Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 253 of 284
Found at i:85132422 original size:30 final size:30
Alignment explanation
Indices: 85132379--85132453 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
85132369 ACCTATAGGG
** * *
85132379 GACACAAGGCCGTGTGTCACACATGGTTGA
1 GACACAACCCCGTGTGTCACACACGGCTGA
* *
85132409 GACACACCCCCGTGTGTCAGACACGGCTGA
1 GACACAACCCCGTGTGTCACACACGGCTGA
*
85132439 GACACAAGCCCGTGT
1 GACACAACCCCGTGT
85132454 CTTAGGCCGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.31, G:0.28, T:0.16
Consensus pattern (30 bp):
GACACAACCCCGTGTGTCACACACGGCTGA
Found at i:85138632 original size:13 final size:13
Alignment explanation
Indices: 85138614--85138639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85138604 ATGATTTTCT
85138614 TGCTAATCTCCTA
1 TGCTAATCTCCTA
85138627 TGCTAATCTCCTA
1 TGCTAATCTCCTA
85138640 CCTGAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
TGCTAATCTCCTA
Found at i:85142376 original size:17 final size:17
Alignment explanation
Indices: 85142356--85142394 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
85142346 ATTATTATAA
* *
85142356 TTATTTTTTTATATCTT
1 TTATTTGTTTATATATT
*
85142373 TTATTTGTTTATTTATT
1 TTATTTGTTTATATATT
85142390 TTATT
1 TTATT
85142395 GATTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (17 bp):
TTATTTGTTTATATATT
Found at i:85142392 original size:9 final size:8
Alignment explanation
Indices: 85142356--85142407 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
85142346 ATTATTATAA
85142356 TTATTTTT
1 TTATTTTT
*
85142364 TTATATCTT
1 TTAT-TTTT
*
85142373 TTATTTGT
1 TTATTTTT
85142381 TTATTTATT
1 TTATTT-TT
*
85142390 TTATTGATT
1 TTATT-TTT
85142399 TTATTTTT
1 TTATTTTT
85142407 T
1 T
85142408 CCTCTTTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 15 0.43
9 20 0.57
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (8 bp):
TTATTTTT
Found at i:85144390 original size:48 final size:48
Alignment explanation
Indices: 85144277--85144510 Score: 249
Period size: 48 Copynumber: 4.9 Consensus size: 48
85144267 ATGAGATCCC
* * * * * * *
85144277 GTGTAGGACCATGTCTAGG-ACATGGCATAGGCATCCGAGATGAGAGCTA
1 GTGTAAGACCATGTCT-GGAACATGGCATCGGCAT-TGATATGTGTGCCA
* **
85144326 GTGTAAGACCATGTCTGGAACATGGCATCGGCGTTGATATGTGTGGTA
1 GTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGTGTGCCA
* * *
85144374 GTGTAAGACCATGTCTGCG-ACATAGCATAGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTG-GAACATGGCATCGGCATTGATATGTGTGCCA
* * *
85144422 GTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGTTCCA
1 GTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGTGTGCCA
* *
85144470 ATGTAAGACCATGTCT-GAGACATGGCATCGGCACTGATATG
1 GTGTAAGACCATGTCTGGA-ACATGGCATCGGCATTGATATG
85144511 AGACTTCGTA
Statistics
Matches: 161, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
47 2 0.01
48 130 0.81
49 29 0.18
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGTGTGCCA
Found at i:85144508 original size:96 final size:96
Alignment explanation
Indices: 85144278--85144513 Score: 285
Period size: 96 Copynumber: 2.4 Consensus size: 96
85144268 TGAGATCCCG
* * * *
85144278 TGTAGGACCATGTCT-AGGACATGGCATAGGCATCCGAGATGAGAGCTAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGA-GACATGGCATAGGCA-CTGATATGAGAGCCAGTGTAAGACCATGTCT
* ** *
85144342 GGAACATGGCATCGGCGTTGATATGTGTGGTAG
64 GGAACATGGCATCGGCATTGATATGTGTGCCAA
* * ** * *
85144375 TGTAAGACCATGTCTGCGACATAGCATAGGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGAGACATGGCATAGGCACTGATATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
85144440 GACATGGCATTGGCATTGATATGTGTTCCAA
66 AACATGGCATCGGCATTGATATGTGTGCCAA
*
85144471 TGTAAGACCATGTCTGAGACATGGCATCGGCACTGATATGAGA
1 TGTAAGACCATGTCTGAGACATGGCATAGGCACTGATATGAGA
85144514 CTTCGTATAA
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
96 87 0.76
97 27 0.24
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATGTCTGAGACATGGCATAGGCACTGATATGAGAGCCAGTGTAAGACCATGTCTGG
AACATGGCATCGGCATTGATATGTGTGCCAA
Found at i:85144529 original size:96 final size:96
Alignment explanation
Indices: 85144278--85144546 Score: 258
Period size: 96 Copynumber: 2.8 Consensus size: 96
85144268 TGAGATCCCG
* * * *
85144278 TGTAGGACCATGTCT-AGGACATGGCATAGGCATCCGAGATGAGAGC-TAGTGTAAGACCATGTC
1 TGTAAGACCATGTCTGA-GACATGGCATAGGCA-CTGATATGAGA-CTTCGTGTAAGACCATGTC
* * ** *
85144341 TGGAACATGGCATCGGCGTTGATATGTGTGGTAG
63 TGGGACATGGCATCGGCATTGATATGTGTGCCAA
* * ** * *
85144375 TGTAAGACCATGTCTGCGACATAGCATAGGCGTTGATATGTG--TGCCAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGAGACATGGCATAGGCACTGATATGAGACT-TC-GTGTAAGACCATGTCT
* *
85144438 GGGACATGGCATTGGCATTGATATGTGTTCCAA
64 GGGACATGGCATCGGCATTGATATGTGTGCCAA
* * * *
85144471 TGTAAGACCATGTCTGAGACATGGCATCGGCACTGATATGAGACTTCGTATAAAACCATATCTGG
1 TGTAAGACCATGTCTGAGACATGGCATAGGCACTGATATGAGACTTCGTGTAAGACCATGTCTGG
* *
85144536 GATACGGCATC
66 GACATGGCATC
85144547 AACATGTGGA
Statistics
Matches: 136, Mismatches: 30, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
96 107 0.79
97 28 0.21
98 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATGTCTGAGACATGGCATAGGCACTGATATGAGACTTCGTGTAAGACCATGTCTGG
GACATGGCATCGGCATTGATATGTGTGCCAA
Found at i:85151083 original size:48 final size:48
Alignment explanation
Indices: 85150900--85151085 Score: 203
Period size: 48 Copynumber: 3.9 Consensus size: 48
85150890 ATGAGATCCC
* * * * * * * *
85150900 GTGTAAGACCATGTCAGGGACATGACATTGACATCAGAGATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA-CTGATATGTGTGCTA
* * *** * *
85150949 GTGTAAGACCATGTCTGGAACATGGCATCAGTGTTAATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGTGTGCTA
*
85150997 GTGTAAGACCATGTCTGGGACATGGCATTGGCGA-TGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTGATATGTGTGCTA
85151045 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATG
85151086 AGACTTCGTA
Statistics
Matches: 112, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 86 0.77
49 25 0.22
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGTGTGCTA
Found at i:85151085 original size:96 final size:96
Alignment explanation
Indices: 85150900--85151085 Score: 239
Period size: 96 Copynumber: 1.9 Consensus size: 96
85150890 ATGAGATCCC
85150900 GTGTAAGACCATGTCAGGGACATGACATTGACATCAGAGATGAGAGCTAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCAGGGACATGACATTGACAT-AGAGATGAGAGCTAGTGTAAGACCATGTCT
***
85150965 GGAACATGGCATCAGTGTTAATATGTGTGCCA
65 GGAACATGGCATCAGCACTAATATGTGTGCCA
* * * * * *
85150997 GTGTAAGACCATGTCTGGGACATGGCATTGGCGAT-GATATGTGTGCTAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCAGGGACATGACATTGAC-ATAGAGATGAGAGCTAGTGTAAGACCATGTCT
* * *
85151061 GGGACATGGCATCGGCACTGATATG
65 GGAACATGGCATCAGCACTAATATG
85151086 AGACTTCGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
96 45 0.59
97 29 0.38
98 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (96 bp):
GTGTAAGACCATGTCAGGGACATGACATTGACATAGAGATGAGAGCTAGTGTAAGACCATGTCTG
GAACATGGCATCAGCACTAATATGTGTGCCA
Found at i:85151100 original size:48 final size:48
Alignment explanation
Indices: 85150903--85151118 Score: 152
Period size: 48 Copynumber: 4.5 Consensus size: 48
85150893 AGATCCCGTG
* * * * * *
85150903 TAAGACCATGTCAGGGACATGACATTGAC-ATCAGAGATGAG-AGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGAT--GATATGAGTA-CTAGTA
* * * * * * * * *
85150952 TAAGACCATGTCTGGAACATGGCATCAGTGTTAATATGTGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGTACTAGTA
* * * *
85151000 TAAGACCATGTCTGGGACATGGCATTGGCGATGATATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGTACTAGTA
*
85151048 TAAGACCATGTCTGGGACATGGCATCGGC-ACTGATATGAG-ACTTCGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGA-TGATATGAGTAC-TAGTA
* * *
85151096 TAAGACCATATCTAGGATATGGC
1 TAAGACCATGTCTGGGACATGGC
85151119 GTCGACATGT
Statistics
Matches: 135, Mismatches: 28, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
47 2 0.01
48 110 0.81
49 22 0.16
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGTACTAGTA
Found at i:85155952 original size:53 final size:53
Alignment explanation
Indices: 85155892--85156099 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 53
85155882 TTTCCTTTTT
* * *
85155892 AAACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAG
1 AAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAG
* * * *
85155945 GAACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC-T-TAG
* ** * * * * *
85156000 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT-G
1 AAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAG
* * * *
85156052 TAAAACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 --AAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
85156100 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.35
54 38 0.31
55 41 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
AAACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAG
Found at i:85157765 original size:19 final size:21
Alignment explanation
Indices: 85157741--85157781 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
85157731 AGGACAAAGG
85157741 AAATGG-GAAA-AAATGAAGA
1 AAATGGAGAAAGAAATGAAGA
85157760 AAATGGAAGAAAGAAATGAAGA
1 AAATGG-AGAAAGAAATGAAGA
85157782 GATGTGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (21 bp):
AAATGGAGAAAGAAATGAAGA
Found at i:85160405 original size:3 final size:3
Alignment explanation
Indices: 85160397--85160422 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85160387 CACTGTAGGA
85160397 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
85160423 GGGATCCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:85162087 original size:15 final size:16
Alignment explanation
