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 220 of 425
Found at i:66728639 original size:46 final size:46
Alignment explanation
Indices: 66728572--66728833 Score: 398
Period size: 46 Copynumber: 5.7 Consensus size: 46
66728562 GGCAACCTGA
66728572 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
66728618 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
66728664 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
66728710 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** * * *
66728756 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
66728802 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
66728834 TCATGTCAAA
Statistics
Matches: 200, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 200 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:66728763 original size:138 final size:130
Alignment explanation
Indices: 66728522--66728833 Score: 435
Period size: 138 Copynumber: 2.3 Consensus size: 130
66728512 AGTGTGCTCT
*
66728522 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
**
66728587 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
66728652 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--A-GTGTAAG
** *
66728717 ACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAATAAGACCATGGTTGAAAGATACC
66728782 ATGGCAAC
123 ATGGCAAC
* * * * * * *
66728790 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
66728834 TCATGTCAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
130 46 0.29
135 2 0.01
137 1 0.01
138 112 0.70
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (130 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:66730613 original size:18 final size:18
Alignment explanation
Indices: 66730592--66730629 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66730582 CATAAAAAAA
66730592 CTCCACAACATCATATAC
1 CTCCACAACATCATATAC
66730610 CTCCACAACATCATATAC
1 CTCCACAACATCATATAC
66730628 CT
1 CT
66730630 TGGATACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (18 bp):
CTCCACAACATCATATAC
Found at i:66732388 original size:13 final size:15
Alignment explanation
Indices: 66732370--66732406 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
66732360 TGAACACTTT
66732370 TGTTTTATT-TT-TA
1 TGTTTTATTATTATA
66732383 TGTTTTATTATTATA
1 TGTTTTATTATTATA
66732398 TGTTATTAT
1 TGTT-TTAT
66732407 ACATTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 6 0.29
16 4 0.19
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (15 bp):
TGTTTTATTATTATA
Found at i:66734424 original size:43 final size:43
Alignment explanation
Indices: 66734355--66734619 Score: 336
Period size: 43 Copynumber: 6.2 Consensus size: 43
66734345 CATTTTTTAA
* * *
66734355 TTGGCACCGATATGTGATTATGTGTAAGACGACGTCTGGGACG
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
* * * *
66734398 TTAGCATGGATATGTGATTATGTGTAAGACCAAGTCTGGGACG
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
* *
66734441 TTGGCATCGATATGTGATTACGTGTAAAACCACGTCTGGGACA
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
* *
66734484 TTGGCATCGATATGTGATTACGTGTAAAACCACGTCTAGGACG
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
* * * *
66734527 TTGGCATCGATATGTGATTACGTGTAAGACC-CTATTTAGGATAG
1 TTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-CG
* * *
66734571 -TGGCATCGATATGTGATTACATGTAAGACCACATCTGGGATG
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
66734613 TTGGCAT
1 TTGGCAT
66734620 TGTACGATAT
Statistics
Matches: 197, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.01
43 193 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
TTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACG
Found at i:66734813 original size:19 final size:18
Alignment explanation
Indices: 66734789--66734832 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
66734779 GATGCTAATT
66734789 ATATATGATGCAAATGAAA
1 ATATAT-ATGCAAATGAAA
* *
66734808 ATATATATGTATATGAAA
1 ATATATATGCAAATGAAA
66734826 AGTATAT
1 A-TATAT
66734833 TCGGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (18 bp):
ATATATATGCAAATGAAA
Found at i:66738778 original size:27 final size:27
Alignment explanation
Indices: 66738743--66738857 Score: 117
Period size: 28 Copynumber: 4.1 Consensus size: 27
66738733 AGCATGGCTG
* * *
66738743 CCAGA-ACAGATAATGTGACAGGGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
66738769 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* *
66738797 CCAGAATAGATATAAATGTGGCAGAGCCA
1 CCAG-ATACAGAT-AATGTGGCAGAGCCA
*
66738826 CCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
66738854 CCAG
1 CCAG
66738858 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
26 7 0.09
27 12 0.16
28 31 0.41
29 22 0.29
30 3 0.04
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:66742514 original size:18 final size:18
Alignment explanation
Indices: 66742491--66742526 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
66742481 TATAAAATAT
66742491 GTTATTCAAATTATTCGA
1 GTTATTCAAATTATTCGA
**
66742509 GTTATTCAGGTTATTCGA
1 GTTATTCAAATTATTCGA
66742527 ATTGTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
GTTATTCAAATTATTCGA
Found at i:66760055 original size:20 final size:20
Alignment explanation
Indices: 66760028--66760074 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
66760018 TAAATATAAG
*
66760028 ATAATAAAC-AAATAAAAAC
1 ATAATAAACAAAAGAAAAAC
66760047 ATGAATAAACTAAAAGAAAAAC
1 AT-AATAAAC-AAAAGAAAAAC
66760069 ATAATA
1 ATAATA
66760075 CATGCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 4 0.17
22 11 0.46
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (20 bp):
ATAATAAACAAAAGAAAAAC
Found at i:66761802 original size:41 final size:39
Alignment explanation
Indices: 66761749--66761918 Score: 125
Period size: 41 Copynumber: 4.2 Consensus size: 39
66761739 AGTCCGACTC
*
66761749 TTAG-CACCGGCTCAAAAGCCCTTCCAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTT-CAGACCAAGCTCGGA
* * *
66761788 TTAGACTACTGGCTCGAAGGCCCTT-AGGAACTAA-CTCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCA-G-ACCAAGCT-CGGA
* * *
66761828 TTATGACACTGGCTCTAAAAAGCCCTTCAAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTC-AGACCAAGCTCGG--A
66761873 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTC-AGACCAAGCTCGGA
66761912 TTTAGAC
1 -TTAGAC
66761919 CCCGATTAGC
Statistics
Matches: 103, Mismatches: 12, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
39 6 0.06
40 19 0.18
41 47 0.46
42 16 0.16
43 10 0.10
44 2 0.02
45 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (39 bp):
TTAGACACTGGCTCAAAAGCCCTTCAGACCAAGCTCGGA
Found at i:66770137 original size:41 final size:40
Alignment explanation
Indices: 66770084--66770253 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
66770074 AGTCCGACTC
*
66770084 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
66770123 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
66770163 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
66770208 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
66770247 TTTAGAC
1 -TTAGAC
66770254 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:66774665 original size:30 final size:30
Alignment explanation
Indices: 66774629--66774759 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
66774619 GACAAGATTG
* * * * *
66774629 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
66774659 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
66774687 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
66774717 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
66774746 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66774760 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:66774720 original size:58 final size:58
Alignment explanation
Indices: 66774629--66774759 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
66774619 GACAAGATTG
* * * * * *
66774629 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
66774687 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
66774746 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66774760 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:66781992 original size:31 final size:31
Alignment explanation
Indices: 66781954--66782043 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
66781944 CCTTTTCATA
*
66781954 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
66781985 TTTCATATTTCATATTACTGGGCCGAAG-C-
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
66782014 ---CATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
66782042 TT
1 TT
66782044 ACTGTAACGG
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
26 25 0.46
27 1 0.02
30 1 0.02
31 27 0.50
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:66782024 original size:26 final size:26
Alignment explanation
Indices: 66781957--66782040 Score: 114
Period size: 26 Copynumber: 3.0 Consensus size: 26
66781947 TTTCATATTT
*
66781957 CATATTTCATAATACTGGGCCGAAGCC
1 CATATTTCATATTACTGGGCCGAAG-C
66781984 TTTTCATATTTCATATTACTGGGCCGAAGC
1 ----CATATTTCATATTACTGGGCCGAAGC
66782014 CATATTTCATATTACTGGGCCGAAGC
1 CATATTTCATATTACTGGGCCGAAGC
66782040 C
1 C
