Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 107 of 325
Found at i:31631948 original size:27 final size:27
Alignment explanation
Indices: 31631918--31632008 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
31631908 ACCCCTATTA
* *
31631918 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAT
*
31631945 GGTAAAGTGACCGTAAAGCCCCTGTAT
1 GGTAAAATGACCGTAAAGCCCCTGTAT
*
31631972 GGTAAAGTGACCGTAATA--CCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAT
31631998 GGTAAAATGAC
1 GGTAAAATGAC
31632009 GAATATGCCC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 18 0.31
27 40 0.68
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAT
Found at i:31633214 original size:25 final size:25
Alignment explanation
Indices: 31633167--31633214 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31633157 TTATACCATG
* * * *
31633167 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
31633192 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
31633215 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:31633317 original size:20 final size:20
Alignment explanation
Indices: 31633257--31633317 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31633247 ATAAATATGG
*
31633257 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
31633277 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31633297 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31633317 T
1 T
31633318 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:31633411 original size:23 final size:24
Alignment explanation
Indices: 31633367--31633508 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
31633357 GAGGAAGTGA
31633367 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31633391 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31633414 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
31633437 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
31633461 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
31633485 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31633509 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 46 0.42
24 52 0.48
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:31633436 original size:47 final size:47
Alignment explanation
Indices: 31633367--31633508 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
31633357 GAGGAAGTGA
31633367 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
31633414 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
31633461 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
31633509 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
46 13 0.15
47 52 0.60
48 11 0.13
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:31634937 original size:87 final size:87
Alignment explanation
Indices: 31634790--31634963 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 87
31634780 AACTTACCTC
* * *
31634790 GTACTCAGAATTTTTTGACTCGGACTGTTTATTCTACAATCTTCGATTTCCCTCGATCTAAGTCT
1 GTACTCAGAATTTGTCGACTAGGACTGTTTATTCTACAATCTTCGATTTCCCTCGATCTAAGTCT
31634855 GAATTCCTCTTTTCTTGATCTT
66 GAATTCCTCTTTTCTTGATCTT
* * *
31634877 GTACTCAGAATTTGTCGACTAGGACTGTTTATTCTACAATCTTCGGTTTCCCTTGGTCTAAGTCT
1 GTACTCAGAATTTGTCGACTAGGACTGTTTATTCTACAATCTTCGATTTCCCTCGATCTAAGTCT
31634942 GAATTCCTCTTTTCTTGATCTT
66 GAATTCCTCTTTTCTTGATCTT
31634964 AATTAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (87 bp):
GTACTCAGAATTTGTCGACTAGGACTGTTTATTCTACAATCTTCGATTTCCCTCGATCTAAGTCT
GAATTCCTCTTTTCTTGATCTT
Found at i:31642171 original size:18 final size:20
Alignment explanation
Indices: 31642135--31642172 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31642125 CCCACAACAT
31642135 TCTCTCATTCTTTCTTCTCC
1 TCTCTCATTCTTTCTTCTCC
31642155 TCTCTCATT-TTTC-TCTCC
1 TCTCTCATTCTTTCTTCTCC
31642173 ATTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.05, C:0.39, G:0.00, T:0.55
Consensus pattern (20 bp):
TCTCTCATTCTTTCTTCTCC
Found at i:31644195 original size:29 final size:29
Alignment explanation
Indices: 31644167--31644298 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
31644157 CCTCCGAGCT
** * * *
31644167 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
31644196 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31644225 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31644254 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
31644283 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31644299 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:31644229 original size:87 final size:87
Alignment explanation
Indices: 31644109--31644299 Score: 206
Period size: 87 Copynumber: 2.2 Consensus size: 87
31644099 TACTCGATTT
** * * *
31644109 CGCACACTTAGTGCCACGTAATTTAAGCTCGCACACACAGTGCCATA-CCCTCCGAGCTCGCACA
1 CGCACACTTAGTGCCAAATAATTTAAGCACGCACACACAGTGCCATATACCTCC-AGCACGCACA
* * *
31644173 CCCAGTGCCGTATTTTTCCAGCT
65 CCCAGTGCCATATATTTCCAGCA
* * ** **
31644196 TGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACA
1 CGCACACTTAGTGCCAAATAATTT-AAGCACGCACACACAGTGCCATATACCTCCAGCACGCACA
**
31644260 CTTAGTGCCATATATTTCCAGCA
65 CCCAGTGCCATATATTTCCAGCA
31644283 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
31644300 TCTCGTCACC
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
86 4 0.05
87 78 0.92
88 3 0.04
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACTTAGTGCCAAATAATTTAAGCACGCACACACAGTGCCATATACCTCCAGCACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:31648441 original size:51 final size:51
Alignment explanation
Indices: 31648365--31648465 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
31648355 CATGAATGTG
*
31648365 TATGTTTAAGTCCGGTAATATCTCGTACCCTGTTCCAGCATCGGACATGGA
1 TATGTTTAAGTCCGGTAATATCTCGTACCCTGTTCCAGCATCAGACATGGA
* **
31648416 TATGTTTAAGTCCGGTAATGTCTCGTACCCTGTTCTGGCATCAGACATGG
1 TATGTTTAAGTCCGGTAATATCTCGTACCCTGTTCCAGCATCAGACATGG
31648466 GTAAAGGGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (51 bp):
TATGTTTAAGTCCGGTAATATCTCGTACCCTGTTCCAGCATCAGACATGGA
Found at i:31656267 original size:12 final size:12
Alignment explanation
Indices: 31656250--31656276 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31656240 GTGTCATCGT
31656250 ACACGGCCTACC
1 ACACGGCCTACC
31656262 ACACGGCCTACC
1 ACACGGCCTACC
31656274 ACA
1 ACA
31656277 TGGTCGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.48, G:0.15, T:0.07
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:31658625 original size:22 final size:22
Alignment explanation
Indices: 31658585--31658627 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31658575 TGTAGGGTTC
* **
31658585 ACATGCCCGTGTGGTCCTAGGG
1 ACATGCCAGTGTGACCCTAGGG
31658607 ACATGCCAGTGTGACCCTAGG
1 ACATGCCAGTGTGACCCTAGG
31658628 ACACTCCCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (22 bp):
ACATGCCAGTGTGACCCTAGGG
Found at i:31660964 original size:17 final size:17
Alignment explanation
Indices: 31660942--31660976 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31660932 ACCAAAAGTC
31660942 TACATACTTTTCTTTAA
1 TACATACTTTTCTTTAA
31660959 TACATACTTTTCTTTAA
1 TACATACTTTTCTTTAA
31660976 T
1 T
31660977 GGTCTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (17 bp):
TACATACTTTTCTTTAA
Found at i:31663785 original size:13 final size:13
Alignment explanation
Indices: 31663767--31663798 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
31663757 ATTAATATAT
31663767 AATAATCCAACTC
1 AATAATCCAACTC
31663780 AATAATCCAACTC
1 AATAATCCAACTC
*
31663793 ATTAAT
1 AATAAT
31663799 ATAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATCCAACTC
Found at i:31689406 original size:39 final size:39
Alignment explanation
Indices: 31689290--31689407 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
31689280 GGAGTCCATT
* *
31689290 CCAGCACATAGCCTGCGGACCTCATGTCCGGATATATTT
1 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
* * *
31689329 CCAACATATAGCCTGCGAACCTCATGTCCGGGTATATTC
1 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
31689368 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
1 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
31689407 C
1 C
31689408 GAATATCATG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (39 bp):
CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
Found at i:31692629 original size:27 final size:27
Alignment explanation
Indices: 31692599--31692876 Score: 244
Period size: 27 Copynumber: 10.3 Consensus size: 27
31692589 TGTACCTGAA
* *
31692599 CCCTTATGAGATAAAATGACTGCTTTT-
1 CCCTTATGAGGTAAAATGAC-GTTTTTG
* * *
31692626 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGGTAAAATGACGTTTTTG
*
31692653 CCCTTATGAGTTAAAATGACGATTTTT-
1 CCCTTATGAGGTAAAATGACG-TTTTTG
* * *
31692680 CCCTTATGTGGCAAAATGACGGTTTTG
1 CCCTTATGAGGTAAAATGACGTTTTTG
* * * *
31692707 CCTTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGGTAAAATGACGTTTTTG
* *
31692734 CCTTTATGAGGTAAAATGGCAGTTTTT-
1 CCCTTATGAGGTAAAATGAC-GTTTTTG
* * *
31692761 CCCTTATGTGGCAAAATGAC-TATTTTT
1 CCCTTATGAGGTAAAATGACGT-TTTTG
* * *
31692788 TCCTTATGTGATAAAATGACGATTTTT-
1 CCCTTATGAGGTAAAATGACG-TTTTTG
* *
31692815 CCCTTATGAGGTAACATGACGGTTTTG
1 CCCTTATGAGGTAAAATGACGTTTTTG
31692842 CCCTTATGAGGTAAAATGAC-TGTTTTG
1 CCCTTATGAGGTAAAATGACGT-TTTTG
*
31692869 CCCCTATG
1 CCCTTATG
31692877 TGATGTTTGT
Statistics
Matches: 209, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.00
26 17 0.08
27 177 0.85
28 13 0.06
29 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
CCCTTATGAGGTAAAATGACGTTTTTG
Found at i:31692734 original size:81 final size:82
Alignment explanation
Indices: 31692611--31692880 Score: 361
Period size: 81 Copynumber: 3.3 Consensus size: 82
31692601 CTTATGAGAT
* *
31692611 AAAATGACTGCTTTT-CCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGTTAAAATGACGA
1 AAAATGACTGGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGA
31692675 TTTTTCCCTTATGTGGC
66 TTTTTCCCTTATGTGGC
* * *
31692692 AAAATGAC-GGTTTTGCCTTTATGTGATAAAATGACGATTTTGCCTTTATGAGGTAAAATGGC-A
1 AAAATGACTGGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGA
31692755 GTTTTTCCCTTATGTGGC
66 -TTTTTCCCTTATGTGGC
* ** * * *
31692773 AAAATGACT-ATTTTTTCCTTATGTGATAAAATGACGATTTTTCCCTTATGAGGTAACATGACGG
1 AAAATGACTGGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGA
* * *
31692837 TTTTGCCCTTATGAGGT