Indices: 85162060--85162089 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85162050 AATAACAATT
85162060 AATATATATTATATAA
1 AATATATATTATATAA
85162076 AATATA-ATTATATA
1 AATATATATTATATA
85162090 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:85164823 original size:28 final size:28
Alignment explanation
Indices: 85164789--85164844 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
85164779 TTGCTGTAAA
*
85164789 AATTTGCACTTTGATGCATATCGTTATT
1 AATTTGCACTTCGATGCATATCGTTATT
* *
85164817 AATTTGCACTTCGGTGCTTATCGTTATT
1 AATTTGCACTTCGATGCATATCGTTATT
85164845 TGCACTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (28 bp):
AATTTGCACTTCGATGCATATCGTTATT
Found at i:85166804 original size:7 final size:7
Alignment explanation
Indices: 85166794--85166845 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
85166784 AAGAGAGAAT
85166794 GATGAGG
1 GATGAGG
85166801 GATGAGG
1 GATGAGG
85166808 GATGAGG
1 GATGAGG
85166815 GATGAGG
1 GATGAGG
**
85166822 GATGATT
1 GATGAGG
**
85166829 GATGATT
1 GATGAGG
85166836 GATGAGG
1 GATGAGG
85166843 GAT
1 GAT
85166846 CAAATGAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (7 bp):
GATGAGG
Found at i:85170971 original size:33 final size:33
Alignment explanation
Indices: 85170929--85170995 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
85170919 AATGAAATGT
*
85170929 GTAAAAGCGAATGACTAGAAGTAACGATTTTGG
1 GTAAAAGCGAATGACTAAAAGTAACGATTTTGG
85170962 GTAAAAGCGAATGACTAAAAGTAACGATTTTGG
1 GTAAAAGCGAATGACTAAAAGTAACGATTTTGG
85170995 G
1 G
85170996 GTTAACAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (33 bp):
GTAAAAGCGAATGACTAAAAGTAACGATTTTGG
Found at i:85173506 original size:28 final size:28
Alignment explanation
Indices: 85173443--85173708 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
85173433 ATATTAAGTC
*
85173443 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
85173470 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
85173498 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
85173526 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
85173554 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
85173582 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
85173610 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
85173638 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
85173666 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
85173695 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85173709 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:85174176 original size:14 final size:14
Alignment explanation
Indices: 85174157--85174186 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85174147 TGGGCATACT
*
85174157 TATGTATATGTATA
1 TATGTATATATATA
85174171 TATGTATATATATA
1 TATGTATATATATA
85174185 TA
1 TA
85174187 CTTCGGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:85202990 original size:28 final size:28
Alignment explanation
Indices: 85202950--85203028 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
85202940 GCAATCAAAT
* * *
85202950 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
85202978 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
85203006 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
85203029 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:85203241 original size:43 final size:43
Alignment explanation
Indices: 85203140--85203268 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
85203130 TTTATAATGG
* * *
85203140 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTG-A-AA
* *
85203185 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAA
* *
85203228 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCTGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTGAA
85203269 TGAGTTCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 11 0.15
43 26 0.36
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAA
Found at i:85206551 original size:27 final size:29
Alignment explanation
Indices: 85206492--85206551 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
85206482 TAAAAATAAT
* *
85206492 TAAAATTAAATATATTAATAATTTAAGTG
1 TAAAATTAAATATATTAATAATTAAAGTA
* *
85206521 TAAAA-TAAATAT-TTTATAATTAAATTA
1 TAAAATTAAATATATTAATAATTAAAGTA
85206548 TAAA
1 TAAA
85206552 TTTCGACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 15 0.56
28 7 0.26
29 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
TAAAATTAAATATATTAATAATTAAAGTA
Found at i:85215984 original size:27 final size:29
Alignment explanation
Indices: 85215911--85215969 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
85215901 GTTGTTGTAC
85215911 ATACTTGTACCATCTCGTAACATATTTAT
1 ATACTTGTACCATCTCGTAACATATTTAT
85215940 ATACTTGTACCATCTCGTAACATATTTAT
1 ATACTTGTACCATCTCGTAACATATTTAT
85215969 A
1 A
85215970 CCTTTTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (29 bp):
ATACTTGTACCATCTCGTAACATATTTAT
Found at i:85218362 original size:57 final size:57
Alignment explanation
Indices: 85218278--85218412 Score: 182
Period size: 57 Copynumber: 2.4 Consensus size: 57
85218268 CACTATCAAT
* * *
85218278 CATATAAACAGTAATTCATTCGATAACAGTAACTTATTTGTCTAAACAGTACTGT-ATC
1 CATAT-AACAGTAATTCATTCGATAACAGTAACTCATTCGTATAAACAGTA-TGTCATC
* ** *
85218336 CATATAATAGTAATTCATTCTTTAACAGTAACTCATTCGTATAAACAGTATTTCATC
1 CATATAACAGTAATTCATTCGATAACAGTAACTCATTCGTATAAACAGTATGTCATC
85218393 CATATAACAGTAATTCATTC
1 CATATAACAGTAATTCATTC
85218413 ATATAACACA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 2 0.03
57 61 0.90
58 5 0.07
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (57 bp):
CATATAACAGTAATTCATTCGATAACAGTAACTCATTCGTATAAACAGTATGTCATC
Found at i:85218403 original size:19 final size:19
Alignment explanation
Indices: 85218277--85218420 Score: 107
Period size: 19 Copynumber: 7.5 Consensus size: 19
85218267 TCACTATCAA
85218277 TCATATAAACAGTAATTCAT
1 TCATAT-AACAGTAATTCAT
*
85218297 TC-GATAACAGTAACTT-AT
1 TCATATAACAGTAA-TTCAT
** * *
85218315 TTGTCTAAACAGTACTGT-AT
1 TCATAT-AACAGTAAT-TCAT
* *
85218335 CCATATAATAGTAATTCAT
1 TCATATAACAGTAATTCAT
* *
85218354 TC-TTTAACAGTAACTCAT
1 TCATATAACAGTAATTCAT
* *
85218372 TCGTATAAACAGTATTTCAT
1 TCATAT-AACAGTAATTCAT
*
85218392 CCATATAACAGTAATTCAT
1 TCATATAACAGTAATTCAT
85218411 TCATATAACA
1 TCATATAACA
85218421 CATAGCTTCT
Statistics
Matches: 95, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
18 27 0.28
19 39 0.41
20 29 0.31
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCATATAACAGTAATTCAT
Found at i:85218624 original size:23 final size:24
Alignment explanation
Indices: 85218542--85218625 Score: 102
Period size: 23 Copynumber: 3.6 Consensus size: 24
85218532 AAGCTAATGG
*
85218542 ACAGTAAGCTC-TATTGAGCT-AAA
1 ACAGTAAGCTCTTA-CGAGCTGAAA
* *
85218565 ACGGTAAGCTCTGACGAGCTGAAA
1 ACAGTAAGCTCTTACGAGCTGAAA
*
85218589 ACAGTAAGCTCTTACGTGCTG-AA
1 ACAGTAAGCTCTTACGAGCTGAAA
85218612 ACAGTAAGCTCTTA
1 ACAGTAAGCTCTTA
85218626 TGAGTTGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 31 0.58
24 22 0.42
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (24 bp):
ACAGTAAGCTCTTACGAGCTGAAA
Found at i:85221915 original size:10 final size:10
Alignment explanation
Indices: 85221900--85221924 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
85221890 CATGGGCCGA
85221900 GGCCATTTTG
1 GGCCATTTTG
85221910 GGCCATTTTG
1 GGCCATTTTG
85221920 GGCCA
1 GGCCA
85221925 AACTGAGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (10 bp):
GGCCATTTTG
Found at i:85230858 original size:22 final size:20
Alignment explanation
Indices: 85230812--85230885 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
85230802 ATTTTTCAAT
85230812 AAAATTCATTAAAA-T-AT-A
1 AAAATT-ATTAAAATTAATAA
85230830 AAAATTATTTAAAATTAATAA
1 AAAATTA-TTAAAATTAATAA
*
85230851 AAATATTA-TAAAATTTATAA
1 AAA-ATTATTAAAATTAATAA
*
85230871 AAAAATATTAAAATT
1 AAAATTATTAAAATT
85230886 TTATGTATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.02
18 12 0.25
19 4 0.08
20 23 0.48
21 4 0.08
22 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTATTAAAATTAATAA
Found at i:85230868 original size:9 final size:9
Alignment explanation
Indices: 85230810--85230932 Score: 50
Period size: 10 Copynumber: 12.7 Consensus size: 9
85230800 TCATTTTTCA
*
85230810 ATAAAATTC
1 ATAAAATTT
*
85230819 ATTAAAATAT
1 A-TAAAATTT
85230829 A-AAAATTAT
1 ATAAAATT-T
* *
85230838 TTAAAATTA
1 ATAAAATTT
85230847 ATAAAAATATT
1 AT-AAAAT-TT
85230858 ATAAAATTT
1 ATAAAATTT
**
85230867 ATAAAAAAAT
1 AT-AAAATTT
85230877 ATTAAAATTTT
1 A-TAAAA-TTT
* * *
85230888 ATGTATACTT
1 AT-AAAATTT
*
85230898 ATAAAAATT
1 ATAAAATTT
*
85230907 ATAAAACTT
1 ATAAAATTT
85230916 ATAGAAATTT
1 ATA-AAATTT
85230926 CATAAAA
1 -ATAAAA
85230933 ACTGATAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
8 5 0.06
9 22 0.26
10 46 0.55
11 11 0.13
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAAATTT
Found at i:85230874 original size:11 final size:10
Alignment explanation
Indices: 85230826--85230944 Score: 57
Period size: 10 Copynumber: 11.9 Consensus size: 10
85230816 TTCATTAAAA
85230826 TATAAAAA-T
1 TATAAAAATT
*
85230835 TATTTAAAATT
1 TA-TAAAAATT
*
85230846 AATAAAAATAT
1 TATAAAAAT-T
85230857 TAT-AAAATT
1 TATAAAAATT
**
85230866 TATAAAAAAA
1 TATAAAAATT
*
85230876 TATTAAAATTT
1 TA-TAAAAATT
** * *
85230887 TATGTATACT
1 TATAAAAATT
85230897 TATAAAAA-T
1 TATAAAAATT
*
85230906 TAT-AAAACT
1 TATAAAAATT
*
85230915 TATAGAAATT
1 TATAAAAATT
*
85230925 TCATAAAAACT
1 T-ATAAAAATT
*
85230936 GATAAAAAT
1 TATAAAAAT
85230945 AATTTTAAAA
Statistics
Matches: 79, Mismatches: 23, Indels: 15
0.68 0.20 0.13
Matches are distributed among these distances:
8 4 0.05
9 14 0.18
10 42 0.53
