Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 15 of 145
Found at i:5040002 original size:24 final size:25
Alignment explanation
Indices: 5039965--5040017 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
5039955 TCTTTTTGCA
*
5039965 TTCATTCCATTCATTTGCATTACAT
1 TTCATTCCATTCATTTGCATTAAAT
*
5039990 TTCATTGCA-TCATTTGCATTAAAT
1 TTCATTCCATTCATTTGCATTAAAT
5040014 TTCA
1 TTCA
5040018 CGAAAGAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (25 bp):
TTCATTCCATTCATTTGCATTAAAT
Found at i:5043167 original size:18 final size:18
Alignment explanation
Indices: 5043146--5043198 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
5043136 ACTTCACTTG
*
5043146 AAAAAAGAAACGAAAAGA
1 AAAAAAGAAAAGAAAAGA
*
5043164 AAAATAGAAAAGAAAAGA
1 AAAAAAGAAAAGAAAAGA
5043182 AGAACAAA-AAAAGAAAA
1 A-AA-AAAGAAAAGAAAA
5043199 AGGAAAGGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 17 0.57
19 11 0.37
20 2 0.07
ACGTcount: A:0.79, C:0.04, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAGA
Found at i:5044144 original size:50 final size:49
Alignment explanation
Indices: 5044074--5044217 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 49
5044064 AGGTTGCAAT
5044074 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGATGCAG
1 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGATGCAG
* * * * * * * * * *
5044123 TGGAACAGATTCAAGCTACAACAGTGAATCTTGCTTCCCCAAC-AT--TG
1 T-AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGATGCAG
*
5044170 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGGTGCA
1 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGATGCA
5044218 TCACTGACGG
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
46 32 0.46
47 3 0.04
49 3 0.04
50 32 0.46
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (49 bp):
TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGATGCAG
Found at i:5044198 original size:46 final size:48
Alignment explanation
Indices: 5044074--5044207 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 48
5044064 AGGTTGCAAT
* *
5044074 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCGATGCAG
1 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCCAACGAT-CAG
* * * * * * * *
5044123 TGGAACAGATTCAAGCTACAACAGTGAATCTTGCTTCCCCAAC-AT-TG
1 T-AAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCCAACGATCAG
5044170 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
1 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
5044208 TAGCGGTGCA
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
46 30 0.45
47 2 0.03
49 3 0.04
50 32 0.48
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (48 bp):
TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCCAACGATCAG
Found at i:5044400 original size:100 final size:100
Alignment explanation
Indices: 5044227--5044986 Score: 975
Period size: 100 Copynumber: 7.6 Consensus size: 100
5044217 ATCACTGACG
* *
5044227 GTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTTGTTTCCCCGACATTGCAATTAAAAAGA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
* *
5044292 TTGAAGCCACAACGACGAATCTTACTTTCTTGGCA
66 TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
* * * *
5044327 GTGCAGTGGGACATATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAAA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
*
5044392 TTGAAGCCACAACGGTGAATCTTACTTTCC-TGGCA
66 TTGAAGCCACAACGGCGAATCTTAC-TTCCTTGGCA
** * * *
5044427 GTATAGTGGGACAGATTGAAGCTACAACGGTGAATCTTGCTTCTCCGACATTGCAATTAAAAAGA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
*** * **
5044492 TTGAAGCCACAACGATAAATCTTACTTCCCTGGTG
66 TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
* * * * *
5044527 GTGCACTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCTATATTGCAATTAAAAAGA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
*
5044592 TTGAAGCCACAACGGCGAATCTTACTT-CTCTGGCG
66 TTGAAGCCACAACGGCGAATCTTACTTCCT-TGGCA
* * * * *
5044627 GTACAGTGGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCCGACATTGCAGTCAAAAAGA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
5044692 TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
66 TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
* * * *
5044727 GTACAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAATA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
* **
5044792 TTGAAGCCACAACGGTGAATCTTACTTCCTTGGTG
66 TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
* * * * * *
5044827 GTGCAGTGGAACATATTGAAGTTACAACAGCGAATCTTTCTTCCTCGACATTGCAGTTAAAAAGA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
* * * *
5044892 TTGAAGCTACAACAGCGAATTTTACTTCCCTGGCA
66 TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
* * *** * * * *
5044927 GTGTAGTGGAACTGATTGAAGCTACAATAACAAATCTTACTTTCCCGACATTGCAGTTAA
1 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAA
5044987 TTAGACTAAA
Statistics
Matches: 583, Mismatches: 73, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
99 5 0.01
100 573 0.98
101 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGA
TTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
Found at i:5044944 original size:50 final size:50
Alignment explanation
Indices: 5044227--5044968 Score: 461
Period size: 50 Copynumber: 14.8 Consensus size: 50
5044217 ATCACTGACG
* * ** * *
5044227 GTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTTGTTTCCCCGACA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* * ** * * * *
5044277 TTGCAATTAAAAAGATTGAAGCCACAAC-GACGAATCTTACTTTCTTGGCA
1 GTGCAGTGGAACAGATTGAAGCTACAACAG-CGAATCTTACTTCCCTGGCA
* * * * * * *
5044327 GTGCAGTGGGACATATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* * ** * * * * * *
5044377 TTGCAATTAAAAAAATTGAAGCCACAACGGTGAATCTTACTTTCCTGGCA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
** * * * * *
5044427 GTATAGTGGGACAGATTGAAGCTACAACGGTGAATCTTGCTTCTCC-GACA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTC-CCTGGCA
* * ** * * ** **
5044477 TTGCAATTAAAAAGATTGAAGCCACAAC-GATAAATCTTACTTCCCTGGTG
1 GTGCAGTGGAACAGATTGAAGCTACAACAG-CGAATCTTACTTCCCTGGCA
* * * **
5044527 GTGCACTGGAACAGATTGAAGCTACAA-TGACGAATCTTGCTTCCCCT-ATA
1 GTGCAGTGGAACAGATTGAAGCTACAACAG-CGAATCTTACTT-CCCTGGCA
* * ** * * * * *
5044577 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCTGGCG
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* * * * *
5044627 GTACAGTGGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCCGACA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* ** * * * *
5044677 TTGCAGTCAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* * * *
5044727 GTACAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* ** * * * * * * **
5044777 TTGCAGTTAAAAATATTGAAGCCACAACGGTGAATCTTACTTCCTTGGTG
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* * * *
5044827 GTGCAGTGGAACATATTGAAGTTACAACAGCGAATCTTTCTT-CCTCGACA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GGCA
* ** * *
5044877 TTGCAGTTAAAAAGATTGAAGCTACAACAGCGAATTTTACTTCCCTGGCA
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
* * * * *
5044927 GTGTAGTGGAACTGATTGAAGCTACAATAACAAATCTTACTT
1 GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTT
5044969 TCCCGACATT
Statistics
Matches: 508, Mismatches: 173, Indels: 22
0.72 0.25 0.03
Matches are distributed among these distances:
49 9 0.02
50 488 0.96
51 11 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
GTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCA
Found at i:5045283 original size:44 final size:44
Alignment explanation
Indices: 5045057--5045577 Score: 285
Period size: 45 Copynumber: 11.7 Consensus size: 44
5045047 AAATTATCAA
** * * *
5045057 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T-CATAT-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAG
* * *
5045098 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATACAAG
* * *
5045143 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AC-AAG
* * * * * *
5045188 TCTTATATCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCA-ATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATACAAG
* * * *
5045232 TAC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAG
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAG
* * * *
5045276 TCTTATCTCCCCGAAGTTGTAGTGGAGCATACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAG
* * * *
5045321 TCTTATC-CTCCTGAACTTGCAGTGGGGGAGACTGAAGATAGCGAG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAG
* * * * *
5045366 TCTTATCTCCCTAAAGTTGCAGTGAAACAGATTGAAGCTACTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC-AAG
* * * * * *
5045410 TCCTATTTCCCTAAAGTTGCAGTGGAGC-GAATTAA-A-ACGATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC-A--AG
* * * ** * ** *
5045454 TCATATAC-CTCTAAAGTTGCAGTAGGTCGAATTAGATCTTATCATATCAAA
1 TCTTAT-CTCCCTGAAGTTGCAGT--G--G-AGCAGA-CTGAAGATA-CAAG
* **
5045505 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAG
*
5045549 TCTTATCTCACTGAAGTTGCAGTGGAGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
5045578 AACTAAAACC
Statistics
Matches: 366, Mismatches: 83, Indels: 59
0.72 0.16 0.12
Matches are distributed among these distances:
41 29 0.08
42 1 0.00
43 11 0.03
44 140 0.38
45 144 0.39
46 7 0.02
47 2 0.01
48 1 0.00
49 2 0.01
50 3 0.01
51 22 0.06
52 1 0.00
53 2 0.01
54 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAG
Found at i:5045298 original size:178 final size:178
Alignment explanation
Indices: 5045094--5045445 Score: 506
Period size: 178 Copynumber: 2.0 Consensus size: 178
5045084 CAGATCATAT
* * *
5045094 CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGAAAACAAGTCTTATCCCCCTGAAG
1 CAAGTCTTATCTCCCCGAAGTTGTAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAC
* * * * * *
5045159 TTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATATCCTTGAAGTTGTAGTGGAGCAGATTAAA
66 TTGCAGTGGGGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGAAACAGATTAAA
* *
5045224 GCCAATAATACTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA
131 GCCAATAATACTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAGTTA
* * *
5045272 CAAGTCTTATCTCCCCGAAGTTGTAGTGGAGCATACTGAAGAAAGCAAGTCTTATCCTCCTGAAC
1 CAAGTCTTATCTCCCCGAAGTTGTAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAC
* * * *
5045337 TTGCAGTGGGGGAGACTGAAGATAGCGAGTCTTATCTCCCTAAAGTTGCAGTGAAACAGATTGAA
66 TTGCAGTGGGGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGAAACAGATTAAA
* * * *
5045402 GCTACTAATCCTATTTCCCTAAAGTTGCAGTGGAGCGAATTAAA
131 GCCAATAATACTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAA
5045446 ACGATGAATC
Statistics
Matches: 152, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
178 152 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
CAAGTCTTATCTCCCCGAAGTTGTAGTGGAGCAGACTGAAGAAAACAAGTCTTATCCCCCTGAAC
TTGCAGTGGGGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGAAACAGATTAAA
GCCAATAATACTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAGTTA
Found at i:5049439 original size:13 final size:14
Alignment explanation
Indices: 5049417--5049445 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5049407 TAAATTTTAA
5049417 ATTTATAAAAATAT
1 ATTTATAAAAATAT
5049431 ATTTA-AAAAATAT
1 ATTTATAAAAATAT
5049444 AT
1 AT
5049446 AATCATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTATAAAAATAT
Found at i:5054122 original size:16 final size:17
Alignment explanation
Indices: 5054089--5054122 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5054079 TATAAAGTTA
*
5054089 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
5054106 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
5054122 A
1 A
5054123 ATAATTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:5054864 original size:3 final size:3
Alignment explanation
Indices: 5054858--5054902 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
5054848 TAATAAATTG
* * * *
5054858 TAT TAT TAT TAG TAT TAT TAT TAA TAT TAT TTT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5054903 ATTTTCATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:5055011 original size:23 final size:24
Alignment explanation
Indices: 5054983--5055028 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
5054973 TTGTTATATG
5054983 TATATACATACATACAT-TTTTTA
1 TATATACATACATACATATTTTTA
*
5055006 TATATATATACATACATATTTTT
1 TATATACATACATACATATTTTT
5055029 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (24 bp):
TATATACATACATACATATTTTTA
Found at i:5055040 original size:27 final size:27
Alignment explanation
Indices: 5054970--5055031 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
5054960 TTTACTTCAA
*
5054970 ATTTTGTTATATGTATATACATACATAC
1 ATTTT-TTATATATATATACATACATAC
5054998 ATTTTTTATATATATATACATACATA-
1 ATTTTTTATATATATATACATACATAC
*
5055024 TTTTTTTA