66 TTTTTCCCTTATGTGGC
*
31692854 AAAATGACT-GTTTTGCCCCTATGTGAT
1 AAAATGACTGGTTTTGCCCTTATGTGAT
31692881 GTTTGTGTAT
Statistics
Matches: 164, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 6 0.04
81 158 0.96
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (82 bp):
AAAATGACTGGTTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGAGGTAAAATGACGA
TTTTTCCCTTATGTGGC
Found at i:31693233 original size:18 final size:18
Alignment explanation
Indices: 31693207--31693257 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
31693197 TTGCATACTG
31693207 TTTACTGTTACTGCACTGA
1 TTTACTGTTACTGCACT-A
* *
31693226 -TTATTGTTACTACACTA
1 TTTACTGTTACTGCACTA
31693243 TTTACTGTTACTGCA
1 TTTACTGTTACTGCA
31693258 ATGGGCCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTACTGTTACTGCACTA
Found at i:31694844 original size:28 final size:27
Alignment explanation
Indices: 31694781--31694850 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
31694771 ATAGTGAGTC
31694781 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
31694808 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31694836 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31694851 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31699235 original size:19 final size:19
Alignment explanation
Indices: 31699211--31699270 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
31699201 ACATTCGAGC
31699211 ACTTAATTTAGTCAAAAGG
1 ACTTAATTTAGTCAAAAGG
31699230 ACTTAATTTAGTCAAAAGG
1 ACTTAATTTAGTCAAAAGG
*
31699249 ACTTAATTTAGCCAAAAGG
1 ACTTAATTTAGTCAAAAGG
31699268 ACT
1 ACT
31699271 AAATCGTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (19 bp):
ACTTAATTTAGTCAAAAGG
Found at i:31705046 original size:29 final size:28
Alignment explanation
Indices: 31705008--31705066 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
31704998 CAATTTTGGA
* *
31705008 TTAAATTGTGAAA-TGTAGAAATTTAGTGG
1 TTAAAATGTGAAATTGT-GAAATATA-TGG
31705037 TTAAAATGTGAAATTGTGAAATATATGG
1 TTAAAATGTGAAATTGTGAAATATATGG
31705065 TT
1 TT
31705067 GTGTGAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 5 0.19
29 19 0.70
30 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (28 bp):
TTAAAATGTGAAATTGTGAAATATATGG
Found at i:31706259 original size:43 final size:43
Alignment explanation
Indices: 31706171--31706335 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
31706161 AATGTGATAT
* * * * *
31706171 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
* *
31706214 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * * * *
31706257 TCGGGCTTCCGGCGTAGCACGCTATAATGCCAGTGAAATGATA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * *
31706300 TTGGGCTTCAAGCCTAGCAGGC-AAAATGCCGGTGAA
1 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
31706336 TGAGTTCAGA
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 12 0.12
43 67 0.66
44 16 0.16
45 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:31706358 original size:41 final size:41
Alignment explanation
Indices: 31706226--31706415 Score: 118
Period size: 43 Copynumber: 4.6 Consensus size: 41
31706216 GGGCTTCGGG
* ****
31706226 CCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTCCGG
1 CCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGAGCTTAAAA
* * * * * *
31706269 CGTAGCACGCTATAATGCCAGTGAAATGATATT-GGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGA-ATTCGAGCTTAAAA
* * *
31706312 CCTAGCAGGCAAAATGCCGGTGAATGAGTTC-AGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCGAG-CTTAAAA
* *** *
31706353 TCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGAGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGCTTAAAA
31706393 CCTAGCAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
31706416 TTTGATAAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
40 33 0.28
41 30 0.26
42 9 0.08
43 39 0.34
44 3 0.03
45 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGCTTAAAA
Found at i:31706411 original size:40 final size:40
Alignment explanation
Indices: 31706312--31706416 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
31706302 GGGCTTCAAG
* * *
31706312 CCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** *
31706353 TCTAGCAGGCTTCGTGCCGGTGATGAATTC-GAGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGA-CTTAAAA
31706393 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
31706417 TTGATAAAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.04
40 32 0.63
41 17 0.33
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:31707996 original size:91 final size:92
Alignment explanation
Indices: 31707887--31708056 Score: 288
Period size: 91 Copynumber: 1.9 Consensus size: 92
31707877 CGCCCATAAG
* * *
31707887 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
31707951 ACGAGCTCGGATGCCTAGTTACATTCA
66 ACGAGCTCGGATGCCTAGTTACATTCA
*
31707978 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
31708043 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
31708057 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
91 49 0.67
92 24 0.33
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTCA
Found at i:31708007 original size:46 final size:44
Alignment explanation
Indices: 31707881--31708056 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 44
31707871 GTAACCCGCC
* * * * *
31707881 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAACGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCGCATA
** *
31707927 CATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGC-CTAGTTA
1 CATAAACGAACTCGGACTCAACTCAACGAGTTCGGATGCGC-A--TA
** * *
31707972 CATTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAAACGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCATA
*
31708018 CATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATAAACGAACTCGGACTCAACTCAACGAGTTCGGATGC
31708057 TCAACCATCC
Statistics
Matches: 108, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 5 0.05
45 29 0.27
46 65 0.60
48 4 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (44 bp):
CATAAACGAACTCGGACTCAACTCAACGAGTTCGGATGCGCATA
Found at i:31715553 original size:91 final size:92
Alignment explanation
Indices: 31715444--31715613 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 92
31715434 CGCCCATAAG
* *
31715444 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31715509 ACGAG-TCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
31715535 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31715600 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31715614 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 67 0.89
92 8 0.11
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Found at i:31715610 original size:46 final size:46
Alignment explanation
Indices: 31715437--31715610 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
31715427 TGTAACCCGC
* * *
31715437 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31715483 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
31715528 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31715574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31715611 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 32 0.29
46 68 0.62
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31715629 original size:46 final size:46
Alignment explanation
Indices: 31715445--31715629 Score: 136
Period size: 46 Copynumber: 4.0 Consensus size: 46
31715435 GCCCATAAGC
* ** * *
31715445 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
31715491 GAACTCGGACTCAACTCAACGAG-TCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
31715536 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
31715582 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
31715628 GA
1 GA
31715630 CATGTCACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 29 0.26
46 64 0.57
48 4 0.04
49 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:31718999 original size:12 final size:12
Alignment explanation
Indices: 31718982--31719007 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31718972 GGTTTGGCAC
31718982 GGCCTAGCACAT
1 GGCCTAGCACAT
31718994 GGCCTAGCACAT
1 GGCCTAGCACAT
31719006 GG
1 GG
31719008 GTGTGTAAGG
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:31730653 original size:25 final size:25
Alignment explanation
Indices: 31730619--31730781 Score: 90
Period size: 25 Copynumber: 6.6 Consensus size: 25
31730609 ACACACCTTA
31730619 GCTC-TTGTGAGCTTCCTGATATAG
1 GCTCTTTGTGAGCTTCCTGATATAG
*
31730643 GCTCTTTGTGAGCTTCCTGTTAACTA-
1 GCTCTTTGTGAGCTTCCTGAT-A-TAG
* *
31730669 GCTCGTTGTGAGCTTCC-CA-ATAG
1 GCTCTTTGTGAGCTTCCTGATATAG
** * ** *
31730692 TGCTCGCT-TGAACTTCCCAAAATATG
1 -GCTCTTTGTGAGCTTCCTGATATA-G
* * * *
31730718 GCTATCTGT-AGCTTCCTGTTACATG
1 GCTCTTTGTGAGCTTCCTGATATA-G
*
31730743 GCTCTTTGTGAGCTTCCCG--ATAG
1 GCTCTTTGTGAGCTTCCTGATATAG
*
31730766 GCTCTTGGTGAGCTTC
1 GCTCTTTGTGAGCTTC
31730782 TCGATTAAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
22 2 0.02
23 25 0.23
24 13 0.12
25 40 0.37
26 27 0.25
27 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (25 bp):
GCTCTTTGTGAGCTTCCTGATATAG
Found at i:31730679 original size:26 final size:23
Alignment explanation
Indices: 31730617--31730685 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 23
31730607 GGACACACCT
31730617 TAGCTCTTGTGAGCTTCCTGATA
1 TAGCTCTTGTGAGCTTCCTGATA
*
31730640 TAGGCTCTTTGTGAGCTTCCTGTTAA
1 TA-GCTC-TTGTGAGCTTCCTGAT-A
31730666 CTAGCTCGTTGTGAGCTTCC
1 -TAGCTC-TTGTGAGCTTCC
31730686 CAATAGTGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 15 0.38
26 17 0.43
27 2 0.05
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (23 bp):
TAGCTCTTGTGAGCTTCCTGATA
Found at i:31730771 original size:23 final size:23
Alignment explanation
Indices: 31730742--31730786 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
31730732 CCTGTTACAT
*
31730742 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTGGTGAGCTTCCCGATA
*
31730765 GGCTCTTGGTGAGCTTCTCGAT
1 GGCTCTTGGTGAGCTTCCCGAT
31730787 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.24, G:0.29, T:0.36
Consensus pattern (23 bp):
GGCTCTTGGTGAGCTTCCCGATA
Found at i:31732980 original size:25 final size:25
Alignment explanation
Indices: 31732937--31733030 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
