Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 199 of 259
Found at i:63468415 original size:53 final size:53
Alignment explanation
Indices: 63468330--63468436 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
63468320 ATTGGGAGCA
* *
63468330 TAACTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAAT
1 TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGAAAAT
* * *
63468383 TAACTTGAAATGAATAAGTTAATCAAAAATAGCAAATGTAATAAGAAGAAAAT
1 TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGAAAAT
63468436 T
1 T
63468437 GATTGGGAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (53 bp):
TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGAAAAT
Found at i:63468419 original size:26 final size:27
Alignment explanation
Indices: 63468337--63468427 Score: 66
Period size: 26 Copynumber: 3.4 Consensus size: 27
63468327 GCATAACTCG
* *
63468337 AAATG-AATAAATTAATCAAAGATAGC
1 AAATGCAATAAGTTAATCAAAAATAGC
** *
63468363 AAATGCAATAAG--AAGGAAATTAACTTG-
1 AAATGCAATAAGTTAATCAAA--AA-TAGC
63468390 AAATG-AATAAGTTAATCAAAAATAGC
1 AAATGCAATAAGTTAATCAAAAATAGC
*
63468416 AAATGTAATAAG
1 AAATGCAATAAG
63468428 AAGAAAATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
25 7 0.14
26 18 0.37
27 17 0.35
28 7 0.14
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (27 bp):
AAATGCAATAAGTTAATCAAAAATAGC
Found at i:63469341 original size:8 final size:8
Alignment explanation
Indices: 63469329--63469375 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
63469319 CCCCATGATC
63469329 TTTTTTGCT
1 TTTTTTG-T
63469338 TTTTTTGT
1 TTTTTTGT
*
63469346 TTTTTTAT
1 TTTTTTGT
*
63469354 TTTTTTAT
1 TTTTTTGT
63469362 TTTTTTGT
1 TTTTTTGT
63469370 TTTTTT
1 TTTTTT
63469376 TTGCTGCCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 29 0.81
9 7 0.19
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.87
Consensus pattern (8 bp):
TTTTTTGT
Found at i:63469356 original size:24 final size:24
Alignment explanation
Indices: 63469329--63469375 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
63469319 CCCCATGATC
*
63469329 TTTTTTGCTTTTTTTGTTTTTTTA
1 TTTTTTGATTTTTTTGTTTTTTTA
*
63469353 TTTTTTTATTTTTTTGTTTTTTT
1 TTTTTTGATTTTTTTGTTTTTTT
63469376 TTGCTGCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.87
Consensus pattern (24 bp):
TTTTTTGATTTTTTTGTTTTTTTA
Found at i:63473389 original size:29 final size:29
Alignment explanation
Indices: 63473317--63473424 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 29
63473307 TTCACATATC
* * * *
63473317 TGTATCTGGCCCATTAAG-CCTAATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * * * *
63473345 TTTGTATAGCCTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
63473374 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
63473403 TTTATATGGCCCGTTAGACCCA
1 TGTATATGGCCCATTAGGCCCA
63473425 GTCATATTCA
Statistics
Matches: 62, Mismatches: 17, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
28 12 0.19
29 50 0.81
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:63480368 original size:22 final size:22
Alignment explanation
Indices: 63480343--63480413 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
63480333 AATTTAAGGT
*
63480343 AAATAAAATATAAAACAGTTTA
1 AAATAAAATATAAAACAATTTA
* **
63480365 AAAT--AATTTAAAA-AATCAA
1 AAATAAAATATAAAACAATTTA
*
63480384 CAAATAATATATAAAACAATTTA
1 -AAATAAAATATAAAACAATTTA
63480407 AAATAAA
1 AAATAAA
63480414 TAATATATAT
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
22 17 0.47
23 4 0.11
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (22 bp):
AAATAAAATATAAAACAATTTA
Found at i:63480444 original size:26 final size:25
Alignment explanation
Indices: 63480385--63480437 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
63480375 AAAAATCAAC
*
63480385 AAATAATATATAAAACAATTTAAAAT
1 AAATAATATATAAAAC-ATTAAAAAT
63480411 AAATAATATATATAAAC-TTAAAAAT
1 AAATAATATATA-AAACATTAAAAAT
63480436 AA
1 AA
63480438 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAACATTAAAAAT
Found at i:63480579 original size:12 final size:12
Alignment explanation
Indices: 63480558--63480589 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
63480548 AAATGTTAAG
63480558 TAAATAAAATAT
1 TAAATAAAATAT
*
63480570 TAAATGAAATAT
1 TAAATAAAATAT
63480582 TAAATAAA
1 TAAATAAA
63480590 GCAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:63482266 original size:13 final size:13
Alignment explanation
Indices: 63482250--63482275 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63482240 ATAAAATGTT
63482250 GCCATAGATTTTG
1 GCCATAGATTTTG
63482263 GCCATAGATTTTG
1 GCCATAGATTTTG
63482276 CAGGCTCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCATAGATTTTG
Found at i:63482954 original size:47 final size:47
Alignment explanation
Indices: 63482900--63482993 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
63482890 CTTGATTTAA
63482900 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
1 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
*
63482947 CACCCATACCTCTATACATATGAAAACCCATAAACGTTAAGCATTTT
1 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
63482994 GCCACCCACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.28
Consensus pattern (47 bp):
CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
Found at i:63482977 original size:24 final size:24
Alignment explanation
Indices: 63482901--63482978 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
63482891 TTGATTTAAC
63482901 ACCCATACCTCTATACATATGAAA
1 ACCCATACCTCTATACATATGAAA
***
63482925 ACCCATAAACCT-TA-AGCAT-T-TTC
1 ACCCAT--ACCTCTATA-CATATGAAA
63482948 ACCCATACCTCTATACATATGAAA
1 ACCCATACCTCTATACATATGAAA
63482972 ACCCATA
1 ACCCATA
63482979 AACGTTAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 8 0.20
24 15 0.37
25 5 0.12
26 4 0.10
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.26
Consensus pattern (24 bp):
ACCCATACCTCTATACATATGAAA
Found at i:63487288 original size:244 final size:244
Alignment explanation
Indices: 63486859--63487347 Score: 924
Period size: 244 Copynumber: 2.0 Consensus size: 244
63486849 GTTGGACCTC
63486859 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
1 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
63486924 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
66 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
*
63486989 TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTTAAGAGTTAATGCACAAAAACAAGAAAA
131 TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
63487054 AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
196 AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
*
63487103 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTTGT
1 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
63487168 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
66 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
* * *
63487233 TCCATGCACGTTCAGTTCGCATCTGAACTCGTTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
131 TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
*
63487298 AAGTTTGTTTCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
196 AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
63487347 A
1 A
63487348 AACTAGTACA
Statistics
Matches: 239, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
244 239 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (244 bp):
ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
Found at i:63490539 original size:30 final size:31
Alignment explanation
Indices: 63490499--63490564 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
63490489 GATGTAACTT
*
63490499 ATTAAGCAAATGCCTCTAAAATAATAACAGA
1 ATTAAGCAAATGCCTCTAAAATAATAACAAA
63490530 ATTAA-CAAATGCCTCTAAAATAATAACAAA
1 ATTAAGCAAATGCCTCTAAAATAATAACAAA
63490560 ATTAA
1 ATTAA
63490565 TAATAAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (31 bp):
ATTAAGCAAATGCCTCTAAAATAATAACAAA
Found at i:63490937 original size:54 final size:54
Alignment explanation
Indices: 63490853--63490964 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
63490843 CTATAAATAG
*
63490853 GTCTACTTAGGAACCAACACCAATATCTAGCCGCTGCCTTAACTTCATATTTTA
1 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
* *
63490907 GTCTATTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATGTTTTA
1 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
63490961 GTCT
1 GTCT
63490965 TTATGTGCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (54 bp):
GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
Found at i:63497922 original size:22 final size:21
Alignment explanation
Indices: 63497887--63498016 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
63497877 AAAAGGTATC
* *
63497887 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
63497908 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
63497931 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
63497950 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
63497968 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
63497985 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
63498004 TGC-AATCATATCT
1 TACAAATCATATCT
63498017 AAGATTGTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.16
18 21 0.22
19 29 0.31
20 1 0.01
21 3 0.03
22 15 0.16
23 10 0.11
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:63497930 original size:23 final size:22
Alignment explanation
Indices: 63497887--63497944 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
63497877 AAAAGGTATC
* *
63497887 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
63497908 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
63497931 TGCATATCATATCT
1 TACAAATCATATCT
63497945 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:63497979 original size:35 final size:36
Alignment explanation
Indices: 63497923--63498048 Score: 193
Period size: 35 Copynumber: 3.5 Consensus size: 36
63497913 AATCATATCT
63497923 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
63497960 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
63497996 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
63498031 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
63498049 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
35 36 0.43
36 21 0.25
37 26 0.31
