Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 216 of 279
Found at i:70673603 original size:49 final size:48
Alignment explanation
Indices: 70673542--70673638 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 48
70673532 GCCTACACCC
*
70673542 TGCTGAATGCCGCACGTACTTATATCCTTAGCCAGGTGAAGAGCTTGG
1 TGCTGAACGCCGCACGTACTTATATCCTTAGCCAGGTGAAGAGCTTGG
70673590 NTGCTGAACGCCGCACGTACTTATATCCTTAGCCAGGTGAAGAGCTTGG
1 -TGCTGAACGCCGCACGTACTTATATCCTTAGCCAGGTGAAGAGCTTGG
70673639 GAATCTTCCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (48 bp):
TGCTGAACGCCGCACGTACTTATATCCTTAGCCAGGTGAAGAGCTTGG
Found at i:70676637 original size:37 final size:37
Alignment explanation
Indices: 70676567--70676775 Score: 222
Period size: 37 Copynumber: 5.7 Consensus size: 37
70676557 AGTACACAAA
* * ** * *
70676567 TAATCCAACCGA-AACATGCCAACCGCTCGTAAGAGT
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* * * * *
70676603 TAATCCAACCTATAACAGGCCAAATGTTCATAAGAAC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* ** *
70676640 TAATCCACCCGATAACATTCTAAATGCTCATAAGAGC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* * *
70676677 TAATCCATCCAATAATACGCCAAATACTCATAAGAGC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
*
70676714 TAATCCATCCGATAACACACCAAATGCTCATAAGAGC
1 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
* *
70676751 TAATCCATTCGATAACATGCCAAAT
1 TAATCCATCCGATAACACGCCAAAT
70676776 CAGGGAGTAT
Statistics
Matches: 143, Mismatches: 29, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
36 11 0.08
37 132 0.92
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
Found at i:70682771 original size:25 final size:21
Alignment explanation
Indices: 70682751--70682797 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 21
70682741 TATATTGCAT
70682751 ATATAAATAATAATATTTATTCA
1 ATATAAA-AATAA-ATTTATTCA
70682774 ATATAAAAATAAA-TT-TTCA
1 ATATAAAAATAAATTTATTCA
70682793 ATATA
1 ATATA
70682798 TATGATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 1 0.04
22 5 0.21
23 7 0.29
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAAAAATAAATTTATTCA
Found at i:70683413 original size:28 final size:28
Alignment explanation
Indices: 70683377--70683430 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
70683367 CTCTCTTGTC
* * *
70683377 CATTTTATATTTCTTTTAGTTTTATATT
1 CATTCTATACTTCTTTTAATTTTATATT
70683405 CATTCTATACTTCTTTTAATTTTATA
1 CATTCTATACTTCTTTTAATTTTATA
70683431 ACACGTTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (28 bp):
CATTCTATACTTCTTTTAATTTTATATT
Found at i:70694200 original size:49 final size:49
Alignment explanation
Indices: 70694032--70694258 Score: 292
Period size: 49 Copynumber: 4.6 Consensus size: 49
70694022 TATGAGGTTG
* * * * * *
70694032 CATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCA
* * * * **
70694083 CGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCA
*
70694133 CATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
* *
70694182 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
70694231 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
70694259 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
49 79 0.52
50 42 0.27
51 32 0.21
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCA
Found at i:70694215 original size:99 final size:100
Alignment explanation
Indices: 70694032--70694266 Score: 321
Period size: 99 Copynumber: 2.4 Consensus size: 100
70694022 TATGAGGTTG
* *
70694032 CATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
* **
70694097 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* * * * * *
70694133 CATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
* *
70694196 AGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
66 AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
*
70694231 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
70694267 AGATAGCTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 37 0.31
99 44 0.37
100 1 0.01
101 36 0.31
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTATAGTACTA
AGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:70696876 original size:40 final size:40
Alignment explanation
Indices: 70696821--70696912 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
70696811 ATTCGTACAA
* *
70696821 GGCACTTAGTTTGTGATTTGACATTGCTTCAG-CTATAGAT
1 GGCACTTAGTGTGTGATTTGACATAGCTTC-GTCTATAGAT
* *
70696861 GGCACTTAGTGTGTGATTTGAGATAGCTTCGTCTATATAT
1 GGCACTTAGTGTGTGATTTGACATAGCTTCGTCTATAGAT
*
70696901 GACACTTAGTGT
1 GGCACTTAGTGT
70696913 ACGAGATATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (40 bp):
GGCACTTAGTGTGTGATTTGACATAGCTTCGTCTATAGAT
Found at i:70700288 original size:11 final size:10
Alignment explanation
Indices: 70700262--70700295 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
70700252 GGAGAGCACC
*
70700262 AAGAGTCAAA
1 AAGAGCCAAA
70700272 AAGAGCCAAA
1 AAGAGCCAAA
70700282 AACGAGCCAAA
1 AA-GAGCCAAA
70700293 AAG
1 AAG
70700296 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:70709334 original size:35 final size:36
Alignment explanation
Indices: 70709264--70709335 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
70709254 AAATGTATGT
*
70709264 TTTATATTATTTTTTTAAGGTAATACTTCGTAACCC
1 TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
*
70709300 TTTATATTATATTTTTACGGTAA-ACTTCGTAACCC
1 TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
70709335 T
1 T
70709336 ATTTCGACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (36 bp):
TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
Found at i:70712369 original size:15 final size:17
Alignment explanation
Indices: 70712339--70712370 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
70712329 TTTTAATTGA
70712339 AATGATAAATTTAAAAT
1 AATGATAAATTTAAAAT
70712356 AATGA-AAA-TTAAAAT
1 AATGATAAATTTAAAAT
70712371 TTTTTAATAA
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:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
AATGATAAATTTAAAAT
Found at i:70713511 original size:19 final size:18
Alignment explanation
Indices: 70713469--70713514 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
70713459 TTTGATAAAT
*
70713469 GAATATTTTATTAATTTAT
1 GAATA-TTTATTAATTTAA
*
70713488 CAATATTTATTAATTTAGA
1 GAATATTTATTAATTTA-A
70713507 GAATATTT
1 GAATATTT
70713515 CATACTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (18 bp):
GAATATTTATTAATTTAA
Found at i:70713630 original size:35 final size:37
Alignment explanation
Indices: 70713588--70713660 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
70713578 GAATCAAAGC
*
70713588 TAATTGGTTCATGTAA-C-AAAGAAAAAAGAGTTAAT
1 TAATTGGTTCATGTAACCAAAAGAAAAAAAAGTTAAT
*
70713623 TAATTGGTTCGTGTAACCAAAAAGAAAAAAAAGTTAAT
1 TAATTGGTTCATGTAACC-AAAAGAAAAAAAAGTTAAT
70713661 GGTTTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 15 0.45
36 1 0.03
38 17 0.52
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (37 bp):
TAATTGGTTCATGTAACCAAAAGAAAAAAAAGTTAAT
Found at i:70714226 original size:53 final size:53
Alignment explanation
Indices: 70714146--70714251 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
70714136 ATTTAACTTC
70714146 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
1 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
70714199 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
1 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
70714252 AAGATTTGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.32
Consensus pattern (53 bp):
TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
Found at i:70736396 original size:16 final size:16
Alignment explanation
Indices: 70736377--70736409 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
70736367 TAACAAGAGT
70736377 AACCAATAACTCAATC
1 AACCAATAACTCAATC
70736393 AACCAATAACTCAATC
1 AACCAATAACTCAATC
70736409 A
1 A
70736410 TCATTTTTTC
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:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (16 bp):
AACCAATAACTCAATC
Found at i:70739194 original size:35 final size:35
Alignment explanation
Indices: 70739120--70739195 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
70739110 TGATTTGCAT
* * *
70739120 ATCTGTATCTGAAATGGGCTCAAGCCTGAATCTGT
1 ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
* * * *
70739155 ATCTGTATCTGACATGGGCCCAGGCCCGATTGTGA
1 ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
70739190 ATCTGT
1 ATCTGT
70739196 TTGATTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (35 bp):
ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
Found at i:70742444 original size:23 final size:22
Alignment explanation
Indices: 70742387--70742450 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 22
70742377 TTATATTTAG
*
70742387 ATATAAATATATTTATATGGAT
1 ATATAAATATATTTACATGGAT
* *
70742409 ATAATTAAGATATATTTGCATGTAT
1 AT-A-TAA-ATATATTTACATGGAT
70742434 ATATAATATATAATTTA
1 ATATAA-ATAT-ATTTA
70742451 TTTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.06
23 8 0.24
24 8 0.24
25 15 0.45
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATAAATATATTTACATGGAT
Found at i:70744891 original size:20 final size:20
Alignment explanation