31732927 TCCTGTACAT
* *
31732937 GTATGCTCATACGAA-CTGTGAATCG
1 GTATGCTCACAC-AAGCTGTAAATCG
* *
31732962 GTATGCTCACTCTAGCTGTAAATCG
1 GTATGCTCACACAAGCTGTAAATCG
* ** *
31732987 ATATGCTGTCACAAGCTGTAAATTG
1 GTATGCTCACACAAGCTGTAAATCG
*
31733012 GTATGCTCACACGAGCTGT
1 GTATGCTCACACAAGCTGT
31733031 GGGTCGAAAC
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTAAATCG
Found at i:31735441 original size:46 final size:46
Alignment explanation
Indices: 31735273--31735448 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
31735263 TGTAACCCGC
* * * * * * *
31735273 CCATAAGCAAACTCGGACTCAAATCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
31735319 CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
31735369 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
31735412 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31735449 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:31735441 original size:93 final size:93
Alignment explanation
Indices: 31735282--31735451 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
31735272 CCCATAAGCA
* * *
31735282 AACTCGGACTCAAATCAACAAGCTCGGGCGTTCGCATCCATTAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31735347 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * * *
31735375 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31735440 GAGTTCGGATGC
66 GAGTTCGGATGC
31735452 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAAATCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:31735467 original size:46 final size:45
Alignment explanation
Indices: 31735319--31735467 Score: 139
Period size: 46 Copynumber: 3.2 Consensus size: 45
31735309 GCGTTCGCAT
31735319 CCAT-TAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA
1 CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---A
* * *
31735366 -CATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCAT
1 CCATCT-AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAA
*
31735412 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
1 CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
31735456 CCATCCTAGTGA
1 CCAT-CTAGTGA
31735468 CATGTCACTT
Statistics
Matches: 83, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
44 8 0.10
45 2 0.02
46 36 0.43
47 32 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATCTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
Found at i:31740471 original size:79 final size:80
Alignment explanation
Indices: 31740352--31740535 Score: 176
Period size: 79 Copynumber: 2.3 Consensus size: 80
31740342 GCTACTCGTT
* * * *
31740352 CAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCACCAAGGCCTACGGGACTTAACCCAG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCAG
* *
31740417 ATATCA-CGA-TTGCA
66 ATAT-AGCCACTAGCA
* * * * * * * *
31740431 CAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCGCACCAAGGCCTACGGGACTTAACCCA
31740495 GATATAGCCACTAGCA
65 GATATAGCCACTAGCA
* * *
31740511 CCATTGCCTTCGGGTCTTAACCCGG
1 CAAATGCCTTCGGGTCTTAGCCCGG
31740536 TTATAATTTC
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
78 2 0.02
79 57 0.67
80 26 0.31
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (80 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCAG
ATATAGCCACTAGCA
Found at i:31740488 original size:40 final size:40
Alignment explanation
Indices: 31740428--31740535 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
31740418 TATCACGATT
** *
31740428 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
31740468 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
31740508 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
31740536 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:31748755 original size:50 final size:50
Alignment explanation
Indices: 31748692--31748926 Score: 262
Period size: 50 Copynumber: 4.7 Consensus size: 50
31748682 TAGGGTTATG
31748692 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATAGATATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATAGATATA
* * * *
31748742 TGTGATCCTATGTAAGACAATGTCTAGGACATGGCATTGGCATAGATATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATAGATATA
* * *
31748792 TGTGATCCCATGTAATACCATGTCTAGGACATGGTATT-AGCATCA-ATATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGA-CAT-AGATATA
* * * * *
31748842 TATGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATAGATATA
**** * *
31748892 T-T-ATTTTGTATAAGACCATGTCTGGGAAATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
31748927 CAATACGAGA
Statistics
Matches: 157, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
48 26 0.17
49 1 0.01
50 129 0.82
51 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (50 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATAGATATA
Found at i:31749184 original size:16 final size:17
Alignment explanation
Indices: 31749163--31749195 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
31749153 AAGCATTGGC
31749163 TTCATGAT-ATTATGAA
1 TTCATGATCATTATGAA
31749179 TTCATGATCATTATGAA
1 TTCATGATCATTATGAA
31749196 GGTGACTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
TTCATGATCATTATGAA
Found at i:31750666 original size:13 final size:13
Alignment explanation
Indices: 31750648--31750672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31750638 CATGAAGTCA
31750648 AATTTCTTGCATC
1 AATTTCTTGCATC
31750661 AATTTCTTGCAT
1 AATTTCTTGCAT
31750673 GTCCAAAAAA
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:0.20, G:0.08, T:0.48
Consensus pattern (13 bp):
AATTTCTTGCATC
Found at i:31761966 original size:21 final size:21
Alignment explanation
Indices: 31761940--31761982 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31761930 AATGCATAGA
31761940 ATCGGGATCAATTAATGCAGT
1 ATCGGGATCAATTAATGCAGT
31761961 ATCGGGATCAATTAATGCAGT
1 ATCGGGATCAATTAATGCAGT
31761982 A
1 A
31761983 ATATCAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (21 bp):
ATCGGGATCAATTAATGCAGT
Found at i:31769238 original size:8 final size:8
Alignment explanation
Indices: 31769227--31769277 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
31769217 GTAAATTAGG
31769227 TAATTAAA
1 TAATTAAA
31769235 TAATTAAA
1 TAATTAAA
*
31769243 TGA-TAAA
1 TAATTAAA
*
31769250 TTAAATAAA
1 -TAATTAAA
31769259 TTAAATTAAA
1 -T-AATTAAA
31769269 TAATTAAA
1 TAATTAAA
31769277 T
1 T
31769278 GATAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 4 0.11
8 20 0.54
9 7 0.19
10 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (8 bp):
TAATTAAA
Found at i:31769253 original size:12 final size:12
Alignment explanation
Indices: 31769236--31769289 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
31769226 GTAATTAAAT
31769236 AATTAAATGATA
1 AATTAAATGATA
31769248 AATT-AA--ATA
1 AATTAAATGATA
* *
31769257 AATTAAATTAAA
1 AATTAAATGATA
31769269 TAATTAAATGATA
1 -AATTAAATGATA
31769282 AATTAAAT
1 AATTAAAT
31769290 AAAATAAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
9 7 0.20
10 2 0.06
11 2 0.06
12 14 0.40
13 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (12 bp):
AATTAAATGATA
Found at i:31769253 original size:20 final size:20
Alignment explanation
Indices: 31769228--31769291 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
31769218 TAAATTAGGT
31769228 AATTAAATAATTAAATGATA
1 AATTAAATAATTAAATGATA
31769248 AATT--A-AA-TAAAT--TA
1 AATTAAATAATTAAATGATA
31769262 AATTAAATAATTAAATGATA
1 AATTAAATAATTAAATGATA
31769282 AATTAAATAA
1 AATTAAATAA
31769292 AATAAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.16
16 6 0.16
17 4 0.11
18 6 0.16
20 16 0.42
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AATTAAATAATTAAATGATA
Found at i:31769263 original size:5 final size:5
Alignment explanation
Indices: 31769228--31769294 Score: 54
Period size: 5 Copynumber: 13.6 Consensus size: 5
31769218 TAAATTAGGT
31769228 AATTA AA-T- AATTA AATGATA AATTA AA-TA AATTA AATTA AA-T- AATTA
1 AATTA AATTA AATTA AAT--TA AATTA AATTA AATTA AATTA AATTA AATTA
*
31769275 AATGATA AATTA AATAA AAT
1 AAT--TA AATTA AATTA AAT
31769295 AAAACAAGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 18
0.73 0.01 0.25
Matches are distributed among these distances:
3 4 0.08
4 8 0.15
5 30 0.58
7 10 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (5 bp):
AATTA
Found at i:31769268 original size:34 final size:34
Alignment explanation
Indices: 31769228--31769297 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
31769218 TAAATTAGGT
*
31769228 AATTAAATAATTAAATGATAAATTAAATAAATTA
1 AATTAAATAATTAAATGATAAATTAAATAAAATA
31769262 AATTAAATAATTAAATGATAAATTAAATAAAATA
1 AATTAAATAATTAAATGATAAATTAAATAAAATA
31769296 AA
1 AA
31769298 ACAAGCTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (34 bp):
AATTAAATAATTAAATGATAAATTAAATAAAATA
Found at i:31772419 original size:16 final size:18
Alignment explanation
Indices: 31772382--31772421 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
31772372 GTTTTTTTAG
31772382 TATTTGTGCATATTATATT
1 TATTTGTGCA-ATTATATT
31772401 TATTTGTGC-ATTA-ATT
1 TATTTGTGCAATTATATT
31772417 TATTT
1 TATTT
31772422 AGTTGTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
19 9 0.43
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (18 bp):
TATTTGTGCAATTATATT
Found at i:31772427 original size:20 final size:19
Alignment explanation
Indices: 31772385--31772427 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
31772375 TTTTTAGTAT
*
31772385 TTGTGCATATTATATTTAT
1 TTGTGCATATTATATTTAG
31772404 TTGTGCATTAATT-TATTTAG
1 TTGTGCA-T-ATTATATTTAG
31772424 TTGT
1 TTGT
31772428 CTAATGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 11 0.52
21 3 0.14
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.58
Consensus pattern (19 bp):
TTGTGCATATTATATTTAG
Found at i:31773231 original size:3 final size:3
Alignment explanation
Indices: 31773223--31773279 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
31773213 AATGGCAATG
31773223 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
31773271 ATA ATA ATA
1 ATA ATA ATA
31773280 TATTGAACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31775548 original size:207 final size:207
Alignment explanation
Indices: 31775193--31776093 Score: 1554
Period size: 207 Copynumber: 4.4 Consensus size: 207
31775183 GGTCTGCTTC
* *
