Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 24 of 185
Found at i:6759987 original size:57 final size:57
Alignment explanation
Indices: 6759891--6760008 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 57
6759881 AATAAACCCT
* ** *
6759891 AAATCTTAAAACCCTAAAACTAAACTACCAACCTTAAACCTTCAAACTTCAAAC-CTTA
1 AAATCTTAAAACCCTAAAACTAAACTACAAACCAAAAACCTT-AAAC-TCAAACACTAA
* **
6759949 AAATCTT-AAACCCTAAAATTAAACTTTAAACCAAAAACCTTAAACTCAAACACTAA
1 AAATCTTAAAACCCTAAAACTAAACTACAAACCAAAAACCTTAAACTCAAACACTAA
6760005 AAAT
1 AAAT
6760009 TAGACCTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 6 0.12
56 11 0.21
57 28 0.54
58 7 0.13
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (57 bp):
AAATCTTAAAACCCTAAAACTAAACTACAAACCAAAAACCTTAAACTCAAACACTAA
Found at i:6759991 original size:21 final size:23
Alignment explanation
Indices: 6759941--6759995 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
6759931 TTCAAACTTC
* *
6759941 AAACCTTAAAATCTTAAACCCTA
1 AAACCTTAAACTCTTAAACCCAA
6759964 AAA--TTAAACT-TTAAA-CCAA
1 AAACCTTAAACTCTTAAACCCAA
6759983 AAACCTTAAACTC
1 AAACCTTAAACTC
6759996 AAACACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 6 0.22
20 5 0.19
21 13 0.48
23 3 0.11
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (23 bp):
AAACCTTAAACTCTTAAACCCAA
Found at i:6760052 original size:20 final size:20
Alignment explanation
Indices: 6760023--6760060 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6760013 CCTTAAATAA
*
6760023 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
6760043 TAAACAATAAACCCTAAA
1 TAAACAATAAACCCTAAA
6760061 TAAAAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6760159 original size:8 final size:7
Alignment explanation
Indices: 6760139--6760172 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6760129 ACTATACACA
6760139 TAAACCC
1 TAAACCC
6760146 TAAACCC
1 TAAACCC
6760153 TTAAACCC
1 -TAAACCC
*
6760161 TAAACCA
1 TAAACCC
6760168 TAAAC
1 TAAAC
6760173 ATTAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:6760271 original size:20 final size:20
Alignment explanation
Indices: 6760243--6760281 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6760233 AATGAAAAAC
*
6760243 TAAACCATAAACATAAACCT
1 TAAAACATAAACATAAACCT
*
6760263 TAAAACATAAGCATAAACC
1 TAAAACATAAACATAAACC
6760282 CTTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.23, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAACATAAACATAAACCT
Found at i:6761227 original size:13 final size:13
Alignment explanation
Indices: 6761211--6761273 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
6761201 AACCTATATA
6761211 TAAACCATAAACC
1 TAAACCATAAACC
6761224 TAAA-C-TCAAACAC
1 TAAACCAT-AAAC-C
*
6761237 TAAA-CACAAACC
1 TAAACCATAAACC
*
6761249 TAAACCCTAAACC
1 TAAACCATAAACC
*
6761262 TTAAACCTTAAA
1 -TAAACCATAAA
6761274 TATTATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 10 0.24
13 20 0.49
14 10 0.24
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAACCATAAACC
Found at i:6761304 original size:159 final size:159
Alignment explanation
Indices: 6761122--6761432 Score: 500
Period size: 159 Copynumber: 2.0 Consensus size: 159
6761112 ATAAACCCTT
6761122 ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
1 ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
* * *
6761187 ACTAGAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACAC-AAACCTA
66 ACTACAAACCCTAAAACCTATATATAAACAAT-AACCTAAACTCAAACACTAAACACTAAACATA
*
6761251 AACC-CTAAACCTTAAACCTTAAATATTATA
130 AACCAC-AAACCCTAAACCTTAAATATTATA
* *
6761281 ATTATATCATAAACCATACACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
1 ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
* * *
6761346 ATTACAAACCCTAAAACCTATATATAAACAATAACCTAAACTCGAACACTAAACACTAAACATTA
66 ACTACAAACCCTAAAACCTATATATAAACAATAACCTAAACTCAAACACTAAACACTAAACATAA
*
6761411 ACCACAAACCCTAAACTTTAAA
131 ACCACAAACCCTAAACCTTAAA
6761433 CCCTAAACCT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
158 23 0.16
159 116 0.83
160 1 0.01
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.21
Consensus pattern (159 bp):
ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
ACTACAAACCCTAAAACCTATATATAAACAATAACCTAAACTCAAACACTAAACACTAAACATAA
ACCACAAACCCTAAACCTTAAATATTATA
Found at i:6761435 original size:14 final size:14
Alignment explanation
Indices: 6761416--6761447 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6761406 CATTAACCAC
*
6761416 AAACCCTAAACTTT
1 AAACCCTAAACCTT
6761430 AAACCCTAAACCTT
1 AAACCCTAAACCTT
6761444 AAAC
1 AAAC
6761448 ATTATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:6761506 original size:20 final size:20
Alignment explanation
Indices: 6761443--6761508 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
6761433 CCCTAAACCT
* *
6761443 TAAACATTATAATTATATTA
1 TAAACACTATAATTATATCA
* * * * *
6761463 TAAACCCTAAAAATCA-ACCT
1 TAAACACT-ATAATTATATCA
6761483 TAAACACTATAATTATATCA
1 TAAACACTATAATTATATCA
6761503 TAAACA
1 TAAACA
6761509 ATAAATATAA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 5 0.16
20 22 0.69
21 5 0.16
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAACACTATAATTATATCA
Found at i:6761569 original size:20 final size:20
Alignment explanation
Indices: 6761540--6761583 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6761530 TAATGAAAAA
*
6761540 CTAAACCATAAACATAAACC
1 CTAAAACATAAACATAAACC
*
6761560 CTAAAACATAAGCATAAACC
1 CTAAAACATAAACATAAACC
6761580 CTAA
1 CTAA
6761584 TTATATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.27, G:0.02, T:0.16
Consensus pattern (20 bp):
CTAAAACATAAACATAAACC
Found at i:6761605 original size:7 final size:7
Alignment explanation
Indices: 6761593--6761671 Score: 54
Period size: 7 Copynumber: 11.4 Consensus size: 7
6761583 ATTATATCTA
6761593 AAACCCT
1 AAACCCT
6761600 AAACCCT
1 AAACCCT
6761607 AAACCCT
1 AAACCCT
*
6761614 AAACCATT
1 AAACC-CT
*
6761622 AAACCTT
1 AAACCCT
* *
6761629 ATA-CTT
1 AAACCCT
***
6761635 AAATTAT
1 AAACCCT
6761642 AAACCCT
1 AAACCCT
6761649 AAACCC-
1 AAACCCT
*
6761655 AAACCAT
1 AAACCCT
*
6761662 CAACCCT
1 AAACCCT
6761669 AAA
1 AAA
6761672 TATAAATCGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
6 10 0.18
7 41 0.72
8 6 0.11
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:6761712 original size:21 final size:19
Alignment explanation
Indices: 6761666--6761708 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
6761656 AACCATCAAC
6761666 CCTAAATATAAATCGTAAA
1 CCTAAATATAAATCGTAAA
6761685 TCCTAAATTATAAATAC-TAAA
1 -CCTAAA-TATAAAT-CGTAAA
6761706 CCT
1 CCT
6761709 TAAACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 11 0.52
22 1 0.05
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (19 bp):
CCTAAATATAAATCGTAAA
Found at i:6761766 original size:7 final size:7
Alignment explanation
Indices: 6761756--6761820 Score: 62
Period size: 7 Copynumber: 9.6 Consensus size: 7
6761746 AATTAAATTG
6761756 TAAACCC
1 TAAACCC
*
6761763 TAAACCT
1 TAAACCC
* *
6761770 TAAGCCT
1 TAAACCC
6761777 TAAACCC
1 TAAACCC
6761784 TAAA-CC
1 TAAACCC
*
6761790 TAAACTC
1 TAAACCC
*
6761797 -AAACGC
1 TAAACCC
*
6761803 TAAACAC
1 TAAACCC
6761810 TAAACCC
1 TAAACCC
6761817 TAAA
1 TAAA
6761821 TACATATCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 11 0.23
7 37 0.77
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:6761833 original size:20 final size:20
Alignment explanation
Indices: 6761810--6761899 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
6761800 CGCTAAACAC
*
6761810 TAAACCCTAAATACATATCA
1 TAAACCCTAAATATATATCA
* * * *
6761830 TAAACCGTAAATATAAACCT
1 TAAACCCTAAATATATATCA
*
6761850 TAAACACTATAAT-TATATCA
1 TAAACCCTA-AATATATATCA
* * *
6761870 TAAACCCTAAATATAAACCT
1 TAAACCCTAAATATATATCA
6761890 TAAACCCTAA
1 TAAACCCTAA
6761900 TGAAAAACTA
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.50, C:0.22, G:0.01, T:0.27
Consensus pattern (20 bp):
TAAACCCTAAATATATATCA
Found at i:6761847 original size:40 final size:39
Alignment explanation
Indices: 6761810--6761899 Score: 135
Period size: 40 Copynumber: 2.3 Consensus size: 39
6761800 CGCTAAACAC
*
6761810 TAAACCCTAAATACATATCATAAACCGTAAATATAAACCT
1 TAAACCCTAAAT-CATATCATAAACCCTAAATATAAACCT
* *
6761850 TAAACACTATAATTATATCATAAACCCTAAATATAAACCT
1 TAAACCCTA-AATCATATCATAAACCCTAAATATAAACCT
6761890 TAAACCCTAA
1 TAAACCCTAA
6761900 TGAAAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 41 0.91
41 3 0.07
ACGTcount: A:0.50, C:0.22, G:0.01, T:0.27
Consensus pattern (39 bp):
TAAACCCTAAATCATATCATAAACCCTAAATATAAACCT
Found at i:6762003 original size:14 final size:14
Alignment explanation
Indices: 6761986--6762024 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
6761976 CACAAAACAC
*
6761986 TAAACCTTAAATTA
1 TAAACCTTAAAATA
*
6762000 TAAACCTTAAAATC
1 TAAACCTTAAAATA
6762014 TAAACCTTAAA
1 TAAACCTTAAA
6762025 CCCATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAACCTTAAAATA
Found at i:6762058 original size:20 final size:20
Alignment explanation
Indices: 6762000--6762083 Score: 91
Period size: 19 Copynumber: 4.2 Consensus size: 20
6761990 CCTTAAATTA
* *
6762000 TAAACCTTAAAATCTAAACCT
1 TAAACCATAAAA-CTAAACAT
*
6762021 TAAACCCATAAAAATAAACAT
1 TAAA-CCATAAAACTAAACAT
*
6762042 TAAACCATACAACTAAACA-
1 TAAACCATAAAACTAAACAT
*
6762061 TAAACCCTAAAACTAAA-AT
1 TAAACCATAAAACTAAACAT
6762080 TAAA
1 TAAA
6762084 AACCCTAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
18 1 0.02
19 19 0.35
20 13 0.24
21 14 0.26
22 7 0.13
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACCATAAAACTAAACAT
Found at i:6762230 original size:7 final size:7
Alignment explanation
Indices: 6762207--6762298 Score: 64
Period size: 7 Copynumber: 13.4 Consensus size: 7
6762197 ATATAAACTG
6762207 TAAA-CC
1 TAAACCC
*
6762213 TAAACTC
1 TAAACCC
*
6762220 -AAACAC
1 TAAACCC
