Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 129 of 425
Found at i:38564888 original size:71 final size:71
Alignment explanation
Indices: 38564754--38564896 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
38564744 TGCTTTATCA
*
38564754 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
38564819 CCCTTT
66 CCCTTT
* * *
38564825 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCATA
38564888 AGCCCTTT
64 AGCCCTTT
38564896 T
1 T
38564897 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 27 0.41
71 39 0.59
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
CCCTTT
Found at i:38564896 original size:48 final size:47
Alignment explanation
Indices: 38564755--38564896 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
38564745 GCTTTATCAT
* *
38564755 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
38564803 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
38564850 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
38564897 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 18 0.20
47 35 0.40
48 35 0.40
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:38564972 original size:20 final size:20
Alignment explanation
Indices: 38564947--38565006 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
38564937 TATGATTACC
38564947 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
38564967 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
38564987 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38565007 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:38564977 original size:11 final size:11
Alignment explanation
Indices: 38564947--38565001 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38564937 TATGATTACC
38564947 TCATGTGCATA
1 TCATGTGCATA
*
38564958 TCA--TACATA
1 TCATGTGCATA
38564967 TCATGTGCATA
1 TCATGTGCATA
* *
38564978 TCA--TACATT
1 TCATGTGCATA
38564987 TCATGTGCATA
1 TCATGTGCATA
38564998 TCAT
1 TCAT
38565002 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:38565081 original size:25 final size:25
Alignment explanation
Indices: 38565049--38565096 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38565039 ATACATAAAC
* * *
38565049 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
38565074 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
38565097 CATGGTATAA
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:38572586 original size:31 final size:31
Alignment explanation
Indices: 38572551--38572619 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
38572541 TCATAATACT
38572551 AGCCTTTTCATATTTCATATTACTGGGCCGA
1 AGCCTTTTCATATTTCATATTACTGGGCCGA
38572582 AGCCTTTTCATATTTCATATTACTGGGCCGA
1 AGCCTTTTCATATTTCATATTACTGGGCCGA
38572613 AGCCTTT
1 AGCCTTT
38572620 ACTGTAAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
AGCCTTTTCATATTTCATATTACTGGGCCGA
Found at i:38572862 original size:24 final size:24
Alignment explanation
Indices: 38572811--38572952 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
38572801 GCTTTATCAT
*
38572811 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
38572836 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
38572860 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
38572882 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38572906 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
38572930 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38572953 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 19 0.17
23 5 0.05
24 73 0.67
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38572889 original size:46 final size:48
Alignment explanation
Indices: 38572811--38572951 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 48
38572801 GCTTTATCAT
* * *
38572811 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTCA
**
38572860 ATAACTGGGGCATAAGCCC-TTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCA
38572906 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
38572952 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 40 0.47
47 6 0.07
48 27 0.32
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCA
Found at i:38572912 original size:70 final size:71
Alignment explanation
Indices: 38572810--38572951 Score: 216
Period size: 70 Copynumber: 2.0 Consensus size: 71
38572800 TGCTTTATCA
*
38572810 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
38572875 GCCCTT
66 GCCCTT
* * **
38572881 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
38572944 AGCCCTT
65 AGCCCTT
38572951 T
1 T
38572952 TTCACTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
70 52 0.80
71 13 0.20
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTT
Found at i:38573033 original size:11 final size:11
Alignment explanation
Indices: 38573003--38573056 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38572993 TATGATTACC
38573003 TCATGTGCATA
1 TCATGTGCATA
*
38573014 TCA--TACATA
1 TCATGTGCATA
38573023 TCATGTGCATA
1 TCATGTGCATA
*
38573034 TCA--TACAT-
1 TCATGTGCATA
38573042 TCATGTGCATA
1 TCATGTGCATA
38573053 TCAT
1 TCAT
38573057 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:38573047 original size:19 final size:20
Alignment explanation
Indices: 38573003--38573061 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
38572993 TATGATTACC
38573003 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38573023 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
38573042 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38573062 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:38575306 original size:38 final size:35
Alignment explanation
Indices: 38575247--38575364 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
38575237 TCAATCATGC
*
38575247 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
38575286 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38575317 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38575348 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
38575365 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:38575308 original size:31 final size:31
Alignment explanation
Indices: 38575270--38575364 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
38575260 CCTTTTCATA
*
38575270 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38575301 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38575332 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38575363 TT
1 TT
38575365 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:38575653 original size:47 final size:48
Alignment explanation
Indices: 38575555--38575695 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 48
38575545 GCTTTATCAT
* *
38575555 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC--TTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
38575602 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
38575649 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
38575696 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
45 18 0.21
46 9 0.10
47 37 0.43
48 23 0.26
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:38575657 original size:24 final size:24
Alignment explanation
Indices: 38575555--38575695 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
38575545 GCTTTATCAT
*
38575555 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
38575580 ATAACTGGGGCAAAAGCCC--TTA
1 ATAACTGGGGCATAAGCCCTTTTA
38575602 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
38575625 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38575649 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
38575673 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38575696 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
22 21 0.19
23 23 0.21
24 53 0.49
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38575771 original size:20 final size:20
Alignment explanation
Indices: 38575746--38575805 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
38575736 TATGATTACC
38575746 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