11 19 0.24
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (10 bp):
TATAAAAATT
Found at i:85230917 original size:18 final size:20
Alignment explanation
Indices: 85230894--85230944 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
85230884 TTTTATGTAT
85230894 ACTTATAAAAATT-AT-AAA
1 ACTTATAAAAATTCATAAAA
*
85230912 ACTTATAGAAATTTCATAAAA
1 ACTTATA-AAAATTCATAAAA
*
85230933 ACTGATAAAAAT
1 ACTTATAAAAAT
85230945 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 5 0.19
20 6 0.22
21 9 0.33
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (20 bp):
ACTTATAAAAATTCATAAAA
Found at i:85230999 original size:10 final size:10
Alignment explanation
Indices: 85230894--85231000 Score: 55
Period size: 9 Copynumber: 10.9 Consensus size: 10
85230884 TTTTATGTAT
85230894 ACTTATAAAA
1 ACTTATAAAA
85230904 A-TTAT-AAA
1 ACTTATAAAA
*
85230912 ACTTATAGAA
1 ACTTATAAAA
*
85230922 ATTTCATAAAA
1 ACTT-ATAAAA
*
85230933 ACTGATAAAAA
1 ACTTAT-AAAA
* *
85230944 TAATTTTAAAA
1 -ACTTATAAAA
* * *
85230955 AATCA-AAAT
1 ACTTATAAAA
85230964 ACTT-TAAAA
1 ACTTATAAAA
85230973 A-TTATATAAA
1 ACTTATA-AAA
*
85230983 AC-CATAAAA
1 ACTTATAAAA
85230992 ACTTATAAA
1 ACTTATAAA
85231001 TGGTATAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
8 6 0.08
9 24 0.34
10 23 0.32
11 15 0.21
12 3 0.04
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (10 bp):
ACTTATAAAA
Found at i:85231282 original size:21 final size:21
Alignment explanation
Indices: 85231256--85231308 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
85231246 AACGGTGGCG
* *
85231256 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTATAGCA
* *
85231277 GTGAGATTGGATACTATAGCG
1 GTGAGATTAGATACTATAGCA
85231298 GTGAGATTAGA
1 GTGAGATTAGA
85231309 AACAACAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTATAGCA
Found at i:85233297 original size:15 final size:15
Alignment explanation
Indices: 85233277--85233309 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
85233267 AAAAGCATAG
85233277 CATAAAAATACCAAA
1 CATAAAAATACCAAA
*
85233292 CATAAAAATACCATA
1 CATAAAAATACCAAA
85233307 CAT
1 CAT
85233310 TAGTTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (15 bp):
CATAAAAATACCAAA
Found at i:85236232 original size:10 final size:10
Alignment explanation
Indices: 85236217--85236304 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
85236207 CCAATAAATG
85236217 AATTTTTTAT
1 AATTTTTTAT
*
85236227 AA-TTTTTGT
1 AATTTTTTAT
*
85236236 AATTATTTAT
1 AATTTTTTAT
*
85236246 -TTTTAATTTAT
1 AATTT--TTTAT
*
85236257 TATTTTTTAT
1 AATTTTTTAT
* *
85236267 AAGTGTTTAT
1 AATTTTTTAT
85236277 -A-TTTTTAT
1 AATTTTTTAT
*
85236285 GATTTTTTAT
1 AATTTTTTAT
85236295 -A-TTTTTAT
1 AATTTTTTAT
85236303 AA
1 AA
85236305 GTTTATACTA
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
8 13 0.21
9 14 0.23
10 26 0.43
11 5 0.08
12 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:85236238 original size:9 final size:9
Alignment explanation
Indices: 85236220--85236304 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
85236210 ATAAATGAAT
85236220 TTTTTATAA
1 TTTTTATAA
*
85236229 TTTTTGTAA
1 TTTTTATAA
*
85236238 TTATT-T-A
1 TTTTTATAA
85236245 -TTTT-TAA
1 TTTTTATAA
85236252 TTTATTAT--
1 TTT-TTATAA
85236260 TTTTTATAA
1 TTTTTATAA
*
85236269 GTGTTTAT-A
1 -TTTTTATAA
*
85236278 TTTTTATGA
1 TTTTTATAA
85236287 TTTTT-TATA
1 TTTTTATA-A
85236296 TTTTTATAA
1 TTTTTATAA
85236305 GTTTATACTA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
6 4 0.07
7 6 0.10
8 13 0.22
9 28 0.47
10 9 0.15
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:85236283 original size:18 final size:18
Alignment explanation
Indices: 85236256--85236306 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
85236246 TTTTAATTTA
85236256 TTAT-TTTTTATAAGTGT
1 TTATATTTTTATAAGTGT
* * *
85236273 TTATATTTTTATGATTTT
1 TTATATTTTTATAAGTGT
85236291 TTATATTTTTATAAGT
1 TTATATTTTTATAAGT
85236307 TTATACTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TTATATTTTTATAAGTGT
Found at i:85238587 original size:18 final size:18
Alignment explanation
Indices: 85238566--85238616 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
85238556 TAAAATATTA
85238566 TTTATTTTTAATTTTAAT
1 TTTATTTTTAATTTTAAT
*
85238584 TTTATTATTATAATATTTTAT
1 TTTATT-TT-TAAT-TTTAAT
*
85238605 ATTA-TTTTAATT
1 TTTATTTTTAATT
85238617 AGTTTTGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 1 0.04
18 10 0.36
19 4 0.14
20 5 0.18
21 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTTTAATTTTAAT
Found at i:85242312 original size:20 final size:20
Alignment explanation
Indices: 85242284--85242340 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
85242274 TGGGCTTATG
* *
85242284 TAATGTATTAGACTTATCTC
1 TAATATATTAGACTTATCTA
*
85242304 TAATATATTGGA-TCTATCTA
1 TAATATATTAGACT-TATCTA
*
85242324 TAATATATTAGGCTTAT
1 TAATATATTAGACTTAT
85242341 ATATTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (20 bp):
TAATATATTAGACTTATCTA
Found at i:85243245 original size:21 final size:20
Alignment explanation
Indices: 85243219--85243262 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
85243209 ATAAAAATAT
85243219 AAAAATTATTATAAATGACAA
1 AAAAATTA-TATAAATGACAA
*
85243240 AAAAATTATATAAATGATAA
1 AAAAATTATATAAATGACAA
85243260 AAA
1 AAA
85243263 TTTAGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATTATATAAATGACAA
Found at i:85243261 original size:18 final size:19
Alignment explanation
Indices: 85243213--85243264 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
85243203 AGAAAAATAA
85243213 AAAT-ATAAAAATTATTAT
1 AAATGATAAAAATTATTAT
*
85243231 AAATGACAAAAAAATTA-TAT
1 AAATG--ATAAAAATTATTAT
85243251 AAATGATAAAAATT
1 AAATGATAAAAATT
85243265 TAGTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 12 0.41
20 8 0.28
21 9 0.31
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AAATGATAAAAATTATTAT
Found at i:85243274 original size:20 final size:20
Alignment explanation
Indices: 85243210--85243296 Score: 67
Period size: 19 Copynumber: 4.5 Consensus size: 20
85243200 GAAAGAAAAA
85243210 TAAAAAT-ATAAAAA-TTAT
1 TAAAAATGATAAAAATTTAT
* * *
85243228 TATAAATGACAAAAAAATTA-
1 TAAAAATGA-TAAAAATTTAT
* *
85243248 TATAAATGATAAAAATTTAG
1 TAAAAATGATAAAAATTTAT
*
85243268 TAAAAAT--TGCAAAATTTAT
1 TAAAAATGAT-AAAAATTTAT
85243287 TAAAAATGAT
1 TAAAAATGAT
85243297 TTTATATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
18 7 0.13
19 24 0.44
20 20 0.36
21 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAAATGATAAAAATTTAT
Found at i:85243350 original size:18 final size:18
Alignment explanation
Indices: 85243209--85243351 Score: 56
Period size: 18 Copynumber: 7.4 Consensus size: 18
85243199 TGAAAGAAAA
85243209 ATAAAAATAT-AAAAATT
1 ATAAAAATATAAAAAATT
* *
85243226 ATTATAAATGACAAAAAAATT
1 A-TAAAAAT-A-TAAAAAATT
* *
85243247 ATATAAATGATAAAAATTT
1 ATAAAAAT-ATAAAAAATT
* *
85243266 AGTAAAAAT-TGCAAAATTT
1 A-TAAAAATAT-AAAAAATT
*
85243285 ATTAAAAATGATTTTATATAAATT
1 A-TAAAAAT-A---TA-AAAAATT
** **
85243309 ATAAAAATATAAATTACC
1 ATAAAAATATAAAAAATT
*
85243327 AGAAAAATATAAAAAATT
1 ATAAAAATATAAAAAATT
85243345 ATAAAAA
1 ATAAAAA
85243352 ATATGATTTA
Statistics
Matches: 93, Mismatches: 21, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
17 1 0.01
18 28 0.30
19 26 0.28
20 15 0.16
21 8 0.09
22 1 0.01
23 7 0.08
24 7 0.08
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAAAAATATAAAAAATT
Found at i:85251063 original size:17 final size:17
Alignment explanation
Indices: 85251041--85251073 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
85251031 ACCCTATTTT
85251041 GATGAGATTGATAGCAG
1 GATGAGATTGATAGCAG
85251058 GATGAGATTGATAGCA
1 GATGAGATTGATAGCA
85251074 TGAATGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (17 bp):
GATGAGATTGATAGCAG
Found at i:85254887 original size:18 final size:20
Alignment explanation
Indices: 85254864--85254903 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
85254854 GGAGAGCGAA
85254864 AAGAAT-GA-AAAACGGGCC
1 AAGAATAGAGAAAACGGGCC
*
85254882 AAGAATAGAGAAAATGGGCC
1 AAGAATAGAGAAAACGGGCC
85254902 AA
1 AA
85254904 AGTACGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.28, T:0.07
Consensus pattern (20 bp):
AAGAATAGAGAAAACGGGCC
Found at i:85257597 original size:19 final size:19
Alignment explanation
Indices: 85257573--85257618 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
85257563 CTCTTTAGTC
*
85257573 TTGCATT-CATCTCATGCAT
1 TTGCATTACATCGCAT-CAT
85257592 TTGCATTACATCGCATCAT
1 TTGCATTACATCGCATCAT
*
85257611 GTGCATTA
1 TTGCATTA
85257619 AATTTCACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (19 bp):
TTGCATTACATCGCATCAT
Found at i:85262670 original size:28 final size:29
Alignment explanation
Indices: 85262570--85262676 Score: 91
Period size: 28 Copynumber: 3.8 Consensus size: 29
85262560 TATAAATGTG
* * *
85262570 ATTGGGCCTA-ATAGGCAATATGAATATGA
1 ATTGGGCCTAGATGGGCCATAT-AACATGA
*
85262599 ATTGGGCCT-GATGGG-CATATGAACGTGA
1 ATTGGGCCTAGATGGGCCATAT-AACATGA
* *
85262627 ATTGGGCC-GGACGGGCCATATAA-ATGA
1 ATTGGGCCTAGATGGGCCATATAACATGA
85262654 GATTGGGCCTAG-TGGGCCATATA
1 -ATTGGGCCTAGATGGGCCATATA
85262677 CATTATATAG
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 3 0.05
28 43 0.66
29 19 0.29
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
ATTGGGCCTAGATGGGCCATATAACATGA
Found at i:85265450 original size:38 final size:38
Alignment explanation
Indices: 85265399--85265485 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
85265389 TCTTAAAACA
85265399 CAGCGCGTATAGTGTAGTGGAACAACTACACAAGCAGC
1 CAGCGCGTATAGTGTAGTGGAACAACTACACAAGCAGC
85265437 CAGCGCGTATAGTGTAGTGGAACAACTACACAAGCAGC
1 CAGCGCGTATAGTGTAGTGGAACAACTACACAAGCAGC
