Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 270 of 438
Found at i:83977686 original size:42 final size:42
Alignment explanation
Indices: 83977630--83977747 Score: 164
Period size: 43 Copynumber: 2.8 Consensus size: 42
83977620 CTATTTTGCG
*
83977630 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTACA
* * * *
83977672 TGTAAGACCGTGTCTGGGGCAGTGGCATCAATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-GTATTTGATTACA
* *
83977715 TGTAAGACCATGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
83977748 ATGTTTTCTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTACA
Found at i:83988259 original size:71 final size:71
Alignment explanation
Indices: 83988092--83988252 Score: 234
Period size: 71 Copynumber: 2.3 Consensus size: 71
83988082 CTAACCGATT
83988092 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
** *
83988157 TTTATC
66 TACAGC
* * *
83988163 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
*
83988227 TACAGGG
66 TACA-GC
*
83988234 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
83988253 ACACATGATG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 2 0.03
71 77 0.97
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TACAGC
Found at i:83995757 original size:71 final size:71
Alignment explanation
Indices: 83995590--83995750 Score: 234
Period size: 71 Copynumber: 2.3 Consensus size: 71
83995580 CTAACCGATT
83995590 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
** *
83995655 TTTATC
66 TACAGC
* * *
83995661 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
*
83995725 TACAGGG
66 TACA-GC
*
83995732 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
83995751 ACACATGATG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 2 0.03
71 77 0.97
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TACAGC
Found at i:83997635 original size:28 final size:29
Alignment explanation
Indices: 83997552--83997639 Score: 142
Period size: 29 Copynumber: 3.1 Consensus size: 29
83997542 GAAAGCATGT
83997552 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
83997581 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
83997610 ATATGAATGAGA-TTGGGCTTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
83997638 AT
1 AT
83997640 GTACATGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 16 0.29
29 40 0.71
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:84002144 original size:47 final size:48
Alignment explanation
Indices: 84002043--84002163 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 48
84002033 ATAGGTAAGG
* * *
84002043 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAAATCTCAA
1 TGCCGATGCCATGTCCCAGAAATGGTCATAAACTAGCTCAAATCTCAA
* * ***
84002091 -GTCGATGCCATGTCCTAGAAAT-GTCATAAACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAGAAATGGTCATAAACTAGCTCAAATCTCAA
*
84002137 TGCCGATGCCATGTCCCAGACATGGTC
1 TGCCGATGCCATGTCCCAGAAATGGTC
84002164 TTACACTGGC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 19 0.32
47 38 0.63
48 3 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGAAATGGTCATAAACTAGCTCAAATCTCAA
Found at i:84002209 original size:94 final size:93
Alignment explanation
Indices: 84002043--84002219 Score: 232
Period size: 94 Copynumber: 1.9 Consensus size: 93
84002033 ATAGGTAAGG
* *
84002043 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAAATCTCAAGTCGATGCCATGTCCTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAAATCT-AAGCCGATGCCATGTCCCA
84002108 GAAATGTCATAAACTAGCTCTCGTCTCAA
65 GAAATGTCATAAACTAGCTCTCGTCTCAA
* * *
84002137 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGCCGATG-CATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCA-AATCTAAGCCGATGCCATGTCC
* * *
84002200 CAGACATGTCTTACACTAGC
63 CAGAAATGTCATAAACTAGC
84002220 CAAAAATAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 58 0.81
95 6 0.08
96 4 0.06
97 4 0.06
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAAATCTAAGCCGATGCCATGTCCCAG
AAATGTCATAAACTAGCTCTCGTCTCAA
Found at i:84009675 original size:46 final size:45
Alignment explanation
Indices: 84009596--84009767 Score: 141
Period size: 47 Copynumber: 3.7 Consensus size: 45
84009586 TAAAGTGCTG
* * * *
84009596 ATGCCACGTCCCAGACACGATCTTACACAAGCTCACATCTCAAGTCA
1 ATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCATCT-AAGTCA
* * *
84009643 ATGCCATGTCCCGGACATGTCTTACACTAGCTCTCGTCTTAA-TACTG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATC-TAAGT-C-A
* * * * *
84009690 ATGCCATGACCCAAACATGGTCTTACACTGGCTCTCATAATATGGTCA
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTA-AGTCA
*
84009738 ATG-AATGTCCCAGACATGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGTCTTACACTAGC
84009768 CAAAAATAAC
Statistics
Matches: 99, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 31 0.31
47 43 0.43
48 22 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAAGTCA
Found at i:84011584 original size:16 final size:16
Alignment explanation
Indices: 84011563--84011593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84011553 AAAACAAAAG
84011563 TTTTATAGATGCATGA
1 TTTTATAGATGCATGA
*
84011579 TTTTATATATGCATG
1 TTTTATAGATGCATG
84011594 GTTATATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTTATAGATGCATGA
Found at i:84011896 original size:17 final size:17
Alignment explanation
Indices: 84011876--84011915 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
84011866 CATTAAAATT
*
84011876 ATAACATAAAAAAAAAC
1 ATAAAATAAAAAAAAAC
*
84011893 ATAAAATACAAAAAAAC
1 ATAAAATAAAAAAAAAC
84011910 ATAAAA
1 ATAAAA
84011916 CACTACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (17 bp):
ATAAAATAAAAAAAAAC
Found at i:84011962 original size:3 final size:3
Alignment explanation
Indices: 84011954--84011999 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
84011944 ATTCCCTCCC
*
84011954 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
84012000 CCACAAGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:84012285 original size:2 final size:2
Alignment explanation
Indices: 84012278--84012304 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84012268 CAATAGGTAT
84012278 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
84012305 GTACATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84023152 original size:40 final size:40
Alignment explanation
Indices: 84023051--84023271 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
84023041 TATTCGAATG
* * *
84023051 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
84023092 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * **
84023132 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAACGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
84023172 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
84023212 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
84023251 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
84023272 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 94 0.62
41 28 0.19
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:84025200 original size:40 final size:39
Alignment explanation
Indices: 84025035--84025218 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
84025025 AAATTGAATG
* * *
84025035 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
84025075 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
84025115 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
84025155 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
84025194 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
84025219 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:84025243 original size:80 final size:81
Alignment explanation
Indices: 84025075--84025263 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
84025065 GCTGGAAATT
* * * *
84025075 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
84025140 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
84025156 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
84025219 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
84025235 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
84025264 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:84032245 original size:93 final size:93
Alignment explanation
Indices: 84032133--84032303 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
84032123 GCCCATAAGT
* *
84032133 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84032198 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
84032226 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
84032291 CGAGTTCGGATGC
66 CGAGCTCGGATGC
84032304 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:84032300 original size:46 final size:46
Alignment explanation
Indices: 84032125--84032300 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
84032115 TGTAACCCGC
* *
84032125 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84032171 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
84032221 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84032264 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84032301 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:84037277 original size:40 final size:40
Alignment explanation
