Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 142 of 322
Found at i:46407523 original size:9 final size:9
Alignment explanation
Indices: 46407495--46407557 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
46407485 CATGTGCATT
46407495 TCATACATA
1 TCATACATA
*
46407504 TCATGTGCATA
1 TCA--TACATA
46407515 TCATACATA
1 TCATACATA
*
46407524 TCATGTGCATA
1 TCA--TACATA
46407535 TCATATCA-A
1 TCATA-CATA
46407544 TCATACATA
1 TCATACATA
46407553 TCATA
1 TCATA
46407558 TCCCACGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.05
9 24 0.55
10 2 0.05
11 16 0.36
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (9 bp):
TCATACATA
Found at i:46407547 original size:20 final size:20
Alignment explanation
Indices: 46407483--46407539 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
46407473 TTATGATTAC
*
46407483 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
46407503 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46407523 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
46407540 TCAATCATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46407552 original size:4 final size:5
Alignment explanation
Indices: 46407495--46407559 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
46407485 CATGTGCATT
* *
46407495 TCATA -CATA TCATG TGCATA TCATA -CATA TCATG TGCATA TCATA TCA-A
1 TCATA TCATA TCATA T-CATA TCATA TCATA TCATA T-CATA TCATA TCATA
46407544 TCATA -CATA TCATA TC
1 TCATA TCATA TCATA TC
46407560 CCACGTATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 16 0.32
5 26 0.52
6 8 0.16
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (5 bp):
TCATA
Found at i:46414622 original size:22 final size:22
Alignment explanation
Indices: 46414596--46414639 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46414586 AACAAAGTGA
46414596 ATGAAAGCTGGGCACCAGGTAG
1 ATGAAAGCTGGGCACCAGGTAG
46414618 ATGAAAGCTGGGCACCAGGTAG
1 ATGAAAGCTGGGCACCAGGTAG
46414640 GAATCCGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (22 bp):
ATGAAAGCTGGGCACCAGGTAG
Found at i:46414815 original size:22 final size:22
Alignment explanation
Indices: 46414789--46414832 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46414779 AACAAAGTGA
46414789 ATGAAAGCTGGGCACCAGGTAG
1 ATGAAAGCTGGGCACCAGGTAG
46414811 ATGAAAGCTGGGCACCAGGTAG
1 ATGAAAGCTGGGCACCAGGTAG
46414833 GAATCCGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (22 bp):
ATGAAAGCTGGGCACCAGGTAG
Found at i:46414885 original size:193 final size:193
Alignment explanation
Indices: 46414556--46414941 Score: 772
Period size: 193 Copynumber: 2.0 Consensus size: 193
46414546 GTTTCATTTT
46414556 AGTGCTTTAAAAACCGACTTTTGTTAAGCTAACAAAGTGAATGAAAGCTGGGCACCAGGTAGATG
1 AGTGCTTTAAAAACCGACTTTTGTTAAGCTAACAAAGTGAATGAAAGCTGGGCACCAGGTAGATG
46414621 AAAGCTGGGCACCAGGTAGGAATCCGTAGCAGAGGAGGTGAGCCATAAAGGCTGCTTAAATACCA
66 AAAGCTGGGCACCAGGTAGGAATCCGTAGCAGAGGAGGTGAGCCATAAAGGCTGCTTAAATACCA
46414686 AGCTCTTCAAATGGATCCAATCCTAGACATGCCCACAACCATTGCCACACTTAGTTAAATCAA
131 AGCTCTTCAAATGGATCCAATCCTAGACATGCCCACAACCATTGCCACACTTAGTTAAATCAA
46414749 AGTGCTTTAAAAACCGACTTTTGTTAAGCTAACAAAGTGAATGAAAGCTGGGCACCAGGTAGATG
1 AGTGCTTTAAAAACCGACTTTTGTTAAGCTAACAAAGTGAATGAAAGCTGGGCACCAGGTAGATG
46414814 AAAGCTGGGCACCAGGTAGGAATCCGTAGCAGAGGAGGTGAGCCATAAAGGCTGCTTAAATACCA
66 AAAGCTGGGCACCAGGTAGGAATCCGTAGCAGAGGAGGTGAGCCATAAAGGCTGCTTAAATACCA
46414879 AGCTCTTCAAATGGATCCAATCCTAGACATGCCCACAACCATTGCCACACTTAGTTAAATCAA
131 AGCTCTTCAAATGGATCCAATCCTAGACATGCCCACAACCATTGCCACACTTAGTTAAATCAA
46414942 GCTGTAATTT
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (193 bp):
AGTGCTTTAAAAACCGACTTTTGTTAAGCTAACAAAGTGAATGAAAGCTGGGCACCAGGTAGATG
AAAGCTGGGCACCAGGTAGGAATCCGTAGCAGAGGAGGTGAGCCATAAAGGCTGCTTAAATACCA
AGCTCTTCAAATGGATCCAATCCTAGACATGCCCACAACCATTGCCACACTTAGTTAAATCAA
Found at i:46415699 original size:26 final size:26
Alignment explanation
Indices: 46415634--46415769 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
46415624 CTGGAGGCCT
46415634 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
***
46415658 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
46415684 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** **
46415710 AGCCCTTTTCGGTAAACTAAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
46415736 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
*
46415761 AGCTCTTTT
1 AGCCCTTTT
46415770 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 18 0.19
26 65 0.70
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:46415715 original size:52 final size:52
Alignment explanation
Indices: 46415634--46415769 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
46415624 CTGGAGGCCT
* **
46415634 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTTGGTAAACTGGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAAGGCATA
*
46415684 AGCCCTTTTCAATAAATTGGGGCATAAGCCCTTTTCGGTAAACTAAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAAGGCATA
*
46415736 AGCCCTTTTCAATAAACTGGGGCAT-AGCTCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
46415770 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
49 5 0.06
50 7 0.09
51 17 0.22
52 48 0.62
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAAGGCATA
Found at i:46415848 original size:20 final size:20
Alignment explanation
Indices: 46415819--46415893 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
46415809 TTATGATTAC
* *
46415819 ATCATATGCATTTCATACAT
1 ATCATGTGCATATCATACAT
46415839 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46415859 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
46415879 ATCA--TGCATATCATA
1 ATCATGTGCATATCATA
46415894 TCCCACGTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.21
20 39 0.75
21 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46415850 original size:11 final size:11
Alignment explanation
Indices: 46415836--46415874 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
46415826 GCATTTCATA
46415836 CATATCATGTG
1 CATATCATGTG
*
46415847 CATATCA--TA
1 CATATCATGTG
46415856 CATATCATGTG
1 CATATCATGTG
46415867 CATATCAT
1 CATATCAT
46415875 ATCAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:46426457 original size:29 final size:29
Alignment explanation
Indices: 46426420--46426609 Score: 328
Period size: 29 Copynumber: 6.6 Consensus size: 29
46426410 GTTGAGAGAT
46426420 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
46426449 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
46426478 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
46426507 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
46426536 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
* * *
46426565 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
*
46426594 TGGCACTAAGTGTGCG
1 TGGCACTGAGTGTGCG
46426610 CGGTTGATTA
Statistics
Matches: 157, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
28 5 0.03
29 152 0.97
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTGAGTGTGCGAGCTTGAAATGCA
Found at i:46435820 original size:21 final size:21
Alignment explanation
Indices: 46435794--46435835 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46435784 ATAATAAAGA
*
46435794 AAAGTGGGATTGATGGCCATT
1 AAAGTGGAATTGATGGCCATT
46435815 AAAGTGGAATTGATGGCCATT
1 AAAGTGGAATTGATGGCCATT
46435836 TATCATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (21 bp):
AAAGTGGAATTGATGGCCATT
Found at i:46440656 original size:40 final size:40
Alignment explanation
Indices: 46440369--46440636 Score: 450
Period size: 40 Copynumber: 6.7 Consensus size: 40
46440359 CATTTGAATG
* * * *
46440369 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGC-TAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA-T
*
46440409 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
46440449 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
46440489 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
46440529 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
46440569 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
46440609 ATATCCGGGCTAAGACCCGAAGGCATTT
1 ATATCCGGGCTAAGACCCGAAGGCATTT
46440637 TTGCTTGTGG
Statistics
Matches: 218, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 2 0.01
40 212 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:46450169 original size:79 final size:81
Alignment explanation
Indices: 46450033--46450217 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
46450023 TTGAATGATG
*
46450033 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46450097 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
46450112 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
46450174 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
46450192 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46450218 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:46450231 original size:40 final size:40
Alignment explanation
Indices: 46450034--46450217 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
46450024 TGAATGATGT
* * * *
46450034 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
46450074 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