85265475 CAGCGCGTATA
1 CAGCGCGTATA
85265486 TCAGTGCTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.16
Consensus pattern (38 bp):
CAGCGCGTATAGTGTAGTGGAACAACTACACAAGCAGC
Found at i:85281305 original size:177 final size:177
Alignment explanation
Indices: 85281009--85282610 Score: 2322
Period size: 177 Copynumber: 9.1 Consensus size: 177
85280999 GCGACATCGG
* * **
85281009 TGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGGAAATGGCGAGTCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAATGGCGAGTCTTATCT
*
85281074 CCATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCT-TCGAGGTAGCAAGAGAGC
66 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT-GAGGTAGCAAGAGAGC
* * *
85281138 AGGTTAAAGATACAAGTCTTATCTTCCTAAGATAGCAAGGAAGCAGAC
130 AGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
*** * * *
85281186 TGAAAATTACAGATCTTATCTTTTTAAGCAGTAGTGGAGAAGATCAGAAATAGCGGGTCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAATGGCGAGTCTTATCT
* * *
85281251 CCATGTATCGGCTATGGAACAGATTTTAGCCACCAGCTTTATCTCTCCGAGGTAGCAAGAGAGCA
66 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* * *
85281316 GGTTGAAGATACAAGTCTTATCTTCCTAAGGTAGAAAGGAAGTAGAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * *
85281363 TGAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAAATGGCGAGTCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAATGGCGAGTCTTATCT
* * **
85281428 CTATGTATCGGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCCAAGGTAGCAAGAGAGCA
66 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
85281493 GGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * * *
85281540 TGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGTG-GCATAT-TGAAAATGGTGAGTCTTAT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG-GAGCAGATCAG-AAATGGCGAGTCTTAT
* * * *
85281603 CTTCATGTATCGGTTATGGAGCAGATTTTAGCCACCAGGCTTATTTCTCTGAGGTAGCAAGAGAG
64 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
85281668 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
129 CAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* *
85281717 TGAAAATTACAGATCTTATCTCCCTAAGCAGTGGTGGAGCAGAT-TGAAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG-AAATGGCGAGTCTTATC
* * ** * *
85281781 TCCATGTATCGGCTATGGAGCAAATTTTAGCCACTAATCTTATCTCTATGAAGTAGCAAGAGAGC
65 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
* *
85281846 AGGTTGAAGATACAAGTCTTATCTTCCTGAGCTAGCAATGAAGCAGAC
130 AGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* *
85281894 TGAAAATTACAGATCTTATCTCCCTAAGCAGTGGTGGAGCAGATC-GAAAATGGTGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAG-AAATGGCGAGTCTTATC
* *
85281958 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGT
65 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
85282023 AGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
130 AGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * * * *
85282071 TAAAAATTACAGATCTTATCTCCCTAAACAATAGTGGAGCAGATAAAAAATGGCGAGTCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAATGGCGAGTCTTATCT
* *
85282136 CC-TGTATCGGTTATGGAGCAGATTTTAGCCACCATCCTTATCTCTCTGAGGTAGC---A-AG-A
66 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
*
85282195 ----G-A-ATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * * *
85282236 TAAAAATTACAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATAAAAAATGGCGAGTCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAATGGCGAGTCTTATCT
* * * * * *
85282301 CTATGTATCAGTTATGGAGCAAATTTTAGCCACCAGCCTTATCTATCTGAGGTAGCAGGAGAGCA
66 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* *
85282366 GGTTAAAGATACAAGTCTTACCTTCCTGAGGTAGCAAGGAAGCAGAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* *
85282413 TGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC-GAAGATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAA-ATGGCGAGTCTTATC
* * * * * * *
85282477 TCCACGTATCGGCAATGGAGCAGATTTTTGCCATCAGCCTTGTCCCTCTGAGGTAGCAAGAAAGC
65 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
85282542 AGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
130 AGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
85282590 TGAAAATTACAGATCTTATCT
1 TGAAAATTACAGATCTTATCT
85282611 TCACGTATCG
Statistics
Matches: 1287, Mismatches: 119, Indels: 38
0.89 0.08 0.03
Matches are distributed among these distances:
165 101 0.08
166 50 0.04
167 1 0.00
169 1 0.00
170 2 0.00
171 2 0.00
172 2 0.00
173 1 0.00
176 54 0.04
177 1072 0.83
178 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (177 bp):
TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAGAAATGGCGAGTCTTATCT
CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
GGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
Found at i:85282542 original size:133 final size:134
Alignment explanation
Indices: 85282391--85282638 Score: 308
Period size: 133 Copynumber: 1.9 Consensus size: 134
85282381 TCTTACCTTC
* *
85282391 CTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAATCTTATCTCCCT-AAGCAG-TAGTGAAGCA
1 CTGAGGTAGCAAGAAAGCAGACTGAAAA-TACAAATCTTATCTCCCTGAAGCAGCAAG-GAAGCA
* *
85282454 GA-TCGAAGATGGC-GAGTCTTATCTCCACGTATCGGCAAT-GGAGCAGATTTTTGCCATCAGCC
64 GACT-GAAAATGACAGA-TCTTATCTCCACGTATCGGCAATAGGAGCAGATTTTTGCCATCAGCC
85282516 TTGTCCCT
127 TTGTCCCT
** * * * * *
85282524 CTGAGGTAGCAAGAAAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
1 CTGAGGTAGCAAGAAAGCAGACTGAAAATACAAATCTTATCTCCCTGAAGCAGCAAGGAAGCAGA
* *
85282589 CTGAAAATTACAGATCTTATCTTCACGTATCGGCAATAGGAGCAGATTTT
66 CTGAAAATGACAGATCTTATCTCCACGTATCGGCAATAGGAGCAGATTTT
85282639 AGCTATCAAC
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
132 16 0.16
133 64 0.66
134 17 0.18
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (134 bp):
CTGAGGTAGCAAGAAAGCAGACTGAAAATACAAATCTTATCTCCCTGAAGCAGCAAGGAAGCAGA
CTGAAAATGACAGATCTTATCTCCACGTATCGGCAATAGGAGCAGATTTTTGCCATCAGCCTTGT
CCCT
Found at i:85285157 original size:22 final size:23
Alignment explanation
Indices: 85285127--85285169 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
85285117 ACTTTTATTC
*
85285127 TCGTATTTAGTAGATCAAAATCA
1 TCGTATTTAGTAAATCAAAATCA
85285150 TCGT-TTTAGTAAATCAAAAT
1 TCGTATTTAGTAAATCAAAAT
85285170 GTTTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (23 bp):
TCGTATTTAGTAAATCAAAATCA
Found at i:85285471 original size:8 final size:9
Alignment explanation
Indices: 85285442--85285468 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
85285432 TTTAAAAAAT
85285442 ATTTTTATA
1 ATTTTTATA
85285451 ATTTTTATA
1 ATTTTTATA
85285460 ATTTTTATA
1 ATTTTTATA
85285469 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:85285960 original size:17 final size:18
Alignment explanation
Indices: 85285927--85285960 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85285917 TATTTTTATA
*
85285927 TTTTATATAATTTTATTC
1 TTTTATATAATTCTATTC
85285945 TTTT-TATAATTCTATT
1 TTTTATATAATTCTATT
85285961 TTATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATAATTCTATTC
Found at i:85285976 original size:21 final size:22
Alignment explanation
Indices: 85285936--85285976 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
85285926 ATTTTATATA
**
85285936 ATTTTATTCTTTTTATAATTCT
1 ATTTTATTCTTTGAATAATTCT
85285958 ATTTTATT-TTTGAATAATT
1 ATTTTATTCTTTGAATAATT
85285977 TGTAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTTATTCTTTGAATAATTCT
Found at i:85286073 original size:31 final size:33
Alignment explanation
Indices: 85286019--85286079 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
85286009 TTTTTATAAT
*
85286019 TTTTTACACTTTTCTATATTTTAAAAAATTCAC
1 TTTTTACAATTTTCTATATTTTAAAAAATTCAC
*
85286052 TTTTTACAATTTT-T-TATTTTAAATAATT
1 TTTTTACAATTTTCTATATTTTAAAAAATT
85286080 TTTAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 13 0.50
32 1 0.04
33 12 0.46
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTTTACAATTTTCTATATTTTAAAAAATTCAC
Found at i:85286122 original size:59 final size:59
Alignment explanation
Indices: 85285997--85286128 Score: 135
Period size: 59 Copynumber: 2.2 Consensus size: 59
85285987 TTTTTTTTTG
* * * *
85285997 TAATTTTCTATATTTTTATAATTTTTTACACTTTTCTATATTTTAAAAAATTCACTTTTTA
1 TAATTTT-T-TATTTTAATAATTTTTAACACTTTTCTACATTTTAAAAAATTCACTTTTAA
* *
85286058 CAATTTTTTATTTTAAATAATTTTTAATA-TTTTCTACATTTTAAAAAACTT-A-TTTATAA
1 TAATTTTTTATTTT-AATAATTTTTAACACTTTTCTACATTTTAAAAAA-TTCACTTT-TAA
85286117 TAATTTATTTAT
1 TAATTT-TTTAT
85286129 AATTTTCTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
58 3 0.05
59 32 0.53
60 19 0.32
61 6 0.10
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (59 bp):
TAATTTTTTATTTTAATAATTTTTAACACTTTTCTACATTTTAAAAAATTCACTTTTAA
Found at i:85287400 original size:93 final size:92
Alignment explanation
Indices: 85287241--85287420 Score: 333
Period size: 93 Copynumber: 1.9 Consensus size: 92
85287231 CCAAAACAGT
85287241 TCATATTTTTCCATGTTTGAGTCATGGAACCACAAGGTCACATGTCAAGCACATATAGCATATAT
1 TCATATTTTTCCATGTTTGAGTCATGGAACCACAAGGTCACATGTCAAGCACATATAGCATATAT
85287306 TTATCTGTTATTTATCACGTCTNACATG
66 TTATCTGTTATTTATCACGTCT-ACATG
*
85287334 TCATATTTTTCCATGTTTGATTCATGGAACCACAAGGTCACATGTCAAGCACATATAGCATATAT
1 TCATATTTTTCCATGTTTGAGTCATGGAACCACAAGGTCACATGTCAAGCACATATAGCATATAT
*
85287399 TTATCTGTTATTTATTACGTCT
66 TTATCTGTTATTTATCACGTCT
85287421 CATTTTCACA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (92 bp):
TCATATTTTTCCATGTTTGAGTCATGGAACCACAAGGTCACATGTCAAGCACATATAGCATATAT
TTATCTGTTATTTATCACGTCTACATG
Found at i:85288659 original size:39 final size:39
Alignment explanation
Indices: 85288565--85288762 Score: 362
Period size: 39 Copynumber: 5.1 Consensus size: 39
85288555 AATTATATTA