Indices: 84037176--84037396 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
84037166 TATTCGAATG
* * *
84037176 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
84037217 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
84037257 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
84037297 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
84037337 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
84037376 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
84037397 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 15 0.10
40 96 0.63
41 28 0.18
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:84040056 original size:20 final size:20
Alignment explanation
Indices: 84040031--84040080 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
84040021 TATTGATCAA
*
84040031 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
84040051 GTATCGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
84040071 GTATCGATAT
1 GTATCGATAT
84040081 TCCTGCTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:84040541 original size:37 final size:37
Alignment explanation
Indices: 84040491--84040561 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 37
84040481 GAGGGTTTAC
*
84040491 TCTTAAAGTTT-GGGTAGAAACCTTAAGGAAGTTGTA
1 TCTTAAAGTTTGGGGTAGAAACCTTAAGAAAGTTGTA
* * *
84040527 TCTTAAGATTTTGGGGTATAAATCTTAAGAAAGTT
1 TCTTAA-AGTTTGGGGTAGAAACCTTAAGAAAGTT
84040562 TGTAAGGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 6 0.21
37 4 0.14
38 19 0.66
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.37
Consensus pattern (37 bp):
TCTTAAAGTTTGGGGTAGAAACCTTAAGAAAGTTGTA
Found at i:84043133 original size:23 final size:23
Alignment explanation
Indices: 84043103--84043183 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
84043093 CTGATAAACA
84043103 GTAAGCTCTAATGAGCTGAAATG
1 GTAAGCTCTAATGAGCTGAAATG
* **
84043126 GTAAGCTCTAATGAGCTCAAAACA
1 GTAAGCTCTAATGAGCT-GAAATG
**
84043150 GTAAGCTCTTTTGAGCTGATATATTG
1 GTAAGCTCTAATGAGCTGA-A-A-TG
84043176 GTAAGCTC
1 GTAAGCTC
84043184 ATACGAGCTG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 18 0.39
24 19 0.41
25 1 0.02
26 8 0.17
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (23 bp):
GTAAGCTCTAATGAGCTGAAATG
Found at i:84043154 original size:47 final size:51
Alignment explanation
Indices: 84043089--84043183 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 51
84043079 AAGCTCCTCC
*
84043089 TGAGCTGATAAACAGTAAGCTCTAATGAGCTGA-A-A-TGGTAAGCTCTAA
1 TGAGCTCATAAACAGTAAGCTCTAATGAGCTGATATATTGGTAAGCTCTAA
**
84043137 TGAGCTCA-AAACAGTAAGCTCTTTTGAGCTGATATATTGGTAAGCTC
1 TGAGCTCATAAACAGTAAGCTCTAATGAGCTGATATATTGGTAAGCTC
84043184 ATACGAGCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 22 0.54
48 8 0.20
49 1 0.02
50 10 0.24
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (51 bp):
TGAGCTCATAAACAGTAAGCTCTAATGAGCTGATATATTGGTAAGCTCTAA
Found at i:84043166 original size:24 final size:23
Alignment explanation
Indices: 84043089--84043158 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
84043079 AAGCTCCTCC
84043089 TGAGCTGATAAACAGTAAGCTCTAA
1 TGAGCT-A-AAACAGTAAGCTCTAA
* **
84043114 TGAGCTGAAATGGTAAGCTCTAA
1 TGAGCTAAAACAGTAAGCTCTAA
84043137 TGAGCTCAAAACAGTAAGCTCT
1 TGAGCT-AAAACAGTAAGCTCT
84043159 TTTGAGCTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 20 0.53
24 12 0.32
25 6 0.16
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (23 bp):
TGAGCTAAAACAGTAAGCTCTAA
Found at i:84045766 original size:40 final size:40
Alignment explanation
Indices: 84045721--84045849 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
84045711 CGGAATACAA
84045721 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
84045761 CCGGATAGAACAACTCGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
84045801 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
84045841 CC-GATATAA
1 CCGGATATAA
84045850 TTTCCAGCAA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 8 0.11
40 66 0.89
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:84053861 original size:40 final size:40
Alignment explanation
Indices: 84053816--84053982 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
84053806 CGGAATACAA
84053816 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
84053856 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
84053896 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
84053936 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
84053975 CCGGATAT
1 CCGGATAT
84053983 CATTCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 25 0.23
40 82 0.77
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:84058247 original size:40 final size:40
Alignment explanation
Indices: 84058164--84058371 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
84058154 CGGGATTTAA
* * * * * *
84058164 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
84058204 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
84058244 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
84058284 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
84058324 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
84058364 CCGGATAT
1 CCGGATAT
84058372 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:84058284 original size:80 final size:80
Alignment explanation
Indices: 84058190--84058371 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
84058180 GCTCGATTGT
* * *** * * * **
84058190 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
84058255 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
84058270 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
84058335 TACTAGCATAATTGC
66 AACTAGCACAAATGC
84058350 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
84058372 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:84066286 original size:40 final size:40
Alignment explanation
Indices: 84066203--84066410 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
84066193 CGGGATTTAA
* * * * * *
84066203 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
84066243 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
84066283 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
84066323 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
84066363 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
84066403 CCGGATAT
1 CCGGATAT
84066411 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:84066323 original size:80 final size:80
Alignment explanation
Indices: 84066229--84066410 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
84066219 GCTCGATTGT
* * *** * * * **
84066229 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
84066294 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
84066309 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
84066374 TACTAGCATAATTGC
66 AACTAGCACAAATGC
84066389 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
84066411 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:84069050 original size:40 final size:40
Alignment explanation
Indices: 84068990--84069208 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
84068980 CATTTGAATG
84068990 ATATCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
84069028 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
84069068 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
84069108 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
84069148 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
84069188 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
84069209 AAACTTGGGT
Statistics
Matches: 168, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
38 7 0.04
39 19 0.11
40 142 0.85
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:84077132 original size:39 final size:40
Alignment explanation
Indices: 84076972--84077151 Score: 285
Period size: 40 Copynumber: 4.5 Consensus size: 40
84076962 CATTTGAATG
*
84076972 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
84077012 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
84077052 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * *
84077092 ATATCCGGG-TAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
84077131 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
84077152 AAACTTGGGT
Statistics
Matches: 133, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
38 3 0.02
39 42 0.32
40 88 0.66
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:84081208 original size:2 final size:2
Alignment explanation
Indices: 84081201--84081226 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84081191 GCATGGCTCA
84081201 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
84081227 TCAAAGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84082113 original size:30 final size:30
Alignment explanation
Indices: 84082067--84082127 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
84082057 ATTCCCGACC
84082067 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
84082097 TAGGGGTAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
84082127 T
1 T
84082128 GAGTTAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:84102341 original size:29 final size:29