1 ATTTTTTA
5055032 ATTTTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.22
27 20 0.62
28 5 0.16
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.53
Consensus pattern (27 bp):
ATTTTTTATATATATATACATACATAC
Found at i:5055103 original size:20 final size:19
Alignment explanation
Indices: 5055080--5055126 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
5055070 ATTTATTTTT
5055080 ATATTTTATAACTTATATAC
1 ATATTTTATAAC-TATATAC
* *
5055100 ATATCTATATATCTATATAC
1 ATAT-TTTATAACTATATAC
5055120 AT-TTTTA
1 ATATTTTA
5055127 AATTTTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 1 0.04
20 13 0.57
21 6 0.26
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTTATAACTATATAC
Found at i:5067713 original size:99 final size:99
Alignment explanation
Indices: 5067564--5068289 Score: 880
Period size: 99 Copynumber: 7.3 Consensus size: 99
5067554 ACAGCGAAGC
* * ** *
5067564 AGATCGAAGCCACAACGGTGAATCTTACTTTTCTGGCGGTACAGTGGAACAGATTGAAGCTACAA
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
*
5067629 CGGCAAATCTTGCTTCCCCGACATTGCAATTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
* * *
5067663 AGATCGAGGCCACAACGGCAAATCTTACTTCCCTGGTGGTGCAGCGGAACAGATTGAAGCTACAA
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
* ** * *
5067728 CGGCAAATCTCACTTCCCCGGCATTGTAATTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
** * * * * **
5067762 AGATTAAAGTCATAACGGTGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTAC-A
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
* ** *
5067826 CTGGTGAATCACGCTTCCTCGACATTGCAATTAAA
66 C-GGCGAATCTTGCTTCCCCGACATTGCAATTAAA
* * * * *
5067861 AGATTGAGGTCACAACGGCGAATATTATTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAA
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
* * * *
5067926 CGACGAATCTTACTTCCCCTACATTACAATTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
* * * *
5067960 AGATCGAGGCCACAACGGCGAATCTTATTTCCCTAGCGGTACAGTAGAACAGATTGAAGCTACAA
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
*
5068025 CGGTGAATCTTGCTTCCCCGACATTGCAATTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
* * * ** *
5068059 AGATCAAGGCCACAAGGGCGAATCTTATTTCCCTGGAAGTGCAGTGGAATAGATTGAAGCTACAA
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
** * * *
5068124 CGGCGAATCTCACTTCCTCAATATTGCAATTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
* * * * **
5068158 AGATTGAGGCCACAACAGCGAATCTTACTTTCCTGGTGGTGCAAAGGAACAGATTGAAGCTACAA
1 AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
5068223 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
* * *
5068257 AGAGT-GATGCCACAACGGTGAATCTTGCTTCCC
1 AGA-TCGAGGCCACAACGGCGAATCTTACTTCCC
5068290 CGACATTGTA
Statistics
Matches: 530, Mismatches: 94, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
98 2 0.00
99 525 0.99
100 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (99 bp):
AGATCGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAA
CGGCGAATCTTGCTTCCCCGACATTGCAATTAAA
Found at i:5068115 original size:297 final size:297
Alignment explanation
Indices: 5067572--5068289 Score: 976
Period size: 297 Copynumber: 2.4 Consensus size: 297
5067562 GCAGATCGAA
* * * *
5067572 GCCACAACGGTGAATCTTACTTTTCTGGCGGTACAGTGGAACAGATTGAAGCTACAACGGCAAAT
1 GCCACAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
5067637 CTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCAAATCTTACTTCCCTGGTGG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTTACTTCCCTAGCGG
* * * * *
5067702 TGCAGCGGAACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGGCATTGTAATTAAAAGATT
131 TACAGCAGAACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAATTAAAAGATC
* * * *
5067767 AAAGTCATAACGGTGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTAC-ACTGGT
196 AAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTACAAC-GGC
* *
5067831 GAATCACGCTTCCTCGACATTGCAATTAAAAGATTGAG
260 GAATCACACTTCCTCAACATTGCAATTAAAAGATTGAG
* * * *
5067869 GTCACAACGGCGAATATTA-TTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGACGAA
1 GCCACAACGGCGAATCTTACTTT-CCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
* * * *
5067933 TCTTACTTCCCCTACATTACAATTAAAAGATCGAGGCCACAACGGCGAATCTTATTTCCCTAGCG
65 TCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTTACTTCCCTAGCG
* ** **
5067998 GTACAGTAGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGAT
130 GTACAGCAGAACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAATTAAAAGAT
* * * *
5068063 CAAGGCCACAAGGGCGAATCTTATTTCCCTGG-AAGTGCAGTGGAATAGATTGAAGCTACAACGG
195 CAAAGCCACAACGGCGAATCTTACTTCCCTGGCAA-TGCAGTGGAACAGATTGAAGCTACAACGG
* *
5068127 CGAATCTCACTTCCTCAATATTGCAATTAAAAGATTGAG
259 CGAATCACACTTCCTCAACATTGCAATTAAAAGATTGAG
* * **
5068166 GCCACAACAGCGAATCTTACTTTCCTGGTGGTGCAAAGGAACAGATTGAAGCTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
5068231 CTTGCTTCCCCGACATTGCAATTAAAAGAGT-GATGCCACAACGGTGAATCTTGCTTCCC
66 CTTGCTTCCCCGACATTGCAATTAAAAGA-TCGAGGCCACAACGGCGAATCTTACTTCCC
5068290 CGACATTGTA
Statistics
Matches: 364, Mismatches: 52, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
296 5 0.01
297 353 0.97
298 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (297 bp):
GCCACAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
CTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTTACTTCCCTAGCGG
TACAGCAGAACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAATTAAAAGATC
AAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGCG
AATCACACTTCCTCAACATTGCAATTAAAAGATTGAG
Found at i:5068280 original size:148 final size:148
Alignment explanation
Indices: 5067564--5068434 Score: 532
Period size: 148 Copynumber: 5.9 Consensus size: 148
5067554 ACAGCGAAGC
* * * ** * * ** *
5067564 AGATCGAAGCCACAACGGTGAATCTTACTTTTCTGGCGGTACAGTGGAACAGATTGAAGCTACAA
1 AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCTACAA
* * *
5067629 CGGCAAATCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCAAATCTTACTTC
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTCACTTC
****** *** *
5067694 CCTGGTGGTGCAGCGGAAC
131 CCCAACATTGCA-ATTAAA
* * * * * * * * * ** * *
5067713 AGATTGAAGCTACAACGGCAAATCTCACTTCCCCGGCATTG-TAATTAAAAGATTAAAG-TCATA
1 AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCT-ACA
* * * * * * * * * * * * * *
5067776 ACGGTGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTAC-ACTGGTGAATCACGC
65 ACGGCGAATCTTGCTTCCCCGACATTGCAAT-TAAAAGATCGAGGCCACAAC-GGCGAATCTCAC
* *
5067840 TTCCTCGACATTGCAATTAAA
128 TTCCCCAACATTGCAATTAAA
* * * * * * ** * *
5067861 AGATTGAGGTCACAACGGCGAATATTATTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAA
1 AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCTACAA
* * * * * *
5067926 CGACGAATCTTACTTCCCCTACATTACAATTAAAAGATCGAGGCCACAACGGCGAATCTTATTTC
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTCACTTC
* * ** * *
5067991 CCTAGCGGTAC-AGTAGAA
131 CCCAACATTGCAATTA-AA
* * * * * * * * * ** * * * *
5068009 CAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC-AATTAAAAGATCAAGGCCACA
1 -AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCTACA
* ** * * * * * * * *
5068073 AGGGCGAATCTTATTTCCCTGGA-AGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTCAC
65 ACGGCGAATCTTGCTTCCC-CGACATTGCAAT-TAAAAGATCGAGGCCACAACGGCGAATCTCAC
* *
5068137 TTCCTCAATATTGCAATTAAA
128 TTCCCCAACATTGCAATTAAA
* * ** *
5068158 AGATTGAGGCCACAACAGCGAATCTTACTTTCCTGGTGGTGCAAAGGAACAGATTGAAGCTACAA
1 AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCTACAA
* * **
5068223 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGAGT-GATGCCACAACGGTGAATCTTGCTT
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGA-TCGAGGCCACAACGGCGAATCTCACTT
* *
5068287 CCCCGACATTGTAATTAAA
130 CCCCAACATTGCAATTAAA
* **
5068306 AGATCGAGGCCACAATAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAA
1 AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCTACAA
* * * *
5068371 TGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAGATCGAGGCCACAACGGCAAATCTTACTT
66 CGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTCACTT
5068435 TTCTGGCGGT
Statistics
Matches: 525, Mismatches: 182, Indels: 31
0.71 0.25 0.04
Matches are distributed among these distances:
147 5 0.01
148 318 0.61
149 198 0.38
150 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (148 bp):
AGATCGAGGCCACAACAGCGAATCTTACTTCCCTGGCAGTGCAAAGGAACAGATTAAAGCTACAA
CGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTCACTTC
CCCAACATTGCAATTAAA
Found at i:5068305 original size:247 final size:247
Alignment explanation
Indices: 5068021--5068529 Score: 766
Period size: 247 Copynumber: 2.1 Consensus size: 247
5068011 GATTGAAGCT
*
5068021 ACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCAAGGCCACAAGGGCGAATCTTA
1 ACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCAAGGCCACAAGAGCGAATCTTA
* * * * *
5068086 TTTCCCTGGAAGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTCACTTCCTCAATATTGC
66 CTTCCCTGGAAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTCACTTCCCCAACATTGC
* * * *
5068151 AATTAAAAGATTGAGGCCACAACAGCGAATCTTACTTTCCTGGTGGTGCAAAGGAACAGATTGAA
131 AATTAAAAGATCGAGGCCACAACAGCAAATCTTACTTTCCTGGCGGTACAAAGGAACAGATTGAA
*
5068216 GCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGAGTGATGCC
196 GCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGAGTGAGGCC
* * *
5068268 ACAACGGTGAATCTTGCTTCCCCGACATTGTAATTAAAAGATCGAGGCCACAATAGCGAATCTTA
1 ACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCAAGGCCACAAGAGCGAATCTTA
* * ** * *
5068333 CTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGT
66 CTTCCCTGGAAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTCACTTCCCCAACATTGC
* * **
5068398 AATTAAAAGATCGAGGCCACAACGGCAAATCTTACTTTTCTGGCGGTACAGTGGAACAGATTGAA
131 AATTAAAAGATCGAGGCCACAACAGCAAATCTTACTTTCCTGGCGGTACAAAGGAACAGATTGAA
* * * *
5068463 GTTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAAGATTGAGGTC
196 GCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGAGTGAGGCC
5068515 ACAACGGTGAATCTT
1 ACAACGGTGAATCTT
5068530 ACTTTCCTGG
Statistics
Matches: 234, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
247 234 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (247 bp):
ACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGATCAAGGCCACAAGAGCGAATCTTA
CTTCCCTGGAAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTCACTTCCCCAACATTGC
AATTAAAAGATCGAGGCCACAACAGCAAATCTTACTTTCCTGGCGGTACAAAGGAACAGATTGAA
GCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGAGTGAGGCC
Found at i:5068378 original size:297 final size:294
Alignment explanation
Indices: 5067572--5068388 Score: 910
Period size: 297 Copynumber: 2.7 Consensus size: 294
5067562 GCAGATCGAA
* * * *
5067572 GCCACAACGGTGAATCTTACTTTTCTGGCGGTACAGTGGAACAGATTGAAGCTACAACGGCAAAT
1 GCCACAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* * *
5067637 CTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCAAATCTTACTTCCCTG-GTG
66 CTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTT-CTTCCCCGACT-
* * * * * *
5067701 GTGCAGCGGAACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGGCATTGTAATTAAAAGAT
129 GTACA--GTAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGGCATTGCAATTAAAAGAT
* *
5067766 TAAAG-TCATAACGGTGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTACACTGG
192 TAAAGCT-ACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTACACTGG
* * *
5067830 TGAATCACGCTTCCTCGACATTGCAATTAAAAGATTGAG
256 CGAATCACACTTCCTCAACATTGCAATTAAAAGATTGAG
* * * *
5067869 GTCACAACGGCGAATATTA-TTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGACGAA
1 GCCACAACGGCGAATCTTACTTT-CCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
* * * * * * *
5067933 TCTTACTTCCCCTACATTACAATTAAAAGATCGAGGCCACAACGGCGAATCTTATTTCCCTAGCG
65 TCTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTTCTTCCCCGA-CT
* * *
5067998 GTACAGTAGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAGAT
129 GTACAGTA-AA-AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGGCATTGCAATTAAAAGAT
* * * * * *
5068063 CAAGGCCACAAGGGCGAATCTTATTTCCCTGG-AAGTGCAGTGGAATAGATTGAAGCTACAAC-G
192 TAAAGCTACAACGGCGAATCTTACTTCCCTGGCAA-TGCAGTGGAACAGATTGAAGCTAC-ACTG
* *
5068126 GCGAATCTCACTTCCTCAATATTGCAATTAAAAGATTGAG
255 GCGAATCACACTTCCTCAACATTGCAATTAAAAGATTGAG
* * **
5068166 GCCACAACAGCGAATCTTACTTTCCTGGTGGTGCAAAGGAACAGATTGAAGCTACAACGGCGAAT
1 GCCACAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
* *
5068231 CTTGCTTCCCCGACATTGCAATTAAAAGAGT-GATGCCACAACGGTGAATCTTGCTTCCCCGACA
66 CTTGCTTCCCCGACATTGCAATTAAAAGA-TCGAGGCCACAACGGCGAATCTT-CTTCCCCGAC-
* * * * ** * * * * *
5068295 TTGTA-ATTAAAAGATCGAGGCCACAATAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGA
128 -TGTACAGTAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGGCATTGCAAT-TAAAAGA