66782041 TTTACTGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
26 27 0.52
30 1 0.02
31 24 0.46
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (26 bp):
CATATTTCATATTACTGGGCCGAAGC
Found at i:66782298 original size:24 final size:24
Alignment explanation
Indices: 66782234--66782398 Score: 248
Period size: 23 Copynumber: 7.0 Consensus size: 24
66782224 GCTTTATCAT
* *
66782234 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
**
66782259 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
66782282 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
66782305 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66782329 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66782352 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66782376 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66782399 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
23 63 0.47
24 62 0.47
25 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:66782323 original size:47 final size:48
Alignment explanation
Indices: 66782234--66782398 Score: 248
Period size: 47 Copynumber: 3.5 Consensus size: 48
66782224 GCTTTATCAT
* **
66782234 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTG
66782282 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
*
66782329 ATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
66782376 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66782399 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 3, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
46 28 0.25
47 54 0.49
48 28 0.25
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
Found at i:66782490 original size:17 final size:18
Alignment explanation
Indices: 66782448--66782500 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
66782438 TATGATTACC
66782448 TCATGTGCATATCATACATA
1 TCATGTGCATATCAT--ATA
66782468 TCATGTGCATATCATAT-
1 TCATGTGCATATCATATA
66782485 TCATGTGCATATCATA
1 TCATGTGCATATCATA
66782501 CATATTATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.48
18 2 0.06
20 15 0.45
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (18 bp):
TCATGTGCATATCATATA
Found at i:66782528 original size:25 final size:24
Alignment explanation
Indices: 66782490--66782569 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 24
66782480 CATATTCATG
66782490 TGCATATCATACATATTATCATCA
1 TGCATATCATACATATTATCATCA
* *
66782514 TGTATTATCATACATA--ATCAT-G
1 TGCA-TATCATACATATTATCATCA
66782536 TGCATATCATACATATGTAT-ATCA
1 TGCATATCATACATAT-TATCATCA
*
66782560 TACATA-CATA
1 TGCATATCATA
66782570 TCATCATGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 11 0.24
22 3 0.07
23 11 0.24
24 10 0.22
25 11 0.24
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TGCATATCATACATATTATCATCA
Found at i:66782586 original size:25 final size:24
Alignment explanation
Indices: 66782538--66782590 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
66782528 TAATCATGTG
*
66782538 CATATCATACATATGTATATCATA
1 CATATCATACATATGTATAACATA
66782562 CATA-CATATCATCATGTATAACATA
1 CATATCATA-CAT-ATGTATAACATA
66782587 CATA
1 CATA
66782591 AACCCTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 7 0.27
25 15 0.58
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (24 bp):
CATATCATACATATGTATAACATA
Found at i:66782587 original size:21 final size:21
Alignment explanation
Indices: 66782506--66782590 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
66782496 TCATACATAT
*
66782506 TATCATCATGTATTATCATACA
1 TATCATCATGTA-TAACATACA
*
66782528 TA--ATCATGTGCATATCATACA
1 TATCATCATGT--ATAACATACA
* *
66782549 TATGTAT-AT-CAT-ACATACA
1 TAT-CATCATGTATAACATACA
66782568 TATCATCATGTATAACATACA
1 TATCATCATGTATAACATACA
66782589 TA
1 TA
66782591 AACCCTAGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
18 2 0.04
19 11 0.22
20 11 0.22
21 20 0.39
22 3 0.06
23 2 0.04
24 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (21 bp):
TATCATCATGTATAACATACA
Found at i:66782590 original size:61 final size:62
Alignment explanation
Indices: 66782460--66782591 Score: 189
Period size: 61 Copynumber: 2.1 Consensus size: 62
66782450 ATGTGCATAT
* * *
66782460 CATACAT-ATCATGTGCATATCATATTCATGTGCATATCATACATATTATCATCATGTATTAT
1 CATACATAATCATGTGCATATCATA-TCATATGCATATCATACATAATATCATCATGTATTAA
*
66782522 CATACATAATCATGTGCATATCATA-CATATGTATATCATACATACATATCATCATGTA-TAA
1 CATACATAATCATGTGCATATCATATCATATGCATATCATACATA-ATATCATCATGTATTAA
66782583 CATACATAA
1 CATACATAA
66782592 ACCCTAGGGG
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
61 28 0.44
62 19 0.30
63 17 0.27
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (62 bp):
CATACATAATCATGTGCATATCATATCATATGCATATCATACATAATATCATCATGTATTAA
Found at i:66782624 original size:25 final size:25
Alignment explanation
Indices: 66782594--66782641 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66782584 ATACATAAAC
* * *
66782594 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
66782619 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
66782642 CATATTATAA
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:66786968 original size:20 final size:20
Alignment explanation
Indices: 66786941--66786987 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
66786931 TAAATATAAG
*
66786941 ATAATAAAC-AAATAAAAAC
1 ATAATAAACAAAAGAAAAAC
66786960 ATGAATAAACTAAAAGAAAAAC
1 AT-AATAAAC-AAAAGAAAAAC
66786982 ATAATA
1 ATAATA
66786988 CATGCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 4 0.17
22 11 0.46
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (20 bp):
ATAATAAACAAAAGAAAAAC
Found at i:66787523 original size:25 final size:24
Alignment explanation
Indices: 66787473--66787542 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
66787463 TTTTTTCAAA
*
66787473 AATTTAATTAATAAAAATTATTAAT
1 AATTTAATAAATAAAAATTA-TAAT
66787498 AATTTAATAAATTGAAAAATTA-AAT
1 AATTTAATAAA-T-AAAAATTATAAT
* *
66787523 AATTGAATAAAATTAAAATT
1 AATTTAAT-AAATAAAAATT
66787543 TTGGAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 6 0.15
25 21 0.54
26 4 0.10
27 8 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (24 bp):
AATTTAATAAATAAAAATTATAAT
Found at i:66788339 original size:7 final size:7
Alignment explanation
Indices: 66788327--66788355 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
66788317 AGAGTGTTGA
66788327 GGGGAGT
1 GGGGAGT
66788334 GGGGAGT
1 GGGGAGT
66788341 GGGGAGT
1 GGGGAGT
66788348 GGGGAGT
1 GGGGAGT
66788355 G
1 G
66788356 TGTAGTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.72, T:0.14
Consensus pattern (7 bp):
GGGGAGT
Found at i:66790765 original size:98 final size:98
Alignment explanation
Indices: 66790596--66790788 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
66790586 AATAACAACT
* *
66790596 TAAAATGATTAAACTTTTGCTAGACCTACTAGAGTTTTTAACAATGAACAAGATACTTAAAAGTT
1 TAAAATGATTAAACTTTTGCTAGAACTACTAGAGTTTTTAACAACGAACAAGATACTTAAAAGTT
66790661 TTGTAAAAGATCACTACGAGGGTTTTAATAACC
66 TTGTAAAAGATCACTACGAGGGTTTTAATAACC
* *
66790694 TAAAATGATTAAACTTTTGCTAGAACTACTTGAGTTTTTAACAACGAACAAGATACTTAAAATTT
1 TAAAATGATTAAACTTTTGCTAGAACTACTAGAGTTTTTAACAACGAACAAGATACTTAAAAGTT
* *
66790759 TTGTAAAAGATTACTACTAGGGTTTTAATA
66 TTGTAAAAGATCACTACGAGGGTTTTAATA
66790789 TAGTACGGAC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (98 bp):
TAAAATGATTAAACTTTTGCTAGAACTACTAGAGTTTTTAACAACGAACAAGATACTTAAAAGTT
TTGTAAAAGATCACTACGAGGGTTTTAATAACC
Found at i:66791381 original size:29 final size:30
Alignment explanation
Indices: 66791324--66791381 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
66791314 CCTTTGAAAA
* * *
66791324 TATTTACAAAAAGAGGCACCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACAAAATTTTAT
66791354 TATTTACAAAAAGA-GCAACAAAATTTTA
1 TATTTACAAAAAGAGGCAACAAAATTTTA
66791382 AAAATAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACAAAATTTTAT
Found at i:66797768 original size:24 final size:24
Alignment explanation
Indices: 66797738--66797824 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
66797728 CTTATTATGT
66797738 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
66797762 TCACACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66797786 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66797810 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66797825 ATTTGAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:66798359 original size:2 final size:2
Alignment explanation
Indices: 66798352--66798382 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
66798342 TGATGGCCGA
*
66798352 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66798383 ATGTCATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66803150 original size:25 final size:25
Alignment explanation
Indices: 66803118--66803182 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
66803108 CTAGCTCAAG
66803118 GCCTGATAGATAACACCAGCACAAA
1 GCCTGATAGATAACACCAGCACAAA
* **
66803143 G-CTCGATAAAT-ACACTGGCACAAA
1 GCCT-GATAGATAACACCAGCACAAA
*
66803167 GCCTGACAGATAACAC
1 GCCTGATAGATAACAC
66803183 TGGCTTAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.14
Consensus pattern (25 bp):
GCCTGATAGATAACACCAGCACAAA