Alignment explanation
Indices: 84102279--84102381 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
84102269 GTGACGAGAT
* * *
84102279 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
84102308 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
84102337 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
84102366 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84102382 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:84110339 original size:29 final size:29
Alignment explanation
Indices: 84110277--84110379 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
84110267 GTGACGAGAT
* * *
84110277 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
84110306 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
84110335 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
84110364 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84110380 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:84130407 original size:80 final size:80
Alignment explanation
Indices: 84130323--84130471 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
84130313 TATGGTAACC
* * * *
84130323 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
84130387 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
84130403 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
84130468 CCGG
66 CCGG
84130472 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:84130413 original size:40 final size:38
Alignment explanation
Indices: 84130364--84130471 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
84130354 ATCACGATTT
*
84130364 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
84130404 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
84130444 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
84130472 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:84138299 original size:30 final size:30
Alignment explanation
Indices: 84138265--84138325 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84138255 TTGGTACAGT
84138265 TATTAGTTAAAGTTACCCCTGTTACAGGGA
1 TATTAGTTAAAGTTACCCCTGTTACAGGGA
84138295 TATTAGTTAAAGTTACCCCTGTTACAGGGA
1 TATTAGTTAAAGTTACCCCTGTTACAGGGA
84138325 T
1 T
84138326 CGACTGCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (30 bp):
TATTAGTTAAAGTTACCCCTGTTACAGGGA
Found at i:84139527 original size:40 final size:39
Alignment explanation
Indices: 84139401--84139566 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 39
84139391 CGGAATATAA
84139401 CCGGATATAATC-ACGT-GCACAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCACAATGCCTTCGGGTCTTAGC
* * * *
84139440 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
84139480 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
84139520 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
84139559 CCGGATAT
1 CCGGATAT
84139567 CATTCAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 30 0.29
40 74 0.70
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:84139550 original size:80 final size:78
Alignment explanation
Indices: 84139417--84139566 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 78
84139407 ATAATCACGT
*
84139417 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCCC
1 GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCCC
84139482 GGATATAGCCACTA
65 GGATATAGCCACTA
* ** * *
84139496 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
84139559 CCGGATAT
63 CCGGATAT
84139567 CATTCAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 23 0.37
80 39 0.63
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (78 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCCG
GATATAGCCACTA
Found at i:84141786 original size:40 final size:38
Alignment explanation
Indices: 84141737--84141843 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 38
84141727 ATCACGATTT
*
84141737 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
* *
84141777 GCACGAATGCCTTCAGGTC-TAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
84141816 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
84141844 TTATAATTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
37 1 0.02
38 4 0.07
39 28 0.49
40 24 0.42
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.22
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:84146617 original size:47 final size:47
Alignment explanation
Indices: 84146557--84146822 Score: 276
Period size: 47 Copynumber: 5.7 Consensus size: 47
84146547 TGGGTAAGGT
*
84146557 GCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAG
* * *
84146604 GTCGATGCCATGTCCCAGACATAGTCTTACACTGACT-ATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAG
* *
84146652 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAG
* * * * * *
84146698 GCCGATG-CATGTCCCAGACATGTTTTACGCTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAG
* * **
84146744 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCAAG
*
84146792 GCCGATG-CATGTCCCAGACATGTCTTGCACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
84146823 AGCCAAAAAT
Statistics
Matches: 188, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 75 0.40
47 82 0.44
48 29 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAG
Found at i:84146686 original size:93 final size:93
Alignment explanation
Indices: 84146556--84146825 Score: 325
Period size: 94 Copynumber: 2.9 Consensus size: 93
84146546 GTGGGTAAGG
*
84146556 TGCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-GTCGATGCCATGTCCC
1 TGCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCCGATG-CATGTCCC
*
84146620 AGACATAGTCTTACACT-GACTATCATCTC-G
64 AGACAT-GTCTTACACTAG-CTATCATCTCAA
* *
84146650 TAGCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGCCGATGCATGTCCCA
1 T-GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCCGATGCATGTCCCA
* * * *
84146714 GACATGTTTTACGCTAGCTCTCGTCTCAA
65 GACATGTCTTACACTAGCTATCATCTCAA
* * **
84146743 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCC
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAAGGCCGATGCATGTCCC
*
84146807 AGACATGTCTTGCACTAGC
64 AGACATGTCTTACACTAGC
84146826 CAAAAATAAC
Statistics
Matches: 152, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
92 23 0.15
93 52 0.34
94 68 0.45
95 9 0.06
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCTATCATCTCAA
Found at i:84151280 original size:27 final size:27
Alignment explanation
Indices: 84151242--84151309 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
84151232 AAATTTGTAC
84151242 AGCACTAAGTGTGCGAGTTGATCATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
84151269 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
84151296 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
84151310 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.20
27 32 0.80
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:84151320 original size:26 final size:27
Alignment explanation
Indices: 84151242--84151321 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
84151232 AAATTTGTAC
* *
84151242 AGCACTAAGTGTGCGAGTTGA-TCATAT
1 AGCACTAAGTGTGCGAGCTCACT-ATAT
* * *
84151269 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
84151296 AGCACT-AGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
84151322 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 31 0.65
28 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:84159104 original size:28 final size:27
Alignment explanation
Indices: 84159064--84159132 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 27
84159054 AAATTTGTAC
84159064 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTT-GATCATAT
*
84159092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
84159119 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
84159133 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.20
27 13 0.32
28 19 0.47
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:84159143 original size:26 final size:27
Alignment explanation
Indices: 84159064--84159144 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
84159054 AAATTTGTAC
* *
84159064 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
84159092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
84159119 AGCACT-AGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
84159145 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 12 0.25
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:84163922 original size:40 final size:40
Alignment explanation
Indices: 84163842--84164062 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
84163832 ACCCAAGTTT
* * * *
84163842 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
84163881 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
84163921 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
84163961 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
84164001 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
84164041 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
84164063 CATTCAAATG
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 158 0.93
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:84171993 original size:40 final size:40
Alignment explanation
