Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013397.1 Kokia drynarioides strain JFW-HI SEQ_128421, whole genome shotgun sequence
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: 116507
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:634 original size:25 final size:22
Alignment explanation
Indices: 599--754 Score: 91
Period size: 23 Copynumber: 6.6 Consensus size: 22
589 GAAAGTACCA
*
599 AAGTACTTAACAGAGGGCACAT
1 AAGTGCTTAACAGAGGGCACAT
621 AAGTGCTGGGTAACAGAGGGCACAT
1 AAGTGCT---TAACAGAGGGCACAT
*
646 AAAGTGC-TAATCAGAGGGCACACG
1 -AAGTGCTTAA-CAGAGGGCACA-T
*
670 AAGTGCTAATAACAGAGGGCACAC
1 AAGTGCT--TAACAGAGGGCACAT
* **
694 AATGTGCTGATTAGAGGGCACGA-
1 AA-GTGCTTAACAGAGGGCAC-AT
* * * *
717 AACGTGCTAAATAGAGAGCACAC
1 AA-GTGCTTAACAGAGGGCACAT
*
740 ACAGTGCTGAACAGA
1 A-AGTGCTTAACAGA
755 AGCACACGCT
Statistics
Matches: 109, Mismatches: 12, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
22 10 0.09
23 55 0.50
24 4 0.04
25 31 0.28
26 9 0.08
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (22 bp):
AAGTGCTTAACAGAGGGCACAT
Found at i:664 original size:23 final size:23
Alignment explanation
Indices: 634--747 Score: 106
Period size: 23 Copynumber: 4.9 Consensus size: 23
624 TGCTGGGTAA
*
634 CAGAGGGCACATAAAGTGCTAAT
1 CAGAGGGCACACAAAGTGCTAAT
*
657 CAGAGGGCACACGAAGTGCTAAT
1 CAGAGGGCACACAAAGTGCTAAT
* *
680 AACAGAGGGCACACAATGTGCTGAT
1 --CAGAGGGCACACAAAGTGCTAAT
* *
705 TAGAGGGCACGA-AACGTGCTAAAT
1 CAGAGGGCAC-ACAAAGTGCT-AAT
* *
729 -AGAGAGCACACACAGTGCT
1 CAGAGGGCACACAAAGTGCT
748 GAACAGAAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
22 1 0.01
23 51 0.68
24 3 0.04
25 20 0.27
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (23 bp):
CAGAGGGCACACAAAGTGCTAAT
Found at i:683 original size:48 final size:48
Alignment explanation
Indices: 609--714 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
599 AAGTACTTAA
* ** *
609 CAGAGGGCACATAAGTGCTGGGTAACAGAGGGCACATAAAGTGCTAAT
1 CAGAGGGCACAGAAGTGCTGAATAACAGAGGGCACACAAAGTGCTAAT
* *
657 CAGAGGGCACACGAAGTGCT-AATAACAGAGGGCACACAATGTGCTGAT
1 CAGAGGGCACA-GAAGTGCTGAATAACAGAGGGCACACAAAGTGCTAAT
*
705 TAGAGGGCAC
1 CAGAGGGCAC
715 GAAACGTGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 43 0.86
49 7 0.14
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (48 bp):
CAGAGGGCACAGAAGTGCTGAATAACAGAGGGCACACAAAGTGCTAAT
Found at i:724 original size:48 final size:47
Alignment explanation
Indices: 609--747 Score: 131
Period size: 48 Copynumber: 2.9 Consensus size: 47
599 AAGTACTTAA
* ** *
609 CAGAGGGCACATAAGTGCTGGGTAACAGAGGGCACATAAAGTGCTAAT
1 CAGAGGGCACACAAGTGCT-AATAACAGAGGGCACACAAAGTGCTAAT
* *
657 CAGAGGGCACACGAAGTGCTAATAACAGAGGGCACACAATGTGCTGAT
1 CAGAGGGCACAC-AAGTGCTAATAACAGAGGGCACACAAAGTGCTAAT
* * * *
705 TAGAGGGCACGA-AACGTGCT-A-AATAGAGAGCACACACAGTGCT
1 CAGAGGGCAC-ACAA-GTGCTAATAACAGAGGGCACACAAAGTGCT
748 GAACAGAAGC
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
46 18 0.23
47 3 0.04
48 48 0.62
49 8 0.10
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.15
Consensus pattern (47 bp):
CAGAGGGCACACAAGTGCTAATAACAGAGGGCACACAAAGTGCTAAT
Found at i:4464 original size:16 final size:16
Alignment explanation
Indices: 4443--4475 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4433 GGCCCGAAGA
4443 CTAGACGCTTGATCGG
1 CTAGACGCTTGATCGG
4459 CTAGACGCTTGATCGG
1 CTAGACGCTTGATCGG
4475 C
1 C
4476 CTGTAACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.24
Consensus pattern (16 bp):
CTAGACGCTTGATCGG
Found at i:6248 original size:14 final size:15
Alignment explanation
Indices: 6217--6257 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
6207 CAGCAAACAT
* *
6217 TTTTTTCTTCTTTTC
1 TTTTCTCTTCTTTCC
6232 TTTTCTCTT-TTTCC
1 TTTTCTCTTCTTTCC
6246 TTTTCT-TTCTTT
1 TTTTCTCTTCTTT
6258 TTCTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTCTTCTTTCC
Found at i:6251 original size:24 final size:25
Alignment explanation
Indices: 6228--6275 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6218 TTTTTCTTCT
6228 TTTC-TTTTCTC-TTTTTCCTTTTC
1 TTTCTTTTTCTCATTTTTCCTTTTC
*
6251 TTTCTTTTTCTCATTTTTCGTTTTC
1 TTTCTTTTTCTCATTTTTCCTTTTC
6276 AAGTGATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 7 0.32
25 11 0.50
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTCTTTTTCTCATTTTTCCTTTTC
Found at i:6267 original size:18 final size:18
Alignment explanation
Indices: 6218--6267 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
6208 AGCAAACATT
6218 TTTTTCTTCTTTTCTTTTC
1 TTTTTC-TCTTTTCTTTTC
6237 TCTTTT-TCCTTTTC-TTTC
1 T-TTTTCT-CTTTTCTTTTC
6255 TTTTTCTCATTTT
1 TTTTTCTC-TTTT
6268 TCGTTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
17 5 0.19
18 11 0.41
19 7 0.26
20 4 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTCTTTTCTTTTC
Found at i:6275 original size:31 final size:30
Alignment explanation
Indices: 6216--6275 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
6206 ACAGCAAACA
*
6216 TTTTTTTCTTCTTTTCTTTTCTCTTTTTCC
1 TTTTTTTCTTCTTTTCTTTTCTCGTTTTCC
6246 TTTTCTTTCTT-TTTCTCATTTT-TCGTTTTC
1 TTTT-TTTCTTCTTT-TC-TTTTCTCGTTTTC
6276 AAGTGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
30 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (30 bp):
TTTTTTTCTTCTTTTCTTTTCTCGTTTTCC
Found at i:21977 original size:50 final size:50
Alignment explanation
Indices: 21932--22728 Score: 694
Period size: 50 Copynumber: 16.0 Consensus size: 50
21922 CTCTCTCCAA
* * * *
21932 CTTTAGGTGTATAAGATTCGCCCTTGTGGCTTCAATCTACTTCTCTATAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * *
21982 CTTTAGGGGTATAAGATTTGCCCTTGTGGCTTCAATCTACTCCTCTACAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * ** * *
22032 CTATAGAG-ATATAAGATTCGCCCTTATGGCTTCAATTTGCTCCTCTATAG
1 CTTTAG-GTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
** * * * * *
22082 CTTTAGGTGTATGGGATTCACCCTTGCGACTTCAATCTGATCCTTTACAT
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * * * *
22132 TTTTAGG-GATATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTATAA
1 CTTTAGGTG-TATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * * *
22182 CTTTA-GTGGTATCAGATTCGCCCTTACAGCTTCAATCTG-GCCTATACAG
1 CTTTAGGT-GTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* ** * *
22231 CTTTAGGTGTATGAGATTCGCCCTTGTAGCTTTAATCTGCTCCTTTACAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * * * * * *
22281 CTTTAGGGGTATAAGATTCACCCTTACGGATTCAATTTACCCCTCTAAAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * *
22331 CTTTACGG-GTATAAGATTCGCCCTTGCGACTTAAATCTGCCCCTCTATAG
1 CTTTA-GGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * *