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:63497992 original size:14 final size:15
Alignment explanation
Indices: 63497937--63498046 Score: 87
Period size: 17 Copynumber: 6.5 Consensus size: 15
63497927 AGATTGCATA
63497937 TCATATCTAAGATTG
1 TCATATCTAAGATTG
63497952 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
63497970 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
63497987 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
63498006 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
63498024 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
63498041 -CATATC
1 TCATATC
63498047 ATTGAAGATT
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.37
18 31 0.36
19 17 0.20
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:63498056 original size:17 final size:19
Alignment explanation
Indices: 63497923--63498048 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
63497913 AATCATATCT
63497923 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
63497942 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
63497960 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
63497977 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
63497996 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
63498014 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
63498031 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
63498049 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 37 0.37
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:63498068 original size:54 final size:54
Alignment explanation
Indices: 63497923--63498048 Score: 252
Period size: 54 Copynumber: 2.3 Consensus size: 54
63497913 AATCATATCT
63497923 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
63497977 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
63498031 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
63498049 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:63498675 original size:43 final size:42
Alignment explanation
Indices: 63498628--63498709 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
63498618 CCTGTTGATA
**
63498628 TCTTCGATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTT
1 TCTTCGATCTGCTCTCCAAC-AATACAGAGACGCCAAATCTTT
* * * *
63498671 TCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATC
63498710 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 18 0.55
43 15 0.45
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (42 bp):
TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATCTTT
Found at i:63498813 original size:260 final size:261
Alignment explanation
Indices: 63498333--63498814 Score: 752
Period size: 260 Copynumber: 1.9 Consensus size: 261
63498323 GTCCTCAATT
63498333 TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
1 TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
*
63498398 CGCCAAATCTGTTTCTTCAATTTGTTTTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
66 CGCCAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
* * * *
63498463 TTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCATTGTGAACACAAGGA
131 TTCAGCGTAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTGAACACAAGGA
* *
63498528 TGCCAAATCATCTTGGATTTGCTTCAGCAAAATCATCTGAAGGTCAGATCTACTATGTCTTTAAT
196 TGCCAAACCATCTTGGATCTGCTTCAGCAAAATCATCTGAAGGTCAGATCTACTATGTCTTTAAT
63498593 C
261 C
* * * * * *
63498594 TGCTTATTGTAAACTTATGACTGTCCTGTTGATATCTTCGATCTGCTCTCCGTCGAATACAGAGA
1 TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
* * * *
63498659 CGCCAAATCT-TTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGC
66 CGCCAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
** * *
63498723 TTCAGCGTAAGTACGCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCATTGT-AAGCACAAGG
131 TTCAGCGTAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTGAA-CACAAGG
63498787 ATGCCAAACCATCTTGGATCTGCTTCAG
195 ATGCCAAACCATCTTGGATCTGCTTCAG
63498815 TCATCTGAAG
Statistics
Matches: 199, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
259 2 0.01
260 128 0.64
261 69 0.35
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (261 bp):
TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
CGCCAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
TTCAGCGTAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTGAACACAAGGA
TGCCAAACCATCTTGGATCTGCTTCAGCAAAATCATCTGAAGGTCAGATCTACTATGTCTTTAAT
C
Found at i:63499112 original size:205 final size:205
Alignment explanation
Indices: 63498672--63499374 Score: 1184
Period size: 205 Copynumber: 3.5 Consensus size: 205
63498662 CAAATCTTTT
* *
63498672 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
63498737 GCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
63498802 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
63498862 AGATGCCAGA
196 AGATGCCAGA
* *
63498872 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
63498937 GTTAAAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
63499002 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
63499067 AGATGCCAGA
196 AGATGCCAGA
*
63499077 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
63499142 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
63499207 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTAGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
63499272 AGATGCCAAA
196 AGATGCCAGA
* * * * *
63499282 CTTTGATTTGTTCTCTGACAATAAAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
63499347 -TGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
63499375 CTGCTCTCCG
Statistics
Matches: 471, Mismatches: 27, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
200 132 0.28
202 1 0.00
204 28 0.06
205 310 0.66
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:63499487 original size:44 final size:44
Alignment explanation
Indices: 63499434--63499711 Score: 235
Period size: 44 Copynumber: 6.3 Consensus size: 44
63499424 CTCTGACAAT
* *
63499434 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * * *
63499478 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTTAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
63499522 AC-TGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
63499566 ACAGGGATGCCAAATCTGCTATATTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* * ** * * *
63499610 ACAGGGATGACATA-CTGAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
63499654 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
63499698 ACAGGGATGCCAAA
1 ACAGGGATGCCAAA
63499712 CCTTGTTTCT
Statistics
Matches: 179, Mismatches: 44, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 25 0.14
44 118 0.66
45 32 0.18
46 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:63499575 original size:132 final size:132
Alignment explanation
Indices: 63499434--63499711 Score: 475
Period size: 132 Copynumber: 2.1 Consensus size: 132
63499424 CTCTGACAAT
* * * *
63499434 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
* * * *
63499499 CCTCGATCTGCTTCGCTGTTAGCACTGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
63499564 AC
131 AC
63499566 ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
1 ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
*
63499631 CTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
63499696 AC
131 AC
63499698 ACAGGGATGCCAAA
1 ACAGGGATGCCAAA
63499712 CCTTGTTTCT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 137 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
AC
Found at i:63500617 original size:6 final size:6
Alignment explanation
Indices: 63500606--63500643 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
63500596 GGCCTCTTCA
63500606 TTTTTC TTTTTC TTTTTC TTTTT- TTTTTC TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
63500644 AAATAGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.29
6 22 0.71
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTTC
Found at i:63500623 original size:12 final size:11
Alignment explanation
Indices: 63500606--63500643 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
63500596 GGCCTCTTCA
63500606 TTTTTCTTTTT
1 TTTTTCTTTTT
63500617 CTTTTTCTTTTT
1 -TTTTTCTTTTT
63500629 TTTTTCTTTTT
1 TTTTTCTTTTT
63500640 TTTT
1 TTTT
63500644 AAATAGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:63503190 original size:12 final size:12
Alignment explanation
Indices: 63503158--63503191 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63503148 CATGACCCTC
*
63503158 TTCTCTTTCTCT
1 TTCTCTTTTTCT
*
63503170 CTCTCTTTTTCT
1 TTCTCTTTTTCT
63503182 TTCTCTTTTT
1 TTCTCTTTTT
63503192 AATAACTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTCTTTTTCT
Found at i:63506270 original size:22 final size:21
Alignment explanation
Indices: 63506235--63506310 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
63506225 AAAAGGTATC
* *
63506235 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
63506256 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
63506279 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
63506298 TGC-AATCATATCT
1 TACAAATCATATCT
63506311 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:63506327 original size:35 final size:37
Alignment explanation
Indices: 63506264--63506342 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
63506254 ATTACAAAAT
63506264 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
63506300 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
63506335 CATATCAT
1 CATATCAT
63506343 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:63506340 original size:14 final size:15
Alignment explanation
Indices: 63506285--63506340 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
63506275 AGATTGCATA
63506285 TCATATCTAAGATTG
1 TCATATCTAAGATTG
63506300 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
63506318 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
63506335 -CATATC
1 TCATATC
63506341 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:63506350 original size:17 final size:19
Alignment explanation
Indices: 63506271--63506342 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
63506261 AATCATATCT
63506271 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
63506290 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
63506308 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
