Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 175 of 316
Found at i:56318767 original size:94 final size:95
Alignment explanation
Indices: 56318645--56318868 Score: 283
Period size: 95 Copynumber: 2.3 Consensus size: 95
56318635 TATCGAGGCC
* * * *
56318645 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TGTCGATGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGATCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAG
56318709 ACATGGTCTTACATTGACACATACCAAGCT
66 ACATGGTCTTACATTGACACATACCAAGCT
* *
56318739 GATGCCATGTCCTAGACATGATCTTACACTAGCTTTCATATCTCGAGGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGATCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAG
* * * * *
56318804 ACATGGTCTTACACTAGCTCTCGT-CTCAATGCC
66 ACATGGTCTTACA-TTG-ACACATAC-CAA-GCT
*
56318837 GATGCCATGTCCCAAACATG-TCTTACACTAGC
1 GATGCCATGTCCCAGACATGATCTTACACTAGC
56318869 ACACATGTCA
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
94 35 0.31
95 36 0.32
96 3 0.03
97 18 0.16
98 20 0.18
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGATCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACATTGACACATACCAAGCT
Found at i:56318804 original size:144 final size:144
Alignment explanation
Indices: 56318541--56318874 Score: 453
Period size: 144 Copynumber: 2.3 Consensus size: 144
56318531 CATAGGCTAA
** *
56318541 GATGCCGATGCCATGTCCTGGACATGGTTTTACACTTGCTCACACATCAAAGTCGATGCCATATC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTTG--CACACATCAAAGTCGATGCCATATC
56318606 CCAGACATGATCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTA
64 CCAGACATGATCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTA
* * *
56318671 CACTGGCTCTCATTGTC
129 CACTAGCTCTC-GTCTC
* *
56318688 GATGCCGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACACATACCAAG-CTGATGCCATGTC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTTGCACACAT-CAAAGTC-GATGCCATATC
* * *
56318750 CTAGACATGATCTTACACT-AGCTTTCATATCTCGAGGCCGATGCCATGTCCCAGACATGGTCTT
64 CCAGACATGATCTTACACTGA-CTCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTT
56318814 ACACTAGCTCTCGTCTC
128 ACACTAGCTCTCGTCTC
* * *
56318831 AATGCCGATGCCATGTCCCAAACAT-GTCTTACACTAGCACACAT
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTTGCACACAT
56318875 GTCACCTAAA
Statistics
Matches: 168, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
142 8 0.05
143 36 0.21
144 90 0.54
146 3 0.02
147 31 0.18
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (144 bp):
GATGCCGATGCCATGTCCCAGACATGGTCTTACACTTGCACACATCAAAGTCGATGCCATATCCC
AGACATGATCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCTCTCGTCTC
Found at i:56328787 original size:20 final size:18
Alignment explanation
Indices: 56328739--56328788 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
56328729 ACAAGATTAT
56328739 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
56328756 TATTAAGA-TAATCATTTTAA
1 TATTAA-ATTAAT-A-TTTAA
56328776 TATTAAATTAATA
1 TATTAAATTAATA
56328789 AAATAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 9 0.32
18 1 0.04
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:56330272 original size:21 final size:20
Alignment explanation
Indices: 56330248--56330287 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
56330238 TACAGGGCTC
56330248 ACACACCCGTGTGGTCTAGGG
1 ACACACCCGTGTGGT-TAGGG
*
56330269 ACACGCCCGTGTGGTTAGG
1 ACACACCCGTGTGGTTAGG
56330288 CCATCTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (20 bp):
ACACACCCGTGTGGTTAGGG
Found at i:56338457 original size:13 final size:13
Alignment explanation
Indices: 56338439--56338463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56338429 CCGAAACTAG
56338439 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
56338452 AAAGAAAAAAAA
1 AAAGAAAAAAAA
56338464 TGCTCATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:56339635 original size:39 final size:40
Alignment explanation
Indices: 56339540--56339801 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
56339530 TTGAATGATG
*
56339540 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56339578 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56339619 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
56339658 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56339697 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56339736 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56339775 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56339802 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56347654 original size:39 final size:40
Alignment explanation
Indices: 56347559--56347820 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
56347549 TTGAATGATG
*
56347559 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56347597 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56347638 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
56347677 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56347716 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56347755 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56347794 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56347821 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56360257 original size:8 final size:8
Alignment explanation
Indices: 56360244--56360298 Score: 65
Period size: 8 Copynumber: 6.9 Consensus size: 8
56360234 ATTGGCAAAA
56360244 GCCGAAAT
1 GCCGAAAT
56360252 GCCGAAAT
1 GCCGAAAT
*
56360260 GCCGAAAA
1 GCCGAAAT
56360268 GCCGAAAT
1 GCCGAAAT
* * *
56360276 GTCTAAAA
1 GCCGAAAT
*
56360284 GCTGAAAT
1 GCCGAAAT
56360292 GCCGAAA
1 GCCGAAA
56360299 AGCTGAAAGT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.13
Consensus pattern (8 bp):
GCCGAAAT
Found at i:56360265 original size:16 final size:16
Alignment explanation
Indices: 56360244--56360306 Score: 81
Period size: 16 Copynumber: 3.9 Consensus size: 16
56360234 ATTGGCAAAA
*
56360244 GCCGAAATGCCGAAAT
1 GCCGAAAAGCCGAAAT
56360260 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
* * *
56360276 GTCTAAAAGCTGAAAT
1 GCCGAAAAGCCGAAAT
*
56360292 GCCGAAAAGCTGAAA
1 GCCGAAAAGCCGAAA
56360307 GTTTGGCTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:56360290 original size:24 final size:24
Alignment explanation
Indices: 56360240--56360298 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
56360230 ATGAATTGGC
*
56360240 AAAAGCCGAAATGCCGAAATGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
* * *
56360264 AAAAGCCGAAATGTCTAAAAGCTG
1 AAAAGCCGAAATGCCGAAAAGCCG
*
56360288 AAATGCCGAAA
1 AAAAGCCGAAA
56360299 AGCTGAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:56360306 original size:8 final size:8
Alignment explanation
Indices: 56360240--56360306 Score: 62
Period size: 8 Copynumber: 8.4 Consensus size: 8
56360230 ATGAATTGGC
56360240 AAAAGCCG
1 AAAAGCCG
*
56360248 AAATGCCG
1 AAAAGCCG
*
56360256 AAATGCCG
1 AAAAGCCG
56360264 AAAAGCCG
1 AAAAGCCG
* * *
56360272 AAATGTCT
1 AAAAGCCG
*
56360280 AAAAGCTG
1 AAAAGCCG
*
56360288 AAATGCCG
1 AAAAGCCG
*
56360296 AAAAGCTG
1 AAAAGCCG
56360304 AAA
1 AAA
56360307 GTTTGGCTAC
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 46 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (8 bp):
AAAAGCCG
Found at i:56360572 original size:29 final size:29
Alignment explanation
Indices: 56360530--56360635 Score: 187
Period size: 29 Copynumber: 3.7 Consensus size: 29
56360520 TGAATGTGGC
*
56360530 TGGGCCTAACGGGCCATATA-AATGTGATT
1 TGGGCCTAATGGGCCATATACAA-GTGATT
56360559 TGGGCCTAATGGGCCATATACAAGTGATT
1 TGGGCCTAATGGGCCATATACAAGTGATT
56360588 TGGGCCTAATGGGCCATATACAAGTGATT
1 TGGGCCTAATGGGCCATATACAAGTGATT
56360617 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
56360636 GAATATGACT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 73 0.97
30 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAAGTGATT
Found at i:56360657 original size:28 final size:28
Alignment explanation
Indices: 56360530--56360660 Score: 151
Period size: 29 Copynumber: 4.6 Consensus size: 28
56360520 TGAATGTGGC
* *
56360530 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATAT-AATATGATT
56360559 TGGGCCTAATGGGCCATATACA-AGTGATT
1 TGGGCCTAATGGGCCATATA-ATA-TGATT
56360588 TGGGCCTAATGGGCCATATACA-AGTGATT
1 TGGGCCTAATGGGCCATATA-ATA-TGATT
*
56360617 TGGGCCTAATGGGCCATATGAATATGA-C
1 TGGGCCTAATGGGCCATAT-AATATGATT
*
56360645 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
56360661 AATACAGGTA
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
28 16 0.17
29 76 0.81
30 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAATATGATT
Found at i:56360973 original size:26 final size:27
Alignment explanation
Indices: 56360944--56360997 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56360934 AACCATATTA
* *
56360944 AAGGG-AAAAATTACCGAAATACCCCT
1 AAGGGCAAAAATGACCAAAATACCCCT
*
56360970 AAGGGCAGAAATGACCAAAATACCCCT
1 AAGGGCAAAAATGACCAAAATACCCCT
56360997 A
1 A
56360998 GATGTTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (27 bp):
AAGGGCAAAAATGACCAAAATACCCCT
Found at i:56373119 original size:24 final size:28
Alignment explanation
Indices: 56373070--56373121 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 28
56373060 AACCGAGGTA