* *
5068359 TTAAAGCTACAATGGCGAATCTTGCTTCCC
191 TTAAAGCTACAACGGCGAATCTTACTTCCC
5068389 CGACATTGTA
Statistics
Matches: 429, Mismatches: 77, Indels: 28
0.80 0.14 0.05
Matches are distributed among these distances:
295 2 0.00
296 44 0.10
297 365 0.85
298 15 0.03
299 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (294 bp):
GCCACAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAAT
CTTGCTTCCCCGACATTGCAATTAAAAGATCGAGGCCACAACGGCGAATCTTCTTCCCCGACTGT
ACAGTAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGGCATTGCAATTAAAAGATTAAA
GCTACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGGAACAGATTGAAGCTACACTGGCGAAT
CACACTTCCTCAACATTGCAATTAAAAGATTGAG
Found at i:5068397 original size:99 final size:99
Alignment explanation
Indices: 5068268--5069236 Score: 1137
Period size: 99 Copynumber: 9.7 Consensus size: 99
5068258 GAGTGATGCC
* * * ** *
5068268 ACAACGGTGAATCTTGCTTCCCCGACATTGTAATTAAAAGATCGAGGCCACAATAGCGAATCTTA
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
* *
5068333 CTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCT
66 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * * **
5068367 ACAATGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAGATCGAGGCCACAACGGCAAATCTTA
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
** * *
5068432 CTTTTCTGGCGGTACAGTGGAACAGATTGAAGTT
66 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* *
5068466 ACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAAGATTGAGGTCACAACGGTGAATCTTA
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
*
5068531 CTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCT
66 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * * * *
5068565 ACAACGACAAATCTTGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCGACAACGGTGAATCTT
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATT-AAAAGATTGAGGCCACAACGGTGAATCTT
*
5068630 ACTTCCCTGGCGGTGCAGTGGGACAGATTGAAGCT
65 ACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * * * * * * * *
5068665 ACATCGGTGAATTTTACTTCCTCGACATTGCAATTAAAAAAATTGAAGCTACAACGATGAATCTT
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATT-AAAAGATTGAGGCCACAACGGTGAATCTT
* * * * *
5068730 ACTTCCCTTGCAGTGTAGTGGGACAAATTGAAGCT
65 ACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * * *
5068765 ACAACGGCGAATCTTGCTTCTCCGACATTGCAATTAAAAGGATTGAAGCCACAATGGCGAATCTT
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA-GATTGAGGCCACAACGGTGAATCTT
* * *
5068830 ACTTCCCTAGTGGTGCAGTGGAATAGATTGAAGCT
65 ACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * *
5068865 ACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAGATCGAGGCCACAACGGTGAATCTTA
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
* * * *
5068930 CTTCCCTAGTGGTGCAGTGGAACAAATTAAAGCT
66 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * * * * ** * **
5068964 ACAATGGCAAATATTACTTCCCCGACATTACAATTAAAAGATCAAGGCCACAACAGCAAATCTTA
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
** * *
5069029 CTTTTCTGGCGGTGCAGTGGAATAGATTGAAACT
66 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * **
5069063 ACAACGACGAATCTTGCTTCCTCGACATTGCAATTAAAAGATTGAGGCCACAATAGTGAATCTTA
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
* * ** * *
5069128 CTTTCCTAGAAGTGCAATGGAACAGATTAAAGCT
66 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
* * ** * **
5069162 ACAATGGCGAATCTTGCTTCCCCAACATTGCAATTAAATAGATTGAAACTACAACAATGAATCTT
1 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAA-AGATTGAGGCCACAACGGTGAATCTT
5069227 ACTTCCCTGG
65 ACTTCCCTGG
5069237 TGAATAGATT
Statistics
Matches: 744, Mismatches: 123, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
99 458 0.62
100 286 0.38
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (99 bp):
ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTA
CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
Found at i:5068452 original size:346 final size:347
Alignment explanation
Indices: 5067915--5068636 Score: 1034
Period size: 346 Copynumber: 2.1 Consensus size: 347
5067905 TGGAATAGAT
* ** * *
5067915 TGAAGCTACAACGACGAATCTTACTTCCCCTACATTACAATTAAAAGATCGAGGCCACAACGGCG
1 TGAAGCCACAACGGTGAATCTTACTTCCCCGACATTACAATTAAAAGATCGAGGCCACAACAGCG
* * * *
5067980 AATCTTATTTCCCTAGCGGTACAGTAGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCG
66 AATCTTACTTCCCTAGCAGTACAGTAGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCG
* * * *
5068045 ACATTGCAATTAAAAGATCAAGGCCACAAGGGCGAATCTTATTTCCCTGGAAGTGCAGTGGAATA
131 ACATTGCAATTAAAAGATCAAGGCCACAACGGCAAATCTTATTTCCCTGGAAGTACAGTGGAACA
*
5068110 GATTGAAGCTACAACGGCGAATCTCACTTCCTCAATATTGCAATTAAAAGATTGAGGCCACAACA
196 GATTGAAGCTACAACGGCGAATCTCACTTCCTCAACATTGCAATTAAAAGATTGAGGCCACAACA
* * *
5068175 GCGAATCTTACTTTCCTGGTGGTGCAAAGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCC
261 GCGAATCTTACTTTCCTGGCGGTGCAAAGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCC
5068240 CCGACATTGCAATT-AAAAGAG
326 CCGACATTGCAATTAAAAAGAG
* * ** *
5068261 TGATGCCACAACGGTGAATCTTGCTTCCCCGACATTGTAATTAAAAGATCGAGGCCACAATAGCG
1 TGAAGCCACAACGGTGAATCTTACTTCCCCGACATTACAATTAAAAGATCGAGGCCACAACAGCG
* * * *
5068326 AATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAATGGCGAATCTTGCTTCCCCG
66 AATCTTACTTCCCTAGCAGTACAGTAGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCG
* * * **
5068391 ACATTGTAATTAAAAGATCGAGGCCACAACGGCAAATCTTACTTT-TCTGGCGGTACAGTGGAAC
131 ACATTGCAATTAAAAGATCAAGGCCACAACGGCAAATCTTA-TTTCCCTGGAAGTACAGTGGAAC
* ** * *
5068455 AGATTGAAGTTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAAGATTGAGGTCACAAC
195 AGATTGAAGCTACAACGGCGAATCTCACTTCCTCAACATTGCAATTAAAAGATTGAGGCCACAAC
* * ** *
5068520 GGTGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTGTTTC
260 AGCGAATCTTACTTTCCTGGCGGTGCAAAGGAACAGATTGAAGCTACAACGACAAATCTTGCTTC
*
5068585 CCCGACATTGCAATTAAAAAGAT
325 CCCGACATTGCAATTAAAAAGAG
*
5068608 TGAAGCGACAACGGTGAATCTTACTTCCC
1 TGAAGCCACAACGGTGAATCTTACTTCCC
5068637 TGGCGGTGCA
Statistics
Matches: 329, Mismatches: 45, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
346 294 0.89
347 35 0.11
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (347 bp):
TGAAGCCACAACGGTGAATCTTACTTCCCCGACATTACAATTAAAAGATCGAGGCCACAACAGCG
AATCTTACTTCCCTAGCAGTACAGTAGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCG
ACATTGCAATTAAAAGATCAAGGCCACAACGGCAAATCTTATTTCCCTGGAAGTACAGTGGAACA
GATTGAAGCTACAACGGCGAATCTCACTTCCTCAACATTGCAATTAAAAGATTGAGGCCACAACA
GCGAATCTTACTTTCCTGGCGGTGCAAAGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCC
CCGACATTGCAATTAAAAAGAG
Found at i:5069194 original size:50 final size:50
Alignment explanation
Indices: 5067608--5069233 Score: 839
Period size: 50 Copynumber: 32.8 Consensus size: 50
5067598 GGCGGTACAG
* * *
5067608 TGGAACAGATTGAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * **** *
5067658 T-TAAAAGATCGAGGCCACAACGGCAAATCTTACTTCCCTGGTGGTGCAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * *
5067707 CGGAACAGATTGAAGCTACAACGGCAAATCTCACTTCCCCGGCATTGTAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * * *
5067757 T-TAAAAGATTAAAG-TCATAACGGTGAATCTTACTTCCCTGGCAATGCAG
1 TGGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * *** *
5067806 TGGAACAGATTGAAGCTAC-ACTGGTGAATCACGCTTCCTCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAAC-GGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * ** *
5067856 T-TAAAAGATTG-AGGTCACAACGGCGAATATTATTTCCCTGGCGGTGCAG
1 TGGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * *
5067905 TGGAATAGATTGAAGCTACAACGACGAATCTTACTTCCCCTACATTACAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * ** * *
5067955 T-TAAAAGATCGAGGCCACAACGGCGAATCTTA-TTTCCCTAGCGGTACAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAA
* * * *
5068004 TAGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * * *
5068054 T-TAAAAGA-TCAAGGCCACAAGGGCGAATCTTATTTCCCTGGA-AGTGCAG
1 TGGAAAAGATTGAA-GCTACAACGGCGAATCTTACTTCCC-CGACATTGCAA
* * * * *
5068103 TGGAATAGATTGAAGCTACAACGGCGAATCTCACTTCCTCAATATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * ****
5068153 T-TAAAAGATTGAGGCCACAACAGCGAATCTTACTTTCCTGGTGGTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * *
5068202 AGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * *
5068252 T-TAAAAGAGTGATGCCACAACGGTGAATCTTGCTTCCCCGACATTGTAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * ** * * * *
5068301 T-TAAAAGATCGAGGCCACAATAGCGAATCTTACTTCCCTGGCAGTGCAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * *
5068350 TGGAACAGATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGTAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * ** * * ** * *
5068400 T-TAAAAGATCGAGGCCACAACGGCAAATCTTACTTTTCTGGCGGTACAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * *
5068449 TGGAACAGATTGAAGTTACAACGGCGAATCTTGCTTCCTCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * ** *
5068499 T-TAAAAGATTG-AGGTCACAACGGTGAATCTTACTTTCCTGGCGGTGCAG
1 TGGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * **
5068548 TGGAACAGATTGAAGCTACAACGACAAATCTTGTTTCCCCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
** * * * * ** *
5068598 TTAAAAAGATTGAAGCGACAACGGTGAATCTTACTTCCCTGGCGGTGCAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * *
5068648 TGGGACAGATTGAAGCTACATCGGTGAATTTTACTTCCTCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
** * ** * * * *
5068698 TTAAAAAAATTGAAGCTACAACGATGAATCTTACTTCCCTTG-CAGTGTAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-CGACATTGCAA
* * *
5068748 TGGGACAA-ATTGAAGCTACAACGGCGAATCTTGCTTCTCCGACATTGCAA
1 T-GGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * *
5068798 T-TAAAAGGATTGAAGCCACAATGGCGAATCTTACTT-CCCTA-GTGGTGCAG
1 TGGAAAA-GATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT--TGCAA
* * * *
5068848 TGGAATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * * * *
5068898 T-TAAAAGATCGAGGCCACAACGGTGAATCTTACTT-CCCTA-GTGGTGCAG
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT--TGCAA
* * * * *
5068947 TGGAACAA-ATTAAAGCTACAATGGCAAATATTACTTCCCCGACATTACAA
1 TGGAA-AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * * ** * * ** *
5068997 T-TAAAAGA-TCAAGGCCACAACAGCAAATCTTACTTTTCTGGCGGTGCAG
1 TGGAAAAGATTGAA-GCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * * *
5069046 TGGAATAGATTGAAACTACAACGACGAATCTTGCTTCCTCGACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * * ** * ** *
5069096 T-TAAAAGATTGAGGCCACAATAGTGAATCTTACTTTCCTAGA-AGTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCCGACATTGCAA
* * * * *
5069145 TGGAACAGATTAAAGCTACAATGGCGAATCTTGCTTCCCCAACATTGCAA
1 TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
* * ***
5069195 T-TAAATAGATTGAAACTACAACAATGAATCTTACTTCCC
1 TGGAAA-AGATTGAAGCTACAACGGCGAATCTTACTTCCC
5069234 TGGTGAATAG
Statistics
Matches: 1129, Mismatches: 400, Indels: 94
0.70 0.25 0.06
Matches are distributed among these distances:
47 1 0.00
48 29 0.03
49 443 0.39
50 619 0.55
51 35 0.03
52 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
TGGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA
Found at i:5070906 original size:3 final size:3
Alignment explanation
Indices: 5070898--5070961 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
5070888 ACCACTGTTT
* * * *
5070898 TTA TTA TTA CTCA -TA TTA TTA TTT TTA TTC TTA CTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5070943 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
5070962 CATCATCATC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 1 0.02
3 48 0.94
4 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5070922 original size:24 final size:24
Alignment explanation
Indices: 5070895--5070961 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
5070885 ATTACCACTG
5070895 TTTTTATTATTACTCA-TATTATTA
1 TTTTTATTATTACT-ATTATTATTA
*
5070919 TTTTTATTCTTACTATTATTATTA
1 TTTTTATTATTACTATTATTATTA
* *
5070943 TTATTATTATTATTATTAT
1 TTTTTATTATTACTATTAT
5070962 CATCATCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTATTATTACTATTATTATTA
Found at i:5070966 original size:3 final size:3
Alignment explanation
Indices: 5070960--5070991 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
5070950 TATTATTATT
5070960 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
5070992 TTTAATACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:5075824 original size:23 final size:23
Alignment explanation
Indices: 5075781--5075840 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
5075771 TTGTTTTGAT
* *
5075781 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGATTTCTACTGGAA
5075804 ATTGTT-TTGATTATCTACTGGAA
1 ATTGTTCTTGATT-TCTACTGGAA
5075827 ATTGTTCTTGATTT
1 ATTGTTCTTGATTT