22381 CTTTAGGCGTATAAGATTCGCCCTTGCAGCTTTAATATGCTCCTCTACAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * * ** ** * *
22431 CTTTAGGGGCATAAGATTCACCCTTACAACTTCAATCTATTCCTCCACAA
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * * * * *
22481 CTTTA-ATGGTATAAGATTCGCCCTTACAGCTTCAATTTGCCCCTTTATAG
1 CTTTAGGT-GTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * *
22531 CTTTAGGTGTATAAGATTCACCCTTAC-GCTTCAATTTGGTCCTCTACAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * * *
22580 CTTTAAGG-ATATAAGATTCGCCCTTGTC-ACTTCAATTTGCACCTCTACAG
1 CTTT-AGGTGTATAAGATTCGCCCTTG-CGGCTTCAATCTGCTCCTCTACAG
* * * * *
22630 CTTTAGGGGTATAAGATTCGCCCTTGCGACTTAAATCTACCCCTCTACAG
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
* * *
22680 CTTTAGGTGTATGAGATTTGCCCTTGCGACTTCAATCTGCTCCTCTACA
1 CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACA
22729 ATTTTTGTAA
Statistics
Matches: 606, Mismatches: 126, Indels: 30
0.80 0.17 0.04
Matches are distributed among these distances:
49 84 0.14
50 517 0.85
51 5 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (50 bp):
CTTTAGGTGTATAAGATTCGCCCTTGCGGCTTCAATCTGCTCCTCTACAG
Found at i:22287 original size:299 final size:299
Alignment explanation
Indices: 21932--22734 Score: 948
Period size: 299 Copynumber: 2.7 Consensus size: 299
21922 CTCTCTCCAA
* * * *
21932 CTTTAGGTGTATAAGATTCGCCCTTGTGGCTTCAATCTACTTCTCTATAGCTTTAGGGGTATAAG
1 CTTTAGGTGTATAAGATTCGCCCTTGTAGCTTCAATCTGCTCCTCTACAGCTTTAGGGGTATAAG
* * * * * ** *
21997 ATTTGCCCTTGTGGCTTCAATCTACTCCTCTACAGCTATAGAGATATAAGATTCGCCCTTATGGC
66 ATTCGCCCTTGTGGCTTCAATTTACACCTCTACAGCTTTAG-GGTATAAGATTCGCCCTTGCGAC
* * * * * * *
22062 TTCAATTTGCTCCTCTATAGCTTTAGGTGTATGGGATTCACCCTTGCGACTTCAATCTGATCCTT
130 TTAAATCTGCCCCTCTATAGCTTTAGGTGTATGAGATTCGCCCTTGCGACTTCAATCTGCTCCTC
* * * ** * * * * *
22127 TACATTTTTAGGGATATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTATAACTTTAGTGGT
195 TACATTTTTAGGGACATAAGATTCACCCTTACAACTTCAATATACCCCTCCACAACTTTAATGGT
* *
22192 ATCAGATTCGCCCTTACAGCTTCAATCTG-GCCTATACAG
260 ATAAGATTCGCCCTTACAGCTTCAATCTGCCCCTATACAG
* * *
22231 CTTTAGGTGTATGAGATTCGCCCTTGTAGCTTTAATCTGCTCCTTTACAGCTTTAGGGGTATAAG
1 CTTTAGGTGTATAAGATTCGCCCTTGTAGCTTCAATCTGCTCCTCTACAGCTTTAGGGGTATAAG
* ** * * *
22296 ATTCACCCTTACGGATTCAATTTACCCCTCTAAAGCTTTACGGGTATAAGATTCGCCCTTGCGAC
66 ATTCGCCCTTGTGGCTTCAATTTACACCTCTACAGCTTTA-GGGTATAAGATTCGCCCTTGCGAC
* * * *
22361 TTAAATCTGCCCCTCTATAGCTTTAGGCGTATAAGATTCGCCCTTGC-AGCTTTAATATGCTCCT
130 TTAAATCTGCCCCTCTATAGCTTTAGGTGTATGAGATTCGCCCTTGCGA-CTTCAATCTGCTCCT
** * * **
22425 CTACAGCTTTAGGGGCATAAGATTCACCCTTACAACTTCAATCTATTCCTCCACAACTTTAATGG
194 CTACATTTTTAGGGACATAAGATTCACCCTTACAACTTCAATATACCCCTCCACAACTTTAATGG
* * *
22490 TATAAGATTCGCCCTTACAGCTTCAATTTGCCCCTTTATAG
259 TATAAGATTCGCCCTTACAGCTTCAATCTGCCCCTATACAG
* * * * *
22531 CTTTAGGTGTATAAGATTCACCC-T-TACGCTTCAATTTGGTCCTCTACAGCTTTAAGGATATAA
1 CTTTAGGTGTATAAGATTCGCCCTTGTA-GCTTCAATCTGCTCCTCTACAGCTTTAGGGGTATAA
** *
22594 GATTCGCCCTTGTCACTTCAATTTGCACCTCTACAGCTTTAGGGGTATAAGATTCGCCCTTGCGA
65 GATTCGCCCTTGTGGCTTCAATTTACACCTCTACAGCTTTA-GGGTATAAGATTCGCCCTTGCGA
* * *
22659 CTTAAATCTACCCCTCTACAGCTTTAGGTGTATGAGATTTGCCCTTGCGACTTCAATCTGCTCCT
129 CTTAAATCTGCCCCTCTATAGCTTTAGGTGTATGAGATTCGCCCTTGCGACTTCAATCTGCTCCT
22724 CTACAATTTTT
194 CTAC-ATTTTT
22735 GTAACTTTAA
Statistics
Matches: 419, Mismatches: 79, Indels: 11
0.82 0.16 0.02
Matches are distributed among these distances:
298 3 0.01
299 382 0.91
300 34 0.08
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (299 bp):
CTTTAGGTGTATAAGATTCGCCCTTGTAGCTTCAATCTGCTCCTCTACAGCTTTAGGGGTATAAG
ATTCGCCCTTGTGGCTTCAATTTACACCTCTACAGCTTTAGGGTATAAGATTCGCCCTTGCGACT
TAAATCTGCCCCTCTATAGCTTTAGGTGTATGAGATTCGCCCTTGCGACTTCAATCTGCTCCTCT
ACATTTTTAGGGACATAAGATTCACCCTTACAACTTCAATATACCCCTCCACAACTTTAATGGTA
TAAGATTCGCCCTTACAGCTTCAATCTGCCCCTATACAG
Found at i:22335 original size:249 final size:245
Alignment explanation
Indices: 21881--22718 Score: 815
Period size: 249 Copynumber: 3.4 Consensus size: 245
21871 CCCTTTTTAT
* * *** * * * * *
21881 AGCTTTAGGGTATAAGATTCGTCTTTGTAACTTTCATTTGCCTCTCTCCAACTTTAGGTGTATAA
1 AGCTTTAGGGTATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTACAGCTTTAGG-GTATAA
*** * * * *
21946 GATTCGCCCTTGTGGCTTCAATCT-ACTTCT-CTATAGCTTTAGGGGTATAAGATTTGCCCTTGT
65 GATTCGCCCTTACAGCTTCAATCTGGC--CTAC-ACAGCTTTAGGTGTATAAGATTCGCCCTTGT
* * * * * * * *
22009 GGCTTCAATCTACTCCTCTACAGCTATAGAGATATAAGATTCGCCCTTATGGCTTCAATTTGCTC
127 AGCTTCAATCTGCTCCTTTACAGCTTTAGGGGTATAAGATTCACCCTTACGGCTTCAATTTGCTC
* ** * *
22074 CTCTATAGCTTTAGGTGTATGGGATTCACCCTTGCGACTTCAATCTGATCCTTTAC
192 CTCTAAAGCTTTAGG-GTATAAGATTCGCCCTTGCGACTTCAATCTGA-CCTCTAC
** * * *
22130 ATTTTTAGGGATATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTATAACTTTAGTGGTATC
1 AGCTTTAGGG-TATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTACAGCTTTAG-GGTATA
* *
22195 AGATTCGCCCTTACAGCTTCAATCTGGCCTATACAGCTTTAGGTGTATGAGATTCGCCCTTGTAG
64 AGATTCGCCCTTACAGCTTCAATCTGGCCTACACAGCTTTAGGTGTATAAGATTCGCCCTTGTAG
* * * *
22260 CTTTAATCTGCTCCTTTACAGCTTTAGGGGTATAAGATTCACCCTTACGGATTCAATTTACCCCT
129 CTTCAATCTGCTCCTTTACAGCTTTAGGGGTATAAGATTCACCCTTACGGCTTCAATTTGCTCCT
* * *
22325 CTAAAGCTTTACGGGTATAAGATTCGCCCTTGCGACTTAAATCTGCCCCTCTAT
194 CTAAAGCTTTA-GGGTATAAGATTCGCCCTTGCGACTTCAATCTG-ACCTCTAC
* * *
22379 AGCTTTAGGCGTATAAGATTCGCCCTTGCAGCTTTAATATGCTCCTCTACAGCTTTAGGGGCATA
1 AGCTTTAGG-GTATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTACAGCTTTA-GGGTATA
* * ** * * * **
22444 AGATTCACCCTTACAACTTCAATCTATTCCTCCACAACTTTA-ATGGTATAAGATTCGCCCTTAC
64 AGATTCGCCCTTACAGCTTCAATCT-GGCCTACACAGCTTTAGGT-GTATAAGATTCGCCCTTGT
* * * * *
22508 AGCTTCAATTTGCCCCTTTATAGCTTTAGGTGTATAAGATTCACCCTTAC-GCTTCAATTTGGTC
127 AGCTTCAATCTGCTCCTTTACAGCTTTAGGGGTATAAGATTCACCCTTACGGCTTCAATTTGCTC
* * *
22572 CTCTACAGCTTTAAGGATATAAGATTCGCCCTTGTC-ACTTCAATTTGCACCTCTAC
192 CTCTAAAGCTTT-AGGGTATAAGATTCGCCCTTG-CGACTTCAATCTG-ACCTCTAC
* * * * *
22628 AGCTTTAGGGGTATAAGATTCGCCCTTGCGACTTAAATCTACCCCTCTACAGCTTTAGGTGTATG
1 AGCTTTA-GGGTATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTACAGCTTTAGG-GTATA
* *
22693 AGATTTGCCCTTGC-GACTTCAATCTG
64 AGATTCGCCCTTACAG-CTTCAATCTG
22719 CTCCTCTACA
Statistics
Matches: 485, Mismatches: 89, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
248 2 0.00
249 338 0.70
250 143 0.29
251 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (245 bp):
AGCTTTAGGGTATAAGATTCGCCCTTGCGGCTTTAATATGCCCCTCTACAGCTTTAGGGTATAAG
ATTCGCCCTTACAGCTTCAATCTGGCCTACACAGCTTTAGGTGTATAAGATTCGCCCTTGTAGCT
TCAATCTGCTCCTTTACAGCTTTAGGGGTATAAGATTCACCCTTACGGCTTCAATTTGCTCCTCT
AAAGCTTTAGGGTATAAGATTCGCCCTTGCGACTTCAATCTGACCTCTAC
Found at i:23013 original size:94 final size:92