46450114 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
46450152 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
46450193 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46450218 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:46450239 original size:79 final size:79
Alignment explanation
Indices: 46450034--46450250 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
46450024 TGAATGATGT
** * * * **
46450034 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
46450097 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
46450114 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
46450179 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
46450193 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
46450251 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:46474022 original size:85 final size:85
Alignment explanation
Indices: 46473864--46474022 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
46473854 GTCTGAGACA
* * * *
46473864 TTGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTCTAAGACCATGTCTGGGA
1 TTGTGTAAGACCGTGTCTGGGACACAGGCATCGATTGAGATTTACATCTAAGACCACGTCCGGGA
*
46473929 CATTGGCATCATATTTGATT
66 CATCGGCATCATATTTGATT
* * * * *
46473949 TTGTGTAAGACCTTGTTTGGGATAGAGGCATCGACATTGA-A-TTACATGTAAGACCACGTCCGG
1 TTGTGTAAGACCGTGTCTGGGACACAGGCATCG--ATTGAGATTTACATCTAAGACCACGTCCGG
*
46474012 GACGTCGGCAT
64 GACATCGGCAT
46474023 TGTACCTGTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (85 bp):
TTGTGTAAGACCGTGTCTGGGACACAGGCATCGATTGAGATTTACATCTAAGACCACGTCCGGGA
CATCGGCATCATATTTGATT
Found at i:46481211 original size:42 final size:43
Alignment explanation
Indices: 46481112--46481267 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
46481102 TGAGACATCG
* * * * *
46481112 TGTAAGACCGTGTCTAGGACATAGGCCTCG--ATTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATCGGCATCGACATTGA-A-TTACA
* * *
46481155 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTCCA
1 TGTAAGACCATGTCTGGGACATCGGCATCGACAT-TGAATTACA
* **
46481197 TGTAAGACCTTGTCTGGGACAAAGGCATCGACATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGACATTGAATTACA
* * *
46481240 TGTAAGACCACGTCCGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
46481268 TGTACCTGTT
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.34
43 55 0.61
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGACATTGAATTACA
Found at i:46481246 original size:85 final size:85
Alignment explanation
Indices: 46481112--46481267 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 85
46481102 TGAGACATCG
* * * * *
46481112 TGTAAGACCGTGTCTAGGACATAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCGTGTCTAGGACAAAGGCATCGATTGAGATTTACATATAAGACCACGTCCGGGACAT
46481177 CGGCATCGTATCTGATTCCA
66 CGGCATCGTATCTGATTCCA
* * *
46481197 TGTAAGACCTTGTCTGGGACAAAGGCATCGACATTGA-A-TTACATGTAAGACCACGTCCGGGAC
1 TGTAAGACCGTGTCTAGGACAAAGGCATCG--ATTGAGATTTACATATAAGACCACGTCCGGGAC
*
46481260 GTCGGCAT
64 ATCGGCAT
46481268 TGTACCTGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 54 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (85 bp):
TGTAAGACCGTGTCTAGGACAAAGGCATCGATTGAGATTTACATATAAGACCACGTCCGGGACAT
CGGCATCGTATCTGATTCCA
Found at i:46482824 original size:27 final size:27
Alignment explanation
Indices: 46482794--46482941 Score: 131
Period size: 27 Copynumber: 5.5 Consensus size: 27
46482784 CCCTTAATCG
* *
46482794 GGTAACATGACTGAAATAACCCCATAA
1 GGTAAAATGACTGAAATACCCCCATAA
* *
46482821 GGTAAAATGACCGGAATACCCCCATAA
1 GGTAAAATGACTGAAATACCCCCATAA
*
46482848 GGTAAAATCA-TCGAAATACCCCCAT-A
1 GGTAAAATGACT-GAAATACCCCCATAA
** * *
46482874 GGATAAAATGACCAAAATATCCCTATAA
1 GG-TAAAATGACTGAAATACCCCCATAA
* * **
46482902 GGTATAATGACT-ATAATTCCCCTGTAA
1 GGTAAAATGACTGA-AATACCCCCATAA
46482929 GGTAAAATGACTG
1 GGTAAAATGACTG
46482942 TTTTGCCCTT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.04
27 90 0.93
28 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCCATAA
Found at i:46486023 original size:29 final size:29
Alignment explanation
Indices: 46485981--46486166 Score: 177
Period size: 29 Copynumber: 6.4 Consensus size: 29
46485971 TCATCGACCA
*
46485981 ATGAAAAGGGATAGCTTCAGCTACCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
46486010 ATGAAAAGGGATAGCTTCAGCTATC-AATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAA-T
* *
46486039 ATGAAAAGGGAT-G-TTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAA-T
* * *
46486068 ATGAAAAGGGAT-GGTGAT-AACCATCGAAT
1 ATGAAAAGGGATAGCT--TCAGCTATCGAAT
* * *
46486097 ATGAAAAGGGATAGCTTCGGTTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
46486126 ATAAAAAGGGATAGTTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
46486155 ATGAAAAGGGAT
1 ATGAAAAGGGAT
46486167 GGTGATGACT
Statistics
Matches: 131, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
27 3 0.02
28 5 0.04
29 116 0.89
30 5 0.04
31 1 0.01
32 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:46486072 original size:58 final size:58
Alignment explanation
Indices: 46486009--46486195 Score: 186
Period size: 58 Copynumber: 3.2 Consensus size: 58
46485999 AGCTACCGAA
*
46486009 TATGAAAAGGGATAGCTTCAGCTATC-AATTATGAAAAGGGATGTTGACGACCATCAAC
1 TATGAAAAGGGATAGCTTCAGCTATCGAA-TATGAAAAGGGATGTTGACGACTATCAAC
* * * ** * *
46486067 TATGAAAAGGGAT-GGTGAT-AACCATCGAATATGAAAAGGGATAGCTT--CGGTTATCGAT
1 TATGAAAAGGGATAGCT--TCAGCTATCGAATATGAAAAGGGAT-G-TTGACGACTATCAAC
* * * *
46486125 TATAAAAAGGGATAGTTTCAGCTATCGAATATGAAAAGGGATGGTGATGACTATCAAC
1 TATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGATGTTGACGACTATCAAC
46486183 TATGAAAAGGGAT
1 TATGAAAAGGGAT
46486196 GGTGACGACC
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
56 1 0.01
57 4 0.04
58 88 0.87
59 6 0.06
60 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (58 bp):
TATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGATGTTGACGACTATCAAC
Found at i:46486109 original size:116 final size:117
Alignment explanation
Indices: 46485980--46486225 Score: 354
Period size: 116 Copynumber: 2.1 Consensus size: 117
46485970 ATCATCGACC
*
46485980 AATGAAAAGGGATAGCTTCAGCTACCGAATATGAAAAGGGATAGCTTCAGCTATC-AATTATGAA
1 AATGAAAAGGGATAGCTTCAGCTACCGAATATAAAAAGGGATAGCTTCAGCTATCGAA-TATGAA
* *
46486044 AAGGGATGTTGACGACCATCAACTATGAAAAGGGATGGTGATAACCATCGAA-T
65 AAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATC-AATT
* * * * *
46486097 -ATGAAAAGGGATAGCTTCGGTTATCGATTATAAAAAGGGATAGTTTCAGCTATCGAATATGAAA
1 AATGAAAAGGGATAGCTTCAGCTACCGAATATAAAAAGGGATAGCTTCAGCTATCGAATATGAAA
* * *
46486161 AGGGATGGTGATGACTATCAACTATGAAAAGGGATGGTGACGACCATCAATT
66 AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAATT
46486213 AATGAAAAGGGAT
1 AATGAAAAGGGAT
46486226 GGTTTCGATC
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
115 2 0.02
116 99 0.86
117 14 0.12
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (117 bp):
AATGAAAAGGGATAGCTTCAGCTACCGAATATAAAAAGGGATAGCTTCAGCTATCGAATATGAAA
AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAATT
Found at i:46486127 original size:87 final size:87
Alignment explanation
Indices: 46486005--46486195 Score: 246
Period size: 87 Copynumber: 2.2 Consensus size: 87
46485995 CTTCAGCTAC
*
46486005 CGAATATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAGGGAT-GTTGAC-GACCATC-AAC
1 CGAATATGAAAAGGGATAGCTTCAGCTATCAATTATAAAAAGGGATAGTT-ACAG-CCATCGAA-
46486067 TATGAAAAGGGATGGTGATAACCAT
63 TATGAAAAGGGATGGTGATAACCAT
* * * * *
46486092 CGAATATGAAAAGGGATAGCTTCGGTTATCGATTATAAAAAGGGATAGTTTCAGCTATCGAATAT
1 CGAATATGAAAAGGGATAGCTTCAGCTATCAATTATAAAAAGGGATAGTTACAGCCATCGAATAT
* *
46486157 GAAAAGGGATGGTGATGACTAT
66 GAAAAGGGATGGTGATAACCAT
46486179 C-AACTATGAAAAGGGAT
1 CGAA-TATGAAAAGGGAT
46486196 GGTGACGACC
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
86 2 0.02
87 84 0.91
88 6 0.07
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (87 bp):
CGAATATGAAAAGGGATAGCTTCAGCTATCAATTATAAAAAGGGATAGTTACAGCCATCGAATAT
GAAAAGGGATGGTGATAACCAT
Found at i:46486178 original size:29 final size:28
Alignment explanation
Indices: 46486005--46486253 Score: 134
Period size: 29 Copynumber: 8.6 Consensus size: 28
46485995 CTTCAGCTAC
* *
46486005 CGAATATGAAAAGGGATAGCT-TCAGCTAT
1 CGAATATGAAAAGGGAT-GGTATGA-CTAT
* * *
46486034 C-AATTATGAAAAGGGATGTTGACGACCAT
1 CGAA-TATGAAAAGGGATGGT-ATGACTAT
* *
46486063 C-AACTATGAAAAGGGATGGTGATAACCAT
1 CGAA-TATGAAAAGGGATGGT-ATGACTAT
* **
46486092 CGAATATGAAAAGGGATAGCT-TCGGTTAT
1 CGAATATGAAAAGGGAT-GGTAT-GACTAT
* * * * *
46486121 CGATTATAAAAAGGGATAGTTTCAGCTAT
1 CGAATATGAAAAGGGATGGTATGA-CTAT
46486150 CGAATATGAAAAGGGATGGTGATGACTAT
1 CGAATATGAAAAGGGATGGT-ATGACTAT
* *
46486179 C-AACTATGAAAAGGGATGGTGACGACCAT
1 CGAA-TATGAAAAGGGATGGT-ATGACTAT
*
46486208 C-AATTAATGAAAAGGGATGGTTTCGA-TCAT
1 CGAA-T-ATGAAAAGGGATGGTAT-GACT-AT
*
46486238 TGAATATGAAAAGGGA
1 CGAATATGAAAAGGGA
46486254 CGGTTACGAC
Statistics
Matches: 174, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
28 8 0.05
29 137 0.79
30 27 0.16
31 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (28 bp):
CGAATATGAAAAGGGATGGTATGACTAT
Found at i:46495305 original size:27 final size:26