38575766 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
38575786 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38575806 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:38575776 original size:11 final size:11
Alignment explanation
Indices: 38575746--38575800 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38575736 TATGATTACC
38575746 TCATGTGCATA
1 TCATGTGCATA
*
38575757 TCA--TACATA
1 TCATGTGCATA
38575766 TCATGTGCATA
1 TCATGTGCATA
* *
38575777 TCA--TACATT
1 TCATGTGCATA
38575786 TCATGTGCATA
1 TCATGTGCATA
38575797 TCAT
1 TCAT
38575801 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:38575880 original size:25 final size:25
Alignment explanation
Indices: 38575848--38575895 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38575838 ATACATAAAC
* * *
38575848 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
38575873 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
38575896 CATGGTATAA
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:38583376 original size:38 final size:35
Alignment explanation
Indices: 38583317--38583434 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
38583307 TCAATCATGC
*
38583317 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
38583356 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38583387 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
38583418 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
38583435 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:38583378 original size:31 final size:31
Alignment explanation
Indices: 38583340--38583434 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
38583330 CCTTTTCATA
*
38583340 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38583371 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38583402 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
38583433 TT
1 TT
38583435 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:38583677 original size:23 final size:23
Alignment explanation
Indices: 38583647--38583766 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
38583637 CCTAGCCTCT
*
38583647 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
38583670 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
38583693 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
38583716 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
38583740 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
38583764 TTT
1 TTT
38583767 TTCACTTCCT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 47 0.51
24 46 0.49
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:38583729 original size:24 final size:24
Alignment explanation
Indices: 38583626--38583767 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
38583616 GCTTTATCAT
*
38583626 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
38583651 ATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
38583674 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
38583697 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
38583721 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
38583745 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38583768 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 45 0.41
24 54 0.49
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38583759 original size:71 final size:71
Alignment explanation
Indices: 38583625--38583767 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
38583615 TGCTTTATCA
*
38583625 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
38583690 CCCTTT
66 CCCTTT
* * *
38583696 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGCATA
38583759 AGCCCTTT
64 AGCCCTTT
38583767 T
1 T
38583768 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 27 0.41
71 39 0.59
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
CCCTTT
Found at i:38583767 original size:48 final size:47
Alignment explanation
Indices: 38583626--38583767 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
38583616 GCTTTATCAT
* *
38583626 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
38583674 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
38583721 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
38583768 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 18 0.20
47 35 0.40
48 35 0.40
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:38583843 original size:20 final size:20
Alignment explanation
Indices: 38583818--38583877 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
38583808 TATGATTACC
38583818 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
38583838 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
38583858 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
38583878 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:38583848 original size:11 final size:11
Alignment explanation
Indices: 38583818--38583872 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38583808 TATGATTACC
38583818 TCATGTGCATA
1 TCATGTGCATA
*
38583829 TCA--TACATA
1 TCATGTGCATA
38583838 TCATGTGCATA
1 TCATGTGCATA
* *
38583849 TCA--TACATT
1 TCATGTGCATA
38583858 TCATGTGCATA
1 TCATGTGCATA
38583869 TCAT
1 TCAT
38583873 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:38583952 original size:25 final size:25
Alignment explanation
Indices: 38583920--38583967 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38583910 ATACATAAAC
* * *
38583920 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
38583945 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
38583968 CATGGTATAA
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:38591310 original size:25 final size:25
Alignment explanation
Indices: 38591281--38591331 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
38591271 GATACAAGTG
38591281 ACATGTCACTAGGAAACCATGAGTT
1 ACATGTCACTAGGAAACCATGAGTT
38591306 ACATGTCACTAGGAAACCATGAGTT
1 ACATGTCACTAGGAAACCATGAGTT
38591331 A
1 A
38591332 TGTGATCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (25 bp):
ACATGTCACTAGGAAACCATGAGTT
Found at i:38605300 original size:43 final size:43
Alignment explanation
Indices: 38605211--38605317 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
38605201 TGAGATTTCT
****
38605211 TGTAAGACCATATCTGGGATA-TAGCATCGATATAAGATTTTG
1 TGTAAGACCATATCTGGGATATTAGCATCGATATAAGATCCCA
* *
38605253 TGTAAGACCATAGT-TGGGATATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATA-TCTGGGATATTAGCATCGATATAAGATCCCA
38605296 TGTAAGACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGATAT
38605318 GACATTGGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 20 0.36
43 36 0.64
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATATTAGCATCGATATAAGATCCCA
Found at i:38606541 original size:30 final size:30
Alignment explanation
Indices: 38606507--38606566 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
38606497 ACCACTCCCA
*
38606507 ATGCATGTTTTGGGCATTGTTGGCTCGTTT
1 ATGCATGTTTTGAGCATTGTTGGCTCGTTT
** *
38606537 ATGCATGTTTTGATTATTGTTGGCTTGTTT
1 ATGCATGTTTTGAGCATTGTTGGCTCGTTT
38606567 TAGGGACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.10, G:0.27, T:0.52
Consensus pattern (30 bp):
ATGCATGTTTTGAGCATTGTTGGCTCGTTT
Found at i:38607058 original size:6 final size:6
Alignment explanation
Indices: 38607031--38607083 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
38607021 AGGTGTGCAC
* *
38607031 CTGTAT CTATA- CTTGTAT CTGTAC CTGTAT CTGTAT CTGTATT CTGTAT
1 CTGTAT CTGTAT C-TGTAT CTGTAT CTGTAT CTGTAT CTGTA-T CTGTAT
38607080 CTGT
1 CTGT
38607084 TTTAGGGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 1 0.03
6 32 0.80
7 7 0.17
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
CTGTAT
Found at i:38608682 original size:43 final size:43
Alignment explanation
Indices: 38608561--38608718 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
38608551 AGCTCGTACA
* * *
38608561 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATTAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CG