5075841 GTTAGTCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.18
23 21 0.64
24 6 0.18
ACGTcount: A:0.20, C:0.08, G:0.18, T:0.53
Consensus pattern (23 bp):
ATTGTTCTTGATTTCTACTGGAA
Found at i:5076378 original size:10 final size:10
Alignment explanation
Indices: 5076355--5076387 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5076345 CCCAGAACTT
5076355 AAATT-AAA-
1 AAATTCAAAG
5076363 AAATTCAAAG
1 AAATTCAAAG
5076373 AAATTCAAAG
1 AAATTCAAAG
5076383 AAATT
1 AAATT
5076388 GTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 15 0.65
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (10 bp):
AAATTCAAAG
Found at i:5081425 original size:45 final size:44
Alignment explanation
Indices: 5081335--5081429 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
5081325 TTACACCTCT
* *
5081335 ATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
* * *
5081379 ATTACATTCAACCAAACA-ATTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACA-AGA-ATACTATTACACCTCTAATCC
5081424 ATTACA
1 ATTACA
5081430 CCTCTATTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.45
45 23 0.52
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
Found at i:5081429 original size:16 final size:16
Alignment explanation
Indices: 5081408--5081461 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
5081398 TTGATTTGCT
*
5081408 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
5081424 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
5081440 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
5081456 AATACA
1 ATTACA
5081462 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.35, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:5091313 original size:6 final size:6
Alignment explanation
Indices: 5091302--5091329 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
5091292 TTTTAATTCA
5091302 ATTGAT ATTGAT ATTGAT ATTGAT ATTG
1 ATTGAT ATTGAT ATTGAT ATTGAT ATTG
5091330 TTGTCAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
ATTGAT
Found at i:5094865 original size:4 final size:4
Alignment explanation
Indices: 5094856--5096163 Score: 2598
Period size: 4 Copynumber: 326.8 Consensus size: 4
5094846 TGCAAAAAGA
5094856 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5094904 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5094952 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095000 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095048 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095096 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095144 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095192 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095240 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095288 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095336 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095384 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095432 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095480 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095528 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095576 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095624 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095672 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095720 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095768 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095816 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095864 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095912 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5095960 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5096008 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
5096056 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
5096104 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATGG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG TATG
5096153 TATG TATG TAT
1 TATG TATG TAT
5096164 ATAACAAAAT
Statistics
Matches: 1301, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
4 1298 1.00
5 3 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:5098943 original size:126 final size:125
Alignment explanation
Indices: 5098643--5098995 Score: 548
Period size: 126 Copynumber: 2.8 Consensus size: 125
5098633 TAATTTTGAG
* *
5098643 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTAAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCTATTTAAGAAGAATTTGTG
* *
5098708 -AAATTGCGCCCT-AGTGGACGCGCTTTTGCTACAGTAAGTCATGGAAGAAATAATCTTTT
66 AAAATCGCGCCCTCA-TGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATCTTTT
* * * *
5098767 TTAACGTTTCTAAGCAAATAGTATAAAATCGCTTCTACGAGGATGCTATTTAAGAAGAATTTGGG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCTATTTAAGAAGAATTTGTG
* *
5098832 AAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTTATGGAAGAAATAAATTTTTT
66 AAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAAT-AATCTTTT
* * *
5098893 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGAATGCTATTTGAGAAGAATTTGTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCTATTTAAGAAGAATTTGTG
*
5098958 AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAG
5098996 CATGTTTGGG
Statistics
Matches: 208, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 59 0.28
125 46 0.22
126 103 0.50
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGAGGATGCTATTTAAGAAGAATTTGTG
AAAATCGCGCCCTCATGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATCTTTT
Found at i:5102221 original size:11 final size:11
Alignment explanation
Indices: 5102205--5102240 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
5102195 GAATTTTTTA
5102205 AGGAAATTGAG
1 AGGAAATTGAG
5102216 AGGAAATTGAG
1 AGGAAATTGAG
5102227 AGGAAATTTGAG
1 AGGAAA-TTGAG
5102239 AG
1 AG
5102241 AGAATTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:5105014 original size:22 final size:22
Alignment explanation
Indices: 5104980--5105069 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
5104970 AAATTCAATA
5104980 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
5105002 TCAA-TTCCGTTCAAAAATT-T-
1 TCAATTTCC-TTCAAAAATTCTC
* * *
5105022 TCAATTCCCTTCAAAATTTCTA
1 TCAATTTCCTTCAAAAATTCTC
* *
5105044 TCAATTTTCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
5105066 TCAA
1 TCAA
5105070 ACTCTCAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
20 13 0.23
21 9 0.16
22 35 0.61
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.41
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:5105110 original size:21 final size:22
Alignment explanation
Indices: 5105071--5105112 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5105061 TTCTCTCAAA
5105071 CTCTCAAATTCCTTCCAAAACC
1 CTCTCAAATTCCTTCCAAAACC
* *
5105093 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
5105113 ATCTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAACC
Found at i:5105209 original size:29 final size:29
Alignment explanation
Indices: 5105154--5105209 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
5105144 ATTAAATTTC
5105154 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
*
5105183 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
5105210 AATATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:5105217 original size:29 final size:29
Alignment explanation
Indices: 5105154--5105217 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
5105144 ATTAAATTTC
*
5105154 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
5105183 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
5105211 ATATTTT
1 ATTTTTT
5105218 CAACAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:5110380 original size:124 final size:125
Alignment explanation
Indices: 5110154--5110399 Score: 372
Period size: 124 Copynumber: 2.0 Consensus size: 125
5110144 NNNNNNNNNN
*
5110154 ACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
1 ACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
* * * * **
5110219 CCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTAT
66 CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTAT
5110279 ACTATTTCCTCAGAAAACGTC-AAAAAAAATTATTT-CTCACATGACC-ACTGTAGCGAAATCGC
1 ACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTAGCGAAATCGC
* *
5110341 GTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGCGATTT
64 GTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
5110400 CCCACTATTT
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
124 69 0.63
125 34 0.31
126 7 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (125 bp):
ACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTAT
Found at i:5111182 original size:224 final size:224
Alignment explanation
Indices: 5110792--5111243 Score: 904
Period size: 224 Copynumber: 2.0 Consensus size: 224
5110782 TAAATCCCTC
5110792 AAATATATTATCAATATTTTAATATTTCTAAAATATCAGTATTTTAATTGATTATATCTAATCTC
1 AAATATATTATCAATATTTTAATATTTCTAAAATATCAGTATTTTAATTGATTATATCTAATCTC
5110857 TTACGTGTTAAATCGTGAATATCAATACTTTTCGTCTAGGAAGTGTGCATCCTCTTATCCTATTT
66 TTACGTGTTAAATCGTGAATATCAATACTTTTCGTCTAGGAAGTGTGCATCCTCTTATCCTATTT
5110922 GATTATATATATGTTACATTAATAGTATCAATATCAATAAATTAGATTATGAGATACAATTCCAT
131 GATTATATATATGTTACATTAATAGTATCAATATCAATAAATTAGATTATGAGATACAATTCCAT
5110987 ATGAAGTTTAGTGTATTTATATTTAAAAA
196 ATGAAGTTTAGTGTATTTATATTTAAAAA
5111016 AAATATATTATCAATATTTTAATATTTCTAAAATATCAGTATTTTAATTGATTATATCTAATCTC
1 AAATATATTATCAATATTTTAATATTTCTAAAATATCAGTATTTTAATTGATTATATCTAATCTC
5111081 TTACGTGTTAAATCGTGAATATCAATACTTTTCGTCTAGGAAGTGTGCATCCTCTTATCCTATTT
66 TTACGTGTTAAATCGTGAATATCAATACTTTTCGTCTAGGAAGTGTGCATCCTCTTATCCTATTT
5111146 GATTATATATATGTTACATTAATAGTATCAATATCAATAAATTAGATTATGAGATACAATTCCAT
131 GATTATATATATGTTACATTAATAGTATCAATATCAATAAATTAGATTATGAGATACAATTCCAT
5111211 ATGAAGTTTAGTGTATTTATATTTAAAAA
196 ATGAAGTTTAGTGTATTTATATTTAAAAA
5111240 AAAT
1 AAAT
5111244 TGAATAATAT
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 228 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (224 bp):
AAATATATTATCAATATTTTAATATTTCTAAAATATCAGTATTTTAATTGATTATATCTAATCTC
TTACGTGTTAAATCGTGAATATCAATACTTTTCGTCTAGGAAGTGTGCATCCTCTTATCCTATTT
GATTATATATATGTTACATTAATAGTATCAATATCAATAAATTAGATTATGAGATACAATTCCAT
ATGAAGTTTAGTGTATTTATATTTAAAAA
Found at i:5115410 original size:17 final size:17
Alignment explanation
Indices: 5115350--5115410 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 17
5115340 TTATAATTAA
*
5115350 ATAAATAATTAAAAAGTTC
1 ATAAAT-ATTAAAAA-TTT
5115369 ATAAA-ATTAATAAATTT
1 ATAAATATTAA-AAATTT
5115386 ATAAAAATATTAAAAATTT
1 AT--AAATATTAAAAATTT
5115405 ATAAAT
1 ATAAAT
5115411 TGATTTAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
17 13 0.35
18 3 0.08
19 16 0.43
20 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAATATTAAAAATTT
Found at i:5120403 original size:23 final size:22
Alignment explanation
Indices: 5120373--5120443 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
5120363 ACCACACCAG
*
5120373 TAGGCACCGAAGTGCTTAAACAA
1 TAGGCACCGAAGTG-TTGAACAA
* * *
5120396 TAGGCACCAAAGTGTTGAATAG
1 TAGGCACCGAAGTGTTGAACAA
*
5120418 TAGGCACCGAAATGTTGAACAA
1 TAGGCACCGAAGTGTTGAACAA
5120440 TAGG
1 TAGG
5120444 TATCGTAGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 27 0.68
23 13 0.32
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (22 bp):
TAGGCACCGAAGTGTTGAACAA
Found at i:5120485 original size:20 final size:21
Alignment explanation
Indices: 5120445--5120497 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
5120435 AACAATAGGT
* *
5120445 ATCGTAGTGCAAGTCAGTGGC
1 ATCGAAGTGCAAATCAGTGGC
5120466 ATCGAAGTGCAAAT-AGTGGC
1 ATCGAAGTGCAAATCAGTGGC
*
5120486 ACCGAAGTGCAA
1 ATCGAAGTGCAA
5120498 TCCCTTACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (21 bp):
ATCGAAGTGCAAATCAGTGGC
Found at i:5123605 original size:7 final size:7
Alignment explanation
Indices: 5123593--5123617 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5123583 ACTTCTGCTC
5123593 TTTTTCT
1 TTTTTCT
5123600 TTTTTCT
1 TTTTTCT
5123607 TTTTTCT
1 TTTTTCT
5123614 TTTT
1 TTTT
5123618 ATTATAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:5126005 original size:30 final size:30
Alignment explanation
Indices: 5125969--5126031 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
5125959 ATAAAGCGTG
5125969 GTATTGTAATTACTTTCGAAAGAATATCAT
1 GTATTGTAATTACTTTCGAAAGAATATCAT
5125999 GTATTGTAATTACTTTCGAAAGAATATCAT
1 GTATTGTAATTACTTTCGAAAGAATATCAT
5126029 GTA
1 GTA
5126032 AAACTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (30 bp):
GTATTGTAATTACTTTCGAAAGAATATCAT
Found at i:5136845 original size:19 final size:19
Alignment explanation
Indices: 5136821--5136859 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5136811 TTTGAATTAC
