGAAGTTGGGGGAAA
Done.