Found at i:66804827 original size:43 final size:44
Alignment explanation
Indices: 66804728--66804835 Score: 132
Period size: 43 Copynumber: 2.5 Consensus size: 44
66804718 AGGTTACGAG
* *
66804728 ATGTGATTACATGTAAGACCATGTATAGGACATTGGCATCATTA
1 ATGTGATTACATGTAAGACCATGTATAGGACAGTGGCATCAATA
* * *
66804772 AT-CGATTTCATGTAAGACCCTGT-TCAGGACAGTGGCATCAAT-
1 ATGTGATTACATGTAAGACCATGTAT-AGGACAGTGGCATCAATA
*
66804814 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
66804836 ATTTTGGATA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
42 3 0.06
43 48 0.91
44 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTATAGGACAGTGGCATCAATA
Found at i:66808588 original size:15 final size:15
Alignment explanation
Indices: 66808568--66808598 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66808558 TTAAAATTTC
66808568 TTAACTAAATTTTAA
1 TTAACTAAATTTTAA
66808583 TTAACTAAATTTTAA
1 TTAACTAAATTTTAA
66808598 T
1 T
66808599 ATGACCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAACTAAATTTTAA
Found at i:66809094 original size:7 final size:7
Alignment explanation
Indices: 66809082--66809106 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66809072 AAAAATTTAT
66809082 TTGAGGA
1 TTGAGGA
66809089 TTGAGGA
1 TTGAGGA
66809096 TTGAGGA
1 TTGAGGA
66809103 TTGA
1 TTGA
66809107 AAATTCGAAA
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:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (7 bp):
TTGAGGA
Found at i:66809129 original size:6 final size:7
Alignment explanation
Indices: 66809102--66809161 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
66809092 AGGATTGAGG
66809102 ATTGAAA
1 ATTGAAA
66809109 ATTCG-AA
1 ATT-GAAA
66809116 ATTGAAA
1 ATTGAAA
66809123 ATT-AAA
1 ATTGAAA
*
66809129 ATTTGAAG
1 A-TTGAAA
66809137 ATTGAAA
1 ATTGAAA
66809144 ATAT-AAA
1 AT-TGAAA
*
66809151 ATTGGAA
1 ATTGAAA
66809158 ATTG
1 ATTG
66809162 GGGATTGAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
6 6 0.14
7 33 0.75
8 5 0.11
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.32
Consensus pattern (7 bp):
ATTGAAA
Found at i:66810053 original size:3 final size:3
Alignment explanation
Indices: 66810039--66810088 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
66810029 CCAATATGTT
*
66810039 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66810087 AT
1 AT
66810089 TAAAAATATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:66811416 original size:28 final size:28
Alignment explanation
Indices: 66811376--66811433 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
66811366 TGGATAAAAA
66811376 TTAAGTATATTTAAAATGTAAGTTGAGC
1 TTAAGTATATTTAAAATGTAAGTTGAGC
*
66811404 TTAAGTATATTTAAAATGTAAGTTGGGC
1 TTAAGTATATTTAAAATGTAAGTTGAGC
66811432 TT
1 TT
66811434 GGACTCTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.41
Consensus pattern (28 bp):
TTAAGTATATTTAAAATGTAAGTTGAGC
Found at i:66811512 original size:25 final size:22
Alignment explanation
Indices: 66811469--66811517 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
66811459 TGACACTACC
*
66811469 TTTTTATTTTATAATATGTTAT
1 TTTTTATTTTATAATATGTAAT
66811491 TTTTTATTTTTATATATTATGTAAT
1 TTTTTA-TTTTATA-A-TATGTAAT
66811516 TT
1 TT
66811518 ATATTGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 1 0.04
25 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTATTTTATAATATGTAAT
Found at i:66818247 original size:48 final size:48
Alignment explanation
Indices: 66818187--66818352 Score: 167
Period size: 48 Copynumber: 3.5 Consensus size: 48
66818177 AAGCTAACGC
* *
66818187 CATGTTCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * * *
66818235 CATGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATGTCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * * *
66818281 CATGTCCCAAACATGTCTTATACTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
*
66818329 CATGTCCTAGAC-GTGTCTTACACT
1 CATGTCCCAGACAG-GTCTTACACT
66818353 GGCTCTCATG
Statistics
Matches: 94, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 36 0.38
47 3 0.03
48 55 0.59
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:66818354 original size:48 final size:47
Alignment explanation
Indices: 66818187--66818401 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 47
66818177 AAGCTAACGC
* * * * *
66818187 CATGTTCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGC-TCTATATCTCGAGGCTGATG
* * * *
66818235 CATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATG-TCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTATATCTCGAGGCT-GATG
* *
66818281 CATGTCCCAAACATGTCTTATACTGGCT-TAAATATCTCGAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT--ATATCTCGAGGCTGATG
* * * * * *
66818329 CATGTCCTAGACGTGTCTTACACTGGCTCTCAT-GCT-GTGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-ATATCTCGAGGCTGATG
*
66818375 CATGTCCTAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
66818402 ACACATATCA
Statistics
Matches: 138, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 69 0.50
47 4 0.03
48 62 0.45
49 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (47 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTATATCTCGAGGCTGATG
Found at i:66818375 original size:94 final size:93
Alignment explanation
Indices: 66818218--66818394 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 93
66818208 ACTAGCTTGT
*
66818218 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGTCGATGCA
1 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCT-AATGGCGATGCA
66818283 TGTCCCAAACATGTCTTATACTGGCTTAA
65 TGTCCCAAACATGTCTTATACTGGCTTAA
* * * * *
66818312 ATATCTCGAGGCTGATGCATGTCCTAGACGTGTCTTACACTGGCTCTCATG-CT-GTGGCTGATG
1 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT--TGTCTAATGGC-GATG
*
66818375 CATGTCCTAAACATGTCTTA
63 CATGTCCCAAACATGTCTTA
66818395 CACTAGCACA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
93 3 0.04
94 66 0.90
95 2 0.03
96 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (93 bp):
ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTAATGGCGATGCAT
GTCCCAAACATGTCTTATACTGGCTTAA
Found at i:66824139 original size:46 final size:45
Alignment explanation
Indices: 66824068--66824185 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 45
66824058 GAGAGCTAGC
66824068 GTAAGACCATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGTCAGT
1 GTAAGACCATGTCTGGGACATGCATCAG-CTACGAGACGT--GTCAGT
* * *
66824115 GTAAGA-CATGTTTGGGACATGCATCAGCTATGAGATGTGTCAGT
1 GTAAGACCATGTCTGGGACATGCATCAGCTACGAGACGTGTCAGT
66824159 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGACCATGTCTGGGACAT-GCATC
66824186 GGCACAAAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
44 12 0.19
45 15 0.23
46 31 0.48
47 6 0.09
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
GTAAGACCATGTCTGGGACATGCATCAGCTACGAGACGTGTCAGT
Found at i:66831825 original size:46 final size:44
Alignment explanation
Indices: 66831765--66831877 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 44
66831755 GATGAGTGCT
*
66831765 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTACGAGACGT--GAC
* * *
66831811 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGAC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGTGAC
66831855 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
66831878 CGACATCGGC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
44 11 0.18
45 16 0.26
46 34 0.56
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGACGTGAC
Found at i:66837206 original size:52 final size:52
Alignment explanation
Indices: 66837077--66837217 Score: 219
Period size: 52 Copynumber: 2.7 Consensus size: 52
66837067 TCTCTGACTT
* *
66837077 AGGTCACACGGCCAAGTCATAAGCCCGTGTGTTAGGCCGTCTGTAGGTGCAG
1 AGGTCACACGGCCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAG
* *
66837129 AGGTTACACGACCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAG
1 AGGTCACACGGCCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAG
* * *
66837181 AGGTCACACGGCCAAGCCATGCGCCCATGTGCTAGGC
1 AGGTCACACGGCCAAGCCATACGCCCGTGTGTTAGGC
66837218 TGTGTGATCA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.19
Consensus pattern (52 bp):
AGGTCACACGGCCAAGCCATACGCCCGTGTGTTAGGCCGTCTGTAGGTGCAG
Found at i:66837624 original size:2 final size:2
Alignment explanation
Indices: 66837617--66837647 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66837607 ATTAAGACCT
66837617 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
66837648 CAAACTATAT
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:66838502 original size:26 final size:26
Alignment explanation
Indices: 66838466--66838525 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
66838456 GAAGCTTCGG
*
66838466 AGAGCCATTAATCAGGAAGCTCATAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
66838492 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
66838518 AGAGCCAT
1 AGAGCCAT
66838526 ATATCATGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:66838531 original size:26 final size:27
Alignment explanation
Indices: 66838451--66838528 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 27
66838441 AGCGAACCAT
* *
66838451 ATCAGGAAGCT-TCGGAGAGCCAT-TA
1 ATCAGGAAGCTCACGAAGAGCCATATA