85288565 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
85288604 -CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
85288642 CTAGCACAAACCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
85288681 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
85288720 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
85288759 CCAG
1 CCAG
85288763 TGTCTTGAAT
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
38 38 0.25
39 114 0.75
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:85294250 original size:30 final size:30
Alignment explanation
Indices: 85294205--85294263 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
85294195 AATTCATATC
*
85294205 TTTGGCAAAACGACCATTTTGCCCCTAGAA
1 TTTGACAAAACGACCATTTTGCCCCTAGAA
*
85294235 TTTGACAAAATGACCATTTTGCCCCTAGA
1 TTTGACAAAACGACCATTTTGCCCCTAGA
85294264 CTCGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (30 bp):
TTTGACAAAACGACCATTTTGCCCCTAGAA
Found at i:85296846 original size:50 final size:50
Alignment explanation
Indices: 85296774--85297011 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
85296764 GATACTAGGG
* *
85296774 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGAT
* *
85296824 ATACGAGAGCTAGTGTAAGACCATGTTTGGAGCATGGCATCGACCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGAT
* * * *
85296874 ATATAAGAGCTAGTGTAAGACCATGTTTAGAACATGGCATCGGCCTCGAC
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGAT
* * *
85296924 ATGTG-G-GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACT-TAT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGAC-CTCGAT
* * * * *
85296972 ACATGAGATCCAGTGTAAGACCATGTCTGGAAAATGGCAT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
85297012 AGGCATCTTA
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
48 39 0.24
49 4 0.02
50 121 0.74
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGAT
Found at i:85296987 original size:98 final size:99
Alignment explanation
Indices: 85296780--85297011 Score: 306
Period size: 98 Copynumber: 2.3 Consensus size: 99
85296770 AGGGATATGT
*
85296780 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGATATACGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGACATA-GAGAGCTAGTGTAAGAC
* *
85296845 CATGTTTGGAGCATGGCATCGACCTCGATATATAA
65 CATGTTTGGAACATGGCATCGACCTCGATACATAA
* * * * *
85296880 GAGCTAGTGTAAGACCATGTTTAGAACATGGCATCGGCCTCGACAT-GTGGGCTAGTGTAAGACC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGACATAGAGAGCTAGTGTAAGACC
* * *
85296944 ATGTTTGGAACATGGCATCGGCACT-TATACATGA
66 ATGTTTGGAACATGGCATCGAC-CTCGATACATAA
* * *
85296978 GATCCAGTGTAAGACCATGTCTGGAAAATGGCAT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
85297012 AGGCATCTTA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 71 0.62
99 2 0.02
100 42 0.37
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (99 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACCTCGACATAGAGAGCTAGTGTAAGACC
ATGTTTGGAACATGGCATCGACCTCGATACATAA
Found at i:85300358 original size:6 final size:6
Alignment explanation
Indices: 85300347--85300376 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
85300337 ACTGCATGAA
85300347 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
85300377 TTTTCTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:85300560 original size:48 final size:48
Alignment explanation
Indices: 85300496--85300677 Score: 195
Period size: 48 Copynumber: 3.8 Consensus size: 48
85300486 ATGTGAGTAT
* * *
85300496 TGAGATCCCGTGTAAGATCATATCTGGGAAATGGCATCGGCATTGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATA
* * * *
85300544 AGAGATCACGTATAAGACCATATATGGGATATGGCATCAGCATT-AGTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATTGA-TA
* * * * * *
85300592 TGAGATCCCATGTAAGATCATATCTGGGATATGACATTGGCATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATA
* * * *
85300640 TGAGGTCTCGTATAAGACCATGTCTGGGACATGGCATC
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATC
85300678 AGTACCGTTA
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
47 1 0.01
48 104 0.98
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATA
Found at i:85300660 original size:96 final size:97
Alignment explanation
Indices: 85300491--85300679 Score: 272
Period size: 96 Copynumber: 2.0 Consensus size: 97
85300481 ACGACATGTG
* * *
85300491 AGTATTGAGATCCCGTGTAAGATCATATCTGGGAAATGGCATCGGCATTGATAAGAGATCACGTA
1 AGTATTGAGATCCCATGTAAGATCATATCTGGGAAATGACATCGGCATCGATAAGAGATCACGTA
*
85300556 TAAGACCATATATGGGATATGGCATCAGCATT
66 TAAGACCATATATGGGACATGGCATCAGCATT
* * * * *
85300588 AGTA-TGAGATCCCATGTAAGATCATATCTGGGATATGACATTGGCATCGATATGAGGTCTCGTA
1 AGTATTGAGATCCCATGTAAGATCATATCTGGGAAATGACATCGGCATCGATAAGAGATCACGTA
* *
85300652 TAAGACCATGTCTGGGACATGGCATCAG
66 TAAGACCATATATGGGACATGGCATCAG
85300680 TACCGTTATG
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 77 0.95
97 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (97 bp):
AGTATTGAGATCCCATGTAAGATCATATCTGGGAAATGACATCGGCATCGATAAGAGATCACGTA
TAAGACCATATATGGGACATGGCATCAGCATT
Found at i:85300704 original size:96 final size:93
Alignment explanation
Indices: 85300491--85300767 Score: 251
Period size: 96 Copynumber: 2.9 Consensus size: 93
85300481 ACGACATGTG
* * * *
85300491 AGTATTGAGATCCCGTGTAAGATCATATCTGGGAAATGGCATCGGCATTGATAAGAGATCACGTA
1 AGTA-TGAGATCCCATGTAAGATCATATCTGGG-AAT-GCATTGGCATCGATATGAGATC-CGTA
* * * *
85300556 TAAGACCATATATGGGATATGGCATCAGCATT
62 TAAGACCATGTCTGGGACATGGCATCAGCATC
*
85300588 AGTATGAGATCCCATGTAAGATCATATCTGGGATATGACATTGGCATCGATATGAGGTCTCGTAT
1 AGTATGAGATCCCATGTAAGATCATATCTGGGA-ATG-CATTGGCATCGATATGAGATC-CGTAT
*
85300653 AAGACCATGTCTGGGACATGGCATCAGTA-C
63 AAGACCATGTCTGGGACATGGCATCAGCATC
* * * * * * * *
85300683 CGTTATGAGA-CTTCGTTTAAGACCATAACTGGG-CTG--TTGGCATCGATGTGAGATCC-TATG
1 AG-TATGAGATC-CCATGTAAGATCATATCTGGGAATGCATTGGCATCGATATGAGATCCGTA--
85300743 TAAGACCATGTCTGGGACATGGCAT
62 TAAGACCATGTCTGGGACATGGCAT
85300768 TGGCATATTT
Statistics
Matches: 154, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
89 2 0.01
90 1 0.01
91 42 0.27
94 2 0.01
95 4 0.03
96 99 0.64
97 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (93 bp):
AGTATGAGATCCCATGTAAGATCATATCTGGGAATGCATTGGCATCGATATGAGATCCGTATAAG
ACCATGTCTGGGACATGGCATCAGCATC
Found at i:85308002 original size:50 final size:50
Alignment explanation
Indices: 85307926--85308088 Score: 188
Period size: 50 Copynumber: 3.3 Consensus size: 50
85307916 TATGTGAACC
**
85307926 AGTGTAAGACCATGTTTGGAACATGGCATTGGCCTCAATATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCAATATATGAGAGCT
* * * *
85307976 TGTGTAAGACCATGTTTGGAACATGGCATCAGACTCAACATGT-AG-GCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCAATATATGAGAGCT
* * * * *
85308024 AGTTTAGGACCATGTTTAGAACATGGCATCAGCAC-CGATATTTGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGC-CTCAATATATGAGAGCT
*
85308074 AGTGCAAGACCATGT
1 AGTGTAAGACCATGT
85308089 CTGAGGCATG
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
48 36 0.39
49 5 0.05
50 52 0.56
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (50 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCAATATATGAGAGCT
Found at i:85311882 original size:26 final size:25
Alignment explanation
Indices: 85311848--85311901 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
85311838 ATTTCTCCTT
*
85311848 TTTCTTTTC-TTTTCTTCTTTCTTTC
1 TTTCTTTTCGTTTT-TTCTCTCTTTC
*
85311873 TTTCTATTTCGTTTTTTCTCTGTTTC
1 TTTCT-TTTCGTTTTTTCTCTCTTTC
85311899 TTT
1 TTT
85311902 TTCTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTCTTTTCGTTTTTTCTCTCTTTC
Found at i:85313426 original size:13 final size:13
Alignment explanation
Indices: 85313405--85313438 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
85313395 AACCCAACCT
85313405 AACCCAATTACCC
1 AACCCAATTACCC
*
85313418 AACCTAATTACCC
1 AACCCAATTACCC
85313431 AACCCAAT
1 AACCCAAT
85313439 AATAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:85313611 original size:9 final size:9
Alignment explanation
Indices: 85313597--85313647 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
85313587 TTGAAATCTC
*
85313597 TCAAAACTT
1 TCAAAACCT
*
85313606 TCAAAATCT
1 TCAAAACCT
**
85313615 CTCAAAACGG
1 -TCAAAACCT
85313625 T-AAAACCT
1 TCAAAACCT
85313633 TCAAAACCT
1 TCAAAACCT
85313642 TCAAAA
1 TCAAAA
85313648 GTGTCATAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.64
10 6 0.18
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (9 bp):
TCAAAACCT
Found at i:85319932 original size:17 final size:17
Alignment explanation
Indices: 85319912--85319972 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
85319902 ATTTCAATAC
85319912 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* **
85319929 TTATGTAGTGTTTCAAAGA
1 TTATGTAATGTTT-TTA-A
85319948 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
85319966 TTATGTA
1 TTATGTA
85319973 GTGATTCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 19 0.54
18 2 0.06
19 2 0.06
20 12 0.34
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:85319951 original size:37 final size:37
Alignment explanation
Indices: 85319910--85319981 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
85319900 TAATTTCAAT
*
85319910 ACTTATGTAATGTTTTTAATTATGTAGTGTTTCAAAG
1 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
85319947 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAA
1 ACTTATGTAATGTTTTTAATTATGTAGTGATTCAA
85319982 TTCGGCTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.49
Consensus pattern (37 bp):
ACTTATGTAATGTTTTTAATTATGTAGTGATTCAAAG
Found at i:85319994 original size:9 final size:9
Alignment explanation
Indices: 85319980--85320013 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
85319970 GTAGTGATTC