Indices: 84171913--84172093 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
84171903 ACCCAAGTTT
* * * *
84171913 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
84171952 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
84171992 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
84172032 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
84172072 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
84172094 CATTCAAATG
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 118 0.91
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:84186230 original size:29 final size:29
Alignment explanation
Indices: 84186198--84186327 Score: 190
Period size: 29 Copynumber: 4.5 Consensus size: 29
84186188 ATGGTCATCC
*
84186198 CTATCCCTTTTCATAATCGATAGCCAAAG
1 CTATCCCTTTTCATATTCGATAGCCAAAG
84186227 CTATCCCTTTTCATATTCGATAGCCAAAG
1 CTATCCCTTTTCATATTCGATAGCCAAAG
* ***
84186256 CTATCCCTTTTCATATTCAATAGTTGAAG
1 CTATCCCTTTTCATATTCGATAGCCAAAG
*
84186285 CTATCCCTTTTCATATTCAATA-CCTAAAG
1 CTATCCCTTTTCATATTCGATAGCC-AAAG
84186314 CTATCCCTTTTCAT
1 CTATCCCTTTTCAT
84186328 TGGTTGATGA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.38
Consensus pattern (29 bp):
CTATCCCTTTTCATATTCGATAGCCAAAG
Found at i:84189484 original size:71 final size:71
Alignment explanation
Indices: 84189398--84189561 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
84189388 CGATTTGTCT
84189398 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
84189463 CTTTCA
66 CTTTCA
*
84189469 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
84189534 CTTTCA
66 CTTTCA
84189540 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84189562 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
CTTTCA
Found at i:84189599 original size:71 final size:70
Alignment explanation
Indices: 84189398--84189595 Score: 267
Period size: 71 Copynumber: 2.8 Consensus size: 70
84189388 CGATTTGTCT
* * *
84189398 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAC
84189463 CTTTCA
65 CTTTCA
* * * *
84189469 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAC
84189534 CTTTCA
65 CTTTCA
* *
84189540 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
84189596 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTACC
TTTCA
Found at i:84197039 original size:71 final size:71
Alignment explanation
Indices: 84196953--84197116 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84196943 CGATTTGTCT
84196953 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84197018 CTTTCA
66 CTTTCA
84197024 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84197089 CTTTCA
66 CTTTCA
84197095 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84197117 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:84197154 original size:71 final size:70
Alignment explanation
Indices: 84196953--84197150 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
84196943 CGATTTGTCT
* * *
84196953 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
84197018 CTTTCA
65 CTTTCA
* * *
84197024 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
84197089 CTTTCA
65 CTTTCA
* *
84197095 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
84197151 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:84202116 original size:40 final size:40
Alignment explanation
Indices: 84202008--84202216 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
84201998 CGGGATTTAA
* * * * *
84202008 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
84202048 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84202088 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84202128 CCGGATATATCAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84202167 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
84202207 CCGGATATAT
1 CCGGATATAT
84202217 TTCAATGTTC
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.26
40 111 0.74
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:84202189 original size:79 final size:79
Alignment explanation
Indices: 84202008--84202216 Score: 294
Period size: 79 Copynumber: 2.6 Consensus size: 79
84201998 CGGGATTTAA
* * * * * * * * *
84202008 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATAACTCGCACAAAGG
84202073 CCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAGC
* *
84202088 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCACAAAGG
84202153 CCTTC-GGTCTTAGC
65 CCTTCGGGTCTTAGC
84202167 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
84202217 TTCAATGTTC
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
79 60 0.51
80 57 0.49
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (79 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATAACTCGCACAAAGGC
CTTCGGGTCTTAGC
Found at i:84208142 original size:49 final size:49
Alignment explanation
Indices: 84208060--84208247 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
84208050 TGAGGTCACG
* *
84208060 TGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
84208109 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
84208160 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
84208209 TGTGTAGTATTAAGTGTAGTCTACTATGTGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
84208248 GGTTCGGCTA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 73 0.63
50 2 0.02
51 41 0.35
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:84208233 original size:100 final size:100
Alignment explanation
Indices: 84208058--84208241 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
84208048 TGTGAGGTCA
*
84208058 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAATTGGTCGCATGTGTAGTACTAAG
1 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
84208123 TGCAGGCTACTATGCGTACCCGAAAACTGTGATCG
66 TGCAGGCTACTATGCGTACCCGAAAACTGTGATCG
* * *
84208158 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTATTAAG
1 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
* * *
84208223 TGTAGTCTACTATGTGTAC
66 TGCAGGCTACTATGCGTAC
84208242 TAGATAGGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCCGAAAACTGTGATCG
Found at i:84210677 original size:51 final size:51
Alignment explanation
Indices: 84210596--84210692 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
84210586 GTGATTATCA
* * *
84210596 TATATGTGGCAGTATATCTGCAATTCAGTGGTGGCTTGTCCACAAAAAGGT
1 TATAAGTGGCAGTATATCTGCAAATAAGTGGTGGCTTGTCCACAAAAAGGT
*
84210647 TATAAGTGGCAGTTTATCTGCAAATAAGTGGTGGCTTGTCCACAAA
1 TATAAGTGGCAGTATATCTGCAAATAAGTGGTGGCTTGTCCACAAA
84210693 TGGTATTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (51 bp):
TATAAGTGGCAGTATATCTGCAAATAAGTGGTGGCTTGTCCACAAAAAGGT
Found at i:84211033 original size:37 final size:37
Alignment explanation
Indices: 84210983--84211056 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
84210973 GTCATTCATG
*
84210983 AGGCTCTCAAGAATGGTTTTATATAGATTTTTATTAT
1 AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
84211020 AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
1 AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
84211057 GTTTCAGACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (37 bp):
AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
Found at i:84216201 original size:47 final size:47
Alignment explanation
Indices: 84216087--84216297 Score: 206
Period size: 47 Copynumber: 4.7 Consensus size: 47
84216077 GGAATGAAAA
* * * * *
84216087 AACGTGGTGCTAAGTGGTTATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-T
* *
84216135 AACGTGGTGCTAAGTGGATATGCCAGGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* *
84216182 AACGTGGTGCTAAGCGGATATACCACGGTTA-A-ACA-TG------T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * *
84216220 AATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * **
84216267 AATGTGGTGCTATGTAAATATACCACGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
84216298 AACATGTAAT
Statistics
Matches: 136, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 57 0.42
48 40 0.29
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
Found at i:84216239 original size:38 final size:38
Alignment explanation
Indices: 84216185--84216342 Score: 136
Period size: 38 Copynumber: 3.9 Consensus size: 38
84216175 ATTCATTAAC
*
84216185 GTGGTGCTAAGCGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
* *
84216223 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTT--A-A-A--CA-T--GTAAT
* **
84216270 GTGGTGCTATGTAAATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
* * * * *
84216308 GTGGTTCTAAGTGGACATGCCACAGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
84216343 TAATTTGAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
38 57 0.60
40 2 0.02
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 2 0.02
47 28 0.29
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
Found at i:84216243 original size:85 final size:85
Alignment explanation
Indices: 84216129--84216335 Score: 315
Period size: 85 Copynumber: 2.4 Consensus size: 85
84216119 ACATATTGAT
* * *
84216129 ACATGTAACGTGGTGCTAAGTGGATATGCCAGGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
**
84216194 AGCGGATATACCACGGTTAA
66 AGCAAATATACCACGGTTAA
*
84216214 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAATGTGGTGCTA
1 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
* *
84216279 TGTAAATATACCACGGTTAA
66 AGCAAATATACCACGGTTAA
* * *
84216299 ACATGTAATGTGGTTCTAAGTGGACATGCCACAGTTA
1 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTA
84216336 TACATGTTAA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 111 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
AGCAAATATACCACGGTTAA
Found at i:84219637 original size:15 final size:15
Alignment explanation
Indices: 84219592--84219637 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
84219582 CTGTAAATAA
*
84219592 GATTTCCTTATCATG
1 GATTTCCTTATCTTG
*
84219607 GATTTCTTTATCTTG
1 GATTTCCTTATCTTG
*
84219622 GATTTCCTTATTTTG
1 GATTTCCTTATCTTG
84219637 G
1 G
84219638 GCTTATCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (15 bp):
GATTTCCTTATCTTG
Found at i:84222532 original size:85 final size:85
Alignment explanation
Indices: 84222430--84222636 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
84222420 ACATATTGAT
*
84222430 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
84222495 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
84222515 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
84222580 AGTGGATATACCACGGTTAT
66 AGTGGATATACCACGGTTAA
** *
84222600 ATGTGTAACGTGGTGCTAAGTGGATATACCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
84222637 TACATGTAAC
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:84222533 original size:38 final size:38
Alignment explanation
Indices: 84222482--84222844 Score: 312
Period size: 38 Copynumber: 8.8 Consensus size: 38
84222472 ATTGATTCAT
84222482 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
84222520 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* * **
84222561 ATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTATATGTG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
*
84222605 TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
84222643 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
84222684 ATTCATTAACGTGGTTCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
84222728 TAACATGGTGCTAAGTGCATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
84222769 ATTCATTAACATGGTGCTAAGTGGATATACCACAGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
84222813 TAACATGGTGCTAAGTGGATATGCCACAGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
84222845 TATATGTTAA
Statistics
Matches: 273, Mismatches: 25, Indels: 54
0.78 0.07 0.15
Matches are distributed among these distances:
38 156 0.57
39 2 0.01
40 6 0.02
41 6 0.02
44 6 0.02
45 6 0.02
46 2 0.01
47 89 0.33
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:84222694 original size:85 final size:85
Alignment explanation
Indices: 84222605--84222849 Score: 418
Period size: 85 Copynumber: 2.9 Consensus size: 85
84222595 GTTATATGTG
* *
84222605 TAACGTGGTGCTAAGTGGATATACCACGGTTATACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
84222670 GGTTACATATATTGATTCAT
66 GGTTACATATATTGATTCAT
* *
84222690 TAACGTGGTTCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
84222755 GGTTACATATATTGATTCAT
66 GGTTACATATATTGATTCAT
* *
84222775 TAACATGGTGCTAAGTGGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
* *
84222840 AGTTATATAT
66 GGTTACATAT
84222850 GTTAATTTGA
Statistics
Matches: 150, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 150 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (85 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
GGTTACATATATTGATTCAT
Found at i:84222704 original size:123 final size:123
Alignment explanation
Indices: 84222482--84222759 Score: 475
Period size: 123 Copynumber: 2.3 Consensus size: 123
84222472 ATTGATTCAT
84222482 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
* * **
84222547 GGTTACATATATTGATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTATATGTG
66 GGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
*
84222605 TAACGTGGTGCTAAGTGGATATACCACGGTTATACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
*
84222670 GGTTACATATATTGATTCATTAACGTGGTTCTAAGTGGATATACCACGGTTAAACATG
66 GGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
84222728 TAACATGGTGCTAAGTGCATATGCCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
84222760 CATATATTGA
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 146 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (123 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
GGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:84222718 original size:208 final size:207
Alignment explanation
Indices: 84222350--84222851 Score: 736
Period size: 208 Copynumber: 2.4 Consensus size: 207
84222340 GAATGAAAAA
*
84222350 AATGTGGTGCTAAGTGGATATACCACTA-TTATACTTGTAACATGGTGCTAACTGGATATACCAC
1 AATGTGGTGCTAAGTGGATATACCAC-AGTTATA-TTGTAACATGGTGCTAAGTGGATATACCAC
*
84222414 GATTACACATATTGATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATT
64 G---------GTT-ATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATT
* *
84222479 CATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGC
119 CATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGC
84222544 CACGGTTACATATATTGATTCATT
184 CACGGTTACATATATTGATTCATT
* *
84222568 AATGTGGTGCTAAGTGGATATACCACGGTTATATGTGTAACGTGGTGCTAAGTGGATATACCACG
1 AATGTGGTGCTAAGTGGATATACCACAGTTATAT-TGTAACATGGTGCTAAGTGGATATACCACG
*
84222633 GTTATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGG
65 GTTATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGG
*
84222698 TTCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCACGGTTACAT
130 TGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCACGGTTACAT
84222763 ATATTGATTCATT
195 ATATTGATTCATT
** * * * *
84222776 AACATGGTGCTAAGTGGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCACA
1 AATGTGGTGCTAAGTGGATATACCACAGTTATA-TTGTAACATGGTGCTAAGTGGATATACCACG
*
84222841 GTTATATATGT
65 GTTATACATGT
84222852 TAATTTGAAA
Statistics
Matches: 264, Mismatches: 17, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
208 202 0.77
209 2 0.01
217 1 0.00
218 59 0.22
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (207 bp):
AATGTGGTGCTAAGTGGATATACCACAGTTATATTGTAACATGGTGCTAAGTGGATATACCACGG
TTATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGT
GCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCACGGTTACATA
TATTGATTCATT
Found at i:84224001 original size:17 final size:19
Alignment explanation
Indices: 84223959--84224002 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
84223949 ATGAAATTTT
*
84223959 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
84223978 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
84223996 AA-TATTA
1 AATTATTA
84224003 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:84225814 original size:27 final size:28
Alignment explanation
Indices: 84225734--84225802 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84225724 GCGTAGATCA
*
84225734 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
84225762 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
84225790 CGAAA-TACCCCTA
1 CGAAATTACCCCTA
84225803 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:84228097 original size:40 final size:40
Alignment explanation
Indices: 84228030--84228181 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
84228020 AAATTGAATG
* * *
84228030 ATATCCGGGCTAA-ATCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAAATT
* * ****
84228070 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
84228110 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
84228150 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
84228182 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.03
40 83 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:84228195 original size:40 final size:40
Alignment explanation
Indices: 84228068--84228197 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
84228058 ATGCTGGAAA
* * * *
84228068 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
84228108 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
84228148 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
84228188 TTATATCCGG
1 TTATATCCGG
84228198 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:84231432 original size:17 final size:19
Alignment explanation
Indices: 84231390--84231433 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
84231380 ATGAAATTTT
*
84231390 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
84231409 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
84231427 AA-TATTA
1 AATTATTA
84231434 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:84233271 original size:27 final size:28
Alignment explanation
Indices: 84233221--84233288 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
84233211 GCGTAGATCA
84233221 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84233249 CGAAATTA-CCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
84233276 CGATA-TACCCCTA
1 CGAAATTACCCCTA
84233289 GGGTTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 2 0.05
27 27 0.73
28 8 0.22
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:84236385 original size:44 final size:43