** *
66838476 ATCAGGAAGCTCATAAAGAGCC-TTTA
1 ATCAGGAAGCTCACGAAGAGCCATATA
66838502 ATCAGGAAGCTCACGAAGAGCCATATA
1 ATCAGGAAGCTCACGAAGAGCCATATA
66838529 TCATGACGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 12 0.28
26 28 0.65
27 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
ATCAGGAAGCTCACGAAGAGCCATATA
Found at i:66839557 original size:13 final size:13
Alignment explanation
Indices: 66839539--66839566 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
66839529 CTTTAGTTTA
66839539 TTATTTTTCATCT
1 TTATTTTTCATCT
66839552 TTATTTTTCATCT
1 TTATTTTTCATCT
66839565 TT
1 TT
66839567 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:66851250 original size:31 final size:30
Alignment explanation
Indices: 66851189--66851250 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
66851179 ATTAATGACA
*
66851189 AGTGACTAAAATGATAAAAATTGTAACAAC
1 AGTGACTAAAATGATAAAAATTCTAACAAC
*
66851219 AGTGACTGAAATGATAAAAGCA-TCTAACAAC
1 AGTGACTAAAATGATAAAA--ATTCTAACAAC
66851250 A
1 A
66851251 TAGCCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 18 0.64
31 9 0.32
32 1 0.04
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.21
Consensus pattern (30 bp):
AGTGACTAAAATGATAAAAATTCTAACAAC
Found at i:66861057 original size:17 final size:19
Alignment explanation
Indices: 66861035--66861077 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
66861025 ATGGAAATAT
66861035 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
66861052 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
66861071 AATCTTA
1 AATCTTA
66861078 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:66861067 original size:19 final size:19
Alignment explanation
Indices: 66861043--66861079 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
66861033 ATAATCTTCA
66861043 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
66861062 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
66861080 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:66861101 original size:23 final size:22
Alignment explanation
Indices: 66861043--66861102 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
66861033 ATAATCTTCA
66861043 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
66861062 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
66861084 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
66861103 GGTTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:66861392 original size:17 final size:18
Alignment explanation
Indices: 66861370--66861405 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
66861360 GTTTCCCTAA
*
66861370 ATTTTTTTATAT-ATTTT
1 ATTTTTTTAAATAATTTT
66861387 ATTTTTTTAAATAATTTT
1 ATTTTTTTAAATAATTTT
66861405 A
1 A
66861406 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAAATAATTTT
Found at i:66863674 original size:43 final size:40
Alignment explanation
Indices: 66863626--66863738 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 40
66863616 TGCCAACGTC
* *
66863626 CCAGACGTGGTCTTACATGCAATCACATATCGATG-CCACTGT
1 CCAGACGTGGTCTTACACG-AATCAAATA-CGATGTCCA-TGT
*
66863668 CTCAGACAG-GGTCTTACACGAATCAAATACGATGTCGATGT
1 C-CAGAC-GTGGTCTTACACGAATCAAATACGATGTCCATGT
* *
66863709 CCTAGACATGGTCTTACACGTAACCAAATA
1 CC-AGACGTGGTCTTACACG-AATCAAATA
66863739 TATCGATGCC
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
40 1 0.02
41 24 0.40
42 19 0.32
43 15 0.25
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
CCAGACGTGGTCTTACACGAATCAAATACGATGTCCATGT
Found at i:66864454 original size:24 final size:25
Alignment explanation
Indices: 66864422--66864468 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
66864412 AACTAGCATC
66864422 ACATAACTC-AAATATTCATCAATG
1 ACATAACTCAAAATATTCATCAATG
66864446 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATATTCATCAA
66864469 AATAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (25 bp):
ACATAACTCAAAATATTCATCAATG
Found at i:66864931 original size:14 final size:15
Alignment explanation
Indices: 66864914--66864942 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66864904 TCACGAAAAT
66864914 TTCACACAT-ATAAA
1 TTCACACATAATAAA
66864928 TTCACACATAATAAA
1 TTCACACATAATAAA
66864943 CACAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:66870695 original size:38 final size:39
Alignment explanation
Indices: 66870582--66870724 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
66870572 CCGCACAAAG
*
66870582 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
66870622 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
66870661 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
66870699 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
66870725 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:66870703 original size:77 final size:79
Alignment explanation
Indices: 66870542--66870723 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
66870532 TCGTTCAAAC
* * **
66870542 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
66870607 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
66870622 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
66870685 CAATTTGCACAATT
66 CAATTTGCACAATT
66870699 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
66870724 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:66878446 original size:38 final size:39
Alignment explanation
Indices: 66878333--66878475 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
66878323 CCGCACAAAG
*
66878333 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
66878373 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
66878412 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
66878450 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
66878476 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:66878454 original size:77 final size:79
Alignment explanation
Indices: 66878293--66878474 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
66878283 TCGTTCAAAC
* * **
66878293 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
66878358 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
66878373 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
66878436 CAATTTGCACAATT
66 CAATTTGCACAATT
66878450 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
66878475 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:66881163 original size:50 final size:50
Alignment explanation
Indices: 66881088--66881324 Score: 250
Period size: 50 Copynumber: 4.8 Consensus size: 50
66881078 TGATGCTAGG
**
66881088 GAGATATGAGAGCTAGTGTAAGACCATGTCTATGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
66881138 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTC
* * * ** ** *
66881188 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGAAATTGGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* * * * *
66881238 GATATACGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATC-GACT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
** * * *
66881286 TTGATGTGA-A-CTAGTGTAAGACCATGTCCGGGGCATGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
66881325 GTCGGCACCT
Statistics
Matches: 159, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
46 25 0.16
47 1 0.01
48 4 0.03
49 4 0.03
50 124 0.78
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
Found at i:66888935 original size:45 final size:45
Alignment explanation
Indices: 66888884--66889057 Score: 192
Period size: 45 Copynumber: 3.8 Consensus size: 45
66888874 TTGGGTGACA
* *
66888884 TGTGAGCCATTGTAAGACCATGTTGGACATGGCATCGATGTTGAT
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
* *
66888929 TGTGAGCCAGTATAAGACCATGTTGGACATGGCATCGGCGTTGAT
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
* * *
66888974 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGTATC-A-GCTTCGACA
1 TGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGACG-TT-GA-T
*
66889022 TGTGAGCTAGTGTAAGA-CATGTCTAGGACATGGCAT
1 TGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCAT
66889058 TGGCAATTCA
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
45 63 0.56
46 3 0.03
47 30 0.27
48 17 0.15
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (45 bp):
TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACGTTGAT
Found at i:66890778 original size:30 final size:30
Alignment explanation
Indices: 66890744--66890801 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66890734 TTTTCGGGCA
* * *
66890744 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
66890774 TAGGGGCAAAATAGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
66890802 ATGTAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:66891213 original size:47 final size:44
Alignment explanation
Indices: 66891141--66891447 Score: 226
Period size: 47 Copynumber: 6.6 Consensus size: 44
66891131 CAATTTGTGC
* * *
66891141 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GACACA-GATGATA
* **
66891187 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACA--CAGATGATA
* * * *
66891235 GCCCGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GACACA-GATGATA
66891281 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGA-GATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACACAGATGAT-A