*
85319980 AATTCGGCT
1 AATTCGGAT
*
85319989 AATTCGGTT
1 AATTCGGAT
85319998 AATTCGGAT
1 AATTCGGAT
85320007 AATTCGG
1 AATTCGG
85320014 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (9 bp):
AATTCGGAT
Found at i:85320003 original size:18 final size:18
Alignment explanation
Indices: 85319980--85320016 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
85319970 GTAGTGATTC
*
85319980 AATTCGGCTAATTCGGTT
1 AATTCGGATAATTCGGTT
85319998 AATTCGGATAATTCGGTT
1 AATTCGGATAATTCGGTT
85320016 A
1 A
85320017 TTTTTAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (18 bp):
AATTCGGATAATTCGGTT
Found at i:85320402 original size:16 final size:16
Alignment explanation
Indices: 85320381--85320413 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
85320371 TTCATTTACA
85320381 AAAAAATATAAGCTTT
1 AAAAAATATAAGCTTT
85320397 AAAAAATATAAGCTTT
1 AAAAAATATAAGCTTT
85320413 A
1 A
85320414 TAAATCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (16 bp):
AAAAAATATAAGCTTT
Found at i:85321318 original size:19 final size:20
Alignment explanation
Indices: 85321294--85321331 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
85321284 TCTAGTTAAA
85321294 AATAATATAATAT-ATTATC
1 AATAATATAATATAATTATC
85321313 AATAATATAATATAATTAT
1 AATAATATAATATAATTAT
85321332 TTTAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATAATATAATATAATTATC
Found at i:85324733 original size:37 final size:37
Alignment explanation
Indices: 85324661--85324733 Score: 87
Period size: 39 Copynumber: 2.0 Consensus size: 37
85324651 AATTATAAAG
* *
85324661 TTATTATAATATTATAAAATTTTAAATATGTAAAAAA
1 TTATTATAATATTATAAAATTGTAAATATGAAAAAAA
*
85324698 TTATTAGTAATTTATATAAAATTGTAAA-A-GAAAAAA
1 TTATTA-TAATAT-TATAAAATTGTAAATATGAAAAAA
85324734 GTTTTGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 12 0.39
38 6 0.19
39 13 0.42
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (37 bp):
TTATTATAATATTATAAAATTGTAAATATGAAAAAAA
Found at i:85328119 original size:21 final size:22
Alignment explanation
Indices: 85328093--85328139 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
85328083 CTCTGCTCAA
*
85328093 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
85328114 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
85328136 ACTC
1 ACTC
85328140 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:85337768 original size:49 final size:47
Alignment explanation
Indices: 85337659--85337883 Score: 220
Period size: 49 Copynumber: 4.6 Consensus size: 47
85337649 GGTACGATGT
* * * * * **
85337659 CGATACCATGTTCCAAACATGGTCTTATAGTGGCTCTCA-CATCTAAGC
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCAT-TGGGC
* *
85337707 CAATGCCATGTCCCAGACAGGTCTTACACTGACT-TCTATACATTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTC-AT-CATTG-GGC
* * * * *
85337756 CGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCACTTATCTGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-TCAT-TGGGC
85337805 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATC-ATTGG-GC
*
85337854 CGATGCCATGTCCCTGACAGGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
85337884 AGCATGCACA
Statistics
Matches: 146, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 13 0.09
48 19 0.13
49 107 0.73
50 5 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCATTGGGC
Found at i:85345633 original size:20 final size:19
Alignment explanation
Indices: 85345612--85345648 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
85345602 TTCTTTTTAT
85345612 TTTTA-TTTATTATTTATTA
1 TTTTATTTTATT-TTTATTA
85345631 TTTTATTTTATTTTTATT
1 TTTTATTTTATTTTTATT
85345649 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTATTTTTATTA
Found at i:85345638 original size:5 final size:5
Alignment explanation
Indices: 85345606--85345656 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
85345596 CAATCTTTCT
*
85345606 TTTTA TTTT- TATTTA TTATT- TATTA TTTTA TTTTA TTTTTA TTTTA
1 TTTTA TTTTA T-TTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA TTTTA
85345652 TTTTA
1 TTTTA
85345657 GTTAAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 3 0.08
5 28 0.72
6 8 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:85345655 original size:11 final size:11
Alignment explanation
Indices: 85345606--85345655 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
85345596 CAATCTTTCT
85345606 TTTTATTTTTA
1 TTTTATTTTTA
85345617 -TTTATTATTTA
1 TTTTATT-TTTA
85345628 --TTA-TTTTA
1 TTTTATTTTTA
85345636 TTTTATTTTTA
1 TTTTATTTTTA
85345647 TTTTATTTT
1 TTTTATTTT
85345656 AGTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.11
9 1 0.03
10 12 0.34
11 18 0.51
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:85346778 original size:118 final size:118
Alignment explanation
Indices: 85346570--85346799 Score: 327
Period size: 118 Copynumber: 1.9 Consensus size: 118
85346560 GTTTTCCATT
* * *
85346570 GTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAATCAGGGTAGGGTGCTTAGGTTGTCATTC
1 GTTATGAGCACAGCTCAAATCGTGACTGACTGAGTAATCAGGGTAGGGTGCTTAGGTTGTCATTC
*
85346635 TACTTCGCGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
66 TACTTCACGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
* * * *
85346688 GTTATGAGCATAGCTCAAATCGTGTCTGACTGAGTAA-CTGGGGTAGGGTGCTTGGGTTGTCATT
1 GTTATGAGCACAGCTCAAATCGTGACTGACTGAGTAATC-AGGGTAGGGTGCTTAGGTTGTCATT
* ****
85346752 CTACTTCACGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
65 CTACTTCACGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTA
85346800 ACCGGAAATA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
117 1 0.01
118 97 0.99
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (118 bp):
GTTATGAGCACAGCTCAAATCGTGACTGACTGAGTAATCAGGGTAGGGTGCTTAGGTTGTCATTC
TACTTCACGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
Found at i:85346952 original size:18 final size:17
Alignment explanation
Indices: 85346925--85346967 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
85346915 AATAAAATTT
85346925 AAATAAAAAAAGAAAAA
1 AAATAAAAAAAGAAAAA
* *
85346942 AAATCAAAAAAGGAAAA
1 AAATAAAAAAAGAAAAA
*
85346959 AAAGAAAAA
1 AAATAAAAA
85346968 GAAAAATAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (17 bp):
AAATAAAAAAAGAAAAA
Found at i:85355332 original size:37 final size:37
Alignment explanation
Indices: 85355291--85355504 Score: 392
Period size: 37 Copynumber: 5.8 Consensus size: 37
85355281 TTTGAGTACT
85355291 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
85355328 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
85355365 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
85355402 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
85355439 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
85355476 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
85355505 AGCTTTAGCT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:85355574 original size:45 final size:46
Alignment explanation
Indices: 85355466--85355589 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
85355456 GTGATAAGTG
* *
85355466 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
85355512 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
85355557 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
85355590 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 22 0.30
46 40 0.54
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
Found at i:85357079 original size:5 final size:5
Alignment explanation
Indices: 85357071--85357100 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
85357061 TGGAAGACTC
85357071 TATTT TATTT TATTT TATTT TATTT ATATT
1 TATTT TATTT TATTT TATTT TATTT -TATT
85357101 AGGATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:85357169 original size:10 final size:10
Alignment explanation
Indices: 85357150--85357181 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
85357140 TTTTAGAATT
85357150 TTAT-TTTAA
1 TTATCTTTAA
85357159 TTATCTTTAA
1 TTATCTTTAA
85357169 TTATCTTTAA
1 TTATCTTTAA
85357179 TTA
1 TTA
85357182 AATGTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:85369462 original size:50 final size:50
Alignment explanation
Indices: 85369399--85369735 Score: 319
Period size: 50 Copynumber: 6.8 Consensus size: 50
85369389 AGGTCACGTC
* *
85369399 TGTAGTACTAAGTGTAGGCTAATACGTGTACCAGATAGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
* * * * * * * * *
85369449 TGTAGTACTAAGTGCAAGCTACTATGCGTACCTGACAACTTCA-ATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCGCATG
** * *
85369500 TGTAGTACTAAGTGCAGGCTACTACGTGTGTCA-ACTGGTTAGGTC-AAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGTCGCA-TG
* *
85369550 TGTAGTACTAAGTGCAGGCTACAACGTGTACCAGATAGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
* * * * * * *
85369600 TGTAGTACTAAGTGCAAGCTACTACGCGTACCCGACAACTTCA-AT--CACG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCGCATG
* *
85369649 TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTT-GGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
* *
85369698 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
85369736 CTTCGGTTAC
Statistics
Matches: 225, Mismatches: 51, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 72 0.32
50 108 0.48
51 40 0.18
52 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
Found at i:85369581 original size:101 final size:101
Alignment explanation
Indices: 85369392--85369581 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 101
85369382 TGGTTTTAGG
* *
85369392 TCACGTCTGTAGTACTAAGTGTAGGCTAATACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTCTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAGTTAGGTCGAATGTGTAGTAC
* *