** *
38608604 ATGCC-ACTGTCCCAGACAAGATCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAATCAAATACG
*
38608646 ATGCCAACGTCCCTA-ACGTGGTCTTACACGTAAATCATAAGT-CA
1 ATGCCAACGTCCC-AGACGTGGTCTTACACGTAAATCA-AA-TACG
*
38608690 ATGCCAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
38608719 AATAACACAT
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
42 26 0.27
43 40 0.42
44 29 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACG
Found at i:38609920 original size:15 final size:15
Alignment explanation
Indices: 38609900--38609930 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38609890 TCTGACTTAG
*
38609900 ATTTGTGGTCTTGAA
1 ATTTGTGGTCCTGAA
38609915 ATTTGTGGTCCTGAA
1 ATTTGTGGTCCTGAA
38609930 A
1 A
38609931 CCACTATTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (15 bp):
ATTTGTGGTCCTGAA
Found at i:38614571 original size:38 final size:38
Alignment explanation
Indices: 38614487--38614676 Score: 202
Period size: 38 Copynumber: 4.9 Consensus size: 38
38614477 GAATCCAGTC
* * * *
38614487 ACCAGCACAAAACCTGCGGAACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGAATATAAT
* *
38614527 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
* * *
38614565 ACCAGCACGAAGCCTGTGGGATTTAACCTGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
* * *
38614603 ACCAGCACGAAGCCTGTGGGATTTAACTCAAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
* *
38614641 ACCAGTATGAAGCCTGC-GGACCTTTAAGCCCGAATA
1 ACCAGCACGAAGCCTGCGGGA--TTTAA-CCCGAATA
38614677 CACATCAAAT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 3 0.02
38 93 0.72
39 10 0.08
40 24 0.18
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGAATATAAT
Found at i:38624397 original size:26 final size:27
Alignment explanation
Indices: 38624368--38624427 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
38624358 GTGGCTTAAT
*
38624368 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
38624394 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
38624421 ATATCTG
1 ATATCTG
38624428 GGAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:38626832 original size:40 final size:40
Alignment explanation
Indices: 38626773--38626855 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
38626763 TGGATATACT
* *
38626773 GAGGCTCGTCAGCCGGCGTTGGTGTATGCAGCTCATCGCC
1 GAGGCTCGTCAGCCAGCGTTGGTGTACGCAGCTCATCGCC
*
38626813 GAGGCTCGTCAGCCAGCGTTGGTGTACGTAGCTCATCGCC
1 GAGGCTCGTCAGCCAGCGTTGGTGTACGCAGCTCATCGCC
38626853 GAG
1 GAG
38626856 AGAAGGTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.14, C:0.29, G:0.35, T:0.22
Consensus pattern (40 bp):
GAGGCTCGTCAGCCAGCGTTGGTGTACGCAGCTCATCGCC
Found at i:38629213 original size:40 final size:40
Alignment explanation
Indices: 38629158--38629367 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
38629148 AACATTGGAA
38629158 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
38629198 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
38629238 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
38629278 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
38629317 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
38629358 CTATATCCGG
1 ATATATCCGG
38629368 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:38637987 original size:46 final size:46
Alignment explanation
Indices: 38637920--38638094 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
38637910 TGTAACGTGC
38637920 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
38637966 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
38638016 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
38638059 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
38638095 ATGGTCAACC
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 60 0.58
47 26 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:38638035 original size:93 final size:93
Alignment explanation
Indices: 38637927--38638097 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38637917 TGCCCATAAG
* *
38637927 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTC-AGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGA-ACTCAACTC
38637991 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
*
38638020 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
38638085 ACGAGTTCGGATG
66 ACGAGTTCGGATG
38638098 GTCAACCATC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:38643696 original size:40 final size:40
Alignment explanation
Indices: 38643652--38643837 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
38643642 GCTACTCGTT
* * *
38643652 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38643692 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38643732 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38643772 CAAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
38643813 CAAA-GGCTTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38643838 CATCATTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38645924 original size:70 final size:71
Alignment explanation
Indices: 38645841--38646003 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
38645831 CGATTTGTCT
38645841 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38645905 CTTTCA
66 CTTTCA
*
38645911 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38645976 CTTTCA
66 CTTTCA
38645982 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38646004 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38646041 original size:71 final size:70
Alignment explanation
Indices: 38645841--38646037 Score: 267
Period size: 70 Copynumber: 2.8 Consensus size: 70
38645831 CGATTTGTCT
* * *
38645841 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
38645905 CTTTCA
65 CTTTCA
* * *
38645911 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
38645976 CTTTCA
65 CTTTCA
* *
38645982 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
38646038 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38654739 original size:39 final size:39
Alignment explanation
Indices: 38654539--38654739 Score: 194
Period size: 39 Copynumber: 5.1 Consensus size: 39
38654529 CGAGTTTAAT
** * *
38654539 CGGATATAGCT-ACTCGTTCAAATACCTTCGGGACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCC
* * *
38654579 CGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTATCC
1 CGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCC
* *
38654619 C-GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG-T
1 CGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGCC
* * *
38654657 CTGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGCC
* *
38654697 CGGATATAGTCACTTAGCACAAA-GCCTTCGGACTTAGCC
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGACTTAGCC
38654736 CGGA
1 CGGA
38654740 CATCATTCGA
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
38 4 0.03
39 75 0.54
40 51 0.37
41 8 0.06
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCC
Found at i:38662488 original size:18 final size:18
Alignment explanation
Indices: 38662465--38662505 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
38662455 ATGAGGAGAT
38662465 GTCACTGAATAACTATCA
1 GTCACTGAATAACTATCA
38662483 GTCACTGAATAACTATCA
1 GTCACTGAATAACTATCA
38662501 GTCAC
1 GTCAC
38662506 CATGCTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (18 bp):
GTCACTGAATAACTATCA
Found at i:38666679 original size:6 final size:6
Alignment explanation
Indices: 38666670--38666702 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
38666660 TTTATTCTTA
*
38666670 TTTTTC -TTTTA TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
38666703 GAATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:38666680 original size:17 final size:17
Alignment explanation
Indices: 38666650--38666696 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
38666640 TGACTTCTTC
*
38666650 TATTTTTTTATTTATTCT
1 TATTTTTCT-TTTATTCT
*
38666668 TATTTTTCTTTTATTTT
1 TATTTTTCTTTTATTCT
*
38666685 TCTTTTTCTTTT
1 TATTTTTCTTTT
38666697 TCTTTTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TATTTTTCTTTTATTCT