** *
66891327 GTGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCTCGACAGA-GATG
1 --GCCAGTGTAAGACATGTCTGGGACATGCA-T--CGAC-ACAGATGATA
* * ** * *
66891376 GCTAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-ACAGATGAT-A
* *
66891420 GCTAGTGTAAGACATGTTTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
66891448 CTGGGACATG
Statistics
Matches: 213, Mismatches: 32, Indels: 34
0.76 0.11 0.12
Matches are distributed among these distances:
43 6 0.03
44 27 0.13
45 4 0.02
46 37 0.17
47 91 0.43
48 36 0.17
49 4 0.02
50 8 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACACAGATGATA
Found at i:66891306 original size:94 final size:94
Alignment explanation
Indices: 66891141--66891363 Score: 349
Period size: 94 Copynumber: 2.4 Consensus size: 94
66891131 CAATTTGTGC
* * *
66891141 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGATAGCCAGTGTAAGACCATGTC
66891206 TGGGACATGGCATCGACATC-CAGACGAGG
66 TGGGACATGGCATCGACA-CACAGACGAGG
* *
66891235 GCCCGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGATAGCCAGTGTAAGACCATGTC
* * *
66891300 TGGGACATGGCATCGACACAGAGATGAGT
66 TGGGACATGGCATCGACACACAGACGAGG
*
66891329 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC
66891364 TCGACAGAGA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 117 0.99
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGATAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACACACAGACGAGG
Found at i:66891394 original size:94 final size:93
Alignment explanation
Indices: 66891141--66891447 Score: 322
Period size: 94 Copynumber: 3.3 Consensus size: 93
66891131 CAATTTGTGC
* ** * * *
66891141 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCTCA-CAAGATAGCCAGTGTAAGACCATGTC
* * *
66891206 TGGGACATGGCATCGACATC-CAGACGAGG
65 TGGGACATGGCATCGACA-CAGAGATGAGT
* * *
66891235 GCCCGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTATGATAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCC-TCAC-AAGATAGCCAGTGTAAGACCATGT
66891299 CTGGGACATGGCATCGACACAGAGATGAGT
64 CTGGGACATGGCATCGACACAGAGATGAGT
* * *
66891329 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCTCGACAGAGATGGCTAGTGTAAGA-CGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCTC-ACA-AGATAGCCAGTGTAAGACCATGT
** *
66891393 CTGGGACA-CACATCGGCTA-AGAGAT--GT
64 CTGGGACATGGCATCGAC-ACAGAGATGAGT
* *
66891420 GCTAGTGTAAGACATGTTTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
66891448 CTGGGACATG
Statistics
Matches: 187, Mismatches: 19, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
91 28 0.15
93 14 0.07
94 129 0.69
95 16 0.09
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTAGCCTCACAAGATAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGACACAGAGATGAGT
Found at i:66897112 original size:24 final size:24
Alignment explanation
Indices: 66897060--66897225 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
66897050 GCTTTATCAT
*
66897060 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
66897085 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
66897109 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
66897132 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
66897156 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
66897180 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
66897203 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66897226 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 42 0.33
24 74 0.58
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:66897136 original size:47 final size:48
Alignment explanation
Indices: 66897059--66897225 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
66897049 TGCTTTATCA
* *
66897059 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
66897108 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
66897155 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
66897202 AATAACTAGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
66897226 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 69 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:66897160 original size:71 final size:71
Alignment explanation
Indices: 66897060--66897226 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
66897050 GCTTTATCAT
* * *
66897060 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
66897124 GCCCTTTA
64 GCCCTTTA
* *
66897132 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
66897197 CCTTTA
66 CCTTTA
*
66897203 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
66897227 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:66897297 original size:9 final size:9
Alignment explanation
Indices: 66897283--66897339 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
66897273 ATCTCATGTG
66897283 CATATCATA
1 CATATCATA
*
66897292 CATATCATGTG
1 CATATCA--TA
66897303 CATATCATA
1 CATATCATA
* *
66897312 CATGTCATGTG
1 CATATCA--TA
66897323 CATATCATA
1 CATATCATA
66897332 CATATCAT
1 CATATCAT
66897340 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:66897299 original size:20 final size:20
Alignment explanation
Indices: 66897271--66897341 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
66897261 GCATTTATGA
*
66897271 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
66897291 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
66897311 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
66897331 ACATATCATGT
1 ACATATCATGT
66897342 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:66897306 original size:11 final size:11
Alignment explanation
Indices: 66897276--66897330 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
66897266 TATGAACATC
66897276 TCATGTGCATA
1 TCATGTGCATA
*
66897287 TCA--TACATA
1 TCATGTGCATA
66897296 TCATGTGCATA
1 TCATGTGCATA
* *
66897307 TCA--TACATG
1 TCATGTGCATA
66897316 TCATGTGCATA
1 TCATGTGCATA
66897327 TCAT
1 TCAT
66897331 ACATATCATG
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:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:66897420 original size:25 final size:24
Alignment explanation
Indices: 66897378--66897425 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
66897368 ATATATAAAC
* * *
66897378 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
66897403 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
66897426 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:66898684 original size:27 final size:27
Alignment explanation
Indices: 66898664--66899004 Score: 409
Period size: 27 Copynumber: 12.6 Consensus size: 27
66898654 AGGGTATTTT
*
66898664 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
66898691 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66898718 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66898745 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
66898772 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
66898799 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
66898826 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66898853 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
66898880 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
66898907 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
66898934 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66898961 AGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
66898988 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
66899005 GGAGTACTTT
Statistics
Matches: 276, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.02
27 266 0.96
28 5 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:66898750 original size:81 final size:82
Alignment explanation
Indices: 66898665--66899004 Score: 465
Period size: 81 Copynumber: 4.2 Consensus size: 82
66898655 GGGTATTTTA
* * *
66898665 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
66898730 AATC-GAGGGTAAAATG
66 AATCTGAGGGTAAAACG
* * *
66898746 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
* *
66898810 AAATC-GGGGGTAAAATG
65 AAATCTGAGGGTAAAACG
* * * * *
66898827 GTAATTATGTAAATTGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
66898892 AA-CTGAGGGTAAAACG
66 AATCTGAGGGTAAAACG
* * **
66898908 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT-
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
66898972 AACCTGAGGGTAAAACG
66 AATCTGAGGGTAAAACG
66898989 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
66899005 GGAGTACTTT
Statistics
Matches: 230, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
80 4 0.02
81 225 0.98
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (82 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCTGAGGGTAAAACG
Found at i:66899046 original size:27 final size:27
Alignment explanation
Indices: 66899016--66899081 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
66899006 GAGTACTTTG
66899016 GTAATTTTACAAGTCGAGGGCATTTCA
1 GTAATTTTACAAGTCGAGGGCATTTCA
* *
66899043 GTAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGCATTTCA
*
66899070 GTAATTTCACAA
1 GTAATTTTACAA
66899082 ATTAGGGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGCATTTCA
Found at i:66899090 original size:27 final size:27