85369457 TAAGTGCAAGCTACTATGCGTACCTGACAACTTCAA
66 TAAGTGCAAGCTACAACGCGTACCTGACAACTTCAA
* * ** *
85369493 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGTCA-ACTGGTTAGGTC-AAGTGTGTAGT
1 TCACGTCTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGA-TAGTTAGGTCGAA-TGTGTAGT
* *
85369556 ACTAAGTGCAGGCTACAACGTGTACC
64 ACTAAGTGCAAGCTACAACGCGTACC
85369582 AGATAGATAG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 2 0.03
101 74 0.97
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (101 bp):
TCACGTCTGTAGTACTAAGTGCAGGCTAATACGTGTACCAGATAGTTAGGTCGAATGTGTAGTAC
TAAGTGCAAGCTACAACGCGTACCTGACAACTTCAA
Found at i:85369727 original size:98 final size:99
Alignment explanation
Indices: 85369549--85369729 Score: 301
Period size: 98 Copynumber: 1.8 Consensus size: 99
85369539 TAGGTCAAGT
*
85369549 GTGTAGTACTAAGTGCAGGCTACAACGTGTACCAGATAGATAGGTCGCATGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACAACATGTACCAGATAGATAGGTCGCATGTGTAGTACTAAGTG
85369614 CAAGCTACTACGCGTACCCGACAACTTCAATCAC
66 CAAGCTACTACGCGTACCCGACAACTTCAATCAC
* * *
85369648 GTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG-TTGGTCGCATGTGTAGTACTAAGTG
1 GTGTAGTACTAAGTGCAGGCTACAACATGTACCAGATAGATAGGTCGCATGTGTAGTACTAAGTG
* *
85369712 CAGGCTACTATGCGTACC
66 CAAGCTACTACGCGTACC
85369730 AGATAGCTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 40 0.53
99 36 0.47
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (99 bp):
GTGTAGTACTAAGTGCAGGCTACAACATGTACCAGATAGATAGGTCGCATGTGTAGTACTAAGTG
CAAGCTACTACGCGTACCCGACAACTTCAATCAC
Found at i:85369954 original size:16 final size:15
Alignment explanation
Indices: 85369933--85369962 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
85369923 GAATGGAGTA
85369933 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
85369949 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
85369963 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:85372069 original size:57 final size:57
Alignment explanation
Indices: 85371985--85372117 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
85371975 GCAATTATTC
* * * *
85371985 ACATTTTGATAACATAAATATGCACATTAAGAGACATTATGACAGCAGCTGTAAATT
1 ACATTTGGATAACATAAATATGCACATTAAGAGACATTATGACACCAACTATAAATT
* * * *
85372042 ACATTTGGATAGCATAGATATGCACATTAGGAGACATTTTGACACCAACTATAAATT
1 ACATTTGGATAACATAAATATGCACATTAAGAGACATTATGACACCAACTATAAATT
** *
85372099 ACATTAAGACAACATAAAT
1 ACATTTGGATAACATAAAT
85372118 GTAGAAATAG
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (57 bp):
ACATTTGGATAACATAAATATGCACATTAAGAGACATTATGACACCAACTATAAATT
Found at i:85372682 original size:22 final size:22
Alignment explanation
Indices: 85372656--85372699 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
85372646 TTCATTTTTG
*
85372656 CTTCTTCATTTGCAGTCTCGGT
1 CTTCTTCATTTGCAATCTCGGT
85372678 CTTCTTCATTTGCAATCTCGGT
1 CTTCTTCATTTGCAATCTCGGT
85372700 GCTCCCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.27, G:0.16, T:0.45
Consensus pattern (22 bp):
CTTCTTCATTTGCAATCTCGGT
Found at i:85376868 original size:93 final size:93
Alignment explanation
Indices: 85376756--85376927 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85376746 CGCCCATAAG
* *
85376756 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85376821 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
85376849 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85376914 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
85376928 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:85376924 original size:46 final size:46
Alignment explanation
Indices: 85376749--85376924 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
85376739 TGTAACCCGC
* * *
85376749 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
85376795 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
85376845 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
85376888 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
85376925 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 63 0.57
47 29 0.26
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):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:85378590 original size:9 final size:9
Alignment explanation
Indices: 85378572--85378611 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
85378562 TTTCAAGAAT
*
85378572 GATGATGAC
1 GATGAGGAC
85378581 GATGAGGAC
1 GATGAGGAC
*
85378590 GATGAGGGC
1 GATGAGGAC
*
85378599 GATGAGGAT
1 GATGAGGAC
85378608 GATG
1 GATG
85378612 TTTCTTCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.45, T:0.17
Consensus pattern (9 bp):
GATGAGGAC
Found at i:85378829 original size:12 final size:12
Alignment explanation
Indices: 85378799--85378846 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
85378789 TTTTCACTGC
85378799 TGCTG-TTTG-G
1 TGCTGTTTTGTG
* *
85378809 TGCTATTTTTTG
1 TGCTGTTTTGTG
85378821 TGCTGTTTTGT-
1 TGCTGTTTTGTG
85378832 TGCTGTTTTG-G
1 TGCTGTTTTGTG
85378843 TGCT
1 TGCT
85378847 ATCTTGATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 4 0.13
11 17 0.55
12 10 0.32
ACGTcount: A:0.02, C:0.10, G:0.29, T:0.58
Consensus pattern (12 bp):
TGCTGTTTTGTG
Found at i:85378835 original size:11 final size:10
Alignment explanation
Indices: 85378816--85378863 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
85378806 TGGTGCTATT
85378816 TTTTGTGCTG
1 TTTTGTGCTG
85378826 TTTTGTTGCTG
1 TTTTG-TGCTG
*
85378837 TTTTGGTGCTA
1 TTTT-GTGCTG
*
85378848 TCTTGATGCTG
1 TTTTG-TGCTG
85378859 TTTTG
1 TTTTG
85378864 GTTATGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 6 0.19
11 24 0.77
12 1 0.03
ACGTcount: A:0.04, C:0.10, G:0.27, T:0.58
Consensus pattern (10 bp):
TTTTGTGCTG
Found at i:85378858 original size:33 final size:34
Alignment explanation
Indices: 85378799--85378895 Score: 96
Period size: 33 Copynumber: 2.9 Consensus size: 34
85378789 TTTTCACTGC
*
85378799 TGCTG-TTTGGTGCTATTTTTTGTGCTGTTTT-GT
1 TGCTGTTTTGGTGCTA-TTCTTGTGCTGTTTTGGT
85378832 TGCTGTTTTGGTGCTA-TCTTGATGCTGTTTTGGT
1 TGCTGTTTTGGTGCTATTCTTG-TGCTGTTTTGGT
* * *
85378866 T-ATGTTTTGGTGTTACTT-TTGTGGTGTTTT
1 TGCTGTTTTGGTGCTA-TTCTTGTGCTGTTTT
85378896 ATTGTTCTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.07
33 34 0.62
34 16 0.29
35 1 0.02
ACGTcount: A:0.05, C:0.08, G:0.28, T:0.59
Consensus pattern (34 bp):
TGCTGTTTTGGTGCTATTCTTGTGCTGTTTTGGT
Found at i:85381245 original size:61 final size:59
Alignment explanation
Indices: 85381147--85381288 Score: 166
Period size: 61 Copynumber: 2.4 Consensus size: 59
85381137 TTATTATTAA
*
85381147 ATTTTAACA-AGATTATTATTAAATATAATTTAATAAAAATAA-AAATAAA-TAATTTAATCAT
1 ATTTTAACATA-ATTATTATTAAATACAATTTAAT-AAAATAATAAATAAATTAA--TAA-CAT
* * *
85381208 ATTTTAACATAATTATTAATAAATACAATTTATTAAAATAATATATAAATTAATAACAT
1 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATAAATAAATTAATAACAT
*
85381267 -TCTTAACATAATTATTATTAAA
1 ATTTTAACATAATTATTATTAAA
85381289 ATCTGAATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
58 20 0.28
59 3 0.04
60 10 0.14
61 35 0.49
62 4 0.06
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (59 bp):
ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATAAATAAATTAATAACAT
Found at i:85381248 original size:29 final size:28
Alignment explanation
Indices: 85381211--85381288 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
85381201 TAATCATATT
85381211 TTAACATAATTATTAATAAAT-ACAATTTA
1 TTAACATAATTATTAATAAATAAC-A-TTA
* * * *
85381240 TTAAAATAATATATAAATTAATAACATTC
1 TTAACATAAT-TATTAATAAATAACATTA
*
85381269 TTAACATAATTATTATTAAA
1 TTAACATAATTATTAATAAA
85381289 ATCTGAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
28 7 0.18
29 20 0.51
30 10 0.26
31 2 0.05
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (28 bp):
TTAACATAATTATTAATAAATAACATTA
Found at i:85381939 original size:16 final size:18
Alignment explanation
Indices: 85381920--85381952 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
85381910 CATACGAATT
85381920 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
85381936 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
85381953 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:85382587 original size:43 final size:43
Alignment explanation
Indices: 85382529--85382680 Score: 250
Period size: 43 Copynumber: 3.5 Consensus size: 43
85382519 CCGAAATTAC
* *
85382529 GCCTACTAGGCTCGAAGCCTGATATTAACTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATA
*
85382572 GCCTGCTAGGTTCGAAGCCCGATATTAACTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATA
*
85382615 GCCTGCTAGGCTTGAAGCCCGATATTAACTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATA
*
85382658 GCATGCTAGGCTCGAAGGCCCGA
1 GCCTGCTAGGCTCGAA-GCCCGA
85382681 ATAGTACCGT
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 95 0.94
44 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATA
Found at i:85385887 original size:7 final size:8
Alignment explanation
Indices: 85385869--85385894 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
85385859 TATTTATATT
85385869 AAAATTGA
1 AAAATTGA
85385877 AAAATTGA
1 AAAATTGA
85385885 AAAATTGA
1 AAAATTGA
85385893 AA
1 AA
85385895 TAAATTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (8 bp):
AAAATTGA
Found at i:85390224 original size:153 final size:153
Alignment explanation
Indices: 85389941--85390248 Score: 571
Period size: 153 Copynumber: 2.0 Consensus size: 153
85389931 GCATCAAAGA
85389941 CTGACAATTTTCAATTTTCAAGTTCTTGAACAGTTTAAGGAAAAAAGAAACTCAAAAACTCAAAT
1 CTGACAATTTTCAATTTTCAAGTTCTTGAACAGTTTAAGGAAAAAAGAAACTCAAAAACTCAAAT
*
85390006 CAAACTCAAGACCTATATTGTTTAGTTTTCAAGAAGCTTGAATCTTACCTATGAAAATTGATGCT
66 CAAACTCAAGACCTATATTGTTTAGTTTTCAAAAAGCTTGAATCTTACCTATGAAAATTGATGCT