56373070 AGTTCGTATGTTAAATAAGCTTTAATAT
1 AGTTCGTATGTTAAATAAGCTTTAATAT
56373098 AGTT-GTAT-TTAAAT-A-CTTTAATAT
1 AGTTCGTATGTTAAATAAGCTTTAATAT
56373122 TTCATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 9 0.38
25 1 0.04
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (28 bp):
AGTTCGTATGTTAAATAAGCTTTAATAT
Found at i:56374196 original size:15 final size:17
Alignment explanation
Indices: 56374166--56374197 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56374156 TTGATACTTG
56374166 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
56374183 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
56374198 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:56375532 original size:22 final size:22
Alignment explanation
Indices: 56375505--56375553 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
56375495 TTTGTCTTTA
*
56375505 TTATTTTTTACT-TTATTTATT
1 TTATTTTTTACTCTTATTAATT
*
56375526 CTTATTTTTTATTCTTATTAATT
1 -TTATTTTTTACTCTTATTAATT
56375549 TTATT
1 TTATT
56375554 ATAATTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (22 bp):
TTATTTTTTACTCTTATTAATT
Found at i:56375538 original size:13 final size:13
Alignment explanation
Indices: 56375520--56375544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56375510 TTTTACTTTA
56375520 TTTATTCTTATTT
1 TTTATTCTTATTT
56375533 TTTATTCTTATT
1 TTTATTCTTATT
56375545 AATTTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTCTTATTT
Found at i:56377214 original size:6 final size:6
Alignment explanation
Indices: 56377203--56377247 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
56377193 TTTTTTCATG
56377203 TTTATT TTTATT TTTATT TTTATT TTGGT-TAT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TT--TAT-T TTTATT TTTATT T
56377248 CTTAGACTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 29 0.83
7 2 0.06
8 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:56378845 original size:43 final size:43
Alignment explanation
Indices: 56378771--56378878 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
56378761 CCACTATCGT
* * * *
56378771 AGACAAGGTCTTACACGAAATCGATTAACGATGCCAATGTCCC
1 AGACATGGTCTTACACGTAATCCAATAACGATGCCAATGTCCC
*
56378814 AGACATGGTCTTACACGTAATCTCAAT-ACGATGTCAATGTCCC
1 AGACATGGTCTTACACGTAATC-CAATAACGATGCCAATGTCCC
*
56378857 AGACATGGTCTTACATGTAATC
1 AGACATGGTCTTACACGTAATC
56378879 ACATCTCGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
AGACATGGTCTTACACGTAATCCAATAACGATGCCAATGTCCC
Found at i:56382206 original size:37 final size:37
Alignment explanation
Indices: 56382147--56382292 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
56382137 AGCTCAGACG
* * *
56382147 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56382184 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56382221 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56382258 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56382293 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56382506 original size:47 final size:47
Alignment explanation
Indices: 56382455--56382687 Score: 385
Period size: 47 Copynumber: 5.0 Consensus size: 47
56382445 TTTCACACTA
* * *
56382455 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
56382502 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
56382549 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
56382596 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
56382643 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
56382688 AAAATCCTAA
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:56395500 original size:49 final size:47
Alignment explanation
Indices: 56395331--56395510 Score: 153
Period size: 49 Copynumber: 3.8 Consensus size: 47
56395321 CCGGGACGTA
* *
56395331 AGCCAGTATAAGA-CATGTCT-GGTACAT-GCATCGGCT-ATGAGATGT
1 AGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCTCA-AAGATGT
*
56395376 -GTCAGTGTAAGACCATGTCTAGGACATGGCAT---CTACAAAGTTATGT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCT-CAAAG--ATGT
* *
56395422 GGGAGCTAGTGTAAGACCAT-TGCTGGGACATGGCATCGGCCTCAAAGATGAT
1 ---AGCCAGTGTAAGACCATGT-CTAGGACATGGCATCGG-CTCAAAGATG-T
56395474 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
56395511 ACTTTACCCA
Statistics
Matches: 109, Mismatches: 8, Indels: 33
0.73 0.05 0.22
Matches are distributed among these distances:
43 2 0.02
44 12 0.11
45 12 0.11
46 10 0.09
48 1 0.01
49 33 0.30
50 28 0.26
51 3 0.03
52 1 0.01
53 5 0.05
54 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCAAAGATGT
Found at i:56403066 original size:46 final size:46
Alignment explanation
Indices: 56402915--56403228 Score: 176
Period size: 46 Copynumber: 6.6 Consensus size: 46
56402905 TGTGTAAGCT
* * *** *
56402915 AGTGTAAGACATGTCTCGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGACGAGAGCC
* * *
56402961 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAGT-GGGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGGGACGAGAGCC
* *
56403009 AGTGTAGGACATGTCTGGGACATGCATCAGCCTCGGGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGACG-AGAGCC
* ** * *
56403055 AGTATAAGACATGTCTGGGACATGCATTAG-CTAC--GA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGGGACGA-GAGCC
* * * * *
56403099 AGTGTAAGACCATGTCTGGGACAGGGCATTGG--TACGGCTATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCT-CGG-GA--CGAGAGCC
* * * * *
56403149 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCTCGAAGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG-GGACGAGAGCC
*
56403198 AGTGTAAGACTATGTTTGGGACATGGCATCG
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCG
56403229 ACACTTTACC
Statistics
Matches: 210, Mismatches: 37, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.06
45 19 0.09
46 58 0.28
47 28 0.13
48 24 0.11
49 32 0.15
50 29 0.14
51 5 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGACGAGAGCC
Found at i:56406186 original size:19 final size:21
Alignment explanation
Indices: 56406147--56406187 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
56406137 CAAACCTCTG
56406147 AAACTTTTTACATTCCCCCCA
1 AAACTTTTTACATTCCCCCCA
*
56406168 AAAC-TTTTAC-TTCCTCCCA
1 AAACTTTTTACATTCCCCCCA
56406187 A
1 A
56406188 CTTTCTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (21 bp):
AAACTTTTTACATTCCCCCCA
Found at i:56406852 original size:34 final size:34
Alignment explanation
Indices: 56406814--56406886 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
56406804 AGTAACAGTC
* *
56406814 CAGTATCAGTTAGGGCCTTAGCCCATTACAGTAA
1 CAGTATAAGTGAGGGCCTTAGCCCATTACAGTAA
* *
56406848 CAGTATAAGTGCGGGCCTTAGCCCATTTCAGTAA
1 CAGTATAAGTGAGGGCCTTAGCCCATTACAGTAA
56406882 CAGTA
1 CAGTA
56406887 ATAGGACAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTATAAGTGAGGGCCTTAGCCCATTACAGTAA
Found at i:56415835 original size:24 final size:24
Alignment explanation
Indices: 56415803--56415863 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
56415793 AAAATCCAAT
* * *
56415803 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
56415827 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
56415851 GCACTATGTGTGC
1 GCACTATGTGTGC
56415864 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:56418342 original size:27 final size:27
Alignment explanation
Indices: 56418292--56418343 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56418282 ACATAAGGTT
* *
56418292 ATAACAGTCATTTTACCTTATAGGGAC
1 ATAACAGTCATTTAACATTATAGGGAC
56418319 ATAACAGTCATTTAACAATT-TAGGG
1 ATAACAGTCATTTAAC-ATTATAGGG
56418344 TCTAGGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
ATAACAGTCATTTAACATTATAGGGAC
Found at i:56431235 original size:42 final size:41
Alignment explanation
Indices: 56431126--56431238 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 41
56431116 TACTGTACCA
* ** * *
56431126 ATGCCATATCCCAGATATGGTCTTATATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAATCTCCTATCG
* * *
56431168 ATGCTAATAGCCCAGCTATGGTCTTACACAAAGTCTCCTATCG
1 ATGC-CATATCCCAGATATGGTCTTACACAAA-TCTCCTATCG
56431211 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
56431239 GTAATCCCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATCTCCTATCG
Found at i:56432253 original size:20 final size:20
Alignment explanation
Indices: 56432224--56432268 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56432214 AGCACATGTA
* *
56432224 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
56432244 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
56432264 TTCAT
1 TTCAT
56432269 TTTAGCCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:56433395 original size:17 final size:18
Alignment explanation
Indices: 56433352--56433398 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
56433342 TTCAGAGTAA
*
56433352 TGGGCCCACATGCCCGTG
1 TGGGCCCACACGCCCGTG
56433370 TGGGCCCACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
56433388 T-TGCCCACACG
1 TGGGCCCACACG
56433399 ACCAGATTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.13, C:0.43, G:0.30, T:0.15
Consensus pattern (18 bp):
TGGGCCCACACGCCCGTG
Found at i:56440474 original size:18 final size:18
Alignment explanation
Indices: 56440451--56440489 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56440441 TTTAGAGTTA
*
56440451 TGGGCCAACATGCCCGTG
1 TGGGCCAACACGCCCGTG