*
6762226 TAAACAC
1 TAAACCC
6762233 TAAACCC
1 TAAACCC
6762240 TAAACCC
1 TAAACCC
***
6762247 TAAATTA
1 TAAACCC
**
6762254 TAAACAA
1 TAAACCC
* *
6762261 TTAACTC
1 TAAACCC
6762268 TAAACCC
1 TAAACCC
6762275 TAAA-CC
1 TAAACCC
6762281 TAAAACCC
1 T-AAACCC
6762289 TAAACCC
1 TAAACCC
6762296 TAA
1 TAA
6762299 TGAAAAATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
6 12 0.17
7 54 0.78
8 3 0.04
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:6762242 original size:14 final size:14
Alignment explanation
Indices: 6762207--6762448 Score: 66
Period size: 14 Copynumber: 17.7 Consensus size: 14
6762197 ATATAAACTG
*
6762207 TAAAC-CTAAACTC
1 TAAACACTAAACCC
*
6762220 -AAACACTAAACAC
1 TAAACACTAAACCC
*
6762233 TAAACCCTAAACCC
1 TAAACACTAAACCC
* **
6762247 TAAATTA-TAAACAA
1 TAAA-CACTAAACCC
* *
6762261 TTAACTCTAAACCC
1 TAAACACTAAACCC
6762275 TAAAC-CTAAAACCC
1 TAAACACT-AAACCC
*
6762289 TAAACCCT-AA---
1 TAAACACTAAACCC
* *
6762299 TGAAAAATTAAACCAC
1 T-AAACACTAAACC-C
6762315 -AAACA-TAAACCC
1 TAAACACTAAACCC
*
6762327 TTATTATATC-CTAAACCA
1 -TA--A-A-CACTAAACCC
*
6762345 T-AAC-CTCAAACAC
1 TAAACACT-AAACCC
6762358 TAAACACTAAACCC
1 TAAACACTAAACCC
* * * *
6762372 CAGACCCTAAA-TC
1 TAAACACTAAACCC
* *
6762385 TAAAC-TTAAACAC
1 TAAACACTAAACCC
** *
6762398 TAAATTCTAAACCT
1 TAAACACTAAACCC
6762412 TAAACAC-AAACCC
1 TAAACACTAAACCC
*
6762425 TAAACCCTAAACCC
1 TAAACACTAAACCC
*
6762439 TAAACCCTAA
1 TAAACACTAA
6762449 TAAAAAGCAT
Statistics
Matches: 167, Mismatches: 37, Indels: 49
0.66 0.15 0.19
Matches are distributed among these distances:
10 1 0.01
11 4 0.02
12 14 0.08
13 43 0.26
14 91 0.54
15 4 0.02
16 1 0.01
17 2 0.01
18 7 0.04
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACACTAAACCC
Found at i:6762364 original size:7 final size:7
Alignment explanation
Indices: 6762352--6762448 Score: 74
Period size: 7 Copynumber: 14.3 Consensus size: 7
6762342 CCATAACCTC
*
6762352 AAACACT
1 AAACCCT
*
6762359 AAACACT
1 AAACCCT
*
6762366 AAACCCC
1 AAACCCT
*
6762373 AGACCCT
1 AAACCCT
*
6762380 AAA-TCT
1 AAACCCT
*
6762386 AAA-CTT
1 AAACCCT
*
6762392 AAACACT
1 AAACCCT
**
6762399 AAATTCT
1 AAACCCT
*
6762406 AAACCTT
1 AAACCCT
*
6762413 AAACAC-
1 AAACCCT
6762419 AAACCCT
1 AAACCCT
6762426 AAACCCT
1 AAACCCT
6762433 AAACCCT
1 AAACCCT
6762440 AAACCCT
1 AAACCCT
6762447 AA
1 AA
6762449 TAAAAAGCAT
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
6 14 0.20
7 56 0.80
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:6762415 original size:27 final size:27
Alignment explanation
Indices: 6762352--6762443 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 27
6762342 CCATAACCTC
* * * *
6762352 AAACACTAAACACTAAACCCCAGACCCT
1 AAACCCTAAACAC-AAACACTAAACCCT
* ** **
6762380 AAA-TCTAAACTTAAACACTAAATTCT
1 AAACCCTAAACACAAACACTAAACCCT
* *
6762406 AAACCTTAAACACAAACCCTAAACCCT
1 AAACCCTAAACACAAACACTAAACCCT
6762433 AAACCCTAAAC
1 AAACCCTAAAC
6762444 CCTAATAAAA
Statistics
Matches: 47, Mismatches: 16, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
26 12 0.26
27 32 0.68
28 3 0.06
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (27 bp):
AAACCCTAAACACAAACACTAAACCCT
Found at i:6762462 original size:67 final size:67
Alignment explanation
Indices: 6762337--6762507 Score: 155
Period size: 67 Copynumber: 2.5 Consensus size: 67
6762327 TTATTATATC
* * * ** *
6762337 CTAAACCATAACCTCAAACACTAAACACTAAACCCCAGACCCTAAATCTAAACTTAAACACTAAA
1 CTAAACCATAAACACAAACACTAAACACTAAACCCCAAACCCTAAATAAAAACATAAACACTAAA
6762402 TT
66 TT
* * * * *
6762404 CTAAACCTTAAACACAAACCCTAAACCCTAAACCCTAAACCCT-AATAAAAAGCATAAACCCTTA
1 CTAAACCATAAACACAAACACTAAACACTAAACCCCAAACCCTAAATAAAAA-CATAAACAC-TA
*
6762468 TTATAT
64 -AAT-T
* * *
6762474 CAAAAACCATAACCTCAAACACTAAACACTAAAC
1 C-TAAACCATAAACACAAACACTAAACACTAAAC
6762508 ATTAAATTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
66 6 0.07
67 43 0.53
68 2 0.02
69 2 0.02
70 2 0.02
71 26 0.32
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (67 bp):
CTAAACCATAAACACAAACACTAAACACTAAACCCCAAACCCTAAATAAAAACATAAACACTAAA
TT
Found at i:6762526 original size:21 final size:21
Alignment explanation
Indices: 6762496--6762563 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
6762486 CCTCAAACAC
* *
6762496 TAAACACTAAACATTAAATTA
1 TAAACCCTAAACATTAAATAA
* *
6762517 TAAACCCTAAA-ACTATAATCA
1 TAAACCCTAAACATTA-AATAA
*
6762538 TAAACCCTAAACCTTAATATAA
1 TAAACCCTAAACATTAA-ATAA
6762560 TAAA
1 TAAA
6762564 TAAATCTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 3 0.08
21 26 0.68
22 9 0.24
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACATTAAATAA
Found at i:6762703 original size:7 final size:7
Alignment explanation
Indices: 6762693--6762717 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6762683 CTTTAAACCC
6762693 TAAATTA
1 TAAATTA
6762700 TAAATTA
1 TAAATTA
6762707 TAAATTA
1 TAAATTA
6762714 TAAA
1 TAAA
6762718 CCATAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:6762703 original size:14 final size:14
Alignment explanation
Indices: 6762686--6762724 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6762676 ATCTAAACTT
*
6762686 TAAACCCTAAATTA
1 TAAACCATAAATTA
**
6762700 TAAATTATAAATTA
1 TAAACCATAAATTA
6762714 TAAACCATAAA
1 TAAACCATAAA
6762725 CCTAAAACCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAACCATAAATTA
Found at i:6762742 original size:20 final size:21
Alignment explanation
Indices: 6762714--6762757 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
6762704 TTATAAATTA
*
6762714 TAAACCATAAACCTAAAACCC
1 TAAATCATAAACCTAAAACCC
*
6762735 TAAA-CATAAA-CTCAAACCC
1 TAAATCATAAACCTAAAACCC
6762754 TAAA
1 TAAA
6762758 AACAAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 6 0.27
21 4 0.18
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.16
Consensus pattern (21 bp):
TAAATCATAAACCTAAAACCC
Found at i:6762927 original size:21 final size:22
Alignment explanation
Indices: 6762901--6762942 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
6762891 AACCCTAAAA
6762901 TTAAACTTAAA-ACTAAAAACC
1 TTAAACTTAAACACTAAAAACC
6762922 TTAAACTTAAACACTAAAAAC
1 TTAAACTTAAACACTAAAAAC
6762943 TATACCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (22 bp):
TTAAACTTAAACACTAAAAACC
Found at i:6762986 original size:20 final size:20
Alignment explanation
Indices: 6762957--6763036 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
6762947 CCTTAAATGA
*
6762957 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
6762977 TAAACAATAAACCCTAAA-T
1 TAAACAATAAACCCTAAACT
* *
6762996 ATAAACCATAAACCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
*
6763018 TAAA-AACTAAACCTTAAAC
1 TAAACAA-TAAACCCTAAAC
6763037 ACTAAACCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 36 0.71
21 14 0.27
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6763019 original size:7 final size:7
Alignment explanation
Indices: 6762964--6763048 Score: 57
Period size: 7 Copynumber: 12.4 Consensus size: 7
6762954 TGATAAACTA
6762964 TAAACCC
1 TAAACCC
*
6762971 TAAA-CT
1 TAAACCC
**
6762977 TAAACAA
1 TAAACCC
6762984 TAAACCC
1 TAAACCC
**
6762991 TAAA-TA
1 TAAACCC
*
6762997 TAAACCA
1 TAAACCC
6763004 TAAACCC
1 TAAACCC
*
6763011 TAAATCC
1 TAAACCC
**
6763018 TAAAAAC
1 TAAACCC
*
6763025 TAAACCT
1 TAAACCC
*
6763032 TAAACAC
1 TAAACCC
6763039 TAAACCC
1 TAAACCC
6763046 TAA
1 TAA
6763049 TCACAAAAAA
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
6 9 0.16
7 49 0.84
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:6763041 original size:21 final size:21
Alignment explanation
Indices: 6762897--6763042 Score: 69
Period size: 21 Copynumber: 7.1 Consensus size: 21
6762887 CCCAAACCCT
*
6762897 AAAATTAAA-CTTAAA-ACTA
1 AAAACTAAACCTTAAACACTA
6762916 AAAACCTTAAA-CTTAAACACTA
1 AAAA-C-TAAACCTTAAACACTA
* *
6762938 AAAACTATACCTTAAATGA-TA
1 AAAACTAAACCTTAAA-CACTA
* * *
6762959 AACTA-TAAACCCTAAAC-TTA
1 AA-AACTAAACCTTAAACACTA
* *
6762979 AACAA-TAAACCCTAAATA-T-
1 AA-AACTAAACCTTAAACACTA
* *
6762998 AAACCATAAACCCTAAATC-CTA
1 AAAAC-TAAACCTTAAA-CACTA
6763020 AAAACTAAACCTTAAACACTA
1 AAAACTAAACCTTAAACACTA
6763041 AA
1 AA
6763043 CCCTAATCAC
Statistics
Matches: 100, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.01
19 6 0.06
20 33 0.33
21 46 0.46
22 14 0.14
ACGTcount: A:0.55, C:0.21, G:0.01, T:0.23
Consensus pattern (21 bp):
AAAACTAAACCTTAAACACTA
Found at i:6763111 original size:14 final size:14
Alignment explanation
Indices: 6762964--6763180 Score: 70
Period size: 14 Copynumber: 15.2 Consensus size: 14
6762954 TGATAAACTA
6762964 TAAACCCTAAA-CT
1 TAAACCCTAAACCT
** *
6762977 TAAACAATAAACCC
1 TAAACCCTAAACCT
** *
6762991 TAAA-TATAAACCA
1 TAAACCCTAAACCT
6763004 TAAACCCTAAATCC-
1 TAAACCCTAAA-CCT
**
6763018 TAAAAACTAAACCT
1 TAAACCCTAAACCT
* *
6763032 TAAACACTAAACCC
1 TAAACCCTAAACCT
* * ***
6763046 TAATCAC-AAAAAA
1 TAAACCCTAAACCT
* *
6763059 TAAA--CTATACAT
1 TAAACCCTAAACCT
6763071 ATAAACCCTAAAACCT
1 -TAAACCCT-AAACCT
**
6763087 TAAACTTTAAACCT
1 TAAACCCTAAACCT
6763101 TAAACCCTAAA-CT
1 TAAACCCTAAACCT
* *
6763114 AGAAATCCTAAAACCTATAT
1 -TAAACCCT-AAACC----T
* *
6763134 ATAAACCATAAACCC
1 -TAAACCCTAAACCT
*
6763149 TAAAACCTAAACCT
1 TAAACCCTAAACCT
6763163 TAAAACCCTAAACCT
1 T-AAACCCTAAACCT
6763178 TAA
1 TAA
6763181 TGAAAAACTA
Statistics
Matches: 152, Mismatches: 35, Indels: 33
0.69 0.16 0.15
Matches are distributed among these distances:
11 1 0.01
12 3 0.02
13 34 0.22
14 71 0.47
15 26 0.17
16 5 0.03
19 5 0.03
20 7 0.05
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:6763216 original size:14 final size:14
Alignment explanation
Indices: 6763135--6763218 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
6763125 AACCTATATA
*
6763135 TAAACCATAAACCC
1 TAAAACATAAACCC
* *
6763149 TAAAACCTAAACCT
1 TAAAACATAAACCC
* *
6763163 TAAAACCCTAAACCT
1 TAAAA-CATAAACCC
* *
6763178 TAATGAAAAACTAAACCA