31775193 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATTATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
*
31775258 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACTCTCCGTCGAATATGGAGA
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
31775323 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
131 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
31775388 TAAGCACGTGAA
196 TAAGCACGTGAA
31775400 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
*
31775465 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTTTCCGTCGAATATGGAGA
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
** *
31775530 CGCCAAACTTTAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCG
131 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
31775595 TAAGCACGTGAA
196 TAAGCACGTGAA
* *
31775607 AGCCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATTATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
* *
31775672 TTGCTTCAGTATTAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCGAATATGGAGA
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
*
31775737 CGCCAACCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
131 CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
31775802 TAAGCACGTGAA
196 TAAGCACGTGAA
* * *
31775814 AGCCAAATCAGCTATGAT-TTCGATTTGTTTCTTGTAAACACAAGGATGCCAAATCATATTGGAT
1 AGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* * * ** * *
31775878 C-TGCTTCAGTCTAATCATCTGCAGGTTAGATCTGCTATGTGTCTGCCCTCTGTCGAATATGGAG
65 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAG
* * *
31775942 ACGCCAAACTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
130 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
31776007 GTAAGCACGTGAA
195 GTAAGCACGTGAA
31776020 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
31776085 TTGCTTCAG
66 TTGCTTCAG
31776094 CCAGATCTGC
Statistics
Matches: 654, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 188 0.29
207 464 0.71
208 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (207 bp):
AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
CGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
TAAGCACGTGAA
Found at i:31787386 original size:46 final size:46
Alignment explanation
Indices: 31787331--31787461 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
31787321 GATATTTGGG
*
31787331 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAA
** *
31787377 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAA
* * * *
31787423 CACCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31787462 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAA
Found at i:31797573 original size:14 final size:14
Alignment explanation
Indices: 31797554--31797583 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31797544 TATTTTCAAG
31797554 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
31797568 ATAGATTCACGCAT
1 ATAGATTAACGCAT
31797582 AT
1 AT
31797584 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:31800201 original size:40 final size:40
Alignment explanation
Indices: 31800134--31800301 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
31800124 AGAAATTGAA
* * *
31800134 TATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
* * ***
31800173 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
*
31800213 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAAT
* * ** *
31800253 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
31800293 TATATCCGG
1 TATATCCGG
31800302 TTATATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 17 0.16
40 87 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
Found at i:31811882 original size:28 final size:28
Alignment explanation
Indices: 31811813--31811913 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
31811803 GACAAGATTG
* * * *
31811813 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
31811843 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31811871 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
31811900 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31811914 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31819836 original size:28 final size:28
Alignment explanation
Indices: 31819767--31819867 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
31819757 GACAAGATTG
* * * *
31819767 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
31819797 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31819825 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
31819854 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31819868 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31824375 original size:49 final size:49
Alignment explanation
Indices: 31824303--31824400 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
31824293 TATCATACAC
31824303 TTAGTGCCTCAAGTAGCCAAAGCTAGTTAAATCGCACACTTAGTGCCAA
1 TTAGTGCCTCAAGTAGCCAAAGCTAGTTAAATCGCACACTTAGTGCCAA
31824352 TTAGTGCCTCAAGTAGCCAAAGCTAGTTAAATCGCACACTTAGTGCCAA
1 TTAGTGCCTCAAGTAGCCAAAGCTAGTTAAATCGCACACTTAGTGCCAA
31824401 AGCTAGCTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (49 bp):
TTAGTGCCTCAAGTAGCCAAAGCTAGTTAAATCGCACACTTAGTGCCAA
Found at i:31824414 original size:30 final size:29
Alignment explanation
Indices: 31824367--31824434 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 29
31824357 GCCTCAAGTA
31824367 GCCAAAGCTAGTTAAATCGCACACTTAGT
1 GCCAAAGCTAGTTAAATCGCACACTTAGT
31824396 GCCAAAGCTAGCTTAAATCGCACACTTAGT
1 GCCAAAGCTAG-TTAAATCGCACACTTAGT
31824426 GCCAAAGCT
1 GCCAAAGCT
31824435 TCCGACTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.29
30 27 0.71
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCGCACACTTAGT
Found at i:31825841 original size:46 final size:48
Alignment explanation
Indices: 31825702--31825922 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 48
31825692 GGGGTCAAGT
** * *
31825702 GCCGATGCCATGTCCCAAACATGGTCTTACACAAGTTCTAGCATATCTGT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TA-CATCTC-GTA
* *
31825752 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTA
*
31825798 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTA
* * * * *
31825843 GGCCGATG-CATGTCCTAAACAT-GTCTTACACTAGCACT-CGTCTC-AA
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-TTACATCTCGTA
* * *
31825889 TGTCGATCCCATATCCCAAACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACT
31825923 AGCTCTCATA
Statistics
Matches: 146, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
44 12 0.08
45 16 0.11
46 63 0.43
47 14 0.10
48 10 0.07
50 31 0.21
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCGTA
Found at i:31829849 original size:127 final size:127
Alignment explanation
Indices: 31829623--31829878 Score: 512
Period size: 127 Copynumber: 2.0 Consensus size: 127
31829613 AGCTTCATTC
31829623 ATTCACCTTACAGCATTATTCCTCCATTTCCTAACAAGAAGTCAAGAGTGATGATCAGATGACAA
1 ATTCACCTTACAGCATTATTCCTCCATTTCCTAACAAGAAGTCAAGAGTGATGATCAGATGACAA
31829688 ACATTGGGAAAACAACCTGAATAAAGCAGAACTAACTCAGAAGAATGGTATATCGTATTCAA
66 ACATTGGGAAAACAACCTGAATAAAGCAGAACTAACTCAGAAGAATGGTATATCGTATTCAA
31829750 ATTCACCTTACAGCATTATTCCTCCATTTCCTAACAAGAAGTCAAGAGTGATGATCAGATGACAA
1 ATTCACCTTACAGCATTATTCCTCCATTTCCTAACAAGAAGTCAAGAGTGATGATCAGATGACAA
31829815 ACATTGGGAAAACAACCTGAATAAAGCAGAACTAACTCAGAAGAATGGTATATCGTATTCAA
66 ACATTGGGAAAACAACCTGAATAAAGCAGAACTAACTCAGAAGAATGGTATATCGTATTCAA
31829877 AT
1 AT
31829879 CCAAGTACTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (127 bp):
ATTCACCTTACAGCATTATTCCTCCATTTCCTAACAAGAAGTCAAGAGTGATGATCAGATGACAA
ACATTGGGAAAACAACCTGAATAAAGCAGAACTAACTCAGAAGAATGGTATATCGTATTCAA
Found at i:31836208 original size:27 final size:27
Alignment explanation
Indices: 31836178--31836251 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
31836168 TGATGAAAGA
31836178 TACCCCTTTTGGTAAGTGTTGACAGAT
1 TACCCCTTTTGGTAAGTGTTGACAGAT
31836205 TACCCCTTTTGGTAAGTGTTGACAGAT
1 TACCCCTTTTGGTAAGTGTTGACAGAT
*
31836232 TACCCCTTTTGGTGAGTGTT
1 TACCCCTTTTGGTAAGTGTT
31836252 TCTTTCATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (27 bp):
TACCCCTTTTGGTAAGTGTTGACAGAT
Found at i:31839117 original size:20 final size:20
Alignment explanation
Indices: 31839089--31839130 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
31839079 CTTACCATTT
*
31839089 TAAGGTAATCTAACAACTTA
1 TAAGATAATCTAACAACTTA
31839109 TAAGATAATCTAACAACTTA
1 TAAGATAATCTAACAACTTA
31839129 TA
1 TA
31839131 GAACATGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (20 bp):
TAAGATAATCTAACAACTTA
Found at i:31839804 original size:12 final size:12
Alignment explanation
Indices: 31839787--31839816 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31839777 TGTCACACGC
31839787 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
31839799 CCGTGTGCTAGG
1 CCGTGTGCCAGG
31839811 CCGTGT
1 CCGTGT
31839817 AACTCACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:31840583 original size:40 final size:40
Alignment explanation
Indices: 31840527--31840814 Score: 245
Period size: 40 Copynumber: 7.2 Consensus size: 40
31840517 GGGCACGGAA
* * *
31840527 GTGCAATCATGAGTACCGAAGTACAAACAGGGGCACCTAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
* * * * * * ** *
31840567 ATGCATTCAGGGGTACCAAAGTAAAAATAAGAACACGTAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
* * *
31840607 GTGCATTCAGGGGTATCGAAGTACAAACAGAGGCACATAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
* * * *** *
31840647 GTGCAATCAGGGTTGCCGAAGTACAAATAAAAGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
* * *
31840687 GTGCAATCAAGGGTATCGAAGTACAACCAGGGGCACATAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
* * * *
31840727 GTTCAATCATGGATACCGAAGTACAAATAGGGGCACATAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
* * * * * *
31840767 GTGCAATCAGGGATA-CAAAGTATAAAGAGGAGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
*
31840806 GTGAAATCA
1 GTGCAATCA
31840815 TTAAATAATT
Statistics
Matches: 195, Mismatches: 53, Indels: 1
0.78 0.21 0.00
Matches are distributed among these distances:
39 27 0.14
40 168 0.86
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (40 bp):
GTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATAT
Found at i:31840669 original size:80 final size:80
Alignment explanation