5136821 TCATGAA-AAATATAAGTAT
1 TCATGAAGAAATATAA-TAT
5136840 TCATGAAGAAATATAATAT
1 TCATGAAGAAATATAATAT
5136859 T
1 T
5136860 TTTTAATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
TCATGAAGAAATATAATAT
Found at i:5137818 original size:85 final size:86
Alignment explanation
Indices: 5137717--5137888 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
5137707 ACTAATTGAA
5137717 TGAATTAAAAATTAATAGTTTAATCAGTCCAACTACCAATCCGGTTATAAAAATATACATTAATG
1 TGAATTAAAAATTAATAGTTTAATCAGTCCAACTACCAATCCGGTTATAAAAATATACATTAATG
5137782 TAGTTAATTAGTTAATTTATG
66 TAGTTAATTAGTTAATTTATG
5137803 TGAATT-AAAATTAATAGTTTAATCAGTCCAACTACCAATCCGGTTATAAAAATATACATTAATG
1 TGAATTAAAAATTAATAGTTTAATCAGTCCAACTACCAATCCGGTTATAAAAATATACATTAATG
5137867 TAGTTAATTAGTTAATTTATG
66 TAGTTAATTAGTTAATTTATG
5137888 T
1 T
5137889 TATAGTTAAG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 80 0.93
86 6 0.07
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (86 bp):
TGAATTAAAAATTAATAGTTTAATCAGTCCAACTACCAATCCGGTTATAAAAATATACATTAATG
TAGTTAATTAGTTAATTTATG
Found at i:5139877 original size:20 final size:20
Alignment explanation
Indices: 5139825--5139885 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
5139815 AAAGAAAAAT
* *
5139825 TTTAA-TATTTAATTCTTAA
1 TTTAATTATTAAAATCTTAA
5139844 TTT--TTATTTGAAAATCTTAA
1 TTTAATTA-TT-AAAATCTTAA
*
5139864 TTTAATTATTAAAATCATAA
1 TTTAATTATTAAAATCTTAA
5139884 TT
1 TT
5139886 ATTTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 22 0.65
21 2 0.06
22 3 0.09
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTAATTATTAAAATCTTAA
Found at i:5163517 original size:52 final size:51
Alignment explanation
Indices: 5163455--5163554 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 51
5163445 AAAGGATGCA
5163455 AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGGTGTCATTCTCTCTGCG
1 AGCACCTATGAATTGGTTGATTTATTTAGGCTGT-GTGTCATTCTCTCTGCG
*
5163507 AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGTGTCGTTCTCTCT
1 AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGTGTCATTCTCTCT
5163555 CTCACTCTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 13 0.28
52 34 0.72
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (51 bp):
AGCACCTATGAATTGGTTGATTTATTTAGGCTGTGTGTCATTCTCTCTGCG
Found at i:5169498 original size:202 final size:202
Alignment explanation
Indices: 5169152--5169759 Score: 1126
Period size: 202 Copynumber: 3.0 Consensus size: 202
5169142 CATTACCTTT
5169152 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
1 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
*
5169217 TAATTTGTCAAAATTTGATCCTTATACTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
66 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
5169282 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
131 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
5169347 TCGGAAA
196 TCGGAAA
*
5169354 TTTAGGTTTAATTATGAATTCCGTCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
1 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
5169419 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
66 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
5169484 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
131 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
5169549 TCGGAAA
196 TCGGAAA
* * *
5169556 TTTAGGTTTAATTATGAATTCCATTCCTCTACTTCACAAAAACTAATATGTTAGCCCATCTACTT
1 TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
* *
5169621 TAATTTGTCAAAATTTGATCCTTATGCTTCACGGAAATGTCCAATTAAAGAATATTGCTAAACAT
66 TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
* * *
5169686 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATACGTAAATAATTAGAAAAAA
131 TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
5169751 TCGGAAA
196 TCGGAAA
5169758 TT
1 TT
5169760 CAACAATTTA
Statistics
Matches: 395, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 395 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (202 bp):
TTTAGGTTTAATTATGAATTCCATCCCTCTACTTTACAAAAACTAATATGTTAGCCCCTCTACTT
TAATTTGTCAAAATTTGATCCTTATGCTTTACGGAAATGTCCAATTAAAGAATATTGCTAAACCT
TACTGTTAAAAAGTTGACATAGAAATTAACAGTTCAATGATTTATATGCAAATAATTAGCAAAAA
TCGGAAA
Found at i:5174014 original size:82 final size:83
Alignment explanation
Indices: 5173914--5174077 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 83
5173904 AATAACACAT
5173914 GAAATATGTACGATATTAAAATAAAAATTAGATTAAATTATGGGTAGAATGAAATTTAAATACAT
1 GAAATATGTACGATATTAAAATAAAAATTAGATTAAATTATGGGTAGAATGAAATTTAAATACAT
5173979 CAGATAAATAATATTAAG
66 CAGATAAATAATATTAAG
5173997 GAAATATGT-CGATATTAAAATAAAAATTAGATTAAATTATGGGTAGAATGAAATTTAAATACAT
1 GAAATATGTACGATATTAAAATAAAAATTAGATTAAATTATGGGTAGAATGAAATTTAAATACAT
5174061 CAGATAAATAATATTAA
66 CAGATAAATAATATTAA
5174078 ATGTACTAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 72 0.89
83 9 0.11
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.32
Consensus pattern (83 bp):
GAAATATGTACGATATTAAAATAAAAATTAGATTAAATTATGGGTAGAATGAAATTTAAATACAT
CAGATAAATAATATTAAG
Found at i:5185099 original size:19 final size:20
Alignment explanation
Indices: 5185057--5185102 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
5185047 ATCCACTAAT
*
5185057 TTTAGTTAATTATGATTAAAG
1 TTTAATTAATTA-GATTAAAG
*
5185078 TTTAATTAATTA-ATTAAGG
1 TTTAATTAATTAGATTAAAG
5185097 TTTAAT
1 TTTAAT
5185103 ACAAGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
21 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTAATTAATTAGATTAAAG
Found at i:5188562 original size:27 final size:27
Alignment explanation
Indices: 5188532--5188584 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
5188522 AATGTCAAGT
5188532 GTATGTTTTAATGATATACTTGAATTG
1 GTATGTTTTAATGATATACTTGAATTG
5188559 GTATGTTTTAATGATATACTTGAATT
1 GTATGTTTTAATGATATACTTGAATT
5188585 ATGAGATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (27 bp):
GTATGTTTTAATGATATACTTGAATTG
Found at i:5189818 original size:214 final size:216
Alignment explanation
Indices: 5189432--5189824 Score: 646
Period size: 214 Copynumber: 1.8 Consensus size: 216
5189422 ATGCACTCAA
* * *
5189432 CATCACATTACATCTTTAACTCAATGCATTTCGATTTTGTATACTAGTCTTTCAAATATTGTGGT
1 CATCACATTACATCTTTAACTCAATGCACTCCAATTTTGTATACTAGTCTTTCAAATATTGTGGT
*
5189497 TGGCAATGCCTTGGTAAAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTAT
66 TGACAATGCCTTGGT-AAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTAT
* *
5189562 ATCGCCTTTCTTCTCAAAATCATGAGTGAAGAATAATTTTGGTGAAATATTGATTAAAGGAAAAA
130 ATCGCCTTTCTTCTCAAAATCATGAGTGAAAAATAATTTTGGTAAAATATTGATTAAAGGAAAAA
5189627 AGTATAACATGTCTTAGACTCT
195 AGTATAACATGTCTTAGACTCT
* * *
5189649 CATCACATTACATCTTTAAGTCAATGCACTCCAATTTTGTATACTAGTCTTTCGAATGTTGTGGT
1 CATCACATTACATCTTTAACTCAATGCACTCCAATTTTGTATACTAGTCTTTCAAATATTGTGGT
*
5189714 TGACAATGCCTTGGT-AAAAATATTTGT-AAATTATCACTAGAATGAATTTGTTGAACTTCTATA
66 TGACAATGCCTTGGTAAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTATA
* * *
5189777 TTGTCTTTCTTCTCGAAATCATGAGTGAAAAATAATTTTGGTAAAATA
131 TCGCCTTTCTTCTCAAAATCATGAGTGAAAAATAATTTTGGTAAAATA
5189825 AGTTTCTTCT
Statistics
Matches: 163, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
214 79 0.48
215 11 0.07
217 73 0.45
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (216 bp):
CATCACATTACATCTTTAACTCAATGCACTCCAATTTTGTATACTAGTCTTTCAAATATTGTGGT
TGACAATGCCTTGGTAAAAAAGATTTGTCAAATTATCACTAGAATGAATTTGTTGAACTTCTATA
TCGCCTTTCTTCTCAAAATCATGAGTGAAAAATAATTTTGGTAAAATATTGATTAAAGGAAAAAA
GTATAACATGTCTTAGACTCT
Found at i:5190264 original size:95 final size:95
Alignment explanation
Indices: 5190101--5190291 Score: 337
Period size: 95 Copynumber: 2.0 Consensus size: 95
5190091 AAGAATTAAT
5190101 TCTTTCTAACAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
1 TCTTTCTAACAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
*
5190166 AGTATCTTAGCCTTGTTAAATAAGGATGTG
66 AGTATCTTAGCATTGTTAAATAAGGATGTG
* * * *
5190196 TCTTTCTAATAAGCTTACAACAATTAACATGACTCGAGTCGGTTACTTTTCATTGCACATTTATT
1 TCTTTCTAACAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
5190261 AGTATCTTAGCATTGTTAAATAAGGATGTG
66 AGTATCTTAGCATTGTTAAATAAGGATGTG
5190291 T
1 T
5190292 TGGGTTTAGC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (95 bp):
TCTTTCTAACAAGCTTACAACAATTAACATGACTCAAATCGGTTACTTTTCATTGCACATCTATT
AGTATCTTAGCATTGTTAAATAAGGATGTG
Found at i:5194964 original size:6 final size:6
Alignment explanation
Indices: 5194953--5194977 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5194943 GAAAAGAAGA
5194953 GGCTGT GGCTGT GGCTGT GGCTGT G
1 GGCTGT GGCTGT GGCTGT GGCTGT G
5194978 AGAAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGCTGT
Found at i:5200212 original size:2 final size:2
Alignment explanation
Indices: 5200205--5200237 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5200195 CCTATTTTGC
5200205 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5200238 TAAAAGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5202033 original size:44 final size:45
Alignment explanation
Indices: 5201969--5202082 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 45
5201959 TTTACCGTCA
* * * *
5201969 ATGGCTATGGACACACAACAAAATAC-CGCAGATGGAATCTGCCT
1 ATGGCTGTGGATACACAACAAAATACGCGCAGATGGAATCTACAT
* * *
5202013 TTGGCTGTGGATACACAACAAGA-CCGTCGCAGATGGAATCTACAT
1 ATGGCTGTGGATACACAACAAAATACG-CGCAGATGGAATCTACAT
*
5202058 ATGGTTGT-GAGTACACAACAAAATA
1 ATGGCTGTGGA-TACACAACAAAATA
5202083 AATGCAGATA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.38
45 33 0.60
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (45 bp):
ATGGCTGTGGATACACAACAAAATACGCGCAGATGGAATCTACAT
Found at i:5203870 original size:7 final size:7
Alignment explanation
Indices: 5203858--5203882 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5203848 GATAGGGAAA
5203858 GGGCGTT
1 GGGCGTT
5203865 GGGCGTT
1 GGGCGTT
5203872 GGGCGTT
1 GGGCGTT
5203879 GGGC
1 GGGC
5203883 AGTGGGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.60, T:0.24
Consensus pattern (7 bp):
GGGCGTT
Found at i:5204563 original size:28 final size:28
Alignment explanation
Indices: 5204510--5204567 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
5204500 TATTAGTGTG
* *
5204510 TTTCTGTTTTGGTCGACTAAGTTTAAGAT
1 TTTCTATTTTAGTCGACTAAGTTTAA-AT
5204539 TTTCTATTTTAGTC-ACTAA-TGTTAAAT
1 TTTCTATTTTAGTCGACTAAGT-TTAAAT
5204566 TT
1 TT
5204568 AATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 12 0.46
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (28 bp):
TTTCTATTTTAGTCGACTAAGTTTAAAT
Found at i:5204881 original size:20 final size:20
Alignment explanation
Indices: 5204858--5204910 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
5204848 ATTTATTTAT
5204858 TAAAATAAAAATTTTATAAA
1 TAAAATAAAAATTTTATAAA
* *
5204878 TAAAATAATAATCTTATAAA
1 TAAAATAAAAATTTTATAAA
5204898 T-AAATAAAAATTT
1 TAAAATAAAAATTT
5204911 AAGGGGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAAAAATTTTATAAA
Found at i:5206108 original size:18 final size:18
Alignment explanation
Indices: 5206060--5206111 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
5206050 AATTTATGGA
5206060 TTTTTTTTAATATTAATGTTG
1 TTTTTTTT-ATA-T-ATGTTG
**
5206081 TTTTAATTATATATGTTG
1 TTTTTTTTATATATGTTG
5206099 TTTTTTTTATATA
1 TTTTTTTTATATA
5206112 ATACTTAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 17 0.63
19 1 0.04
20 3 0.11
21 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTTTTTATATATGTTG
Found at i:5206961 original size:16 final size:16
Alignment explanation
Indices: 5206940--5206970 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5206930 ATTTAAATTA
*
5206940 AATTAATTAATTTTTC
1 AATTAAATAATTTTTC
5206956 AATTAAATAATTTTT
1 AATTAAATAATTTTT
5206971 TTTCAATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTAAATAATTTTTC
Found at i:5206961 original size:21 final size:19
Alignment explanation
Indices: 5206935--5206977 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
5206925 TATTAATTTA
5206935 AATTAAATTAATTAATTTTTC
1 AATTAAA-TAATT-ATTTTTC
*
5206956 AATTAAATAATTTTTTTTC
1 AATTAAATAATTATTTTTC
5206975 AAT
1 AAT
5206978 CCAATTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAAATAATTATTTTTC
Found at i:5208750 original size:39 final size:39
Alignment explanation
Indices: 5208711--5208954 Score: 362
Period size: 39 Copynumber: 6.3 Consensus size: 39
5208701 AATCTTATTT
* * *
5208711 AGTATAACCAATGGATAATGCTCATTTGAGCAAGCATTT
1 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
* * * *
5208750 AGTATAATCAGTGAATATTACTCGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
5208789 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
**
5208828 AGTATAATCAGTGGATAATGCTTGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
* * * *