1 T-A--AAACA-TAAACCC
6763196 T-AAACATAAACCC
1 TAAAACATAAACCC
6763209 TAAAACATAA
1 TAAAACATAA
6763219 GCATAAACCC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
13 7 0.12
14 28 0.50
15 10 0.18
16 1 0.02
18 10 0.18
ACGTcount: A:0.55, C:0.26, G:0.01, T:0.18
Consensus pattern (14 bp):
TAAAACATAAACCC
Found at i:6763217 original size:20 final size:20
Alignment explanation
Indices: 6763134--6763229 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
6763124 AAACCTATAT
6763134 ATAAACCATAAACCCTAAAAC
1 ATAAA-CATAAACCCTAAAAC
* * *
6763155 CTAAACCTTAAAACCCTAAACC
1 ATAAA-CAT-AAACCCTAAAAC
* ** * *
6763177 TTAATGA-AAA-ACTAAACC
1 ATAAACATAAACCCTAAAAC
6763195 ATAAACATAAACCCTAAAAC
1 ATAAACATAAACCCTAAAAC
*
6763215 ATAAGCATAAACCCT
1 ATAAACATAAACCCT
6763230 TATTATATCC
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
18 11 0.19
19 6 0.10
20 20 0.34
21 7 0.12
22 14 0.24
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (20 bp):
ATAAACATAAACCCTAAAAC
Found at i:6763384 original size:20 final size:20
Alignment explanation
Indices: 6763334--6763384 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6763324 AACCTTACAA
6763334 TTAAACATAAACCCTAAAAC
1 TTAAACATAAACCCTAAAAC
* *
6763354 -TACAACCTAAACCCTAAACC
1 TTA-AACATAAACCCTAAAAC
*
6763374 TTAAATATAAA
1 TTAAACATAAA
6763385 AACTAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (20 bp):
TTAAACATAAACCCTAAAAC
Found at i:6763658 original size:7 final size:7
Alignment explanation
Indices: 6763646--6763670 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6763636 CTTTAGGCCC
6763646 TAAATTA
1 TAAATTA
6763653 TAAATTA
1 TAAATTA
6763660 TAAATTA
1 TAAATTA
6763667 TAAA
1 TAAA
6763671 CCTAAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:6770163 original size:13 final size:13
Alignment explanation
Indices: 6770142--6770171 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6770132 TGCACTAGAG
*
6770142 AAGTGCTTTTGAA
1 AAGTACTTTTGAA
6770155 AAGTACTTTTGAA
1 AAGTACTTTTGAA
6770168 AAGT
1 AAGT
6770172 TTAGTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (13 bp):
AAGTACTTTTGAA
Found at i:6778085 original size:49 final size:49
Alignment explanation
Indices: 6778008--6778104 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
6777998 AGGATAGAAA
*
6778008 GCATGTGACTTGAAATTAACCTGTCTTCATTAATAACAAATGTAGATAT
1 GCATGTGACTTGAAATTAACCTGACTTCATTAATAACAAATGTAGATAT
* * *
6778057 GCATGTGATTTGAAATTAACTTGACTTCATTAATAACAAATGTTGATA
1 GCATGTGACTTGAAATTAACCTGACTTCATTAATAACAAATGTAGATA
6778105 CAATATTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (49 bp):
GCATGTGACTTGAAATTAACCTGACTTCATTAATAACAAATGTAGATAT
Found at i:6781033 original size:5 final size:6
Alignment explanation
Indices: 6781015--6781039 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6781005 TTCAACACGC
6781015 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
6781040 CAATTTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:6782255 original size:63 final size:63
Alignment explanation
Indices: 6782118--6782265 Score: 142
Period size: 63 Copynumber: 2.3 Consensus size: 63
6782108 ATCTCTGGAT
* * * *
6782118 AAGGTGTTAATGCAAGGAATGATTATGCGTGTTGTGGTGCTTGTGTAAAATAAAGTGGTACTA
1 AAGGTGATGATGCAGGGAATGATTATGCGTGTTGTGGTGCTTGTGTAAAATAAAGTGATACTA
* * * *
6782181 AATGTGTTGATGTAGGGAATGA-T-TGCGTGTGCTGTGGTGGTTGTGTAAAATAAA-TCAGATA-
1 AAGGTGATGATGCAGGGAATGATTATGCGTGT--TGTGGTGCTTGTGTAAAATAAAGT--GATAC
*
6782242 TG
62 TA
*
6782244 AAGGTGATGATGCGGGGAATGA
1 AAGGTGATGATGCAGGGAATGA
6782266 GTGTGTGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
61 7 0.10
62 2 0.03
63 58 0.83
64 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (63 bp):
AAGGTGATGATGCAGGGAATGATTATGCGTGTTGTGGTGCTTGTGTAAAATAAAGTGATACTA
Found at i:6784076 original size:27 final size:28
Alignment explanation
Indices: 6784042--6784115 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
6784032 AAAACAAAAA
6784042 AGAATTGAGAATTTAGAAT-AAAAA-TCG
1 AGAATTGAGAATTTAGAATCAAAAAGT-G
* *
6784069 AGAATTGACAATTGAGAATCAAAAAGTG
1 AGAATTGAGAATTTAGAATCAAAAAGTG
* *
6784097 AAAATTTAGAATTTAGAAT
1 AGAATTGAGAATTTAGAAT
6784116 TAAGTTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 17 0.44
28 21 0.54
29 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (28 bp):
AGAATTGAGAATTTAGAATCAAAAAGTG
Found at i:6786178 original size:29 final size:32
Alignment explanation
Indices: 6786146--6786211 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
6786136 TTAAGATGAC
*
6786146 TATATAAAAA-ATT-TTAATAAA-TAAAATAA
1 TATATAAAAATATTAATAATAAATTAAAATAA
*
6786175 TATATAAAAATATTAAATATTAAATTAAAATAA
1 TATATAAAAATATT-AATAATAAATTAAAATAA
6786208 TATA
1 TATA
6786212 AATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 10 0.32
30 3 0.10
32 6 0.19
33 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (32 bp):
TATATAAAAATATTAATAATAAATTAAAATAA
Found at i:6791023 original size:6 final size:6
Alignment explanation
Indices: 6790987--6791021 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6790977 AGAACCATAT
*
6790987 GGCATC GGCATC GGCATC GGCATC GGCATT GGCAT
1 GGCATC GGCATC GGCATC GGCATC GGCATC GGCAT
6791022 TGACACTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (6 bp):
GGCATC
Found at i:6794184 original size:13 final size:13
Alignment explanation
Indices: 6794166--6794195 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6794156 AAGCATACAC
6794166 CATAACATAATAT
1 CATAACATAATAT
6794179 CATAACATAATAT
1 CATAACATAATAT
6794192 CATA
1 CATA
6794196 GTTCCAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (13 bp):
CATAACATAATAT
Found at i:6794832 original size:11 final size:10
Alignment explanation
Indices: 6794798--6794831 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6794788 TAAAATCATT
6794798 AAAATTATAA
1 AAAATTATAA
6794808 AAAATGTAT-A
1 AAAAT-TATAA
6794818 AAAATTATAA
1 AAAATTATAA
6794828 AAAA
1 AAAA
6794832 AATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.14
10 16 0.73
11 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:6796282 original size:7 final size:7
Alignment explanation
Indices: 6796266--6796327 Score: 56
Period size: 7 Copynumber: 8.6 Consensus size: 7
6796256 AAAAAATTTA
6796266 AATATAT
1 AATATAT
*
6796273 AATTTAT
1 AATATAT
6796280 AATATAT
1 AATATAT
6796287 AATATAT
1 AATATAT
6796294 AAATGATAT
1 -AAT-ATAT
*
6796303 AATACATT
1 AATATA-T
6796311 AAT-T-T
1 AATATAT
6796316 AATAATAT
1 AAT-ATAT
6796324 AATA
1 AATA
6796328 AAAAAATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
5 4 0.09
7 23 0.51
8 14 0.31
9 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:6796285 original size:14 final size:14
Alignment explanation
Indices: 6796260--6796305 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
6796250 AATATGAAAA
6796260 AATTTA-AATATAT
1 AATTTATAATATAT
6796273 AATTTATAATATAT
1 AATTTATAATATAT
*
6796287 AATATATAAATGATAT
1 AATTTAT-AAT-ATAT
6796303 AAT
1 AAT
6796306 ACATTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 6 0.21
14 13 0.45
15 3 0.10
16 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
AATTTATAATATAT
Found at i:6800270 original size:3 final size:3
Alignment explanation
Indices: 6800262--6800314 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6800252 TATTTTTTAC
6800262 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6800310 ATT AT
1 ATT AT
6800315 ACATGAAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6801918 original size:17 final size:17
Alignment explanation
Indices: 6801896--6801931 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6801886 TAAATAAAGG
*
6801896 TTATTATCGAATGTGGT
1 TTATTATCGAATGGGGT
6801913 TTATTATCGAATGGGGT
1 TTATTATCGAATGGGGT
6801930 TT
1 TT
6801932 CGACGTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.47
Consensus pattern (17 bp):
TTATTATCGAATGGGGT
Found at i:6810732 original size:42 final size:42
Alignment explanation
Indices: 6810680--6810990 Score: 171
Period size: 43 Copynumber: 7.1 Consensus size: 42
6810670 TCCATTTTGG
*
6810680 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTTCA
1 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTGCA
* * *
6810722 TTTTAAAGGCCTAGTTGTGA-GATCTATTT-TATGTTTCCATTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTTC-ATTTACAT-TTT--ATTGCA
* * * **
6810766 TTTTAGAGACCTAATTGTGAGGTCCATTTACATTTTGCTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTGCA
* * * * ** *
6810808 CTTTAGAGGCCTAGTTGTG-TGATCTTTTTATGTTTTTGTTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTTC-ATTTA-CATTTTATTGCA
* ** *
6810851 TTTTAAAAACCTAGTTGTGAGGTCCAATTTTCATTTGCATTTT-TGCTGCA
1 TTTTAGAGGCCTAGTTGTGAGG-------TTCATTTACATTTTAT--TGCA
* * *
6810901 TTTTAGAGGCTTAGTTGTGAGGTTCGTTTACATTTCTATTGCG
1 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTT-TATTGCA
* * * * * * *
6810944 TTTTAGTGACTTAGTTGTGAAGTCCATTTTCATTTCTATTGTA
1 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTT-TATTGCA
6810987 TTTT
1 TTTT
6810991 TGTTTCAAAG
Statistics
Matches: 202, Mismatches: 47, Indels: 39
0.70 0.16 0.14
Matches are distributed among these distances:
41 7 0.03
42 50 0.25
43 77 0.38
44 31 0.15
45 5 0.02
48 1 0.00
49 4 0.02
50 25 0.12
51 2 0.01
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.47
Consensus pattern (42 bp):
TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTGCA
Found at i:6810784 original size:44 final size:43
Alignment explanation
Indices: 6810720--6810871 Score: 130
Period size: 44 Copynumber: 3.5 Consensus size: 43
6810710 CATTTTATTT
*
6810720 CATTTTAAAGGCCTAGTTGTGAGATCTATTTTATGTTTCCATTG
1 CATTTTAAAGACCTAGTTGTGAGATCTATTTTATGTTTCC-TTG
* * * * * *
6810764 CATTTTAGAGACCTAATTGTGAGGTCCATTTACAT-TTTGC-TG
1 CATTTTAAAGACCTAGTTGTGAGATCTATTT-TATGTTTCCTTG
* * * * **
6810806 CACTTTAGAGGCCTAGTTGTGTGATCT-TTTTATGTTTTTGTTG