Indices: 31840527--31840814 Score: 301
Period size: 80 Copynumber: 3.6 Consensus size: 80
31840517 GGGCACGGAA
* * * * * * * * *
31840527 GTGCAATCATGAGTACCGAAGTACAAACAGGGGCACCTATATGCATTCAGGGGTACCAAAGTAAA
1 GTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGATACCGAAGTACA
31840592 AATAAGAACACGTAT
66 AATAAGAACACGTAT
* * * *
31840607 GTGCATTCAGGGGTATCGAAGTACAAACAGAGGCACATATGTGCAATCAGGGTTGCCGAAGTACA
1 GTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGATACCGAAGTACA
31840672 AATAA-AAGCACGTAT
66 AATAAGAA-CACGTAT
* * * *
31840687 GTGCAATCAAGGGTATCGAAGTACAACCAGGGGCACATATGTTCAATCATGGATACCGAAGTACA
1 GTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGATACCGAAGTACA
* ** *
31840752 AATAGGGGCACATAT
66 AATAAGAACACGTAT
* * * * * * *
31840767 GTGCAATCAGGGATA-CAAAGTATAAAGAGGAGCACGTATGTGAAATCA
1 GTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATCA
31840815 TTAAATAATT
Statistics
Matches: 172, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
79 27 0.16
80 145 0.84
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (80 bp):
GTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGATACCGAAGTACA
AATAAGAACACGTAT
Found at i:31842607 original size:28 final size:28
Alignment explanation
Indices: 31842573--31842656 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
31842563 AGAATTATTC
*
31842573 AATTTGCTCACACAAGCTGTGATATTTG
1 AATTTGCTCACACAAGCTATGATATTTG
*
31842601 AATTTGCTCACACATGCTATGATATTTG
1 AATTTGCTCACACAAGCTATGATATTTG
*
31842629 AATTTGATCACACAAGCTATGATATTTG
1 AATTTGCTCACACAAGCTATGATATTTG
31842657 GGCTACTCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (28 bp):
AATTTGCTCACACAAGCTATGATATTTG
Found at i:31846697 original size:47 final size:45
Alignment explanation
Indices: 31846597--31846813 Score: 154
Period size: 47 Copynumber: 4.6 Consensus size: 45
31846587 TGAGAGCTAA
* *
31846597 TGTAAGACAATGTCTGGGACATGGCATCGGCAC--AGAGATAAGTGTCAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCTCGAAGAGAT-A--GCCAG
* *
31846645 AGTAAGACATGTCTGGGACATGCACCGGCTTCGACAGAGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGC-TCGA-AGAGATAGCCAG
* * * * *
31846692 TGTAAGACGTGTCTGGGACACGCATCGGCT--AAGAGTTGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTCGAAGAGAT-AGCCAG
* * * * * *
31846736 TGTAAGACATATCTGGGATATGCATCAGCACGCATATATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTCG-A-AGA-GATAGCCAG
31846784 TGTAAGACCATGTCTGGGACATGACATCGG
1 TGTAAGA-CATGTCTGGGACATG-CATCGG
31846814 TAATTTATCC
Statistics
Matches: 132, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
43 5 0.04
44 29 0.22
46 8 0.06
47 44 0.33
48 20 0.15
49 15 0.11
50 11 0.08
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTCGAAGAGATAGCCAG
Found at i:31855374 original size:33 final size:33
Alignment explanation
Indices: 31855332--31855400 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
31855322 AGTTAATCGG
31855332 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
1 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
31855365 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
1 TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
31855398 TGG
1 TGG
31855401 CTCCTTTCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.17, C:0.06, G:0.35, T:0.42
Consensus pattern (33 bp):
TGGGTTGTTGACTGATTGACGTTGTGGTAATTA
Found at i:31857690 original size:15 final size:15
Alignment explanation
Indices: 31857670--31857699 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31857660 AGGGTCGAAT
31857670 GCTCAAAGTTAAAAG
1 GCTCAAAGTTAAAAG
31857685 GCTCAAAGTTAAAAG
1 GCTCAAAGTTAAAAG
31857700 AACTCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GCTCAAAGTTAAAAG
Found at i:31857707 original size:16 final size:15
Alignment explanation
Indices: 31857671--31857707 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
31857661 GGGTCGAATG
*
31857671 CTCAAAGTTAAAAGG
1 CTCAAAGTTAAAAGA
31857686 CTCAAAGTTAAAAGAA
1 CTCAAAGTTAAAAG-A
31857702 CTCAAA
1 CTCAAA
31857708 TTTTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (15 bp):
CTCAAAGTTAAAAGA
Found at i:31863882 original size:329 final size:330
Alignment explanation
Indices: 31863283--31863940 Score: 1255
Period size: 329 Copynumber: 2.0 Consensus size: 330
31863273 TAGAACTGAT
31863283 ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
1 ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
*
31863348 CAGGCATATGTCAGAAATGGAATATGAATAGTCCATATGTTATGAAACGTATATCTAATGAATTG
66 CAGGCATATGTCAGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTG
*
31863413 TATTGGTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTT
131 TATTGCTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTT
*
31863478 ATATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCTTTCCT
196 ATATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCCTTCCT
31863543 ACTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGC
261 ACTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGC
31863608 GATAC
326 GATAC
*
31863613 ATGTTTCTAATCGCCCTGGAATTTTTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
1 ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
31863678 CAGGCATATGTC-GAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTG
66 CAGGCATATGTCAGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTG
31863742 TATTGCTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTT
131 TATTGCTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTT
* *
31863807 ATCTGGTCACATATTTGTTCATCTCCATTTCATTTTTCCTTCTGAAGCGAGTATAGTGCCTTCCT
196 ATATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCCTTCCT
31863872 ACTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGC
261 ACTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGC
31863937 GATA
326 GATA
31863941 TGAGTAAATA
Statistics
Matches: 322, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
329 246 0.76
330 76 0.24
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (330 bp):
ATGTTTCTAATCGCCCTGGAATTTGTAAACAGCTGGCCAATGAATTATAGAGATTGTAAACTTTA
CAGGCATATGTCAGAAATGGAATATGAACAGTCCATATGTTATGAAACGTATATCTAATGAATTG
TATTGCTTTGGAATCTCTTTAAGCTATTATTCCCTTTAGCTGGGTTTTCTCACATCAATTTCCTT
ATATGGTCACATATTTGTTCATCTCCATTTCATTTGTCCTTCTGAAGCGAGTATAGTGCCTTCCT
ACTTGCCTGTCATCATCTTTTGCTAGCAATCTTTTGTTATTCTACTCAAATCACTTTTGGTTGGC
GATAC
Found at i:31872644 original size:30 final size:30
Alignment explanation
Indices: 31872589--31872650 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
31872579 CACTAAGCAA
31872589 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
31872618 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
31872649 GT
1 GT
31872651 ATGTAACAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:31876992 original size:49 final size:49
Alignment explanation
Indices: 31876836--31877136 Score: 506
Period size: 49 Copynumber: 6.3 Consensus size: 49
31876826 CCCTTCGGGA
* * * * *
31876836 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31876883 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31876930 CTTAT--CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31876977 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31877026 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31877075 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31877124 CTTATCACATATA
1 CTTATCACATATA
31877137 CTATCATGTA
Statistics
Matches: 241, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
45 1 0.00
46 1 0.00
47 88 0.37
49 151 0.63
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31881217 original size:40 final size:40
Alignment explanation
Indices: 31881185--31881735 Score: 915
Period size: 40 Copynumber: 13.8 Consensus size: 40
31881175 CCAGCATGAT
* * * *
31881185 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
31881225 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31881265 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
31881305 TGCTCTTCGAGACTTAGCCTGGATACATCACTAGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31881345 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31881385 TGCTCTTCGGGACTTAGCCC-GATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31881424 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31881464 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31881504 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
31881544 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31881584 TACTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31881624 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCCCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31881664 TGCTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31881704 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
31881736 CTCAATTCTC
Statistics
Matches: 482, Mismatches: 28, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
39 39 0.08
40 443 0.92
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:31889474 original size:40 final size:40
Alignment explanation
Indices: 31889312--31889513 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
31889302 CGAATGATGT
*
31889312 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
31889352 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
31889391 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
31889429 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
31889470 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
31889510 CCGG
1 CCGG
31889514 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:31889476 original size:78 final size:79
Alignment explanation
Indices: 31889311--31889462 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
31889301 TCGAATGATG
* * *
31889311 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
31889376 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
31889391 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
31889454 GTGCAAGTC
65 GTGCAAGTC
31889463 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:31899083 original size:123 final size:123
Alignment explanation
Indices: 31898864--31899201 Score: 588
Period size: 123 Copynumber: 2.8 Consensus size: 123
31898854 GAATTATGTG
*
31898864 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
31898929 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