* *
56440469 TGGGCCCACACGCTCGTG
1 TGGGCCAACACGCCCGTG
56440487 TGG
1 TGG
56440490 CCCACACAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.18
Consensus pattern (18 bp):
TGGGCCAACACGCCCGTG
Found at i:56445464 original size:13 final size:13
Alignment explanation
Indices: 56445412--56445464 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
56445402 AAATGATGAA
56445412 TAAAATATTAAAT
1 TAAAATATTAAAT
**
56445425 TATCATATTTAAAT
1 TAAAATA-TTAAAT
*
56445439 TATAAATA-AAAAT
1 TA-AAATATTAAAT
56445452 TAAAATATTAAAT
1 TAAAATATTAAAT
56445465 ACCAGACCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
12 5 0.16
13 15 0.48
14 8 0.26
15 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATATTAAAT
Found at i:56445774 original size:90 final size:90
Alignment explanation
Indices: 56445621--56446019 Score: 618
Period size: 90 Copynumber: 4.4 Consensus size: 90
56445611 CTTCAATTAA
* *
56445621 TTAATTTATGTTGTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* *
56445686 TGTGGTTTAACAGACTTTTTTTTGT
66 TGTAGTTTAACATACTTTTTTTTGT
56445711 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
*
56445776 TGTAGTCTAACATACTTTTTTTTGT
66 TGTAGTTTAACATACTTTTTTTTGT
* *
56445801 TTAATTTATGCTGTAGTACTTGTACTATTATATTAATTTGGGCTTCAATTAACTAATTTTAAAGT
1 TTAATTTATGC-----TA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
* * *
56445866 TTAAACAGTAGCTTAACAAACTTTTTTTTTGT
60 TTAAACTGTAGTTTAACATAC-TTTTTTTTGT
* *
56445898 TTAATTTATGCTATTGTACTCTTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
56445963 TGTAGTTTAACATACTTTTTTTTGT
66 TGTAGTTTAACATACTTTTTTTTGT
*
56445988 TTAATTTATGCTACTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
56446020 AATTTTTAAT
Statistics
Matches: 282, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
90 136 0.48
91 60 0.21
92 2 0.01
95 2 0.01
96 61 0.22
97 21 0.07
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (90 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
TGTAGTTTAACATACTTTTTTTTGT
Found at i:56445948 original size:187 final size:186
Alignment explanation
Indices: 56445634--56445999 Score: 642
Period size: 187 Copynumber: 2.0 Consensus size: 186
56445624 ATTTATGTTG
* * * *
56445634 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGGTTTAACAG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACAGTAGCTTAACAA
56445699 ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
66 ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
*
56445764 TAAAGTTTAAACTGTAGTCTAACATACTTTTTTTTGTTTAATTTATGCTGTAGTAC
131 TAAAGTTTAAAATGTAGTCTAACATACTTTTTTTTGTTTAATTTATGCTGTAGTAC
* *
56445820 TTGTACTATTATATTAATTTGGGCTTCAATTAACTAATTTTAAAGTTTAAACAGTAGCTTAACAA
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACAGTAGCTTAACAA
*
56445885 ACTTTTTTTTTGTTTAATTTATGCTATTGTACTCTTATATTAATTTAGGCTTCAATTAACTAACT
66 AC-TTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
*
56445950 TTAAAGTTTAAAATGTAGTTTAACATACTTTTTTTTGTTTAATTTATGCT
130 TTAAAGTTTAAAATGTAGTCTAACATACTTTTTTTTGTTTAATTTATGCT
56446000 ACTGTACTAT
Statistics
Matches: 170, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
186 61 0.36
187 109 0.64
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (186 bp):
TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACAGTAGCTTAACAA
ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
TAAAGTTTAAAATGTAGTCTAACATACTTTTTTTTGTTTAATTTATGCTGTAGTAC
Found at i:56449535 original size:13 final size:13
Alignment explanation
Indices: 56449517--56449543 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56449507 TGTTAGTAAT
56449517 CGTATTTTCAGTG
1 CGTATTTTCAGTG
56449530 CGTATTTTCAGTG
1 CGTATTTTCAGTG
56449543 C
1 C
56449544 TGGCATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (13 bp):
CGTATTTTCAGTG
Found at i:56453819 original size:17 final size:17
Alignment explanation
Indices: 56453797--56453830 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56453787 AAAAGTAATG
56453797 GGCCAA-TTAGATAAAAA
1 GGCCAATTTAGA-AAAAA
56453814 GGCCAATTTAGAAAAAA
1 GGCCAATTTAGAAAAAA
56453831 ATTTAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
GGCCAATTTAGAAAAAA
Found at i:56453830 original size:18 final size:17
Alignment explanation
Indices: 56453797--56453831 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56453787 AAAAGTAATG
*
56453797 GGCCAATTAGATAAAAA
1 GGCCAATTAGAAAAAAA
56453814 GGCCAATTTAGAAAAAAA
1 GGCCAA-TTAGAAAAAAA
56453832 TTTAAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (17 bp):
GGCCAATTAGAAAAAAA
Found at i:56455752 original size:46 final size:46
Alignment explanation
Indices: 56455594--56455766 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
56455584 TAACCCGCCC
* * * *
56455594 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
56455640 TAAATGAACTCGGACTCAATTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
56455688 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
56455733 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56455767 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:56455762 original size:93 final size:93
Alignment explanation
Indices: 56455599--56455769 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
56455589 CGCCCTAAGT
* * * *
56455599 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
*
56455664 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
56455692 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
56455757 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56455770 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56460533 original size:47 final size:48
Alignment explanation
Indices: 56460448--56460569 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 48
56460438 GACGTAAGCA
*
56460448 AGTGTAAGA-CATGTTTGGGACAT-GCATTGACTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATTGACTACGAGAT-ATGAGCC
*
56460494 AGTGTAAGACCATGTTTGGGACATGGCATTGACT-TGAGATATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATTGACTACGAGATATGAGCC
* * * *
56460541 AGTATAAGACCGTGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTTTGGGACATGGCAT
56460570 CGGCACCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 11 0.16
47 47 0.70
48 9 0.13
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATTGACTACGAGATATGAGCC
Found at i:56480688 original size:30 final size:30
Alignment explanation
Indices: 56480633--56480694 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
56480623 CACTAATCAA
56480633 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
56480662 GTTTCAATATAACATGTAAT-AT-CATTTCCAT
1 GTTTC-ATAT-ACATGT-ATCATCCATTTCCAT
56480693 GT
1 GT
56480695 ATGTTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 9 0.31
31 13 0.45
32 2 0.07
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:56480904 original size:25 final size:25
Alignment explanation
Indices: 56480845--56480929 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
56480835 GTACATGTAT
* *
56480845 GCTCATACGAGCTATGAA-TCAGTAT
1 GCTCATACGAGCTAT-AATTCGGTAA
*
56480870 GCT-TTCACGAGCTATAATTCGGTAA
1 GCTCAT-ACGAGCTATAATTCGGTAA
* *
56480895 GCTCATACGAGTTGAGAATT-GGTAA
1 GCTCATACGAGCT-ATAATTCGGTAA
56480920 GCTCATACGA
1 GCTCATACGA
56480930 TTTGTGTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.06
25 41 0.82
26 6 0.12
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
GCTCATACGAGCTATAATTCGGTAA
Found at i:56488046 original size:12 final size:12
Alignment explanation
Indices: 56488013--56488054 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
56488003 GTGCCCCAAT
*
56488013 TTCATTCATTCA
1 TTCATTCATTCG
* *
56488025 TCCATCCATTCG
1 TTCATTCATTCG
56488037 TTCATTCATTCG
1 TTCATTCATTCG
56488049 TTCATT
1 TTCATT
56488055 TATTTATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.05, T:0.48
Consensus pattern (12 bp):
TTCATTCATTCG
Found at i:56491752 original size:24 final size:24
Alignment explanation
Indices: 56491720--56491790 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
56491710 CTGTCAGGAG
56491720 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
56491744 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
56491768 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
56491791 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:56491802 original size:48 final size:48
Alignment explanation
Indices: 56491720--56491813 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
56491710 CTGTCAGGAG
** * *
56491720 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
56491768 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
56491814 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:56493013 original size:27 final size:27
Alignment explanation
Indices: 56492973--56493083 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
56492963 AGGAAGCGTC
* *
56492973 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
56493000 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGTT
56493027 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
** *
56493054 CTGGTAACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
56493080 CTGG
1 CTGG
56493084 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 17 0.22
27 57 0.74
28 3 0.04
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:56498493 original size:38 final size:38