Alignment explanation
Indices: 46495264--46495368 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
46495254 AGGAAGCGTC
46495264 CTGGTGGCTAC-GCCACAATTATCTAAT
1 CTGGTGGCT-CTGCCAC-ATTATCTAAT
***
46495291 CTGGTGGCTCTGCCACATATATCGGTT
1 CTGGTGGCTCTGCCACAT-TATCTAAT
*
46495318 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCT-AAT
* *
46495346 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
46495369 GTTCTGGCAG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.05
27 46 0.70
28 17 0.26
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTAAT
Found at i:46495373 original size:54 final size:54
Alignment explanation
Indices: 46495264--46495375 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
46495254 AGGAAGCGTC
*
46495264 CTGGTGGCTACGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCGGTT
1 CTGGTGGCTACGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCGGTT
* * * *
46495318 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCGGTT
46495372 CTGG
1 CTGG
46495376 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.63
55 18 0.35
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCGGTT
Found at i:46502882 original size:28 final size:26
Alignment explanation
Indices: 46502848--46502911 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
46502838 AATTACTTGA
* *
46502848 ATACCCCTATGTATGGAAAATTACTATT
1 ATACCCCTA-G-ATGAAAAATTACCATT
* *
46502876 ATCCCCCTAGGTGAAAAATTACCATT
1 ATACCCCTAGATGAAAAATTACCATT
46502902 ATACCCCTAG
1 ATACCCCTAG
46502912 GGTTACTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 1 0.03
28 8 0.26
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGAAAAATTACCATT
Found at i:46503108 original size:28 final size:27
Alignment explanation
Indices: 46503016--46503120 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
46503006 AGGAAGCGTC
*
46503016 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
46503043 CTAGTGGCTCTACCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
46503070 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
46503098 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
46503121 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 2 0.03
27 48 0.72
28 17 0.25
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:46503120 original size:54 final size:54
Alignment explanation
Indices: 46503016--46503127 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
46503006 AGGAAGCGTC
* *
46503016 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTATT
* * * **
46503070 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCTATT
46503124 CTGG
1 CTGG
46503128 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTATT
Found at i:46505409 original size:29 final size:30
Alignment explanation
Indices: 46505336--46505409 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
46505326 TTTTTAGTGA
* * *
46505336 AAATGCAAAATAAGGATTAAACTGTGAAAT
1 AAATGAAAAATATGGATTAAAATGTGAAAT
*
46505366 --GTGAAAACATCATGG-TTAAAATGTGAAAT
1 AAATGAAAA-AT-ATGGATTAAAATGTGAAAT
46505395 AAATGAAAAATATGG
1 AAATGAAAAATATGG
46505410 GCTGATAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
28 5 0.14
29 19 0.54
30 5 0.14
31 6 0.17
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.24
Consensus pattern (30 bp):
AAATGAAAAATATGGATTAAAATGTGAAAT
Found at i:46505951 original size:27 final size:27
Alignment explanation
Indices: 46505873--46505952 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
46505863 ATTAGGGAGA
46505873 TTTGGCTTCGAGCCATGATATTGGCAC
1 TTTGGCTTCGAGCCATGATATTGGCAC
* * * *
46505900 TTCGAG-TTTGAG---TTACATT-G-A-
1 TTTG-GCTTCGAGCCATGATATTGGCAC
46505921 TTTGGCTTCGAGCCATGATATTGGCAC
1 TTTGGCTTCGAGCCATGATATTGGCAC
46505948 TTTGG
1 TTTGG
46505953 GTGCGAGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 1 0.03
21 8 0.22
22 1 0.03
23 1 0.03
24 10 0.27
25 1 0.03
26 1 0.03
27 13 0.35
28 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (27 bp):
TTTGGCTTCGAGCCATGATATTGGCAC
Found at i:46506009 original size:48 final size:48
Alignment explanation
Indices: 46505871--46506011 Score: 176
Period size: 48 Copynumber: 2.9 Consensus size: 48
46505861 TCATTAGGGA
* * **
46505871 GATTTGGCTTCGAGCCATGATATTGGCACTTCGAGTTTGAG-TTACATT
1 GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATT-CATT
* **
46505919 GATTTGGCTTCGAGCCATGATATTGGCACTTTGGGTGCGAGATTCATT
1 GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATTCATT
* * *
46505967 TATTTGGCTTTGGGCCATGATATTGGCACTTAGGGTAAGAGATTC
1 GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATTC
46506012 TCGAGCATCT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 80 0.98
49 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.36
Consensus pattern (48 bp):
GATTTGGCTTCGAGCCATGATATTGGCACTTAGGGTAAGAGATTCATT
Found at i:46512942 original size:18 final size:18
Alignment explanation
Indices: 46512902--46512940 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46512892 AAATCATTCC
* *
46512902 AAACCATTCCATCTACTT
1 AAACCATTTCATATACTT
46512920 AAACCATTTCATATCACTT
1 AAACCATTTCATAT-ACTT
46512939 AA
1 AA
46512941 CCTTTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
AAACCATTTCATATACTT
Found at i:46516767 original size:40 final size:39
Alignment explanation
Indices: 46516703--46516788 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 39
46516693 AACCATTTGG
* *
46516703 AAATGA-ATGTAGTTTCCAAAAAATGGAAATGGAAATGA
1 AAATGAGATGTAGTGTCCAAAAAATGGAAATGCAAATGA
46516741 AAATGAGATGTAGGTGTCCAAAAAATGGAAATGCAAATGA
1 AAATGAGATGTA-GTGTCCAAAAAATGGAAATGCAAATGA
46516781 AAATGAGA
1 AAATGAGA
46516789 ATGGAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 6 0.14
39 5 0.11
40 33 0.75
ACGTcount: A:0.50, C:0.06, G:0.23, T:0.21
Consensus pattern (39 bp):
AAATGAGATGTAGTGTCCAAAAAATGGAAATGCAAATGA
Found at i:46525505 original size:28 final size:26
Alignment explanation
Indices: 46525464--46525582 Score: 70
Period size: 28 Copynumber: 4.5 Consensus size: 26
46525454 ATAAAAACCT
*
46525464 AAAATATCTCTAAATTTTTAAAAACTTA
1 AAAATATAT-TAAATTTTTAAAAA-TTA
46525492 AAAATATATATAAA----T-AAAATTA
1 AAAATATAT-TAAATTTTTAAAAATTA
* *
46525514 TAAGTATA-TATAATTGTTTAAAAAATTA
1 AAAATATATTA-AATT-TTT-AAAAATTA
* *
46525542 AAAATATGTTAGAATTTTTTAAAATTA
1 AAAATATATTA-AATTTTTAAAAATTA
*
46525569 TAAAATTTATTAAA
1 -AAAATATATTAAA
46525583 AACTATAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 21
0.69 0.11 0.21
Matches are distributed among these distances:
20 2 0.03
21 2 0.03
22 9 0.13
23 4 0.06
24 1 0.01
26 1 0.01
27 9 0.13
28 36 0.51
29 6 0.09
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (26 bp):
AAAATATATTAAATTTTTAAAAATTA
Found at i:46525632 original size:38 final size:37
Alignment explanation
Indices: 46525590--46525678 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 37
46525580 AAAAACTATA
* *
46525590 AAAAATTTATAAAAGTCATTAGATA-TGTAGAAAATTTT
1 AAAAATTTATAAAA-TCA-TAAATACTGTAAAAAATTTT
46525628 AAAAA-TTATTAGAAATCATAAATACTGTAAAAAATTTT
1 AAAAATTTA-TA-AAATCATAAATACTGTAAAAAATTTT
*
46525666 -AAAATTTTTAAAA
1 AAAAATTTATAAAA
46525679 ACTTGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
36 3 0.07
37 14 0.32
38 24 0.55
39 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (37 bp):
AAAAATTTATAAAATCATAAATACTGTAAAAAATTTT
Found at i:46525677 original size:19 final size:19
Alignment explanation
Indices: 46525655--46525691 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46525645 ATAAATACTG
*
46525655 TAAAAAATTTTAAAATTTT
1 TAAAAAATTGTAAAATTTT
*
46525674 TAAAAACTTGTAAAATTT
1 TAAAAAATTGTAAAATTT
46525692 GTTGCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (19 bp):
TAAAAAATTGTAAAATTTT
Found at i:46525842 original size:13 final size:13
Alignment explanation
Indices: 46525826--46525881 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
46525816 AATTTTGAAT
46525826 AAATTTCTATATC
1 AAATTTCTATATC
* *
46525839 AAATTTTTAATATA
1 AAATTTCT-ATATC
*
46525853 AAATTT-GA-AT-
1 AAATTTCTATATC
46525863 AAATTTCTATATC
1 AAATTTCTATATC
46525876 AAATTT
1 AAATTT
46525882 TTAATATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
12 3 0.09
13 13 0.37
14 10 0.29
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (13 bp):
AAATTTCTATATC
Found at i:46525866 original size:37 final size:38
Alignment explanation
Indices: 46525814--46525888 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
46525804 AAATATTTTA
46525814 AAAATTTTGAATAAATTTCTATATCAAATTTTTAATAT
1 AAAATTTTGAATAAATTTCTATATCAAATTTTTAATAT
46525852 AAAA-TTTGAATAAATTTCTATATCAAATTTTTAATAT
1 AAAATTTTGAATAAATTTCTATATCAAATTTTTAATAT
46525889 TCAAAATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (38 bp):
AAAATTTTGAATAAATTTCTATATCAAATTTTTAATAT
Found at i:46538365 original size:39 final size:39
Alignment explanation
Indices: 46538322--46538399 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
46538312 AAAGTATGTA
*
46538322 TCTTAGAGCTAAACTAGGAAGATGCCATGATCTTTATAT
1 TCTTAGAGCTAAACTAGGAAGATGCCATGATCTTAATAT
*
46538361 TCTTAGAGCTAAACTAGGATGATGCCATGATCTTAATAT
1 TCTTAGAGCTAAACTAGGAAGATGCCATGATCTTAATAT
46538400 GATAAGAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (39 bp):