31898987 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
31899052 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
31899110 AAATGAAATATGGATGTGTAATGA-TATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
31899174 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
31899202 AATTATATCC
Statistics
Matches: 206, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
122 61 0.30
123 145 0.70
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:31899225 original size:40 final size:40
Alignment explanation
Indices: 31899170--31899413 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
31899160 TGAATGATAC
* * * * **
31899170 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
31899210 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
31899250 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
31899290 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
31899330 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
31899370 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
31899410 CCGG
1 CCGG
31899414 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:31902728 original size:20 final size:20
Alignment explanation
Indices: 31902705--31902743 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31902695 TATCAATAAT
*
31902705 TTTCTTAAGGTATTGATATA
1 TTTCCTAAGGTATTGATATA
31902725 TTTCCTAAGGTATTGATAT
1 TTTCCTAAGGTATTGATAT
31902744 TCCTTCTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTCCTAAGGTATTGATATA
Found at i:31908137 original size:48 final size:48
Alignment explanation
Indices: 31908069--31908300 Score: 419
Period size: 48 Copynumber: 4.8 Consensus size: 48
31908059 GATAAATAAG
*
31908069 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTGATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
31908117 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
31908165 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
31908213 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* *
31908261 TATATGTGTGATATGTATATATGTGATAAAGCCTAATGGC
1 TATATGTGTGATATG--TATATGTGGTAAAGCCGAATGGC
31908301 CCATGTGATG
Statistics
Matches: 179, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 158 0.88
50 21 0.12
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (48 bp):
TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
Found at i:31908316 original size:48 final size:47
Alignment explanation
Indices: 31908069--31908449 Score: 337
Period size: 48 Copynumber: 8.0 Consensus size: 47
31908059 GATAAATAAG
* **
31908069 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTGATGTGAAA
1 TATATGTGTGATATGTATATGTGATAAAGCCGAATGGCCAATGTG-AA
* *
31908117 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGATAAAGCCGAATGGCCAATGTG-AA
* *
31908165 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGATAAAGCCGAATGGCCAATGTG-AA
* *
31908213 TATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATGTGTGATATGTATATGTGATAAAGCCGAATGGCCAATGTG-AA
* *
31908261 TATATGTGTGATATGTATATATGTGATAAAGCCTAATGGCCCATGTG-A
1 TATATGTGTGATATG--TATATGTGATAAAGCCGAATGGCCAATGTGAA
* * *
31908309 TGA-A--TGTGAAAGTGCATATGTGTGATAAGGCCGAATGGCCAATGTG-A
1 T-ATATGTGTGATA-TG--TATATGTGATAAAGCCGAATGGCCAATGTGAA
** * * * * *
31908356 TGA-ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-A
1 T-ATATGTGTGA-TATGTATATGTGATAAAGCCGAATGGCCAATGTGAA
** * * * *
31908403 TGA-ATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGA
1 T-ATATGTGTGA-TATGTATATGTGATAAAGCCGAATGGCCAATGTGA
31908450 TGGATGTGAA
Statistics
Matches: 303, Mismatches: 22, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
46 6 0.02
47 105 0.35
48 161 0.53
49 5 0.02
50 26 0.09
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.31
Consensus pattern (47 bp):
TATATGTGTGATATGTATATGTGATAAAGCCGAATGGCCAATGTGAA
Found at i:31908346 original size:47 final size:47
Alignment explanation
Indices: 31908274--31908478 Score: 320
Period size: 47 Copynumber: 4.4 Consensus size: 47
31908264 ATGTGTGATA
* * *
31908274 TGTATATATGTGATAAAGCCTAATGGCCCATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
31908321 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
31908368 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
31908415 TGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
31908462 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
31908479 TCCCGAAGGG
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
Found at i:31910905 original size:33 final size:33
Alignment explanation
Indices: 31910861--31910929 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
31910851 TCTACTAAGA
31910861 AAGACTCGATATGGGTTATAGGATCGGTTAACC
1 AAGACTCGATATGGGTTATAGGATCGGTTAACC
*
31910894 AAGACTTGATATGGGTTATAGGATCGGTTAACC
1 AAGACTCGATATGGGTTATAGGATCGGTTAACC
31910927 AAG
1 AAG
31910930 TCTGCCCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (33 bp):
AAGACTCGATATGGGTTATAGGATCGGTTAACC
Found at i:31913467 original size:28 final size:28
Alignment explanation
Indices: 31913434--31913524 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
31913424 ATTGCATGAC
*
31913434 TATGAATGTGATTGGGCCTGGCGGGCCA
1 TATGAATGTGATTGGGCCTGACGGGCCA
* *
31913462 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGACGGGCCA
* * *
31913490 TATGAATGAGATTGGGCCTAAAGGGCCA
1 TATGAATGTGATTGGGCCTGACGGGCCA
*
31913518 AATGAAT
1 TATGAAT
31913525 AAGTATGGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.24
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGACGGGCCA
Found at i:31914292 original size:15 final size:15
Alignment explanation
Indices: 31914260--31914288 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31914250 ATATTTTGTG
31914260 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
31914275 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
31914289 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:31917983 original size:28 final size:28
Alignment explanation
Indices: 31917935--31918003 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
31917925 ATTTAAACCC
*
31917935 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
31917962 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
31917990 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
31918004 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:31922247 original size:28 final size:28
Alignment explanation
Indices: 31922199--31922267 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
31922189 ATTTAAACCC
*
31922199 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
31922226 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
31922254 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
31922268 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:31925727 original size:17 final size:18
Alignment explanation
Indices: 31925694--31925727 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31925684 TTCAAAGAAG
31925694 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
31925712 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
31925728 CTTCACTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:31932128 original size:43 final size:44
Alignment explanation
Indices: 31932079--31932232 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 44
31932069 TCCTAGATGT
* * *
31932079 GGTCTTACATGTAATCAAATATCGATG-CAACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCGACTGTCCTAGACAG
* * * *
31932122 GGTCTTACATGAAATCAAATA-CGATGTCGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCGACTGTCCTAGACAG
*
31932164 GGTCTTACACGTAAATCTAAA-ATCGATGCCGAC-ATCCTAGAC-G
1 GGTCTTACACG-AAATC-AAATATCGATGCCGACTGTCCTAGACAG
*
31932207 TGGTCTTGCACGAAATCAAATATCGA
1 -GGTCTTACACGAAATCAAATATCGA
31932233 AATCCTATGT
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
42 28 0.30
43 38 0.40
44 28 0.30
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGAAATCAAATATCGATGCCGACTGTCCTAGACAG
Found at i:31936027 original size:141 final size:141
Alignment explanation
Indices: 31935773--31936054 Score: 492
Period size: 141 Copynumber: 2.0 Consensus size: 141
31935763 TTGTTGTTGT
*
31935773 TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGCTTAAA
1 TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
* *
31935838 TTTAATTTATTTTAGGTTGATCGCATTTTGTCTACGTAATTTATTAAAATTGTGTTTGTGTTGTT
66 TTTAATTTATTTTAGGTTGATCGCATTTCGTCTACGTAATTTACTAAAATTGTGTTTGTGTTGTT
31935903 ATAAGCCTTGG
131 ATAAGCCTTGG
*
31935914 TATGATGAACATGTCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
1 TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
* * *
31935979 TTTAATTTGTTTTAGGTTGATTGCATTTCGTCTACTTAATTTACTAAAATTGTGTTTGTGTTGTT
66 TTTAATTTATTTTAGGTTGATCGCATTTCGTCTACGTAATTTACTAAAATTGTGTTTGTGTTGTT
*
31936044 ATAGGCCTTGG
131 ATAAGCCTTGG
31936055 AAAGATGTTT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 133 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (141 bp):
TATGATGAACATGTCTACGAATATTTGTGATGTTGATATGTTTAATTTAATTAATATGGATTAAA
TTTAATTTATTTTAGGTTGATCGCATTTCGTCTACGTAATTTACTAAAATTGTGTTTGTGTTGTT
ATAAGCCTTGG
Found at i:31949860 original size:29 final size:29
Alignment explanation
Indices: 31949821--31949899 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
31949811 CTTAATAATC
*
31949821 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31949851 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31949880 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31949900 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:31952808 original size:30 final size:30
Alignment explanation
Indices: 31952772--31953170 Score: 333
Period size: 30 Copynumber: 13.2 Consensus size: 30
31952762 TCATCGACCA
* *
31952772 ATGAAAAGGGATGGCTTCAGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
* *
31952802 ATGAAAAAGGATGGCTTTGGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
*
31952832 ATGAAAAAGGATGGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
* *
31952862 AAGAAAAAAGGGATAGCTTCGGCTATCAAATT
1 ATG--AAAAGGGATGGCTTCGGCTATCAAATT
* ** *
31952894 ATGAAAAGGGATGG-TGACAACCATCAAATT
1 ATGAAAAGGGATGGCT-TCGGCTATCAAATT
* ** **
31952924 ATGAAAAGAGATGGCTTTAGCTATTGAATT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
* ***
31952954 ATGAAAAGGGATGGCTTTGGCTATTGGATT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