Alignment explanation
Indices: 22839--23165 Score: 377
Period size: 94 Copynumber: 3.4 Consensus size: 92
22829 CGTTACTTAT
* * * * *
22839 TTTAATTTGATCCACTACAACTTCAGGGATATAAGATTTGGTGTTGAAGCTTTACTCCATTCCAT
1 TTTAATCTGACCCACTACAACTTCAGGGGTATAGGATTT-G-G-T---GCTTCACTCCATTCCAT
*
22904 TGTAACCTTAGGGACATTGAGATCTTCTTTGTTG
60 TGTAA-CTTAGGGACATTGAGATCTGCTTTGTTG
* * *
22938 ATTTAATCCT-ACCCACTATAACTTTAGGGGTATAGGATTTGGTGCTTCACTCCATTCGATTGTA
1 -TTTAAT-CTGACCCACTACAACTTCAGGGGTATAGGATTTGGTGCTTCACTCCATTCCATTGTA
* *
23002 ATCTTAGGGACATTGAGATATGCTTTGATG
64 A-CTTAGGGACATTGAGATCTGCTTTGTTG
* * * * *
23032 TTTTAATCTGACCCACTGCAACTTCAGGGGTATAAGATTTGGTGTTTCACTTCATTCCATTATAA
1 -TTTAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGGTGCTTCACTCCATTCCATTGTAA
23097 CTTAAGGGACATTGAGATCTGCTTTGTTG
65 CTT-AGGGACATTGAGATCTGCTTTGTTG
*
23126 TCTTGATCTGACCCACTACAACTTCAGGGGTATAGGATTT
1 T-TTAATCTGACCCACTACAACTTCAGGGGTATAGGATTT
23166 CATGTAGTAG
Statistics
Matches: 197, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
93 6 0.03
94 156 0.79
97 1 0.01
98 1 0.01
99 1 0.01
100 31 0.16
101 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (92 bp):
TTTAATCTGACCCACTACAACTTCAGGGGTATAGGATTTGGTGCTTCACTCCATTCCATTGTAAC
TTAGGGACATTGAGATCTGCTTTGTTG
Found at i:23461 original size:199 final size:199
Alignment explanation
Indices: 22732--23463 Score: 694
Period size: 199 Copynumber: 3.7 Consensus size: 199
22722 CTCTACAATT
* * *
22732 TTTGTAACTTTAATCC-GACCCACTGTAACTTCAGGGGTATAAGATTTGGTGTTGTAACTTCACT
1 TTTGTAATTTTAATCCAGACCCACTATAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCACT
* * * *
22796 TCAATCCACTATAACCTCAGGGACATTGAGATTCGTTACTTATTTTAATTTGATCCACTACAACT
66 CCATTCCACTATAACCTCAGGGACATTGAGATCCGTTACTTATTTTAATCTGATCCACTACAACT
* * *
22861 TCAGGGATATAAGATTTGGTGTTGAAGCTTTACTCCATTCCATTGTAACCTTAGGGACATTGAGA
131 TCAGGGATATAAGATTTGGTGTT-AAGCTTCACTCTATTCCATTGTAACCTTAAGGACATTGAGA
*
22926 TCTTC
195 TCTGC
* * *
22931 TTTGTTGA-TTTAATCC-TACCCACTATAACTTTAGGGGTATAGGATTT-G-G-TG---CTTCAC
1 TTTG-TAATTTTAATCCAGACCCACTATAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCAC
* * * * * ** *** * * *
22988 TCCATTCGATTGTAATCTTAGGGACATTGAGATATGCTTTGATGTTTTAATCTGACCCACTGCAA
65 TCCATTCCACTATAACCTCAGGGACATTGAGATCCG-TTACTTATTTTAATCTGATCCACTACAA
* *
23053 CTTCAGGGGTATAAGATTTGGTG-T----TTCACT-TCATTCCATTATAA-CTTAAGGGACATTG
129 CTTCAGGGATATAAGATTTGGTGTTAAGCTTCACTCT-ATTCCATTGTAACCTTAA-GGACATTG
23111 AGATCTGC
192 AGATCTGC
** * * * * ** * * *
23119 TTTGTTGTCTTGAT-CTGACCCACTACAACTTCAGGGGTATAGGATTTCATGTAGTAGCTTTACT
1 TTTGTAATTTTAATCCAGACCCACTATAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCACT
* * * * *** * * *
23183 TCATTCCACTATAACCTTAGGGAGATAGAGATCTACTACTT-TTTTAATCTGATCCATTATAGCT
66 CCATTCCACTATAACCTCAGGGACATTGAGATCCGTTACTTATTTTAATCTGATCCACTACAACT
* * * * * *
23247 TCAAGGATCTAGGATTTGGTGTTAAAGCTTCACTCTATTCCATTGTAACCTCAAAGAGATTGAGA
131 TCAGGGATATAAGATTTGGTGTT-AAGCTTCACTCTATTCCATTGTAACCTTAAGGACATTGAGA
23312 TCTGC
195 TCTGC
* *
23317 TTTTGTAATTTTAATCCAG-CCCACTGTAACTTTAGGGGTATAGGATTTGGTGTTGTAACTTCAC
1 -TTTGTAATTTTAATCCAGACCCACTATAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCAC
* * *
23381 TCCATTCCAATATAACCTCAAGGACATTGAGATCCGTTACTTATTTTAATCCGAT-CACTACAAC
65 TCCATTCCACTATAACCTCAGGGACATTGAGATCCGTTACTTATTTTAATCTGATCCACTACAAC
* *
23445 ATCAGGGATATAGGATTTG
130 TTCAGGGATATAAGATTTG
23464 CTTTTTACCT
Statistics
Matches: 418, Mismatches: 92, Indels: 46
0.75 0.17 0.08
Matches are distributed among these distances:
187 6 0.01
188 67 0.16
190 1 0.00
191 1 0.00
192 35 0.08
193 37 0.09
194 75 0.18
196 2 0.00
197 1 0.00
198 32 0.08
199 146 0.35
200 15 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (199 bp):
TTTGTAATTTTAATCCAGACCCACTATAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCACT
CCATTCCACTATAACCTCAGGGACATTGAGATCCGTTACTTATTTTAATCTGATCCACTACAACT
TCAGGGATATAAGATTTGGTGTTAAGCTTCACTCTATTCCATTGTAACCTTAAGGACATTGAGAT
CTGC
Found at i:25226 original size:16 final size:18
Alignment explanation
Indices: 25195--25227 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
25185 CATCTTGACT
25195 TTTTTCTTCTTATTTTTA
1 TTTTTCTTCTTATTTTTA
25213 TTTTT-TTC-TATTTTT
1 TTTTTCTTCTTATTTTT
25228 TAAGGTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTCTTATTTTTA
Found at i:35725 original size:14 final size:14
Alignment explanation
Indices: 35706--35751 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
35696 CACAACTTTA
35706 ATTTTAATATTTTT
1 ATTTTAATATTTTT
* *
35720 ATTTTAAAATTTTA
1 ATTTTAATATTTTT
*
35734 ATTTTAAT-TTTCT
1 ATTTTAATATTTTT
35747 ATTTT
1 ATTTT
35752 TTAATATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTAATATTTTT
Found at i:35926 original size:20 final size:21
Alignment explanation
Indices: 35877--35931 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 21
35867 AAGTTCAAAG
35877 TAAAACATAATATAATATTTATCA
1 TAAAA-ATAA-ATAATATTTA-CA
35901 TAAAAATAAATAATATTTA-A
1 TAAAAATAAATAATATTTACA
*
35921 TTAAAATAAAT
1 TAAAAATAAAT
35932 TTAAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
22 10 0.33
23 4 0.13
24 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAATAAATAATATTTACA
Found at i:35985 original size:23 final size:24
Alignment explanation
Indices: 35927--35986 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
35917 TTAATTAAAA
35927 TAAATTTAAATTTATTTTAATATT
1 TAAATTTAAATTTATTTTAATATT
* *
35951 TAAA-TCATATTTATTTTAATA-T
1 TAAATTTAAATTTATTTTAATATT
35973 TAAATTTAAATTTA
1 TAAATTTAAATTTA
35987 ATGTTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 5 0.16
23 22 0.71
24 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAATTTAAATTTATTTTAATATT
Found at i:41306 original size:36 final size:36
Alignment explanation
Indices: 41218--41433 Score: 244
Period size: 36 Copynumber: 6.1 Consensus size: 36
41208 CTCAACTATT
* *
41218 TCTTCAAGTTT-CCAGTAATTT-AGCTCAAATGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
* **
41252 -CTTTTAAGTTTCCCAGTAATTTCAGCTGTTACGAGC
1 TC-TTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
*
41288 TCTTCAAGTTTCCTAGTAATTTCAGCTCATACGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
41324 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
* * * *
41360 TCTTCAAGATTCCCAGTAAGTT-AACTCATACGAGT
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
* * * *
41395 TCTTCGAGATTACCAGTAATATGT-TGCTCATACGAGC
1 TCTTCAAGTTTCCCAGTAAT-T-TCAGCTCATACGAGC
41432 TC
1 TC
41434 AGTCAATAAG
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.01
34 8 0.05
35 38 0.24
36 95 0.61
37 14 0.09
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (36 bp):
TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
Found at i:48058 original size:43 final size:43
Alignment explanation
Indices: 47992--48074 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
47982 AATCACTTGG
*
47992 TTAGTTTTAATTAATCATATTTATTT-TCAATATTTCTCATTAT
1 TTAGCTTTAATTAATCATATTTATTTCT-AATATTTCTCATTAT
*
48035 TTAGCTTTAATTAATCATTTTTATTTCTAATATTTCTCAT
1 TTAGCTTTAATTAATCATATTTATTTCTAATATTTCTCAT
48075 GATAAAGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (43 bp):
TTAGCTTTAATTAATCATATTTATTTCTAATATTTCTCATTAT
Found at i:50000 original size:15 final size:15
Alignment explanation
Indices: 49980--50008 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49970 TTGGTCCACC
49980 TTTTCTTTAAAATTT
1 TTTTCTTTAAAATTT
49995 TTTTCTTTAAAATT
1 TTTTCTTTAAAATT
50009 AGCCAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTCTTTAAAATTT
Found at i:50198 original size:31 final size:30
Alignment explanation
Indices: 50155--50218 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
50145 AAAAAAAAAA
50155 TTTCTACCTTTTAATCTTTAAAAGTTTCTTTC
1 TTTCTACCTTTTAATCTTT-AAAG-TTCTTTC
* *
50187 TTTC-ACCTTTTAATGTTTCAAGTTCTTTC
1 TTTCTACCTTTTAATCTTTAAAGTTCTTTC
50216 TTT
1 TTT
50219 TTGTCACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 10 0.33
30 3 0.10
31 13 0.43
32 4 0.13
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTCTACCTTTTAATCTTTAAAGTTCTTTC
Found at i:56528 original size:49 final size:49
Alignment explanation
Indices: 56450--57044 Score: 327
Period size: 49 Copynumber: 12.1 Consensus size: 49
56440 ACAAACCCAG
* *
56450 TACCATGAAGACATGATGGG-AAGGATTGAGGCCGCAACGACGAATTCGA
1 TACCATGAAGATATGATGGGAAAGG-TTGAGGCCGCAACGACGAATCCGA
* * * * * *
56499 TACCATGAAGATATGACGGGAAAGGTTGAGGTCGTAACGA-TAAACCCA
1 TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
* * * ** *
56547 GTACCATGAAGATATGAAGGGAAAGGTTAAGGTCGCAACGGTGAACCCGA
1 -TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
* ** * * * *
56597 TACC-TCAGAAGATATGAT-GAAAAGGATTGAGGCTACAATGATGAAACCAA
1 TACCAT--GAAGATATGATGGGAAAGG-TTGAGGCCGCAACGACGAATCCGA
* * * * * * * *
56647 TACCATGAA-ATGTAATAGGAAAGGTTGGGGCCGTAACGGCGAACCCGG
1 TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
* ** ** **
56695 TACCTCAT-AAGATATGATGGG-AAGGATTAAGATCATAACGGTGAATCCGA
1 TA-C-CATGAAGATATGATGGGAAAGG-TTGAGGCCGCAACGACGAATCCGA
* * * * *
56745 TACCATGAAGATATGACGGGAAAGGTTGAGGCTGCAACGTC-AAACCTA
1 TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
* * * * *
56793 GTACCATGAAGATATGAAGGGAAAGGTTAAGGGCGCAACGACGAACCCGG
1 -TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
* * * *
56843 TACCTTAAAAGATGTGTTGGG-AAGGATTGAGGCCGCAACGACGAATCCGA
1 TACCAT-GAAGATATGATGGGAAAGG-TTGAGGCCGCAACGACGAATCCGA
* *** * * * * *
56893 AACCATGAA-ATGCAATGGAAAAGGTTGAGGCCACAATGGCGAA-CCTAA
1 TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCC-GA
* * *
56941 TA-TATTAGAAAGATATGATGGG-AAGGATTGAGGCCGCAACGGCGAATAC-A
1 TACCA-T-G-AAGATATGATGGGAAAGG-TTGAGGCCGCAACGACGAATCCGA
* * * ** *
56991 GTACCATGAAGACATGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGA
1 -TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
57041 TACC
1 TACC
57045 TTAAAAGCAT
Statistics
Matches: 412, Mismatches: 104, Indels: 60
0.72 0.18 0.10
Matches are distributed among these distances:
47 3 0.01
48 59 0.14
49 199 0.48
50 122 0.30
51 27 0.07
52 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (49 bp):
TACCATGAAGATATGATGGGAAAGGTTGAGGCCGCAACGACGAATCCGA
Found at i:56855 original size:99 final size:98
Alignment explanation
Indices: 56752--57062 Score: 294
Period size: 99 Copynumber: 3.2 Consensus size: 98
56742 CGATACCATG
* *
56752 AAGATATGACGGGAAAGG-TTGAGGCTGCAACGTC-AAACCTAGTACCATGAAGATATGAAGGGA
1 AAGATATGACGGG-AAGGATTGAGGCCGCAACGACGAAACC-AGTACCATGAAGA-ATGAAGGGA
* * * * *
56815 AAGGTTAAGGGCGCAACGACGAACCCGGTACCTTAA
63 AAGGTTGAGGCCACAACGGCGAACCCGATACCTTAA
* ** * * *
56851 AAGATGTGTTGGGAAGGATTGAGGCCGCAACGACGAATCC-GAAACCATG-A-AATGCAATGGAA
1 AAGATATGACGGGAAGGATTGAGGCCGCAACGACGAAACCAG-TACCATGAAGAATG-AA-GGGA
* ** **
56913 AAGGTTGAGGCCACAATGGCGAACCTAATATATTAGA
63 AAGGTTGAGGCCACAACGGCGAACCCGATACCTTA-A
* *
56950 AAGATATGATGGGAAGGATTGAGGCCGCAACGGCGAATA-CAGTACCATGAAGACATGAAGGGAA
1 AAGATATGACGGGAAGGATTGAGGCCGCAACGACGAA-ACCAGTACCATGAAGA-ATGAAGGGAA
*
57014 AGGTTGAGGCCACAACGGTGAACCCGATACCTTAA
64 AGGTTGAGGCCACAACGGCGAACCCGATACCTTAA
*
57049 AAG-CATGACGGGAA
1 AAGATATGACGGGAA
57063 ATATCGAAGC
Statistics
Matches: 169, Mismatches: 32, Indels: 23
0.75 0.14 0.10
Matches are distributed among these distances:
96 3 0.02
97 3 0.02
98 43 0.25
99 76 0.45
100 38 0.22
101 3 0.02
102 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.16
Consensus pattern (98 bp):
AAGATATGACGGGAAGGATTGAGGCCGCAACGACGAAACCAGTACCATGAAGAATGAAGGGAAAG
GTTGAGGCCACAACGGCGAACCCGATACCTTAA
Found at i:56889 original size:148 final size:147
Alignment explanation
Indices: 56450--56901 Score: 400
Period size: 148 Copynumber: 3.1 Consensus size: 147
56440 ACAAACCCAG
* * * * * *
56450 TACCATGAAGACATGATGGG-AAGGATTGAGGCCGCAACGACGAA-TTCGATACCATGAAGATAT
1 TACCATGAAGATATGA-GGGAAAGGATTGAGGCTGCAACGTCAAACCTAG-TACCATGAAGATAT
* * ** * * * *
56513 GACGGGAAAGGTTGAGGTCGTAACGATAAACCCAGTACCAT-GAAGATATGAAGGGAAAGG-TTA
64 GAAGGGAAAGGTT-AGGGCGTAACGACGAACCCGGTACCTTAAAAGATATGATGGG-AAGGATTA
*
56576 AGGTCGCAACGGTGAACCCGA
127 AGGTCGCAACGGTGAATCCGA
* * * * * * *
56597 TACC-TCAGAAGATATGATGAAAAGGATTGAGGCTACAATGATGAAACC-AATACCATGAA-ATG
1 TACCAT--GAAGATATGAGGGAAAGGATTGAGGCTGCAACG-TCAAACCTAGTACCATGAAGATA
* * * * *
56659 T-AATAGGAAAGGTTGGGGCCGTAACGGCGAACCCGGTACCTCATAAGATATGATGGGAAGGATT
63 TGAA-GGGAAAGGTTAGGG-CGTAACGACGAACCCGGTACCTTAAAAGATATGATGGGAAGGATT
* **
56723 AAGATCATAACGGTGAATCCGA
126 AAGGTCGCAACGGTGAATCCGA
56745 TACCATGAAGATATGACGGGAAAGG-TTGAGGCTGCAACGTCAAACCTAGTACCATGAAGATATG
1 TACCATGAAGATATGA-GGGAAAGGATTGAGGCTGCAACGTCAAACCTAGTACCATGAAGATATG
* * * *
56809 AAGGGAAAGGTTAAGGGCGCAACGACGAACCCGGTACCTTAAAAGATGTGTTGGGAAGGATTGAG
65 AAGGGAAAGGTT-AGGGCGTAACGACGAACCCGGTACCTTAAAAGATATGATGGGAAGGATTAAG
* **
56874 GCCGCAACGACGAATCCGA
129 GTCGCAACGGTGAATCCGA
*
56893 AACCATGAA
1 TACCATGAA
56902 ATGCAATGGA
Statistics
Matches: 238, Mismatches: 52, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
146 10 0.04
147 70 0.29
148 150 0.63
149 8 0.03
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.18
Consensus pattern (147 bp):
TACCATGAAGATATGAGGGAAAGGATTGAGGCTGCAACGTCAAACCTAGTACCATGAAGATATGA
AGGGAAAGGTTAGGGCGTAACGACGAACCCGGTACCTTAAAAGATATGATGGGAAGGATTAAGGT
CGCAACGGTGAATCCGA
Found at i:56900 original size:246 final size:248
Alignment explanation
Indices: 56457--57023 Score: 653