63506325 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
63506343 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:63508915 original size:27 final size:27
Alignment explanation
Indices: 63508885--63508937 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
63508875 AATCAAAATT
*
63508885 AAATATATTTAATTTTATC-TTATTTTA
1 AAATATAATTAATTTT-TCATTATTTTA
*
63508912 AAATGTAATTAATTTTTCATTATTTT
1 AAATATAATTAATTTTTCATTATTTT
63508938 GTAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (27 bp):
AAATATAATTAATTTTTCATTATTTTA
Found at i:63509092 original size:56 final size:56
Alignment explanation
Indices: 63509026--63509135 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
63509016 CTTTTGAAAC
* * *
63509026 ATTGCTATGAGTAGTATTGGTTGCATCATTGCGATAAAACTAAGATAAACACAACA
1 ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAACA
*
63509082 ATTGCTATGAGCAGTATTGGTTGTATCATTACGATAAAACAAAGATAAACACAA
1 ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAA
63509136 TAAATTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (56 bp):
ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAACA
Found at i:63513766 original size:21 final size:21
Alignment explanation
Indices: 63513718--63513769 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
63513708 TTTTATGACC
*
63513718 TATGTGTGAACATCTATATGT
1 TATGTGTGAACATCTATATGG
*
63513739 TAAGTGTGAACATGCT-TATGG
1 TATGTGTGAACAT-CTATATGG
*
63513760 TGTGTGTGAA
1 TATGTGTGAA
63513770 TACAATAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (21 bp):
TATGTGTGAACATCTATATGG
Found at i:63518179 original size:15 final size:14
Alignment explanation
Indices: 63518159--63518206 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
63518149 TTTTAATCCC
63518159 TAAAACTCTAAATCT
1 TAAAACT-TAAATCT
63518174 TAAAACTTAAATCCT
1 TAAAACTTAAAT-CT
*
63518189 AATAAACCTTAAATCT
1 --TAAAACTTAAATCT
63518205 TA
1 TA
63518207 TTTTACCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.24
15 9 0.31
16 2 0.07
17 11 0.38
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAACTTAAATCT
Found at i:63519875 original size:13 final size:13
Alignment explanation
Indices: 63519859--63519883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63519849 AGTTATTACT
63519859 TTATTTATTTTAG
1 TTATTTATTTTAG
63519872 TTATTTATTTTA
1 TTATTTATTTTA
63519884 ATTGTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTAG
Found at i:63523567 original size:79 final size:79
Alignment explanation
Indices: 63523423--63523572 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
63523413 CTCAAAATAT
* * *
63523423 GTATAAATTTAAAGATGTTCTTTTTAGCGTAGTTGTCATACTTATAAAACCAACTAGTTACTTAA
1 GTATAAATTTAAAGATGTTCTTTTTAACGTAGTTATCATACTTATAAAACCAACTAATTACTTAA
63523488 AAAAAAATAAGTAA
66 AAAAAAATAAGTAA
* *
63523502 GTATAAATTTAGAGATGTTCTTTTTTAAC-TGAGTTATCATATTTATAATAA-CAACTAATTA-T
1 GTATAAATTTAAAGATGTTC-TTTTTAACGT-AGTTATCATACTTATAA-AACCAACTAATTACT
63523564 TAAAAAAAA
63 TAAAAAAAA
63523573 TTTATTATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 30 0.48
80 31 0.49
81 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (79 bp):
GTATAAATTTAAAGATGTTCTTTTTAACGTAGTTATCATACTTATAAAACCAACTAATTACTTAA
AAAAAAATAAGTAA
Found at i:63525644 original size:32 final size:31
Alignment explanation
Indices: 63525599--63525677 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 31
63525589 CAAGTTCAGA
63525599 TACTTTTGGACAAGTTTTGATACTAAATAGG
1 TACTTTTGGACAAGTTTTGATACTAAATAGG
*
63525630 TACTTTTTGAACAAGTTTTGATACTAAATAGG
1 TAC-TTTTGGACAAGTTTTGATACTAAATAGG
63525662 TACTTTTGGACAAGTT
1 TACTTTTGGACAAGTT
63525678 CAAAGGGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 15 0.33
32 30 0.67
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (31 bp):
TACTTTTGGACAAGTTTTGATACTAAATAGG
Found at i:63527909 original size:14 final size:15
Alignment explanation
Indices: 63527890--63527918 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63527880 ATTCTTGGTG
63527890 ATAAATAT-TTATAA
1 ATAAATATATTATAA
63527904 ATAAATATATTATAA
1 ATAAATATATTATAA
63527919 CACTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATATATTATAA
Found at i:63529203 original size:20 final size:22
Alignment explanation
Indices: 63529180--63529224 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
63529170 ATATATTCTA
63529180 ATAT-TTAAA-AATATTAAAAT
1 ATATATTAAATAATATTAAAAT
* *
63529200 ATATATTAAATAATTTTTAAAT
1 ATATATTAAATAATATTAAAAT
63529222 ATA
1 ATA
63529225 AATAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATATTAAATAATATTAAAAT
Found at i:63529243 original size:20 final size:18
Alignment explanation
Indices: 63529200--63529246 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 18
63529190 ATATTAAAAT
63529200 ATATATTAAATAATTTTTA
1 ATATA-TAAATAATTTTTA
63529219 A-ATATAAATAATTTATTA
1 ATATATAAATAATTT-TTA
63529237 ATTATATAAA
1 A-TATATAAA
63529247 ATACTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 1 0.04
20 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATAAATAATTTTTA
Found at i:63530104 original size:91 final size:90
Alignment explanation
Indices: 63529949--63530224 Score: 331
Period size: 91 Copynumber: 3.0 Consensus size: 90
63529939 ATAATGTCAC
* * * * *
63529949 ATTTGGTACATATACTTTTATAAAATGT-TCAATGTGGTATTTGTACTTTAAAAAAGTTTAATGT
1 ATTTGGTACATATACTTTCATAAAATGTCT-AATGTGGTACTTGTATTTTAAAATA-TTCAATGT
*
63530013 GATACTTGAACTATCAAATTGTGTATT
64 GGTACTTGAACTATCAAATTGTGTATT
*
63530040 ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTAGTTTTAAAATATCCAATGTG
1 ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTA-TTTTAAAATATTCAATGTG
*
63530105 GTACTTGAACTATCAATTTGTGTATT
65 GTACTTGAACTATCAAATTGTGTATT
* * * * * * *
63530131 GTTTGGTACCTATACTTTCATAAAATATCCAATGTGATACTTATACTTTGAAAATATTCAATGTG
1 ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTA-TTTTAAAATATTCAATGTG
* * *
63530196 GCACCTGAACTATCAAGA-TGTATATT
65 GTACTTGAACTATCAA-ATTGTGTATT
63530222 ATT
1 ATT
63530225 ATAGTATCTA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
91 151 0.94
92 9 0.06
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (90 bp):
ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTATTTTAAAATATTCAATGTGG
TACTTGAACTATCAAATTGTGTATT
Found at i:63530694 original size:69 final size:69
Alignment explanation
Indices: 63530615--63530752 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
63530605 TCAGTGAAGG
*
63530615 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTCCTTAAAAGAAAATTCTTTTATAC
1 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
63530680 ACTA
66 ACTA
63530684 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
1 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
63530749 ACTA
66 ACTA
63530753 AACAAATATC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (69 bp):
CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
ACTA
Found at i:63537440 original size:30 final size:30
Alignment explanation
Indices: 63537353--63537427 Score: 150
Period size: 30 Copynumber: 2.5 Consensus size: 30
63537343 CATGGCCATG
63537353 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCTGTGTGTC
63537383 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCTGTGTGTC
63537413 ACACACGGGCGTGTG
1 ACACACGGGCGTGTG
63537428 AATCACCCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.24
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCTGTGTGTC
Found at i:63537988 original size:12 final size:13
Alignment explanation
Indices: 63537963--63537991 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
63537953 TGTGATGTGC
63537963 ATATATGTATTGA
1 ATATATGTATTGA
63537976 ATATATG-ATTGA
1 ATATATGTATTGA
63537988 ATAT
1 ATAT
63537992 TCCTTATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
ATATATGTATTGA
Found at i:63539119 original size:54 final size:54
Alignment explanation
Indices: 63539051--63539158 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
63539041 AATATTGAGA
*
63539051 TACGGGCGAGGCTCGGATGGTATTGAGTGTGTTTGTTTTCATATTTGGCTTCAT
1 TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
63539105 TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
1 TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
63539159 CTTTCTTGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.16, C:0.13, G:0.31, T:0.41
Consensus pattern (54 bp):
TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
Found at i:63540451 original size:27 final size:26
Alignment explanation
Indices: 63540388--63540503 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
63540378 CAGCATCGCT
* *
63540388 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
63540414 ACTAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
63540442 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
63540469 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
63540496 ACCAGAAC
1 ACCAGAAC
63540504 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 16 0.20
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:63540452 original size:54 final size:54
Alignment explanation
Indices: 63540388--63540503 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
63540378 CAGCATCGCT
* *
63540388 ACCAGAACAGATA-ATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * * *
63540442 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
63540496 ACCAGAAC
1 ACCAGAAC
63540504 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 38 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:63540633 original size:26 final size:27
Alignment explanation
Indices: 63540604--63540679 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
63540594 CAAAATTAAC
* *
63540604 CCTAGGGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
*
63540630 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
63540658 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
63540680 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.52
28 20 0.48
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:63542142 original size:26 final size:26
Alignment explanation
Indices: 63542113--63542196 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
63542103 CATGAAATTC
*
63542113 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
63542139 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63542165 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