5208867 AGTATAATTAGTGGATAATGCTCGTTTAAGCAAGCATTT
1 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
*
5208906 AGTATAATCAGTGCATAATGCTCATTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
5208945 AGTATAATCA
1 AGTATAATCA
5208955 ATATTCCATT
Statistics
Matches: 183, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 183 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (39 bp):
AGTATAATCAGTGGATAATGCTCATTTGAGCAAGCATTC
Found at i:5211661 original size:38 final size:40
Alignment explanation
Indices: 5211618--5211720 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
5211608 ATATCTATCT
* *
5211618 ATATAAACATTTCTTATAAACACTTTA-TA-AT-TATTTCC
1 ATATAAACAATTCATATAAACA-TTTAGTATATCTATTTCC
* *
5211656 ATATAACCAATTCATATAATCATTTAGTATATCTATTTCC
1 ATATAAACAATTCATATAAACATTTAGTATATCTATTTCC
* *
5211696 ATATAACCAATTCATATAATCATTT
1 ATATAAACAATTCATATAAACATTT
5211721 CATATATTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 4 0.07
38 20 0.34
39 2 0.03
40 32 0.55
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.43
Consensus pattern (40 bp):
ATATAAACAATTCATATAAACATTTAGTATATCTATTTCC
Found at i:5211731 original size:13 final size:13
Alignment explanation
Indices: 5211643--5211790 Score: 120
Period size: 13 Copynumber: 11.2 Consensus size: 13
5211633 ATAAACACTT
*
5211643 TATAATTATTTCCA
1 TATAATCATTT-CA
* *
5211657 TATAACCAATTCA
1 TATAATCATTTCA
5211670 TATAATCATTT-A
1 TATAATCATTTCA
5211682 GTAT-ATCTATTTCCA
1 -TATAATC-ATTT-CA
* *
5211697 TATAACCAATTCA
1 TATAATCATTTCA
5211710 TATAATCATTTCA
1 TATAATCATTTCA
* *
5211723 TATATTCATTTTA
1 TATAATCATTTCA
* *
5211736 TATATTCATTTTA
1 TATAATCATTTCA
* *
5211749 TATAACCATTTCG
1 TATAATCATTTCA
* *
5211762 TATAATCGTCTCA
1 TATAATCATTTCA
*
5211775 TATAACCATTTCA
1 TATAATCATTTCA
5211788 TAT
1 TAT
5211791 TACACATTTA
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
12 4 0.04
13 86 0.80
14 14 0.13
15 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (13 bp):
TATAATCATTTCA
Found at i:5211956 original size:135 final size:135
Alignment explanation
Indices: 5211804--5212075 Score: 508
Period size: 135 Copynumber: 2.0 Consensus size: 135
5211794 ACATTTAACA
* *
5211804 CAAAATCATTTTGTAAATTACATTTCGTTTAAATAATTCATATTAGTCTCTCATTCCATATAACT
1 CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
5211869 GTTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
66 GTTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
5211934 ACAAT
131 ACAAT
5211939 CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
1 CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
* *
5212004 GTTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCTTGTCAACG
66 GTTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
5212069 ACAAT
131 ACAAT
5212074 CA
1 CA
5212076 TTCAACAAGT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 133 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.40
Consensus pattern (135 bp):
CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
GTTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
ACAAT
Found at i:5235030 original size:24 final size:24
Alignment explanation
Indices: 5234983--5235031 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5234973 GATGAAATGT
* *
5234983 TTAAAGAAGATGGAAGGTTAAAGG
1 TTAAAGAAGATGAAAGGTGAAAGG
*
5235007 TTAAAGAAGATGAAAGGTGGAAGG
1 TTAAAGAAGATGAAAGGTGAAAGG
5235031 T
1 T
5235032 CAAGGGAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (24 bp):
TTAAAGAAGATGAAAGGTGAAAGG
Found at i:5239646 original size:27 final size:27
Alignment explanation
Indices: 5239592--5239655 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
5239582 CGACTGGGAA
*
5239592 GCGCCAATGGTGGTGCCTACCTGGGAG
1 GCGCCAATGGTGGTGCCTACCTGAGAG
*
5239619 GCGCCAATGGTGGTGCC-ATTCTGAGAG
1 GCGCCAATGGTGGTGCCTA-CCTGAGAG
5239646 GCGCCAATGG
1 GCGCCAATGG
5239656 GCCGGGCCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCGCCAATGGTGGTGCCTACCTGAGAG
Found at i:5239898 original size:19 final size:19
Alignment explanation
Indices: 5239876--5239913 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5239866 AATTTAATTT
*
5239876 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
5239895 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
5239914 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:5240564 original size:27 final size:27
Alignment explanation
Indices: 5240492--5240553 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
5240482 GGTCTAGTAA
*
5240492 TGGCGCCTCTCTATAAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
5240519 TGGCGCCTCTCTATGAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
5240546 TGGCGCCT
1 TGGCGCCT
5240554 ACCTGATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.34, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGCGCCTCTCTATGAGGCACCTTCAT
Found at i:5246024 original size:61 final size:58
Alignment explanation
Indices: 5245902--5246030 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 58
5245892 ATAAAGTATT
* * * *
5245902 AAAAATAAATATTAAAAGAAAAATACATGACAATTTTTTAAGTCTGCTTATAGAATTAA
1 AAAAATAAATATTAAAAAAAAAATACATGAAAATTTTTTAAGACTGCTCATAGAA-TAA
* * *
5245961 AAAATTAAATATTTAAAAAAAGAAATACGTGAAAATTTTTTAAGACTGCTCGT-GAAATAA
1 AAAAATAAATA-TTAAAAAAA-AAATACATGAAAATTTTTTAAGACTGCTCATAG-AATAA
5246021 AAAAA-AAATA
1 AAAAATAAATA
5246031 CACTGCCCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 15 0.25
60 16 0.27
61 28 0.47
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.29
Consensus pattern (58 bp):
AAAAATAAATATTAAAAAAAAAATACATGAAAATTTTTTAAGACTGCTCATAGAATAA
Found at i:5261036 original size:19 final size:20
Alignment explanation
Indices: 5261005--5261059 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
5260995 TTTTATACTT
*
5261005 AAAATCATTAAAAATAATA-
1 AAAATCATAAAAAATAATAG
* *
5261024 AAAATTATAAAAAATTATAG
1 AAAATCATAAAAAATAATAG
*
5261044 ATAATCATAAAAAATA
1 AAAATCATAAAAAATA
5261060 TNNNNNNNNN
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAATCATAAAAAATAATAG
Found at i:5261663 original size:19 final size:16
Alignment explanation
Indices: 5261641--5261688 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
5261631 TTATAATCAT
5261641 TTTTATAACTTTTTTGCA
1 TTTTATAA-TTTTTTG-A
5261659 CTTTTATATATTTTTTGA
1 -TTTTATA-ATTTTTTGA
5261677 TTTTATAATTTT
1 TTTTATAATTTT
5261689 CTATAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
18 1 0.04
19 14 0.50
20 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTATAATTTTTTGA
Found at i:5264410 original size:10 final size:11
Alignment explanation
Indices: 5264395--5264423 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
5264385 CTCTCATTTC
5264395 TTTATTTTA-T
1 TTTATTTTATT
5264405 TTTATTTTATT
1 TTTATTTTATT
5264416 TTTATTTT
1 TTTATTTT
5264424 CAGCAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:5277715 original size:21 final size:20
Alignment explanation
Indices: 5277655--5277715 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
5277645 TCATCAGCTC
*
5277655 CATCATCATCTTTTTCATCTG
1 CATCATCATCCTTTT-ATCTG
* *
5277676 CATTATCATCCTCTTTATCTT
1 CATCATCATCCT-TTTATCTG
5277697 CATCATCATCCTTTGTATC
1 CATCATCATCCTTT-TATC
5277716 ACTGACATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.20, C:0.30, G:0.03, T:0.48
Consensus pattern (20 bp):
CATCATCATCCTTTTATCTG
Found at i:5281483 original size:18 final size:19
Alignment explanation
Indices: 5281457--5281492 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5281447 TTCTTCTTCA
*
5281457 TTTTCTCTTA-TTTATTTG
1 TTTTATCTTATTTTATTTG
5281475 TTTTATCTTATTTTATTT
1 TTTTATCTTATTTTATTT
5281493 TACTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTATCTTATTTTATTTG
Found at i:5282471 original size:13 final size:14
Alignment explanation
Indices: 5282453--5282481 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5282443 CATATGGTTG
5282453 TTTTTTATT-TTTA
1 TTTTTTATTATTTA
5282466 TTTTTTATTATTTA
1 TTTTTTATTATTTA
5282480 TT
1 TT
5282482 CGAGATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTATTATTTA
Found at i:5282972 original size:16 final size:16
Alignment explanation
Indices: 5282940--5282973 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5282930 ATATCTTTTT
* *
5282940 AAATTTCAAACACATA
1 AAATTTCAAAAAAATA
5282956 AAATTTCAAAAAAATA
1 AAATTTCAAAAAAATA
5282972 AA
1 AA
5282974 GGCAATACTC
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:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAAAAAATA
Found at i:5286204 original size:31 final size:31
Alignment explanation
Indices: 5286166--5286234 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
5286156 CTTAACTGCC
5286166 CAGTGACTTAAATAAAAACTTTTGAATAATT
1 CAGTGACTTAAATAAAAACTTTTGAATAATT
* *
5286197 CAGTGACTTAAATGAAAACTTTTGAATAGTT
1 CAGTGACTTAAATAAAAACTTTTGAATAATT
*
5286228 AAGTGAC
1 CAGTGAC
5286235 CAAATTGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTTTGAATAATT
Found at i:5291856 original size:88 final size:89
Alignment explanation
Indices: 5291706--5291882 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 89
5291696 GGATGACAAA
5291706 TTTAGGGTAGTTCTTCATATGATATTTAAATAATTTAATATAATAGTACATGAAGTATAAATTTT
1 TTTAGGGTAGTTCTTCATATGATATTTAAATAATTTAATATAATAGTACATGAAGTATAAATTTT
5291771 ATTACTGTTTTAAGTAATTAATAT
66 ATTACTGTTTTAAGTAATTAATAT
5291795 TTTAGGGTAG-TCTTCATATGATATTTAAATAATTTAATATAATAGTACATGAAGTATAAATTTT
1 TTTAGGGTAGTTCTTCATATGATATTTAAATAATTTAATATAATAGTACATGAAGTATAAATTTT
5291859 ATTACTGTTTTAAGTAATTAATAT
66 ATTACTGTTTTAAGTAATTAATAT
5291883 AAATTATTTG
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 78 0.89
89 10 0.11
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (89 bp):
TTTAGGGTAGTTCTTCATATGATATTTAAATAATTTAATATAATAGTACATGAAGTATAAATTTT
ATTACTGTTTTAAGTAATTAATAT
Found at i:5299681 original size:6 final size:7
Alignment explanation
Indices: 5299663--5299696 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
5299653 AATACAAATT
*
5299663 CAAAAAT
1 CAAAAAC
5299670 CAAAAAC
1 CAAAAAC
5299677 CAAAAAC
1 CAAAAAC
5299684 CAAAAAC
1 CAAAAAC
5299691 CAAAAA
1 CAAAAA
5299697 ATTAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.74, C:0.24, G:0.00, T:0.03
Consensus pattern (7 bp):
CAAAAAC
Found at i:5300440 original size:22 final size:22
Alignment explanation
Indices: 5300406--5300449 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
5300396 GATATTTTGA
5300406 TGTTTTTATTTTTTTAACCTTT
1 TGTTTTTATTTTTTTAACCTTT
5300428 TGTTATTTATTTTTTTAACCTT
1 TGTT-TTTATTTTTTTAACCTT
5300450 AATCAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (22 bp):
TGTTTTTATTTTTTTAACCTTT
Found at i:5302090 original size:26 final size:26
Alignment explanation
Indices: 5302060--5302115 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
5302050 TCTTATCTCT
5302060 ATTTTACCTCC-AACAAAATTTTGACG
1 ATTTTACC-CCTAACAAAATTTTGACG
** *
5302086 ATTTTACCCCTAGTAAAATTTTGACT
1 ATTTTACCCCTAACAAAATTTTGACG
5302112 ATTT
1 ATTT
5302116 CAGCCCTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:5302122 original size:26 final size:26
Alignment explanation
Indices: 5302074--5302132 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
5302064 TACCTCCAAC
*
5302074 AAAATTTTGACGATTTTACCCCTAGT
1 AAAATTTTGACGATTTCACCCCTAGT
* *
5302100 AAAATTTTGACTATTTCAGCCCTAGT
1 AAAATTTTGACGATTTCACCCCTAGT
5302126 AAAATTT
1 AAAATTT
5302133 CAAGAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (26 bp):
AAAATTTTGACGATTTCACCCCTAGT
Found at i:5312101 original size:50 final size:50
Alignment explanation
Indices: 5312047--5312783 Score: 303
Period size: 50 Copynumber: 14.8 Consensus size: 50
5312037 ACAGTGGAGC
* * * **
5312047 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
** * * * * * * *
5312097 AGATTGAAGCCGCAATGGTGAATTTTACTTCCCT-AGCGA-TGTAGTGGATCA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGA-C-ATTGCAATGGA-AA
* * **
5312148 A-ATTGAAGCTACGACGGCGAATCCTGCTTCTCC-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTC-CCTGACATTGCAATGGAAA
* * * * **** * **
5312197 AGATTGAAG-TCGCAACGGTGAATCTTACTTCCTTGGTGGTGCAGTGGAGC
1 AGATTGAAGCT-ACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * * * **
5312247 TGATTGAAGCTACAACAGTGAATCGTG-TTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
** * * * **** * **
5312296 AGATTGAAGCCGCAACGGCAAATCTTACTTCCTTGGTGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * ** * *
5312346 AGATTAAAGCTACGACGGCGAATCTTGCTTTGCTGAAATTGCAAAT-TAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC-AATGGAAA
* * * ** * * *
5312396 ATATTGAAGCCACAACGGCGAATCTTACTTCTATGGCGA-TGCAGTGGAGA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGAC-ATTGCAATGGAAA
* * * **
5312446 AGATTAAAGCTACAAAGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * ** * * **