Indices: 70744866--70744905 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
70744856 AAAATATTAA
70744866 TTTTTTAGTGATGTTGGTGT
1 TTTTTTAGTGATGTTGGTGT
70744886 TTTTTTAGTGATGTTGGTGT
1 TTTTTTAGTGATGTTGGTGT
70744906 GGCAACCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (20 bp):
TTTTTTAGTGATGTTGGTGT
Found at i:70755522 original size:2 final size:2
Alignment explanation
Indices: 70755515--70755544 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
70755505 CATTCCGAAG
*
70755515 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70755545 CACAAGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70756079 original size:27 final size:28
Alignment explanation
Indices: 70755998--70756092 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
70755988 GATATTGGCG
* * * *
70755998 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
70756027 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
70756055 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
70756082 CTGAGTGTGCG
1 CTAAGTGTGCG
70756093 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:70756106 original size:29 final size:27
Alignment explanation
Indices: 70756023--70756106 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
70756013 TAAATTGTAC
* *
70756023 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
70756051 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
70756078 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
70756107 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:70758156 original size:22 final size:22
Alignment explanation
Indices: 70758126--70758167 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
70758116 TTCACTATTA
*
70758126 CCAATACAATGAGTGCATTGAG
1 CCAAGACAATGAGTGCATTGAG
70758148 CCAAGACAATGAGTGCATTG
1 CCAAGACAATGAGTGCATTG
70758168 TGCACATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (22 bp):
CCAAGACAATGAGTGCATTGAG
Found at i:70767461 original size:24 final size:25
Alignment explanation
Indices: 70767417--70767486 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
70767407 ATAAATAACA
*
70767417 AAAGAGTTACAAGAAGATGAAAGAT-
1 AAAGAGTTA-AGGAAGATGAAAGATG
*
70767442 AAAGAGTTAAGGAAGATGAAAGGTG
1 AAAGAGTTAAGGAAGATGAAAGATG
*
70767467 AAAG-GTTAAGGAAGAGGAAA
1 AAAGAGTTAAGGAAGATGAAA
70767487 TGTTGAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 28 0.68
25 13 0.32
ACGTcount: A:0.53, C:0.01, G:0.31, T:0.14
Consensus pattern (25 bp):
AAAGAGTTAAGGAAGATGAAAGATG
Found at i:70768408 original size:11 final size:11
Alignment explanation
Indices: 70768394--70768457 Score: 76
Period size: 11 Copynumber: 5.9 Consensus size: 11
70768384 AATATTCCCT
*
70768394 TCAAAAATCTA
1 TCAAAATTCTA
*
70768405 TCAAATTTC-A
1 TCAAAATTCTA
* * *
70768415 TCAAATTTTTC
1 TCAAAATTCTA
70768426 TCAAAATTCTA
1 TCAAAATTCTA
70768437 TCAAAATTCTA
1 TCAAAATTCTA
70768448 TCAAAATTCT
1 TCAAAATTCT
70768458 TTGTTTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 9 0.20
11 36 0.80
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:70768699 original size:48 final size:47
Alignment explanation
Indices: 70768591--70768723 Score: 162
Period size: 47 Copynumber: 2.8 Consensus size: 47
70768581 AGTAATAATT
* * *
70768591 TTAAATTTTCAATACTATTAGATATTTTTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATTTGATATTTTTTCATTTATGCAAATTTAA
70768638 TT-AAATTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAAATTT-CAATACTATTTGATATTTT-TTCATTTATGCAAATT-TAA
* ** *
70768686 TTAAAATTTCAATATTGCTTGATTTTTTTTCATTTATG
1 TTAAAATTTCAATACTATTTGATATTTTTTCATTTATG
70768724 ATGTTTGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
46 5 0.07
47 34 0.45
48 30 0.40
49 6 0.08
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.53
Consensus pattern (47 bp):
TTAAAATTTCAATACTATTTGATATTTTTTCATTTATGCAAATTTAA
Found at i:70769717 original size:7 final size:7
Alignment explanation
Indices: 70769705--70769737 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
70769695 TAGTCGTTTC
70769705 GTATTTA
1 GTATTTA
70769712 GTATTTA
1 GTATTTA
70769719 GTATTTA
1 GTATTTA
70769726 GTATTTA
1 GTATTTA
70769733 GTATT
1 GTATT
70769738 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:70769743 original size:14 final size:14
Alignment explanation
Indices: 70769712--70769757 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
70769702 TTCGTATTTA
70769712 GTATTTAGTATT-T
1 GTATTTAGTATTAT
70769725 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
*
70769740 GTA-TTATGTATTAC
1 GTATTTA-GTATTAT
70769754 GTAT
1 GTAT
70769758 ATAAGAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 24 0.86
15 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.54
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:70774269 original size:125 final size:126
Alignment explanation
Indices: 70773875--70774376 Score: 801
Period size: 126 Copynumber: 4.0 Consensus size: 126
70773865 TTATAGCCTC
* *
70773875 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
* * *
70773940 ACAGTGTATCCTGCTTGAAGCGTTTTCGAGACTATTTGTTCAGAAACGGCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
70774001 ATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
* * * * **
70774066 ACAGTGCATCTTGCTTGAAGCGTTTTTGACACTATTTATTTAGAAATATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
70774127 ATTTTTCTACGAACTACTGTAGCAAAATAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
*
70774192 ACAGTGCATCCTAC-TGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
70774252 ATTTTTCTACGAACTACT-TAGCAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
* * *
70774316 ACAGTGTATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
70774377 GTTCTTGTAG
Statistics
Matches: 343, Mismatches: 32, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 53 0.15
125 103 0.30
126 187 0.55
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCAAAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:70774930 original size:20 final size:19
Alignment explanation
Indices: 70774905--70774975 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
70774895 ACGACTATGT
70774905 ATCAATTAACCTTAAGTTTA
1 ATCAATTAACCTTAA-TTTA
*
70774925 ATCAATTAAACTTAATTTA
1 ATCAATTAACCTTAATTTA
*
70774944 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCTTAATTTA
*
70774960 ATCAATTAACCCTAAT
1 ATCAATTAACCTTAAT
70774976 ACCCTAAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
16 13 0.29
17 1 0.02
18 1 0.02
19 16 0.36
20 14 0.31
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (19 bp):
ATCAATTAACCTTAATTTA
Found at i:70774945 original size:19 final size:20
Alignment explanation
Indices: 70774905--70774949 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
70774895 ACGACTATGT
*
70774905 ATCAATTAACCTTAAGTTTA
1 ATCAATTAAACTTAAGTTTA
70774925 ATCAATTAAACTTAA-TTTA
1 ATCAATTAAACTTAAGTTTA
70774944 ATCAAT
1 ATCAAT
70774950 CCCTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (20 bp):
ATCAATTAAACTTAAGTTTA
Found at i:70775116 original size:16 final size:16
Alignment explanation
Indices: 70775083--70775124 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
70775073 TAAAAAATCC
70775083 TAACCCT-AAATCAAT
1 TAACCCTAAAATCAAT
*
70775098 TAAACCCTAAAATC-TT
1 T-AACCCTAAAATCAAT
70775114 TAACCCTAAAA
1 TAACCCTAAAA
70775125 AACTCGGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
TAACCCTAAAATCAAT
Found at i:70776069 original size:31 final size:31
Alignment explanation
Indices: 70776034--70776103 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
70776024 TAAACCCAAT
* *
70776034 TGTGAGAATAATTACCTAATTTAAACTTT-AA
1 TGTGAAAACAATTACCTAATTTAAA-TTTCAA
70776065 TGTGAAAACAATTACCTAATTTAAATTTCAA
1 TGTGAAAACAATTACCTAATTTAAATTTCAA
*
70776096 TGTAAAAA
1 TGTGAAAA
70776104 AACCCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (31 bp):
TGTGAAAACAATTACCTAATTTAAATTTCAA
Found at i:70780892 original size:21 final size:21
Alignment explanation
Indices: 70780866--70780906 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70780856 AGACGAGCAA
* *
70780866 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
70780887 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
70780907 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:70785283 original size:24 final size:26
Alignment explanation
Indices: 70785256--70785311 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
70785246 TTGCGAGCTT
70785256 TATCTCTAT-TTT-TTTGCTCAAGTG
1 TATCTCTATCTTTGTTTGCTCAAGTG
**
70785280 TATCTC-ATCTTTGTTTGCTCATTTG
1 TATCTCTATCTTTGTTTGCTCAAGTG
70785305 TATCTCT
1 TATCTCT
70785312 TTGAGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 9 0.33
25 16 0.59
ACGTcount: A:0.14, C:0.20, G:0.11, T:0.55
Consensus pattern (26 bp):
TATCTCTATCTTTGTTTGCTCAAGTG
Found at i:70785759 original size:30 final size:32
Alignment explanation
Indices: 70785705--70785765 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
70785695 AAATATTAAC
*
70785705 ATTTTAGAAAAATCAATCTATTTTAAAATCAA
1 ATTTTAGAAAAATCAATATATTTTAAAATCAA
*
70785737 ATTTTAGTAAAA-CAA-ATATTTTAAAATCA
1 ATTTTAGAAAAATCAATATATTTTAAAATCA
70785766 TCTAAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 3 0.11
32 11 0.41