TCTTAGAGCTAAACTAGGAAGATGCCATGATCTTAATAT
Found at i:46547915 original size:21 final size:21
Alignment explanation
Indices: 46547891--46547946 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
46547881 GTTAACTACC
46547891 TAATGGTCATGGAAAGGCCTA
1 TAATGGTCATGGAAAGGCCTA
46547912 TAATGGTCATGGAAAGGCCTA
1 TAATGGTCATGGAAAGGCCTA
46547933 TAATGGTCATGGAA
1 TAATGGTCATGGAA
46547947 CTATAGTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (21 bp):
TAATGGTCATGGAAAGGCCTA
Found at i:46551008 original size:8 final size:8
Alignment explanation
Indices: 46550995--46551019 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46550985 TTATCAGCTC
46550995 TTATTATT
1 TTATTATT
46551003 TTATTATT
1 TTATTATT
46551011 TTATTATT
1 TTATTATT
46551019 T
1 T
46551020 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:46552764 original size:39 final size:39
Alignment explanation
Indices: 46552710--46552786 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
46552700 ATCTTCAGCC
*
46552710 AAAAACAACTATAGAAGAGCTCCTTAAGCTAGTTTTTCT
1 AAAAACAACCATAGAAGAGCTCCTTAAGCTAGTTTTTCT
* *
46552749 AAAAACAGCCATAGAAGAGCTCCTTAAGCTGGTTTTTC
1 AAAAACAACCATAGAAGAGCTCCTTAAGCTAGTTTTTC
46552787 ATAATTTAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (39 bp):
AAAAACAACCATAGAAGAGCTCCTTAAGCTAGTTTTTCT
Found at i:46564431 original size:17 final size:18
Alignment explanation
Indices: 46564409--46564443 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46564399 TTACATTGAA
46564409 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
46564426 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
46564444 CTTATTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:46564629 original size:20 final size:20
Alignment explanation
Indices: 46564604--46564645 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
46564594 TCGTAATTAG
* *
46564604 AATGGAGATAATAATGCTTC
1 AATGGAAATAATAATACTTC
46564624 AATGGAAATAATAATACTTC
1 AATGGAAATAATAATACTTC
46564644 AA
1 AA
46564646 GTAATAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (20 bp):
AATGGAAATAATAATACTTC
Found at i:46565531 original size:28 final size:29
Alignment explanation
Indices: 46565500--46565611 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 29
46565490 ATACATGCAT
*
46565500 ATGGCCCACTAGGCCCAA-TCTTATTCAA
1 ATGGCCCACTAGGCCCAATTCATATTCAA
* **
46565528 ATGGACCATCT-GGCCCAATTCATATTCTT
1 ATGGCCCA-CTAGGCCCAATTCATATTCAA
* * *
46565557 ATGGCCCACTAGGCCGAATTCACATTCAT
1 ATGGCCCACTAGGCCCAATTCATATTCAA
* * *
46565586 ATGACCCATTAGACCCAGA-TCATATT
1 ATGGCCCACTAGGCCCA-ATTCATATT
46565612 ATATTCATAC
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.24
29 50 0.75
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
ATGGCCCACTAGGCCCAATTCATATTCAA
Found at i:46565560 original size:29 final size:29
Alignment explanation
Indices: 46565497--46565588 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
46565487 TACATACATG
* *
46565497 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGACCACTAGGCCCAATTCATATT
*
46565525 CAAATGGACCATCT-GGCCCAATTCATATT
1 CATATGGACCA-CTAGGCCCAATTCATATT
* * * *
46565554 CTTATGGCCCACTAGGCCGAATTCACATT
1 CATATGGACCACTAGGCCCAATTCATATT
46565583 CATATG
1 CATATG
46565589 ACCCATTAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
28 18 0.35
29 34 0.65
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
CATATGGACCACTAGGCCCAATTCATATT
Found at i:46565715 original size:10 final size:9
Alignment explanation
Indices: 46565683--46565720 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
46565673 ATGGGCTCAA
46565683 TAGCCCA-T
1 TAGCCCATT
46565691 TAGGCCCATT
1 TA-GCCCATT
46565701 TAGCCCATT
1 TAGCCCATT
46565710 TCAGCCCATT
1 T-AGCCCATT
46565720 T
1 T
46565721 GGCCAATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.07
9 13 0.48
10 12 0.44
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (9 bp):
TAGCCCATT
Found at i:46565870 original size:16 final size:16
Alignment explanation
Indices: 46565833--46565885 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
46565823 CAACTTTCGA
* *
46565833 CTTTTCGGCATTTTAG
1 CTTTTCGACATTTTGG
*
46565849 -TATTTCGACTTTTTGG
1 CT-TTTCGACATTTTGG
*
46565865 CTTTTCGGCATTTTGG
1 CTTTTCGACATTTTGG
46565881 CTTTT
1 CTTTT
46565886 ACCGATTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.09, C:0.17, G:0.19, T:0.55
Consensus pattern (16 bp):
CTTTTCGACATTTTGG
Found at i:46565877 original size:24 final size:24
Alignment explanation
Indices: 46565827--46565877 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
46565817 GTAGCCCAAC
* *
46565827 TTTCGACTTTTCGGCATTTTAGTA
1 TTTCGACTTTTCGGCATTTCAGCA
* * *
46565851 TTTCGACTTTTTGGCTTTTCGGCA
1 TTTCGACTTTTCGGCATTTCAGCA
46565875 TTT
1 TTT
46565878 TGGCTTTTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (24 bp):
TTTCGACTTTTCGGCATTTCAGCA
Found at i:46569284 original size:22 final size:22
Alignment explanation
Indices: 46569249--46569297 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
46569239 TAATCGTATA
46569249 TTTATTATTCTATTTTAATTAT
1 TTTATTATTCTATTTTAATTAT
*
46569271 TTTAGTTATT-TATTTTAATTGT
1 TTTA-TTATTCTATTTTAATTAT
46569293 TTTAT
1 TTTAT
46569298 CTAACTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.76
23 5 0.20
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTATTATTCTATTTTAATTAT
Found at i:46570776 original size:43 final size:43
Alignment explanation
Indices: 46570728--46570839 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
46570718 CCGGCATTAC
46570728 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
46570771 GCCTGCTAGGCATGAAGGCCCTAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
46570814 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
46570840 TAATACCAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:46570886 original size:38 final size:38
Alignment explanation
Indices: 46570832--46570915 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
46570822 GGCACGAAGG
* * *
46570832 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
46570870 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
46570908 CCCGAATA
1 CCCGAATA
46570916 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:46578678 original size:16 final size:16
Alignment explanation
Indices: 46578645--46578678 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46578635 TGCAGCTGTT
* *
46578645 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
46578661 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
46578677 AA
1 AA
46578679 TACAAAGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:46581507 original size:21 final size:21
Alignment explanation
Indices: 46581481--46581521 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46581471 AGACGAGCAA
* *
46581481 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
46581502 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
46581522 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:46583460 original size:16 final size:16
Alignment explanation
Indices: 46583427--46583460 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46583417 GGAGATTGTT
* *
46583427 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
46583443 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
46583459 AA
1 AA
46583461 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:46585625 original size:44 final size:44
Alignment explanation
Indices: 46585576--46585659 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
46585566 TTCTTATAAA
46585576 ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAATTTC
1 ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAATTTC
* *
46585620 ATGGGTTTTGTTTATAAATTTTGCATATTTTTCAGTAAAA
1 ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAA
46585660 CGTCATACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (44 bp):
ATGGGTTTTGTTTATAAATTTTGCACATTATTCAGTAAAATTTC
Found at i:46588945 original size:23 final size:23
Alignment explanation
Indices: 46588915--46589031 Score: 89
Period size: 23 Copynumber: 5.0 Consensus size: 23
46588905 AGTTTACTAT
46588915 TTTCAGCTCATTAGAGCTTACCG
1 TTTCAGCTCATTAGAGCTTACCG
*
46588938 TTTCAGCT--TCTATGAGCTTACTG
1 TTTCAGCTCAT-TA-GAGCTTACCG
* *
46588961 -TTCAGCTTGA-TAGAGGTTACCG
1 TTTCAGC-TCATTAGAGCTTACCG
* *
46588983 TTTCAGCTCATTAGAGTTTACTG
1 TTTCAGCTCATTAGAGCTTACCG
**
46589006 TTCATCAGCTCAGGAAGAGCTTACCG
1 TT--TCAGCTCA-TTAGAGCTTACCG
46589032 ACCATAGCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
21 1 0.01
22 18 0.24
23 38 0.51
25 8 0.11
26 9 0.12
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCG
Found at i:46590993 original size:43 final size:44
Alignment explanation
Indices: 46590881--46590993 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
46590871 CAATGCCAAC
* * *
46590881 GTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCTACT
1 GTCCCAAACATGGTCTTACATGTAAATCAAATATCGATGCGACT
* * *
46590924 GTCCCAGACAAGGTCTTACACG-AAATCAAATAT-GATGCCGA-T
1 GTCCCAAACATGGTCTTACATGTAAATCAAATATCGATG-CGACT
* *
46590966 GTCCTAAACATGGTCTTATATGTAAATC
1 GTCCCAAACATGGTCTTACATGTAAATC