Alignment explanation
Indices: 84236271--84236385 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
84236261 AAAGCTCGTA
* *
84236271 CAATGCCAACGTCCCAGACGTGGTCTTACATGTTATAAAATAT
1 CAATGCCAACGTCCCAGACGGGGTCTTACATGTAATAAAATAT
* * *
84236314 CAATGCC-ACTGTCCCAGACAGGATCTTACATGTAAATCAGAAGT-T
1 CAATGCCAAC-GTCCCAGACGGGGTCTTACATGT-AAT-A-AAATAT
* *
84236359 -GATGCCAACGTCCCAGATGGGGTCTTA
1 CAATGCCAACGTCCCAGACGGGGTCTTA
84236386 TACGAAAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.03
43 27 0.47
44 22 0.38
45 4 0.07
46 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGGGGTCTTACATGTAATAAAATAT
Found at i:84247277 original size:40 final size:39
Alignment explanation
Indices: 84247112--84247295 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
84247102 AAATTGAATG
* * *
84247112 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
84247152 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
84247192 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
84247232 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
84247271 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
84247296 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:84247320 original size:80 final size:81
Alignment explanation
Indices: 84247152--84247340 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
84247142 GCTGGAAATT
* * * *
84247152 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
84247217 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
84247233 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
84247296 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
84247312 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
84247341 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:84254161 original size:46 final size:46
Alignment explanation
Indices: 84254108--84254283 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
84254098 TATTTGGGCC
84254108 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
84254154 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* * *
84254201 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * **
84254247 CCCGAGCTTGTTGAGTTGAGTTTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84254284 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 70 0.66
47 36 0.34
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:84261956 original size:42 final size:42
Alignment explanation
Indices: 84261848--84261979 Score: 169
Period size: 44 Copynumber: 3.1 Consensus size: 42
84261838 CGATATGTTT
84261848 TTTCGTGTAAGACCAC-ATCTGGGACATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACC-CTATCTGGGACATTGGCATCGTA-TT-TGA
* *
84261891 TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCCTATCTGGGACATTGGCATCGTATTTGA
* *
84261934 TTTCATGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCCTATCTGGGACATTGGCATCG-TATTTGA
84261977 TTT
1 TTT
84261980 AAGACTATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 28 0.35
43 19 0.24
44 31 0.39
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTATCTGGGACATTGGCATCGTATTTGA
Found at i:84263774 original size:15 final size:15
Alignment explanation
Indices: 84263742--84263770 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
84263732 ATTTTCTGTG
84263742 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
84263757 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
84263771 ATTTTAGTGA
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:84269466 original size:24 final size:24
Alignment explanation
Indices: 84269434--84269591 Score: 115
Period size: 24 Copynumber: 6.5 Consensus size: 24
84269424 TCGATTTCGT
84269434 ACACATAGTGCTATTCAAATCCGC
1 ACACATAGTGCTATTCAAATCCGC
* * * * *
84269458 ACACTTAGTGCCATGCTAA-CCTGT
1 ACACATAGTGCTATTCAAATCC-GC
** *
84269482 ACACATAGTGCCT-TAGAAATCCAC
1 ACACATAGTG-CTATTCAAATCCGC
* * *
84269506 ACACTCGTATTGAC-ATTCAAATCAGC
1 ACA--CATAGTG-CTATTCAAATCCGC
*
84269532 ACACATAGTGCTATTCAATTCCGC
1 ACACATAGTGCTATTCAAATCCGC
*
84269556 ACACATAGTGCCATTCAAAATCCGC
1 ACACATAGTGCTATTC-AAATCCGC
*
84269581 ACACTTAGTGC
1 ACACATAGTGC
84269592 CAATGTCATT
Statistics
Matches: 100, Mismatches: 26, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
23 3 0.03
24 61 0.61
25 20 0.20
26 16 0.16
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (24 bp):
ACACATAGTGCTATTCAAATCCGC
Found at i:84269559 original size:50 final size:48
Alignment explanation
Indices: 84269434--84269591 Score: 122
Period size: 50 Copynumber: 3.2 Consensus size: 48
84269424 TCGATTTCGT
* * * *
84269434 ACACATAGTGCTATTCAAATCCGCACACTTAGTGCCATGCTAACCTGT
1 ACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGCAAACCAGC
** * * * *
84269482 ACACATAGTGCCT-TAGAAATCCACACACTCGTATTGACATTCAAATCAGC
1 ACACATAGTG-CTATTCAAATCCGCACACT--TAGTGACATGCAAACCAGC
* * * *
84269532 ACACATAGTGCTATTCAATTCCGCACACATAGTGCCATTCAAAATCC-GC
1 ACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGC-AAA-CCAGC
*
84269581 ACACTTAGTGC
1 ACACATAGTGC
84269592 CAATGTCATT
Statistics
Matches: 85, Mismatches: 19, Indels: 11
0.74 0.17 0.10
Matches are distributed among these distances:
48 32 0.38
49 19 0.22
50 34 0.40
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (48 bp):
ACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGCAAACCAGC
Found at i:84272959 original size:49 final size:50
Alignment explanation
Indices: 84272881--84273124 Score: 276
Period size: 49 Copynumber: 4.9 Consensus size: 50
84272871 CTATTGTGAT
* *
84272881 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
* * * * * *
84272930 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAG
* * * * **
84272981 ATCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
** *
84273031 GTCACATGTGTAGTACTAAGTATAGGCTACTACGTGTACCGGATAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
* * * *
84273080 GTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
84273125 GCTTCGGCTA
Statistics
Matches: 162, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 82 0.51
50 44 0.27
51 36 0.22
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
Found at i:84279251 original size:24 final size:24
Alignment explanation
Indices: 84279219--84279376 Score: 122
Period size: 24 Copynumber: 6.5 Consensus size: 24
84279209 TCGATTTCGT
84279219 ACACATAGTGCTATTCAAATCCGC
1 ACACATAGTGCTATTCAAATCCGC
* * * * *
84279243 ACACCTAGTGCCATGCTAACCCGC
1 ACACATAGTGCTATTCAAATCCGC
** *
84279267 ACACATAGTGCCT-TAGAAATCCAC
1 ACACATAGTG-CTATTCAAATCCGC
* * *
84279291 ACACTCGTATTGAC-ATTCAAATCAGC
1 ACA--CATAGTG-CTATTCAAATCCGC
* *
84279317 ACACATAGTGCTATTCAATTCCAC
1 ACACATAGTGCTATTCAAATCCGC
*
84279341 ACACATAGTGCCATTCAAAATCCGC
1 ACACATAGTGCTATTC-AAATCCGC
*
84279366 ACACTTAGTGC
1 ACACATAGTGC
84279377 CAATGTCATT
Statistics
Matches: 100, Mismatches: 28, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 66 0.66
25 17 0.17
26 16 0.16
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (24 bp):
ACACATAGTGCTATTCAAATCCGC
Found at i:84279340 original size:50 final size:48
Alignment explanation
Indices: 84279219--84279376 Score: 131
Period size: 50 Copynumber: 3.2 Consensus size: 48
84279209 TCGATTTCGT
* * * *
84279219 ACACATAGTGCTATTCAAATCCGCACACCTAGTGCCATGCTAACCCGC
1 ACACATAGTGCTATTCAAATCCACACACCTAGTGACATGCAAACCAGC
** * * *
84279267 ACACATAGTGCCT-TAGAAATCCACACACTCGTATTGACATTCAAATCAGC
1 ACACATAGTG-CTATTCAAATCCACACAC-C-TAGTGACATGCAAACCAGC
* * * *
84279317 ACACATAGTGCTATTCAATTCCACACACATAGTGCCATTCAAAATCC-GC
1 ACACATAGTGCTATTCAAATCCACACACCTAGTGACATGC-AAA-CCAGC
*
84279366 ACACTTAGTGC
1 ACACATAGTGC
84279377 CAATGTCATT
Statistics
Matches: 87, Mismatches: 17, Indels: 11
0.76 0.15 0.10
Matches are distributed among these distances:
48 31 0.36
49 20 0.23
50 36 0.41
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (48 bp):
ACACATAGTGCTATTCAAATCCACACACCTAGTGACATGCAAACCAGC
Found at i:84279352 original size:74 final size:75
Alignment explanation
Indices: 84279231--84279370 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 75
84279221 ACATAGTGCT
* * *
84279231 ATTCAAATCCGCACACCTAGTGCCATGCTAACCCGCACACATAGTGCC-TT-AGAAATCCACACA
1 ATTCAAATCAGCACACATAGTGCCATGCTAACCCACACACATAGTGCCATTCA-AAATCCACACA
84279294 CTCGTATTGAC
65 CTCGTATTGAC
* * * *
84279305 ATTCAAATCAGCACACATAGTGCTATTC-AATTCCACACACATAGTGCCATTCAAAATCCGCACA
1 ATTCAAATCAGCACACATAGTGCCATGCTAA-CCCACACACATAGTGCCATTCAAAATCCACACA
84279369 CT
65 CT
84279371 TAGTGCCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
73 2 0.04
74 39 0.70
75 14 0.25
76 1 0.02
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.23
Consensus pattern (75 bp):
ATTCAAATCAGCACACATAGTGCCATGCTAACCCACACACATAGTGCCATTCAAAATCCACACAC
TCGTATTGAC
Found at i:84279846 original size:4 final size:4
Alignment explanation
Indices: 84279830--84279872 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
84279820 GAAACACATC
* * * *
84279830 TATA TACA TATA TATA TATA TATA TCTA TATG TATG TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
84279873 GGCAACCACC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:84279846 original size:6 final size:6
Alignment explanation