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (32 bp):
ATTTTAGAAAAATCAATATATTTTAAAATCAA
Found at i:70794246 original size:6 final size:6
Alignment explanation
Indices: 70794235--70794261 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
70794225 ACAATTATAC
70794235 CAACAT CAACAT CAACAT CAACAT CAA
1 CAACAT CAACAT CAACAT CAACAT CAA
70794262 TTTAGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
CAACAT
Found at i:70796051 original size:26 final size:24
Alignment explanation
Indices: 70796006--70796053 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
70795996 GTATCATTTT
*
70796006 TATTTGTTTTTATGTTTTTAAATA
1 TATTTGTTTTTATATTTTTAAATA
70796030 TATTTGATTTATTATATTTTTAAA
1 TATTTG-TTT-TTATATTTTTAAA
70796054 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTTAAATA
Found at i:70805540 original size:46 final size:46
Alignment explanation
Indices: 70805473--70805648 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
70805463 TATTTGGGCA
70805473 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
70805519 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
70805566 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
70805612 -CTTGAGCTCGTTGAGTTGATTCCAAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70805649 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 63 0.58
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:70805628 original size:93 final size:93
Alignment explanation
Indices: 70805469--70805641 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
70805459 GGGATATTTG
*
70805469 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
70805534 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
70805562 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
*
70805626 GTTGATTCCAAGTTCG
65 GTTGAGTCCAAGTTCG
70805642 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:70810546 original size:12 final size:12
Alignment explanation
Indices: 70810529--70810562 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
70810519 CAACCTACAT
70810529 GGTCGTGTGACA
1 GGTCGTGTGACA
*
70810541 GGTCGTGTGATA
1 GGTCGTGTGACA
70810553 GGTCGTGTGA
1 GGTCGTGTGA
70810563 AAAATGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.44, T:0.29
Consensus pattern (12 bp):
GGTCGTGTGACA
Found at i:70815323 original size:45 final size:44
Alignment explanation
Indices: 70815209--70815328 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 44
70815199 GCTTAGTACG
* * * * *
70815209 GTGTGGATTAACCATTCATTGGTGCATATAAAAGCTACTAATAT
1 GTGTGGATAAACCACTCATTGGTGCAGATAAAACCTACTAATAC
* *
70815253 G-GTGAATAAACCACTCATTGTTGCAGATAAAACCTGA-TAATAC
1 GTGTGGATAAACCACTCATTGGTGCAGATAAAACCT-ACTAATAC
*
70815296 GATGTGGATAAACCACTCAATGGTGCAGATAAA
1 G-TGTGGATAAACCACTCATTGGTGCAGATAAA
70815329 CTGCTCACAC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 34 0.54
44 2 0.03
45 27 0.43
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (44 bp):
GTGTGGATAAACCACTCATTGGTGCAGATAAAACCTACTAATAC
Found at i:70817330 original size:16 final size:17
Alignment explanation
Indices: 70817297--70817335 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
70817287 AAATGCTCTT
*
70817297 TTTTTTATTGTTAAATA
1 TTTTTTATTATTAAATA
*
70817314 TTTTTTATTATT-TATA
1 TTTTTTATTATTAAATA
70817330 TTTTTT
1 TTTTTT
70817336 TACTGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTATTATTAAATA
Found at i:70821984 original size:26 final size:26
Alignment explanation
Indices: 70821955--70822062 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
70821945 TGGTACAAAT
70821955 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
70821981 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
70822007 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
70822033 TGATAATGGTTTAAGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
70822059 TGAT
1 TGAT
70822063 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:70829048 original size:26 final size:26
Alignment explanation
Indices: 70829029--70829126 Score: 160
Period size: 26 Copynumber: 3.8 Consensus size: 26
70829019 TGATAATAAG
*
70829029 TTAGGCAAATGTTCCATGATAATGGA
1 TTAGGTAAATGTTCCATGATAATGGA
* *
70829055 TTAGGTAAATATTCCATGATAATGGG
1 TTAGGTAAATGTTCCATGATAATGGA
*
70829081 TTAGGTAAATGTTCCATGATAATGGT
1 TTAGGTAAATGTTCCATGATAATGGA
70829107 TTAGGTAAATGTTCCATGAT
1 TTAGGTAAATGTTCCATGAT
70829127 GGGCATTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TTAGGTAAATGTTCCATGATAATGGA
Found at i:70832473 original size:9 final size:8
Alignment explanation
Indices: 70832448--70832483 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
70832438 TTACAAATTT
70832448 AATTTAAA
1 AATTTAAA
70832456 AATTTAAA
1 AATTTAAA
70832464 AATTTAAA
1 AATTTAAA
70832472 AATTTTAAA
1 AA-TTTAAA
70832481 AAT
1 AAT
70832484 AAATTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATTTAAA
Found at i:70839419 original size:28 final size:28
Alignment explanation
Indices: 70839388--70839458 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
70839378 CGATATTTTT
*
70839388 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
*
70839416 CACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
* * *
70839444 TACACTGAGTACCAT
1 CACACTAAGTGCCAT
70839459 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCG
Found at i:70844462 original size:28 final size:28
Alignment explanation
Indices: 70844428--70844525 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
70844418 AACCGATCTT
*
70844428 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
70844456 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
70844485 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
*
70844513 ACACACACAGTGC
1 GCACACACAGTGC
70844526 CTATGTTCAC
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 34 0.62
29 21 0.38
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:70844489 original size:57 final size:57
Alignment explanation
Indices: 70844397--70844527 Score: 208
Period size: 57 Copynumber: 2.3 Consensus size: 57
70844387 TGATCTCATT
** * * *
70844397 TCACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
*
70844454 TCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
70844511 TCACACACACAGTGCCT
1 TCACACACACAGTGCCT
70844528 ATGTTCACTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.18
Consensus pattern (57 bp):
TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
Found at i:70844494 original size:29 final size:29
Alignment explanation
Indices: 70844398--70844497 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
70844388 GATCTCATTT
* *
70844398 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
70844429 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
70844457 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
70844486 CACACACAGTGC
1 CACACACAGTGC
70844498 TCGGTTACGG
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
28 19 0.37
29 26 0.50
31 7 0.13
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:70846522 original size:26 final size:26
Alignment explanation
Indices: 70846493--70846552 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
70846483 TCCCTTTGAA
* * *
70846493 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
70846519 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
70846547 CCATTC
1 TCATTC
70846553 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:70846538 original size:28 final size:28
Alignment explanation
Indices: 70846507--70846578 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
70846497 TCGATATTTT
*
70846507 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
70846535 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
70846563 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
70846579 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:70848488 original size:16 final size:17
Alignment explanation
Indices: 70848461--70848495 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
70848451 TAGAATTGAG
*
70848461 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
70848478 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
70848494 TT
1 TT
70848496 ACTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:70850014 original size:40 final size:40
Alignment explanation
Indices: 70849977--70850201 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
70849967 GCTACTCGTT
* *
70849977 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
70850017 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
70850057 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
70850096 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
70850136 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
70850177 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
70850202 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 39 0.24
40 113 0.68
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:70850088 original size:79 final size:79
Alignment explanation
Indices: 70849977--70850201 Score: 319
Period size: 79 Copynumber: 2.8 Consensus size: 79
70849967 GCTACTCGTT
* *
70849977 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
70850042 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
*