Found at i:38666709 original size:12 final size:11
Alignment explanation
Indices: 38666655--38666702 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
38666645 TCTTCTATTT
38666655 TTTTATTTATTC
1 TTTTATTT-TTC
38666667 --TTATTTTTC
1 TTTTATTTTTC
38666676 TTTTATTTTTC
1 TTTTATTTTTC
*
38666687 TTTTTCTTTTTC
1 -TTTTATTTTTC
38666699 TTTT
1 TTTT
38666703 GAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 3 0.09
10 6 0.19
11 13 0.41
12 10 0.31
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:38666714 original size:17 final size:17
Alignment explanation
Indices: 38666694--38666729 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38666684 TTCTTTTTCT
* *
38666694 TTTTCTTTTGAATTTTA
1 TTTTCATTTCAATTTTA
38666711 TTTTCATTTCAATTTTA
1 TTTTCATTTCAATTTTA
38666728 TT
1 TT
38666730 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTCATTTCAATTTTA
Found at i:38670054 original size:27 final size:28
Alignment explanation
Indices: 38669997--38670066 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38669987 AAATTTGTAC
**
38669997 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38670025 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38670052 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38670067 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38677796 original size:42 final size:42
Alignment explanation
Indices: 38677749--38677852 Score: 190
Period size: 42 Copynumber: 2.5 Consensus size: 42
38677739 TGGTCTCGGT
38677749 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
1 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
*
38677791 ACTAAGTGTGCAGGTATAAATGGACACGGTGACAAGATTGGC
1 ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
*
38677833 ACTAAGTGTGCGGGTTTAAA
1 ACTAAGTGTGCGGGTATAAA
38677853 ATTTGTACAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (42 bp):
ACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTGGC
Found at i:38677918 original size:27 final size:28
Alignment explanation
Indices: 38677861--38677930 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38677851 AAATTTGTAC
**
38677861 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38677889 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38677916 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38677931 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38680821 original size:12 final size:12
Alignment explanation
Indices: 38680804--38680842 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
38680794 CTAGGATTTT
38680804 AAATAAATAAAA
1 AAATAAATAAAA
38680816 AAATAAATAAATAA
1 AAATAAAT-AA-AA
38680830 AAATAAAATAAAA
1 AAAT-AAATAAAA
38680843 GTTCCAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
14 8 0.33
15 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:38680824 original size:16 final size:16
Alignment explanation
Indices: 38680803--38680841 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
38680793 ACTAGGATTT
38680803 TAAATAAATAAAAAAA
1 TAAATAAATAAAAAAA
*
38680819 TAAATAAATAAAAATA
1 TAAATAAATAAAAAAA
38680835 -AAATAAA
1 TAAATAAA
38680842 AGTTCCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAATAAATAAAAAAA
Found at i:38680946 original size:26 final size:26
Alignment explanation
Indices: 38680917--38680970 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38680907 CATTTCTTAA
38680917 GTTAGAATTACTAAACTCATGTTTAT
1 GTTAGAATTACTAAACTCATGTTTAT
38680943 GTTAGAATTACTAAACTCATGTTTAT
1 GTTAGAATTACTAAACTCATGTTTAT
38680969 GT
1 GT
38680971 CGTTACGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (26 bp):
GTTAGAATTACTAAACTCATGTTTAT
Found at i:38683351 original size:21 final size:22
Alignment explanation
Indices: 38683310--38683355 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
38683300 TTTTACAATT
38683310 TTTTTTCAAACTTTTTCTTTTG
1 TTTTTTCAAACTTTTTCTTTTG
*
38683332 TTTTTTCCAA-TTTATT-TTTTG
1 TTTTTTCAAACTTT-TTCTTTTG
38683353 TTT
1 TTT
38683356 CAATCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTTCAAACTTTTTCTTTTG
Found at i:38686503 original size:40 final size:40
Alignment explanation
Indices: 38686444--38686585 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
38686434 AAATTGAATG
* * *
38686444 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
38686484 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
38686524 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
38686564 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
38686586 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:38686586 original size:40 final size:39
Alignment explanation
Indices: 38686483--38686611 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
38686473 TGCTGGAAAT
* * *
38686483 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
38686523 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
38686563 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
38686603 TATATCCGG
1 TATATCCGG
38686612 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:38694607 original size:39 final size:40
Alignment explanation
Indices: 38694481--38694609 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 40
38694471 TATGCTGGAA
* * *
38694481 ATTATATCCGGGTTAAGACCCGAAGGCAATTGT-CTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
38694520 GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
38694560 ATTCTATCC-GGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
38694599 ATTATATCCGG
1 ATTATATCCGG
38694610 TTATATTCCG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 62 0.84
40 11 0.15
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:38712691 original size:68 final size:66
Alignment explanation
Indices: 38712614--38712785 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
38712604 CATCATGTGT
* * * *
38712614 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACAAGTGAAGGACACCA
38712677 TGTAG
62 TGTAG
** * *
38712682 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACAA-GTGAAGGACACCATGT
38712747 AG
65 AG
* * * *
38712749 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
38712786 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACAAGTGAAGGACACCATGTA
G
Found at i:38712719 original size:64 final size:64
Alignment explanation
Indices: 38712638--38712821 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
38712628 AGACATTATG
* * *
38712638 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
38712702 ATGTAGCTAGGTCGCATGCGTGGTTCAAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38712767 AA
63 AA
* * *
38712769 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38712822 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:38723747 original size:28 final size:28
Alignment explanation
Indices: 38723712--38723766 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
38723702 GGGTATATTG
38723712 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTGCTCTTTAGGGGTAATTTCA
38723740 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAGGGGTAATTTC
38723767 GTGATCTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCA
Found at i:38725416 original size:20 final size:20
Alignment explanation
Indices: 38725393--38725430 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38725383 CACATCCAAA
*
38725393 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
38725413 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
38725431 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:38731728 original size:26 final size:27
Alignment explanation
Indices: 38731698--38731759 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
38731688 ATTTAAACCC
*
38731698 TAGGGGTATAT-GGTAATTTTGCTCTT
1 TAGGGGTATATCAGTAATTTTGCTCTT
*
38731724 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGT-ATATCAGTAATTTTGCTCTT
38731752 TAGGGGTA
1 TAGGGGTA
38731760 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 7 0.22
27 4 0.12
28 21 0.66
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCAGTAATTTTGCTCTT
Found at i:38731745 original size:28 final size:28
Alignment explanation