1 CATTTTAAAGACCTAGTTGTGAGATCTATTTTATG-TTTCCTTG
*
6810849 CATTTTAAAAACCTAGTTGTGAG
1 CATTTTAAAGACCTAGTTGTGAG
6810872 GTCCAATTTT
Statistics
Matches: 83, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
40 2 0.02
41 3 0.04
42 26 0.31
43 20 0.24
44 30 0.36
45 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (43 bp):
CATTTTAAAGACCTAGTTGTGAGATCTATTTTATGTTTCCTTG
Found at i:6810823 original size:86 final size:85
Alignment explanation
Indices: 6810680--6810886 Score: 261
Period size: 86 Copynumber: 2.4 Consensus size: 85
6810670 TCCATTTTGG
* * * * *
6810680 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTTCATTTTAAAGGCCTAGTTGTGAGAT
1 TTTTAGAGACCTAGTTGTGAGGTCCATTTACATTTTACTGCACTTTAAAGGCCTAGTTGTGAGAT
6810745 CTATTTTATGTTTCCATTGCA
66 CT-TTTTATGTTTCCATTGCA
* * * *
6810766 TTTTAGAGACCTAATTGTGAGGTCCATTTACATTTTGCTGCACTTTAGAGGCCTAGTTGTGTGAT
1 TTTTAGAGACCTAGTTGTGAGGTCCATTTACATTTTACTGCACTTTAAAGGCCTAGTTGTGAGAT
***
6810831 CTTTTTATGTTTTTGTTGCA
66 CTTTTTATGTTTCCATTGCA
* * *
6810851 TTTTAAAAACCTAGTTGTGAGGTCCAATTTTCATTT
1 TTTTAGAGACCTAGTTGTGAGGTCC-ATTTACATTT
6810887 GCATTTTTGC
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 37 0.36
86 67 0.64
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (85 bp):
TTTTAGAGACCTAGTTGTGAGGTCCATTTACATTTTACTGCACTTTAAAGGCCTAGTTGTGAGAT
CTTTTTATGTTTCCATTGCA
Found at i:6812740 original size:200 final size:200
Alignment explanation
Indices: 6812390--6812765 Score: 657
Period size: 200 Copynumber: 1.9 Consensus size: 200
6812380 TTTGGTGTTT
* *
6812390 TAGGGTAATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCCGCTTTTTGCAGAAAAGGA
1 TAGGGTAATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCAGCCTTTTGCAGAAAAGGA
*
6812455 TCGCCGTATGGACTAATTGCAGTTCTCGTTCCTCTGCTTTTGATTTCTCCCCGATTTTGAAATTT
66 TCGCCGCATGGACTAATTGCAGTTCTCGTTCCTCTGCTTTTGATTTCTCCCCGATTTTGAAATTT
*
6812520 CAGGCAAATTAATTGCCAAATAGGTCCTCTGCTTCTTACATTTTTTTATCCTATTGATTTAGATT
131 CAGGCAAATTAATTGCCAAATAGGTACTCTGCTTCTTACATTTTTTTATCCTATTGATTTAGATT
6812585 TCTTA
196 TCTTA
* *
6812590 TAGGGTTATGTAAAGGGATATTTTCTACATAATTCTTTCTACGTCCAGCCTTTTGCAGAAAAGGA
1 TAGGGTAATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCAGCCTTTTGCAGAAAAGGA
6812655 TCGCCGCATGGACTAATTGCAGTTCTCG-TCTCTCTGCTTTTG-TATTCTCCCCGATTTTGAAAT
66 TCGCCGCATGGACTAATTGCAGTTCTCGTTC-CTCTGCTTTTGAT-TTCTCCCCGATTTTGAAAT
*
6812718 TTCAGGCAAATTAATTGCCAAATAGGTACTCTGTTTCTTACATTTTTT
129 TTCAGGCAAATTAATTGCCAAATAGGTACTCTGCTTCTTACATTTTTT
6812766 CTTAACTGCT
Statistics
Matches: 167, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
199 3 0.02
200 164 0.98
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (200 bp):
TAGGGTAATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCAGCCTTTTGCAGAAAAGGA
TCGCCGCATGGACTAATTGCAGTTCTCGTTCCTCTGCTTTTGATTTCTCCCCGATTTTGAAATTT
CAGGCAAATTAATTGCCAAATAGGTACTCTGCTTCTTACATTTTTTTATCCTATTGATTTAGATT
TCTTA
Found at i:6814706 original size:251 final size:251
Alignment explanation
Indices: 6814218--6814723 Score: 745
Period size: 251 Copynumber: 2.0 Consensus size: 251
6814208 GCTTATTTTG
* *
6814218 AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGCATTGTGTATTTTATCATAGGTTAGCTTCTTT
1 AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGAATTGTGTATTTTATCATAGGTTAGCTTATTT
* *
6814283 TTGAATTTCATACTTTAATTTTTTTTATATTAGGTTTTAAATTAGTTCATTTTAGGATCTTGGAT
66 TTGAATTTCATACTTTAATTTTTTTTATATTAGGTTCTAAATTAGTTCATTTTAGGATCTTAGAT
6814348 CTAAATATTAGGTTTATTTTGGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATTGTAGG
131 CTAAATATTAGGTTTATTTTGGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATTGTAGG
*
6814413 TTTTAAAATTTTTATGTTAAGTTACATATAAGATTCTATTTTTTAAAAATTAAATT
196 TTTTAAAATTTTTATGTTAAGTTACATATAAGATTCTATTTTTAAAAAATTAAATT
* * * ** *
6814469 AAGTATTGGGATTATTTGAGGTTTTCTCTTTAGAATTGTGTACTTTTTTATGGTTGGTTAGCTTA
1 AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGAATTGTGTA---TTTTATCATAGGTTAGCTTA
*
6814534 TTTTTGAATTTCAT-C-TTAA-TTTTTTT-TATTAGGTTCTAAATTAGTTCATTTTAGGATTTTA
63 TTTTTGAATTTCATACTTTAATTTTTTTTATATTAGGTTCTAAATTAGTTCATTTTAGGATCTTA
* * * **
6814595 GATTTGAATATTAGGCTTTTTTTTCGGTTAAATTTCTAGAAATTAGATTTTAGGACTTTTAGATT
128 GATCTAAATATTAGG-TTTATTTT-GGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATT
* *
6814660 GTAGGTTTTAAAA-TTTTATGTTAAGTTACATTTAATG-TTTTATTTTTAAAAAATTAAATT
191 GTAGGTTTTAAAATTTTTATGTTAAGTTACATATAA-GATTCTATTTTTAAAAAATTAAATT
6814720 AAGT
1 AAGT
6814724 CTTTTAAACT
Statistics
Matches: 230, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
250 45 0.20
251 98 0.43
252 56 0.24
253 1 0.00
254 30 0.13
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (251 bp):
AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGAATTGTGTATTTTATCATAGGTTAGCTTATTT
TTGAATTTCATACTTTAATTTTTTTTATATTAGGTTCTAAATTAGTTCATTTTAGGATCTTAGAT
CTAAATATTAGGTTTATTTTGGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATTGTAGG
TTTTAAAATTTTTATGTTAAGTTACATATAAGATTCTATTTTTAAAAAATTAAATT
Found at i:6817489 original size:51 final size:51
Alignment explanation
Indices: 6817401--6817499 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
6817391 ACAAACGTCG
* *
6817401 CTAAAGGTCATGGTCTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAACCA
1 CTAAAGGTCATGGTCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAACCA
*
6817452 CTAAAGGTCATGGTCTTTAGCGGCGC-TTACCAAACAAATGCCGCTAAA
1 CTAAAGGTCATGGTCTTTAGCGGCGCTTTACC-AACAAACGCCGCTAAA
6817500 GACAATGACC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 4 0.09
51 40 0.91
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (51 bp):
CTAAAGGTCATGGTCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAACCA
Found at i:6817886 original size:21 final size:20
Alignment explanation
Indices: 6817820--6817889 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
6817810 TTTACGCTGC
*
6817820 TCTGCTTCCCTCGCTGCAGCT
1 TCTGCTT-CCTCGCTGCAGCA
* *
6817841 TCTACTTCCATCGCTGTAGCA
1 TCTGCTTCC-TCGCTGCAGCA
*
6817862 TCTGCTTCTCTCGCTGCCGCA
1 TCTGCTTC-CTCGCTGCAGCA
6817883 TCTGCTT
1 TCTGCTT
6817890 TAAGTTGCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.93
22 1 0.02
ACGTcount: A:0.09, C:0.39, G:0.17, T:0.36
Consensus pattern (20 bp):
TCTGCTTCCTCGCTGCAGCA
Found at i:6822808 original size:9 final size:9
Alignment explanation
Indices: 6822791--6823164 Score: 124
Period size: 9 Copynumber: 44.7 Consensus size: 9
6822781 TAAGTATAAT
*
6822791 TAAGCTATG
1 TAAGTTATG
6822800 TAAGTTATG
1 TAAGTTATG
*
6822809 TAAGTTATA
1 TAAGTTATG
*
6822818 TAAGTTGTG
1 TAAGTTATG
*
6822827 T-A-TAATG
1 TAAGTTATG
6822834 TAAGTTATG
1 TAAGTTATG
*
6822843 AAAGTTATG
1 TAAGTTATG
6822852 T-A-TTATG
1 TAAGTTATG
*
6822859 TAAGTTATT
1 TAAGTTATG
**
6822868 TAAGTCGTG
1 TAAGTTATG
6822877 T-A-TTATG
1 TAAGTTATG
*
6822884 TAAGTCATG
1 TAAGTTATG
* *
6822893 TAGGCTATG
1 TAAGTTATG
6822902 T-A-TTATG
1 TAAGTTATG
6822909 TAAGTTA--
1 TAAGTTATG
*
6822916 TAA--TAAG
1 TAAGTTATG
*
6822923 TAAGTTATA
1 TAAGTTATG
*
6822932 AAAGTTA--
1 TAAGTTATG
6822939 T-A--TATG
1 TAAGTTATG
6822945 TAAGTTATG
1 TAAGTTATG
*
6822954 T--GTTGTG
1 TAAGTTATG
*
6822961 TAAGTTTATATA
1 TAAG--T-TATG
*
6822973 TAAATTTTAT-
1 T-AA-GTTATG
6822983 TCAAGTTATG
1 T-AAGTTATG
6822993 --A---ATG
1 TAAGTTATG
6822997 TAAGTTATG
1 TAAGTTATG
*
6823006 TAAGTTGTG
1 TAAGTTATG
*
6823015 T--GTAATG
1 TAAGTTATG
6823022 TAAGTTATG
1 TAAGTTATG
6823031 T-A-TTATG
1 TAAGTTATG
*
6823038 TAAGTTATT
1 TAAGTTATG
*
6823047 TAAGTTGTG
1 TAAGTTATG
6823056 T-A-TTATG
1 TAAGTTATG
*
6823063 TAAGTCATG
1 TAAGTTATG
* *
6823072 TACGCTATG
1 TAAGTTATG
6823081 T--GTTATG
1 TAAGTTATG
6823088 TAAGTTAT-
1 TAAGTTATG
*
6823096 T-A--TAAG
1 TAAGTTATG
6823102 TAAGTTATG
1 TAAGTTATG
* *
6823111 AAAGTTATATA
1 TAAG-T-TATG
6823122 TAAGTTATG
1 TAAGTTATG
6823131 TAAGTTATTGTG
1 TAAGTTA---TG
6823143 TAAGTTATG
1 TAAGTTATG
*
6823152 T--GTTGTG
1 TAAGTTATG
6823159 TAAGTT
1 TAAGTT
6823165 TATATATAAA
Statistics
Matches: 265, Mismatches: 51, Indels: 98
0.64 0.12 0.24
Matches are distributed among these distances:
4 5 0.02
5 4 0.02
6 4 0.02
7 63 0.24
8 12 0.05
9 147 0.55
10 5 0.02
11 10 0.04
12 13 0.05
13 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:6822838 original size:25 final size:25
Alignment explanation
Indices: 6822804--6823132 Score: 155
Period size: 25 Copynumber: 13.0 Consensus size: 25
6822794 GCTATGTAAG
*
6822804 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
*
6822829 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTATGTA
* **
6822854 TTATGTAAGTTATTTAAGTCGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
* * * *
6822879 TTATGTAAGTCATGTAGGCTATGTA
1 TTATGTAAGTTATATAAGTTATGTA
*
6822904 TTATGTAAGTTATAATAAG-TAAG--
1 TTATGTAAGTTAT-ATAAGTTATGTA
** *
6822927 TTATAAAAGTTATATATGTAAGTTATGTG
1 TTATGTAAG-T-TATA--TAAGTTATGTA
* *
6822956 TTGTGTAAGTT-TATATA-TAAAT-T-
1 TTATGTAAGTTATATA-AGT-TATGTA
6822979 TTAT-TCAAGTTATGAATGTAAGTTATGTAA
1 TTATGT-AAGTTAT--A--TAAGTTATGT-A
* * *
6823009 GTTGTGT--GTAATGTAAGTTATGTA
1 -TTATGTAAGTTATATAAGTTATGTA
* *
6823033 TTATGTAAGTTATTTAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
* * * * *
6823058 TTATGTAAGTCATGTACGCTATGTG
1 TTATGTAAGTTATATAAGTTATGTA
*
6823083 TTATGTAAGTTATTATAAG-TAAG--
1 TTATGTAAGTTA-TATAAGTTATGTA
*
6823106 TTATGAAAGTTATATATAAGTTATGTA
1 TTATGTAAG-T-TATATAAGTTATGTA
6823133 AGTTATTGTG
Statistics
Matches: 228, Mismatches: 44, Indels: 62
0.68 0.13 0.19
Matches are distributed among these distances:
22 1 0.00
23 28 0.12
24 15 0.07
25 143 0.63
26 15 0.07
27 7 0.03
28 5 0.02
29 10 0.04
31 3 0.01
32 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTATGTA
Found at i:6822859 original size:50 final size:50
Alignment explanation
Indices: 6822792--6822923 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
6822782 AAGTATAATT
* *
6822792 AAGCTATGTAAGTTATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGA
1 AAGCTATGT-A-TTATGTAAGTTATATAAGTCGTGTATAATGTAAGTCATGA
* * * *
6822844 AAGTTATGTATTATGTAAGTTATTTAAGTCGTGTATTATGTAAGTCATGT
1 AAGCTATGTATTATGTAAGTTATATAAGTCGTGTATAATGTAAGTCATGA
*
6822894 AGGCTATGTATTATGTAAGTTATAATAAGT
1 AAGCTATGTATTATGTAAGTTAT-ATAAGT
6822924 AAGTTATAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 56 0.80
51 6 0.09
52 8 0.11
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.42
Consensus pattern (50 bp):
AAGCTATGTATTATGTAAGTTATATAAGTCGTGTATAATGTAAGTCATGA
Found at i:6822950 original size:22 final size:23
Alignment explanation
Indices: 6822910--6822952 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6822900 TGTATTATGT
6822910 AAGTTATAATAAGTAAGTTATAA
1 AAGTTATAATAAGTAAGTTATAA
*
6822933 AAGTTAT-ATATGTAAGTTAT
1 AAGTTATAATAAGTAAGTTAT
6822953 GTGTTGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (23 bp):
AAGTTATAATAAGTAAGTTATAA
Found at i:6823024 original size:16 final size:16
Alignment explanation
Indices: 6823003--6823045 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
6822993 AATGTAAGTT
* *
6823003 ATGTAAGTTGTGTGTA
1 ATGTAAGTTATGTATA
*
6823019 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATA
6823035 ATGTAAGTTAT
1 ATGTAAGTTAT
6823046 TTAAGTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTATGTATA
Found at i:6823051 original size:41 final size:41
Alignment explanation
Indices: 6822994--6823106 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 41
6822984 CAAGTTATGA
* *
6822994 ATGTAAGTTATGTAAGTTGTGTGTAATGTAAGTTATGTATT
1 ATGTAAGTTATGTAAGTTGTGTATAATGTAAGTCATGTATT
* * *
6823035 ATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTACGCT
1 ATGTAAGTTATGTAAGTTGTGTATAATGTAAGTCATGTA--TT
*
6823078 ATGT--GTTATGTAAGTTAT-TATAA-GTAAGT
1 ATGTAAGTTATGTAAGTTGTGTATAATGTAAGT
6823107 TATGAAAGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
39 6 0.10
40 4 0.06
41 47 0.76
43 5 0.08
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (41 bp):
ATGTAAGTTATGTAAGTTGTGTATAATGTAAGTCATGTATT
Found at i:6823125 original size:20 final size:22
Alignment explanation
Indices: 6823082--6823152 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 22
6823072 TACGCTATGT
6823082 GTTATGTAAGTTATTATAAGTAA
1 GTTATGTAAGTTA-TATAAGTAA
*
6823105 GTTATGAAAGTTATAT-A-TAA
1 GTTATGTAAGTTATATAAGTAA
**
6823125 GTTATGTAAGTTAT-TGTGTAA
1 GTTATGTAAGTTATATAAGTAA
6823146 GTTATGT
1 GTTATGT
6823153 GTTGTGTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
19 1 0.02
20 16 0.37
21 11 0.26
22 3 0.07
23 12 0.28
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (22 bp):
GTTATGTAAGTTATATAAGTAA
Found at i:6823161 original size:96 final size:94
Alignment explanation
Indices: 6823033--6823301 Score: 266
Period size: 96 Copynumber: 2.9 Consensus size: 94
6823023 AAGTTATGTA
* * * * **
6823033 TTATGTAAGTTA-TT-TAAGTTGTGTATTATGTAAGTCATGTACGCTATGTGTTATGTAAGTTAT
1 TTATGTAAGTTATTTGTAAGTTATGTGTTGTGTAAGTCATATA---TAAATGTTATGTAAGTTAT
6823096 -TATAAGTAAGTTAT-GA-AAG-TTATATATAAG
63 GTAT--GTAAGTTATAGATAAGTTTATATATAAG
* * *
6823126 TTATGTAAGTTATTGTGTAAGTTATGTGTTGTGTAAGTTTATATATAAATTTTATTTAAGTTATG
1 TTATGTAAGTTATT-TGTAAGTTATGTGTTGTGTAAG-TCATATATAAATGTTATGTAAGTTATG
*
6823191 TATGTAAGTTATATATAAGTTTATATATAAG
64 TATGTAAGTTATAGATAAGTTTATATATAAG
* * * *
6823222 TTATGTAAGTTATTATGTAAGTTATATGTTGTGTAAGTTTATATATAAAT-TTATATATGTTATG
1 TTATGTAAGTTATT-TGTAAGTTATGTGTTGTGTAAG-TCATATATAAATGTTATGTAAGTTATG
*
6823286 TATGTAAATTAT-GATA
64 TATGTAAGTTATAGATA
6823302 TGATTGATAA
Statistics
Matches: 152, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
93 21 0.14
94 20 0.13
95 30 0.20
96 76 0.50
97 5 0.03
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (94 bp):
TTATGTAAGTTATTTGTAAGTTATGTGTTGTGTAAGTCATATATAAATGTTATGTAAGTTATGTA
TGTAAGTTATAGATAAGTTTATATATAAG
Found at i:6823222 original size:36 final size:36
Alignment explanation
Indices: 6823157--6823228 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
6823147 TTATGTGTTG
*
6823157 TGTAAGTTTATATATAAATTTTATTTAAGTTATGTA
1 TGTAAGTTTATATATAAATTTTATATAAGTTATGTA
*
6823193 TGTAAG-TTATATATAAGTTTATATATAAGTTATGTA
1 TGTAAGTTTATATATAAATTT-TATATAAGTTATGTA
6823229 AGTTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (36 bp):
TGTAAGTTTATATATAAATTTTATATAAGTTATGTA
Found at i:6823285 original size:198 final size:195
Alignment explanation
Indices: 6822904--6823287 Score: 429
Period size: 198 Copynumber: 1.9 Consensus size: 195
6822894 AGGCTATGTA
*
6822904 TTATGTAAGTTATAATAAGTAAGTTATAAAAGTTATATATGTAAGTTATGTGTTGTGTAAGTTTA
1 TTATGAAAGTTAT-AT-A-TAAGTTATAAAAGTTATATATGTAAGTTATGTGTTGTGTAAGTTTA
* * * * *
6822969 TATATAAATTTTATTCAAGTTATGAATGTAAGTTATGTAAGTTGTGTGTAATGTAAGTTATGTAT
63 TATATAAATTTTATTCAAGTTATGAATGTAAGTTATATAAGTTATATATAATGTAAGTAATGTAT
* * *
6823034 TATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTACGCTATGTGTTATGTAAGTTATTAT
128 TATGTAAGTTA-TTAAGTTGTGTATTATATAAG-AATGTA--CTATATGTTATGTAAGTTATTAT
6823099 AAGTAAG
189 AAGTAAG
** *
6823106 TTATGAAAGTTATATATAAGTTATGTAAGTTAT-TGTGTAAGTTATGTGTTGTGTAAGTTTATAT
1 TTATGAAAGTTATATATAAGTTATAAAAGTTATATATGTAAGTTATGTGTTGTGTAAGTTTATAT
* * *
6823170 ATAAATTTTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAA-GTTATGTAA-GTT
66 ATAAATTTTATTCAAGTTATGAATGTAAG-T-TATATAAG-TTATATATAATG-TAAGTAATG-T
* *
6823233 ATTATGTAAGTTA-TATGTTGTGTAAGTTTATATATA-AATTTA-TATATGTTATGTA
126 ATTATGTAAGTTATTAAGTTGTGT-A--TTATATA-AGAATGTACTATATGTTATGTA
6823288 TGTAAATTAT
Statistics
Matches: 156, Mismatches: 17, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
198 69 0.44
199 25 0.16
200 11 0.07
201 32 0.21
202 18 0.12
203 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (195 bp):
TTATGAAAGTTATATATAAGTTATAAAAGTTATATATGTAAGTTATGTGTTGTGTAAGTTTATAT
ATAAATTTTATTCAAGTTATGAATGTAAGTTATATAAGTTATATATAATGTAAGTAATGTATTAT
GTAAGTTATTAAGTTGTGTATTATATAAGAATGTACTATATGTTATGTAAGTTATTATAAGTAAG
Found at i:6827349 original size:43 final size:42
Alignment explanation
Indices: 6827288--6827400 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
6827278 AAATGCCACA
* *
6827288 ATAGATCAGGACTTTTAGCAGCGTATTTCCCACAAACGCCGCT
1 ATAGATCATGACTTTTAGCGGCGT-TTTCCCACAAACGCCGCT
* *
6827331 ATAGATCATGACTTTTAGCGGCACTTTTCCTACAAACGCCGCT
1 ATAGATCATGACTTTTAGCGGC-GTTTTCCCACAAACGCCGCT
* * *
6827374 AAAGAACATGACCTTTAGCGGCGTTTT
1 ATAGATCATGACTTTTAGCGGCGTTTT
6827401 TCAAAAAAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.07
43 56 0.92
44 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (42 bp):
ATAGATCATGACTTTTAGCGGCGTTTTCCCACAAACGCCGCT
Found at i:6827411 original size:43 final size:43
Alignment explanation
Indices: 6827321--6827418 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
6827311 TATTTCCCAC
* * * ** *
6827321 AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCAAAA
**
6827364 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTCAAAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCAAAA
*
6827407 AAACGCCACTAA
1 AAACGCCGCTAA
6827419 TTTTGACAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCAAAA
Found at i:6827759 original size:21 final size:21
Alignment explanation
Indices: 6827706--6827765 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
6827696 TCCTCTGCTT
* *
6827706 TGCTTCCCTCGCTGCAGCCTC
1 TGCTTCCTTCGCTGCTGCCTC
*
6827727 TGC-TGCTCTCGCTGCTGCCTC
1 TGCTTCCT-TCGCTGCTGCCTC
6827748 TGCTTCCTTCGCTGCTGC
1 TGCTTCCTTCGCTGCTGC
6827766 ATCAGCTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 28 0.85
22 3 0.09
ACGTcount: A:0.02, C:0.43, G:0.22, T:0.33
Consensus pattern (21 bp):
TGCTTCCTTCGCTGCTGCCTC
Found at i:6833359 original size:25 final size:26
Alignment explanation
Indices: 6833316--6833366 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
6833306 AATATATATT
6833316 TATGTATTAAGTAAATTATGTAAGTTG
1 TATGTATT-AGTAAATTATGTAAGTTG
* *
6833343 TATGTATT-GTAAGTTATGTGAGTT
1 TATGTATTAGTAAATTATGTAAGTT
6833367 ATTTAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
27 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (26 bp):
TATGTATTAGTAAATTATGTAAGTTG
Found at i:6833412 original size:9 final size:9
Alignment explanation
Indices: 6833398--6833659 Score: 102
Period size: 9 Copynumber: 29.1 Consensus size: 9
6833388 ATATAAGTTA
6833398 TTATGTAAG
1 TTATGTAAG
*
6833407 TTATGTGAG
1 TTATGTAAG
6833416 TTATGTATA-
1 TTATGTA-AG
* *
6833425 TTATGTGAT
1 TTATGTAAG
*
6833434 TTATTTAAG
1 TTATGTAAG
6833443 TTATG---G
1 TTATGTAAG
6833449 TT-TG-ATA-
1 TTATGTA-AG
*
6833456 TATATATAAG
1 T-TATGTAAG
*
6833466 TTGT-TAAG
1 TTATGTAAG
6833474 TTATGTAAG
1 TTATGTAAG
* *
6833483 TTATCTGAG
1 TTATGTAAG
6833492 TTATGT-AG
1 TTATGTAAG
*
6833500 ATTATGATATGG
1 -TTATG-TA-AG
* *
6833512 TGCATATAAG
1 T-TATGTAAG
6833522 TTAT-TAAG
1 TTATGTAAG
*
6833530 TTAGGTAAG
1 TTATGTAAG
*
6833539 TTATGCAAG
1 TTATGTAAG
*
6833548 TTATATAAG
1 TTATGTAAG
6833557 TTATGATATA-
1 TTATG-TA-AG
* *
6833567 TATAAGT-TG
1 T-TATGTAAG
6833576 TTATGTAAG
1 TTATGTAAG
*
6833585 TTATGTGAG
1 TTATGTAAG
6833594 TTATGT-AG
1 TTATGTAAG
*
6833602 ATTATGATATG
1 -TTATG-TAAG
*
6833613 ATATATATAAG
1 -T-TATGTAAG
6833624 TTAT-TAAG
1 TTATGTAAG
*
6833632 TTAGGTAAG
1 TTATGTAAG
*
6833641 TTATGTGAG
1 TTATGTAAG
*
6833650 TTATTTAAG
1 TTATGTAAG
6833659 T
1 T
6833660 AATGGTATGA
Statistics
Matches: 190, Mismatches: 37, Indels: 52
0.68 0.13 0.19
Matches are distributed among these distances:
5 2 0.01
6 3 0.02
7 1 0.01
8 31 0.16
9 122 0.64
10 12 0.06
11 13 0.07
12 6 0.03
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6833437 original size:27 final size:27
Alignment explanation
Indices: 6833396--6833709 Score: 96
Period size: 27 Copynumber: 11.3 Consensus size: 27
6833386 ATATATAAGT
*
6833396 TATTATGTAAGTTATGTGAGTTATGTA
1 TATTATGTAAGTTATGTAAGTTATGTA
* * *
6833423 TATTATGTGATTTATTTAAGTTATGGTTTGA
1 TATTATGTAAGTTATGTAAGTTAT-G--T-A
* *