70850057 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
70850121 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * * * * *
70850136 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
70850200 GA
64 GA
70850202 CATCATTCAA
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 73 0.56
80 48 0.37
81 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:70850161 original size:119 final size:120
Alignment explanation
Indices: 70849977--70850201 Score: 323
Period size: 119 Copynumber: 1.9 Consensus size: 120
70849967 GCTACTCGTT
*
70849977 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
70850042 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* **
70850096 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
70850159 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
70850202 CATCATTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
118 3 0.03
119 70 0.74
120 21 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:70856856 original size:15 final size:16
Alignment explanation
Indices: 70856824--70856856 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
70856814 TGAAGATGGA
*
70856824 ATTTTGAATTCATTTG
1 ATTTTGAATTCATATG
70856840 ATTTTGAA-TCATATG
1 ATTTTGAATTCATATG
70856855 AT
1 AT
70856857 ACTTGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
ATTTTGAATTCATATG
Found at i:70858620 original size:33 final size:33
Alignment explanation
Indices: 70858578--70858671 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
70858568 AACACAGTGT
*
70858578 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
* *
70858611 CAGTACAATCTAGGCCTTAGCCC--TT-A--AA
1 CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
*
70858639 CAGTAGCAATATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAATCTGGGCCTAAGCCCT-ATTCAGT
70858672 CTCGACATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
28 7 0.15
29 15 0.31
30 1 0.02
31 2 0.04
32 2 0.04
33 21 0.44
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (33 bp):
CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
Found at i:70858655 original size:29 final size:28
Alignment explanation
Indices: 70858609--70858663 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
70858599 CCTATTCAGT
* *
70858609 AACAGTACAATCTAGGCCTTAGCCCTTA
1 AACAGTACAATATAGGCCTAAGCCCTTA
*
70858637 AACAGTAGCAATATGGGCCTAAGCCCT
1 AACAGTA-CAATATAGGCCTAAGCCCT
70858664 AATTCAGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (28 bp):
AACAGTACAATATAGGCCTAAGCCCTTA
Found at i:70858724 original size:31 final size:31
Alignment explanation
Indices: 70858677--70858759 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
70858667 TCAGTCTCGA
*
70858677 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGTCGAAGCCTTTTCATAAAT
70858707 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGTCGAAGCCTTTTCATAAAT
*
70858738 CATATCACTGGCT-GAAGCCTTT
1 CATATCACTGGGTCGAAGCCTTT
70858760 ACTGTAAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 14 0.28
31 36 0.72
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGTCGAAGCCTTTTCATAAAT
Found at i:70858997 original size:24 final size:25
Alignment explanation
Indices: 70858970--70859021 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
70858960 GCTTAGCCTC
*
70858970 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTCGGGCAAAGCCCT
*
70858994 TTTTGATAAACTCGGGCAAAGCCCT
1 TTTTAATAAACTCGGGCAAAGCCCT
70859019 TTT
1 TTT
70859022 CGGTAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTCGGGCAAAGCCCT
Found at i:70859005 original size:25 final size:25
Alignment explanation
Indices: 70858977--70859046 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
70858967 CTCTTTTAAT
*
70858977 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
70859002 AACTCGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
70859027 AACTGGAGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
70859047 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:70859879 original size:25 final size:28
Alignment explanation
Indices: 70859842--70859902 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
70859832 TCATATGGAA
*
70859842 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGCATATTACGGTCACTTTAC
70859867 CATACAGGG-ATATTACGGTCACTTTAC
1 CATACAGGGCATATTACGGTCACTTTAC
*
70859894 CCTACAGGG
1 CATACAGGG
70859903 GCTTTACGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 5 0.16
27 17 0.55
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
CATACAGGGCATATTACGGTCACTTTAC
Found at i:70860005 original size:27 final size:27
Alignment explanation
Indices: 70859975--70860072 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
70859965 GTAAATCTAC
70859975 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
70860002 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
70860028 AAAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
70860058 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
70860073 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.53
28 7 0.11
29 20 0.32
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:70860079 original size:27 final size:27
Alignment explanation
Indices: 70860049--70860194 Score: 127
Period size: 27 Copynumber: 5.4 Consensus size: 27
70860039 GGTATTTCTA
**
70860049 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* *
70860076 TAATTTTACAAAT-TGAGGGTATTTCGG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * *
70860103 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
70860130 TAATTTTACAAA-CTAGGGGCATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
* ** *
70860157 TAATTCTACCCTAT-AGGGGTATTTTAG
1 TAATTTTA-CAAATCAGGGGTATTTTGG
*
70860184 TAATTTCACAA
1 TAATTTTACAA
70860195 TCGAGGGTAA
Statistics
Matches: 93, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
26 3 0.03
27 87 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:70860080 original size:56 final size:54
Alignment explanation
Indices: 70859979--70860136 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 54
70859969 ATCTACAAAC
* *
70859979 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAAAAAGT
1 CAAGGGTATTTCA-TAATTTTGTAAACCAGTGGTATTT-TGGTAATTTTTAAAAA-T
* * *
70860035 CAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTACAAAT
1 CAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
** * ***
70860089 TGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTT
1 CAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
70860137 ACAAACTAGG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
54 36 0.42
55 12 0.14
56 36 0.42
57 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCATAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
Found at i:70860223 original size:27 final size:27
Alignment explanation
Indices: 70860193--70860284 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
70860183 GTAATTTCAC
*
70860193 AATCGAGGGTAAAAC-GATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
70860220 AATCGATGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** * *
70860247 AATTAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
70860274 AATCGAGGGTA
1 AATCGAGGGTA
70860285 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:70862635 original size:40 final size:40
Alignment explanation
Indices: 70862580--70862677 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
70862570 CGGTTATTTG
* *
70862580 TGGCACTTAGTGTGCGATACGATAAAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACAAAGCTTCGACTATATA
* *
70862620 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
1 TGGCACTTAGTGTGCGATACGACAAAGCTTCGACTATATA
* *
70862660 TGTCATTTAGTGTGCGAT
1 TGGCACTTAGTGTGCGAT
70862678 TTGAGATAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACAAAGCTTCGACTATATA
Found at i:70862678 original size:40 final size:40
Alignment explanation
Indices: 70862586--70862716 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
70862576 TTTGTGGCAC
* * * * * *
70862586 TTAGTGTGCGATACGATAAAGCTTCGGCTATATATGGCAC
1 TTAGTGTGCGATTCGACATAGCTTCGACTATATATGACAT
*
70862626 TTAGTGTGCGATTCGACATAGCTTCGACTATATATGTCAT
1 TTAGTGTGCGATTCGACATAGCTTCGACTATATATGACAT
* * * * *
70862666 TTAGTGTGCGATTTGAGATAGTTTC-AGCTATGTACGACAT
1 TTAGTGTGCGATTCGACATAGCTTCGA-CTATATATGACAT
70862706 TTAGTGTGCGA
1 TTAGTGTGCGA
70862717 GATATTGAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (40 bp):
TTAGTGTGCGATTCGACATAGCTTCGACTATATATGACAT
Found at i:70862741 original size:28 final size:28
Alignment explanation
Indices: 70862701--70862756 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
70862691 AGCTATGTAC
* *
70862701 GACATTTAGTGTGCGAGATATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
70862729 GACACTTAGTGTGCGAGACATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
70862757 TCGACGGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCGAGACATTGAGTAT
Found at i:70864135 original size:22 final size:23
Alignment explanation
Indices: 70864105--70864148 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
70864095 GATTTATGAG
*
70864105 AATGAATGCTTTATGTT-TGAAA
1 AATGAATGCTATATGTTGTGAAA
*
70864127 AATGCATGCTATATGTTGTGAA
1 AATGAATGCTATATGTTGTGAA