Indices: 38731710--38731764 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
38731700 GGGGTATATG
38731710 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTGCTCTTTAGGGGTAATTTCA
38731738 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAGGGGTAATTTC
38731765 GTGATCTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCA
Found at i:38733415 original size:20 final size:20
Alignment explanation
Indices: 38733392--38733429 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38733382 CACATCCAAA
*
38733392 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
38733412 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
38733430 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:38735673 original size:39 final size:39
Alignment explanation
Indices: 38735619--38735890 Score: 427
Period size: 39 Copynumber: 7.0 Consensus size: 39
38735609 AAGACACTGA
*
38735619 AAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
38735658 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTTCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
38735697 AAATATATCCGGGCCAAAGTCCTGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
38735736 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
38735775 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
38735814 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTACTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
38735853 AAATGTATTCGGGTTAAAGTCCCGTAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
38735891 ATAATATAAT
Statistics
Matches: 214, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 214 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:38740513 original size:21 final size:22
Alignment explanation
Indices: 38740482--38740522 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38740472 TAATGTATTG
*
38740482 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
38740504 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
38740523 CATAAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:38744911 original size:24 final size:24
Alignment explanation
Indices: 38744879--38744925 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38744869 TTATAATGTG
* * *
38744879 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
38744903 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38744926 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:38744992 original size:20 final size:20
Alignment explanation
Indices: 38744969--38745006 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38744959 TAAACATGGT
38744969 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
38744989 ATGTATGGTATGCACATG
1 ATGTATGATATGCACATG
38745007 CTGTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:38745123 original size:22 final size:23
Alignment explanation
Indices: 38745059--38745153 Score: 147
Period size: 23 Copynumber: 4.1 Consensus size: 23
38745049 AGGAAGTGAA
38745059 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38745082 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38745105 AAAGGGCTTAT-ACCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
38745127 AAAAGGGCTTTTGCCCCAATTATT
1 -AAAGGGCTTATGCCCCAGTTATT
38745151 AAA
1 AAA
38745154 AGAGGCTAGG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
22 10 0.15
23 47 0.71
24 9 0.14
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:38745174 original size:25 final size:24
Alignment explanation
Indices: 38745058--38745174 Score: 125
Period size: 23 Copynumber: 5.0 Consensus size: 24
38745048 GAGGAAGTGA
*
38745058 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
38745082 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
**
38745105 -AAAGGGCTTA-TACCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
** *
38745127 AAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
38745151 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
38745175 ATGATAAAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
22 10 0.12
23 42 0.52
24 18 0.22
25 10 0.12
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:38745406 original size:31 final size:31
Alignment explanation
Indices: 38745368--38745431 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
38745358 CATTTACAAT
38745368 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38745399 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38745430 AA
1 AA
38745432 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38757412 original size:28 final size:28
Alignment explanation
Indices: 38757372--38757471 Score: 148
Period size: 28 Copynumber: 3.5 Consensus size: 28
38757362 AAATTTTTAC
*
38757372 AGCACTAAGTGTGCGAGTTTGAT-TATAT
1 AGCACTAAGTGTGCGAG-CTGATATATAT
38757400 AGCACTAAGTGTGCGAGCTGAATATATATAT
1 AGCACTAAGTGTGCGAGCTG---ATATATAT
38757431 AGCACTAAGTGTGCGAGCTGATATATAT
1 AGCACTAAGTGTGCGAGCTGATATATAT
38757459 AGCACTAAGTGTG
1 AGCACTAAGTGTG
38757472 GGACTCACTA
Statistics
Matches: 67, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
27 2 0.03
28 38 0.57
30 2 0.03
31 25 0.37
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGATATATAT
Found at i:38761627 original size:40 final size:40
Alignment explanation
Indices: 38761568--38761775 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
38761558 CAATTGAATG
* * * *
38761568 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
38761608 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
38761648 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
38761688 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
38761728 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
38761768 ATATCCGG
1 ATATCCGG
38761776 TTGTTTCCGA
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:38761706 original size:80 final size:80
Alignment explanation
Indices: 38761569--38761775 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
38761559 AATTGAATGA
* * ** * * *
38761569 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
38761634 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
38761647 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
38761712 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
38761729 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
38761776 TTGTTTCCGA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:38764749 original size:20 final size:20
Alignment explanation
Indices: 38764720--38764764 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
38764710 ATTTTGATAA
*
38764720 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
38764740 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38764760 ACATG
1 ACATG
38764765 TTGTATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38764847 original size:23 final size:23
Alignment explanation
Indices: 38764817--38764936 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
38764807 AGGAAGTGAA
38764817 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT
*
38764840 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT
38764863 AAAAGGGCTTATGCCCTAGTTATT
1 -AAAGGGCTTATGCCCTAGTTATT
* *
38764887 AAAGGTCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATT
*
38764910 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCTAGTTATT
38764934 AAA
1 AAA
38764937 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 46 0.52
24 42 0.48
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCTAGTTATT
Found at i:38764872 original size:24 final size:24
Alignment explanation
Indices: 38764816--38764957 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
38764806 GAGGAAGTGA
*
38764816 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38764840 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38764863 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38764887 -AAAGGTCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
38764910 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38764934 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38764958 ATGATAAAGC