Alignment explanation
Indices: 56498356--56498522 Score: 199
Period size: 39 Copynumber: 4.3 Consensus size: 38
56498346 GGTCTTTAAC
** * * *
56498356 CCGGATATTTTTCCAGCACGTAGCCTGCGAACCTTAAGT
1 CCGGATA-TTTTCCAGCATATAGCCTGCGGACCTCATGT
** * * *
56498395 CCATATATATTTCTAGCATATAGCCTGCGGATCTCCTGT
1 CCGGATAT-TTTCCAGCATATAGCCTGCGGACCTCATGT
* *
56498434 CCGGATATTTTTCCAGCATATAGCCTGCGGATCTTATGT
1 CCGGATA-TTTTCCAGCATATAGCCTGCGGACCTCATGT
56498473 CCGGATATTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTCCAGCATATAGCCTGCGGACCTCATGT
56498511 CCGGATATTTTC
1 CCGGATATTTTC
56498523 AATCTCATAC
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
38 42 0.39
39 66 0.61
40 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (38 bp):
CCGGATATTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:56506431 original size:39 final size:38
Alignment explanation
Indices: 56506388--56506552 Score: 213
Period size: 39 Copynumber: 4.2 Consensus size: 38
56506378 CTTTAACACT
** * *
56506388 GATATGTTTCCAGCACGTAGCCTGCGGACCTTAAGTCCG
1 GATAT-TTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* *
56506427 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCG
1 GATAT-TTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* *
56506466 AATACTTTTCCAGCATATAGCCTGCGGATCTCATGTCCG
1 GATA-TTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
56506505 GATATTTTTCCAACATATAGCCTGCGGACCTCATGTCCG
1 GATA-TTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
56506544 GATATTTTC
1 GATATTTTC
56506553 AATCTCATAC
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 5 0.04
39 106 0.95
40 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (38 bp):
GATATTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:56514485 original size:26 final size:26
Alignment explanation
Indices: 56514449--56514500 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
56514439 TCTTTTGTTC
*
56514449 TCCCTGTCACTTAGAGAAAATTATAT
1 TCCCCGTCACTTAGAGAAAATTATAT
56514475 TCCCCGTCACTTAGAGAAAATTATAT
1 TCCCCGTCACTTAGAGAAAATTATAT
56514501 CCCTTGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (26 bp):
TCCCCGTCACTTAGAGAAAATTATAT
Found at i:56515691 original size:42 final size:42
Alignment explanation
Indices: 56515645--56515822 Score: 216
Period size: 42 Copynumber: 4.3 Consensus size: 42
56515635 GGAAACATTG
* *
56515645 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
** * *
56515687 ATTGCATTTAGAGGTTCAAGTGTGGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
*
56515729 ATTGCATTTAGA--CCCAGGTGTGGAGGTCCATTCACTTCTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
* * * * *
56515769 ATTACATCTAGAGACCCAGGTGTAGAGGTCTATTCACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
* *
56515811 ATTCCATCTAGA
1 ATTGCATTTAGA
56515823 TGTAACACCC
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 33 0.28
42 86 0.72
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (42 bp):
ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
Found at i:56515797 original size:82 final size:83
Alignment explanation
Indices: 56515645--56515822 Score: 214
Period size: 82 Copynumber: 2.1 Consensus size: 83
56515635 GGAAACATTG
* * * * * ***
56515645 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTTTTCATTGCATTTAGAGGTTCAAGTGT
1 ATTGCATTTAGA-GCCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAAGTGT
* *
56515710 GGAGGTCCATTTACTTTTC
65 AGAGGTCCATTCACTTTTC
*
56515729 ATTGCATTTAGA-CCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAGGTGTA
1 ATTGCATTTAGAGCCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAAGTGTA
*
56515793 GAGGTCTATTCACTTTTC
66 GAGGTCCATTCACTTTTC
* *
56515811 ATTCCATCTAGA
1 ATTGCATTTAGA
56515823 TGTAACACCC
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 68 0.85
84 12 0.15
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (83 bp):
ATTGCATTTAGAGCCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAAGTGTA
GAGGTCCATTCACTTTTC
Found at i:56520985 original size:48 final size:48
Alignment explanation
Indices: 56520914--56521140 Score: 305
Period size: 48 Copynumber: 4.7 Consensus size: 48
56520904 CATATTAATC
* *
56520914 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
* * *
56520962 TGTGCCTGTGTAAGACCATGTCTGGGACATGCCATCGATGATAATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
* ** *
56521010 AGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
*
56521058 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
** *
56521106 TG-GATTCATGTAAGACCATGT-TGGGGACATGGCAT
1 TGTGCCT-GTGTAAGACCATGTCT-GGGACATGGCAT
56521141 TGGTACTTTA
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 3 0.02
48 158 0.98
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
Found at i:56528440 original size:51 final size:51
Alignment explanation
Indices: 56528356--56528553 Score: 326
Period size: 51 Copynumber: 3.9 Consensus size: 51
56528346 CGGATACACG
*
56528356 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
56528407 GTGACCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
56528458 GTGGCCTTCACTTAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
56528509 GTGGCCTTTACATAGTACCACACTTGTGTCCAAAGTTATTTTATT
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATT
56528554 ACTAAGGTTC
Statistics
Matches: 137, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 1 0.01
51 136 0.99
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:56528615 original size:28 final size:27
Alignment explanation
Indices: 56528578--56528676 Score: 132
Period size: 28 Copynumber: 3.7 Consensus size: 27
56528568 GGGAAATTTC
56528578 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
*
56528606 TCACTTAGCACATTGTCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
56528634 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
56528658 TCACTTAGCACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
56528677 ATCCTGGATA
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
24 21 0.33
25 1 0.02
27 2 0.03
28 39 0.62
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:56538451 original size:3 final size:3
Alignment explanation
Indices: 56538434--56538490 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
56538424 GAATAAGGTG
* *
56538434 TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56538482 TAT TAT TAT
1 TAT TAT TAT
56538491 CATCATGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:56551512 original size:8 final size:8
Alignment explanation
Indices: 56551484--56551538 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
56551474 AAGGTATCTA
56551484 AAAAAATT
1 AAAAAATT
56551492 AAATAAATT
1 AAA-AAATT
56551501 AAAAAA-T
1 AAAAAATT
*
56551508 -GAAAA-T
1 AAAAAATT
56551514 AAAAAATT
1 AAAAAATT
*
56551522 AACAAATT
1 AAAAAATT
*
56551530 AACAAATT
1 AAAAAATT
56551538 A
1 A
56551539 TCTAACTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.12
7 5 0.12
8 23 0.56
9 8 0.20
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:56551528 original size:21 final size:23
Alignment explanation
Indices: 56551486--56551528 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
56551476 GGTATCTAAA
56551486 AAAATTAAATAAATTAAAAAATG
1 AAAATTAAATAAATTAAAAAATG
*
56551509 AAAA-TAAA-AAATTAACAAAT
1 AAAATTAAATAAATTAAAAAAT
56551529 TAACAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 4 0.21
23 4 0.21
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAATTAAATAAATTAAAAAATG
Found at i:56552959 original size:20 final size:19
Alignment explanation
Indices: 56552934--56552982 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
56552924 AGTAGTAATT
56552934 AAATCAATTTGATTAAAATC
1 AAATCAATTT-ATTAAAATC
**
56552954 AAATCAAATTTATTGGAATC
1 AAATC-AATTTATTAAAATC
*
56552974 AAATAAATT
1 AAATCAATT
56552983 AGGATATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 5 0.20
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (19 bp):
AAATCAATTTATTAAAATC
Found at i:56561124 original size:40 final size:40
Alignment explanation
Indices: 56561041--56561225 Score: 155
Period size: 40 Copynumber: 4.7 Consensus size: 40
56561031 TTGAATGCTG
* * * *
56561041 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAAA
*
56561081 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCCTTTGTGCGAGATACTAAA
* * **
56561121 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-TACTAAA
* * * *
56561161 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
* * *
56561200 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCCTTTG
56561226 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 32 0.27
40 73 0.62
41 11 0.09
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
Found at i:56561219 original size:79 final size:81
Alignment explanation
Indices: 56561041--56561223 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
56561031 TTGAATGCTG
* * * *
56561041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCAT
56561105 TGTGCGAGATACTAAA
66 TGTGCGAGATACTAAA
* * * * *
56561121 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* *
56561183 TTGTGTGAGTTACTAAA
65 TTGTGCGAGATACTAAA
*
56561200 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56561224 TGAACGAGGA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 39 0.44