46590994 TCAAATCGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
42 22 0.38
43 36 0.62
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
GTCCCAAACATGGTCTTACATGTAAATCAAATATCGATGCGACT
Found at i:46593273 original size:4 final size:4
Alignment explanation
Indices: 46593264--46593291 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
46593254 TACACAGTTC
46593264 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
46593292 CCAGACAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:46607937 original size:39 final size:40
Alignment explanation
Indices: 46607842--46608064 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
46607832 TTGAATGATG
*
46607842 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
46607880 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
46607921 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46607960 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46607999 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46608038 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46608065 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46608028 original size:79 final size:81
Alignment explanation
Indices: 46607842--46608064 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
46607832 TTGAATGATG
* * *
46607842 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
46607903 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
46607921 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
46607983 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
46607999 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
46608063 TG
66 TG
46608065 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:46608086 original size:79 final size:79
Alignment explanation
Indices: 46607842--46608097 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
46607832 TTGAATGATG
* * * *
46607842 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
46607903 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
46607921 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
46607985 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
46607999 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
46608063 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
46608079 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46608098 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:46615966 original size:79 final size:81
Alignment explanation
Indices: 46615830--46616014 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
46615820 TTGAATGATG
*
46615830 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46615894 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
46615909 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
46615971 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
46615989 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46616015 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:46616028 original size:40 final size:40
Alignment explanation
Indices: 46615831--46616014 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
46615821 TGAATGATGT
* * * *
46615831 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
46615871 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
46615911 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
46615949 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
46615990 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46616015 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:46616036 original size:79 final size:79
Alignment explanation
Indices: 46615883--46616047 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
46615873 GGACTAAGAT
* **
46615883 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
46615948 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
46615962 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
46616025 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46616041 CCGAAGG
1 CCGAAGG
46616048 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:46633840 original size:40 final size:40
Alignment explanation
Indices: 46633606--46633836 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
46633596 ATAACCACAA
* * * * *
46633606 GCACAATTGCCTTCAGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
46633646 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
46633686 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
46633726 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
46633766 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
46633806 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
46633837 AAATTCAAAT
Statistics
Matches: 177, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 172 0.97
41 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:46639743 original size:40 final size:40
Alignment explanation
Indices: 46639688--46640141 Score: 854
Period size: 40 Copynumber: 11.3 Consensus size: 40
46639678 NNNNNNNNNN
*
46639688 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCC
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
*
46639728 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCC
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
46639768 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
46639808 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
46639848 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
*
46639888 TAGCCCGGATATATCAACTTGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
*
46639928 TAGCCCGGATATATCAACTTGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
46639968 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
*
46640008 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCC
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
*
46640048 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCC
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
46640088 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
46640128 TAGCCCGGATATAT
1 TAGCCCGGATATAT
46640142 TCCAATGCTC
Statistics
Matches: 409, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 409 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCT
Found at i:46646523 original size:23 final size:21
Alignment explanation
Indices: 46646410--46646533 Score: 92
Period size: 22 Copynumber: 5.6 Consensus size: 21
46646400 TCAGCTTGTA
*
46646410 AGAGCTTACTGTTTTTAGCACAT
1 AGAGCTTACTG--TTTAGCTCAT
* *
46646433 TG-GCTTACCGTTTCAGCTC-T
1 AGAGCTTACTGTTT-AGCTCAT
* *
46646453 ATGAGTTTACTATTTAGCTCAAT
1 A-GAGCTTACTGTTTAGCTC-AT
*
46646476 AGAGCTTACTGTTCAGCTCGAT
1 AGAGCTTACTGTTTAGCTC-AT
46646498 AGAGCTTA-TCGTTTTAGCTCATT
1 AGAGCTTACT-G-TTTAGCTCA-T
46646521 AGAGCTTACTGTT
1 AGAGCTTACTGTT
46646534 CATCAGCTCA
Statistics
Matches: 80, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
20 4 0.05
21 11 0.14
22 44 0.55
23 20 0.25
24 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (21 bp):
AGAGCTTACTGTTTAGCTCAT
Found at i:46655870 original size:40 final size:40
Alignment explanation
Indices: 46655822--46656049 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
46655812 GCTACTTGCT
* *
46655822 CAAATGCCTTCGGGACTTAGCCCGCTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46655862 CAAGTGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46655902 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46655942 CAAATGCCTTCGGGACTCAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46655982 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
46656021 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46656050 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46655915 original size:80 final size:79
Alignment explanation
Indices: 46655789--46656045 Score: 333
Period size: 80 Copynumber: 3.2 Consensus size: 79
46655779 AAACCAAGTA
* * * *
46655789 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGCTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG-TTATA
*
46655852 GTAACTCACACAAGTG
64 GTAACTCACACAAATG
* *
46655868 CCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GTTATAG
*
46655933 TAACTCGCACAAATG
65 TAACTCACACAAATG
* **
46655948 CCTTCGGGACTCAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGTTA-TAG
*
46656012 TCACT-AGCACAAATG
65 TAACTCA-CACAAATG
46656027 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46656046 TTATCATCCG
Statistics
Matches: 157, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
78 2 0.01
79 54 0.34
80 100 0.64
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGTTATAGT
AACTCACACAAATG
Found at i:46658878 original size:28 final size:27
Alignment explanation
Indices: 46658814--46658965 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
46658804 TTATTAAGTC
* *
46658814 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
46658841 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
46658869 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
46658896 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
46658924 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