70864149 TAGATTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (23 bp):
AATGAATGCTATATGTTGTGAAA
Found at i:70882342 original size:652 final size:653
Alignment explanation
Indices: 70881099--70882414 Score: 2481
Period size: 652 Copynumber: 2.0 Consensus size: 653
70881089 ACGGGCGTGC
70881099 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
1 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
70881164 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
66 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
70881229 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
131 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
* *
70881294 TGATTGTTTGCATTTAAGTTTGGTAATTCCTTGTATCCTATCCGGGCATTGGACACGGGTAAGGG
196 TGATTGTTTGCATTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
70881359 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGATAAAGA
261 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGATAAAGA
*
70881424 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACTCGGCTGCTCAAC
326 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
70881489 AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
391 AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
*
70881554 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTTAGAGCTACTATTGAT
456 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTATTGAT
* *
70881619 GATGATCCTGAGAGAGCTGATTTTTGGCTTTAAAATACGATCCGAGTGTTTAACGAGCTTTCTTG
521 GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
**
70881684 CATGCTAGCTGAATGTTTAAAATGTGCCA-TTTTTTGTTGAGAGACACAGCATATCAATGGTGGA
586 CATGCTAGCTGAATGTTTAAAATGTGCCATTTTTTTGTTGAGAGACACAGCATATCAAAAGTGGA
70881748 ATA
651 ATA
70881751 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
1 CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
70881816 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
66 TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
70881881 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
131 TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
*
70881946 TGATTGTTTGCGTTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
196 TGATTGTTTGCATTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
* *
70882011 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCTAGGGAGGAGAGGCTAAAGA
261 GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGATAAAGA
70882076 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
326 AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
*
70882141 AACCTCCACCCCCTCCTAATCCCCAACCTGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
391 AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
*
70882206 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTGTTGAT
456 TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTATTGAT
70882271 GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
521 GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
* *
70882336 CATGCTAGCTGAATGTTTAAAGTGTGCCATTTTTTTGTTGAGAGACATAGCATATCAAAAGTGGA
586 CATGCTAGCTGAATGTTTAAAATGTGCCATTTTTTTGTTGAGAGACACAGCATATCAAAAGTGGA
70882401 ATA
651 ATA
70882404 CCTTGGTGTCT
1 CCTT-GTGTCT
70882415 GTAGTATCGA
Statistics
Matches: 647, Mismatches: 15, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
652 602 0.93
653 39 0.06
654 6 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (653 bp):
CCTTGTGTCTACACGGGCGTGTGACCCTATTTTGTGAGAAAAATTTCTAAGTTTTCCCAGAACTT
TCCAAAGTTCTCGGTTTAATCCCGGACCATTTAAAATGCATGTTATGGGCCTCGTAAGCCCATAA
TTGGGACATTATGAATATATTAGATTGGTTTTAATTTGGAACAAAATTTTATAGCTCGGATTGCA
TGATTGTTTGCATTTAAGTTCGGTAATTCCTCGTATCCTATCCGGGCATTGGACACGGGTAAGGG
GTGTTACAGACAACGCCATCTGATTCTAGGCCTGTGATGGGTAGCCAGGGAGGAGAGGATAAAGA
AGCCTTCTTCCAAATGGTGAATGAATGGTTCACTCAATACATTCGTACAAACCCGGCTGCTCAAC
AACCTCCACCCCCTCCTAATCCCCAACCCGTACCCGTAGCTCCCCAAGGAGTTGAGCTTTTAAGA
TTGAATAAGCCTCCAGTTGACAAGATCCGCAAACAGAGGCTGAAGATTTCAGAGCTACTATTGAT
GATGATCCTGAGAGAGCCGATTTTTGGCTTTAAAATACGATCCAAGTGTTTAACGAGCTTTCTTG
CATGCTAGCTGAATGTTTAAAATGTGCCATTTTTTTGTTGAGAGACACAGCATATCAAAAGTGGA
ATA
Found at i:70883493 original size:117 final size:117
Alignment explanation
Indices: 70883287--70883526 Score: 462
Period size: 117 Copynumber: 2.1 Consensus size: 117
70883277 TTATATCTGT
70883287 ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
1 ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
70883352 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
66 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
*
70883404 ATGAATTTAGTATCTAGTAAGACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
1 ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
*
70883469 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTGTTA
66 CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
70883521 ATGAAT
1 ATGAAT
70883527 CGGGATTTCT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (117 bp):
ATGAATTTAGTATCTAGTAAAACTTTGCCTGTGGAGTCTACTGAATTTGTGATTAGAGTATCGAA
CCCCTTAGGCAAATGTGTTTTGGTTGACAAAGTCTACAAGAATTGTCTATTA
Found at i:70889057 original size:49 final size:50
Alignment explanation
Indices: 70888929--70889059 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
70888919 TATTGTGAGG
*
70888929 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGTGA
* * * * *
70888980 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTTGG
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-TGA
* *
70889029 TTGCATGTGTAGTACTAAGTGTAGGCTACTA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
70889060 TGCATACCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 5 0.07
49 29 0.42
50 2 0.03
51 33 0.48
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGTGA
Found at i:70889068 original size:49 final size:48
Alignment explanation
Indices: 70888929--70889070 Score: 167
Period size: 49 Copynumber: 2.9 Consensus size: 48
70888919 TATTGTGAGG
*
70888929 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTGA
* * * * *
70888980 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGG
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-TGA
* * *
70889029 TTGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCAGA
1 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
70889071 TAGCTTCGGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 5 0.06
49 37 0.48
50 2 0.03
51 33 0.43
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTGA
Found at i:70890916 original size:40 final size:39
Alignment explanation
Indices: 70890861--70890994 Score: 160
Period size: 40 Copynumber: 3.4 Consensus size: 39
70890851 CGATTATTTG
* * *
70890861 TGGCACTTAGTGTGCGATACGATATAGCTTTGGCAATATA
1 TGGCACTTAGTGTGCGATTCGACATAG-TTTGGCTATATA
70890901 TGGCACTTAGTGTGCGATTCGACATAGTTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGTTT-GGCTATATA
* * * *
70890941 TGGCACTTCGTGTGCGATTTGAGATAGTTTTGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAG-TTTGGCTATATA
* *
70890981 CGACACTTAGTGTG
1 TGGCACTTAGTGTG
70890995 AGAGCTATTG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 76 0.93
41 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (39 bp):
TGGCACTTAGTGTGCGATTCGACATAGTTTGGCTATATA
Found at i:70893837 original size:21 final size:21
Alignment explanation
Indices: 70893811--70893850 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
70893801 GCAATTTTAT
70893811 AATTAAA-TGGAAATTAAAATA
1 AATTAAAGT-GAAATTAAAATA
70893832 AATTAAAGTGAAATTAAAA
1 AATTAAAGTGAAATTAAAA
70893851 CATTTTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (21 bp):
AATTAAAGTGAAATTAAAATA
Found at i:70894827 original size:35 final size:35
Alignment explanation
Indices: 70894771--70894934 Score: 130
Period size: 35 Copynumber: 4.6 Consensus size: 35
70894761 TACTCTCTGT
*
70894771 TTGGCGTGTTTCGGTTGGATTAGCTTTTTTGAGCA
1 TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
* * *
70894806 TTGGCGTGTTTTGGTTAGATTAGATCTTTTGAGCA
1 TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
** * * * * *
70894841 TTTACGTGTTTTTGTTGGACTAACTTTTGTGAGTA
1 TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
* ** * * * *
70894876 CTTGGTGTGTTTTGGAGGGATTGGGTTGTATGAGCA
1 -TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
* *
70894912 TTTGGCGTGTTATGATTGGATTA
1 -TTGGCGTGTTTTGGTTGGATTA
70894935 TCGATGTACT
Statistics
Matches: 94, Mismatches: 34, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
35 56 0.60
36 38 0.40
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (35 bp):
TTGGCGTGTTTTGGTTGGATTAGCTTTTTTGAGCA
Found at i:70897730 original size:18 final size:19
Alignment explanation
Indices: 70897707--70897742 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
70897697 AACTTGGCAT
*
70897707 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
70897725 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
70897743 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:70898072 original size:30 final size:30
Alignment explanation
Indices: 70898038--70898098 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
70898028 TCCTTAACTC
70898038 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
70898068 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
70898098 A
1 A