Period size: 246 Copynumber: 2.3 Consensus size: 248
56447 CAGTACCATG
* * * * * *
56457 AAGACATGATGGGAAGGATTGAGGCCGCAACGACGAATTCGATACCATGAAGATATGACGGGAAA
1 AAGATATGATGGGAAGGATTAAGACCACAACGGCGAATACGATACCATGAAGATATGACGGGAAA
* *
56522 GGTTGAGG-TCGTAACGATAAACCCAGTACCATGAAGATATGAAGGGAAAGGTTAAGGTCGCAAC
66 GGTTGAGGCTCGCAACGATAAACCCAGTACCATGAAGATATGAAGGGAAAGGTTAAGGGCGCAAC
** * * * *
56586 GGTGAACCCGATACCTCAGAAGATATGATGAAAAGGATTGAGGCTACAATGATGAAACCAATACC
131 GACGAACCCGATACCTCAAAAGATATGATGAAAAGGATTGAGGCCACAACGACGAAACCAATACC
* * ** ** * *
56651 ATGAAATGTAATAGG-AAAGGTTGGGGCCGTAACGGCGAACCCGGTACCTCA-T
196 ATGAAATGCAAT-GGAAAAGGTTGAGGCCACAACGGCGAACCCAATACATCAGA
* * * *
56703 AAGATATGATGGGAAGGATTAAGATCATAACGGTGAATCCGATACCATGAAGATATGACGGGAAA
1 AAGATATGATGGGAAGGATTAAGACCACAACGGCGAATACGATACCATGAAGATATGACGGGAAA
*
56768 GGTTGAGGCT-GCAACG-TCAAACCTAGTACCATGAAGATATGAAGGGAAAGGTTAAGGGCGCAA
66 GGTTGAGGCTCGCAACGAT-AAACCCAGTACCATGAAGATATGAAGGGAAAGGTTAAGGGCGCAA
* * * * ** * *
56831 CGACGAACCCGGTACCTTAAAAGATGTGTTGGGAAGGATTGAGGCCGCAACGACGAATCCGAA-A
130 CGACGAACCCGATACCTCAAAAGATATGATGAAAAGGATTGAGGCCACAACGACGAAACC-AATA
* * * *
56895 CCATGAAATGCAATGGAAAAGGTTGAGGCCACAATGGCGAACCTAATATATTAGA
194 CCATGAAATGCAATGGAAAAGGTTGAGGCCACAACGGCGAACCCAATACATCAGA
* * * * *
56950 AAGATATGATGGGAAGGATTGAGGCCGCAACGGCGAATAC-AGTACCATGAAGACATGAAGGGAA
1 AAGATATGATGGGAAGGATTAAGACCACAACGGCGAATACGA-TACCATGAAGATATGACGGGAA
57014 AGGTTGAGGC
65 AGGTTGAGGC
57024 CACAACGGTG
Statistics
Matches: 268, Mismatches: 47, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
245 3 0.01
246 199 0.74
247 66 0.25
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (248 bp):
AAGATATGATGGGAAGGATTAAGACCACAACGGCGAATACGATACCATGAAGATATGACGGGAAA
GGTTGAGGCTCGCAACGATAAACCCAGTACCATGAAGATATGAAGGGAAAGGTTAAGGGCGCAAC
GACGAACCCGATACCTCAAAAGATATGATGAAAAGGATTGAGGCCACAACGACGAAACCAATACC
ATGAAATGCAATGGAAAAGGTTGAGGCCACAACGGCGAACCCAATACATCAGA
Found at i:57426 original size:39 final size:39
Alignment explanation
Indices: 57331--57916 Score: 458
Period size: 39 Copynumber: 14.9 Consensus size: 39
57321 AAGTTACATT
* * *
57331 ACCATCAAATCTCTTACCCCGATCATGGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCG-CA
* *
57371 ACCATCCAATCTCTTACCTCGATCATGAGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
* ***
57410 GCCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCGCA
* *
57450 ACCATCCGATCTCTTACCCCGATCATGGGGCAGATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
** * * * ***
57489 GTCATCCAATCTCTTACCTCGATCACGAGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCGCA
* * * * *
57529 ATCATTCTATCTCTTACCACAATCATGGGGCAGATCGC-
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
* * * * ***
57567 ACGTAACCAATCTTTTACTCCGATCATGGGGCAGATTAAAA
1 AC-CATCCAATCTCTTACCCCGATCATGGGGCAGA-TCGCA
* * * *
57608 ACCATTCAATCTCTTACCCCGATCATAGAGCAGATCGCG
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
** * ** ***
57647 GTCATCCAATGTCTTACCCCGATCATAAGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCGCA
* ** * *
57687 ATCATCTGATCACTTACCCC-AACAATGGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATC-ATGGGGCAGATCGCA
** * *
57726 GTCATCCGATCTCTTA-CCCAATCATGGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
* * **
57764 ACCATCCAATCTCTTAACCCAATCATGAAGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
* * * * ***
57803 GCCATCCAATCTTTTACGCCGATCATGGGGTAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCGCA
* ** * *
57843 ACCATCCGATCTCTTACCCTAATCATGGGGTAGGTCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
*
57882 GCCATCCAATCTCTTACCCCGATCATGGGGCAGAT
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGAT
57917 TAAAAACCAC
Statistics
Matches: 421, Mismatches: 115, Indels: 21
0.76 0.21 0.04
Matches are distributed among these distances:
38 32 0.08
39 212 0.50
40 175 0.42
41 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (39 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCGCA
Found at i:57463 original size:79 final size:78
Alignment explanation
Indices: 57332--58056 Score: 739
Period size: 79 Copynumber: 9.4 Consensus size: 78
57322 AGTTACATTA
* * * *
57332 CCATCAAATCTCTTACCCCGATCATGGGGCAGATTGAAAACCATCCAATCTCTTACCTCGATCAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACC-CAATCAT
57397 GAGGCAGATCGCAG
65 GAGGCAGATCGCAG
*
57411 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCCGATCAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTA-CCCAATCAT
* *
57476 GGGGCAGATCGTAG
65 GAGGCAGATCGCAG
* * * * * * *
57490 TCATCCAATCTCTTACCTCGATCACGAGGCAGATTAAAAATCATTCTATCTCTTACCACAATCAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACC-CAATCAT
*
57555 GGGGCAGATCGCA-
65 GAGGCAGATCGCAG
* * * * * * *
57568 CGTAACCAATCTTTTACTCCGATCATGGGGCAGATTAAAAACCATTCAATCTCTTACCCCGATCA
1 C-CATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTA-CCCAATCA
*
57633 T-AGAGCAGATCGCGG
64 TGAG-GCAGATCGCAG
* * ** * * *
57648 TCATCCAATGTCTTACCCCGATCATAAGGCAGATTAAAAATCATCTGATCACTTACCCCAA-CAA
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTA-CCCAATC-A
*
57712 TGGGGCAGATCGCAG
64 TGAGGCAGATCGCAG
* * * *** *
57727 TCATCCGATCTCTTA-CCCAATCATGGGGCAGA-TCGCAACCATCCAATCTCTTAACCCAATCAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTT-ACCCAATCAT
*
57790 GAAGCAGATCGCAG
65 GAGGCAGATCGCAG
* * *
57804 CCATCCAATCTTTTACGCCGATCATGGGGTAGATTAAAAACCATCCGATCTCTTACCCTAATCAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCC-AATCAT
* * *
57869 GGGGTAGGTCGCAG
65 GAGGCAGATCGCAG
57883 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCA-CTCGA-----T---C-AT-A-
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATC-CGATCTCTTACCCAATCAT
*
57936 G-GGCAGATCACAG
65 GAGGCAGATCGCAG
* * *
57949 CCATCCAATCTCTTACCCCGAACATGGAGCAGATTAAAAACCATCCGATCTCTTTCCCCAATCAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTC-TTACCCAATCAT
* *
58014 GCGGCAGATCGCAA
65 GAGGCAGATCGCAG
* *
58028 CAATCTAATCTCTTACCCCGATCATGGGG
1 CCATCCAATCTCTTACCCCGATCATGGGG
58057 AAAATTGAAA
Statistics
Matches: 533, Mismatches: 85, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
66 53 0.10
67 2 0.00
68 1 0.00
69 2 0.00
71 1 0.00
72 1 0.00
74 1 0.00
75 1 0.00
76 2 0.00
77 45 0.08
78 40 0.08
79 379 0.71
80 5 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (78 bp):
CCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCAATCATG
AGGCAGATCGCAG
Found at i:57981 original size:39 final size:38
Alignment explanation
Indices: 57936--58055 Score: 116
Period size: 40 Copynumber: 3.1 Consensus size: 38
57926 CTCGATCATA
*
57936 GGGCAGATCACAGCCATCCAATCTCTTACCCCGAACAT
1 GGGCAGATCACAACCATCCAATCTCTTACCCCGAACAT