63542191 TTATCA
1 TTATCA
63542197 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63543888 original size:19 final size:19
Alignment explanation
Indices: 63543864--63543942 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
63543854 AATCTTTAAG
63543864 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
63543883 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
63543902 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
63543919 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
63543940 GAT
1 GAT
63543943 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:63543894 original size:36 final size:36
Alignment explanation
Indices: 63543854--63543941 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
63543844 ATGGAAATAT
63543854 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
63543890 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
63543926 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
63543942 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:63544476 original size:25 final size:25
Alignment explanation
Indices: 63544448--63544496 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
63544438 GTGCATAGTT
63544448 TTATTT-TTTTATATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
63544473 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
63544497 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:63549593 original size:24 final size:24
Alignment explanation
Indices: 63549558--63549617 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
63549548 CTTCTATTTC
*
63549558 AAAAAAAAAAAAGGAAA-AAAGAA-
1 AAAAAAATAAAAGGAAATAAA-AAG
*
63549581 AAGAAAAATAAAATGAAATAAAAAG
1 AA-AAAAATAAAAGGAAATAAAAAG
63549606 AAAAAAATAAAA
1 AAAAAAATAAAA
63549618 AAAAATAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 25 0.78
25 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (24 bp):
AAAAAAATAAAAGGAAATAAAAAG
Found at i:63549615 original size:14 final size:13
Alignment explanation
Indices: 63549558--63549622 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 13
63549548 CTTCTATTTC
*
63549558 AAAAAAAAAAAAG
1 AAAAAAAAAAAAT
* * *
63549571 GAAAAAAGAAAAG
1 AAAAAAAAAAAAT
63549584 AAAAATAAAATGAAAT
1 AAAAA-AAAA--AAAT
63549600 AAAAAGAAAAAAAT
1 AAAAA-AAAAAAAT
63549614 AAAAAAAAA
1 AAAAAAAAA
63549623 TAGAGAGGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
13 19 0.44
14 12 0.28
16 12 0.28
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAAAT
Found at i:63550831 original size:27 final size:29
Alignment explanation
Indices: 63550774--63550836 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
63550764 ACTAAAAGGG
*
63550774 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
63550803 TATACTATATATATATAAT-AT-TT-GAAA
1 TATAC-ATATATATATAATGATATTAGAAA
63550830 TATACAT
1 TATACAT
63550837 GAAGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 9 0.28
28 2 0.06
29 7 0.22
30 12 0.38
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:63551165 original size:21 final size:21
Alignment explanation
Indices: 63551135--63551174 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63551125 ATTAATAATA
63551135 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
63551156 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
63551175 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:63551247 original size:3 final size:3
Alignment explanation
Indices: 63551233--63551346 Score: 85
Period size: 3 Copynumber: 37.7 Consensus size: 3
63551223 TACATAACAT
* *
63551233 ATA ATA AAA ATA ATA AT- ATA CATA ATA TATA A-A ATA CATA TATA ACA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA -ATA -ATA ATA
* *
63551280 A-A ACA TATA CT- ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A GATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
**
63551324 ATA ATA AGG ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
63551347 GTAAAAAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 8 0.09
3 67 0.74
4 15 0.17
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:63551294 original size:58 final size:60
Alignment explanation
Indices: 63551206--63551317 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 60
63551196 TACATGGATG
* *
63551206 ATACAATATTTAACATATACATAACATATAATAAAAATAATAAT-ATACATAATATATAAA
1 ATACAATATATAACATAAACATAACATATAATAAAAATAATAATAATA-ATAATATATAAA
*
63551266 ATAC-ATATATAACA-AAACATATAC-TATAATAATAATAATAATAATAATAATA
1 ATACAATATATAACATAAACATA-ACATATAATAAAAATAATAATAATAATAATA
63551318 AAGATAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 29 0.62
59 14 0.30
60 4 0.09
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (60 bp):
ATACAATATATAACATAAACATAACATATAATAAAAATAATAATAATAATAATATATAAA
Found at i:63553169 original size:89 final size:89
Alignment explanation
Indices: 63553015--63553238 Score: 235
Period size: 89 Copynumber: 2.5 Consensus size: 89
63553005 GTGATCCTGA
* * * *
63553015 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAG-ACATTTAGAAACAGAAATTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAACATTTAGAAACAGAAATTG
* * *
63553079 AAAATAGCTC-AGCACGTGAGCT-AAG
65 AAAATACCTCGA-CATGT-AACTCAAG
* *
63553104 GCTCAACTCACTTCTCGCAATATGAGCTGATTTTTGAAAACAGAAC-TTGATA-AAACA-AATTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAACATT--TAGAAACAGAA-AT
*
63553166 TGAAAATACCTCGACATGTAACTCGAG
63 TGAAAATACCTCGACATGTAACTCAAG
* *
63553193 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAA
63553239 GTTAAAAGGC
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
88 18 0.16
89 85 0.74
90 12 0.10
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (89 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAACATTTAGAAACAGAAATTGA
AAATACCTCGACATGTAACTCAAG
Found at i:63553258 original size:54 final size:54
Alignment explanation
Indices: 63553191--63553573 Score: 676
Period size: 54 Copynumber: 7.1 Consensus size: 54
63553181 ATGTAACTCG
* *
63553191 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAGTTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
63553245 AGGCTCAATTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAAAACAGAAATTAAA
63553300 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
63553354 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
63553408 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAAGTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
63553462 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
63553516 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
63553570 AGGC
1 AGGC
63553574 GGAATTTGAA
Statistics
Matches: 316, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
54 265 0.84
55 51 0.16
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:63553660 original size:14 final size:14
Alignment explanation
Indices: 63553641--63553674 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
63553631 TTGATTTTCC
63553641 TGAAAAGCA-AAATT
1 TGAAAAGCAGAAA-T
63553655 TGAAAAGCAGAAAT
1 TGAAAAGCAGAAAT
63553669 TGAAAA
1 TGAAAA
63553675 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TGAAAAGCAGAAAT
Found at i:63553711 original size:91 final size:87
Alignment explanation
Indices: 63553516--63553748 Score: 328
Period size: 91 Copynumber: 2.6 Consensus size: 87
63553506 AGAAATTAAA
* * *
63553516 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAAAGGCGGAATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAAAGGCAGAAATT
*
63553581 GAAAATACCTCAGCATGTCCTG
66 GAAAATACCTCAGCATGACCTG
63553603 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCCTGA-AAAGCA-AAATTTGAAAA-GCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TGAGAAA-CAGAAA-TT-AAAAGGCAG
*
63553665 AAATTGAAAATACCTCAGCGTGCGACCTG
61 AAATTGAAAATACCTCAGCAT--GACCTG
*
63553694 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAAA
63553749 ATACCTCAGC
Statistics
Matches: 132, Mismatches: 5, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
87 35 0.27
88 10 0.08
89 36 0.27
90 10 0.08
91 41 0.31
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAAAGGCAGAAATT
GAAAATACCTCAGCATGACCTG
Found at i:63553800 original size:73 final size:74
Alignment explanation
Indices: 63553653--63553824 Score: 256
Period size: 73 Copynumber: 2.3 Consensus size: 74
63553643 AAAAGCAAAA
* * * *
63553653 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGC-ACCCGAGGCTCAACTCACCTCTCGCAACA
63553718 TGAGTTGATT
65 TGAGTTGATT
*
63553728 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGC-CCCGAGGCTCAACTCGCCTCTCGCAACAT
1 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCACCCGAGGCTCAACTCACCTCTCGCAACAT
63553792 GAGTTGATT
66 GAGTTGATT
*
63553801 TTCGAAACAACAGAAATTGAAAAA
1 TTTGAAA-AACAGAAATT-AAAAA
63553825 CGGAAATTGA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
73 41 0.46
74 10 0.11
75 38 0.43
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (74 bp):
TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCACCCGAGGCTCAACTCACCTCTCGCAACAT
GAGTTGATT
Found at i:63553868 original size:252 final size:245
Alignment explanation
Indices: 63553516--63553993 Score: 647
Period size: 252 Copynumber: 1.9 Consensus size: 245
63553506 AGAAATTAAA
* * * * * *
63553516 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAGAAACAGAAATTAAAAGGCGGAATTT
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTCGAAAAACAGAAATTAAAAGACGGAAATT
* * *
63553581 GAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCCTGAAA
66 GAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTT--TGAAA
* *
63553646 AGCA-AAATTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCGA-CCTGAGGCTCAACTCACCT
129 AGCATAAA-TT--AAA-CAGAAATTAAAAATACCTCAGCATGCGAGCC-GAGGCTCAACTCACCT
*
63553709 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCG
189 CTCGCAATATGAGTTGATTTTT-AAAAAAAGAAATTAAAAATACCTCAGCGTGCCCCG
*
63553767 AGGCTCAACTCGCCTCTCGCAACATGAGTTGATTTTCGAAACAACAGAAATTGAAAA-ACGGAAA
1 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTCGAAA-AACAGAAATT-AAAAGACGGAAA
* * *
63553831 TTGAAAATACCTCAGCGTGCCCCGAGGCTCTACTCACCTTTCGCAATATGAGTTGACTTTTGAAA
64 TTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTGAAA
* * * * *
63553896 AGTATAAATTAAACAGGAATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGC
129 AGCATAAATTAAACAGAAATTAAAAATACCTCAGCATGCGAGCCGAGGCTCAACTCACCTCTCGC
*
63553961 AATATGAGTTGATTTTTAAAAAAATAAATTAAA
194 AATATGAGTTGATTTTTAAAAAAAGAAATTAAA
63553994 TAGGAATTTA
Statistics
Matches: 201, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
246 14 0.07
247 60 0.30
248 5 0.02
250 10 0.05
251 39 0.19
252 69 0.34
253 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (245 bp):
AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTCGAAAAACAGAAATTAAAAGACGGAAATT
GAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTTGAAAAG
CATAAATTAAACAGAAATTAAAAATACCTCAGCATGCGAGCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTAAAAAAAGAAATTAAAAATACCTCAGCGTGCCCCG
Found at i:63553961 original size:86 final size:83
Alignment explanation
Indices: 63553734--63554077 Score: 395
Period size: 86 Copynumber: 4.1 Consensus size: 83
63553724 GATTTTTGAA
* * *
63553734 AAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCGCCTCTCGCAACATGAGTTGA
1 AAACAGGAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
63553799 TTTTCGAAACAACAGAAATT
66 TTTT-GAAA-AAAATAAATT
* * * *
63553819 GAAAAACGGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCTACTCACCTTTCGCAATATGAGT
1 -AAACA-GG-AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
**
63553884 TGACTTTTGAAAAGTATAAATT
63 TGA-TTTTGAAAAAAATAAATT
* ** *
63553906 AAACAGGAATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGCAATATGAGTT
1 AAACAGGAATTAAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
63553971 GATTTTTAAAAAAATAAATT
64 GATTTTGAAAAAAATAAATT
* * * *
63553991 AAATAGGAATTTAAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTATCGCAATATGAGTTG
1 AAACAGGAA-TTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
63554056 A-TTT-AAAAACATAAATA
65 ATTTTGAAAAAAATAAATT
63554073 AAACA
1 AAACA
63554078 TCAAAATACC
Statistics
Matches: 221, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
82 15 0.07
83 3 0.01
84 51 0.23
85 25 0.11
86 58 0.26
87 8 0.04
88 57 0.26
89 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (83 bp):
AAACAGGAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTGAAAAAAATAAATT
Found at i:63554058 original size:84 final size:83
Alignment explanation
Indices: 63553741--63554075 Score: 397
Period size: 88 Copynumber: 4.0 Consensus size: 83
63553731 GAAAAACAGA
* *
63553741 AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCGCCTCTCGCAACATGAGTTGATTTTCGA
1 AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GA
*
63553806 AACAACAGAAATTGAAAAACGG
65 AA-AACATAAATT-AAAAA-GG
* * *
63553828 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCTACTCACCTTTCGCAATATGAGTTGACTTTTG
1 -AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
** *
63553893 AAAAGTATAAATTAAACAGG
64 AAAAACATAAATTAAAAAGG
* ** * *
63553913 AATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 AATTAAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
* *
63553978 AAAAAAATAAATTAAATAGG
64 AAAAACATAAATTAAAAAGG
* * *
63553998 AATTTAAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTT-A
1 AA-TTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
63554061 AAAACATAAA-TAAAA
65 AAAACATAAATTAAAA
63554076 CATCAAAATA
Statistics
Matches: 215, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
81 4 0.02
82 10 0.05
83 3 0.01
84 51 0.24
85 25 0.12
86 54 0.25
87 7 0.03
88 57 0.27
89 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (83 bp):
AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
AAACATAAATTAAAAAGG
Found at i:63560291 original size:9 final size:9
Alignment explanation
Indices: 63560275--63560353 Score: 122
Period size: 9 Copynumber: 8.8 Consensus size: 9
63560265 GGTATTTTTC
63560275 GGTAATTCG
1 GGTAATTCG
*
63560284 GTTAATTCG
1 GGTAATTCG
*
63560293 GTTAATTCG
1 GGTAATTCG
*
63560302 GTTAATTCG
1 GGTAATTCG
*
63560311 GTTAATTCG
1 GGTAATTCG
63560320 GGTAATTCG
1 GGTAATTCG
63560329 GGTAATTCG
1 GGTAATTCG
63560338 GGTAATTCG
1 GGTAATTCG
63560347 GGTAATT
1 GGTAATT
63560354 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:63567368 original size:21 final size:21
Alignment explanation
Indices: 63567338--63567377 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63567328 ATTAATAATA
63567338 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
63567359 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
63567378 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:63567450 original size:3 final size:3
Alignment explanation
Indices: 63567436--63567542 Score: 80
Period size: 3 Copynumber: 35.7 Consensus size: 3
63567426 TACATAACAT
*
63567436 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA -ATA
* * * **
63567482 ACA A-A ACA TATA CT- ATA ATA ATA ATA ATA ATA ATA ATA ATA AGG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
63567526 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
63567543 GTAAAAAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
2 9 0.11
3 61 0.73
4 14 0.17
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:63569547 original size:44 final size:43
Alignment explanation
Indices: 63569279--63569841 Score: 388
Period size: 44 Copynumber: 12.8 Consensus size: 43
63569269 GAAACAAGAT
* * *
63569279 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * * **
63569322 TCTGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAATATTTCAGCA
1 T-TGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
* ** **
63569368 -TGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATTTCAGCA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAG-A
* * * *
63569411 -TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGTAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * ** ** ***
63569453 TCTGACATTCCTGTGCTTACAGCAAAGTAGATCGAAGATTTTAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAG-A
*
63569499 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
*
63569541 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
** * * * * **
63569585 TCTGATATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
*
63569631 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* *
63569673 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * * **
63569717 TCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
*
63569763 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * *
63569805 TTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGA
63569842 CATAGCTGAT
Statistics
Matches: 399, Mismatches: 94, Indels: 53
0.73 0.17 0.10
Matches are distributed among these distances:
42 4 0.01
43 82 0.21
44 265 0.66
45 44 0.11
46 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
Found at i:63569606 original size:132 final size:132
Alignment explanation
Indices: 63569275--63569841 Score: 940
Period size: 132 Copynumber: 4.3 Consensus size: 132
63569265 CAGAGAAACA
* * *
63569275 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * * *
63569340 ACAGCGAAGCAGATCGAATATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
63569405 TC
131 GC
* * *
63569407 AGCA--TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGTAGATCTGACATTCCTGTGCT
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCT
* * *
63569470 TACAGCAAAGTAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
63569535 AGC
130 AGC
*
63569538 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGATATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
63569603 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
63569668 GC
131 GC
*
63569670 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGAAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
63569735 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
63569800 GC
131 GC
* * *
63569802 AGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
63569842 CATAGCTGAT
Statistics
Matches: 406, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
130 1 0.00
131 115 0.28
132 289 0.71
133 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:63570160 original size:206 final size:204
Alignment explanation
Indices: 63569803--63570206 Score: 718
Period size: 206 Copynumber: 2.0 Consensus size: 204
63569793 GAAGATAGCA
* *
63569803 GATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTTTA
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGCTTA
* *
63569868 CGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCG
66 CGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCG
* *
63569933 TCTCTATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAG
131 TCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAG
63569998 ATCTAAGGT
196 ATCTAAGGT
63570007 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCA--TGCT
*
63570072 TACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
64 TACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGG
*
63570137 TGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
129 CGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
63570202 AGATC
194 AGATC
63570207 CAAAGGAACA
Statistics
Matches: 190, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
204 58 0.31
206 132 0.69
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (204 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGCTTA
CGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCG
TCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAG
ATCTAAGGT
Found at i:63570300 original size:386 final size:384
Alignment explanation
Indices: 63569825--63570595 Score: 1263
Period size: 386 Copynumber: 2.0 Consensus size: 384
63569815 TTGTGCTTAT
* *
63569825 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTTTACGCTGAAGCAAATCTAAGATGA
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGCTTACGATGAAGCAAATCTAAGATGA
* *
63569890 TTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCGTCTCTATATTCGACGGAGAGCA
66 TTTGGCATCTCTATATTGTCAGAGAACAAACCGAAGTTTGGCATCTCTATATTCGACGGAGAGCA
** * * * * *
63569955 GACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAGATCTAAGGTGATTTGGCATCCT
131 GACACATAGCAGATCTAACCTTCAGATGGTTATACTGAACCAGATCCAAGATGATTTGGCATCCT
63570020 TGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAA
196 TGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAA
* *
63570085 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGTGTCTCCATATTC
261 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTC
* ** * * *
63570150 GACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAGATCCA
326 AACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
*
63570209 AAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTT--CATGCTTACGATGAAGCAAATCTAAGAT
* *
63570274 GATTTGGCATCTCTATATTGTCAGAGAAGAAATCGAAGTTTGGCATCTCTATATTCGACGGAGAG
64 GATTTGGCATCTCTATATTGTCAGAGAACAAACCGAAGTTTGGCATCTCTATATTCGACGGAGAG
* * *
63570339 CAGACACATAGCAGATCTAACTTTTAGATGGTTATACTGAACCAGATCCAAGATGATTTGGCATT
129 CAGACACATAGCAGATCTAACCTTCAGATGGTTATACTGAACCAGATCCAAGATGATTTGGCATC
* *
63570404 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGC
194 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGC
63570469 AAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATAT
259 AAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATAT
* *
63570534 TCAACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
324 TCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
63570595 A
1 A
63570596 GATGGTTTGG
Statistics
Matches: 356, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
384 34 0.10
386 322 0.90
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (384 bp):
AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGCTTACGATGAAGCAAATCTAAGATGA
TTTGGCATCTCTATATTGTCAGAGAACAAACCGAAGTTTGGCATCTCTATATTCGACGGAGAGCA
GACACATAGCAGATCTAACCTTCAGATGGTTATACTGAACCAGATCCAAGATGATTTGGCATCCT
TGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAA
ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTC
AACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
Found at i:63570331 original size:180 final size:180
Alignment explanation
Indices: 63570029--63570389 Score: 578
Period size: 180 Copynumber: 2.0 Consensus size: 180
63570019 TTGTGCTTAC
*
63570029 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATAAAGCAAATCTAAGAT
* **
63570094 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGACAGAGAG
66 GATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAGAG
** * * *
63570159 CAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAGATCCA
131 CAGACACATAGCAGATCTAACCTTCAGATGGTTATACTGAACCAGATCCA
* *
63570209 AAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATAAAGCAAATCTAAGAT
* * *
63570274 GATTTGGCATCTCTATATTGTCAGAGAAGAAATCGAAGTTTGGCATCTCTATATTCGACGGAGAG
66 GATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAGAG
* *
63570339 CAGACACATAGCAGATCTAACTTTTAGATGGTTATACTGAACCAGATCCA
131 CAGACACATAGCAGATCTAACCTTCAGATGGTTATACTGAACCAGATCCA
63570389 A
1 A
63570390 GATGATTTGG
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
180 165 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (180 bp):
AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATAAAGCAAATCTAAGAT
GATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAGAG
CAGACACATAGCAGATCTAACCTTCAGATGGTTATACTGAACCAGATCCA
Found at i:63570563 original size:206 final size:206
Alignment explanation
Indices: 63570209--63570715 Score: 807
Period size: 206 Copynumber: 2.5 Consensus size: 206
63570199 AGCAGATCCA
* * *
63570209 AAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGAT
* * * * *
63570274 GATTTGGCATCTCTATATTGTCAGAGAAGAAATCGAAGTTTGGCATCTCTATATTCGACGGAGAG
66 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTCCATATTCAACGGAGAG
* * * * *
63570339 CAGACACATAGCAGATCTAACTTTTAGATGGTTATACTGAACCAGATCCAAGATGATTTGGCATT
131 CAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAACCAGATCCAAGATGATTTGGCATC
63570404 CTTGTGCTTAC
196 CTTGTGCTTAC
63570415 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGAT
* *
63570480 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGG
66 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTCCATATTCAACGGAGAG
* * *
63570545 CAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATC
131 CAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAACCAGATCCAAGATGATTTGGCATC
63570610 CTTGTGCTTAC
196 CTTGTGCTTAC
* * * *
63570621 AAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCTTATGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGAT
*
63570686 GATTTGGCATCTCTGTATTGTCAGAAAACA
66 GATTTGGCATCTCTGTATTGTCAGAGAACA
63570716 GATCGAAGAT
Statistics
Matches: 278, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 278 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGAT
GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTCCATATTCAACGGAGAG
CAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAACCAGATCCAAGATGATTTGGCATC
CTTGTGCTTAC
Found at i:63571139 original size:19 final size:19
Alignment explanation
Indices: 63571115--63571212 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
63571105 AATCTTTAAG
*
63571115 GATATGCATTCTTAGATAT
1 GATATGCAATCTTAGATAT
*
63571134 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
63571153 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
63571170 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
63571189 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
63571210 GAT
1 GAT
63571213 CTTGTAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 16 0.23
19 45 0.64
21 9 0.13
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:63571165 original size:36 final size:37
Alignment explanation
Indices: 63571115--63571212 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
63571105 AATCTTTAAG
*
63571115 GATATGCATTCTTAGATATGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATATTAGATAT
* *
63571153 GATA-CAATCTTAGATATGATATGTAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATATTAGATAT
63571189 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
63571213 CTTGTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
36 33 0.62
38 11 0.21
40 9 0.17
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATATTAGATAT
Found at i:63574729 original size:11 final size:12
Alignment explanation
Indices: 63574702--63574730 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
63574692 GCCACACGCT
63574702 CGTGTGCTAGAC
1 CGTGTGCTAGAC
63574714 CGTGTGCTAG-C
1 CGTGTGCTAGAC
63574725 CGTGTG
1 CGTGTG
63574731 TCTCACACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.28
Consensus pattern (12 bp):
CGTGTGCTAGAC
Found at i:63576711 original size:21 final size:21
Alignment explanation
Indices: 63576672--63576711 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63576662 TATATATAAT
* * *
63576672 TAATAATATAATATTAAAATA
1 TAATAATACAACATAAAAATA
63576693 TAATAATACAACATAAAAA
1 TAATAATACAACATAAAAA
63576712 ACATGACACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATAATACAACATAAAAATA
Found at i:63576885 original size:8 final size:8
Alignment explanation
Indices: 63576872--63576897 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
63576862 ATACGTATTA
63576872 AAATATAT
1 AAATATAT
63576880 AAATATAT
1 AAATATAT
63576888 AAATATAT
1 AAATATAT
63576896 AA
1 AA
63576898 CAAAGCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATATAT
Found at i:63577051 original size:23 final size:23
Alignment explanation
Indices: 63577033--63577096 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
63577023 TGTATACACG
63577033 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
*
63577056 TACATAATAATAATAGTAATACTAA
1 TACATAATAAAAATA-T-ATACTAA
* *
63577081 TA-ATACTAATAATATA
1 TACATAATAAAAATATA
63577097 AAAATAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.41
24 12 0.32
25 9 0.24
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:63577067 original size:3 final size:3
Alignment explanation
Indices: 63577036--63577103 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
63577026 ATACACGTAC
* * * *
63577036 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA GTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
63577083 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
63577104 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:63577554 original size:18 final size:18
Alignment explanation
Indices: 63577527--63577564 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63577517 AAGAAAAAAA
*
63577527 AGAAGAGAGAGGGAAGAG
1 AGAAGAGAGAGAGAAGAG
*
63577545 AGAAGGGAGAGAGAAGAG
1 AGAAGAGAGAGAGAAGAG
63577563 AG
1 AG
63577565 GGGAATCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (18 bp):
AGAAGAGAGAGAGAAGAG
Found at i:63577559 original size:11 final size:12
Alignment explanation
Indices: 63577528--63577560 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
63577518 AGAAAAAAAA
63577528 GAAGAGAG-AGG
1 GAAGAGAGAAGG
63577539 GAAGAGAGAAGG
1 GAAGAGAGAAGG
63577551 G-AGAGAGAAG
1 GAAGAGAGAAG
63577561 AGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:63579213 original size:17 final size:18
Alignment explanation
Indices: 63579193--63579233 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
63579183 CTAGCTTTGG
63579193 CCTTTCTCCTTT-TCTTT
1 CCTTTCTCCTTTCTCTTT
* *
63579210 CCTTT-TTCTTTCTTTTT
1 CCTTTCTCCTTTCTCTTT
63579227 CCTTTCT
1 CCTTTCT
63579234 GTTTCGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CCTTTCTCCTTTCTCTTT
Found at i:63579233 original size:11 final size:10
Alignment explanation
Indices: 63579202--63579275 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
63579192 GCCTTTCTCC
63579202 TTTTCTTTCCT
1 TTTTCTTT-CT
63579213 TTTTCTTTCT
1 TTTTCTTTCT
63579223 TTTTCCTTTCT
1 TTTT-CTTTCT
*
63579234 GTTTCGTTTCT
1 TTTTC-TTTCT
* *
63579245 ATCTTGTTTCT
1 -TTTTCTTTCT
*
63579256 TTTACTATTTCT
1 TTT--TCTTTCT
63579268 TTTTCTTT
1 TTTTCTTT
63579276 TATTTAATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 13 0.25
11 27 0.53
12 11 0.22
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:63581369 original size:131 final size:130
Alignment explanation
Indices: 63581137--63581416 Score: 284
Period size: 131 Copynumber: 2.2 Consensus size: 130
63581127 TTTATATACA
* * *
63581137 TATTTTTATAATTTTCCTTTTTTTAGAAATAATTTTAATTTTTTCCATTAAAAGAGAAAAATCTG
1 TATTTTTTTAATTTTCCTTTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGAGAAAAAGCTG
* * * * * *
63581202 GGGTTTTACAATAAATTATCTAAGCTTTTATAAAAAAACTTG-GGCTTTTACGGGAAAAACTCAA
66 GGGTTTTACAAGAAACTATCCAAGCTTTTATAAAAAAAATTGAGG-ATTTACAGGAAAAA-TCAA
63581266 TT
129 TT
* * * **
63581268 TATTTTTTTAATTTTTC-TTTTTTAGAATTACTTTTAATTTTTTTTGAGTAAAAGAG-AAAAGCA
1 TATTTTTTTAATTTTCCTTTTTTTAGAAATAATTTTAA-TTTTTTCCAGTAAAAGAGAAAAAGC-