* * *
31952984 ATAGAAAATGGATGGCTTTGGCTATCGAATT
1 AT-GAAAAGGGATGGCTTCGGCTATCAAATT
* *
31953015 AT-AAAGAGGGATAGCTTCGGCTATTAAATT
1 ATGAAA-AGGGATGGCTTCGGCTATCAAATT
* * * *
31953045 ATGAAATGGGATGG-TGACGACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGGCTATCAA-ATT
* * * * *
31953074 ATGGAAAGAGATGG-TGTCGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGGCTATCAAATT
*
31953104 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
* * * *
31953134 ATGGAAAGGGATAGTTTCGGCTATCAAACT
1 ATGAAAAGGGATGGCTTCGGCTATCAAATT
31953164 ATGAAAA
1 ATGAAAA
31953171 TGGGTGGTAA
Statistics
Matches: 303, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
28 1 0.00
29 27 0.09
30 215 0.71
31 33 0.11
32 27 0.09
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGGCTATCAAATT
Found at i:31953109 original size:29 final size:29
Alignment explanation
Indices: 31953041--31953109 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
31953031 TCGGCTATTA
*
31953041 AATTATGAAATGGGATGGTGACGACCATC
1 AATTATGAAATGAGATGGTGACGACCATC
** *
31953070 AACAATGGAAA-GAGATGGTGTCGACCATC
1 AATTAT-GAAATGAGATGGTGACGACCATC
31953099 GAATTATGAAA
1 -AATTATGAAA
31953110 AGGGATGGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
AATTATGAAATGAGATGGTGACGACCATC
Found at i:31955604 original size:47 final size:47
Alignment explanation
Indices: 31955516--31955733 Score: 177
Period size: 47 Copynumber: 4.7 Consensus size: 47
31955506 GTAAGGTGCT
* *
31955516 GATGCCATGTCCCAGACATGGTCTTCCA-TTAGCTCATATCTTATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAGCT-ATATCTTATGTC
* * * *
31955563 GGTGCCATTTCCCAGACATGGTCTTACACTGA-CTATCATCTTGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAGCTAT-ATCTTAT-GTC
* * * *
31955611 GATG-CATGTCCCAGACAT-GTTTTACACTG-GCTTATGTCTCGAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAGC-TATATCT-TATGTC
* *
31955657 GATG-CATGTCCTAGACAT-GTCTTACACT-AGC-ACTCGTCTTGATG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGAGCTA-T-ATCTT-ATGTC
31955702 TGATGCCATGTCCCAGACATGGTCTTACACTG
1 -GATGCCATGTCCCAGACATGGTCTTACACTG
31955734 GCTCTTATAA
Statistics
Matches: 138, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 56 0.41
47 62 0.45
48 17 0.12
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGAGCTATATCTTATGTC
Found at i:31955660 original size:46 final size:46
Alignment explanation
Indices: 31955572--31955778 Score: 165
Period size: 46 Copynumber: 4.4 Consensus size: 46
31955562 CGGTGCCATT
* * * *
31955572 TCCCAGACATGGTCTTACACTGACTA-TCATCTTGTAGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTACTCGTCTCG-AGGCGATGCATG
*
31955619 TCCCAGACATGTTTTACACTGGCTTA-T-GTCTCGAGGTCGATGCATG
1 TCCCAGACATGTCTTACACTGGC-TACTCGTCTCGAGG-CGATGCATG
* * * *
31955665 TCCTAGACATGTCTTACACTAGC-ACTCGTCTTGATGCTGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTACTCGTCTCGAGGC-GATG-CATG
** * * *
31955712 TCCCAGACATGGTCTTACACTGGCT-CTTATAAT-GTGGCTTATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTACTCGT-CTCGAGGC-GATGCATG
31955759 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
31955779 AGCCCACAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 65 0.49
47 40 0.30
48 22 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTACTCGTCTCGAGGCGATGCATG
Found at i:31960110 original size:7 final size:7
Alignment explanation
Indices: 31960100--31960138 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
31960090 TTAAATCTGC
31960100 TAAAAAA
1 TAAAAAA
31960107 T-AAAAA
1 TAAAAAA
31960113 T-AAAAA
1 TAAAAAA
31960119 TAAAAAA
1 TAAAAAA
31960126 TAAAAAA
1 TAAAAAA
31960133 TAAAAA
1 TAAAAA
31960139 GTAGTTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:31960113 original size:6 final size:6
Alignment explanation
Indices: 31960102--31960138 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
31960092 AAATCTGCTA
31960102 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT -AAAAAT AAAAA
31960139 GTAGTTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:31960118 original size:13 final size:13
Alignment explanation
Indices: 31960100--31960138 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
31960090 TTAAATCTGC
31960100 TAAAAAATAAAAA
1 TAAAAAATAAAAA
31960113 T-AAAAATAAAAAA
1 TAAAAAAT-AAAAA
31960126 TAAAAAATAAAAA
1 TAAAAAATAAAAA
31960139 GTAGTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:31969008 original size:27 final size:28
Alignment explanation
Indices: 31968952--31969020 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
31968942 AAATTTGTAC
31968952 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
31968980 AGCACTCAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
31969007 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
31969021 AGACTCACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:31969032 original size:27 final size:27
Alignment explanation
Indices: 31968976--31969033 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
31968966 GAGTTTGATC
* * *
31968976 ATATAGCACTCAGTGTGCGAGTTGATT
1 ATATAGCACTCAGTGTGCGAGCTCACT
*
31969003 ATATAGCACTGAGTGTGC-AGACTCACT
1 ATATAGCACTCAGTGTGCGAG-CTCACT
31969030 ATAT
1 ATAT
31969034 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTCAGTGTGCGAGCTCACT
Found at i:31973908 original size:40 final size:39
Alignment explanation
Indices: 31973743--31973926 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
31973733 AAATTGAATG
* * *
31973743 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31973783 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31973823 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31973863 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31973902 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31973927 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31973951 original size:80 final size:81
Alignment explanation
Indices: 31973783--31973971 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
31973773 GCTGGAAATT
* * * *
31973783 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
31973848 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
31973864 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
31973927 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
31973943 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31973972 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:31982027 original size:40 final size:39
Alignment explanation
Indices: 31981862--31982045 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
31981852 AAATTGAATG
* * *
31981862 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31981902 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31981942 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31981982 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31982021 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31982046 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31982070 original size:80 final size:81
Alignment explanation
Indices: 31981902--31982090 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
31981892 GCTGGAAATT
* * * *
31981902 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
31981967 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
31981983 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
31982046 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
31982062 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31982091 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:31993254 original size:29 final size:29
Alignment explanation
Indices: 31993212--31993400 Score: 342
Period size: 29 Copynumber: 6.5 Consensus size: 29
31993202 AAAATTGTAC
31993212 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
31993241 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
31993270 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
* *
31993299 AGCACTAAGTGTGCGAGCTAAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
31993328 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
31993357 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
31993386 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31993401 GATTCACTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 153 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:32001318 original size:29 final size:29
Alignment explanation
Indices: 32001276--32001431 Score: 266
Period size: 29 Copynumber: 5.5 Consensus size: 29
32001266 AAAATTGTAC
*
32001276 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
32001305 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
32001334 AGCACTAA--GTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
32001361 AGCACTAAGTGT--GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
32001388 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
32001417 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
32001432 GATTCACTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
27 52 0.43
29 68 0.57
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:32001355 original size:56 final size:57
Alignment explanation
Indices: 32001276--32001431 Score: 264
Period size: 56 Copynumber: 2.8 Consensus size: 57
32001266 AAAATTGTAC
32001276 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAG-GTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
32001334 AGCACTAA-GTGCGAACTGAAAATATATAGCACTAAGTGT--GAGCTGAAAATATAT
1 AGCACTAAGGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
32001388 AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 AGCACTAAG-GTGCGAACTGAAAATATATAGCACTAAGTGTGCG
32001432 GATTCACTAT
Statistics
Matches: 93, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
54 23 0.25
56 61 0.66
58 9 0.10
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (57 bp):
AGCACTAAGGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:32012039 original size:40 final size:40
Alignment explanation
Indices: 32011995--32012104 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
32011985 TTCACAATTT
* *
32011995 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
32012035 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
32012075 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