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
23 43 0.41
24 51 0.49
25 10 0.10
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38764885 original size:47 final size:47
Alignment explanation
Indices: 38764816--38764936 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
38764806 GAGGAAGTGA
38764816 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
38764863 AAAAGGGCTTATGCCCTAGTTATTAAAGGTCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
38764910 AAAAGGGCTTTTGCCCTAGTTATTAAA
1 AAAAGGGCTTATGCCCTAGTTATTAAA
38764937 AGAGGCTAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:38765186 original size:31 final size:31
Alignment explanation
Indices: 38765151--38765214 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
38765141 CGTTTACAGT
38765151 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38765182 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38765213 AA
1 AA
38765215 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38769384 original size:41 final size:41
Alignment explanation
Indices: 38769273--38769385 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 41
38769263 ATGGTGATAT
* * * *
38769273 TCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATGAAA
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCCGGGGAATAAAA
* * * *
38769314 TCGGGC-TT-ATGCCTAGC-GGGCTTATTGCCGGGGTATAAAA
1 TCAGGCTTTGA-GCCTAGCAGGCCTT-GTGCCGGGGAATAAAA
*
38769354 TCAGGCTTTGAGTCTAGCAGGCCTTGTGCCGG
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCCGG
38769386 TGTGAGATGC
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
39 5 0.09
40 25 0.45
41 19 0.35
42 6 0.11
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (41 bp):
TCAGGCTTTGAGCCTAGCAGGCCTTGTGCCGGGGAATAAAA
Found at i:38769596 original size:21 final size:22
Alignment explanation
Indices: 38769565--38769605 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38769555 TAATGTATTG
*
38769565 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
38769587 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
38769606 CATAAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:38772698 original size:51 final size:51
Alignment explanation
Indices: 38772616--38772747 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 51
38772606 CGGTACACAA
* * * *
38772616 AGTACATCATCGGAACAAATCCAGAACAGTAACAGTAACAGTCAGGTACGG
1 AGTACCTCTTCGGAACGAATCCGGAACAGTAACAGTAACAGTCAGGTACGG
* * * *
38772667 AGTACCTCTTCGGAACGAATCTGGAATAGTAACAGTAACTGTCAGGTATGG
1 AGTACCTCTTCGGAACGAATCCGGAACAGTAACAGTAACAGTCAGGTACGG
*
38772718 AGTACCTCTTCGGAATGAATCCGGAACAGT
1 AGTACCTCTTCGGAACGAATCCGGAACAGT
38772748 CATAGTGGTC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (51 bp):
AGTACCTCTTCGGAACGAATCCGGAACAGTAACAGTAACAGTCAGGTACGG
Found at i:38773741 original size:4 final size:4
Alignment explanation
Indices: 38773732--38773774 Score: 59
Period size: 4 Copynumber: 10.2 Consensus size: 4
38773722 CTTTTCTCCA
*
38773732 TTTC TTTC TTTC TTTT TTTCC TTTC TTTC TTTCC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTT-C TTTC TTTC T
38773775 CCCCTATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:38773746 original size:21 final size:20
Alignment explanation
Indices: 38773722--38773770 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
38773712 TCGATTTTCC
38773722 CTTTTCTCCATTTCTTTCTTT
1 CTTTTCTCC-TTTCTTTCTTT
*
38773743 CTTTTTTTCCTTTCTTTCTTT
1 C-TTTTCTCCTTTCTTTCTTT
*
38773764 CCTTTCT
1 CTTTTCT
38773771 TTCTCCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTTCTCCTTTCTTTCTTT
Found at i:38773755 original size:13 final size:13
Alignment explanation
Indices: 38773732--38773774 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
38773722 CTTTTCTCCA
38773732 TTTCTTT-CTTTC
1 TTTCTTTCCTTTC
*
38773744 TTTTTTTCCTTTC
1 TTTCTTTCCTTTC
38773757 TTTCTTTCCTTTC
1 TTTCTTTCCTTTC
38773770 TTTCT
1 TTTCT
38773775 CCCCTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTCCTTTC
Found at i:38773772 original size:17 final size:16
Alignment explanation
Indices: 38773732--38773774 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
38773722 CTTTTCTCCA
*
38773732 TTTCTTTCTTTCTTTT
1 TTTCTTTCTTTCTTTC
38773748 TTTCCTTTCTTTCTTTCC
1 TTT-CTTTCTTTCTTT-C
38773766 TTTCTTTCT
1 TTTCTTTCT
38773775 CCCCTATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCTTTCTTTC
Found at i:38773809 original size:22 final size:21
Alignment explanation
Indices: 38773784--38773846 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 21
38773774 TCCCCTATTC
*
38773784 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
38773806 TTCTCTTTTTCATTTCTTT-T
1 TTCTCTGTTTCATTTCTTTGT
* *
38773826 TTTTC-ATTT-ATTTCTTTGT
1 TTCTCTGTTTCATTTCTTTGT
38773845 TT
1 TT
38773847 TTATTATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
20 5 0.14
21 4 0.11
22 13 0.36
ACGTcount: A:0.05, C:0.16, G:0.08, T:0.71
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:38776339 original size:20 final size:20
Alignment explanation
Indices: 38776314--38776356 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
38776304 ATAGCTTAGT
38776314 AACCTCATATGAAAGAAGTA
1 AACCTCATATGAAAGAAGTA
38776334 AACCTCATATGAAAGAAGTA
1 AACCTCATATGAAAGAAGTA
38776354 AAC
1 AAC
38776357 AATTCTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (20 bp):
AACCTCATATGAAAGAAGTA
Found at i:38785882 original size:39 final size:39
Alignment explanation
Indices: 38785823--38786046 Score: 306
Period size: 39 Copynumber: 5.7 Consensus size: 39
38785813 TTCCAACACA
* *
38785823 AATGCCTTCGGGACTAAGCCCGGATATAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * * *
38785862 AATACCTTCAGGACTTAGCCCGGATATAACACCAACACA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
38785901 AATGCCTTCGGGACTTAGCCTGGATGTAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
38785940 AATGCCTTCGGGACTTAGCCCAGACATAACACCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
**
38785979 AATGCCTTCGGGACTTAGCCCTAATATAACACCTA-CACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACC-AGCACG
*
38786018 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
38786047 ATCTCACACA
Statistics
Matches: 161, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 160 0.99
40 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:38788016 original size:70 final size:71
Alignment explanation
Indices: 38787933--38788095 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
38787923 CGATTTGTCT
38787933 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38787997 CTTTCA
66 CTTTCA
*
38788003 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38788068 CTTTCA
66 CTTTCA
38788074 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38788096 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38788133 original size:71 final size:70
Alignment explanation
Indices: 38787933--38788129 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
38787923 CGATTTGTCT
* * * *
38787933 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38787997 CTTTCA
65 CTTTCA
* * * *
38788003 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38788068 CTTTCA
65 CTTTCA
* *
38788074 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38788130 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38795570 original size:70 final size:71
Alignment explanation
Indices: 38795487--38795649 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
38795477 CGATTTGTCT
38795487 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38795551 CTTTCA
66 CTTTCA
*
38795557 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38795622 CTTTCA
66 CTTTCA
38795628 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38795650 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38795687 original size:71 final size:70
Alignment explanation
Indices: 38795487--38795683 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
38795477 CGATTTGTCT
* * * *
38795487 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38795551 CTTTCA
65 CTTTCA
* * * *