* * *
63581331 TGGGG-TTTACAAGGAACTA-CCAGGGTTTTATAAGAAAAAAATTGAGGATTTACAGGAAAAATC
64 TGGGGTTTTACAAGAAACTATCCAAGCTTTTAT-A-AAAAAAATTGAGGATTTACAGGAAAAATC
*
63581394 ATTT
127 AATT
* *
63581398 TATCTTTTTAA-CTTCCTTT
1 TATTTTTTTAATTTTCCTTT
63581417 AATTTTGTCC
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
129 12 0.10
130 52 0.43
131 56 0.46
132 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (130 bp):
TATTTTTTTAATTTTCCTTTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGAGAAAAAGCTG
GGGTTTTACAAGAAACTATCCAAGCTTTTATAAAAAAAATTGAGGATTTACAGGAAAAATCAATT
Found at i:63582489 original size:44 final size:44
Alignment explanation
Indices: 63582439--63582531 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
63582429 TACCAACAAG
63582439 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
1 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
*
63582483 TATCTCAACTCACTTTTACAACATTAGTTCCAACATTAATAGGA
1 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
63582527 TATCT
1 TATCT
63582532 GTCTTCAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (44 bp):
TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
Found at i:63600234 original size:15 final size:15
Alignment explanation
Indices: 63600214--63600246 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
63600204 CCATACTGGC
*
63600214 TTTTCTTTTATAGCT
1 TTTTCTTTCATAGCT
63600229 TTTTCTTTCATAGCT
1 TTTTCTTTCATAGCT
63600244 TTT
1 TTT
63600247 ATAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCATAGCT
Found at i:63619304 original size:1 final size:1
Alignment explanation
Indices: 63619298--63619333 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
63619288 TACTTTGCCT
63619298 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
63619334 GGGAGAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:63620316 original size:44 final size:44
Alignment explanation
Indices: 63620244--63621134 Score: 654
Period size: 44 Copynumber: 20.3 Consensus size: 44
63620234 GATTGAAGTC
* * * *
63620244 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * *
63620288 AAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* *
63620332 AAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * * * * * *
63620376 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGGTTG
1 AAGATAGCAGATCTTGTCTTCCTATA-TTGGTAG-GAAGTAGATCG
* * * ** * ** * *
63620422 AAGATGGCGGATTTTACCTCCCTGAT-TACAGT-GG-AGTACATTG
1 AAGATAGCAGATCTTGTCTTCCT-ATAT-TGGTAGGAAGTAGATCG
* * * * *** * *
63620465 AAGCT-GATAGTTC-TATC-TCC---CGGGGCAAGAAGTAGATCG
1 AAGATAG-CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* * * * *
63620504 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* *
63620548 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * *
63620592 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * * *
63620636 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* * *
63620680 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * *
63620724 AAGAGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * * *
63620768 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* *
63620812 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * *
63620856 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * * *
63620900 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* * *
63620944 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * *
63620988 AAGAGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCG
* * * * *
63621032 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
* * *
63621076 AAGATA-CAAATCTTGTCTTCCCATACTGGT-GGTAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGG--AAGTAGATCG
*
63621120 AAGAAAGCAGATCTT
1 AAGATAGCAGATCTT
63621135 ATCCCTGTAT
Statistics
Matches: 652, Mismatches: 164, Indels: 61
0.74 0.19 0.07
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 14 0.02
40 5 0.01
41 5 0.01
42 6 0.01
43 140 0.21
44 333 0.51
45 114 0.17
46 32 0.05
47 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCG
Found at i:63620733 original size:132 final size:132
Alignment explanation
Indices: 63620493--63621134 Score: 1203
Period size: 132 Copynumber: 4.9 Consensus size: 132
63620483 CCCGGGGCAA
63620493 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
63620558 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
63620623 GT
131 GT
63620625 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
* *
63620690 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
63620755 GT
131 GT
63620757 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
63620822 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
63620887 GT
131 GT
63620889 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
* *
63620954 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
63621019 GT
131 GT
* *
63621021 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATACAAA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
* **
63621086 TCTTGTCTTCCCATACTGGTGGTAAAGTAGATCGAAGAAAGCAGATCTT
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTT
63621135 ATCCCTGTAT
Statistics
Matches: 497, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 497 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:63623029 original size:3 final size:3
Alignment explanation
Indices: 63623021--63623050 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
63623011 TATTCCAATG
63623021 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63623051 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:63623834 original size:105 final size:105
Alignment explanation
Indices: 63623643--63623848 Score: 349
Period size: 105 Copynumber: 2.0 Consensus size: 105
63623633 AAAATTTTTC
* *
63623643 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGGT
1 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* * *
63623708 TTCTTGTTCGACCAAATAGCCAAATATCCTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAACTTT
*
63623748 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
63623813 TTCTCGTTCGACTAAACAGCCAAATATCCTCTTAAA
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAA
63623849 GCTTCAAAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (105 bp):
TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAACTTT
Found at i:63626793 original size:17 final size:17
Alignment explanation
Indices: 63626768--63626804 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
63626758 AGGAATTCAT
*
63626768 TTATTATAATATTTAAA
1 TTATCATAATATTTAAA
*
63626785 TTATCATAATATTTTAA
1 TTATCATAATATTTAAA
63626802 TTA
1 TTA
63626805 AAATTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATCATAATATTTAAA
Found at i:63630157 original size:44 final size:44
Alignment explanation
Indices: 63630068--63630158 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
63630058 AGTATTTTTT
* * * * *
63630068 ATTTATACATTCAATTAAGTTTGTGCAAAATATAATATATTTTA
1 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAATATATTA
63630112 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAACTA-ATTA
1 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAA-TATATTA
63630156 ATT
1 ATT
63630159 GAATCTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (44 bp):
ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAATATATTA
Found at i:63634496 original size:5 final size:5
Alignment explanation
Indices: 63634486--63634514 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
63634476 TATAAAATAT
63634486 TATTA TATTA TATTA TATTA TATTA -ATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
63634515 AATAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:63634538 original size:13 final size:14
Alignment explanation
Indices: 63634514--63634542 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63634504 TATATTAATT
63634514 AAATAAAGTAAATA
1 AAATAAAGTAAATA
63634528 AAATAAA-TAAATA
1 AAATAAAGTAAATA
63634541 AA
1 AA
63634543 TCAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAGTAAATA
Found at i:63635414 original size:5 final size:5
Alignment explanation
Indices: 63635408--63635446 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
63635398 TGTGGTATTG
* *
63635408 AATTG AATTG AATTC AATTC AATTC AATTC AATTC AATT
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATT
63635447 ATAAGTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (5 bp):
AATTC
Found at i:63639503 original size:17 final size:16
Alignment explanation
Indices: 63639464--63639507 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
63639454 CATACTTGAA
*
63639464 AAAAAAATTTAAAACT
1 AAAAAAATTAAAAACT
* *
63639480 AATAAAATTAAGAAATT
1 AAAAAAATTAA-AAACT
63639497 AAAAAAATTAA
1 AAAAAAATTAA
63639508 TTAAACATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAAAATTAAAAACT
Found at i:63640468 original size:19 final size:19
Alignment explanation
Indices: 63640444--63640484 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
63640434 TGTATACAGC
63640444 TATATATTAA-ATTAAAATT
1 TATATA-TAATATTAAAATT
*
63640463 TATATATAATTTTAAAATT
1 TATATATAATATTAAAATT
63640482 TAT
1 TAT
63640485 TCTATTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATAATATTAAAATT
Found at i:63641497 original size:26 final size:26
Alignment explanation
Indices: 63641468--63641520 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
63641458 AGTGATAATT
63641468 TATTCATCAC-TTAATTAAATATAAAA
1 TATTCATCACTTTAATT-AATATAAAA
* * *
63641494 TATTTATCTCTTTAATTAATTTAAAA
1 TATTCATCACTTTAATTAATATAAAA
63641520 T
1 T
63641521 TATTAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTCATCACTTTAATTAATATAAAA
Found at i:63654627 original size:27 final size:27
Alignment explanation
Indices: 63654597--63654648 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
63654587 CCCAAAACGG
*
63654597 GTCGAGCCTGTCAAGTAGGCACGACTA
1 GTCGAGCCTGACAAGTAGGCACGACTA
* * *
63654624 GTCGTGCCTGACAGGTAGGCTCGAC
1 GTCGAGCCTGACAAGTAGGCACGAC
63654649 ACCCCCACCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (27 bp):
GTCGAGCCTGACAAGTAGGCACGACTA
Found at i:63654873 original size:19 final size:18
Alignment explanation
Indices: 63654847--63654885 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
63654837 AAAGGAGAGA
**
63654847 AAGGAGAATGAGAAGAAG
1 AAGGAGAAAAAGAAGAAG
63654865 AAGGAAGAAAAAGAAGAAG
1 AAGG-AGAAAAAGAAGAAG