6833454 TATATATATAAGTTGT-TAAGTTATGTA
1 TAT-TATGTAAGTTATGTAAGTTATGTA
* *
6833481 -AGTTATCTGAGTTATGT-AGATTATG-A
1 TA-TTATGTAAGTTATGTAAG-TTATGTA
* *
6833507 TATGGTGCATATAAGTTAT-TAAGTTAGGTA
1 TAT--T--ATGTAAGTTATGTAAGTTATGTA
* *
6833537 -AGTTATGCAAGTTATATAAGTTATGATA
1 TA-TTATGTAAGTTATGTAAGTTATG-TA
* *
6833565 TATATAAGT-TGTTATGTAAGTTATGTGA
1 TAT-TATGTAAGTTATGTAAGTTATGT-A
* * * *
6833593 -GTTATGT-AGATTATGATATGATATATA
1 TATTATGTAAG-TTATG-TAAGTTATGTA
*
6833620 TAAGTTAT-TAAGTTAGGTAAGTTATGTGA
1 T-A-TTATGTAAGTTATGTAAGTTATGT-A
* * * ** * *
6833649 -GTTATTTAAGTAATGGTA-TGATATA
1 TATTATGTAAGTTATGTAAGTTATGTA
* *
6833674 TATATAAGTTA-TTATGTAAGTTATGTA
1 TAT-TATGTAAGTTATGTAAGTTATGTA
6833701 TATTATGTA
1 TATTATGTA
6833710 TATCATTGCT
Statistics
Matches: 205, Mismatches: 50, Indels: 65
0.64 0.16 0.20
Matches are distributed among these distances:
25 1 0.00
26 46 0.22
27 65 0.32
28 36 0.18
29 16 0.08
30 21 0.10
31 12 0.06
32 8 0.04
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.46
Consensus pattern (27 bp):
TATTATGTAAGTTATGTAAGTTATGTA
Found at i:6833438 original size:69 final size:73
Alignment explanation
Indices: 6833356--6833505 Score: 200
Period size: 76 Copynumber: 2.1 Consensus size: 73
6833346 GTATTGTAAG
*
6833356 TTATGTGAGTTATTTAAGTAATGGTATG-ATATATATAA-GTT-A-TTATGTAAGTTATGTGAGT
1 TTATGTGAGTTATTTAAGTAATGGTATGAATATATATAATGTTAAGTTATGTAAGTTATCTGAGT
*
6833417 TATGTATA
66 TATGTAGA
* * *
6833425 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTGTTAAGTTATGTAAGTTATCTG
1 TTATGTGAGTTATTTAAGTAATGGTATGA-ATATATATAA--TGTTAAGTTATGTAAGTTATCTG
6833490 AGTTATGTAGA
63 AGTTATGTAGA
6833501 TTATG
1 TTATG
6833506 ATATGGTGCA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
69 25 0.36
71 10 0.14
74 3 0.04
75 1 0.01
76 30 0.43
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (73 bp):
TTATGTGAGTTATTTAAGTAATGGTATGAATATATATAATGTTAAGTTATGTAAGTTATCTGAGT
TATGTAGA
Found at i:6833538 original size:56 final size:53
Alignment explanation
Indices: 6833451--6833687 Score: 204
Period size: 56 Copynumber: 4.4 Consensus size: 53
6833441 AGTTATGGTT
* * *
6833451 TGATATATATATAAGTTGTTAAGTTATGTAAGTTATCTGAGTTATGTAGATTA
1 TGATATGTATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGTAGATTA
* *
6833504 TGATATGGTGCATATAAGTTATTAAGTTAGGTAAGTTATGC-AAGTTATATA-AGTTA
1 TGATAT-GT--ATATAAGTTATTAAGTTAGGTAAGTTAT-CTGAGTTATGTAGA-TTA
* *
6833560 TGATA--TATATAAG---TT--GTTATGTAAGTTATGTGAGTTATGTAGATTA
1 TGATATGTATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGTAGATTA
* *
6833606 TGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTGAGTTATTTAAGTAATGGTA
1 TGATATG---TATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGT-AG--AT--TA
*
6833667 TGATATATATATAAGTTATTA
1 TGATATGTATATAAGTTATTA
6833688 TGTAAGTTAT
Statistics
Matches: 150, Mismatches: 12, Indels: 39
0.75 0.06 0.19
Matches are distributed among these distances:
46 29 0.19
47 1 0.01
48 2 0.01
51 15 0.10
53 7 0.05
54 3 0.02
55 1 0.01
56 65 0.43
57 3 0.02
58 14 0.09
59 2 0.01
61 8 0.05
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.43
Consensus pattern (53 bp):
TGATATGTATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGTAGATTA
Found at i:6833594 original size:102 final size:107
Alignment explanation
Indices: 6833473--6833699 Score: 329
Period size: 102 Copynumber: 2.1 Consensus size: 107
6833463 AAGTTGTTAA
* * *
6833473 GTTATGTAAGTTATCTGAGTTATGTAGATTATGATATGGTGCATATAAGTTATTAAGTTAGGTAA
1 GTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAA
*
6833538 GTTATGCAAGTTA-T-A-TAA-GTTATG-ATATATATAAGTT
66 GTTATGCAAGTTATTAAGTAATGGTATGAATATATATAAGTT
*
6833575 GTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATATATAAGTTATTAAGTTAGGTAA
1 GTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAA
**
6833640 GTTATGTGAGTTATTTAAGTAATGGTATGATATATATATAAGTT
66 GTTATGCAAGTTA-TTAAGTAATGGTATGA-ATATATATAAGTT
*
6833684 ATTATGTAAGTTATGT
1 GTTATGTAAGTTATGT
6833700 ATATTATGTA
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
102 72 0.65
104 1 0.01
105 1 0.01
106 3 0.03
107 5 0.05
109 28 0.25
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.44
Consensus pattern (107 bp):
GTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTATTAAGTTAGGTAA
GTTATGCAAGTTATTAAGTAATGGTATGAATATATATAAGTT
Found at i:6836631 original size:5 final size:5
Alignment explanation
Indices: 6836621--6836646 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6836611 TTTTCTAATA
6836621 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
6836647 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:6839498 original size:43 final size:43
Alignment explanation
Indices: 6839444--6839770 Score: 417
Period size: 43 Copynumber: 7.7 Consensus size: 43
6839434 GTTTTTAGAA
* * * *
6839444 ACAAACACCGCTAAAGACAATGACCTTTAGCGGCGCTTCTCCT
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
*
6839487 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCG
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* * *
6839530 ACAAACGCCGCTAAAGACCATGATCTTTAGAGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* *
6839573 ACAAACGCCGCTAAAGACCATGATCTTTAGCAGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
*
6839616 ACAAACG-CGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* ** *
6839658 AGAAACGCCGCTAAAGACCACAACCTTTAGCGACGC-TTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* * * * *
6839700 ACAAACGCCGCTAAAGATCAAGACCTTTAGCGACGCTTCTCGC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
* * * *
6839743 AAAAACGCCACTAAA-AACATAACCTTTA
1 ACAAACGCCGCTAAAGACCATGACCTTTA
6839771 AAAAAATTTA
Statistics
Matches: 254, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
42 86 0.34
43 168 0.66
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
Found at i:6839686 original size:85 final size:85
Alignment explanation
Indices: 6839444--6839770 Score: 408
Period size: 85 Copynumber: 3.8 Consensus size: 85
6839434 GTTTTTAGAA
* * * *
6839444 ACAAACACCGCTAAAGACAATGACCTTTAGCGGCGCTTCTCCTACAAACGCCGCTAAAGACCATG
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATA
*
6839509 ACCTTTAGCGGCGCTTTTCCG
66 ACCTTTAGC-GCGCTTTTCCC
* * * * *
6839530 ACAAACGCCGCTAAAGACCATGATCTTTAGAGGCGCTTTTCTCACAAACGCCGCTAAAGACCATG
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATA
*
6839595 ATCTTTAGCAGCGCTTTTCCC
66 ACCTTTAGC-GCGCTTTTCCC
* * * *
6839616 ACAAACG-CGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCAGAAACGCCGCTAAAGACCACA
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATA
6839680 ACCTTTAGCGACGC-TTTCCC
66 ACCTTTAGCG-CGCTTTTCCC
* * * * * * *
6839700 ACAAACGCCGCTAAAGATCAAGACCTTTAGCGACGCTTCTCGCAAAAACGCCACTAAA-AACATA
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATA
6839764 ACCTTTA
66 ACCTTTA
6839771 AAAAAATTTA
Statistics
Matches: 212, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
84 25 0.12
85 104 0.49
86 83 0.39
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (85 bp):
ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCATA
ACCTTTAGCGCGCTTTTCCC
Found at i:6843879 original size:10 final size:11
Alignment explanation
Indices: 6843851--6843889 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
6843841 TTAGTTAAAT
6843851 TTAATTTTTTA
1 TTAATTTTTTA
6843862 TTTAATTTTTTA
1 -TTAATTTTTTA
6843874 TT-ATTTTTTA
1 TTAATTTTTTA
*
6843884 TAAATT
1 TTAATT
6843890 GGATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 9 0.36
11 5 0.20
12 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:6843881 original size:11 final size:12
Alignment explanation
Indices: 6843849--6843884 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
6843839 TATTAGTTAA
6843849 ATTTAATTTTTT
1 ATTTAATTTTTT
6843861 ATTTAATTTTTT
1 ATTTAATTTTTT
6843873 A-TT-ATTTTTT
1 ATTTAATTTTTT
6843883 AT
1 AT
6843885 AAATTGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 2 0.09
12 13 0.57
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTAATTTTTT
Found at i:6844297 original size:33 final size:33
Alignment explanation
Indices: 6844255--6844326 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
6844245 AATCTAAATT
* ** *
6844255 CTAAACCCTAACCCGACCTTGAATTCCTAATCC
1 CTAAACCCTAACCCAACCCAGAATTCCTAACCC
6844288 CTAAACCCTAACCCAACCCAGAATTCCTAACCC
1 CTAAACCCTAACCCAACCCAGAATTCCTAACCC
6844321 CTAAAC
1 CTAAAC
6844327 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.42, G:0.04, T:0.19
Consensus pattern (33 bp):
CTAAACCCTAACCCAACCCAGAATTCCTAACCC
Found at i:6844641 original size:13 final size:13
Alignment explanation
Indices: 6844623--6844649 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6844613 ATTAAATATT
6844623 TTAAAATTAATAC
1 TTAAAATTAATAC
6844636 TTAAAATTAATAC
1 TTAAAATTAATAC
6844649 T
1 T
6844650 CTAATTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAATTAATAC
Found at i:6845192 original size:41 final size:42
Alignment explanation
Indices: 6845147--6845343 Score: 303
Period size: 41 Copynumber: 4.8 Consensus size: 42
6845137 TTTTATTATT
* * *
6845147 ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGATCC-GAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCCAGAGC
6845188 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCC-GAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCCAGAGC
* *
6845229 ATTAGCGGCGCTTCTTCAAAAACGCTGCTAAAG-GCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCCAGAGC
6845270 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGA-CCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCCAGAGC
* *
6845311 ATTAGCGACGCTTCTTTAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAG
6845344 GCCCCAAAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 2 0.01
41 144 0.99
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (42 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGATCCAGAGC
Found at i:6845449 original size:39 final size:40
Alignment explanation
Indices: 6845383--6845516 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
6845373 GGGCTTAGGC
6845383 TTTTT-GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTCAGAAAAGCGCCGCTAATGCTCTA
6845421 TTTTTAGCGGCGTTTTC-GAAAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTCAG-AAAAGCGCCGCTAATGCTCTA
** * * * * *
6845461 CCTTTAGCGGCATTTTTATAAAAGCGCCGCTAGTGCTCAA
1 TTTTTAGCGGCGTTTTCAGAAAAGCGCCGCTAATGCTCTA
*
6845501 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
6845517 TTGTTCAAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
38 14 0.17
39 19 0.24
40 46 0.57
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCAGAAAAGCGCCGCTAATGCTCTA
Found at i:6845540 original size:12 final size:12
Alignment explanation
Indices: 6845523--6845548 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6845513 TTTTTTGTTC
6845523 AAACGCCGCTAA
1 AAACGCCGCTAA
6845535 AAACGCCGCTAA
1 AAACGCCGCTAA
6845547 AA
1 AA
6845549 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:6862090 original size:6 final size:6
Alignment explanation
Indices: 6862081--6862116 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
6862071 TCCATTTGCT
*
6862081 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ACTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
6862117 TTTACATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:6862677 original size:20 final size:20
Alignment explanation
Indices: 6862652--6862690 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6862642 TTAATATTTT
6862652 TCATAAAAATAAT-TAAAAAA
1 TCATAAAAA-AATATAAAAAA
6862672 TCATAAAAAAATATAAAAA
1 TCATAAAAAAATATAAAAA
6862691 CTATTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
TCATAAAAAAATATAAAAAA
Found at i:6862799 original size:22 final size:21
Alignment explanation
Indices: 6862774--6862848 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 21
6862764 ACATAAAAGA
*
6862774 ATAAAACCATATTCAAAATTTT
1 ATAAAAACATATT-AAAATTTT
* *
6862796 ATAAAAATATATTAAAA-TTA
1 ATAAAAACATATTAAAATTTT
* * *
6862816 ATATAAACATATAAAAATTAT
1 ATAAAAACATATTAAAATTTT
*
6862837 AAAAAAATCATA
1 ATAAAAA-CATA
6862849 AAAACTTGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.39
21 10 0.24
22 15 0.37
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAAAACATATTAAAATTTT
Found at i:6862849 original size:20 final size:19
Alignment explanation
Indices: 6862794--6862852 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
6862784 ATTCAAAATT
* *
6862794 TTATAAAAATATATTAAAA
1 TTATAAAAAAATATAAAAA
* *
6862813 TTAATATAAACATATAAAAA
1 TT-ATAAAAAAATATAAAAA
6862833 TTATAAAAAAATCATAAAAA
1 TTATAAAAAAAT-ATAAAAA
6862853 CTTGAATTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TTATAAAAAAATATAAAAA
Found at i:6863216 original size:28 final size:29
Alignment explanation
Indices: 6863176--6863237 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
6863166 ACTTTTTATT
*
6863176 ATTTTTAAGAATTCT-AATACATTTTTT-A
1 ATTTTAAAGAATTCTAAATA-ATTTTTTCA
* *
6863204 ATTTTAAATAATTTTAAATAATTTTTTCA
1 ATTTTAAAGAATTCTAAATAATTTTTTCA
6863233 ATTTT
1 ATTTT
6863238 TTTATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTTTAAAGAATTCTAAATAATTTTTTCA
Found at i:6863217 original size:10 final size:10
Alignment explanation
Indices: 6863202--6863228 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6863192 ATACATTTTT
6863202 TAATTTTAAA
1 TAATTTTAAA
6863212 TAATTTTAAA
1 TAATTTTAAA
6863222 TAATTTT
1 TAATTTT
6863229 TTCAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAATTTTAAA
Found at i:6872284 original size:12 final size:12
Alignment explanation
Indices: 6872267--6872291 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6872257 ACTTAATCAC
6872267 TTTAATATTAAA
1 TTTAATATTAAA
6872279 TTTAATATTAAA
1 TTTAATATTAAA
6872291 T
1 T
6872292 CTTGTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:6872407 original size:12 final size:13
Alignment explanation
Indices: 6872362--6872416 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 13
6872352 AATAGTCATT
6872362 TTAATATTAAACTA
1 TTAATATTAAA-TA
* *
6872376 TTAAGA-TAAGTA
1 TTAATATTAAATA
6872388 TTAA-ATTAAAT-
1 TTAATATTAAATA
6872399 TTAATATTAAACTA
1 TTAATATTAAA-TA
6872413 TTAA
1 TTAA
6872417 AATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
11 5 0.15
12 16 0.47
13 4 0.12
14 9 0.26
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (13 bp):
TTAATATTAAATA
Found at i:6873175 original size:15 final size:16
Alignment explanation
Indices: 6873142--6873175 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6873132 TGCAATTCGT
*
6873142 TTTTAAAATCATAATA
1 TTTTAAAATCATAAAA
6873158 TTTTAAAAT-ATAAAA
1 TTTTAAAATCATAAAA
6873173 TTT
1 TTT
6873176 AAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAAAATCATAAAA
Found at i:6873927 original size:11 final size:11
Alignment explanation
Indices: 6873911--6873948 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6873901 CTTCTTGTTG
6873911 TTTTTTGCTAT
1 TTTTTTGCTAT
6873922 TTTTTTG-T-T
1 TTTTTTGCTAT
6873931 GTTTTTTGCTAT
1 -TTTTTTGCTAT
6873943 TTTTTT
1 TTTTTT
6873949 ACCATTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.04
10 8 0.33
11 14 0.58
12 1 0.04
ACGTcount: A:0.05, C:0.05, G:0.11, T:0.79
Consensus pattern (11 bp):
TTTTTTGCTAT
Found at i:6873931 original size:21 final size:21
Alignment explanation
Indices: 6873905--6873948 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6873895 TTGTTTCTTC
6873905 TTGTTGTTTTTTGCTATTTTT
1 TTGTTGTTTTTTGCTATTTTT
6873926 TTGTTGTTTTTTGCTATTTTT
1 TTGTTGTTTTTTGCTATTTTT
6873947 TT
1 TT
6873949 ACCATTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.05, C:0.05, G:0.14, T:0.77
Consensus pattern (21 bp):
TTGTTGTTTTTTGCTATTTTT
Found at i:6877019 original size:23 final size:23
Alignment explanation
Indices: 6876929--6877020 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 23
6876919 GAGCCATGAT
*
6876929 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTG--AAA
6876955 CGGTAAGCTC-TATCGAGCTGAAA
1 CGGTAAGCTCATA-CGAGCTGAAA
*
6876978 CGGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-CATACGAGCTGAAA
*
6877001 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACGAGCTG
6877021 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
22 3 0.05
23 35 0.59
24 2 0.03
25 9 0.15
26 10 0.17
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCATACGAGCTGAAA
Found at i:6880206 original size:18 final size:18
Alignment explanation
Indices: 6880180--6880229 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
6880170 ATCATTGGTT
*
6880180 TCAGATTCCTCTTTATTC
1 TCAGCTTCCTCTTTATTC
*
6880198 TCAGCTTCCTCTTCATTC
1 TCAGCTTCCTCTTTATTC
6880216 TCAGCTTCCTCTTT
1 TCAGCTTCCTCTTT
6880230 GTTATTAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.12, C:0.34, G:0.06, T:0.48
Consensus pattern (18 bp):
TCAGCTTCCTCTTTATTC
Found at i:6884003 original size:28 final size:29
Alignment explanation
Indices: 6883971--6884032 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
6883961 ATTTCTTATA
*
6883971 TTATTGGTATATT-TGGAATTTAGTTCTT
1 TTATTGGTATATTGTGGAATTTAATTCTT
** * *
6883999 TTATTTTTATTTTGTGGAATTTAATTTTT
1 TTATTGGTATATTGTGGAATTTAATTCTT
6884028 TTATT
1 TTATT
6884033 TTTTAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.21, C:0.02, G:0.13, T:0.65
Consensus pattern (29 bp):
TTATTGGTATATTGTGGAATTTAATTCTT
Found at i:6889199 original size:16 final size:17
Alignment explanation
Indices: 6889178--6889209 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6889168 ATGTGCTTTT
6889178 GATGTATA-TATATATG
1 GATGTATATTATATATG
6889194 GATGTATATTATATAT
1 GATGTATATTATATAT
6889210 AGGCACACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
GATGTATATTATATATG
Found at i:6892657 original size:126 final size:126
Alignment explanation
Indices: 6892499--6892754 Score: 415
Period size: 126 Copynumber: 2.0 Consensus size: 126
6892489 CCTCCCGCCA
* **
6892499 TTAAATGGTTGACATGGTAACTTTTAAAATTGACATAATAGTAACTTTAACACTAACGTTTATAC
1 TTAAATGGTTGACATGATAACTTTTAAAATTGACATAATAACAACTTTAACACTAACGTTTATAC
*
6892564 ATTGTATTAAATTATTCTTGA-TTTAAAAAATTTTAACCTTCAACATCTACACATTTGTAAT
66 ATGGTATTAAATTATTCTTGATTTTAAAAAA-TTTAACCTTCAACATCTACACATTTGTAAT
*
6892625 TTAAATGGTTGACATGATAACTTTTAAAATTGACATAATAACAACTTTAGCACTAACGTTTATAC
1 TTAAATGGTTGACATGATAACTTTTAAAATTGACATAATAACAACTTTAACACTAACGTTTATAC
* * * *
6892690 ATGGTGTTAATTTATTCTTGATTTTAAAAAATTTAACTTTCAACATTTACACATTTGTAAT
66 ATGGTATTAAATTATTCTTGATTTTAAAAAATTTAACCTTCAACATCTACACATTTGTAAT
6892751 TTAA
1 TTAA
6892755 TGTTTTTTGC
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 111 0.93
127 9 0.08
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (126 bp):
TTAAATGGTTGACATGATAACTTTTAAAATTGACATAATAACAACTTTAACACTAACGTTTATAC
ATGGTATTAAATTATTCTTGATTTTAAAAAATTTAACCTTCAACATCTACACATTTGTAAT
Found at i:6895484 original size:12 final size:13
Alignment explanation
Indices: 6895464--6895497 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6895454 AAAATGAATC
*
6895464 AAAACAAAACCG-
1 AAAAGAAAACCGA
6895476 AAAAGAAAACCGA
1 AAAAGAAAACCGA
6895489 AAAAGAAAA
1 AAAAGAAAA
6895498 AAAGGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAACCGA
Found at i:6897545 original size:30 final size:31
Alignment explanation
Indices: 6897486--6897546 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6897476 AAAAATAGAG
* *
6897486 TTTTATGTATATATTTGAACTACAATCAAAA
1 TTTTATGTATATAGTTGAACCACAATCAAAA
* *
6897517 TTTTATGTGTATAGTTGCACCA-AATCAAAA
1 TTTTATGTATATAGTTGAACCACAATCAAAA
6897547 GTCATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (31 bp):
TTTTATGTATATAGTTGAACCACAATCAAAA
Found at i:6899604 original size:23 final size:22
Alignment explanation
Indices: 6899544--6899610 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