46658951 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46658966 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:46658898 original size:55 final size:55
Alignment explanation
Indices: 46658814--46658990 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
46658804 TTATTAAGTC
* * *
46658814 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
46658869 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
46658924 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
46658980 CGCACACTTAG
1 CGCACACTTAG
46658991 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:46668944 original size:31 final size:32
Alignment explanation
Indices: 46668899--46668965 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
46668889 ACATGCATGC
*
46668899 ACCTTGCTAAAATGAATCTCCA-A-ATTCGGCTA
1 ACCTTGCTAAAATG-ATC-CCACACATTCGGCCA
*
46668931 ACCTTG-TTAAATGATCCCACACATTCGGCCA
1 ACCTTGCTAAAATGATCCCACACATTCGGCCA
46668962 ACCT
1 ACCT
46668966 ATATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 4 0.13
31 18 0.58
32 6 0.19
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (32 bp):
ACCTTGCTAAAATGATCCCACACATTCGGCCA
Found at i:46669297 original size:30 final size:30
Alignment explanation
Indices: 46669239--46669297 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
46669229 TTGAAAATGT
* *
46669239 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
46669269 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
46669298 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:46692255 original size:28 final size:29
Alignment explanation
Indices: 46692201--46692255 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
46692191 CTGTTGCATC
46692201 GTTTTCTCTTTTTTTATCACTCATTTTTT
1 GTTTTCTCTTTTTTTATCACTCATTTTTT
46692230 GTTTT-TCTTCTTTTCTA-CACTC-TTTT
1 GTTTTCTCTT-TTTT-TATCACTCATTTT
46692256 CTTTATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 8 0.33
29 14 0.58
30 2 0.08
ACGTcount: A:0.09, C:0.20, G:0.04, T:0.67
Consensus pattern (29 bp):
GTTTTCTCTTTTTTTATCACTCATTTTTT
Found at i:46693191 original size:42 final size:42
Alignment explanation
Indices: 46693144--46693226 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
46693134 AATATGTGTG
46693144 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
46693186 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
46693227 CTTTGAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:46696173 original size:10 final size:10
Alignment explanation
Indices: 46696144--46696222 Score: 63
Period size: 10 Copynumber: 7.9 Consensus size: 10
46696134 CCAATAAAAT
46696144 AAATGAGCTG
1 AAATGAGCTG
46696154 AAATGTAGCTG
1 AAATG-AGCTG
46696165 AAATGAGCT-
1 AAATGAGCTG
*
46696174 CAATAGAGCTG
1 AAAT-GAGCTG
****
46696185 GTCGGAGCTG
1 AAATGAGCTG
*
46696195 AAACGAGCT-
1 AAATGAGCTG
*
46696204 AAAGGAGCTG
1 AAATGAGCTG
46696214 AAATGAGCT
1 AAATGAGCT
46696223 TGCATGAGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
9 11 0.20
10 33 0.61
11 10 0.19
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (10 bp):
AAATGAGCTG
Found at i:46701221 original size:27 final size:26
Alignment explanation
Indices: 46701190--46701367 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
46701180 TAAATTGTAC
46701190 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
46701217 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
46701243 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
46701271 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* * *
46701299 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
46701326 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
46701353 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46701368 GGCTCAATAA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:46701306 original size:82 final size:81
Alignment explanation
Indices: 46701191--46701346 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
46701181 AAATTGTACA
* *
46701191 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
46701255 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
46701272 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
46701337 TGCGAGTTGA
65 TGCGAATTGA
46701347 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:46701358 original size:82 final size:81
Alignment explanation
Indices: 46701187--46701367 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
46701177 GATTAAATTG
* *
46701187 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
46701252 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
46701268 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
46701332 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
46701350 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
46701368 GGCTCAATAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:46710846 original size:48 final size:47
Alignment explanation
Indices: 46710724--46711013 Score: 230
Period size: 48 Copynumber: 6.0 Consensus size: 47
46710714 ATCATGGCGA
* *
46710724 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGT
1 TATGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGACA-TTGT
* * *
46710773 ATATGCGAGCCAGTGTAAGATCATGTTTGGAACATGGCATCGACATTGT
1 -TATGAGAGCCAGTGTAAGACCATGTCTGG-ACATGGCATCGACATTGT
* * ***
46710822 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-AGCCTCAA
1 TATGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGA-CATTGT
* * * *
46710870 TATGCGAGCCAGTGTAAGACCATGTTTGGAGTATGGCATATG-CATTGT
1 TATGAGAGCCAGTGTAAGACCATGTCTGGA-CATGGCAT-CGACATTGT
* * * *
46710918 TA-CATGTGCCAGTGTAAGACCATGCCCAGGACATGGCATCAGCACCGA-TG-
1 TATGA-GAGCCAGTGTAAGACCATG-TCTGGACATGGCATC-G-A-C-ATTGT
* *
46710968 TATGAAAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGACATT
1 TATGAGAGCCAGTGTAAGACCATGT-CTGGACATGGCATCGACATT
46711014 TTACCCTTTT
Statistics
Matches: 191, Mismatches: 33, Indels: 35
0.74 0.13 0.14
Matches are distributed among these distances:
46 1 0.01
47 6 0.03
48 99 0.52
49 11 0.06
50 69 0.36
51 4 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (47 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGACATTGT
Found at i:46710925 original size:98 final size:98
Alignment explanation
Indices: 46710724--46711013 Score: 356
Period size: 96 Copynumber: 3.0 Consensus size: 98
46710714 ATCATGGCGA
* * *
46710724 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-AGTATATGCGAGCCAGTG
1 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTCA-TATATGCGAGCCAGTG
*
46710788 TAAGATCATGTTTGGAACATGGCATCGACATTGT
65 TAAGACCATGTTTGGAACATGGCATCGACATTGT
46710822 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTCA-ATATGCGAGCCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTCATATATGCGAGCCAGTGT
** *
46710885 AAGACCATGTTTGGAGTATGGCATATG-CATTGT
66 AAGACCATGTTTGGAACATGGCAT-CGACATTGT
** * * * * **
46710918 TACATGTGCCAGTGTAAGACCATGCCCAGGACATGGCATCAGCAC-CGATGTATGAAAGCCAGTG
1 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTC-ATATATGCGAGCCAGTG
** *
46710982 TAAGACCATGTCCGGGACATGGCATCGACATT
65 TAAGACCATGTTTGGAACATGGCATCGACATT
46711014 TTACCCTTTT
Statistics
Matches: 165, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
96 82 0.50
97 6 0.04
98 77 0.47
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (98 bp):
TATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCACTCATATATGCGAGCCAGTGT
AAGACCATGTTTGGAACATGGCATCGACATTGT
Found at i:46720662 original size:9 final size:9
Alignment explanation
Indices: 46720648--46720704 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
46720638 ATCTCGTGTG
46720648 CATATCATA
1 CATATCATA
*
46720657 CATATCATGTG
1 CATATCA--TA
46720668 CATATCATA
1 CATATCATA
* *
46720677 CATGTCATGTG
1 CATATCA--TA
46720688 CATATCATA
1 CATATCATA
46720697 CATATCAT
1 CATATCAT
46720705 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:46720667 original size:20 final size:20
Alignment explanation
Indices: 46720644--46720706 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
46720634 GAACATCTCG
46720644 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
46720664 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
46720684 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
46720704 TGT
1 TGT
46720707 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:46720771 original size:25 final size:25
Alignment explanation
Indices: 46720743--46720790 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
46720733 ATATATAAAC
* *
46720743 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
46720768 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
46720791 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:46728446 original size:191 final size:191
Alignment explanation
Indices: 46728122--46728504 Score: 748
Period size: 191 Copynumber: 2.0 Consensus size: 191
46728112 AGACAATCAC
*
46728122 CGTGGCTACTCTGAATCCCCTCCGGCCCAAGTCCCCACATCAAGGCTCACCTGCAAGGTTAAGGA
1 CGTGGCTACTCTGAATCCCCTCCAGCCCAAGTCCCCACATCAAGGCTCACCTGCAAGGTTAAGGA
46728187 AAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCC
66 AAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCC
46728252 TGTTGGGCCTAAGCCCAAATCCAATCTCAACATGTACTGGGCCGTAGCCCTTTTCATATTT