70898099 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:70907164 original size:28 final size:27
Alignment explanation
Indices: 70907136--70907223 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
70907126 GTGACATAGT
*
70907136 CACCAGATACAGATATTTGTGGCAGAGT
1 CACCAGA-ACAGATATTTGTGGCAGAGC
* * *
70907164 CACCAAAATAGATATTTGTGGTAGAGC
1 CACCAGAACAGATATTTGTGGCAGAGC
* * *
70907191 CACCATAACAGATAATTGTGGCATAGC
1 CACCAGAACAGATATTTGTGGCAGAGC
70907218 CACCAG
1 CACCAG
70907224 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 44 0.88
28 6 0.12
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGAGC
Found at i:70914988 original size:27 final size:27
Alignment explanation
Indices: 70914958--70915035 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
70914948 GTCACCACAT
70914958 ACAGATATTTGTGGCAGAGCCACCAAA
1 ACAGATATTTGTGGCAGAGCCACCAAA
* *
70914985 ACAGATATTTGTGGTAGAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAAA
*
70915012 ACAGATA-TTGTGGCATAGCCACCA
1 ACAGATATTTGTGGCAGAGCCACCA
70915036 GGACGCTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 15 0.32
27 32 0.68
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGAGCCACCAAA
Found at i:70916291 original size:18 final size:18
Alignment explanation
Indices: 70916254--70916323 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
70916244 GTTCGGCTAT
70916254 AGAAGAAAA-AGCAA-AGA
1 AGAAGAAAAGAG-AATAGA
70916271 AGAAGAAAAGAGAATAGA
1 AGAAGAAAAGAGAATAGA
* * * *
70916289 AGATGAGAGGAGAAAAGA
1 AGAAGAAAAGAGAATAGA
* *
70916307 AAAAGAGAAGAGAATAG
1 AGAAGAAAAGAGAATAG
70916324 TCAAAACCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
17 11 0.26
18 32 0.74
ACGTcount: A:0.64, C:0.01, G:0.30, T:0.04
Consensus pattern (18 bp):
AGAAGAAAAGAGAATAGA
Found at i:70925700 original size:40 final size:40
Alignment explanation
Indices: 70925640--70925737 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
70925630 CGGAAGTTTT
*
70925640 GGCACTAAGTGTGCGATTTAAATTAGCTTCGGCTACTTGA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTACTTGA
* *
70925680 GGCACTAAGTGTGTGCTTTAAACTAGCTTCGGCTACTTGA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTACTTGA
70925720 GGCACTAAGTGTGCGATT
1 GGCACTAAGTGTGCGATT
70925738 CTGACTTAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTACTTGA
Found at i:70931185 original size:73 final size:73
Alignment explanation
Indices: 70931066--70931210 Score: 211
Period size: 73 Copynumber: 2.0 Consensus size: 73
70931056 AACAATAGAT
*
70931066 AAATAAAAGAGACTTGATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAAT
1 AAATAAAAGAGACTTCATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAAT
70931131 GGTTAAGA
66 GGTTAAGA
* ** * * *
70931139 AAAT-AAAGAAGACTTCATAGATTTTGAAATGTTGATGTCCAAAGGATCTTGCAACCTAACATAC
1 AAATAAAAG-AGACTTCATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAA
70931203 TGGTTAAG
65 TGGTTAAG
70931211 TCAGGTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
72 4 0.06
73 60 0.94
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (73 bp):
AAATAAAAGAGACTTCATAGAGTTCAAAATGTTGATGTACAAAGGATCTCGCAACCTAACATAAT
GGTTAAGA
Found at i:70933963 original size:22 final size:21
Alignment explanation
Indices: 70933927--70933969 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
70933917 GAAAGTAAAA
* *
70933927 TTTAATTAATTTATATAATAT
1 TTTAATTAATATATAAAATAT
70933948 TTTAATATAATATATAAAATAT
1 TTTAAT-TAATATATAAAATAT
70933970 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTAATATATAAAATAT
Found at i:70933982 original size:13 final size:14
Alignment explanation
Indices: 70933939--70933982 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
70933929 TAATTAATTT
70933939 ATATAATATTTT-A
1 ATATAATATTTTAA
* *
70933952 ATATAATATATAAA
1 ATATAATATTTTAA
70933966 ATATAA-ATTTTAA
1 ATATAATATTTTAA
70933979 ATAT
1 ATAT
70933983 CATTTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATAATATTTTAA
Found at i:70934155 original size:31 final size:31
Alignment explanation
Indices: 70933943--70934156 Score: 88
Period size: 31 Copynumber: 6.6 Consensus size: 31
70933933 TAATTTATAT
* *
70933943 AATATTTTAATATAATATATAAAATATAAATTTTA
1 AATAATTTAATATAATA-AT-AAAT-TATA-TTTA
70933978 AATATCATTTAA-ATAATTAATATAATT-TATTTGA
1 AATA--ATTTAATATAA-TAATA-AATTATATTT-A
*
70934012 AA-AA-TTAATGAT-AT-ATAAAATAT-TTTA
1 AATAATTTAAT-ATAATAATAAATTATATTTA
* * *
70934039 AA-ATTTTAAATATAATGATAAATTATATTGA
1 AATAATTT-AATATAATAATAAATTATATTTA
* * * * *
70934070 AA-ATTTTAATAAAATGATATTTGTGAATAACATTTA
1 AATAATTTAATATAAT-A-A----TAAATTATATTTA
*
70934106 AATAATTTAACT-TGATAATAAATTATATTTA
1 AATAATTTAA-TATAATAATAAATTATATTTA
70934137 AATAATTTAATATAATAATA
1 AATAATTTAATATAATAATA
70934157 CAAAAATATA
Statistics
Matches: 138, Mismatches: 19, Indels: 48
0.67 0.09 0.23
Matches are distributed among these distances:
27 4 0.03
28 10 0.07
29 9 0.07
30 21 0.15
31 39 0.28
32 3 0.02
33 4 0.03
34 4 0.03
35 7 0.05
36 21 0.15
37 15 0.11
38 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (31 bp):
AATAATTTAATATAATAATAAATTATATTTA
Found at i:70934500 original size:16 final size:17
Alignment explanation
Indices: 70934467--70934500 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
70934457 TATTCTCTCA
*
70934467 ATTCTCTTAAATTATTT
1 ATTCTCTTAAACTATTT
70934484 ATTCTCTT-AACTATTT
1 ATTCTCTTAAACTATTT
70934500 A
1 A
70934501 GTTCCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTCTTAAACTATTT
Found at i:70936517 original size:30 final size:29
Alignment explanation
Indices: 70936460--70936517 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
70936450 CTCATCAATA
* **
70936460 TTCAATTTCCACATACATGTATTTATCAC
1 TTCAATTTCCACAAACATGTACATATCAC
*
70936489 TTCAATTGTCCATAAACATGTACATATCA
1 TTCAATT-TCCACAAACATGTACATATCA
70936518 TATCTTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (29 bp):
TTCAATTTCCACAAACATGTACATATCAC
Found at i:70936724 original size:27 final size:27
Alignment explanation
Indices: 70936684--70936809 Score: 107
Period size: 27 Copynumber: 4.8 Consensus size: 27
70936674 AATGCTCATA
70936684 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGGGAAGCTCTCTCT
* *
70936711 CGAGCCATATAACGAGAAACTCTCTCT
1 CGAGCCATATAACGGGAAGCTCTCTCT
* * * * *
70936738 TGAGCCGTTTAACGAGAAACTCTCTCT
1 CGAGCCATATAACGGGAAGCTCTCTCT
* * * *
70936765 TGAGCCATATAACAGAAAG--CTCTGT
1 CGAGCCATATAACGGGAAGCTCTCTCT
*
70936790 -GAGCCATGTAACGGGAAGCT
1 CGAGCCATATAACGGGAAGCT
70936810 TATCTGGGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
24 15 0.19
25 5 0.06
26 4 0.05
27 57 0.70
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (27 bp):
CGAGCCATATAACGGGAAGCTCTCTCT
Found at i:70936762 original size:29 final size:27
Alignment explanation
Indices: 70936684--70936787 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
70936674 AATGCTCATA
* *
70936684 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGAGAAACTCTCTCT
70936711 CGAGCCATATAACGAGAAACTCTCTCT
1 CGAGCCATATAACGAGAAACTCTCTCT
* * *
70936738 TGAGCCGTTTAACGAGAAACTCTCTCT
1 CGAGCCATATAACGAGAAACTCTCTCT
*
70936765 TGAGCCATATAAC-AGAAAGCTCT
1 CGAGCCATATAACGAGAAA-CTCT
70936788 GTGAGCCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.13
27 59 0.87
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (27 bp):
CGAGCCATATAACGAGAAACTCTCTCT
Found at i:70939303 original size:46 final size:46
Alignment explanation
Indices: 70939219--70939479 Score: 233
Period size: 46 Copynumber: 5.6 Consensus size: 46
70939209 TATCGTAGCC
* * *
70939219 GATGCATGTCTCAGACATGTCTTACATTAG-CTTACGTCTCGAGGTC-
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCGAGG-CA
* *
70939265 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGGCA
* * * * * * *
70939311 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTCGAGGCA
* *
70939359 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGGCA
* * * * * * *
70939405 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTCGAGGCA
70939453 GATGCATGTCCCAGACATGTCTTACAC
1 GATGCATGTCCCAGACATGTCTTACAC
70939480 CAGCTCACAC
Statistics
Matches: 173, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 71 0.41
47 54 0.31
48 44 0.25
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAGGCA
Found at i:70939367 original size:94 final size:94
Alignment explanation
Indices: 70939265--70939479 Score: 430
Period size: 94 Copynumber: 2.3 Consensus size: 94
70939255 TCTCGAGGTC
70939265 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCAGATGCCATGCCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCAGATGCCATGCCCCAGACAT
70939330 GGTCTTACACTGGCTCTCATAATGTGGCT
66 GGTCTTACACTGGCTCTCATAATGTGGCT
70939359 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCAGATGCCATGCCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCAGATGCCATGCCCCAGACAT
70939424 GGTCTTACACTGGCTCTCATAATGTGGCT
66 GGTCTTACACTGGCTCTCATAATGTGGCT
70939453 GATGCATGTCCCAGACATGTCTTACAC
1 GATGCATGTCCCAGACATGTCTTACAC
70939480 CAGCTCACAC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 121 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCAGATGCCATGCCCCAGACAT
GGTCTTACACTGGCTCTCATAATGTGGCT
Found at i:70939381 original size:140 final size:142
Alignment explanation
Indices: 70939171--70939434 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 142