* *
85390071 TACCTGGAGACGAATTTGATGTT
131 TACCTGGAAACGAATTCGATGTT
*
85390094 CTGATAATTTTCAATTTTCAAGTTCTTGAACAGTTTAAGGAAAAAAGAAACTCAAAAACTCAAAT
1 CTGACAATTTTCAATTTTCAAGTTCTTGAACAGTTTAAGGAAAAAAGAAACTCAAAAACTCAAAT
*
85390159 CAAACTCAAGACCTATATTGTTTAGTTTTCAAAAAGCTTGAATCTTATCTATGAAAATTGATGCT
66 CAAACTCAAGACCTATATTGTTTAGTTTTCAAAAAGCTTGAATCTTACCTATGAAAATTGATGCT
85390224 TACCTGGAAACGAATTCGATGTT
131 TACCTGGAAACGAATTCGATGTT
85390247 CT
1 CT
85390249 AAGCTTTCTT
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 150 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (153 bp):
CTGACAATTTTCAATTTTCAAGTTCTTGAACAGTTTAAGGAAAAAAGAAACTCAAAAACTCAAAT
CAAACTCAAGACCTATATTGTTTAGTTTTCAAAAAGCTTGAATCTTACCTATGAAAATTGATGCT
TACCTGGAAACGAATTCGATGTT
Found at i:85392340 original size:19 final size:19
Alignment explanation
Indices: 85392313--85392375 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
85392303 TCAAGAAATC
*
85392313 ATAAGAATTATAAAAACTT
1 ATAAAAATTATAAAAACTT
* *
85392332 ATAAAAATTCA-CAAAACTA
1 ATAAAAATT-ATAAAAACTT
* *
85392351 ATAAATATTATAAAAACAT
1 ATAAAAATTATAAAAACTT
85392370 ATAAAA
1 ATAAAA
85392376 TTTTTAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 32 0.94
20 1 0.03
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAAAATTATAAAAACTT
Found at i:85392469 original size:19 final size:19
Alignment explanation
Indices: 85392319--85392488 Score: 61
Period size: 19 Copynumber: 8.9 Consensus size: 19
85392309 AATCATAAGA
* *
85392319 ATTATAAAAACTTATAAAA
1 ATTATAAAAAATTATAAAT
* * *
85392338 ATTCA-CAAAACTAATAAAT
1 ATT-ATAAAAAATTATAAAT
85392357 ATTATAAAAACA-TATAAA-
1 ATTATAAAAA-ATTATAAAT
* * *
85392375 ATTTTTAATAAATTACAAAT
1 A-TTATAAAAAATTATAAAT
* *
85392395 AATT-TATAAAAGTAATAAA-
1 -ATTATA-AAAAATTATAAAT
* *
85392414 A-TATAAAATA-TACTAAAA
1 ATTATAAAAAATTA-TAAAT
*
85392432 ATTA-AAAATGATATATAAAT
1 ATTATAAAA-AAT-TATAAAT
85392452 -TTATAAAAAAATTATAAAT
1 ATTAT-AAAAAATTATAAAT
*
85392471 ACTTGTAAAAAATTATAA
1 A-TTATAAAAAATTATAA
85392489 TAAACTATTA
Statistics
Matches: 112, Mismatches: 20, Indels: 37
0.66 0.12 0.22
Matches are distributed among these distances:
16 1 0.01
17 8 0.07
18 11 0.10
19 53 0.47
20 29 0.26
21 10 0.09
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTATAAAAAATTATAAAT
Found at i:85394080 original size:21 final size:21
Alignment explanation
Indices: 85394056--85394101 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
85394046 TTTTTAAAAA
85394056 TAAAACTTGGATAAACCTTAC
1 TAAAACTTGGATAAACCTTAC
** *
85394077 TAAATTTTGGATAAATCTTAC
1 TAAAACTTGGATAAACCTTAC
85394098 TAAA
1 TAAA
85394102 TTTAGGGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (21 bp):
TAAAACTTGGATAAACCTTAC
Found at i:85394102 original size:21 final size:21
Alignment explanation
Indices: 85394062--85394104 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
85394052 AAAATAAAAC
85394062 TTGGATAAACCTTACTAAATT
1 TTGGATAAACCTTACTAAATT
*
85394083 TTGGATAAATCTTACTAAATT
1 TTGGATAAACCTTACTAAATT
85394104 T
1 T
85394105 AGGGTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
TTGGATAAACCTTACTAAATT
Found at i:85395718 original size:35 final size:35
Alignment explanation
Indices: 85395644--85395770 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
85395634 TTAGGAATGT
* * * * *
85395644 AAGCCTACATGACCATGCAAACCCTAAGTACCTAC-
1 AAGCCTATATG-CCATGCAAACCATAGGTACATGCG
* *
85395679 AAGCCTATATGCCATGCGAACCATAGGTACATGTG
1 AAGCCTATATGCCATGCAAACCATAGGTACATGCG
*
85395714 AAGCCTATATGCCATGCAAACCCTAGGTACATGCG
1 AAGCCTATATGCCATGCAAACCATAGGTACATGCG
* *
85395749 AAGCCTATAAGTCATGCAAACC
1 AAGCCTATATGCCATGCAAACC
85395771 TGTATATATT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 17 0.22
35 62 0.78
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (35 bp):
AAGCCTATATGCCATGCAAACCATAGGTACATGCG
Found at i:85395735 original size:69 final size:68
Alignment explanation
Indices: 85395626--85395757 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 68
85395616 TACCCCTTAG
* *
85395626 TGCGAACCTTAGGAATGTAAGCCTACATGACCATGCAAACCCTAAGTACCTAC-AAGCCTATATG
1 TGCGAACCATAGGAATGTAAGCCTACATGACCATGCAAACCCTAAGTACATACGAAGCCTATATG
85395690 CCA
66 CCA
* * *
85395693 TGCGAACCATAGGTACATGTGAAGCCTATATG-CCATGCAAACCCTAGGTACATGCGAAGCCTAT
1 TGCGAACCATAGG-A-ATGT-AAGCCTACATGACCATGCAAACCCTAAGTACATACGAAGCCTAT
85395757 A
63 A
85395758 AGTCATGCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
67 12 0.21
68 1 0.02
69 24 0.43
70 19 0.34
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (68 bp):
TGCGAACCATAGGAATGTAAGCCTACATGACCATGCAAACCCTAAGTACATACGAAGCCTATATG
CCA
Found at i:85395755 original size:17 final size:17
Alignment explanation
Indices: 85395691--85395755 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
85395681 GCCTATATGC
85395691 CATGCGAA-CCATAGGTA
1 CATGCGAAGCC-TAGGTA
* ** *
85395708 CATGTGAAGCCTATATGC
1 CATGCGAAGCCTAGGT-A
* *
85395726 CATGCAAACCCTAGGTA
1 CATGCGAAGCCTAGGTA
85395743 CATGCGAAGCCTA
1 CATGCGAAGCCTA
85395756 TAAGTCATGC
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
17 21 0.62
18 13 0.38
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (17 bp):
CATGCGAAGCCTAGGTA
Found at i:85395765 original size:70 final size:67
Alignment explanation
Indices: 85395626--85395770 Score: 175
Period size: 70 Copynumber: 2.1 Consensus size: 67
85395616 TACCCCTTAG
* * *
85395626 TGCGAACCTTAGGAATGTAAGCCTACATGACCATGCAAACCCTAAGTACCTACAAGCCTATATGC
1 TGCGAACCATAGGAATGTAAGCCTACATGACCATGCAAACCCTAAGTACATACAAGCCTATAAGC
85395691 CA
66 CA
* * *
85395693 TGCGAACCATAGGTACATGTGAAGCCTATATG-CCATGCAAACCCTAGGTACATGCGAAGCCTAT
1 TGCGAACCATAGG-A-ATGT-AAGCCTACATGACCATGCAAACCCTAAGTACATAC-AAGCCTAT
*
85395757 AAGTCA
62 AAGCCA
*
85395763 TGCAAACC
1 TGCGAACC
85395771 TGTATATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
67 12 0.18
68 1 0.02
69 24 0.36
70 29 0.44
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (67 bp):
TGCGAACCATAGGAATGTAAGCCTACATGACCATGCAAACCCTAAGTACATACAAGCCTATAAGC
CA
Found at i:85398326 original size:12 final size:12
Alignment explanation
Indices: 85398311--85398335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85398301 ATATTTTCAG
85398311 AAAATTTGCCAA
1 AAAATTTGCCAA
85398323 AAAATTTGCCAA
1 AAAATTTGCCAA
85398335 A
1 A
85398336 CAATAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTTGCCAA
Found at i:85402273 original size:13 final size:14
Alignment explanation
Indices: 85402250--85402313 Score: 66
Period size: 13 Copynumber: 4.9 Consensus size: 14
85402240 TTCTTACTTT
*
85402250 TTTTCATTTTTTTC
1 TTTTCATTTTTCTC
85402264 TTTT-ATTTTTCTC
1 TTTTCATTTTTCTC
85402277 TTTTC---TTTCTC
1 TTTTCATTTTTCTC
*
85402288 TTTTC-TTCTTCTTC
1 TTTTCATTTTTC-TC
85402302 TTTTCATTTTTC
1 TTTTCATTTTTC
85402314 GTATTATCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
11 11 0.26
13 15 0.36
14 11 0.26
15 5 0.12
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCATTTTTCTC
Found at i:85402306 original size:32 final size:32
Alignment explanation
Indices: 85402229--85402306 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 32
85402219 AAAATTTACG
*
85402229 TTCTTCTTCCTTTCTTACTTTTTTTCATTTTT
1 TTCTTCTTCTTTTCTTACTTTTTTTCATTTTT
*
85402261 TTCTT-TTATTTT-TCT-CTTTTCTTTC-TCTTTT
1 TTCTTCTTCTTTTCT-TACTTTT-TTTCAT-TTTT
85402292 CTTCTTCTTCTTTTC
1 -TTCTTCTTCTTTTC
85402307 ATTTTTCGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
30 7 0.19
31 14 0.38
32 10 0.27
33 6 0.16
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (32 bp):
TTCTTCTTCTTTTCTTACTTTTTTTCATTTTT
Found at i:85416011 original size:3 final size:3
Alignment explanation
Indices: 85416005--85416049 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
85415995 CCTTAAAAAA
* *
85416005 AAG AAG AAG AAG AAG AAG AAG AAA AAT AAG AAG AA- AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
85416050 AAGGAGAGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:85416022 original size:12 final size:11
Alignment explanation
Indices: 85416003--85416052 Score: 66
Period size: 12 Copynumber: 4.5 Consensus size: 11
85415993 GACCTTAAAA
85416003 AAAAGAAGAAG
1 AAAAGAAGAAG
85416014 AAGAAGAAGAAG
1 AA-AAGAAGAAG
*
85416026 AAAAATAAGAAG
1 -AAAAGAAGAAG
85416038 AAAAGAA-AAG
1 AAAAGAAGAAG
85416048 AAAAG
1 AAAAG
85416053 GAGAGGCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 8 0.23
11 8 0.23
12 17 0.49
13 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:85418352 original size:40 final size:40
Alignment explanation
Indices: 85418315--85418500 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 40
85418305 GCTACTCGTT
* *
85418315 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
85418355 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
85418395 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
85418435 CAAATGCCTTCGGGTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
85418476 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
85418501 CATCATTCAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 122 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:85422835 original size:3 final size:3
Alignment explanation
Indices: 85422827--85422919 Score: 59
Period size: 3 Copynumber: 31.7 Consensus size: 3
85422817 AAATAAATGA
** * *
85422827 AAT AAT AAT AAT AAT AAT AAAT ACC AAT AAC GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
85422873 AAT -GT AAGG AAT AAT AAT -AT AA- AAA AAT ATT AAA AAT AA- AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85422915 AAT AA
1 AAT AA
85422920 ATTAAAATGT
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
2 7 0.10
3 55 0.82
4 5 0.07
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Done.