38795557 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38795622 CTTTCA
65 CTTTCA
* *
38795628 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38795684 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38801560 original size:16 final size:17
Alignment explanation
Indices: 38801528--38801560 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38801518 ACATTTCACA
38801528 TAGTAAGCTTTGAATCT
1 TAGTAAGCTTTGAATCT
*
38801545 TAGTAAG-TTTGCATCT
1 TAGTAAGCTTTGAATCT
38801561 AATATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (17 bp):
TAGTAAGCTTTGAATCT
Found at i:38803687 original size:17 final size:17
Alignment explanation
Indices: 38803665--38803706 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
38803655 GTTTAATATA
38803665 GCAAAAAGGGCTAAATT
1 GCAAAAAGGGCTAAATT
38803682 GCAAAAAGGGCTAAATT
1 GCAAAAAGGGCTAAATT
38803699 GCAAAAAG
1 GCAAAAAG
38803707 TGCAAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.14
Consensus pattern (17 bp):
GCAAAAAGGGCTAAATT
Found at i:38806433 original size:47 final size:46
Alignment explanation
Indices: 38806339--38806468 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 46
38806329 GTGTGAATAA
* **
38806339 TACATTGATTTGGCTACGGGCCATGATATAGGTATTTTGAAAGAAGT
1 TACATTGATTTGGCTACGGGCCATG-TATAGGTACTCCGAAAGAAGT
** *
38806386 TACATTGATTTGGCTACGGGCCATAGTATAGGTACTCCGGGATAAGT
1 TACATTGATTTGGCTACGGGCCAT-GTATAGGTACTCCGAAAGAAGT
* * **
38806433 TACCTTGATTTGGCGACGAACCATGGTATAGGTACT
1 TACATTGATTTGGCTACGGGCCAT-GTATAGGTACT
38806469 TATCAATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 70 0.99
48 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (46 bp):
TACATTGATTTGGCTACGGGCCATGTATAGGTACTCCGAAAGAAGT
Found at i:38808792 original size:46 final size:46
Alignment explanation
Indices: 38808742--38808913 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
38808732 TGAGCATCCA
*
38808742 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
38808788 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * *
38808835 AACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* *
38808881 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38808914 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:38808894 original size:93 final size:93
Alignment explanation
Indices: 38808735--38808906 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
38808725 GGATGGTTGA
* * *
38808735 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
38808800 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
38808828 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
38808893 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38808907 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38810439 original size:20 final size:20
Alignment explanation
Indices: 38810400--38810439 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
38810390 TAGGAATGTA
* *
38810400 AAATTTTTCTAAGTGTTCGG
1 AAATTTTTATAAGTGATCGG
*
38810420 AAATTTTTATATGTGATCGG
1 AAATTTTTATAAGTGATCGG
38810440 TTTAGTCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (20 bp):
AAATTTTTATAAGTGATCGG
Found at i:38812927 original size:24 final size:24
Alignment explanation
Indices: 38812875--38813041 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
38812865 GCTTTATCAT
* *
38812875 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
38812900 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
*
38812924 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
38812947 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
38812971 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
38812995 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
38813019 ATAAGTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38813042 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 22 0.17
24 99 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:38813113 original size:9 final size:9
Alignment explanation
Indices: 38813099--38813175 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
38813089 ATCTCGTGTG
38813099 CATATCATA
1 CATATCATA
*
38813108 CATATCATGTG
1 CATATCA--TA
38813119 CATATCATA
1 CATATCATA
* *
38813128 CATGTCATGTG
1 CATATCA--TA
38813139 CATATCATA
1 CATATCATA
*
38813148 CATATCATGTG
1 CATATCA--TA
38813159 CATATCATA
1 CATATCATA
38813168 CATATCAT
1 CATATCAT
38813176 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:38813118 original size:20 final size:20
Alignment explanation
Indices: 38813095--38813177 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
38813085 GAACATCTCG
38813095 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
38813115 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
38813135 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
38813155 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
38813175 TGT
1 TGT
38813178 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:38813124 original size:11 final size:11
Alignment explanation
Indices: 38813095--38813166 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
38813085 GAACATCTCG
38813095 TGTGCATATCA
1 TGTGCATATCA
*
38813106 --TACATATCA
1 TGTGCATATCA
38813115 TGTGCATATCA
1 TGTGCATATCA
* *
38813126 --TACATGTCA
1 TGTGCATATCA
38813135 TGTGCATATCA
1 TGTGCATATCA
*
38813146 --TACATATCA
1 TGTGCATATCA
38813155 TGTGCATATCA
1 TGTGCATATCA
38813166 T
1 T
38813167 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:38814533 original size:27 final size:27
Alignment explanation
Indices: 38814503--38815030 Score: 607
Period size: 27 Copynumber: 19.6 Consensus size: 27
38814493 GGTATTTTAA
* *
38814503 TAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
38814530 TAATTCTGTAACTCAAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
38814557 TAATTTTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
** *
38814584 TAATTCTACAAATTGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * **
38814611 TAGTTCTGTAAATCAAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
38814638 TAATTATGTAAATCGGGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
38814665 TAATTATGTAAAT-TAGGGGTAAAACGG
1 TAATTCTGTAAATCGA-GGGTAAAACGG
* **
38814692 TAATTCTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
38814719 TAATTCTGTAAA-CTGAGGGTAAAACGG
1 TAATTCTGTAAATC-GAGGGTAAAACGG
38814746 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* **
38814773 TAATTTTACAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
38814800 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* ***
38814827 TAATTCTGTAAATCAAGGGTAAAATAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
38814854 TAATTCTGTAAA-CTGAGGGTAAAACGG
1 TAATTCTGTAAATC-GAGGGTAAAACGG
**
38814881 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
38814908 TAATTCTGTAAA-CTGAGGGTAAAACGG
1 TAATTCTGTAAATC-GAGGGTAAAACGG
*
38814935 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* ** **
38814962 TAATTTTACAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
38814989 TAATTCTATAAA-CTGAGGGTAAAACGG
1 TAATTCTGTAAATC-GAGGGTAAAACGG
38815016 TAATTCTGTAAATCG
1 TAATTCTGTAAATCG
38815031 GGAGTACTTT
Statistics
Matches: 423, Mismatches: 68, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.01
27 414 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:38816294 original size:29 final size:29
Alignment explanation
Indices: 38816253--38816445 Score: 314
Period size: 29 Copynumber: 6.7 Consensus size: 29
38816243 ATAAACGATC
*** *
38816253 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
* *
38816282 TCGCATACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
38816311 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
38816340 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
38816369 TCGCACAATTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
38816398 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
38816427 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
38816446 CCTTCCAAGC
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 152 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:38816461 original size:87 final size:87