80 39 0.44
81 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCAT
TGTGCGAGATACTAAA
Found at i:56561243 original size:79 final size:80
Alignment explanation
Indices: 56561041--56561258 Score: 192
Period size: 79 Copynumber: 2.8 Consensus size: 80
56561031 TTGAATGCTG
* ** * * * * *
56561041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAG-CTATATCCGGGTTAAG-TCCCGAAGGCCA
56561104 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* ** ** * * *
56561121 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTATATCCGGGTTAAGTCCCGAAGGCCATT
* *
56561185 GTGTGAGTTACTAAA
66 GTGCGAGATACTAAA
* * * *
56561200 TCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTATATCCGGGTTAAGTCCCGAAGG
56561259 TACGTGATTT
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 14 0.12
79 50 0.44
80 39 0.35
81 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTATATCCGGGTTAAGTCCCGAAGGCCATT
GTGCGAGATACTAAA
Found at i:56568989 original size:40 final size:40
Alignment explanation
Indices: 56568906--56569090 Score: 155
Period size: 40 Copynumber: 4.7 Consensus size: 40
56568896 TTGAATGCTG
* * * *
56568906 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAAA
*
56568946 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCCTTTGTGCGAGATACTAAA
* * **
56568986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-TACTAAA
* * * *
56569026 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
* * *
56569065 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCCTTTG
56569091 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 32 0.27
40 73 0.62
41 11 0.09
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
Found at i:56569084 original size:79 final size:81
Alignment explanation
Indices: 56568906--56569088 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
56568896 TTGAATGCTG
* * * *
56568906 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCAT
56568970 TGTGCGAGATACTAAA
66 TGTGCGAGATACTAAA
* * * * *
56568986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* *
56569048 TTGTGTGAGTTACTAAA
65 TTGTGCGAGATACTAAA
*
56569065 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56569089 TGAACGAGGA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 39 0.44
80 39 0.44
81 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCAT
TGTGCGAGATACTAAA
Found at i:56569108 original size:79 final size:80
Alignment explanation
Indices: 56568906--56569123 Score: 192
Period size: 79 Copynumber: 2.8 Consensus size: 80
56568896 TTGAATGCTG
* ** * * * * *
56568906 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAG-CTATATCCGGGTTAAG-TCCCGAAGGCCA
56568969 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* ** ** * * *
56568986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTATATCCGGGTTAAGTCCCGAAGGCCATT
* *
56569050 GTGTGAGTTACTAAA
66 GTGCGAGATACTAAA
* * * *
56569065 TCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTATATCCGGGTTAAGTCCCGAAGG
56569124 TACGTGATTT
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 14 0.12
79 50 0.44
80 39 0.35
81 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTATATCCGGGTTAAGTCCCGAAGGCCATT
GTGCGAGATACTAAA
Found at i:56575454 original size:93 final size:95
Alignment explanation
Indices: 56575288--56575506 Score: 228
Period size: 93 Copynumber: 2.3 Consensus size: 95
56575278 TACGATGCCG
* * * * * *
56575288 ATGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATATCTAAGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACA-GGTCTTACACT-GCACACATATCTAAGCCGATGCCATGTCCCAAACA
* * *
56575353 GGTCTTACACTGGCTCCCATCTATCG-GTGTCA
64 GGTCTTACACTAGCTCCCATATATCGAG-GCCA
* * *
56575385 ATGCCATGTCTCAGACAGGTCTTACACTG-ACACATGTC-AAGCCGATGCCATGTCCCAAATAGG
1 ATGCCATGTCCCAGACAGGTCTTACACTGCACACATATCTAAGCCGATGCCATGTCCCAAACAGG
* ** * *
56575448 TTTTACACTAGCTTGCATATCTCGAGGCCG
66 TCTTACACTAGCTCCCATATATCGAGGCCA
*
56575478 ATGCCATGTCCCAGATAGGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
56575507 GTTTGCATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
93 69 0.68
94 8 0.08
95 1 0.01
96 11 0.11
97 13 0.13
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGCACACATATCTAAGCCGATGCCATGTCCCAAACAGG
TCTTACACTAGCTCCCATATATCGAGGCCA
Found at i:56575482 original size:49 final size:49
Alignment explanation
Indices: 56575284--56575553 Score: 196
Period size: 49 Copynumber: 5.7 Consensus size: 49
56575274 AGGGTACGAT
* * **
56575284 GCCGATGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATATCT--AA
1 GCCGATGCCATGTCCCAAATA-GGTCTTACACTAGCTTGCATATCTCGAA
* * * * ** * * **
56575332 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCCCATCTATCGGT
1 GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCTCGAA
* * * * * * * *
56575381 GTCAATGCCATGTCTCAGACAGGTCTTACACT-G---ACACATGTC-AA
1 GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCTCGAA
* *
56575425 GCCGATGCCATGTCCCAAATAGGTTTTACACTAGCTTGCATATCTCGAG
1 GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCTCGAA
* * *
56575474 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGTTTGCATATCTCGAA
1 GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCTCGAA
* * * *
56575523 GCAGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAAATAGGTCTTACACT
56575554 GGCTCTCGTC
Statistics
Matches: 179, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
44 26 0.15
45 6 0.03
47 20 0.11
48 46 0.26
49 81 0.45
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCTCGAA
Found at i:56575634 original size:46 final size:45
Alignment explanation
Indices: 56575526--56575645 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 45
56575516 TCTCGAAGCA
*
56575526 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCG-ATCAATGCC
* *
56575572 GATGCAAGTCCTAGACATGTCTTACACTGGCTCTC-AT-AATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGATCAA--T-GCC
*
56575618 GGTGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
56575646 AGCATACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 1 0.02
46 61 0.94
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGATCAATGCC
Found at i:56577834 original size:28 final size:28
Alignment explanation
Indices: 56577763--56577836 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
56577753 AGTCCTCACG
*
56577763 GACTTTCCACATTAACATATACATGGCA
1 GACTTTCCACATTAAGATATACATGGCA
*
56577791 GACTTTCCACATTAAGATATTCATGGCA
1 GACTTTCCACATTAAGATATACATGGCA
56577819 GACTTTCCACATTAAGAT
1 GACTTTCCACATTAAGAT
56577837 TGTCCTAACG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (28 bp):
GACTTTCCACATTAAGATATACATGGCA
Found at i:56577861 original size:28 final size:28
Alignment explanation
Indices: 56577823--56577916 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
56577813 ATGGCAGACT
*
56577823 TTCCACA-TTAAGATTGTCCTAACGAAC
1 TTCCACATTTAAGATCGTCCTAACGAAC
* * * * *
56577850 TTCCACATTTAAAATGGTAC-ATACAAAA
1 TTCCACATTTAAGATCGTCCTA-ACGAAC
* * *
56577878 TTCCACATTTATGATCGTCCTAAGGGAC
1 TTCCACATTTAAGATCGTCCTAACGAAC
56577906 TTCCACATTTA
1 TTCCACATTTA
56577917 TGATAATGCC
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.16
28 42 0.82
29 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTAACGAAC
Found at i:56577966 original size:22 final size:22
Alignment explanation
Indices: 56577941--56578012 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
56577931 CCATGGACTT
56577941 TCATTCATCCCATAAAGGGCTC
1 TCATTCATCCCATAAAGGGCTC
* * * *
56577963 TCATACGTTCCACACAAGGGACTC
1 TCATTCATCCCATA-AAGGG-CTC
* * *
56577987 TCAATCATCCCATAAAAGGCTT
1 TCATTCATCCCATAAAGGGCTC
56578009 TCAT
1 TCAT
56578013 ATATGAGTGC
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
22 15 0.42
23 9 0.25
24 12 0.33
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (22 bp):
TCATTCATCCCATAAAGGGCTC
Found at i:56578005 original size:24 final size:24
Alignment explanation
Indices: 56577935--56578005 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
56577925 CCATGGCCAT
* *
56577935 GGACTTTCATTCATCCCAT-AAAG
1 GGACTCTCAATCATCCCATAAAAG
* * * *
56577958 GG-CTCTC-ATACGTTCCACACAAG
1 GGACTCTCAAT-CATCCCATAAAAG
56577981 GGACTCTCAATCATCCCATAAAAG
1 GGACTCTCAATCATCCCATAAAAG
56578005 G
1 G
56578006 CTTTCATATA
Statistics
Matches: 34, Mismatches: 10, Indels: 7
0.67 0.20 0.14
Matches are distributed among these distances:
21 1 0.03
22 9 0.26
23 7 0.21
24 15 0.44
25 2 0.06
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
GGACTCTCAATCATCCCATAAAAG
Found at i:56578159 original size:57 final size:57
Alignment explanation
Indices: 56578070--56578220 Score: 230
Period size: 57 Copynumber: 2.6 Consensus size: 57
56578060 CTTAGTCCAA
56578070 CTGAACCTCCTTCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
1 CTGAACCTCC-TCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
**
56578128 CTGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCTTTGTATGACCAT
1 CTGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
* * * * *
56578185 CCGAACCTCCTCAAATCCATATACATATCATGCATA
1 CTGAACCTCCTCAAAGCCACATAAATATAATGCATA
56578221 CATATGCAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
57 76 0.88
58 10 0.12
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.26
Consensus pattern (57 bp):
CTGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