32012105 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:32014292 original size:6 final size:6
Alignment explanation
Indices: 32014283--32014328 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
32014273 GATGATGATG
*
32014283 TTTAAT TTTAAT TTTAAT TTTAAT TTTTAT TTTAAT TTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
32014329 TGTTTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:32020568 original size:43 final size:43
Alignment explanation
Indices: 32020502--32020585 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
32020492 AAATCGTACA
* *
32020502 ATGCCAACGTCCCAAACATGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAAACAGGGTCTTAC-TCGTAAACACATATCG
*
32020545 ATGCC-ACTGTCCCAGACAGGGTCTTACTCGTAAACACATAT
1 ATGCCAAC-GTCCCAAACAGGGTCTTACTCGTAAACACATAT
32020586 TGGAACACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACAGGGTCTTACTCGTAAACACATATCG
Found at i:32028917 original size:46 final size:45
Alignment explanation
Indices: 32028864--32029074 Score: 178
Period size: 46 Copynumber: 4.5 Consensus size: 45
32028854 TGCGTGAGCT
* * *
32028864 AGTGTAAGATATGTCTGGGACATGCATCGGCCATATTATGA-GAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-TGA-GACGAGTC
***
32028910 AGTGTAAGACCATGTCCAAGACATGGCATCAG-CATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTGAGACGAGT-C
* *
32028957 TAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAGACGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGACG--AGTC
* * * *
32029004 AGTGTAAGACATGTCTGGGACATGCATCGGCTA-CGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGACG--AGTC
*
32029050 AGTGGAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
32029075 GCATTGACTT
Statistics
Matches: 137, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 76 0.55
47 42 0.31
48 17 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGACGAGTC
Found at i:32029089 original size:47 final size:48
Alignment explanation
Indices: 32028958--32029122 Score: 182
Period size: 47 Copynumber: 3.5 Consensus size: 48
32028948 GACGAGTGCT
* * *
32028958 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCT-CGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTACGAGATGTGAGCC
* *
32029004 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATG-TGAGCC
* * *
32029050 AGTGGAAGACCATGTCTGGGACATGGCATTGACT-TGAGATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGTGAGCC
*
32029097 AGTGTAAGACCGTGTCTGGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
32029123 TGTCGGCACC
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
45 3 0.03
46 46 0.44
47 48 0.46
48 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGTGAGCC
Found at i:32029116 original size:140 final size:140
Alignment explanation
Indices: 32028864--32029121 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 140
32028854 TGCGTGAGCT
* * * *
32028864 AGTGTAAGATATGTCTGGGACATGCATCGGCCATATTATGAGAGTCAGTGTAAGACCATGTCCAA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGATGAGAGTCAGTGGAAGACCATGTCCAA
* *
32028929 GACATGGCATCAGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
66 GACATGGCATCAGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
32028994 GACGTAAGCC
131 GACGTAAGCC
* * **
32029004 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGGAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-GATGATGAGAGTCAGTGGAAGACCATGTCCA
* * * * *
32029068 GGACATGGCAT-TG-ACTTGAGATGTGAGCCAGTGTAAGACCGTGTCTGGGACATG
65 AGACATGGCATCAGCA-TTGAGACGAGAGCCAGTGTAAGA-CATGTCTGGGACATG
32029122 GTGTCGGCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.20
140 78 0.78
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGATGAGAGTCAGTGGAAGACCATGTCCAA
GACATGGCATCAGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
GACGTAAGCC
Found at i:32037557 original size:40 final size:40
Alignment explanation
Indices: 32037433--32037736 Score: 383
Period size: 40 Copynumber: 7.5 Consensus size: 40
32037423 AAGTATATTT
* * * *
32037433 GGGATTTAGCCAGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
* * *
32037473 GGGACTTAGCTCGGGTATAGCAACTACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACT--T-GCACAAATGCCTTC
32037516 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
* * * ** *
32037556 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATACCTTC
1 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
* * *
32037596 GGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
* * *
32037636 GGGACTTAGCCTGGGTATAGCAACTACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAG-TA--ACTTGCACAAATGCCTTC
32037679 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
32037719 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
32037737 CATCCGAATA
Statistics
Matches: 228, Mismatches: 30, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
40 155 0.68
41 1 0.00
42 1 0.00
43 71 0.31
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
Found at i:32037665 original size:123 final size:121
Alignment explanation
Indices: 32037433--32037736 Score: 414
Period size: 123 Copynumber: 2.5 Consensus size: 121
32037423 AAGTATATTT
* * * *
32037433 GGGATTTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTCGGGTATAGCAACT
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACT
*
32037498 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
66 A--CGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTTGCACAAATGCCTTC
* ** * *
32037556 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATACCTTCGGGACTTAGCCCGAATATAGTC-AC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAAC
* *
32037620 TA-GCACAAATGCCTTCGGGACTTAGCCTGGGTATAGCAACTACTTGCACAAATGCCTTC
65 TACGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-AA--ACTTGCACAAATGCCTTC
* *
32037679 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
32037737 CATCCGAATA
Statistics
Matches: 158, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
120 32 0.20
121 1 0.01
123 124 0.78
124 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (121 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACT
ACGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTTGCACAAATGCCTTC
Found at i:32037717 original size:163 final size:163
Alignment explanation
Indices: 32037433--32037736 Score: 547
Period size: 163 Copynumber: 1.9 Consensus size: 163
32037423 AAGTATATTT
* *
32037433 GGGATTTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTCGGGTATAGCAACT
1 GGGACTTAGCCAGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTCGGGTATAGCAACT
*
32037498 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGTCTT
66 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT
32037563 AGCCCGGATATAGTCACTAGCATGAATACCTTC
131 AGCCCGGATATAGTCACTAGCATGAATACCTTC
*
32037596 GGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC-CTGGGTATAGCAAC
1 GGGACTTAGCCAGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTC-GGGTATAGCAAC
*
32037660 TACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACT
65 TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACT
32037725 TAGCCCGGATAT
130 TAGCCCGGATAT
32037737 CATCCGAATA
Statistics
Matches: 135, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
162 1 0.01
163 134 0.99
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (163 bp):
GGGACTTAGCCAGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTCGGGTATAGCAACT
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT
AGCCCGGATATAGTCACTAGCATGAATACCTTC
Found at i:32039687 original size:47 final size:46
Alignment explanation
Indices: 32039613--32039874 Score: 232
Period size: 47 Copynumber: 5.7 Consensus size: 46
32039603 GTATAATGCT
* * *
32039613 GATGGCATGTCTCGGACATGGTCTTACACTGGCTCATCTATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCT-TCAAGTC
*
32039660 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCTATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCT-TCAAGTC
* * * * * *
32039707 AATGCCATGTCCCAGACATGGTCTTATATTGACACATC-TCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTTCA-AGTC
* * *
32039753 GATG-CATGTCCTAGACAT-TTCTTACACTGGCTTACATC-TCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTTCAA-GTC
* * *
32039799 GATG-CATGTCCCAGACAT-ATCTTACACTAGCTC-TCATCTCAATCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-T-TCAA-GTC
* *
32039845 GATGCCATGTCCCAAACATGGTGTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
32039875 AGCACACAAA
Statistics
Matches: 181, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 18 0.10
46 53 0.29
47 90 0.50
48 8 0.04
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTTCAAGTC
Found at i:32039800 original size:46 final size:46
Alignment explanation
Indices: 32039740--32039877 Score: 154
Period size: 46 Copynumber: 2.9 Consensus size: 46
32039730 TTATATTGAC
* * *
32039740 ACATCTCATAGCCGATGCATGTCCTAGACATTTCTTACACTGGCT-T
1 ACATCTCA-AGCCGATGCATGTCCCAGACATATCTTACACTAGCTCT
32039786 ACATCTCAAGGCCGATGCATGTCCCAGACATATCTTACACTAGCTCT
1 ACATCTCAA-GCCGATGCATGTCCCAGACATATCTTACACTAGCTCT
* * * *
32039833 -CATCTCAATCTCGATGCCATGTCCCAAACATGGTGTTACACTAGC
1 ACATCTCAAGC-CGATG-CATGTCCCAGACAT-ATCTTACACTAGC
32039878 ACACAAATGA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
45 2 0.03
46 53 0.66
47 14 0.17
48 11 0.14
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (46 bp):
ACATCTCAAGCCGATGCATGTCCCAGACATATCTTACACTAGCTCT
Found at i:32045503 original size:119 final size:120
Alignment explanation
Indices: 32045280--32045521 Score: 405
Period size: 119 Copynumber: 2.0 Consensus size: 120
32045270 GCAAAGACCA
* * *
32045280 TATGGCACTATGTGTGCGGTTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
*
32045345 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTAC
66 GATTCACTATGGCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATTTAC
32045400 TATGGCACTA-GTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
* ** *
32045464 GATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATTTGC
66 GATTCACTATGGCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATTTAC
32045519 TAT
1 TAT
32045522 AGTCACATTC
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
119 104 0.91
120 10 0.09
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (120 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
GATTCACTATGGCACTATGTGTGCGATTCACTATAGCACTATGTGTGCGATTTAC
Done.