5312496 AGATTGAAG-TCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAGC
1 AGATTGAAGCT-ACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * **
5312546 AGATTAAAGCCACAATGG-GAATCTTG-TT-CCTCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCT-GACATTGCAATGGAAA
* * ** * * * ** **
5312594 ATATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTAAAATGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * ** **
5312644 AGATTAAAGCTACAACGGTGAATCTTGCTTCCCTGGTATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* ** * * ** * **
5312694 ATATTGAAGCCGCAACGACGAATCTTACTTCCCTGACGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * *
5312744 AGATTAAAGCTACAATGGCGAATCTTG-TTCCCCGACATTG
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTG
5312784 TAGTCAATTT
Statistics
Matches: 463, Mismatches: 203, Indels: 43
0.65 0.29 0.06
Matches are distributed among these distances:
47 3 0.01
48 24 0.05
49 63 0.14
50 361 0.78
51 12 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
Found at i:5312197 original size:100 final size:100
Alignment explanation
Indices: 5312024--5312783 Score: 918
Period size: 100 Copynumber: 7.6 Consensus size: 100
5312014 ATGAAGTTAT
* * *
5312024 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * *
5312089 AATTAAAAAGATTGAAGCCGCAATGGTGAATTTTA
66 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
* * * * * * * * *
5312124 CTTCCCTAGCGATGTAGTGGATCAAATTGAAGCTACGACGGCGAATCCTGCTTCTCCGACATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* *
5312189 AATTAAAAAGATTGAAGTCGCAACGGTGAATCTTA
66 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
* * * * * * *
5312224 CTTCCTTGGTGGTGCAGTGGAGCTGATTGAAGCTACAACAGTGAATCGTG-TTCCCCGACATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
*
5312288 AATTAAAAAGATTGAAGCCGCAACGGCAAATCTTA
66 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
* * * ** * *
5312323 CTTCCTTGGTGGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTTGCTGAAATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* *
5312388 AAATT-AAAATATTGAAGCCACAACGGCGAATCTTA
66 -AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
** * * *
5312423 CTTCTATGGCGATGCAGTGGAGAAGATTAAAGCTACAAAGGCGAATCTTGCTTCCCCGACATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* *
5312488 AATTTAAAAGATTGAAGTCGCAACGGCGAATCTTA
66 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
* * * *
5312523 CTTCCCTGGCGGTGTAGTGGAGCAGATTAAAGCCACAATGG-GAATCTTG-TTCCTCGACATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * *
5312586 AATTAAAAATATTGAAGCCACAACGGCGAATCTCA
66 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
* * ** * * * **
5312621 CTTCTCTGGCAGTAAAATGGAGCAGATTAAAGCTACAACGGTGAATCTTGCTTCCCTGGTATTGC
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * *
5312686 AATTTAAAATATTGAAGCCGCAACGACGAATCTTA
66 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
* *
5312721 CTTCCCTGACGGTGCAGTGGAGCAGATTAAAGCTACAATGGCGAATCTTG-TTCCCCGACATTG
1 CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
5312784 TAGTCAATTT
Statistics
Matches: 560, Mismatches: 95, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
98 77 0.14
99 119 0.21
100 360 0.64
101 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (100 bp):
CTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTA
Found at i:5314715 original size:3 final size:3
Alignment explanation
Indices: 5314707--5314732 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5314697 CATTTATGTC
5314707 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
5314733 CATTTCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:5315098 original size:26 final size:26
Alignment explanation
Indices: 5315063--5315112 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
5315053 ATGTTTCGCG
5315063 TTTTAGAAATTCGAGAAATTGTACAT
1 TTTTAGAAATTCGAGAAATTGTACAT
5315089 TTTTAGAAATTCGAGAAATTGTAC
1 TTTTAGAAATTCGAGAAATTGTAC
5315113 CCTAACTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (26 bp):
TTTTAGAAATTCGAGAAATTGTACAT
Found at i:5318264 original size:11 final size:11
Alignment explanation
Indices: 5318227--5318264 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
5318217 TCCATGGTTT
5318227 TTTTTTAA-AA
1 TTTTTTAATAA
*
5318237 TTATTTAATAA
1 TTTTTTAATAA
*
5318248 TATTTTAATAA
1 TTTTTTAATAA
5318259 TTTTTT
1 TTTTTT
5318265 CATGTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:5322430 original size:29 final size:29
Alignment explanation
Indices: 5322397--5322458 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
5322387 TTCTTTTAAC
5322397 AAAAA-TTAAAAATAATTCTAAATAA-TTCT
1 AAAAATTTAAAAAT-ATTCTAAA-AATTTCT
* *
5322426 AAAAATTTTAAAATATTTTAAAAATTTCT
1 AAAAATTTAAAAATATTCTAAAAATTTCT
5322455 AAAA
1 AAAA
5322459 TAATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 20 0.69
30 7 0.24
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAATTTAAAAATATTCTAAAAATTTCT
Found at i:5322439 original size:20 final size:21
Alignment explanation
Indices: 5322403--5322462 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
5322393 TAACAAAAAT
5322403 TAAAAATAATTCT-AAATAATTC
1 TAAAAAT--TTCTAAAATAATTC
*
5322425 TAAAAATTT-TAAAAT-ATTT
1 TAAAAATTTCTAAAATAATTC
5322444 TAAAAATTTCTAAAATAAT
1 TAAAAATTTCTAAAATAAT
5322463 AATTTTGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 13 0.38
20 12 0.35
21 2 0.06
22 7 0.21
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAATTTCTAAAATAATTC
Found at i:5322443 original size:10 final size:9
Alignment explanation
Indices: 5322410--5322458 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
5322400 AATTAAAAAT
*
5322410 AATTCTAAA
1 AATTTTAAA
*
5322419 TAATTCTAAA
1 -AATTTTAAA
5322429 AATTTTAAA
1 AATTTTAAA
5322438 ATATTTTAAA
1 A-ATTTTAAA
5322448 AATTTCTAAA
1 AATTT-TAAA
5322458 A
1 A
5322459 TAATAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 13 0.36
10 23 0.64
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTTTAAA
Found at i:5323476 original size:13 final size:14
Alignment explanation
Indices: 5323458--5323491 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5323448 TTAGGGTAAT
*
5323458 AAATAAAA-AGATA
1 AAATAAAACAAATA
5323471 AAATAAAACAAATA
1 AAATAAAACAAATA
5323485 AAATAAA
1 AAATAAA
5323492 CAGAAGAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (14 bp):
AAATAAAACAAATA
Found at i:5323590 original size:3 final size:3
Alignment explanation
Indices: 5323582--5323653 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
5323572 TAATCATATC
* * *
5323582 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATT ATT AT- ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * *
5323627 ATAA ATA ATG ATA ATG ATA ATG ATA AT
1 AT-A ATA ATA ATA ATA ATA ATA ATA AT
5323654 GACAAAGGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.03
3 52 0.88
4 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:5324865 original size:16 final size:16
Alignment explanation
Indices: 5324846--5324878 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5324836 GCAATTAAAA
5324846 TCATAAATTCAATCAT
1 TCATAAATTCAATCAT
*
5324862 TCATATATTCAATCAT
1 TCATAAATTCAATCAT
5324878 T
1 T
5324879 TTAATCTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (16 bp):
TCATAAATTCAATCAT
Found at i:5327826 original size:19 final size:19
Alignment explanation
Indices: 5327798--5327904 Score: 118
Period size: 19 Copynumber: 5.8 Consensus size: 19
5327788 AATTTTTGAG
5327798 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
5327817 GATATACAATCCTAGATAT
1 GATATGCAATCTTAGATAT
5327836 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5327855 GATATATGCAATCTTTGA-A-
1 G--ATATGCAATCTTAGATAT
5327874 GATAT----TCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5327889 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
5327905 AGATATGATT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
13 6 0.08
14 1 0.01
15 5 0.07
17 4 0.05
19 43 0.58
20 1 0.01
21 14 0.19
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5327888 original size:34 final size:32
Alignment explanation
Indices: 5327807--5327910 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 32
5327797 GGATATGCAA
* *
5327807 TCTTAGATATGATATACAATCCTAGATATGATAT
1 TCTTAGATATGATATGCAATCTTAGA-A-GATAT
*
5327841 GCAATCTTAGATATGATATATGCAATCTTTGAAGATAT
1 ----TCTTAGATATG--ATATGCAATCTTAGAAGATAT
*
5327879 TCTTAGATATGATATGTAATCTTAGAAGATAT
1 TCTTAGATATGATATGCAATCTTAGAAGATAT
5327911 GATTTTGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
32 19 0.32
34 11 0.19
38 16 0.27
39 1 0.02
40 12 0.20
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (32 bp):
TCTTAGATATGATATGCAATCTTAGAAGATAT
Found at i:5327911 original size:22 final size:23
Alignment explanation
Indices: 5327883--5327927 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
5327873 AGATATTCTT
5327883 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
5327905 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
5327928 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:5327937 original size:22 final size:23
Alignment explanation
Indices: 5327893--5327937 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5327883 AGATATGATA
*
5327893 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
5327916 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
5327938 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:5333554 original size:44 final size:42
Alignment explanation
Indices: 5333482--5333768 Score: 235
Period size: 44 Copynumber: 6.7 Consensus size: 42
5333472 GAAGATGGCA
*
5333482 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC--T
* *
5333526 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCT
* * * * * *
5333567 GATCTTATCTCCCTGAAGTTGTAG-AGAGCAGATCACA-TCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCT
* * * **
5333607 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AGCCT
** * *
5333650 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACCCAAGATGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCT
* *
5333696 AATCTTATCTCTCTGAAGCTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC--T
*
5333740 AATCCTATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
5333769 TGGGTTAAAA
Statistics
Matches: 193, Mismatches: 35, Indels: 30
0.75 0.14 0.12
Matches are distributed among these distances:
39 1 0.01
40 29 0.15
41 29 0.15
42 2 0.01
43 6 0.03
44 93 0.48
45 28 0.15
46 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCT
Found at i:5333760 original size:89 final size:82
Alignment explanation
Indices: 5333481--5333765 Score: 218
Period size: 89 Copynumber: 3.3 Consensus size: 82
5333471 TGAAGATGGC
* ** * * * *
5333481 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGT-GAGCAGACCACA-TC--GAATCTTATCT-CCTGAAGTT
*
5333546 GCAGTGGAGCGGATTAAAGCC-
61 GCAGTGGAGCAGATTAAAGCCA
* * * * * *
5333567 -GATCTTATCTCCCTGAAGTTGTAGAGAGCAGATCACATCTAGTCTTATCTCCTTGAAGTTGCAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGAGCAGACCACATCGAATCTTATCTCC-TGAAGTTGCAG
* **
5333631 TGGAGCAGACT-AAGTAA
65 TGGAGCAGATTAAAGCCA
*
5333648 ACAAGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACCCAAGATGGCGAATCTTATCTCTCTGA
1 A-AA-TCTTATCTC-CCTGAAGTTGCAGTGA-GCAGA-CC-ACAT--CGAATCTTATCTC-CTGA
*
5333712 AGCTGCAGTGGAGCAGATTAAAGCCA
57 AGTTGCAGTGGAGCAGATTAAAGCCA
*
5333738 ATAATCCTATCTCCCTGAAGTTGCAGTG
1 A-AATCTTATCTCCCTGAAGTTGCAGTG
5333766 GAGTGGGTTA
Statistics
Matches: 159, Mismatches: 26, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
80 5 0.03
81 29 0.18
83 3 0.02
84 31 0.19
85 26 0.16
86 1 0.01
87 3 0.02
89 52 0.33
90 9 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (82 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGAGCAGACCACATCGAATCTTATCTCCTGAAGTTGCAGT
GGAGCAGATTAAAGCCA
Found at i:5333946 original size:132 final size:132
Alignment explanation
Indices: 5333781--5334245 Score: 761
Period size: 132 Copynumber: 3.5 Consensus size: 132
5333771 GGTTAAAACC
* *
5333781 GATCTTATCTTCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
1 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
5333846 TAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAATAGTGGAATAGATTGAAGATTT
66 TAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAATAGTGGAATAGATTGAAGATTT
5333911 CA
131 CA
* * **
5333913 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGTTGATGGCGGATTTTACCTCCCTATGGTTA
1 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
* * * * *
5333978 TAGTAGAGTACATTAAAGCCAGTAATTCTACTTCCCTAGG-CAACAGTGGAATATATTGAAGATT
66 TAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCT-GGACAATAGTGGAATAGATTGAAGATT
5334042 TCA
130 TCA
* *
5334045 GATTTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