Alignment explanation
Indices: 38816253--38816472 Score: 291
Period size: 87 Copynumber: 2.5 Consensus size: 87
38816243 ATAAACGATC
*** * * * *
38816253 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCATACA-TAGTGCCATATAATTTAAGTTTGCAC
1 TCGCACACTTAGTGCCATATAATTCAAGCCCGCACA-ATTAGTGCCATATAATTTAAGTTCGCAC
38816317 ACTTAGTGCCATATAATTTAAGT
65 ACTTAGTGCCATATAATTTAAGT
* **
38816340 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACAATTAGTGCCATATAATTTAAGTTCGCACA
1 TCGCACACTTAGTGCCATATAATTCAAGCCCGCACAATTAGTGCCATATAATTTAAGTTCGCACA
38816405 CTTAGTGCCATATAATTTAAGT
66 CTTAGTGCCATATAATTTAAGT
** *
38816427 TCGCACACTTAGTGCCATA-CCTTCCAAGCCCGCACATTTAGTGCCA
1 TCGCACACTTAGTGCCATATAATT-CAAGCCCGCACAATTAGTGCCA
38816473 ATCTTGTCAC
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
86 3 0.03
87 116 0.97
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (87 bp):
TCGCACACTTAGTGCCATATAATTCAAGCCCGCACAATTAGTGCCATATAATTTAAGTTCGCACA
CTTAGTGCCATATAATTTAAGT
Found at i:38824339 original size:29 final size:29
Alignment explanation
Indices: 38824298--38824432 Score: 198
Period size: 29 Copynumber: 4.7 Consensus size: 29
38824288 ATAAACGATC
*** *
38824298 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
38824327 TCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
* *
38824356 TTGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
38824385 TCGCACACTTAGTGTCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
38824414 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
38824433 CCTTCCAAGC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:38824369 original size:58 final size:58
Alignment explanation
Indices: 38824298--38824459 Score: 200
Period size: 58 Copynumber: 2.8 Consensus size: 58
38824288 ATAAACGATC
* *
38824298 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
* * * * * *
38824356 TTGCACACATAGTGCCATATAATTTAAGTTCGCACACTTAGTGTCATATAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
* * * *
38824414 TCGCACACTTAGTGCCATAC-CTTCCAAGCCCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATACAATT-TAAGCTCGCACACATAGTGCCA
38824460 ATCTTGTCAC
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
57 2 0.02
58 85 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGT
Found at i:38828263 original size:66 final size:68
Alignment explanation
Indices: 38828185--38828371 Score: 263
Period size: 71 Copynumber: 2.7 Consensus size: 68
38828175 TAGTACCACT
*
38828185 CATGCGACCCAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
1 CATGCGACCCAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
38828247 CACG
65 CACG
*
38828251 CATGCGACCCAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGA
38828316 ATCACG
63 ATCACG
*
38828322 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
38828372 GATACATCTC
Statistics
Matches: 112, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 91 0.81
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCCAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATC
ACG
Found at i:38828296 original size:71 final size:71
Alignment explanation
Indices: 38828208--38828371 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
38828198 CGATTTGTCT
38828208 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
38828273 CTTTCA
66 CTTTCA
* *
38828279 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
38828344 CTTTCA
66 CTTTCA
38828350 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38828372 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:38828409 original size:71 final size:70
Alignment explanation
Indices: 38828208--38828405 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
38828198 CGATTTGTCT
* * * * *
38828208 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38828273 CTTTCA
65 CTTTCA
* * * *
38828279 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38828344 CTTTCA
65 CTTTCA
* *
38828350 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38828406 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38835367 original size:70 final size:71
Alignment explanation
Indices: 38835284--38835446 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
38835274 CGATTTGTCT
38835284 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38835348 CTTTCA
66 CTTTCA
*
38835354 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38835419 CTTTCA
66 CTTTCA
38835425 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38835447 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38835484 original size:71 final size:70
Alignment explanation
Indices: 38835284--38835480 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
38835274 CGATTTGTCT
* * * *
38835284 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38835348 CTTTCA
65 CTTTCA
* * * *
38835354 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38835419 CTTTCA
65 CTTTCA
* *
38835425 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38835481 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38842277 original size:29 final size:29
Alignment explanation
Indices: 38842245--38842375 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
38842235 ATTATCGACC
*
38842245 ATGAAAAGGGATGGTGACGACCATCAATT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
*
38842274 ATGAAAAGGGATGCTGACGACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
** ** *
38842303 ATGAAAAGGGATAATTTCGACTATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
* * *
38842332 ATGAAAAAGGATGGTGATGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
*
38842361 ATGAAAAGCGATGGT
1 ATGAAAAGGGATGGT
38842376 TTTGACCATC
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAAAT
Found at i:38843457 original size:49 final size:49
Alignment explanation
Indices: 38843395--38843569 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
38843385 TGAGGTCACG
*
38843395 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * ***
38843444 TGTGAAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-TT-GGTCGCA
*
38843495 TGTGTAGTTCTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
38843544 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38843570 TGCGTACTAG
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 62 0.59
50 6 0.06
51 37 0.35
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:38843567 original size:100 final size:100
Alignment explanation
Indices: 38843394--38843582 Score: 342
Period size: 100 Copynumber: 1.9 Consensus size: 100
38843384 GTGAGGTCAC
*
38843394 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGAAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGAAGTACTAAGT
*
38843459 GCAGGCTACTATGCGTACTCGATAACTTCGATCAT
66 GCAGGCTACTATGCGTACTAGATAACTTCGATCAT
* *
38843494 GTGTGTAGTTCTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGAAGTACTAAGT
38843559 GCAGGCTACTATGCGTACTAGATA
66 GCAGGCTACTATGCGTACTAGATA
38843583 GCTTTGGCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGAAGTACTAAGT
GCAGGCTACTATGCGTACTAGATAACTTCGATCAT
Found at i:38847371 original size:2 final size:2
Alignment explanation
Indices: 38847359--38847391 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
38847349 TTATAATAAG
38847359 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38847392 CATAAAGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38850322 original size:2 final size:2
Alignment explanation
Indices: 38850315--38850345 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38850305 ATATTAGTTT
38850315 TA TA TA 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 TA TA TA T
38850346 TGCGCATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38855217 original size:21 final size:19
Alignment explanation
Indices: 38855185--38855223 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
38855175 TTAAATTTAA
38855185 ATTTAAATTAATTATTTTT
1 ATTTAAATTAATTATTTTT
38855204 ATTTAATATCTAATTATTTT
1 ATTTAA-AT-TAATTATTTT
38855224 AACACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTAAATTAATTATTTTT
Done.