* * * *
57974 GGAGCAGATTAAAAACCATCCGATCTCTTTCCCC-AATCAT
1 GG-GCAGA-TCACAACCATCCAATCTCTTACCCCGAA-CAT
* * * *
58014 GCGGCAGATCGCAACAATCTAATCTCTTACCCCGATCAT
1 G-GGCAGATCACAACCATCCAATCTCTTACCCCGAACAT
58053 GGG
1 GGG
58056 GAAAATTGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
38 4 0.06
39 29 0.45
40 30 0.47
41 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.22
Consensus pattern (38 bp):
GGGCAGATCACAACCATCCAATCTCTTACCCCGAACAT
Found at i:58048 original size:145 final size:145
Alignment explanation
Indices: 57793--58056 Score: 402
Period size: 145 Copynumber: 1.8 Consensus size: 145
57783 CAATCATGAA
* * * * * *
57793 GCAGATCGCAGCCATCCAATCTTTTACGCCGATCATGGGGTAGATTAAAAACCATCCGATCTCTT
1 GCAGATCACAGCCATCCAATCTCTTACCCCGAACATGGAGCAGATTAAAAACCATCCGATCTCTT
* * * * * *
57858 ACCCTAATCATGGGGTAGGTCGCAGCCATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAA
66 ACCCCAATCATGCGGCAGATCGCAACAATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAA
57923 CCACTCGATCATAGG
131 CCACTCGATCATAGG
57938 GCAGATCACAGCCATCCAATCTCTTACCCCGAACATGGAGCAGATTAAAAACCATCCGATCTCTT
1 GCAGATCACAGCCATCCAATCTCTTACCCCGAACATGGAGCAGATTAAAAACCATCCGATCTCTT
* *
58003 TCCCCAATCATGCGGCAGATCGCAACAATCTAATCTCTTACCCCGATCATGGGG
66 ACCCCAATCATGCGGCAGATCGCAACAATCCAATCTCTTACCCCGATCATGGGG
58057 AAAATTGAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
145 105 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (145 bp):
GCAGATCACAGCCATCCAATCTCTTACCCCGAACATGGAGCAGATTAAAAACCATCCGATCTCTT
ACCCCAATCATGCGGCAGATCGCAACAATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAAA
CCACTCGATCATAGG
Found at i:66192 original size:49 final size:50
Alignment explanation
Indices: 66112--66800 Score: 384
Period size: 49 Copynumber: 14.0 Consensus size: 50
66102 AAATGGCGAA
* * *
66112 ACGAACCC-AGTACCATAAAGACATGATGGG-AAGGATTGAGGCCACAACG
1 ACGAACCCGA-TACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* * * *
66161 ACGAATCCGATACCATGAAGATATGACGGGAAAGG-TTGAGGTCGTAAC-
1 ACGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* ** * * * * *
66209 AGCAAACCCTTTACCATGAAGATATGAAGGGAAAGG-CTAAGGCTGTAACGG
1 A-CGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAAC-G
* * * *
66260 A-GAACCCGGTACCTTAGAAGATATGAT-GAAAAGGATTGAGACCGCAACG
1 ACGAACCCGATACCAT-GAAGATATGATGGGAAAGGATTGAGGCCGCAACG
** * * * * *
66309 GTGAAACCGATACCATGAA-ATGTAATGGGAAA-GATTGAAGCCACAACG
1 ACGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* * * *
66357 ACGAACCCGATACCATGAATATTTGA-GGGTAAAAG-TTGAGGCCGTAACG
1 ACGAACCCGATACCATGAAGATATGATGGG-AAAGGATTGAGGCCGCAACG
** * * * * *
66406 GTGAACCCGATACGTCA-GAAGATATGATGGG-ACGAATTGAGGTCGTAACA
1 ACGAACCCGATAC--CATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* * *
66456 ACGAATCCGATACCAAGAAGATATGACGGGAAAGG-TTGAGGCCGCAACG
1 ACGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* * * * *
66505 ACGCACCCAATACCATGAAGATATGAGGGGAAAGG-TTAAGGGCGCAACG
1 ACGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* * *
66554 ACGAACCC-AGTACCTTAAAAGATGTG-TCGGG-AAGGATTGAGGCCGCAACG
1 ACGAACCCGA-TACCAT-GAAGATATGAT-GGGAAAGGATTGAGGCCGCAACG
* * * ** * * * * *
66604 ACAAATCTGGCACCATGAA-ATGTAATGGGAAAGG-TTGAGGTCACAATG
1 ACGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
* ** * * *
66652 GCGAACTTGGTACCTTAGAAAGATATGATGGG-AAGGATTGAGGCCACAACG
1 ACGAACCCGATACCAT-G-AAGATATGATGGGAAAGGATTGAGGCCGCAACG
* * * * *
66703 GCAAATCC-AGTACCATGAAGACATGAAGGGAAAGG-TTGAGGCCGCAACG
1 ACGAACCCGA-TACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
** * * * * * *
66752 GTGAACCTGGTACCTTAGAAG-CATGACGGGAAA-GATTGAAGCCGCAACG
1 ACGAACCCGATACCAT-GAAGATATGATGGGAAAGGATTGAGGCCGCAACG
66801 GCAAAACTTA
Statistics
Matches: 491, Mismatches: 115, Indels: 68
0.73 0.17 0.10
Matches are distributed among these distances:
48 70 0.14
49 273 0.56
50 113 0.23
51 35 0.07
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.17
Consensus pattern (50 bp):
ACGAACCCGATACCATGAAGATATGATGGGAAAGGATTGAGGCCGCAACG
Found at i:66576 original size:148 final size:148
Alignment explanation
Indices: 66112--66643 Score: 488
Period size: 148 Copynumber: 3.6 Consensus size: 148
66102 AAATGGCGAA
* * *
66112 ACGAACCCAGTACCAT-AAAGACATGATGGGAAGGATTGAGGCCACAACGACGAATCCGATACCA
1 ACGAACCCAGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCA
* * ** *
66176 TGAAGATATGACGGGAAAGGTTGAGGTCGTAAC-A-GCAAACCCTTTACCATGAAGATATGAAGG
66 TGAAGATATGACGGGAAAGGTTGAGGCCGCAACGACGC--ACCCAATACCATGAAGATATGAGGG
*
66239 GAAAGGCTAA-GGCTGTAACGG
129 GAAAGGTTAAGGGC-GTAAC-G
* * ** * ** *
66260 A-GAACCCGGTACCTTAGAAGATATGATGAAAAGGATTGAGACCGCAACGGTGAAACCGATACCA
1 ACGAACCCAGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCA
* * * * * * * * * * *
66324 TGAA-ATGTAATGGGAAAGATTGAAGCCACAACGACGAACCCGATACCATGAATATTTGAGGGTA
66 TGAAGATATGACGGGAAAGGTTGAGGCCGCAACGACGCACCCAATACCATGAAGATATGAGGGGA
* * *
66388 AAAGTTGAGGCCGTAACG
131 AAGGTTAAGGGCGTAACG
** * * * * * * * *
66406 GTGAACCC-GATACGTCAGAAGATATGATGGGACGAATTGAGGTCGTAACAACGAATCCGATACC
1 ACGAACCCAG-TACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACC
*
66470 AAGAAGATATGACGGGAAAGGTTGAGGCCGCAACGACGCACCCAATACCATGAAGATATGAGGGG
65 ATGAAGATATGACGGGAAAGGTTGAGGCCGCAACGACGCACCCAATACCATGAAGATATGAGGGG
*
66535 AAAGGTTAAGGGCGCAACG
130 AAAGGTTAAGGGCGTAACG
* * * **
66554 ACGAACCCAGTACCTTAAAAGATGTG-TCGGGAAGGATTGAGGCCGCAACGACAAATCTGGCACC
1 ACGAACCCAGTACCTTAAAAGATATGAT-GGGAAGGATTGAGGCCGCAACGACGAATCCGATACC
* * *
66618 ATGAA-ATGTAATGGGAAAGGTTGAGG
65 ATGAAGATATGACGGGAAAGGTTGAGG
66644 TCACAATGGC
Statistics
Matches: 296, Mismatches: 79, Indels: 19
0.75 0.20 0.05
Matches are distributed among these distances:
146 2 0.01
147 133 0.45
148 159 0.54
149 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (148 bp):
ACGAACCCAGTACCTTAAAAGATATGATGGGAAGGATTGAGGCCGCAACGACGAATCCGATACCA
TGAAGATATGACGGGAAAGGTTGAGGCCGCAACGACGCACCCAATACCATGAAGATATGAGGGGA
AAGGTTAAGGGCGTAACG
Found at i:67148 original size:39 final size:39
Alignment explanation
Indices: 67052--67587 Score: 461
Period size: 39 Copynumber: 13.7 Consensus size: 39
67042 AAGTGACATC
* * * *
67052 ACCATCAAATCTCTTACCCCAATCATGGGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCACA
* ** *
67092 ACCATCCGATCTCTTACCCTAATCATGGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
* * * *
67131 GCCATCCAATCTTTTACCCCGATCATGGGGTAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
*
67170 ACCATCCAATCTTTTACCCCGATCATGGGGCAGATCACA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
* * * * *
67209 ATCATCCGATCTCTTACCCCAATCATAGGGCAGATCATA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