1 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
5334110 TAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAATAGTGGAATAGATTGAAGATTT
66 TAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAATAGTGGAATAGATTGAAGATTT
5334175 CA
131 CA
* * **
5334177 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGTTGATGGCGGATTTTACCTCCCTATGGTTA
1 GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
5334242 TAGT
66 TAGT
5334246 NNNNNNNNNN
Statistics
Matches: 303, Mismatches: 28, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
131 2 0.01
132 299 0.99
133 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
TAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGACAATAGTGGAATAGATTGAAGATTT
CA
Found at i:5343146 original size:13 final size:14
Alignment explanation
Indices: 5343121--5343151 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
5343111 GTAATGGACA
5343121 TTGGACATTTAATT
1 TTGGACATTTAATT
5343135 TTGGAC-TTTAATT
1 TTGGACATTTAATT
5343148 TTGG
1 TTGG
5343152 TGATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (14 bp):
TTGGACATTTAATT
Found at i:5347134 original size:50 final size:50
Alignment explanation
Indices: 5347036--5347203 Score: 239
Period size: 50 Copynumber: 3.3 Consensus size: 50
5347026 NNNNNNNNAA
* * * *
5347036 GTGAAGGCTACTATGTGTACCG-AAAAGCTTTAGTCACGTATGTAGTACTAT
1 GTGAAGGCTACTACGTGAACCGTAAAA-CTTGA-TCACGTGTGTAGTACTAT
* *
5347087 GTGAAGGCTACTACGTGAATCGTAAAACTTGATCACGTGTATAGTACTAT
1 GTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAT
* *
5347137 GTGAAGGCTATTACGTGAACCGTAAAAATTGATCACGTGTGTAGTACTAT
1 GTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAT
5347187 GTGAAGGCTACTACGTG
1 GTGAAGGCTACTACGTG
5347204 TATCGAATGA
Statistics
Matches: 105, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
50 78 0.74
51 23 0.22
52 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
GTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTAT
Found at i:5348964 original size:48 final size:47
Alignment explanation
Indices: 5348912--5349005 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
5348902 ACTCGTTACA
*
5348912 GCATAACAACCGTCAACTAGCCCCTCAATTATACTCGAACTTGTGACT
1 GCATAACAACCATCAACTAGCCCC-CAATTATACTCGAACTTGTGACT
*** * *
5348960 GCATAATGGCCATCAACTGGCCCCCAGTTATACTCGAACTTGTGAC
1 GCATAACAACCATCAACTAGCCCCCAATTATACTCGAACTTGTGAC
5349006 CACATAACGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 21 0.52
48 19 0.47
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (47 bp):
GCATAACAACCATCAACTAGCCCCCAATTATACTCGAACTTGTGACT
Found at i:5352988 original size:18 final size:18
Alignment explanation
Indices: 5352947--5352988 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
5352937 TATATAAATT
*
5352947 TTAAATATATAAAATACA
1 TTAAAAATATAAAATACA
*
5352965 TAAAAAATACTAAAA-ACA
1 TTAAAAATA-TAAAATACA
5352983 TTAAAA
1 TTAAAA
5352989 TAAATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (18 bp):
TTAAAAATATAAAATACA
Found at i:5354684 original size:40 final size:40
Alignment explanation
Indices: 5354635--5354757 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
5354625 ATAAAGTAGG
*
5354635 AAAACGCTTCTTTAAGGAAGCGCTTTGTCCACGTGGACAA
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
* *
5354675 AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
* * * * *
5354715 AAAATGCTTCCTTGAGGGAGCACTTTGTGTCCAAGTGGACAA
1 AAAACGCTTCCTTAAGGAAGCGC-TT-TGTCCACGTGGACAA
5354757 A
1 A
5354758 GTGCTTCCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 55 0.77
41 2 0.03
42 14 0.20
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (40 bp):
AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
Found at i:5354763 original size:40 final size:41
Alignment explanation
Indices: 5354635--5354780 Score: 131
Period size: 40 Copynumber: 3.6 Consensus size: 41
5354625 ATAAAGTAGG
* * * * *
5354635 AAAACGCTTCTTTAAGGAAGCGC-TT-TGTCCACGTGGACAA
1 AAAATGCTTCCTTGAGGAAGCACTTTGTGTCCAAGTGGAC-A
* ** * *
5354675 AAAACGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGACA
1 AAAATGCTTCCTTGAGGAAGCACTTTGTGTCCAAGTGGACA
*
5354714 GAAAATGCTTCCTTGAGGGAGCACTTTGTGTCCAAGTGGAC-
1 -AAAATGCTTCCTTGAGGAAGCACTTTGTGTCCAAGTGGACA
*
5354755 AAAGTGCTTCCTTGAGGAAGCACTTT
1 AAAATGCTTCCTTGAGGAAGCACTTT
5354781 TCCCGTGTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 78 0.84
41 2 0.02
42 12 0.13
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (41 bp):
AAAATGCTTCCTTGAGGAAGCACTTTGTGTCCAAGTGGACA
Found at i:5354967 original size:95 final size:97
Alignment explanation
Indices: 5354850--5355234 Score: 364
Period size: 110 Copynumber: 3.7 Consensus size: 97
5354840 GTATTTAGAT
* * *
5354850 TTTAGGG--TTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGATTACTTAAGTAAATTAATTAT
* * * *
5354913 AAATTTT-TAAATA-TAGATTAGGGTTTTGTG
66 AAATTTTAAAAAAATTAGATTAGGGTTTAGGG
* * *
5354943 TTTATGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGATTACTTAAGTAAATTAATTAT
5355008 AAATTTTAAAAAAATTAGATTAGGGTTTAGGG
66 AAATTTTAAAAAAATTAGATTAGGGTTTAGGG
* * *
5355040 TTTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGA
1 TTTAGGG-TT----TTTA--------AGGAAAAAATTAAATAAATAAGGGTTTAGGATTACTTAA
5355105 GTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGG
53 GTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGG
* * *
5355150 TTTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGA
1 TTTAGGG-TT----TTTA--------AGGAAAAAATTAAATAAATAAGGGTTTAGGATTACTTAA
5355215 GTAAATTAATTATAAATTTT
53 GTAAATTAATTATAAATTTT
5355235 NNNNNNNNNN
Statistics
Matches: 263, Mismatches: 12, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
93 6 0.02
95 58 0.22
96 4 0.02
97 21 0.08
98 2 0.01
102 4 0.02
110 168 0.64
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.41
Consensus pattern (97 bp):
TTTAGGGTTTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGATTACTTAAGTAAATTAATTAT
AAATTTTAAAAAAATTAGATTAGGGTTTAGGG
Found at i:5355039 original size:7 final size:7
Alignment explanation
Indices: 5355027--5355063 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
5355017 AAAAATTAGA
5355027 TTAGGGT
1 TTAGGGT
5355034 TTAGGGT
1 TTAGGGT
5355041 TTAGGGT
1 TTAGGGT
5355048 TTAGGGT
1 TTAGGGT
5355055 TTAGGGT
1 TTAGGGT
5355062 TT
1 TT
5355064 TTAAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:5355096 original size:110 final size:110
Alignment explanation
Indices: 5354930--5355234 Score: 574
Period size: 110 Copynumber: 2.8 Consensus size: 110
5354920 TAAATATAGA
* * *
5354930 TTAGGGTTTTGTGTTTATGGTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGA
1 TTAGGGTTTAGGGTTTAGGGTTTTTAA-GAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGA
5354995 GTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGGT
65 GTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGGT
5355041 TTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGAG
1 TTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGAG
5355106 TAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGGT
66 TAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGGT
5355151 TTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGAG
1 TTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGAG
5355216 TAAATTAATTATAAATTTT
66 TAAATTAATTATAAATTTT
5355235 NNNNNNNNNN
Statistics
Matches: 191, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
110 167 0.87
111 24 0.13
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (110 bp):
TTAGGGTTTAGGGTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGATTACTTGAG
TAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGGGT
Found at i:5355149 original size:7 final size:7
Alignment explanation
Indices: 5355137--5355173 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
5355127 AAAAATTAGA
5355137 TTAGGGT
1 TTAGGGT
5355144 TTAGGGT
1 TTAGGGT
5355151 TTAGGGT
1 TTAGGGT
5355158 TTAGGGT
1 TTAGGGT
5355165 TTAGGGT
1 TTAGGGT
5355172 TT
1 TT
5355174 TTAAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:5355938 original size:80 final size:78
Alignment explanation
Indices: 5355824--5355973 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 78
5355814 TCCACGTGGA
* *
5355824 TAGAAAACGCTTCCTTGAGGGAGCGCTTTGTGTCCACATGGACAAAGCGCTTCCTTCAGGAAGCG
1 TAGAAAACGCTTCCTTGAGGAAGCGCTTTGTGTCCACATGGACAAAGCGCTTCCTTAAGGAAGCG
5355889 TTTTCTGTCCACG
66 TTTTCTGTCCACG
* * * * *
5355902 TAGACAAAGCGCTTCCTTGAGGAAGCGTTTTTTGTCCACGTGGACAAAGTGCTTTCTTAAGGAAG
1 TAGA-AAA-CGCTTCCTTGAGGAAGCGCTTTGTGTCCACATGGACAAAGCGCTTCCTTAAGGAAG
5355967 CGTTTTC
64 CGTTTTC
5355974 CTGCTTTATC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
78 4 0.06
79 3 0.05
80 56 0.89
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (78 bp):
TAGAAAACGCTTCCTTGAGGAAGCGCTTTGTGTCCACATGGACAAAGCGCTTCCTTAAGGAAGCG
TTTTCTGTCCACG
Found at i:5355970 original size:40 final size:40
Alignment explanation
Indices: 5355787--5355972 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
5355777 AAAAACGGGG
* * * *
5355787 AAAGTGCTTCCTCAAGGAAGCG--CTTTGTCCACGTGGATAG
1 AAAGCGCTTCCTTAAGGAAGCGTTTTTTGTCCACGTGG--AC
* * * * * *
5355827 AAAACGCTTCCTTGAGGGAGCGCTTTGTGTCCACATGGAC
1 AAAGCGCTTCCTTAAGGAAGCGTTTTTTGTCCACGTGGAC
* * *
5355867 AAAGCGCTTCCTTCAGGAAGCGTTTTCTGTCCACGTAGAC
1 AAAGCGCTTCCTTAAGGAAGCGTTTTTTGTCCACGTGGAC
*
5355907 AAAGCGCTTCCTTGAGGAAGCGTTTTTTGTCCACGTGGAC
1 AAAGCGCTTCCTTAAGGAAGCGTTTTTTGTCCACGTGGAC
* *
5355947 AAAGTGCTTTCTTAAGGAAGCGTTTT
1 AAAGCGCTTCCTTAAGGAAGCGTTTT
5355973 CCTGCTTTAT
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 111 0.91
42 11 0.09
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
AAAGCGCTTCCTTAAGGAAGCGTTTTTTGTCCACGTGGAC
Found at i:5360432 original size:55 final size:56
Alignment explanation
Indices: 5360347--5360459 Score: 219
Period size: 55 Copynumber: 2.0 Consensus size: 56
5360337 TTGGACATTC
5360347 TTTACAATTCAAACGCCTAGTAATGTATTCTCCTTTATAAAATTTTCTGAAATAAA
1 TTTACAATTCAAACGCCTAGTAATGTATTCTCCTTTATAAAATTTTCTGAAATAAA
5360403 TTTACAA-TCAAACGCCTAGTAATGTATTCTCCTTTATAAAATTTTCTGAAATAAA
1 TTTACAATTCAAACGCCTAGTAATGTATTCTCCTTTATAAAATTTTCTGAAATAAA
5360458 TT
1 TT
5360460 AATAAACCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 50 0.88
56 7 0.12
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (56 bp):
TTTACAATTCAAACGCCTAGTAATGTATTCTCCTTTATAAAATTTTCTGAAATAAA
Found at i:5361312 original size:46 final size:45
Alignment explanation
Indices: 5361245--5361334 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 45
5361235 ATCTATTCAA
5361245 ATGACCCTTTTACCAAACCATATTATTACCACTTTCATGCTACCAC
1 ATGACCCTTTTACCAAACCATATTA-TACCACTTTCATGCTACCAC
5361291 ATGACCCTTTTACCAAACCATATTATACCACTTTCATGCTACCA
1 ATGACCCTTTTACCAAACCATATTATACCACTTTCATGCTACCA
5361335 AAATGAGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 19 0.43
46 25 0.57
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.32
Consensus pattern (45 bp):
ATGACCCTTTTACCAAACCATATTATACCACTTTCATGCTACCAC
Found at i:5362400 original size:41 final size:42
Alignment explanation
Indices: 5362343--5362452 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
5362333 TCAATTCTAG
* * *
5362343 TGTCCCAGACAGGGTCTTACCCGAATCA-AA-TACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAACACAAGT-CGATGCCAA
*
5362384 TGTCCCAAACATGGTCTTACACGTAAACACAAGTCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AAACACAAGTCGATGCCAA
* *
5362427 CGTCCCAGACGTGGTCTTACACGAAA
1 TGTCCCAGACATGGTCTTACACGAAA
5362453 TCATATCTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 20 0.34
42 7 0.12
43 31 0.53
44 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGAAACACAAGTCGATGCCAA
Found at i:5363887 original size:20 final size:21
Alignment explanation
Indices: 5363853--5363892 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
5363843 AAAGAAATAT
5363853 TTTTTAAAATATTTTTATTAA
1 TTTTTAAAATATTTTTATTAA
*
5363874 TTTTTAATAT-TTTTTATTA
1 TTTTTAAAATATTTTTATTA
5363893 TGAGATCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTAAAATATTTTTATTAA
Found at i:5364378 original size:60 final size:61
Alignment explanation
Indices: 5364306--5364436 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 61
5364296 TTTATTTTTT
* * **
5364306 TTGAAATTTTTAGAATT-AATATTAAATTGACAAATTTTGTAAATGTTGAGGGCTAAATTTA
1 TTGAATTTTTTAGAATTCAA-ATTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTTA
* ** * *
5364367 TT-AATTTTTTAGAATTCGAATTAAAATGGTAAATTTTGTAAACATTGAGGGTTAAATTTG
1 TTGAATTTTTTAGAATTCAAATTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTTA
5364427 TTGAATTTTT
1 TTGAATTTTT
5364437 AAATTTAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
60 49 0.83
61 10 0.17
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (61 bp):
TTGAATTTTTTAGAATTCAAATTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTTA
Done.