Found at i:56588148 original size:35 final size:36
Alignment explanation
Indices: 56588099--56588166 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
56588089 AAACAGATAA
56588099 CTTGTAGGCAGATTCTTAATAATGAATCCCTTATTC
1 CTTGTAGGCAGATTCTTAATAATGAATCCCTTATTC
*
56588135 CTTGT-GGCGGATTCTTAATAATGAATCCCTTA
1 CTTGTAGGCAGATTCTTAATAATGAATCCCTTA
56588167 CCGAAATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (36 bp):
CTTGTAGGCAGATTCTTAATAATGAATCCCTTATTC
Found at i:56588666 original size:28 final size:28
Alignment explanation
Indices: 56588597--56588674 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
56588587 CACAAGAGAT
* *
56588597 AGTCTTGATGAACTTTCCACATTAAGAT
1 AGTCTTGACGAACTTTCCACATTAAGAC
* * * *
56588625 AGCCCTGGCAAACTTTCCACATTAAGAC
1 AGTCTTGACGAACTTTCCACATTAAGAC
*
56588653 CGTCTTGACGAAC-TTCCACATT
1 AGTCTTGACGAACTTTCCACATT
56588675 TCAGATCGTC
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
AGTCTTGACGAACTTTCCACATTAAGAC
Found at i:56588759 original size:28 final size:28
Alignment explanation
Indices: 56588694--56588760 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
56588684 CCTAACGTAT
56588694 TTTCATATTTAAGATCATCCTGATAGGC
1 TTTCATATTTAAGATCATCCTGATAGGC
* * * *
56588722 -TTCTAGATTTATGATCGTCCTTAT-GGAC
1 TTTC-ATATTTAAGATCATCCTGATAGG-C
56588750 TTTCATATTTA
1 TTTCATATTTA
56588761 CGATAATGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 5 0.16
28 23 0.74
29 3 0.10
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (28 bp):
TTTCATATTTAAGATCATCCTGATAGGC
Found at i:56592487 original size:50 final size:50
Alignment explanation
Indices: 56592388--56592780 Score: 349
Period size: 50 Copynumber: 7.8 Consensus size: 50
56592378 TGAGAACACA
* * * *** * *
56592388 TGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAGATGGTTTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACG
* * *
56592440 TGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * * * * * *
56592490 TGTGTAATACTAAGTGCATGGCTACTATGCGTACCCGACGACCTCA-ATCACG
1 TGTGTAGTACTAAGTGCA-GGCTACTACGTGTACCAGA-TA-GTTAGGTCACG
* * * * *
56592542 TGTGTAGTACTAAGTGTAGGCTACTACGTCTATCAGATGGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * ** *
56592592 TGTGTAGTACTAACTGTAGGCTACTACGTGTACCAGACAGTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* *
56592642 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* ** * * *
56592692 TGTATAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * *
56592741 TGTATAATACTAAGTGCAGGCTACTATGGGTACCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
56592781 CTTCGGTTAC
Statistics
Matches: 274, Mismatches: 63, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
49 41 0.15
50 149 0.54
51 30 0.11
52 52 0.19
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
Found at i:56592809 original size:150 final size:150
Alignment explanation
Indices: 56592537--56592812 Score: 340
Period size: 150 Copynumber: 1.8 Consensus size: 150
56592527 ACGACCTCAA
* * * *
56592537 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTCTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAGGTCACATGTATAATAC
* * * * * *
56592602 TAACTGTAGGCTACTACGTGTACCAGACAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACT
66 TAACTGCAGGCTACTACGGGTACCAGACAGTTAGGTTACAAGGGTAGTAATAAGTGCAGGCTACT
56592667 ACGTGTATCAGATGGTTAGG
131 ACGTGTATCAGATGGTTAGG
* * * *
56592687 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTA-CTGGATTGTT-GGTCGCATGTATAATA
1 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTCTATC-AGATGGTTAGGTCACATGTATAATA
* * * * * *
56592750 CTAAGTGCAGGCTACTATGGGTACCAGATAGCTTCGGTTACAAGGGTGGTAATATGTGCAGGC
65 CTAACTGCAGGCTACTACGGGTACCAGACAG-TTAGGTTACAAGGGTAGTAATAAGTGCAGGC
56592813 AACCGTGTAT
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
149 40 0.38
150 64 0.62
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (150 bp):
TCACGTGTATAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAGGTCACATGTATAATAC
TAACTGCAGGCTACTACGGGTACCAGACAGTTAGGTTACAAGGGTAGTAATAAGTGCAGGCTACT
ACGTGTATCAGATGGTTAGG
Found at i:56598568 original size:3 final size:3
Alignment explanation
Indices: 56598560--56598591 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
56598550 ATTTCAGCCA
*
56598560 CCG CCG CCG CCG CCG CCG CCG CCG CCG GCG CC
1 CCG CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
56598592 TCCACTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.66, G:0.34, T:0.00
Consensus pattern (3 bp):
CCG
Found at i:56599585 original size:22 final size:22
Alignment explanation
Indices: 56599560--56599602 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
56599550 TGTCATATTA
*
56599560 ATAAATTTCAAAAAAAATTTAT
1 ATAAATTCCAAAAAAAATTTAT
56599582 ATAAATTCCAAAAAAAATTTA
1 ATAAATTCCAAAAAAAATTTA
56599603 AAAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAATTCCAAAAAAAATTTAT
Found at i:56601269 original size:25 final size:24
Alignment explanation
Indices: 56601241--56601317 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
56601231 ACTAAAAATT
*
56601241 ATAAAAAAATAATATATATTTGAAA
1 ATAAAAAAATAA-AAATATTTGAAA
* *
56601266 ATAAATAAAAATAAAAATA-GTAAAA
1 AT-AA-AAAAATAAAAATATTTGAAA
56601291 AT-AAAAAATAAAAAATATTATGAAA
1 ATAAAAAAAT-AAAAATATT-TGAAA
56601316 AT
1 AT
56601318 TGTAATAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
22 6 0.14
23 8 0.19
25 14 0.33
26 6 0.14
27 8 0.19
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (24 bp):
ATAAAAAAATAAAAATATTTGAAA
Found at i:56601284 original size:16 final size:17
Alignment explanation
Indices: 56601263--56601302 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
56601253 TATATATTTG
56601263 AAAATAAATAAAAAT-A
1 AAAATAAATAAAAATAA
*
56601279 AAAAT-AGTAAAAATAA
1 AAAATAAATAAAAATAA
56601295 AAAATAAA
1 AAAATAAA
56601303 AAATATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 8 0.40
16 11 0.55
17 1 0.05
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:56601642 original size:26 final size:26
Alignment explanation
Indices: 56601613--56601676 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
56601603 TTGCAAAGTA
56601613 TTTTTGAATTATTGAA-T-TATTATATT
1 TTTTTGAATTATT-AACTGT-TTATATT
*
56601639 TTTTTGAAATT-TTAACTGTTTTTATT
1 TTTTTG-AATTATTAACTGTTTATATT
56601665 TTTTTGAATTAT
1 TTTTTGAATTAT
56601677 ATATATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 6 0.18
26 22 0.67
27 5 0.15
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.64
Consensus pattern (26 bp):
TTTTTGAATTATTAACTGTTTATATT
Found at i:56605203 original size:5 final size:5
Alignment explanation
Indices: 56605193--56605221 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
56605183 TATAAATTCA
56605193 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
56605222 CAAGTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:56605621 original size:35 final size:33
Alignment explanation
Indices: 56605582--56605646 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
56605572 AGTGTTATTT
* *
56605582 AAATAATTTTTTTAATATATTTTCAATTTATTAGA
1 AAATAATTATTTTAATAT-TTTT-AATGTATTAGA
*
56605617 AAATACTTATTTTAATATTTTTAATGTATT
1 AAATAATTATTTTAATATTTTTAATGTATT
56605647 TGATGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 7 0.26
34 4 0.15
35 16 0.59
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (33 bp):
AAATAATTATTTTAATATTTTTAATGTATTAGA
Found at i:56605663 original size:25 final size:26
Alignment explanation
Indices: 56605631--56605681 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
56605621 ACTTATTTTA
*
56605631 ATATTTTT-AATGTATTTGATGTATT
1 ATATTTTTAAATGTATTTGATATATT
*
56605656 ATATTTTTAAATTTATTTGATATATT
1 ATATTTTTAAATGTATTTGATATATT
56605682 TGTTGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (26 bp):
ATATTTTTAAATGTATTTGATATATT
Found at i:56609280 original size:21 final size:21
Alignment explanation
Indices: 56609254--56609294 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56609244 AGACAAGCGA
* *
56609254 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
56609275 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
56609295 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:56612691 original size:33 final size:32
Alignment explanation
Indices: 56612649--56612712 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
56612639 TTAGTTCTAT
* *
56612649 AACAATTAAG-ATTTATCATTATAAATAGCATTA
1 AACAATTAAGCATTT-TCA-AACAAATAGCATTA
*
56612682 AACACTTAAGCATTTTCAAACAAATAGCATT
1 AACAATTAAGCATTTTCAAACAAATAGCATT
56612713 TGAATAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 11 0.41
33 12 0.44
34 4 0.15
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (32 bp):
AACAATTAAGCATTTTCAAACAAATAGCATTA
Found at i:56616686 original size:79 final size:81
Alignment explanation
Indices: 56616577--56616759 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
56616567 TACTCGTTCA
* *
56616577 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
56616640 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
56616657 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
56616720 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