131 TGTTGGGCCTAAGCCCAAATCCAATCTCAACATGTACTGGGCCGTAGCCCTTTTCATATTT
*
46728313 CGTGGCTACTCTGAATCCCCTCTAGCCCAAGTCCCCACATCAAGGCTCACCTGCAAGGTTAAGGA
1 CGTGGCTACTCTGAATCCCCTCCAGCCCAAGTCCCCACATCAAGGCTCACCTGCAAGGTTAAGGA
46728378 AAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCC
66 AAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCC
46728443 TGTTGGGCCTAAGCCCAAATCCAATCTCAACATGTACTGGGCCGTAGCCCTTTTCATATTT
131 TGTTGGGCCTAAGCCCAAATCCAATCTCAACATGTACTGGGCCGTAGCCCTTTTCATATTT
46728504 C
1 C
46728505 ATTTTTCAGG
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 190 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (191 bp):
CGTGGCTACTCTGAATCCCCTCCAGCCCAAGTCCCCACATCAAGGCTCACCTGCAAGGTTAAGGA
AAGGGGGTGAGTTTGGAAACTCAGTGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATAACAGCC
TGTTGGGCCTAAGCCCAAATCCAATCTCAACATGTACTGGGCCGTAGCCCTTTTCATATTT
Found at i:46728529 original size:31 final size:31
Alignment explanation
Indices: 46728481--46728557 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
46728471 AACATGTACT
* * *
46728481 GGGCCGTAGCCCTTTTCATATTTCATTTTTCA
1 GGGCCGAAG-CCTTTTCATATTTCATATTACA
* * *
46728513 GGGTCGAAGCCTTTTCATATTTTATATTACT
1 GGGCCGAAGCCTTTTCATATTTCATATTACA
46728544 GGGCCGAAGCCTTT
1 GGGCCGAAGCCTTT
46728558 ACTGTAAACG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 31 0.82
32 7 0.18
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.40
Consensus pattern (31 bp):
GGGCCGAAGCCTTTTCATATTTCATATTACA
Found at i:46728788 original size:25 final size:25
Alignment explanation
Indices: 46728751--46728835 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
46728741 GCTTTATCAT
*
46728751 ATAACTGGAGGCCCAGCCTCTTTTA
1 ATAACTGGGGGCCCAGCCTCTTTTA
46728776 ATAACTGGGGGCCCAGCCTCTTTTA
1 ATAACTGGGGGCCCAGCCTCTTTTA
** *
46728801 ATAACT-GGGGCAAAGCCCTTTTTTA
1 ATAACTGGGGGCCCAG-CCTCTTTTA
46728826 ATAACTGGGG
1 ATAACTGGGG
46728836 CATAAGCCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
24 7 0.13
25 44 0.81
26 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
ATAACTGGGGGCCCAGCCTCTTTTA
Found at i:46728887 original size:24 final size:24
Alignment explanation
Indices: 46728765--46728895 Score: 142
Period size: 25 Copynumber: 5.4 Consensus size: 24
46728755 CTGGAGGCCC
**
46728765 AGCCTCTTTTAATAACTGGGGGC-CC
1 AGCC-CTTTTAATAACT-GGGGCATA
46728790 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
46728814 AGCCCTTTTTTAATAACTGGGGCATA
1 AGCCC--TTTTAATAACTGGGGCATA
*
46728840 AGCCC-TTTAATAACTGTGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
46728863 AGCCCTTTTAATAACTTGGGTATA
1 AGCCCTTTTAATAACTGGGGCATA
*
46728887 AGCCATTTT
1 AGCCCTTTT
46728896 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
23 23 0.24
24 32 0.34
25 34 0.36
26 6 0.06
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:46728972 original size:20 final size:20
Alignment explanation
Indices: 46728949--46728991 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
46728939 GAACATCTCG
*
46728949 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
46728969 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
46728989 TGT
1 TGT
46728992 TTATCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:46729056 original size:25 final size:25
Alignment explanation
Indices: 46729028--46729075 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
46729018 ATATATAAAC
*
46729028 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAATGGTCATTTTTA
46729053 CCTAGGGGTAAAATGGTCATTTT
1 CCTAGGGGTAAAATGGTCATTTT
46729076 CATATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGTAAAATGGTCATTTTTA
Found at i:46730853 original size:37 final size:37
Alignment explanation
Indices: 46730811--46730882 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
46730801 TTAAGCTTGG
*
46730811 ACTCCATTTATTTCTTGCATTTAGATTAGGATTTTGA
1 ACTCCATTTATTTCTTGCATTTAGATTAAGATTTTGA
46730848 ACTCCATTTATTTCTTGCATTTAGATTAAGATTTT
1 ACTCCATTTATTTCTTGCATTTAGATTAAGATTTT
46730883 AAATTATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (37 bp):
ACTCCATTTATTTCTTGCATTTAGATTAAGATTTTGA
Found at i:46739024 original size:12 final size:12
Alignment explanation
Indices: 46739007--46739031 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46738997 ATACACGGCT
46739007 TGGGACATGGTC
1 TGGGACATGGTC
46739019 TGGGACATGGTC
1 TGGGACATGGTC
46739031 T
1 T
46739032 TCATGGTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (12 bp):
TGGGACATGGTC
Found at i:46745351 original size:18 final size:18
Alignment explanation
Indices: 46745328--46745364 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46745318 ATACAGTAAC
46745328 ATCAAAAAGATAGAATGT
1 ATCAAAAAGATAGAATGT
46745346 ATCAAAAAGATAGAATGT
1 ATCAAAAAGATAGAATGT
46745364 A
1 A
46745365 CCAGCAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (18 bp):
ATCAAAAAGATAGAATGT
Found at i:46747090 original size:21 final size:21
Alignment explanation
Indices: 46747064--46747111 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
46747054 TCGAACATGG
46747064 TTGTGTGGCTACCCCACACGC
1 TTGTGTGGCTACCCCACACGC
*
46747085 TTGTGTGGCTACTCCACACGC
1 TTGTGTGGCTACCCCACACGC
*
46747106 TCGTGT
1 TTGTGT
46747112 TCTCAAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.25, T:0.29
Consensus pattern (21 bp):
TTGTGTGGCTACCCCACACGC
Found at i:46752959 original size:42 final size:42
Alignment explanation
Indices: 46752838--46752990 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
46752828 TAAGATGCCA
* ** *
46752838 ATGCCATGTCCCAAATGTGGTCTTACATAGGATCTCAAATCG
1 ATGCCATGTCCCAAATGTGGTCTTACACAAAATCTCATATCG
* * * * * *
46752880 ATGCCATGTCCCAGATATGGTCTTATACAAAAACTCATTTTG
1 ATGCCATGTCCCAAATGTGGTCTTACACAAAATCTCATATCG
* * * * *
46752922 ATGCCATGTCCCAAACGTAGTCTTACACGAAATCTCATAACA
1 ATGCCATGTCCCAAATGTGGTCTTACACAAAATCTCATATCG
* * * *
46752964 ACGCCATATCCCAGATATGGTCTTACA
1 ATGCCATGTCCCAAATGTGGTCTTACA
46752991 TGATAACACA
Statistics
Matches: 84, Mismatches: 27, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAAATGTGGTCTTACACAAAATCTCATATCG
Found at i:46757381 original size:88 final size:88
Alignment explanation
Indices: 46757232--46757407 Score: 325
Period size: 88 Copynumber: 2.0 Consensus size: 88
46757222 ATTCTTTGAT
* *
46757232 TGGCCTGAACCATCTCGAAATTTCTTCGATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
1 TGGCCTAAACCATCTCGAAATTTCTTCAATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
*
46757297 AAATTCTCTAGTTTTGACATCAG
66 AAATTCTCCAGTTTTGACATCAG
46757320 TGGCCTAAACCATCTCGAAATTTCTTCAATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
1 TGGCCTAAACCATCTCGAAATTTCTTCAATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
46757385 AAATTCTCCAGTTTTGACATCAG
66 AAATTCTCCAGTTTTGACATCAG
46757408 CTTTCTTTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (88 bp):
TGGCCTAAACCATCTCGAAATTTCTTCAATGATTGTTGAAAAGACTTTCCTGAATATCTTTTACG
AAATTCTCCAGTTTTGACATCAG
Found at i:46759301 original size:40 final size:40
Alignment explanation
Indices: 46759247--46759323 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
46759237 CCCGATATAG
* *
46759247 TACCAGCACTAAGCCTGCGAGATTTAACCTGGATATATTT
1 TACCAGCACGAAGCCTGCGAGATTTAACCCGGATATATTT
* *
46759287 TACCAGTACGAAGCCTGCGGGATTTAACCCGGATATA
1 TACCAGCACGAAGCCTGCGAGATTTAACCCGGATATA
46759324 CAATATATCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGAGATTTAACCCGGATATATTT
Found at i:46763756 original size:35 final size:35
Alignment explanation
Indices: 46763710--46763777 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
46763700 TCCATTCAGC
*
46763710 AATGGCCAAAATCTTACTCGGATCAAGTCAGATTT
1 AATGGCCAAAATCTTACTCGGATCAACTCAGATTT
46763745 AATGGCCAAAATCTTACTCGGATCAACTCAGAT
1 AATGGCCAAAATCTTACTCGGATCAACTCAGAT
46763778 CCCATCACCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (35 bp):
AATGGCCAAAATCTTACTCGGATCAACTCAGATTT
Found at i:46779559 original size:42 final size:42
Alignment explanation
Indices: 46779512--46779626 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
46779502 GGGATCTCAC
* *
46779512 ATCGATGTCATATCCCAGATATGGTCTTATACGAAATATCAT
1 ATCGATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
* * * * ** *
46779554 TTCGATGCCATGTGCTAGACGTGGTCTTACACGAAATCTCAT
1 ATCGATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
* *
46779596 ATCAACGCCATATCCCAGATATGGTCTTACA
1 ATCGATGCCATATCCCAGATATGGTCTTACA
46779627 TGATAACACT
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATCGATGCCATATCCCAGATATGGTCTTACACGAAATATCAT
Found at i:46784895 original size:46 final size:47
Alignment explanation
Indices: 46784842--46785107 Score: 185
Period size: 47 Copynumber: 5.7 Consensus size: 47
46784832 ATTGTTGGCT
*
46784842 AGTGTAAGACATGTCCGGGACATGCATCGGCCACATTATGA-G-AA-CC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GACGAAAGCC
*
46784888 AGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AGACGAAAGCC
* * * *
46784936 AGTGTAAGACATGTCTAGGACATGTATCGG-CC-TCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCAT-TAGACGAAAGCC
* * * * * * *
46784982 AGTGTAAGACATGTCTGGGACATGCAT-TGACTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGACGAAAGCC
* * * **