** * * * * *
67248 GTCATCCAATCTTTTACCCCGATCTTGGGGCAAATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCACA
* * * * *
67288 ACTATCCGATCTCTTACCCCGATCATGAGGCTGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
* * * * *
67327 GCCATCTAATCTTTTACCCCGATCATGGGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCACA
* * * * *
67367 ACCATCCGATCTCTTACCCCAATCATGAGGCAGGTCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
* * * * *
67406 GCCATTCAATCTCTTA--CC--TCAT-AGGCAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TCACA
* *
67441 ACCATCCAATCTCTTACCCCGATCATGGGACAGATCATA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
* * * * * *
67480 GCCATCAAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGC-AGATCACA
* * * **
67520 ATCATCCGATCTCTTACCCCAATCATGGGGCAGATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
*
67559 ACCATCTAATCTCTTACCCCGATCATGGG
1 ACCATCCAATCTCTTACCCCGATCATGGG
67588 ACAAATTGAA
Statistics
Matches: 391, Mismatches: 96, Indels: 19
0.77 0.19 0.04
Matches are distributed among these distances:
34 6 0.02
35 20 0.05
37 4 0.01
39 238 0.61
40 123 0.31
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (39 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATCACA
Found at i:67340 original size:79 final size:79
Alignment explanation
Indices: 67060--67602 Score: 496
Period size: 79 Copynumber: 7.0 Consensus size: 79
67050 TCACCATCAA
* *** * ** ** *
67060 ATCTCTTACCCCAATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCTAATCATGGGGCAG
1 ATCTCTTACCCCAATCATGAGGCAGA-TCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAA
*** * *
67125 A-TCGCAGCCATCCA
65 ATTAAAAACCATCCG
* * * * * * * *
67139 ATCTTTTACCCCGATCATGGGGTAGATCGCAACCATCCAATCTTTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCAATCATGAGGCAGATCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAAA
* * *
67204 -TCACAATCATCCG
66 TTAAAAACCATCCG
** * * * *
67217 ATCTCTTACCCCAATCAT-AGGGCAGATCATAGTCATCCAATCTTTTACCCCGATCTTGGGGCAA
1 ATCTCTTACCCCAATCATGA-GGCAGATCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAA
*
67281 ATTAAAAACTATCCG
65 ATTAAAAACCATCCG
* * * *
67296 ATCTCTTACCCCGATCATGAGGCTGATCGCAGCCATCTAATCTTTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCCAATCATGAGGCAGATCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAAA
67361 TTAAAAACCATCCG
66 TTAAAAACCATCCG
* * *
67375 ATCTCTTACCCCAATCATGAGGCAGGTCGCAGCCAT-TCAATCTCTTA--CC--TCAT-AGGCAG
1 ATCTCTTACCCCAATCATGAGGCAGATCGCAGCCATCT-AATCTCTTACCCCGATCATGGGGCAA
*
67434 ATTAAAAACCATCCA
65 ATTAAAAACCATCCG
* ** * *
67449 ATCTCTTACCCCGATCATG-GGACAGATCATAGCCATCAAATCTCTTACCCCGATCATGAGGCAA
1 ATCTCTTACCCCAATCATGAGG-CAGATCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAA
* *
67513 GTTAAAAATCATCCG
65 ATTAAAAACCATCCG
* * * *
67528 ATCTCTTACCCCAATCATGGGGCAGATCGTAACCATCTAATCTCTTACCCCGATCATGGGACAAA
1 ATCTCTTACCCCAATCATGAGGCAGATCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAAA
*
67593 TT-GAAACCAT
66 TTAAAAACCAT
67603 AACCCAATCT
Statistics
Matches: 391, Mismatches: 61, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
73 2 0.01
74 57 0.15
75 4 0.01
76 2 0.01
77 2 0.01
78 106 0.27
79 215 0.55
80 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (79 bp):
ATCTCTTACCCCAATCATGAGGCAGATCGCAGCCATCTAATCTCTTACCCCGATCATGGGGCAAA
TTAAAAACCATCCG
Found at i:67491 original size:153 final size:154
Alignment explanation
Indices: 67132--67576 Score: 533
Period size: 153 Copynumber: 2.9 Consensus size: 154
67122 CAGATCGCAG
* * * *
67132 CCATCCAATCTTTTACCCCGATCATGGGGTAGATCGCAACCATCCAATCTTTTACCCCGATCATG
1 CCATCCAATCTCTTACCCCGATCAT-GGGCAGATCGCAGCCATCAAATCTTTTACCCCGATCATG
* * * * *
67197 GGGCAGA-TCACAATCATCCGATCTCTTACCCCAATCAT-AGGGCAGATCATAGTCATCCAATCT
65 GGGCAGATTAAAAATCATCCGATCTCTTACCCCAATCATGA-GGCAGATCGTAGCCATTCAATCT
* * *
67260 TTTACCCCGATCTTGGGGCAAATTAAAAA
129 CTTA--CC-ATCATGAGGCAAATTAAAAA
* * * *
67289 CTATCCGATCTCTTACCCCGATCATGAGGCTGATCGCAGCCATCTAATCTTTTACCCCGATCATG
1 CCATCCAATCTCTTACCCCGATCATG-GGCAGATCGCAGCCATCAAATCTTTTACCCCGATCATG
* * *
67354 GGGCAGATTAAAAACCATCCGATCTCTTACCCCAATCATGAGGCAGGTCGCAGCCATTCAATCTC
65 GGGCAGATTAAAAATCATCCGATCTCTTACCCCAATCATGAGGCAGATCGTAGCCATTCAATCTC
*
67419 TTACC-TCAT-AGGCAGATTAAAAA
130 TTACCATCATGAGGCAAATTAAAAA
** *
67442 CCATCCAATCTCTTACCCCGATCATGGGACAGATCATAGCCATCAAATCTCTTACCCCGATCATG
1 CCATCCAATCTCTTACCCCGATCATGGG-CAGATCGCAGCCATCAAATCTTTTACCCCGATCATG
* * *
67507 AGGCA-AGTTAAAAATCATCCGATCTCTTACCCCAATCATGGGGCAGATCGTAACCA-TCTAATC
65 GGGCAGA-TTAAAAATCATCCGATCTCTTACCCCAATCATGAGGCAGATCGTAGCCATTC-AATC
67570 TCTTACC
128 TCTTACC
67577 CCGATCATGG
Statistics
Matches: 250, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
152 5 0.02
153 126 0.50
154 3 0.01
156 3 0.01
157 63 0.25
158 49 0.20
159 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (154 bp):
CCATCCAATCTCTTACCCCGATCATGGGCAGATCGCAGCCATCAAATCTTTTACCCCGATCATGG
GGCAGATTAAAAATCATCCGATCTCTTACCCCAATCATGAGGCAGATCGTAGCCATTCAATCTCT
TACCATCATGAGGCAAATTAAAAA
Found at i:67588 original size:118 final size:118
Alignment explanation
Indices: 67052--67590 Score: 482
Period size: 118 Copynumber: 4.6 Consensus size: 118
67042 AAGTGACATC
* * * **
67052 ACCATCAAATCTCTTACCCCAATCATGGGGCAGATTAAAAACCATCCGATCTCTTACCCTAATCA
1 ACCATCCAATCTCTTACCCCAATCATGGGGCAGA-TCAAAACCATCCAATCTCTTACCCCGATCA
* ** * ** * ***
67117 TGGGGCAGATCGCAGCCATCCAATCTTTTACCCCGATCATG-GGGTAGATCGCA
65 TGGGACAGATCATAGCCATCCAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
* * * * * *
67170 ACCATCCAATCTTTTACCCCGATCATGGGGCAGATCACAATCATCCGATCTCTTACCCCAATCAT
1 ACCATCCAATCTCTTACCCCAATCATGGGGCAGATCAAAACCATCCAATCTCTTACCCCGATCAT
* * * * *
67235 AGGG-CAGATCATAGTCATCCAATCTTTTACCCCGATCTTGGGGCAAATTAAAA
66 -GGGACAGATCATAGCCATCCAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
* * * * * ** * * *
67288 ACTATCCGATCTCTTACCCCGATCATGAGGCTGATCGCAGCCATCTAATCTTTTACCCCGATCAT
1 ACCATCCAATCTCTTACCCCAATCATGGGGCAGATCAAAACCATCCAATCTCTTACCCCGATCAT
* * * * * * * ***
67353 GGGGCAGATTAAAAACCATCCGATCTCTTACCCCAATCATGAGGC-AGGTCGCA
66 GGGACAGA-TCATAGCCATCCAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
* * * *
67406 GCCATTCAATCTCTTA--CC--TCAT-AGGCAGATTAAAAACCATCCAATCTCTTACCCCGATCA
1 ACCATCCAATCTCTTACCCCAATCATGGGGCAGA-TCAAAACCATCCAATCTCTTACCCCGATCA
*
67466 TGGGACAGATCATAGCCATCAAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
65 TGGGACAGATCATAGCCATCCAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
* * ** *
67520 ATCATCCGATCTCTTACCCCAATCATGGGGCAGATCGTAACCATCTAATCTCTTACCCCGATCAT
1 ACCATCCAATCTCTTACCCCAATCATGGGGCAGATCAAAACCATCCAATCTCTTACCCCGATCAT
67585 GGGACA
66 GGGACA
67591 AATTGAAACC
Statistics