Alignment explanation
Indices: 66899060--66899184 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
66899050 TACAGGTCGA
* * *
66899060 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTAGTAATTTTACAAACTAG
*
66899087 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAACTAG
* * * *
66899114 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACTAG
66899141 GGGTATTTTAGTAATTTTACAAAGC-A-
1 GGGTATTTTAGTAATTTTACAAA-CTAG
*
66899167 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
66899185 GTAAACCAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 17 0.20
27 69 0.79
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTAG
Found at i:66899097 original size:81 final size:80
Alignment explanation
Indices: 66899012--66899184 Score: 195
Period size: 81 Copynumber: 2.1 Consensus size: 80
66899002 TCGGGAGTAC
* *** *
66899012 TTTGGTAATTTTACAAGTCGA-GGGCATTTCAGTAATTTTACAGGTCGAGGGTATTTCAGTAATT
1 TTTGGTAATTTTACAA-ACGAGGGGCATTTCAGTAATTTTACAAACCAAGGGTATTTCAGTAATT
**
66899076 TCACAAATTAGGGGTAT
65 TCACAAAGCA-GGGTAT
* * ** * *
66899093 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTT
1 TTTGGTAATTTTACAAACGAGGGGCATTTCAGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
*
66899158 TACAAAGCAGGGTAT
66 CACAAAGCAGGGTAT
66899173 TTTGGTAATTTT
1 TTTGGTAATTTT
66899185 GTAAACCAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 20 0.26
81 57 0.74
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
TTTGGTAATTTTACAAACGAGGGGCATTTCAGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
CACAAAGCAGGGTAT
Found at i:66899190 original size:53 final size:54
Alignment explanation
Indices: 66899087--66899202 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 54
66899077 CACAAATTAG
*
66899087 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
66899141 GGGTATTTTAGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAACCAA
*
66899194 -AGTATTTTA
1 GGGTATTTTA
66899203 AACATGGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
52 8 0.14
53 26 0.45
54 23 0.40
55 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:66899198 original size:26 final size:26
Alignment explanation
Indices: 66899088--66899201 Score: 129
Period size: 27 Copynumber: 4.3 Consensus size: 26
66899078 ACAAATTAGG
* *
66899088 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
66899115 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
66899141 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
66899168 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
66899194 AGTATTTT
1 GGTATTTT
66899202 AAACATGGAT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 28 0.38
27 45 0.62
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:66901544 original size:5 final size:5
Alignment explanation
Indices: 66901518--66901556 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
66901508 AATCAAGTAG
* * *
66901518 ATAAA ACAAA ATAGA ATGAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
66901557 TTTTTGGGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:66903543 original size:35 final size:35
Alignment explanation
Indices: 66903504--66903576 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
66903494 TGTTTGGGTT
*
66903504 GGACTAGCTCTGATGAGCATTAGTGTGTTTCGGAG
1 GGACTAGCTCTGATGAGCATTAGTGTGTTTCAGAG
* *
66903539 GGACTAGCTCTTATGAGCATTGGTGTGTTTCAGAG
1 GGACTAGCTCTGATGAGCATTAGTGTGTTTCAGAG
66903574 GGA
1 GGA
66903577 TTGGCTCGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.14, G:0.34, T:0.32
Consensus pattern (35 bp):
GGACTAGCTCTGATGAGCATTAGTGTGTTTCAGAG
Found at i:66903592 original size:35 final size:35
Alignment explanation
Indices: 66903504--66903604 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
66903494 TGTTTGGGTT
* * *
66903504 GGACTAGCTC-TGATGAGCATTAGTGTGTTTCGGAG
1 GGACTAGCTCGT-ACGAGCATTGGTGTGTTTCAGAG
* *
66903539 GGACTAGCTCTTATGAGCATTGGTGTGTTTCAGAG
1 GGACTAGCTCGTACGAGCATTGGTGTGTTTCAGAG
* * *
66903574 GGATTGGCTCGTGCGAGCATCTGGTGTGTTT
1 GGACTAGCTCGTACGAGCAT-TGGTGTGTTT
66903605 TGGTTGGATT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
35 46 0.81
36 11 0.19
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.34
Consensus pattern (35 bp):
GGACTAGCTCGTACGAGCATTGGTGTGTTTCAGAG
Found at i:66907342 original size:43 final size:43
Alignment explanation
Indices: 66907218--66907380 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
66907208 GAAAAGCTCG
* *
66907218 TACAATGCCAATGTCCCAAACGTGGTCTTACATGT-AATCAAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA
** * * * *
66907260 TATCGTTGCCACTGTCCTAGATAG-GGTCTTACAC-AAAATCAAA
1 TA-CAATGCCAATGTCCCAGA-CGTGGTCTTACACGTAAATCAAA
66907303 TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCATAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AA
* *
66907347 GT-CGATGCCAACGTCCCAGACGTGGTCTTACACG
1 -TACAATGCCAATGTCCCAGACGTGGTCTTACACG
66907381 ATAACACATA
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 37 0.38
44 33 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA
Found at i:66907363 original size:44 final size:42
Alignment explanation
Indices: 66907222--66907380 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 42
66907212 AGCTCGTACA
* * *
66907222 ATGCCAATGTCCCAAACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCG
* * * * *
66907265 TTGCC-ACTGTCCTAGATAG-GGTCTTACAC-AAAATCAAATACA
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAAT-CG
*
66907307 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCG
66907351 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
66907381 ATAACACATA
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.03
42 25 0.27
43 30 0.33
44 33 0.36
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCG
Found at i:66911111 original size:36 final size:36
Alignment explanation
Indices: 66911059--66911136 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
66911049 AAATGTCTAA
* * * *
66911059 ATCTTTTACTCGCAACTGATAATAACTCAATCTCGG
1 ATCTATTACTCGCAACTAATAATAACCCAATCTCAG
*
66911095 ATCTATTACTCGCAACTAATAATAACCCGATCTCAG
1 ATCTATTACTCGCAACTAATAATAACCCAATCTCAG
66911131 ATCTAT
1 ATCTAT
66911137 CTTTGAAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (36 bp):
ATCTATTACTCGCAACTAATAATAACCCAATCTCAG
Found at i:66913512 original size:2 final size:2
Alignment explanation
Indices: 66913505--66913536 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66913495 GCACTTATGA
66913505 AT AT 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
66913537 GGTATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66914191 original size:40 final size:40
Alignment explanation
Indices: 66914128--66914314 Score: 324
Period size: 40 Copynumber: 4.7 Consensus size: 40
66914118 ATTCGGATTG
66914128 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
66914167 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
66914207 ATAA-CGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
66914246 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66914286 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
66914315 AGCAGTAGCT
Statistics
Matches: 140, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 50 0.36
40 90 0.64
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:66914327 original size:79 final size:80
Alignment explanation
Indices: 66914128--66914345 Score: 331
Period size: 79 Copynumber: 2.8 Consensus size: 80
66914118 ATTCGGATTG
66914128 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
66914192 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
66914207 ATAA-CGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
66914271 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* *
66914286 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
66914346 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
77 8 0.06
78 16 0.13
79 79 0.62
80 24 0.19
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:66923801 original size:47 final size:48
Alignment explanation
Indices: 66923713--66923930 Score: 166
Period size: 47 Copynumber: 4.6 Consensus size: 48
66923703 GGAAGGTGCT
* * * *
66923713 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGCCTTACACTGACTCATATCTCGAAGCC
* *
66923760 GATGCCATGTCCCAGACATGGCCTTATACTGACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGCCTTACACTGACTCAT-ATCTCGAAGCC
* * * * ** *
66923808 GATG-CATGGCCCAGACAT-GTCTTACACCGACTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGGCCTTACACTGACTCATATCTCGAAGCC
* * * *
66923854 AATG-CATGTCCCA-AGCAT-GTCTTACACTAGCACTC--GTCTCGATGCC
1 GATGCCATGTCCCAGA-CATGGCCTTACACT-G-ACTCATATCTCGAAGCC
* *
66923900 AATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGCCTTACACTG
66923931 GCTCTCATAA
Statistics
Matches: 143, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 58 0.41
47 63 0.44
48 21 0.15
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGCCTTACACTGACTCATATCTCGAAGCC
Found at i:66923859 original size:46 final size:46
Alignment explanation
Indices: 66923809--66923978 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
66923799 CTCGTAGCCG
* *
66923809 ATGCATGGCCCAGACATGTCTTACAC-CG-ACTTACGTCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCGAGGCCA
*
66923855 ATGCATGTCCCA-AGCATGTCTTACACTAGCACTCGTCTCGATGCCA
1 ATGCATGTCCCAGA-CATGTCTTACACTAGCACTCGTCTCGAGGCCA
* * * * **
66923901 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT--ATGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCGA-GGCCA
*
66923949 ATCCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
66923979 TCACAATAAC
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 50 0.48
47 29 0.28
48 23 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGCCA
Found at i:66925729 original size:30 final size:30
Alignment explanation
Indices: 66925695--66925754 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
66925685 TATTAGAGAT
66925695 AGTCTTCAAATAGTTGCAAATTACTTTAAC
1 AGTCTTCAAATAGTTGCAAATTACTTTAAC
66925725 AGTCTTCAAATAGTTGCAAATTACTTTAAC
1 AGTCTTCAAATAGTTGCAAATTACTTTAAC
66925755 TTTCTCCTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (30 bp):
AGTCTTCAAATAGTTGCAAATTACTTTAAC
Found at i:66927718 original size:28 final size:28
Alignment explanation
Indices: 66927685--66927752 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
66927675 GCGTAGATCA
66927685 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
66927713 TGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
66927740 CGATA-TACCCCTA
1 CGAAATTACCCCTA
66927753 GAGTTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.06
27 27 0.75
28 7 0.19
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:66931212 original size:28 final size:28
Alignment explanation
Indices: 66931179--66931247 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
66931169 GCGTAGATCA
66931179 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
66931207 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
66931235 CGATA-TACCCCTA
1 CGAAATTACCCCTA
66931248 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:66937393 original size:47 final size:49
Alignment explanation
Indices: 66937324--66937548 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 49
66937314 GAAGGTGCCA
* **
66937324 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * *
66937371 ATGCCATGTCCCAGACATGGTCTTACATTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * *
66937419 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTAT-GTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * * * * *
66937465 ATG-CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
* * *
66937511 ATACCATGTCCCAAACGTGGTCTTACACTGGCTC-TCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
66937549 AATCTGGCTG
Statistics
Matches: 148, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 63 0.43
47 62 0.42
48 22 0.15
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCG
Found at i:66937458 original size:46 final size:46
Alignment explanation
Indices: 66937328--66937585 Score: 199
Period size: 46 Copynumber: 5.5 Consensus size: 46
66937318 GTGCCAATGC
* * * **
66937328 CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAGCCGATG
* *
66937374 CCATGTCCCAGACATGGTCTTACATTGAC-TATCATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTAT-ATCTCG-AGCCGATG
*
66937422 CATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGA-GCCGATG
* * * * *
66937468 CATGTCCTAGACAT-GTCTTACACTAGC--ACTCGTCTCGATGTCGATAC
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-T-ATCTCGA-GCCGAT-G
* * *
66937515 CATGTCCCAAACGTGGTCTTACACTGGCTCTCATAATCT-G-GCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-AT-ATCTCGAGCCGATG
* *
66937562 TATGTCCCAGACAT-GTTTTACACT
1 CATGTCCCAGACATGGTCTTACACT
66937586 AGCTCACAAT
Statistics
Matches: 171, Mismatches: 28, Indels: 25
0.76 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 71 0.42
47 69 0.40
48 22 0.13
50 1 0.01
51 4 0.02
52 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAGCCGATG
Found at i:66937583 original size:140 final size:140
Alignment explanation
Indices: 66937328--66937585 Score: 324
Period size: 140 Copynumber: 1.8 Consensus size: 140
66937318 GTGCCAATGC
* * * * *
66937328 CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
1 CATGTCCTAGACATGGTCTTACACTAGCACATATCTCAAGTCGATACCATGTCCCAAACATGGTC
* *
66937393 TTACATTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
66937458 GAGGCCGATG
131 GAGGCCGATG
* * *
66937468 CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTCGATGTCGATACCATGTCCCAAACGTGG
1 CATGTCCTAGACATGGTCTTACACTAGCACAT-ATCTC-AAGTCGATACCATGTCCCAAACATGG
* * * * * *
66937531 TCTTACACTGGCTCTCATAATC-TGGCTGATGTATGTCCCAGACATGTTTTACACT
64 TCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
66937586 AGCTCACAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.17
140 79 0.80
141 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (140 bp):
CATGTCCTAGACATGGTCTTACACTAGCACATATCTCAAGTCGATACCATGTCCCAAACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
GAGGCCGATG
Found at i:66955016 original size:30 final size:30
Alignment explanation
Indices: 66954951--66955034 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
66954941 TGTGCTAAAC
* * * *
66954951 GATGGTCGTAACCATCCCTTTT-AATATTC
1 GATGGTCGAAACCATCCCTTTTCATTAATA
*
66954980 GATGGTCGAAACCATCCGTTTTCATTAATA
1 GATGGTCGAAACCATCCCTTTTCATTAATA
*
66955010 GATGGTC-ATCACCATCCCTTTTCAT
1 GATGGTCGA-AACCATCCCTTTTCAT
66955035 AATCAATAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 21 0.46
30 25 0.54
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (30 bp):
GATGGTCGAAACCATCCCTTTTCATTAATA
Found at i:66955650 original size:18 final size:18
Alignment explanation
Indices: 66955627--66955664 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66955617 GGAAACAATC
66955627 AAAATCTTTAATAGTTTT
1 AAAATCTTTAATAGTTTT
66955645 AAAATCTTTAATAGTTTT
1 AAAATCTTTAATAGTTTT
66955663 AA
1 AA
66955665 TAGTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (18 bp):
AAAATCTTTAATAGTTTT
Found at i:66955663 original size:9 final size:9
Alignment explanation
Indices: 66955633--66955671 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
66955623 AATCAAAATC
66955633 TTTAATAGT
1 TTTAATAGT
*
66955642 TTTAA-AAT
1 TTTAATAGT
66955650 CTTTAATAGT
1 -TTTAATAGT
66955660 TTTAATAGT
1 TTTAATAGT
66955669 TTT
1 TTT
66955672 GAAAAATCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (9 bp):
TTTAATAGT
Found at i:66957160 original size:6 final size:6
Alignment explanation
Indices: 66957149--66957207 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
66957139 AGGATACCAA
* * *
66957149 ATTTTC ATTTTC ATTTTC ATTTCC ATTTCC ATTTTC ATTTTC ATTTCC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
*
66957197 ATTTCC ATTTT
1 ATTTTC ATTTT
66957208 TGGAAATCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (6 bp):
ATTTTC
Found at i:66957175 original size:18 final size:18
Alignment explanation
Indices: 66957149--66957207 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
66957139 AGGATACCAA
*
66957149 ATTTTCATTTTCATTTTC
1 ATTTTCATTTCCATTTTC
*
66957167 ATTTCCATTTCCATTTTC
1 ATTTTCATTTCCATTTTC
*
66957185 ATTTTCATTTCCATTTCC
1 ATTTTCATTTCCATTTTC
66957203 ATTTT
1 ATTTT
66957208 TGGAAATCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTCATTTCCATTTTC
Found at i:66957181 original size:24 final size:24
Alignment explanation
Indices: 66957149--66957207 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
66957139 AGGATACCAA
*
66957149 ATTTTCATTTTCATTTTCATTTCC
1 ATTTCCATTTTCATTTTCATTTCC
66957173 ATTTCCATTTTCATTTTCATTTCC
1 ATTTCCATTTTCATTTTCATTTCC
66957197 ATTTCCATTTT
1 ATTTCCATTTT
66957208 TGGAAATCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTCCATTTTCATTTTCATTTCC
Found at i:66958908 original size:28 final size:28
Alignment explanation
Indices: 66958871--66958991 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 28
66958861 AAGTCTACAT
* *
66958871 ACATGCATATGGCCCATTGGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
** *
66958899 TTATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAA-TC
*
66958928 ACATTCATATGGCCCATTAGCCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
66958957 ACATTTATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
66958985 ACTTTCA
1 ACATTCA
66958992 CAGTCATGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 30 0.39
29 45 0.58
30 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:66958938 original size:57 final size:57
Alignment explanation
Indices: 66958871--66958991 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
66958861 AAGTCTACAT
* * * **
66958871 ACATGCATATGGCCCATTGGGCCC-AATCTTATTCATATGGCCCA-TCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGCCCCAAATCACATTCATATGGCCCACT-AGGCCCAA-TC
*
66958928 ACATTCATATGGCCCATTAGCCCCAAATCACATTTATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGCCCCAAATCACATTCATATGGCCCACTAGGCCCAATC
*
66958985 ACTTTCA
1 ACATTCA
66958992 CAGTCATGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 29 0.53
58 25 0.45
59 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (57 bp):
ACATTCATATGGCCCATTAGCCCCAAATCACATTCATATGGCCCACTAGGCCCAATC
Found at i:66962319 original size:17 final size:18
Alignment explanation