6899534 TTAGAACATG
6899544 TTAATAATAATTTAAAATAATA
1 TTAATAATAATTTAAAATAATA
* * *
6899566 GT-ATACTACATCTTAAAATTATA
1 TTAATAATA-AT-TTAAAATAATA
*
6899589 TTAATAATAAGTTTAAAGTAAT
1 TTAATAATAA-TTTAAAATAAT
6899611 GTCAAATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
21 5 0.15
22 3 0.09
23 20 0.59
24 6 0.18
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
TTAATAATAATTTAAAATAATA
Found at i:6899730 original size:3 final size:3
Alignment explanation
Indices: 6899722--6899791 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
6899712 AATTCAAAAT
6899722 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6899770 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
6899792 CAACAACAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6902437 original size:11 final size:11
Alignment explanation
Indices: 6902414--6902458 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
6902404 TTTTTTAAAA
6902414 TTAAA-AATATT
1 TTAAATAAT-TT
*
6902425 TTAAATTATTT
1 TTAAATAATTT
6902436 TT--ATAATTT
1 TTAAATAATTT
6902445 TTAAATAATTT
1 TTAAATAATTT
6902456 TTA
1 TTA
6902459 TATTTTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 8 0.28
11 19 0.66
12 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAAATAATTT
Found at i:6902448 original size:20 final size:20
Alignment explanation
Indices: 6902423--6902467 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6902413 ATTAAAAATA
*
6902423 TTTTAAATTATTTTTATAAT
1 TTTTAAATAATTTTTATAAT
*
6902443 TTTTAAATAATTTTTATATT
1 TTTTAAATAATTTTTATAAT
6902463 TTTTA
1 TTTTA
6902468 GTTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAAATAATTTTTATAAT
Found at i:6907184 original size:12 final size:12
Alignment explanation
Indices: 6907119--6907253 Score: 67
Period size: 12 Copynumber: 10.8 Consensus size: 12
6907109 AGTGCTTCTC
6907119 TTTTT-TCAAGT
1 TTTTTATCAAGT
*
6907130 ATTTTTCATCTAGT
1 -TTTTT-ATCAAGT
6907144 TCTTTTATCAAGTT
1 T-TTTTATCAAG-T
*
6907158 TTTAATTACCAAGT
1 TTT--TTATCAAGT
6907172 TTTTTATCAAGT
1 TTTTTATCAAGT
** *
6907184 TTTGCAGCAAGT
1 TTTTTATCAAGT
*
6907196 TCTTTT-TAAAGT
1 T-TTTTATCAAGT
*
6907208 TTTTCATCAAGT
1 TTTTTATCAAGT
* * *
6907220 CTTTTCATAAAAT
1 -TTTTTATCAAGT
**
6907233 TTTCCATCAAGT
1 TTTTTATCAAGT
*
6907245 TTTTAATCA
1 TTTTTATCA
6907254 TTTCGTTTTT
Statistics
Matches: 94, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
11 3 0.03
12 49 0.52
13 20 0.21
14 15 0.16
15 7 0.07
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (12 bp):
TTTTTATCAAGT
Found at i:6907230 original size:25 final size:24
Alignment explanation
Indices: 6907131--6907249 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
6907121 TTTTCAAGTA
* *
6907131 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* * *
6907156 TTTTTAATTACCAAGTTTTTTATCAAG
1 TTTTTCA-T--CAAGTCTTTTATAAAG
* *
6907183 TTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
*
6907207 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
6907232 TTTTCCATCAAGT-TTTTA
1 TTTTTCATCAAGTCTTTTA
6907250 ATCATTTCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
23 7 0.09
24 22 0.29
25 27 0.36
26 1 0.01
27 16 0.21
28 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:6907248 original size:24 final size:23
Alignment explanation
Indices: 6907167--6907249 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
6907157 TTTTAATTAC
* * *
6907167 CAAGTTTTTTATCAAGTTTTGCAG
1 CAAG-TTTTTATAAAGTTTTCCAT
* *
6907191 CAAGTTCTTTTTAAAGTTTTTCAT
1 CAAGTT-TTTATAAAGTTTTCCAT
*
6907215 CAAGTCTTTTCATAAAATTTTCCAT
1 CAAGT-TTTT-ATAAAGTTTTCCAT
6907240 CAAGTTTTTA
1 CAAGTTTTTA
6907250 ATCATTTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.06
24 29 0.59
25 17 0.35
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (23 bp):
CAAGTTTTTATAAAGTTTTCCAT
Found at i:6914017 original size:19 final size:19
Alignment explanation
Indices: 6914003--6914041 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6913993 ATTATTATTA
6914003 TTTATTTTTACTATTTTAT
1 TTTATTTTTACTATTTTAT
6914022 TTTATTTTTA-T-TTTTAT
1 TTTATTTTTACTATTTTAT
6914039 TTT
1 TTT
6914042 TGCAGGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTATTTTTACTATTTTAT
Found at i:6914040 original size:6 final size:6
Alignment explanation
Indices: 6913986--6914042 Score: 62
Period size: 6 Copynumber: 9.2 Consensus size: 6
6913976 TTAATTTTCC
* *
6913986 TATTAT TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT TATTTT
1 TATTTT TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT
6914036 TATTTT T
1 TATTTT T
6914043 GCAGGAAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
5 5 0.11
6 30 0.65
7 6 0.13
8 5 0.11
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:6914042 original size:13 final size:13
Alignment explanation
Indices: 6913991--6914042 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
6913981 TTTCCTATTA
* *
6913991 TTATTATTATTAT
1 TTATTTTTATTTT
*
6914004 TTATTTTTACTATT
1 TTATTTTTA-TTTT
6914018 TTA-TTTTA-TTT
1 TTATTTTTATTTT
6914029 TTATTTTTATTTT
1 TTATTTTTATTTT
6914042 T
1 T
6914043 GCAGGAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 5 0.16
12 5 0.16
13 17 0.53
14 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:6915476 original size:12 final size:12
Alignment explanation
Indices: 6915386--6915510 Score: 63
Period size: 12 Copynumber: 9.8 Consensus size: 12
6915376 TCTTCAAGTA
*
6915386 TTTTTCATCTAG
1 TTTTTCATCAAG
*
6915398 TTCTTTTATCAAG
1 TT-TTTCATCAAG
*
6915411 TTTTTAATTACCAAG
1 TTTTTCA-T--CAAG
* *
6915426 TTTTTTTATCAAA
1 -TTTTTCATCAAG
*
6915439 TTTTTGCAGCAAG
1 TTTTT-CATCAAG
* *
6915452 TTCTTT-TTAAAG
1 TT-TTTCATCAAG
6915464 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
6915476 TCTTTTCATAAAA
1 T-TTTTCATCAAG
*
6915489 TTTTCCATCAAG
1 TTTTTCATCAAG
*
6915501 TTTTTAATCA
1 TTTTTCATCA
6915511 TTTCGTTTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
11 3 0.04
12 37 0.44
13 30 0.36
14 3 0.04
15 5 0.06
16 6 0.07
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.51
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:6915487 original size:25 final size:24
Alignment explanation
Indices: 6915386--6915506 Score: 77
Period size: 25 Copynumber: 4.8 Consensus size: 24
6915376 TCTTCAAGTA
* *
6915386 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* *
6915411 TTTTTAATTACCAAGTTTTTTTATCAAA-
1 TTTTTCA-T--CAAG-TCTTTTAT-AAAG
*
6915439 TTTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTT-CATCAAG-TCTTTTATAAAG
*
6915464 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
6915489 TTTTCCATCAAGT-TTTTA
1 TTTTTCATCAAGTCTTTTA
6915507 ATCATTTCGT
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 28 0.36
26 11 0.14
28 16 0.21
29 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:6915937 original size:45 final size:41
Alignment explanation
Indices: 6915872--6915987 Score: 112
Period size: 45 Copynumber: 2.8 Consensus size: 41
6915862 GGTGCGTTTG
* *
6915872 GTTTGG-TGTATTGGATTAGAGGTGTAATAGCAAATCAACT
1 GTTTGGTTGTAATGGAATAGAGGTGTAATAGCAAATCAACT
* * ***
6915912 GTTTGGTTGAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGT
1 GTTTGG-T---TGTAATGGAATAGAGGTGTAATAGCAAATCAACT
6915956 GTTTGGTTG-AATGGAATAGAGGTGTAATAGCA
1 GTTTGGTTGTAATGGAATAGAGGTGTAATAGCA
6915988 TAATGGAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
39 20 0.33
40 8 0.13
43 1 0.02
44 11 0.18
45 21 0.34
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.34
Consensus pattern (41 bp):
GTTTGGTTGTAATGGAATAGAGGTGTAATAGCAAATCAACT
Found at i:6916154 original size:18 final size:17
Alignment explanation
Indices: 6916133--6916167 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6916123 TTATTATTAA
*
6916133 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6916151 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6916168 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6916221 original size:157 final size:157
Alignment explanation
Indices: 6916020--6916304 Score: 507
Period size: 157 Copynumber: 1.8 Consensus size: 157
6916010 TAGAATACCC
* *
6916020 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
6916085 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
6916150 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
6916177 TTAGCAGAAATTTATTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
6916242 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
6916305 TAAGGAACCA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 121 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:6916303 original size:15 final size:16
Alignment explanation
Indices: 6916270--6916304 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6916260 TTAATCATAT
*
6916270 TTAAATATAATTATTA
1 TTAAATATAATTATAA
6916286 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
6916301 TTAA
1 TTAA
6916305 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:6916729 original size:31 final size:32
Alignment explanation
Indices: 6916683--6916744 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
6916673 CTTGAACGAA
*
6916683 TATCAGAGCTCGAAAATTA-CCAAAAAATTGC
1 TATCAAAGCTCGAAAATTACCCAAAAAATTGC
* *
6916714 TATCAAAGCTTGAAAATTACCCAATAAATTG
1 TATCAAAGCTCGAAAATTACCCAAAAAATTG
6916745 ATATAAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (32 bp):
TATCAAAGCTCGAAAATTACCCAAAAAATTGC
Found at i:6932028 original size:3 final size:3
Alignment explanation
Indices: 6932022--6932084 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
6932012 TTTTTTAGTA
6932022 ATT ATT ATT ATT ATT ATT ATT -TCT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
*
6932066 -TT ATTT ATC A-T ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT AT
6932085 ACGATAGTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
2 6 0.12
3 42 0.81
4 4 0.08
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.