70939161 ATCTCAAGTC
* * * *
70939171 GATGCCATGTCCCAAATATGGTCTTACACTGATTATCATATCGTAGCCGATGCATGTCTCAGACA
1 GATGCCATGCCCCAAACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACA
* * * *
70939236 TGTCTTACATTAG-CTTACGTCTCGAGGTC-GATG-CATGTCCCAGACAT-GTCTTACACTAGCC
66 TGTCTTACACTAGCCCT-CGTCTCAAGG-CAGATGCCATGCCCCAGACATGGTCTTACACTAGCC
70939297 CTCGTCTCAATGCA
129 CTCGTCTCAATGCA
* * * * *
70939311 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGAC
1 GATGCCATGCCCCAAACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGAC
*
70939375 ATGTCTTACACTAGCCCTCGTCTCAATGCAGATGCCATGCCCCAGACATGGTCTTACACT
65 ATGTCTTACACTAGCCCTCGTCTCAAGGCAGATGCCATGCCCCAGACATGGTCTTACACT
70939435 GGCTCTCATA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
139 1 0.01
140 77 0.73
141 17 0.16
142 10 0.10
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (142 bp):
GATGCCATGCCCCAAACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCCCTCGTCTCAAGGCAGATGCCATGCCCCAGACATGGTCTTACACTAGCCCT
CGTCTCAATGCA
Found at i:70943262 original size:136 final size:136
Alignment explanation
Indices: 70943018--70943287 Score: 506
Period size: 136 Copynumber: 2.0 Consensus size: 136
70943008 TATGCTATCA
70943018 CAGATCTATCAGATACACATACAGTTCAGTATACATGCTTATATATATAACATGCTCAGTACATA
1 CAGATCTATCAGATACACATACAGTTCAGTATACATGCTTATATATATAACATGCTCAGTACATA
* *
70943083 ATTCACATAGATACTTTCGCACAAATAAGGGTCTAAGTAGTGCTT-GTCGACCCTACGGAAGGTT
66 ATTCACATAGATACTTTCGCACAAATAAGGGTCTAAGTAGTGCTTACT-GACCCTACGAAAGGTT
70943147 CACAGTT
130 CACAGTT
70943154 CAGATCTATCAGATACACATACAGTTCAGTATACATGCTTATATATATAACATGCTCAGTACATA
1 CAGATCTATCAGATACACATACAGTTCAGTATACATGCTTATATATATAACATGCTCAGTACATA
70943219 ATTCACATAGATACTTTCGCACAAATAAGGGTCTAAGTAGTGCTTACTGACCCTACGAAAGGTTC
66 ATTCACATAGATACTTTCGCACAAATAAGGGTCTAAGTAGTGCTTACTGACCCTACGAAAGGTTC
70943284 ACAG
131 ACAG
70943288 CCGACTTGGG
Statistics
Matches: 131, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
136 130 0.99
137 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (136 bp):
CAGATCTATCAGATACACATACAGTTCAGTATACATGCTTATATATATAACATGCTCAGTACATA
ATTCACATAGATACTTTCGCACAAATAAGGGTCTAAGTAGTGCTTACTGACCCTACGAAAGGTTC
ACAGTT
Found at i:70946932 original size:17 final size:18
Alignment explanation
Indices: 70946910--70946943 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70946900 CTATCCTCGG
70946910 TAATGGAT-ACTTGTTCT
1 TAATGGATAACTTGTTCT
*
70946927 TAATGGTTAACTTGTTC
1 TAATGGATAACTTGTTC
70946944 AGTTGCCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (18 bp):
TAATGGATAACTTGTTCT
Found at i:70954384 original size:15 final size:15
Alignment explanation
Indices: 70954364--70954405 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
70954354 GTTTGATAAA
70954364 CTGAAAAATTAAATG
1 CTGAAAAATTAAATG
**
70954379 CTGAAAAAAGAAATG
1 CTGAAAAATTAAATG
*
70954394 TTGAAAAATTAA
1 CTGAAAAATTAA
70954406 GTATTGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (15 bp):
CTGAAAAATTAAATG
Found at i:70954415 original size:14 final size:15
Alignment explanation
Indices: 70954394--70954428 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
70954384 AAAAGAAATG
*
70954394 TTGAAAAATTAAGTA
1 TTGAAAATTTAAGTA
70954409 TTGAAAATTTAAGTA
1 TTGAAAATTTAAGTA
70954424 TTGAA
1 TTGAA
70954429 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (15 bp):
TTGAAAATTTAAGTA
Found at i:70958320 original size:9 final size:9
Alignment explanation
Indices: 70958306--70958355 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
70958296 ATAAGTACAA
70958306 AATTAACCG
1 AATTAACCG
*
70958315 AATTAATCG
1 AATTAACCG
*
70958324 AATTAAACG
1 AATTAACCG
*
70958333 AATTACCCG
1 AATTAACCG
70958342 AATTAACCG
1 AATTAACCG
70958351 AATTA
1 AATTA
70958356 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:70958390 original size:5 final size:6
Alignment explanation
Indices: 70958375--70958415 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
70958365 AATTATATGC
70958375 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
70958416 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:70958405 original size:14 final size:13
Alignment explanation
Indices: 70958375--70958412 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
70958365 AATTATATGC
70958375 TTTTTATTTTT-A
1 TTTTTATTTTTAA
70958387 TTTTTATTTTTAGA
1 TTTTTATTTTTA-A
70958401 TTTTTATTTTTA
1 TTTTTATTTTTA
70958413 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:70963654 original size:40 final size:40
Alignment explanation
Indices: 70963599--70964027 Score: 786
Period size: 40 Copynumber: 10.7 Consensus size: 40
70963589 TGAGCATTGG
70963599 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963639 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963679 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963719 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963759 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963799 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963839 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
70963879 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
70963919 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
70963959 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
70963999 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
70964028 ATGTGTTTGC
Statistics
Matches: 379, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 379 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:70969174 original size:9 final size:9
Alignment explanation
Indices: 70969155--70969191 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
70969145 TGAGTTTTCG
70969155 AATTCGAAT
1 AATTCGAAT
70969164 AACTT-GAAT
1 AA-TTCGAAT
70969173 AATTCGAAT
1 AATTCGAAT
70969182 AATTCGAAT
1 AATTCGAAT
70969191 A
1 A
70969192 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:70969715 original size:23 final size:23
Alignment explanation
Indices: 70969684--70969729 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
70969674 TTTATTTATA
70969684 TATACTATTTATATTATTAAATT
1 TATACTATTTATATTATTAAATT
* *
70969707 TATATTATTTATATTATTGAATT
1 TATACTATTTATATTATTAAATT
70969730 GTTTAGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TATACTATTTATATTATTAAATT
Found at i:70972544 original size:30 final size:30
Alignment explanation
Indices: 70972487--70972544 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
70972477 TTTTCGAGCA
**
70972487 TAGGGGCAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
70972517 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
70972545 ACGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:70972951 original size:47 final size:48
Alignment explanation
Indices: 70972869--70973125 Score: 161
Period size: 47 Copynumber: 5.6 Consensus size: 48
70972859 TTTGTGCACT
* * * *
70972869 AGTGTAAGACGTGTCTGGGACAT-GCTTCAGCCACAG-TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
* *
70972915 AGTGTAAGACCATGTTTGGGACATGGCATC-GACACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
* * * * * * *
70972963 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTC-GACATGGATAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGAT-GAGAGCC
* * * *
70973010 AGAGTAAGACATGTCTGGGACAT-GCATCAG---C-----TTA-TGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
* * * *
70973048 AGTGTAAGACATGTCTAGGACAT-GCATCAG-CACGCGTATATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGACAC-AG-AGATGAGAGCC
70973096 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
70973126 GGTAATATAA
Statistics
Matches: 169, Mismatches: 25, Indels: 30
0.75 0.11 0.13
Matches are distributed among these distances:
38 31 0.18
39 1 0.01
40 2 0.01
44 1 0.01
46 17 0.10
47 67 0.40
48 32 0.19
49 13 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGACACAGAGATGAGAGCC
Found at i:70979606 original size:29 final size:30
Alignment explanation
Indices: 70979551--70979607 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
70979541 TTTTCGAGCA
**
70979551 TAGGGGCAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
70979581 TAGGGGC-AAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
70979608 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:70980057 original size:47 final size:46
Alignment explanation
Indices: 70979947--70980211 Score: 175
Period size: 47 Copynumber: 5.7 Consensus size: 46
70979937 TGATTTGTGC
* * ** * * *
70979947 GCCAGTATAAGACGTGTCTCAGACATGCTTCGGCCACAG-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGT
*
70979993 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGT
* * ** *
70980041 GCCAGTGTAAGACATGTTTGGGACATGCATTGGC-C-TCGATAGGGAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGAT-GAG-T
* * * *
70980087 AGCCAGAGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAG-T-TGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGT
* ** * * *
70980132 GCTAGTGTAAGACATGTCTGGGACATGCATCAACACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AG-AGATGAGT
70980180 GCCAGTGTAAGACCATGTCT-GGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
70980212 AGCAATATAA
Statistics
Matches: 172, Mismatches: 31, Indels: 29
0.74 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 5 0.03