56616736 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56616760 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:56616759 original size:40 final size:40
Alignment explanation
Indices: 56616556--56616759 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
56616546 CGGAATTTAA
** *
56616556 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56616596 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56616636 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56616675 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56616715 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56616755 CCGGA
1 CCGGA
56616760 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56635726 original size:15 final size:15
Alignment explanation
Indices: 56635694--56635722 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56635684 ATATTCTGTG
56635694 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56635709 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56635723 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56636907 original size:45 final size:45
Alignment explanation
Indices: 56636802--56637020 Score: 236
Period size: 45 Copynumber: 5.0 Consensus size: 45
56636792 AGATTTCAAA
* * *
56636802 ATGTGTTTTCGTGTAAGACCATGTTTGGGTCATTGGCATCG--AT
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
* * *
56636845 ATGTGTTCTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATAT
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
*
56636890 ATGTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGATAT
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
* * *
56636935 ATGTGGTTAT-GTGTAAGACCATGTCTGGGACATCGGCATCG-TAT
1 ATGT-GTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
* * ** * *
56636979 -T-TG-ATTCGTGTAAAACCTTGTCTGGGATAGTGGCATCGATAT
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
56637021 GATATAGCAT
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.01
41 27 0.18
42 4 0.03
43 36 0.24
44 3 0.02
45 75 0.50
46 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (45 bp):
ATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATAT
Found at i:56643697 original size:45 final size:45
Alignment explanation
Indices: 56643646--56643731 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
56643636 ATGTGATCTG
*
56643646 AACTCATTGAGTCGTGGTTTGAGTTCATGATATATGTGACATCCA
1 AACTCATTGAGTCGTGGTCTGAGTTCATGATATATGTGACATCCA
* *
56643691 AACTCATTGAGTTGTGGTCTGAGTTCGTGATATATGTGACA
1 AACTCATTGAGTCGTGGTCTGAGTTCATGATATATGTGACA
56643732 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
AACTCATTGAGTCGTGGTCTGAGTTCATGATATATGTGACATCCA
Found at i:56648913 original size:40 final size:40
Alignment explanation
Indices: 56648768--56648951 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
56648758 TTGAATGATG
* *
56648768 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
56648807 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
56648847 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56648886 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56648927 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56648952 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 52 0.42
40 62 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56648973 original size:79 final size:79
Alignment explanation
Indices: 56648820--56648984 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
56648810 AGACTAAGAT
* ** *
56648820 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
56648885 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
56648899 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
56648961 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
56648978 CCGAAGG
1 CCGAAGG
56648985 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:56656810 original size:39 final size:40
Alignment explanation
Indices: 56656715--56656976 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
56656705 TTGAATGATG
*
56656715 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56656753 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56656794 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
56656833 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56656872 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56656911 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56656950 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56656977 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56661754 original size:43 final size:43
Alignment explanation
Indices: 56661706--56661823 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
56661696 GTTATCTAGA
*
56661706 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** * * *
56661749 TGTGATTATGTATAAGACCGTGTCTAGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
56661792 TATGATTTCAGGTAAGACCCTATCTGGGACAT
1 TGTGATTACATGTAAGACCATGTCTGGGACAT
56661824 CGATATATGA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:56665302 original size:27 final size:26
Alignment explanation
Indices: 56665254--56665313 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
56665244 GCGAGGCTGC
*
56665254 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
56665281 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
56665307 CAGATAT
1 CAGATAT
56665314 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:56665361 original size:71 final size:67
Alignment explanation
Indices: 56665281--56665422 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 67
56665271 TCACCAGATA
* * * *
56665281 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGTAAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAG---T-TATATGTGGCAAAGCCACCAGATTGCAGCGA
56665346 GGCTGC
62 GGCTGC
* * * * *
56665352 CAGATATTGTGACAAAGTCACCAGAACAGTTATATGTGGCGAGGCTACTAGATTGCAGCGAGGCT
1 CAGATATTGTGACAAAGCCACCAGAACAGTTATATGTGGCAAAGCCACCAGATTGCAGCGAGGCT
56665417 GC
66 GC
56665419 CAGA
1 CAGA
56665423 ACGCTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 36 0.58
68 1 0.02
71 25 0.40
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (67 bp):
CAGATATTGTGACAAAGCCACCAGAACAGTTATATGTGGCAAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:56668902 original size:16 final size:17
Alignment explanation
Indices: 56668881--56668913 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56668871 CACATTAAAG
56668881 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
56668897 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
56668914 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:56673827 original size:33 final size:33
Alignment explanation
Indices: 56673785--56673851 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
56673775 ATCCAGAGAA
56673785 AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
1 AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
* *
56673818 AACTTTTCCTTGAGTTTCTATAGGCACATCTCT
1 AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
56673851 A
1 A
56673852 TGCAGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (33 bp):
AACTTTTCCTTGAGTTTCTATAGGAAAATCTCT
Found at i:56676591 original size:27 final size:26
Alignment explanation
Indices: 56676540--56676591 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56676530 GCGAGGTTGC
*
56676540 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
56676566 CAGATATATGTGACGAGGCCAGCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
56676592 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:56676868 original size:19 final size:19
Alignment explanation
Indices: 56676844--56676891 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
56676834 TTTACCAAAG
56676844 TCGGCCCATTGGCCCGTTT
1 TCGGCCCATTGGCCCGTTT
56676863 TCGGCCCATTGGCCCGTTT
1 TCGGCCCATTGGCCCGTTT
*
56676882 TCGGCGCATT
1 TCGGCCCATT
56676892 AAGCCCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.06, C:0.35, G:0.27, T:0.31
Consensus pattern (19 bp):
TCGGCCCATTGGCCCGTTT
Found at i:56680780 original size:42 final size:43
Alignment explanation
Indices: 56680645--56680812 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
56680635 ATAAGCTCGC
* * * * *
56680645 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-TAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
** * * * *
56680686 ATTGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATAAT
1 A-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
* *
56680730 ATAATGCCAATGTCCTAGACATGGTCTTAC-CGTAATCACAAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
* * *
56680772 ACAATGCCAATGTCCCAAACATGTTCTTACATGTAATCACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
56680813 TCTCGATAAC
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 41 0.40
43 57 0.56
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
Found at i:56684281 original size:39 final size:40
Alignment explanation
Indices: 56684191--56684288 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 40
56684181 TTTATTGTAC
* *
56684191 ACGTGCCCTTGTTTGTACTTCGGTACCCCTAAATGCACAT
1 ACGTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACAT
* *
56684231 ACGTGCTCCTGTTTGTACTTCGATA-CCCTGAATGCACAT
1 ACGTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACAT
* *
56684270 TCGTGCCCCTGTTTATACT
1 ACGTGCCCCTGTTTGTACT