Indices: 84279830--84279872 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
84279820 GAAACACATC
* * * *
84279830 TATATA CATATA TATATA TATATA TCTATA TGTATG TATATA T
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA T
84279873 GGCAACCACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:84283358 original size:2 final size:2
Alignment explanation
Indices: 84283351--84283382 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
84283341 GCTTCGCCAC
84283351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84283383 CTATTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84283431 original size:27 final size:26
Alignment explanation
Indices: 84283379--84283437 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
84283369 ATATATATAT
*
84283379 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
84283405 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
84283432 ATATCT
1 ATATCT
84283438 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:84289200 original size:40 final size:39
Alignment explanation
Indices: 84289155--84289284 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
84289145 CGGAATACAA
84289155 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
84289195 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
84289235 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
84289275 CCGGATATAA
1 CCGGATATAA
84289285 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:84294476 original size:40 final size:40
Alignment explanation
Indices: 84294385--84294495 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
84294375 ATAACCACGT
*
84294385 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
*
84294425 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCG-CTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAG-A-ACGACTA
**
84294465 GCAC-AATTGCCTTCGGGTCTTAATCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
84294496 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
39 3 0.05
40 58 0.92
41 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
Found at i:84295713 original size:12 final size:12
Alignment explanation
Indices: 84295696--84295727 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
84295686 GTATAGCCAA
84295696 CCTCTTCCTAAT
1 CCTCTTCCTAAT
84295708 CCTCTTCCTAAT
1 CCTCTTCCTAAT
84295720 CCTCTTCC
1 CCTCTTCC
84295728 AAACCAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.47, G:0.00, T:0.41
Consensus pattern (12 bp):
CCTCTTCCTAAT
Found at i:84307127 original size:55 final size:55
Alignment explanation
Indices: 84307012--84307137 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
84307002 GGCCGTGGGT
*
84307012 GAACCTGCCAAAACAACACGAGCGTGCGACACGCCCGTGCCTAAAAATCGTGGCC
1 GAACCTGCCAAAACAACACGAGCGTGCGACACACCCGTGCCTAAAAATCGTGGCC
* * ** * * *
84307067 AAACCTGTCAAATTAACACGGGCGTGTGACACACCCGTGCC-AAGCAATCGTAGG-C
1 GAACCTGCCAAAACAACACGAGCGTGCGACACACCCGTGCCTAA-AAATCGT-GGCC
*
84307122 GAACCTACCAAAACAA
1 GAACCTGCCAAAACAA
84307138 GGAGAAGCGA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
54 2 0.04
55 52 0.93
56 2 0.04
ACGTcount: A:0.34, C:0.32, G:0.21, T:0.13
Consensus pattern (55 bp):
GAACCTGCCAAAACAACACGAGCGTGCGACACACCCGTGCCTAAAAATCGTGGCC
Found at i:84312529 original size:23 final size:23
Alignment explanation
Indices: 84312501--84312547 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
84312491 TTTTTGGTAT
*
84312501 TTGATAAGTTAAACTTGAACCTA
1 TTGATAAGTTAAACTCGAACCTA
84312524 TTGATAAGTTAAACTCGAACCTA
1 TTGATAAGTTAAACTCGAACCTA
84312547 T
1 T
84312548 GGCATGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (23 bp):
TTGATAAGTTAAACTCGAACCTA
Found at i:84315173 original size:35 final size:35
Alignment explanation
Indices: 84315123--84315199 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
84315113 ACATGTATAC
*
84315123 TATA-AGTATATGATATACTTGGTACACGGATAAT
1 TATATAGTATATGATATAATTGGTACACGGATAAT
* *
84315157 TATATAGTATATGATATAATTGGTATATGGATAAT
1 TATATAGTATATGATATAATTGGTACACGGATAAT
*
84315192 GATATAGT
1 TATATAGT
84315200 CATGAGAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (35 bp):
TATATAGTATATGATATAATTGGTACACGGATAAT
Found at i:84317655 original size:40 final size:40
Alignment explanation
Indices: 84317600--84317783 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
84317590 CTCACACAAG
* * *
84317600 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
84317640 GCCTACGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* **
84317680 GCCTTCGGGTCTTAGCCCGGATATAGAAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACT-AGCACAAAT
* * * *
84317720 GCCTTC-GGATCTTAGCTCAGATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
*
84317760 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
84317784 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.94
41 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:84320967 original size:40 final size:40
Alignment explanation
Indices: 84320940--84321122 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
84320930 TACTAGCTCG
* *
84320940 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
84320980 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
84321020 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * ** *
84321060 AATGCCTTCGGGACTTAGCCCGGAAACT-GTCACTAACGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
84321100 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
84321123 TTATCATCCA
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 132 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:84331609 original size:40 final size:40
Alignment explanation
Indices: 84331565--84331728 Score: 249
Period size: 40 Copynumber: 4.1 Consensus size: 40
84331555 TGGGCTTCAA
** * *
84331565 CCGGATATAGCCACTCGCTCAAGTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
84331605 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
84331645 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
84331685 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
84331725 CCGG
1 CCGG
84331729 TTATCATCCG
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84339409 original size:40 final size:40
Alignment explanation
Indices: 84339363--84339563 Score: 307
Period size: 40 Copynumber: 5.0 Consensus size: 40
84339353 CGGCTTCAAA
** *
84339363 CGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
**
84339403 CGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
84339443 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
84339483 CGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
84339523 CGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
84339563 C
1 C
84339564 AGTTATCATC
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 150 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:84347637 original size:27 final size:28
Alignment explanation
Indices: 84347607--84347671 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
84347597 TGTGGTAGAA
* *
84347607 CCACTAGAATA-GATATTTGTGGCATAG
1 CCACCAGAATACGATATTTATGGCATAG
84347634 CCACCAGAA-ACGGATATTTATGGCATAG
1 CCACCAGAATAC-GATATTTATGGCATAG
84347662 CCACCAGAAT
1 CCACCAGAAT
84347672 GCTTCCTCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 8 0.24
28 24 0.73
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (28 bp):
CCACCAGAATACGATATTTATGGCATAG
Found at i:84348738 original size:17 final size:18
Alignment explanation
Indices: 84348716--84348751 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
84348706 CAGCTATGGT
84348716 GAAAAGAAAAGATG-GAA
1 GAAAAGAAAAGATGAGAA
*
84348733 GAAAAGAAACGATGAGAA
1 GAAAAGAAAAGATGAGAA
84348751 G
1 G
84348752 GGGAGTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.03, G:0.31, T:0.06
Consensus pattern (18 bp):
GAAAAGAAAAGATGAGAA
Found at i:84355396 original size:80 final size:80
Alignment explanation
Indices: 84355253--84355471 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 80
84355243 CGAATGGTAT
* * * * * * *
84355253 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTTCCGAAGGCATTTGTGC-GAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTT
*
84355318 GTGCGAGTTACCAAAA
65 GTACGAGTTACCAAAA
* *
84355334 CCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
* *
84355399 TACGAGTTACTAAAT
66 TACGAGTTACCAAAA
* * * * * *
84355414 CCGGGCTAA-TTCCCAAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTT-CCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAG
84355472 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 2 0.02
80 91 0.77
81 25 0.21
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
TACGAGTTACCAAAA
Found at i:84355459 original size:40 final size:39
Alignment explanation
Indices: 84355253--84355471 Score: 219
Period size: 40 Copynumber: 5.5 Consensus size: 39
84355243 CGAATGGTAT
* * * *
84355253 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
84355293 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
*
84355334 CCGGGTTAAGTT-CCGAAGGCATTTGTGCGAGTTACTAAAA
1 CCGGGCTAA-TTCCCGAAGGCATTTGTGCGAGTTACT-AAA
* * *
84355374 CCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 CCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
84355413 TCCGGGCTAATTCCCAAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTA-AA
84355454 CCGGGCT-ATGTCCCGAAG
1 CCGGGCTAAT-TCCCGAAG
84355472 ACAATCGAGC
Statistics
Matches: 153, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
39 7 0.05
40 113 0.74
41 33 0.22
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
CCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84355470 original size:120 final size:121
Alignment explanation
Indices: 84355253--84355471 Score: 289
Period size: 120 Copynumber: 1.8 Consensus size: 121
84355243 CGAATGGTAT
* * * *
84355253 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCAATT
* * * *
84355318 GTGCGAGTTACCAAAACCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
84355374 CCGGGTTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGG-CTAATTCCCAAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACTAAGTGACTAAATCCGGGTC-AATTCCCAAAGGCAAT
* * *
84355437 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
84355472 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 57 0.69
121 25 0.30
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:84361722 original size:28 final size:28
Alignment explanation
Indices: 84361649--84361738 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
84361639 GTGACAGAGT
* *
84361649 CACCA-AATACAGATA-TTGTGGCAAAAC
1 CACCAGAA-ACAGATATTTGTGGCATAGC
84361676 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
84361703 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
84361731 CACCAGAA
1 CACCAGAA
84361739 CGCTTCCTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 7 0.12
27 22 0.38
28 29 0.50
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:84362821 original size:17 final size:16
Alignment explanation
Indices: 84362795--84362827 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
84362785 GGGTTCGGCT
84362795 ATGGAGAAAAGAAAAG
1 ATGGAGAAAAGAAAAG
84362811 ATGGAAGAAAAGAAAAG
1 ATGG-AGAAAAGAAAAG
84362828 GTGAGAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAG
Found at i:84370102 original size:56 final size:56
Alignment explanation
Indices: 84370036--84370225 Score: 265
Period size: 56 Copynumber: 3.4 Consensus size: 56
84370026 CCATGGCATT
* * * * * *
84370036 GATATATGTGTGTGAGTAAGACCATGTTTAATATGTTGGTATCAATATGTCACACC
1 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCC
* *
84370092 GATATATGTGTG-CAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGTCTCC
1 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCC
* * *
84370147 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATATGACTCC
1 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCC
*
84370203 GATTTATGTGTGTGAGTAAGACC
1 GATATATGTGTGTGAGTAAGACC
84370226 CTGTCTGGGA
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
55 47 0.39
56 72 0.61
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (56 bp):
GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCC
Found at i:84373148 original size:13 final size:14
Alignment explanation
Indices: 84373121--84373151 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
84373111 AAGTGGACAA
84373121 TTGTTAAAGCATAT
1 TTGTTAAAGCATAT
84373135 TTGTTAAA-CATAT
1 TTGTTAAAGCATAT
84373148 TTGT
1 TTGT
84373152 AATCGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (14 bp):
TTGTTAAAGCATAT
Found at i:84380149 original size:40 final size:40
Alignment explanation
Indices: 84380094--84380275 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
84380084 TATTCGAATG
84380094 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
84380134 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
84380174 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
84380214 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
84380254 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
84380276 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:84388216 original size:40 final size:40
Alignment explanation
Indices: 84388161--84388422 Score: 438
Period size: 40 Copynumber: 6.6 Consensus size: 40
84388151 TATTCGAATG
84388161 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
84388201 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
84388241 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTGTTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
84388281 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
84388321 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
84388361 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
84388401 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
84388423 TACTTGGGTT
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 14 0.07
40 192 0.92
41 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:84393322 original size:28 final size:28
Alignment explanation
Indices: 84393253--84393353 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
84393243 GACAAGATTG
* * * *
84393253 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
84393283 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
84393311 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
84393340 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
84393354 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:84401281 original size:28 final size:28
Alignment explanation
Indices: 84401212--84401312 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
84401202 GACAAGATTG
* * * *
84401212 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
84401242 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
84401270 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
84401299 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
84401313 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:84404227 original size:13 final size:14
Alignment explanation
Indices: 84404200--84404230 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
84404190 AAGTTGAAAG
84404200 TTGTTAAAGCATAT
1 TTGTTAAAGCATAT
84404214 TTGTTAAA-CATAT
1 TTGTTAAAGCATAT
84404227 TTGT
1 TTGT
84404231 AATCGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (14 bp):
TTGTTAAAGCATAT
Found at i:84404327 original size:19 final size:19
Alignment explanation
Indices: 84404303--84404341 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
84404293 AGATTGTATG
84404303 AGTTTTATGTGATGTTTAA
1 AGTTTTATGTGATGTTTAA
84404322 AGTTTTATGTGATGTTTAA
1 AGTTTTATGTGATGTTTAA
84404341 A
1 A
84404342 TGTCCTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (19 bp):
AGTTTTATGTGATGTTTAA
Found at i:84405131 original size:12 final size:13
Alignment explanation
Indices: 84405109--84405137 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
84405099 TAATTAAATG
84405109 AATTAAAAAGCCA
1 AATTAAAAAGCCA
84405122 AATT-AAAAGCCA
1 AATTAAAAAGCCA
84405134 AATT
1 AATT
84405138 TTGTCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:84406230 original size:21 final size:22
Alignment explanation
Indices: 84406205--84406252 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
84406195 TTTTCATTGA
*
84406205 AAACCCTTATTAAAAT-AAAAG
1 AAACCCTAATTAAAATAAAAAG
**
84406226 AAACCCTAATTAACCTAAAAAG
1 AAACCCTAATTAAAATAAAAAG
84406248 AAACC
1 AAACC
84406253 TTTCAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (22 bp):
AAACCCTAATTAAAATAAAAAG
Found at i:84407339 original size:29 final size:29
Alignment explanation
Indices: 84407262--84407347 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
84407252 AAATTAACAT
* *
84407262 ACCTGTATCTGGCCCATTAAGCCC-AATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
** *
84407290 ATAT-TCATATGGTCCCTTTAGGCCCAAATC
1 ACCTGT-ATATGG-CCCATTAGGCCCAAATC
84407320 ACCTGTATATGGCCCATTAGGCCCAAAT
1 ACCTGTATATGGCCCATTAGGCCCAAAT
84407348 GAAATTTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
27 1 0.02
28 7 0.15
29 25 0.54
30 12 0.26
31 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:84407357 original size:29 final size:29
Alignment explanation
Indices: 84407271--84407373 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
84407261 TACCTGTATC
* * *
84407271 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCAAATTTATA
* ** *
84407299 TGGTCCCTTTAGGCCCAAATCACCTGTATA
1 TGG-CCCATTAGGCCCAAATCAAATTTATA
*
84407329 TGGCCCATTAGGCCCAAATGAAATTTATA
1 TGGCCCATTAGGCCCAAATCAAATTTATA
**
84407358 TGGCCTGTTAGGCCCA
1 TGGCCCATTAGGCCCA
84407374 GTCACATTCA
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.05
29 45 0.75
30 12 0.20
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCAAATTTATA
Found at i:84407369 original size:58 final size:57
Alignment explanation
Indices: 84407262--84407373 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 57
84407252 AAATTAACAT
* *
84407262 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGTCCCTTTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAATCAAATTCATATGG-CCCTTTAGGCCCAAATC
* * *
84407320 ACCTGTATATGGCCCATTAGGCCCAAATGAAATTTATATGG-CCTGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCC-AATCAAATTCATATGGCCCT-TTAGGCCCA
84407374 GTCACATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 3 0.06
58 31 0.66
59 13 0.28
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAATCAAATTCATATGGCCCTTTAGGCCCAAATC
Done.