Matches: 335, Mismatches: 75, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
113 36 0.11
114 52 0.16
116 4 0.01
117 62 0.19
118 148 0.44
119 33 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (118 bp):
ACCATCCAATCTCTTACCCCAATCATGGGGCAGATCAAAACCATCCAATCTCTTACCCCGATCAT
GGGACAGATCATAGCCATCCAATCTCTTACCCCGATCATGAGGCAAGTTAAAA
Found at i:73321 original size:36 final size:36
Alignment explanation
Indices: 73214--73338 Score: 155
Period size: 36 Copynumber: 3.5 Consensus size: 36
73204 CTCAATGATT
*
73214 TCTTCAAGTTTCCCAGTAATTT-AGCTCAAACGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
* * * * *
73249 CCTTCAAGTTT-CTAGTAATTTCATCCCATATGAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
*
73284 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACAAGC
1 TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
* *
73320 TCTTCAAGATTCCTAGTAA
1 TCTTCAAGTTTCCCAGTAA
73339 ATTAACTTGT
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
34 9 0.12
35 29 0.39
36 36 0.49
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (36 bp):
TCTTCAAGTTTCCCAGTAATTTCAGCTCATACGAGC
Found at i:76874 original size:20 final size:19
Alignment explanation
Indices: 76841--76881 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
76831 GCTGTTACAC
*
76841 ATTCTCTCAACTCTCTTAA
1 ATTCTCTCAACTCTCTCAA
76860 ATTCTCTCAAACTCTCTCAA
1 ATTCTCTC-AACTCTCTCAA
76880 AT
1 AT
76882 CCTTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCTCTCAACTCTCTCAA
Found at i:76875 original size:10 final size:10
Alignment explanation
Indices: 76843--76880 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
76833 TGTTACACAT
76843 TCTCTC-AAC
1 TCTCTCAAAC
* *
76852 TCTCTTAAAT
1 TCTCTCAAAC
76862 TCTCTCAAAC
1 TCTCTCAAAC
76872 TCTCTCAAA
1 TCTCTCAAA
76881 TCCTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (10 bp):
TCTCTCAAAC
Found at i:76891 original size:20 final size:20
Alignment explanation
Indices: 76849--76895 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
76839 ACATTCTCTC
* * *
76849 AACTCTCTTAAATTCTCTCA
1 AACTCTCTCAAATCCTCTAA
*
76869 AACTCTCTCAAATCCTTTAA
1 AACTCTCTCAAATCCTCTAA
76889 AAC-CTCT
1 AACTCTCT
76896 AAACTTTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (20 bp):
AACTCTCTCAAATCCTCTAA
Found at i:82110 original size:18 final size:17
Alignment explanation
Indices: 82079--82113 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
82069 AATGTCGACG
*
82079 TATGTACCATCACAGAC
1 TATGTACCAACACAGAC
82096 TATGATACCAACACAGAC
1 TATG-TACCAACACAGAC
82114 GCTGACCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (17 bp):
TATGTACCAACACAGAC
Found at i:85848 original size:30 final size:30
Alignment explanation
Indices: 85822--85878 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
85812 ATTTGAATCC
*
85822 TAATGGGTTTTCAA-AGATTCAATTGAAACA
1 TAATGGCTTTTCAAGA-ATTCAATTGAAACA
85852 TAATGGCTTTTCAAGAATTCAATTGAA
1 TAATGGCTTTTCAAGAATTCAATTGAA
85879 GCAAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (30 bp):
TAATGGCTTTTCAAGAATTCAATTGAAACA
Found at i:86424 original size:15 final size:15
Alignment explanation
Indices: 86404--86432 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
86394 TGTTGATGGA
86404 TTTCCAACGATTTTT
1 TTTCCAACGATTTTT
86419 TTTCCAACGATTTT
1 TTTCCAACGATTTT
86433 GGAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (15 bp):
TTTCCAACGATTTTT
Found at i:90597 original size:20 final size:20
Alignment explanation
Indices: 90572--90610 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
90562 GCTACAGAAA
*
90572 TAAATTTTGATTTTGAATTT
1 TAAATTTTAATTTTGAATTT
90592 TAAATTTTAATTTTGAATT
1 TAAATTTTAATTTTGAATT
90611 GATTCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TAAATTTTAATTTTGAATTT
Found at i:93695 original size:46 final size:45
Alignment explanation
Indices: 93613--93706 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
93603 TTATAAAGGA
* *
93613 AATAAAAACCTAATATATAGAGAAAATAAGTAAAACTAAAACTCT
1 AATAAAAACCTAATATATAAAGAAAATAAATAAAACTAAAACTCT
* *
93658 AATAAAAACCTGATATAATAAAGAAAATAAATAAAACTAAAACTTT
1 AATAAAAACCTAATAT-ATAAAGAAAATAAATAAAACTAAAACTCT
93704 AAT
1 AAT
93707 TTCTGCCGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 15 0.34
46 29 0.66
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (45 bp):
AATAAAAACCTAATATATAAAGAAAATAAATAAAACTAAAACTCT
Found at i:112118 original size:43 final size:40
Alignment explanation
Indices: 112040--112119 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
112030 ATTAACAGGA
** *
112040 TTATTATTAAATATAATAATTTAATCATATTTTAATATAT
1 TTATTATTAAATATAATAATTTAAAAATATATTAATATAT
*
112080 TTATTATTAAATATAATTATTATAAAAATATGAATTAATA
1 TTATTATTAAATATAATAATT-TAAAAATAT--ATTAATA
112120 ATAATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 20 0.61
41 7 0.21
43 6 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (40 bp):
TTATTATTAAATATAATAATTTAAAAATATATTAATATAT
Found at i:115300 original size:50 final size:50
Alignment explanation
Indices: 115246--115349 Score: 199
Period size: 50 Copynumber: 2.1 Consensus size: 50
115236 CTGAAAAGAG
*
115246 ATTATAAGTCAGATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCA
1 ATTATAAGTAAGATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCA
115296 ATTATAAGTAAGATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCA
1 ATTATAAGTAAGATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCA
115346 ATTA
1 ATTA
115350 CAGCACACAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (50 bp):
ATTATAAGTAAGATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCA
Found at i:115362 original size:50 final size:50
Alignment explanation
Indices: 115258--115362 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
115248 TATAAGTCAG
* *
115258 ATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCAATTATAAGTAAG
1 ATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCAATTATAAGCAAC
*
115308 ATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCAATTA-CAGCACAC
1 ATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCAATTATAAGCA-AC
115358 ATATA
1 ATATA
115363 CTTACTCCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 3 0.06
50 48 0.94
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (50 bp):
ATATAAAACGATATTTAAACCAAGAAAAAAGTTGACCAATTATAAGCAAC
Found at i:115752 original size:8 final size:8
Alignment explanation
Indices: 115739--115768 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
115729 CTCCCTTTTC
115739 TCTCTCGT
1 TCTCTCGT
115747 TCTCTCGT
1 TCTCTCGT
*
115755 TCTCTCTT
1 TCTCTCGT
115763 TCTCTC
1 TCTCTC
115769 AATCTCCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (8 bp):
TCTCTCGT
Done.