56684289 CTGTTAACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 29 0.57
40 22 0.43
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (40 bp):
ACGTGCCCCTGTTTGTACTTCGATACCCCTAAATGCACAT
Found at i:56687907 original size:20 final size:20
Alignment explanation
Indices: 56687882--56687920 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56687872 TAGAACATAC
56687882 TTATTTCCTATTTTT-TTATA
1 TTATTT-CTATTTTTATTATA
*
56687902 TTATTTGTATTTTTATTAT
1 TTATTTCTATTTTTATTAT
56687921 TTACCCGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTCTATTTTTATTATA
Found at i:56692123 original size:27 final size:27
Alignment explanation
Indices: 56692093--56692226 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 27
56692083 CCTTAATCGA
* *
56692093 TAAAATGTCTGTTTTGCGCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
56692120 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
56692147 TAAAATGAATGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * *
56692174 TAAAATAACTATTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * *
56692201 TAAGATGATTGTATTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
56692227 ATGTATGTTT
Statistics
Matches: 85, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:56692151 original size:54 final size:54
Alignment explanation
Indices: 56692093--56692228 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 54
56692083 CCTTAATCGA
** * * *
56692093 TAAAATGTCTGTTTTGCGCTTATGTGGTAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTGCCCTTATATGG
*
56692147 TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTTCCCTTATATGG
1 TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTGCCCTTATATGG
* * * *
56692201 TAAGATGATTGTATTGCCCCTATGTGAT
1 TAAAATGAATGTTTTGCCCTTATGTGAT
56692229 GTATGTTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (54 bp):
TAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTATTTTGCCCTTATATGG
Found at i:56694270 original size:78 final size:78
Alignment explanation
Indices: 56694141--56694297 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
56694131 AAAAATAAAT
56694141 ACTTAGATTTTGGGGCATTACAAACCTGACTTGTAACCATTTGAAAGCTACAAGGGACACACAGC
1 ACTTAGATTTTGGGGCATTACAAACCTGACTTGTAACCATTTGAAAGCTACAAGGGACACACAGC
56694206 CGTGTCGCCTGGC
66 CGTGTCGCCTGGC
56694219 ACTTAGATTTTGGGGCATTACAAACCTGACTTGTAACCATTTGAAAGCTACAAGGGACACACAGC
1 ACTTAGATTTTGGGGCATTACAAACCTGACTTGTAACCATTTGAAAGCTACAAGGGACACACAGC
56694284 CGTGTCGCCTGGC
66 CGTGTCGCCTGGC
56694297 A
1 A
56694298 GTGTGTCACA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (78 bp):
ACTTAGATTTTGGGGCATTACAAACCTGACTTGTAACCATTTGAAAGCTACAAGGGACACACAGC
CGTGTCGCCTGGC
Found at i:56701356 original size:21 final size:21
Alignment explanation
Indices: 56701317--56701356 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56701307 TTCTAAGGAC
*
56701317 TTTTAATTAAGTTTTATTTCA
1 TTTTAATTAAGTTTCATTTCA
56701338 TTTTAA-TAAGTTTGCATTT
1 TTTTAATTAAGTTT-CATTT
56701357 TAATTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTAATTAAGTTTCATTTCA
Found at i:56703037 original size:34 final size:34
Alignment explanation
Indices: 56703007--56703074 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
56702997 TAAGCCCTTA
* * *
56703007 ACAGTAGCATTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTATCAGTATGGGCCTTAGCCCAAT
*
56703041 ACAGTAACAGTATCAGTATGAGCCTTAGCCCAAT
1 ACAGTAACAGTATCAGTATGGGCCTTAGCCCAAT
56703075 TTAGTATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (34 bp):
ACAGTAACAGTATCAGTATGGGCCTTAGCCCAAT
Found at i:56705892 original size:39 final size:39
Alignment explanation
Indices: 56705849--56705923 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
56705839 ATAAAGATTA
* * *
56705849 ATGTGCATGAATGTAGAAGTGGATTGTAAAGTTTGTTAG
1 ATGTGCATGAATGCAGAAGTAGATTATAAAGTTTGTTAG
* *
56705888 ATGTGGATGATTGCAGAAGTAGATTATAAAGTTTGT
1 ATGTGCATGAATGCAGAAGTAGATTATAAAGTTTGT
56705924 CAAAGTCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (39 bp):
ATGTGCATGAATGCAGAAGTAGATTATAAAGTTTGTTAG
Found at i:56708834 original size:96 final size:96
Alignment explanation
Indices: 56708660--56708835 Score: 271
Period size: 96 Copynumber: 1.8 Consensus size: 96
56708650 TCTCTTGTTA
* *
56708660 GATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATTGCACAAAA
1 GATATTTAATTCGACATTGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACAAAA
* * *
56708725 GGTGATAGCTCAATCTTATTCTCTCTATTTG
66 GGTAAGAGATCAATCTTATTCTCTCTATTTG
* * * *
56708756 GATATTTTATTCGACATTGGAAATCCTCATGATCTTTTGAACTACACCAATAACATTTCACAACA
1 GATATTTAATTCGACATTGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACAAAA
56708821 GGTAAGAGATCAATC
66 GGTAAGAGATCAATC
56708836 GTACTCCTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (96 bp):
GATATTTAATTCGACATTGGAAACCCTCATGATCTTTTGAACTACACCAATAACATTGCACAAAA
GGTAAGAGATCAATCTTATTCTCTCTATTTG
Found at i:56711196 original size:46 final size:46
Alignment explanation
Indices: 56711098--56711254 Score: 145
Period size: 47 Copynumber: 3.4 Consensus size: 46
56711088 ATTGTCTAAG
* * * * * * *
56711098 CTTATGACACATTAAGTGGTTGTATTAACTAGAACATATTTAATAAA
1 CTTAAGACATATTAAATGGTTGAACTAATTAGAACATA-TTAATTAA
* *
56711145 CTTAAGACATGTTAAATGGTTGAACTAATTAGAACACATTAATTAA
1 CTTAAGACATATTAAATGGTTGAACTAATTAGAACATATTAATTAA
*** *
56711191 CTTAAGACATATT-AATTACTGAATCTAATTAGAACATATTAAATAGA
1 CTTAAGACATATTAAATGGTTGAA-CTAATTAGAACATATTAATTA-A
* *
56711238 CTCAAGACACATTAAAT
1 CTTAAGACATATTAAAT
56711255 ACTTAAACTA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 7 0.08
46 38 0.42
47 42 0.47
48 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (46 bp):
CTTAAGACATATTAAATGGTTGAACTAATTAGAACATATTAATTAA
Found at i:56715526 original size:28 final size:27
Alignment explanation
Indices: 56715425--56715529 Score: 97
Period size: 28 Copynumber: 3.8 Consensus size: 27
56715415 TAAATGTGAT
* *
56715425 TTGGGCCTAGT-AGCCATATAAATGTGA
1 TTGGGCCTAGTGGGCCATATAAA-GAGA
* * *
56715452 TTTGGGCCTAATGGGCCACATAAATATGA
1 -TTGGGCCTAGTGGGCCATATAAAGA-GA
*
56715481 ATGGGCCT-GATGGGCCATATGAAAGAGA
1 TTGGGCCTAG-TGGGCCATAT-AAAGAGA
56715509 TTGGGCCTAGTGGGCCATATA
1 TTGGGCCTAGTGGGCCATATA
56715530 TATGTGGATT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.02
28 45 0.73
29 16 0.26
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (27 bp):
TTGGGCCTAGTGGGCCATATAAAGAGA
Found at i:56721455 original size:16 final size:16
Alignment explanation
Indices: 56721434--56721465 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56721424 GTTGTAATGC
56721434 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
56721450 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
56721466 TCTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:56722982 original size:28 final size:28
Alignment explanation
Indices: 56722942--56723053 Score: 111
Period size: 28 Copynumber: 4.0 Consensus size: 28
56722932 CATGACTGTA
56722942 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* * **
56722970 AATGTGATTTGGGCCTAATGGGCCACACA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* *
56722999 AATGTGAATGGGCCT-GATGAGCCATATG
1 AATGTGATTGGGCCTAG-TGGGCCATATG
* *
56723027 AAAGAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAGTGGGCCATAT
56723054 ATAGGTATGT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
28 53 0.79
29 14 0.21
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:56723048 original size:56 final size:57
Alignment explanation
Indices: 56722941--56723050 Score: 145
Period size: 56 Copynumber: 1.9 Consensus size: 57
56722931 GCATGACTGT
* * *
56722941 AAATGTGATTTGGGCCTAGTGGCCATATGAATGTGATTTGGGCCTAATGGGCCACAC
1 AAATGTGATATGGGCCTAGTGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACAC
*
56722998 AAATGTGA-ATGGGCCT-GATGAGCCATATGAAAGAGA-TTGGGCCTAGTGGGCCA
1 AAATGTGATATGGGCCTAG-TG-GCCATATGAAAGAGATTTGGGCCTAATGGGCCA
56723051 TATATAGGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.02
56 25 0.53
57 21 0.45
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (57 bp):
AAATGTGATATGGGCCTAGTGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACAC
Found at i:56728133 original size:52 final size:52
Alignment explanation
Indices: 56728066--56728181 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
56728056 GATATGACAT
*
56728066 TGTGCTAAGTGAAATATGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
56728118 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
56728170 TGTGCTAAGTGA
1 TGTGCTAAGTGA
56728182 GAAATTTCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:56728134 original size:28 final size:27
Alignment explanation
Indices: 56728066--56728181 Score: 154
Period size: 24 Copynumber: 4.4 Consensus size: 27
56728056 GATATGACAT
* *
56728066 TGTGCTAAGTGAAATATGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
56728093 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
56728118 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
56728145 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
56728169 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
56728182 GAAATTTCCC
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
24 43 0.54
25 3 0.04
27 3 0.04
28 30 0.38
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Done.