Indices: 66962297--66962330 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66962287 CACATTTAAG
66962297 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
66962314 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
66962331 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:66963477 original size:28 final size:28
Alignment explanation
Indices: 66963445--66963559 Score: 133
Period size: 28 Copynumber: 4.1 Consensus size: 28
66963435 TACATACATG
**
66963445 CATATGGCCCATTAGGCCCAATCTTATT
1 CATATGGCCCATTAGGCCCAATCAAATT
* *
66963473 CATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAA-TCAAATT
*
66963502 CATATGGCCCATTAGGCCCAAATAAAATT
1 CATATGGCCCATTAGGCCC-AATCAAATT
* * *
66963531 -ATATGGCCCACTAGGCCCTATCAATTT
1 CATATGGCCCATTAGGCCCAATCAAATT
66963558 CA
1 CA
66963560 CAGTCATGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.08
28 38 0.51
29 28 0.38
30 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCAAATT
Found at i:66963535 original size:57 final size:57
Alignment explanation
Indices: 66963440--66963548 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
66963430 AAGTCTACAT
***
66963440 ACATGCATATGGCCCATTAGGCCCAATCTTATTCATATGGCCCA-TCAGGCCCAATTC
1 ACATGCATATGGCCCATTAGGCCCAATAAAATTCATATGGCCCACT-AGGCCCAATTC
*
66963497 ACATTCATATGGCCCATTAGGCCCAAATAAAATT-ATATGGCCCACTAGGCCC
1 ACATGCATATGGCCCATTAGGCCC-AATAAAATTCATATGGCCCACTAGGCCC
66963549 TATCAATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
57 39 0.85
58 7 0.15
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (57 bp):
ACATGCATATGGCCCATTAGGCCCAATAAAATTCATATGGCCCACTAGGCCCAATTC
Found at i:66963799 original size:16 final size:16
Alignment explanation
Indices: 66963778--66963825 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
66963768 AAACTTTTAA
*
66963778 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCAG
*
66963794 CTTTTCGGCATTTAAG
1 CTTTTCGGCATTTCAG
*
66963810 CTTTTCGACATTTCAG
1 CTTTTCGGCATTTCAG
66963826 GATTTATCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (16 bp):
CTTTTCGGCATTTCAG
Found at i:66967823 original size:84 final size:84
Alignment explanation
Indices: 66967682--66967852 Score: 342
Period size: 84 Copynumber: 2.0 Consensus size: 84
66967672 ATAAAATATG
66967682 AAATTAAAGCTTATTGAGTCTAGTTTTACATAGAAGAAAAGAATTTCATTTTATGAGATATTTGA
1 AAATTAAAGCTTATTGAGTCTAGTTTTACATAGAAGAAAAGAATTTCATTTTATGAGATATTTGA
66967747 ATTTTTGTGAGACAATGTC
66 ATTTTTGTGAGACAATGTC
66967766 AAATTAAAGCTTATTGAGTCTAGTTTTACATAGAAGAAAAGAATTTCATTTTATGAGATATTTGA
1 AAATTAAAGCTTATTGAGTCTAGTTTTACATAGAAGAAAAGAATTTCATTTTATGAGATATTTGA
66967831 ATTTTTGTGAGACAATGTC
66 ATTTTTGTGAGACAATGTC
66967850 AAA
1 AAA
66967853 ATGATTTCGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (84 bp):
AAATTAAAGCTTATTGAGTCTAGTTTTACATAGAAGAAAAGAATTTCATTTTATGAGATATTTGA
ATTTTTGTGAGACAATGTC
Found at i:66971425 original size:30 final size:30
Alignment explanation
Indices: 66971389--66971450 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
66971379 AATCGGAAGT
66971389 TTTGGCACTAAGTGTGAGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTTAAACTAGC
*
66971419 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTTAAACTAGC
66971449 TT
1 TT
66971451 CTACTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGAGATTTAAACTAGC
Found at i:66977811 original size:30 final size:30
Alignment explanation
Indices: 66977775--66977836 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
66977765 AATCGGAAGT
66977775 TTTGGCACTAAGTGTGAGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTTAAACTAGC
*
66977805 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTTAAACTAGC
66977835 TT
1 TT
66977837 CTACTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGAGATTTAAACTAGC
Found at i:66986303 original size:39 final size:39
Alignment explanation
Indices: 66986259--66986533 Score: 464
Period size: 39 Copynumber: 7.1 Consensus size: 39
66986249 ATGCAAGACA
*
66986259 CTGGAAATGTATCCGGGCTAAAGTCCC-CTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGC-AGGCTTCGTG
*
66986298 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
66986337 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
66986376 CT-GAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
66986414 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
66986453 CTGGAAATGTATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
** *
66986492 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
66986531 CTG
1 CTG
66986534 ATAATATAAT
Statistics
Matches: 226, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 37 0.16
39 188 0.83
40 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:66986428 original size:116 final size:117
Alignment explanation
Indices: 66986259--66986533 Score: 473
Period size: 116 Copynumber: 2.4 Consensus size: 117
66986249 ATGCAAGACA
*
66986259 CTGGAAATGTATCCGGGCTAAAGTCCC-CTAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGC-AGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
*
66986323 CCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
65 CCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
*
66986376 CT-GAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
*
66986440 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCACAGGCTTCGTG
66 CGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
* *
66986492 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
66986534 ATAATATAAT
Statistics
Matches: 149, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
116 110 0.74
117 39 0.26
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (117 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCC
CGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
Found at i:66990309 original size:13 final size:13
Alignment explanation
Indices: 66990278--66990310 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66990268 AAACCATATG
66990278 CGAATCAGATGTT
1 CGAATCAGATGTT
*
66990291 -GAATCAGATTTT
1 CGAATCAGATGTT
66990303 CGAATCAG
1 CGAATCAG
66990311 TTCCGACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (13 bp):
CGAATCAGATGTT
Found at i:66997942 original size:48 final size:47
Alignment explanation
Indices: 66997882--66998058 Score: 147
Period size: 48 Copynumber: 3.7 Consensus size: 47
66997872 TGATATGTGT
* * * * *
66997882 GCTAGTGCAAGACCATGCCTAGGACATGGCATCGACATTGAGACGAGG
1 GCTAGTGAAAGACCATGCCTGGGACATGGCATCG-CATCGACACGAGA
* * * *
66997930 GCTAGTGAAAGACCATGTCTGGGACATGGCATCTGCCTCGACATGTGA
1 GCTAGTGAAAGACCATGCCTGGGACATGGCATC-GCATCGACACGAGA
* * * * *
66997978 GCTAGAGTAAGACCATGCCTGGGACATGGCATCGGCCTCGACATGTGA
1 GCTAGTGAAAGACCATGCCTGGGACATGGCATC-GCATCGACACGAGA
* * * * * *
66998026 GCCAATGTAAGACCATGTCTAGGATATGGCATC
1 GCTAGTGAAAGACCATGCCTGGGACATGGCATC
66998059 AACAATTTAC
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
48 108 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.20
Consensus pattern (47 bp):
GCTAGTGAAAGACCATGCCTGGGACATGGCATCGCATCGACACGAGA
Found at i:67003268 original size:28 final size:27
Alignment explanation
Indices: 67003205--67003274 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
67003195 ATAGTGAGTC
67003205 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
67003232 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
67003260 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67003275 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:67011188 original size:28 final size:27
Alignment explanation
Indices: 67011125--67011194 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
67011115 ATAGTGAGTC
67011125 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
67011152 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
67011180 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67011195 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:67017545 original size:46 final size:48
Alignment explanation
Indices: 67017475--67017574 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 48
67017465 AGTTGTATTA
*
67017475 AGCTGAAACAGTAAGCTCTGACGAGCTG-A-A-CAGTAAGCTCATACG
1 AGCTGAAACAATAAGCTCTGACGAGCTGAATATCAGTAAGCTCATACG
* *
67017520 AGCTGAAAACAATAAGCTCTTACGAGCTGATATATCGGTAAGCTCATACG
1 AGCTG-AAACAATAAGCTCTGACGAGCTGA-ATATCAGTAAGCTCATACG
67017570 AGCTG
1 AGCTG
67017575 TGGTGATTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 5 0.11
46 21 0.45
48 1 0.02
49 1 0.02
50 19 0.40
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (48 bp):
AGCTGAAACAATAAGCTCTGACGAGCTGAATATCAGTAAGCTCATACG
Found at i:67017569 original size:26 final size:24
Alignment explanation
Indices: 67017475--67017574 Score: 109
Period size: 24 Copynumber: 4.2 Consensus size: 24
67017465 AGTTGTATTA
67017475 AGCTG-AAACAGTAAGCTC-TGACG
1 AGCTGAAAACAGTAAGCTCAT-ACG
67017498 AGCTG--AACAGTAAGCTCATACG
1 AGCTGAAAACAGTAAGCTCATACG
* *
67017520 AGCTGAAAACAATAAGCTCTTACG
1 AGCTGAAAACAGTAAGCTCATACG
* *
67017544 AGCTGATATATCGGTAAGCTCATACG
1 AGCTGA-A-AACAGTAAGCTCATACG
67017570 AGCTG
1 AGCTG
67017575 TGGTGATTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
22 20 0.30
23 6 0.09
24 21 0.32
25 1 0.02
26 18 0.27
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCATACG
Done.