46785028 AGTGTAAGACCATGTCTAGGACATGGCATC-G-AC-TTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AGACGAAAGCC
*
46785075 AGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
46785108 ACCTTACCCA
Statistics
Matches: 180, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
45 7 0.04
46 71 0.39
47 79 0.44
48 23 0.13
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGACGAAAGCC
Found at i:46785048 original size:93 final size:93
Alignment explanation
Indices: 46784886--46785105 Score: 268
Period size: 93 Copynumber: 2.3 Consensus size: 93
46784876 ATTATGAGAA
*
46784886 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAAAGCTAGTGTAAGACATGTC
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATCGACATTGAGACGAAAGCTAGTGTAAGACATGTC
* *
46784951 TAGGACAT-GTATCGGCCTCGAGACGTAAG
65 TAGGACATGGCATC-GACTCGAGACGTAAG
* * *
46784980 CCAGTGTAAGA-CATGTCTGGGACATGCATTGAC-TATGAGATGATAG-TCAGTGTAAGACCATG
1 CCAGTGTAAGACCATGTCTGGGACATGCATCGACAT-TGAGACGAAAGCT-AGTGTAAGA-CATG
* * *
46785042 TCTAGGACATGGCATCGACTTGAGATGTGAG
63 TCTAGGACATGGCATCGACTCGAGACGTAAG
*
46785073 CCAGTGTAAGACCATGCCTGGGACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATCG
46785106 GCACCTTACC
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 24 0.22
93 50 0.46
94 28 0.26
95 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
CCAGTGTAAGACCATGTCTGGGACATGCATCGACATTGAGACGAAAGCTAGTGTAAGACATGTCT
AGGACATGGCATCGACTCGAGACGTAAG
Found at i:46787901 original size:36 final size:36
Alignment explanation
Indices: 46787861--46787979 Score: 134
Period size: 36 Copynumber: 3.3 Consensus size: 36
46787851 GCTGGTTAGT
*
46787861 TAAACCGACAATGTTTTGTGCCCAGCGCTGGTTGGA
1 TAAACCGACAATGTTTTGTGCCCAGCGCTGGTTGAA
* * * *
46787897 TAAACCGACAAT-TGTTGTGCCCTA-CACTGATCGAA
1 TAAACCGACAATGTTTTGTGCCC-AGCGCTGGTTGAA
* **
46787932 TAAACCTACAATGTTTTGCACCCAGCGCTGGTTGAA
1 TAAACCGACAATGTTTTGTGCCCAGCGCTGGTTGAA
*
46787968 TAAACTGACAAT
1 TAAACCGACAAT
46787980 AGTTGTGCCC
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
35 28 0.42
36 38 0.58
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (36 bp):
TAAACCGACAATGTTTTGTGCCCAGCGCTGGTTGAA
Found at i:46794274 original size:11 final size:11
Alignment explanation
Indices: 46794260--46794299 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
46794250 TGTTTTCTCC
*
46794260 CTATTTTGCTA
1 CTATTTTACTA
46794271 CTATTTTACTA
1 CTATTTTACTA
* *
46794282 TTATATTACTA
1 CTATTTTACTA
46794293 CTATTTT
1 CTATTTT
46794300 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:46797984 original size:2 final size:2
Alignment explanation
Indices: 46797977--46798011 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
46797967 TCATAATTTA
46797977 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
46798012 AATACAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46798307 original size:21 final size:22
Alignment explanation
Indices: 46798254--46798307 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
46798244 TATTTTAATA
* *
46798254 TTAATTTAATAAATATATATAT
1 TTAATTTAAAAAATATATAAAT
**
46798276 TTAATCGAAAAAAT-TATAAAT
1 TTAATTTAAAAAATATATAAAT
46798297 TTAATTTAAAA
1 TTAATTTAAAA
46798308 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAATTTAAAAAATATATAAAT
Found at i:46798341 original size:31 final size:32
Alignment explanation
Indices: 46798283--46798344 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
46798273 TATTTAATCG
46798283 AAAAAATTATAAATTTAATTTAAAATATTTTT
1 AAAAAATTATAAATTTAATTTAAAATATTTTT
*
46798315 AAAAAATTATAAATATT-A-TTATAATATTTT
1 AAAAAATTATAAAT-TTAATTTAAAATATTTT
46798345 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 11 0.39
32 15 0.54
33 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
AAAAAATTATAAATTTAATTTAAAATATTTTT
Found at i:46799739 original size:21 final size:21
Alignment explanation
Indices: 46799711--46799758 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
46799701 ACTAAACCTT
46799711 ACTT-TATAAAGTTAGTAGTG
1 ACTTCTATAAAGTTAGTAGTG
46799731 ACTTCTATAAAGTTAGTAGTG
1 ACTTCTATAAAGTTAGTAGTG
46799752 ACTTCTA
1 ACTTCTA
46799759 GGGCAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
ACTTCTATAAAGTTAGTAGTG
Found at i:46800344 original size:22 final size:22
Alignment explanation
Indices: 46800316--46800361 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
46800306 TTCATGTTTA
*
46800316 AACCATTACCTTTTACTTTGGC
1 AACCATTACCTTTTACTCTGGC
46800338 AACCATTACCTTTTACTCTGGC
1 AACCATTACCTTTTACTCTGGC
46800360 AA
1 AA
46800362 GAATGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (22 bp):
AACCATTACCTTTTACTCTGGC
Found at i:46802896 original size:25 final size:25
Alignment explanation
Indices: 46802845--46802902 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
46802835 CAGCTCGAGA
* * *
46802845 GAGCTTACCGTTATTTAGCTCACAT
1 GAGCTTACCGTTACTCAACTCACAT
**
46802870 GAGCTTACCGTTACTCAACTCGTAT
1 GAGCTTACCGTTACTCAACTCACAT
46802895 GAGCTTAC
1 GAGCTTAC
46802903 TGATTACAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (25 bp):
GAGCTTACCGTTACTCAACTCACAT
Found at i:46813791 original size:20 final size:20
Alignment explanation
Indices: 46813766--46813818 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
46813756 ATGAGTGGGA
46813766 CACACGGGCGTGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
*
46813786 CACACGGGCGGGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
46813806 CACACGGGCGTGT
1 CACACGGGCGTGT
46813819 GCTTTGCCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.34, G:0.34, T:0.13
Consensus pattern (20 bp):
CACACGGGCGTGTCCCTAAG
Found at i:46824022 original size:25 final size:24
Alignment explanation
Indices: 46823978--46824026 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
46823968 TAACGCCCCA
*
46823978 AAAATCCCGAAATTCAAAAAATCCT
1 AAAATCCCGAAA-TCCAAAAATCCT
*
46824003 AAAATCCCGAAATCCCAAAATCCT
1 AAAATCCCGAAATCCAAAAATCCT
46824027 GGATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAATCCCGAAATCCAAAAATCCT
Found at i:46824655 original size:21 final size:21
Alignment explanation
Indices: 46824618--46824666 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
46824608 TTTCTTTCTT
*
46824618 TTCTTC-C-TGCTGCTTTTTA
1 TTCTTCTCTTGCTGATTTTTA
46824637 TTCTTCTCTTGCTGATTTTTA
1 TTCTTCTCTTGCTGATTTTTA
46824658 TTCTTCTCT
1 TTCTTCTCT
46824667 ACACAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.22
20 1 0.04
21 20 0.74
ACGTcount: A:0.06, C:0.24, G:0.08, T:0.61
Consensus pattern (21 bp):
TTCTTCTCTTGCTGATTTTTA
Found at i:46825308 original size:8 final size:8
Alignment explanation
Indices: 46825295--46825333 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
46825285 ATCGGCAAAC
*
46825295 GCCGAAAT
1 GCCGAAAA
46825303 GCCGAAAA
1 GCCGAAAA
* *
46825311 GTCGAAAT
1 GCCGAAAA
46825319 GCCGAAAA
1 GCCGAAAA
46825327 GCCGAAA
1 GCCGAAA
46825334 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.23, G:0.26, T:0.08
Consensus pattern (8 bp):
GCCGAAAA
Found at i:46825318 original size:16 final size:16
Alignment explanation
Indices: 46825295--46825333 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
46825285 ATCGGCAAAC
46825295 GCCGAAATGCCGAAAA
1 GCCGAAATGCCGAAAA
*
46825311 GTCGAAATGCCGAAAA
1 GCCGAAATGCCGAAAA
46825327 GCCGAAA
1 GCCGAAA
46825334 GTTTGGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.23, G:0.26, T:0.08
Consensus pattern (16 bp):
GCCGAAATGCCGAAAA
Found at i:46825599 original size:29 final size:29
Alignment explanation
Indices: 46825559--46825632 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
46825549 AATGTGACTA
* *
46825559 GGCCTAACGAGCCATACAAATGTGATTTG
1 GGCCTAATGAGCCATACAAAGGTGATTTG
* * *
46825588 GGCCTATTGAGCCATATACAGGTGATTTG
1 GGCCTAATGAGCCATACAAAGGTGATTTG
*
46825617 GGCCTAATGCGCCATA
1 GGCCTAATGAGCCATA
46825633 TGAATATGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (29 bp):
GGCCTAATGAGCCATACAAAGGTGATTTG
Found at i:46825642 original size:29 final size:29
Alignment explanation
Indices: 46825559--46825658 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 29
46825549 AATGTGACTA
* * *
46825559 GGCCTAACGAGCCATACAAATG-TGATTTG
1 GGCCTAATGAGCCATATACA-GATGATTTG
* *
46825588 GGCCTATTGAGCCATATACAGGTGATTTG
1 GGCCTAATGAGCCATATACAGATGATTTG
* *
46825617 GGCCTAATGCGCCATATGA-ATATGA-TTG
1 GGCCTAATGAGCCATAT-ACAGATGATTTG
* *
46825645 GGCTTAATGGGCCA
1 GGCCTAATGAGCCA
46825659 GATGCAGGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
28 16 0.27
29 42 0.71
30 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (29 bp):
GGCCTAATGAGCCATATACAGATGATTTG
Found at i:46830521 original size:23 final size:24
Alignment explanation
Indices: 46830482--46830549 Score: 86
Period size: 23 Copynumber: 2.8 Consensus size: 24
46830472 GCTCATCCTA
*
46830482 AGCTGATGGACAGTAAGCTCT-ATTG
1 AGCTGA-GAACAGTAAGCTCTGA-TG
46830507 AGCTGA-AACAGTAAGCTCTGATG
1 AGCTGAGAACAGTAAGCTCTGATG
*
46830530 AGTTGAGAACAGTAAGCTCT
1 AGCTGAGAACAGTAAGCTCT
46830550 TACAAGCTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 19 0.49
24 14 0.36
25 6 0.15
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (24 bp):
AGCTGAGAACAGTAAGCTCTGATG
Done.