63654884 AA
1 AA
63654886 AAAAAGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (18 bp):
AAGGAGAAAAAGAAGAAG
Found at i:63655281 original size:113 final size:113
Alignment explanation
Indices: 63655155--63655514 Score: 593
Period size: 113 Copynumber: 3.2 Consensus size: 113
63655145 TTTTATAGTT
* *
63655155 GATTAGTTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
63655220 TAATATATTTTAAAAAAAATAATTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAAATAATTATAGCTATTTTATTAGTAATTTAA
* *
63655268 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATGGTAATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
**
63655333 TAATATATTTTTTAAAAAA-AATTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAAATAATTATAGCTATTTTATTAGTAATTTAA
*
63655380 GTTTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
** *
63655445 TAATATA-TTTAAAAAAAGATTTTTATAGCTATTTTATTAGGAATTTAA
66 TAATATATTTTAAAAAAA-ATAATTATAGCTATTTTATTAGTAATTTAA
63655493 GATTAGGTTATAT--ATTGTTAGT
1 GATTAGGTTATATAAATTGTTAGT
63655515 TAGTGTATTG
Statistics
Matches: 230, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
111 17 0.07
112 98 0.43
113 115 0.50
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (113 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
TAATATATTTTAAAAAAAATAATTATAGCTATTTTATTAGTAATTTAA
Found at i:63655661 original size:15 final size:16
Alignment explanation
Indices: 63655632--63655663 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
63655622 TGTGATTTTT
63655632 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
63655648 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
63655663 T
1 T
63655664 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:63657847 original size:25 final size:22
Alignment explanation
Indices: 63657798--63657856 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
63657788 AAATACATAC
63657798 ATAATATATA-AAATATAAAAT
1 ATAATATATATAAATATAAAAT
*
63657819 ATAATATATATATATATTAGAAAT
1 ATAATATATATAAATA-TA-AAAT
63657843 GATAATA-ATATAAA
1 -ATAATATATATAAA
63657857 AAAAACTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 10 0.31
22 4 0.12
23 2 0.06
24 10 0.31
25 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
ATAATATATATAAATATAAAAT
Found at i:63657930 original size:19 final size:19
Alignment explanation
Indices: 63657906--63657944 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
63657896 TATAAATAAT
*
63657906 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
63657925 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
63657944 A
1 A
63657945 TAAAATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:63657999 original size:22 final size:23
Alignment explanation
Indices: 63657974--63658019 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
63657964 AAGAACTAAT
63657974 AATAT-TAAAATATATACATAAC
1 AATATGTAAAATATATACATAAC
* *
63657996 AATATGTAAATTGTATACATAAC
1 AATATGTAAAATATATACATAAC
63658019 A
1 A
63658020 TAGTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
AATATGTAAAATATATACATAAC
Found at i:63658247 original size:3 final size:3
Alignment explanation
Indices: 63658127--63658235 Score: 69
Period size: 3 Copynumber: 34.7 Consensus size: 3
63658117 AAAACACTAT
* * *
63658127 TAA TAA TGA TATA TAA TATA TATA TAA GTAT TAA GTAG TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TA-A TAA -TAA TAA -TAA TAA TAA TAA
* * *
63658174 TAA TAA TAA TAA TAA TGA -AA TAC TAA TAAA TAA AAA CT-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA
* *
63658219 TAA TAA CAG TAA TAA TA
1 TAA TAA TAA TAA TAA TA
63658236 GTATAAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
2 2 0.02
3 63 0.77
4 17 0.21
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:63660087 original size:86 final size:87
Alignment explanation
Indices: 63659885--63660201 Score: 358
Period size: 88 Copynumber: 3.6 Consensus size: 87
63659875 GGCATGTGAT
* * * * * *
63659885 CCTGA-GCTCAACTCACTTCTCGCAATATGAGTTGACTCTTTAAAACAGACATT--AAAAACAAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAAATTGAAAAAACAGA
* *
63659947 AATTGAAAATAGCTCAGCACGTGAG
66 AATTGAAAATACCTCAG--CGTG-C
* * * *
63659972 CC-AATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAATTTG-AAAAGCAG-
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAAATTGAAAAAACAGA
* *
63660034 ATTTCGAAAATACTTCAGCGTGC
66 AATT-GAAAATACCTCAGCGTGC
* * * *
63660057 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATAG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TAAAAGAGAAATTGAAAAAACAG
*
63660122 AAATTGAAAATACCTCAGCGTGT
65 AAATTGAAAATACCTCAGCGTGC
63660145 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-AAAAG-AGAAATTG
63660202 TAAATTCCCC
Statistics
Matches: 194, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
85 2 0.01
86 41 0.21
87 57 0.29
88 84 0.43
89 10 0.05
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (87 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAAATTGAAAAAACAGA
AATTGAAAATACCTCAGCGTGC
Found at i:63660119 original size:15 final size:15
Alignment explanation
Indices: 63660099--63660131 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
63660089 TTGATTTTTG
*
63660099 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
63660114 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
63660129 AAA
1 AAA
63660132 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:63660301 original size:73 final size:73
Alignment explanation
Indices: 63660115--63660418 Score: 441
Period size: 74 Copynumber: 4.2 Consensus size: 73
63660105 ATAAATTGAA
*
63660115 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
63660180 ATTTTTTG
66 ATTTTTTG
* * * * *
63660188 AAAAGCAGAAATTGTAAATTCCCCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
63660253 GA-TTTTTG
65 GATTTTTTG
* * *
63660261 ACAAATAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
63660326 GATTTTTTG
65 GATTTTTTG
* * **
63660335 AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
63660400 GA-ATTTTG
65 GATTTTTTG
63660408 AAAACAGAAAT
1 AAAACAGAAAT
63660419 AAAAACATTA
Statistics
Matches: 205, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.04
73 75 0.37
74 122 0.60
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:63660388 original size:147 final size:146
Alignment explanation
Indices: 63660115--63660418 Score: 466
Period size: 147 Copynumber: 2.1 Consensus size: 146
63660105 ATAAATTGAA
63660115 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * **
63660180 ATTTTTTGAAAAGCAGAAATTGTAAATTCCCCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAA
66 ATTTTTTGAAAAGCAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
63660245 TATGAGTTGATTTTTG
131 TATGAGTTGAATTTTG
* *
63660261 ACAAATAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * **
63660326 GATTTTTTG-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
65 GATTTTTTGAAAAG-CAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGC
63660390 AATATGAGTTGAATTTTG
129 AATATGAGTTGAATTTTG
*
63660408 AAAACAGAAAT
1 AAAATAGAAAT
63660419 AAAAACATTA
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
146 14 0.10
147 129 0.90
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (146 bp):
AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGAAAAGCAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGAATTTTG
Found at i:63671867 original size:52 final size:49
Alignment explanation
Indices: 63671782--63672148 Score: 422
Period size: 46 Copynumber: 7.6 Consensus size: 49
63671772 TTTGAGTACT
* **
63671782 TCTGATCAAGTGAC---AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
63671828 TCTGATCAAGAGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
63671880 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
63671926 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
63671972 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
63672024 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
63672076 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
63672122 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
63672149 GCTACACTTA
Statistics
Matches: 289, Mismatches: 18, Indels: 28
0.86 0.05 0.08
Matches are distributed among these distances:
46 155 0.54
48 1 0.00
49 1 0.00
52 132 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:63671903 original size:98 final size:97
Alignment explanation
Indices: 63671782--63672148 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
63671772 TTTGAGTACT
* *
63671782 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-
*
63671847 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * * *
63671880 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
63671940 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
63671972 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
63672037 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
63672076 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGT
63672141 GATAAGTG
65 GA-AAGTG
63672149 GCTACACTTA
Statistics
Matches: 236, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
92 42 0.18
98 141 0.60
99 10 0.04
104 43 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:63672130 original size:196 final size:196
Alignment explanation
Indices: 63671796--63672148 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
63671786 ATCAAGTGAC
* * *
63671796 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAAGTA
* * * * *
63671861 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
63671926 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
63671991 G
196 G
* * *
63671992 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAAGTA
*
63672057 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
63672122 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
63672149 GCTACACTTA
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:63672156 original size:37 final size:37
Alignment explanation
Indices: 63672112--63672221 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
63672102 GATAGCTTTA
63672112 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
63672149 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
63672186 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
63672222 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Done.