46 21 0.12
47 59 0.34
48 42 0.24
49 13 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGT
Found at i:70983844 original size:31 final size:33
Alignment explanation
Indices: 70983776--70983847 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
70983766 CCGTGTGGCC
70983776 CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
1 CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
* * ** *
70983809 CACACTGCCTAAATTGGTCGAGCCTGTGTGTCA
1 CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
70983842 CACACG
1 CACACG
70983848 ACCTCGCTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (33 bp):
CACACGGCCCAAATTGGTCGAGCCCATGTGTCG
Found at i:70988002 original size:30 final size:30
Alignment explanation
Indices: 70987968--70988028 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
70987958 ATAAGTATGT
*
70987968 GTGATTAATCTTTAAGTGATATCGATTGTA
1 GTGATTAATCTTTAAGGGATATCGATTGTA
*
70987998 GTGATTAATGTTTAAGGGATATCGATTGTA
1 GTGATTAATCTTTAAGGGATATCGATTGTA
70988028 G
1 G
70988029 GTTTGGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (30 bp):
GTGATTAATCTTTAAGGGATATCGATTGTA
Found at i:70988376 original size:28 final size:28
Alignment explanation
Indices: 70988340--70988428 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
70988330 GTGAGCATGA
* * *
70988340 ATATCAATGTAACTGGGCCTAATGGGGC
1 ATATAAATGTAATTGGGCCTAATGGGCC
*
70988368 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGT-AATTGGGCCTAATGGGCC
* * * *
70988397 ATATATAGGTGATTGGGCCTAATGGGCT
1 ATATAAATGTAATTGGGCCTAATGGGCC
70988425 ATAT
1 ATAT
70988429 GAATATGATT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 28 0.55
29 23 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
ATATAAATGTAATTGGGCCTAATGGGCC
Found at i:70988390 original size:29 final size:28
Alignment explanation
Indices: 70988353--70988428 Score: 107
Period size: 29 Copynumber: 2.7 Consensus size: 28
70988343 TCAATGTAAC
* *
70988353 TGGGCCTAATGGGGCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGA-T
*
70988382 TGGGCCTAATGGGCCATATATAGGTGAT
1 TGGGCCTAATGGGCCATATAAAGGTGAT
*
70988410 TGGGCCTAATGGGCTATAT
1 TGGGCCTAATGGGCCATAT
70988429 GAATATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAAGGTGAT
Found at i:70988437 original size:28 final size:26
Alignment explanation
Indices: 70988353--70988438 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 26
70988343 TCAATGTAAC
*
70988353 TGGGCCTAATGGGGCATATAAATGTGATT
1 TGGGCCTAAT-GGGCATAT-AATATGA-T
70988382 TGGGCCTAATGGGCCATAT-ATAGGTGAT
1 TGGGCCTAATGGG-CATATAATA--TGAT
70988410 TGGGCCTAATGGGCTATATGAATATGAT
1 TGGGCCTAATGGGC-ATAT-AATATGAT
70988438 T
1 T
70988439 AGGCTTAGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.06
28 26 0.52
29 18 0.36
30 3 0.06
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (26 bp):
TGGGCCTAATGGGCATATAATATGAT
Found at i:70993388 original size:40 final size:39
Alignment explanation
Indices: 70993330--70993408 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
70993320 ACTTAATTCA
* * * *
70993330 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCAGATACAATC
* *
70993370 CCAGCATGAAGCGAGCGGGTCTCTAACCCAGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAACCCAGATACAATC
70993409 TCCGCACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCAGATACAATC
Found at i:70993635 original size:47 final size:47
Alignment explanation
Indices: 70993486--70993641 Score: 156
Period size: 47 Copynumber: 3.3 Consensus size: 47
70993476 TGCACACTTT
* * * * *
70993486 TCACAATTGGTCATTCGGCCTTGTCACATGT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTCCACAT-TCA
** * * **
70993532 TCACATTAACCATCCGGCCTTATCACATGTATGCACTTCCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTCCACATTCA
*
70993579 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTCCACATTCA
*
70993626 TCACGTTGGCCATTCG
1 TCACATTGGCCATTCG
70993642 ATCTTAAGCC
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 21 0.23
46 5 0.05
47 66 0.72
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTCCACATTCA
Found at i:70993948 original size:41 final size:41
Alignment explanation
Indices: 70993886--70993969 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
70993876 CGACTGCTTT
* *
70993886 CTCTTTCCCCTTATCTTATTTAGATCCTCTATGCTCTTGAG
1 CTCTTTCCCCTTATCTGATTTAGATCCTCTATGCTCTTAAG
*
70993927 CTCTTTCCCTTTATCTGATTTAGATCCTCTATGCTCTTAAG
1 CTCTTTCCCCTTATCTGATTTAGATCCTCTATGCTCTTAAG
70993968 CT
1 CT
70993970 TAATAAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.15, C:0.29, G:0.10, T:0.46
Consensus pattern (41 bp):
CTCTTTCCCCTTATCTGATTTAGATCCTCTATGCTCTTAAG
Found at i:70997077 original size:28 final size:28
Alignment explanation
Indices: 70996979--70997080 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
70996969 TGAATGTAAC
** * *
70996979 TGGGCCTAACAGGTCATATAAATGTGATT
1 TGGGCCTAATGGGCCATAT-AATATGATT
70997008 TGGGCCTAATGGGCCATAT-ATAGTTGATT
1 TGGGCCTAATGGGCCATATAATA--TGATT
70997037 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATAT-AATATGATT
* *
70997065 TGGGCTTAGTGGGCCA
1 TGGGCCTAATGGGCCA
70997081 AATACAGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.03
28 15 0.24
29 43 0.68
31 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAATATGATT
Found at i:71015415 original size:47 final size:47
Alignment explanation
Indices: 71014154--71015414 Score: 2240
Period size: 47 Copynumber: 26.8 Consensus size: 47
71014144 NNNNNNNNNC
* * *
71014154 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
*
71014201 GTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014248 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014295 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014342 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014389 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014436 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014483 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014530 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014577 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014624 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014671 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014718 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014765 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014812 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014859 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014906 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71014953 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
71015000 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
*
71015047 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-G
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
* * * *
71015093 TGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATAT
1 -GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
* * *
71015141 GTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
*
71015188 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-G
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
* * * *
71015234 TATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 -GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
*
71015282 GTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
* *
71015329 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
* * * * * *
71015376 GTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGT
1 GTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGT
71015415 GCATAAATGT
Statistics
Matches: 1178, Mismatches: 31, Indels: 10
0.97 0.03 0.01
Matches are distributed among these distances:
46 6 0.01
47 1172 0.99
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAG
Found at i:71015618 original size:37 final size:37
Alignment explanation
Indices: 71015555--71015628 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
71015545 TCTAAAGGCC
* *
71015555 CGATGACTACGTGTGGGAATTTTGTCCGGGTAAGACT
1 CGATAACTACGTGTGGGAATTATGTCCGGGTAAGACT
*
71015592 CGATAACTTCGTGT-GGAGATTATGTCCGGGTAAGACT
1 CGATAACTACGTGTGGGA-ATTATGTCCGGGTAAGACT
71015629 TCGTAATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (37 bp):
CGATAACTACGTGTGGGAATTATGTCCGGGTAAGACT
Found at i:71017533 original size:43 final size:43
Alignment explanation
Indices: 71017485--71017630 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
71017475 TTGGTTTTCA
71017485 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
71017528 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
71017571 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
71017614 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
71017631 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:71017651 original size:29 final size:29
Alignment explanation
Indices: 71017612--71017685 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
71017602 GTTGTGAGAT
* *
71017612 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
71017641 TGGCACCAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
71017670 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71017686 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Done.