Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 100 of 292
Found at i:30629804 original size:40 final size:39
Alignment explanation
Indices: 30629639--30629817 Score: 137
Period size: 40 Copynumber: 4.5 Consensus size: 39
30629629 AAATTGAATG
* * *
30629639 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30629679 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30629719 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30629759 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* *
30629798 GATATCCGGGTTAAGTCCCG
1 -ATATCCGGGCTAAGACCCG
30629818 TTAGGCCTTG
Statistics
Matches: 109, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 100 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30639296 original size:40 final size:39
Alignment explanation
Indices: 30639131--30639314 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
30639121 AAATTGAATG
* * *
30639131 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30639171 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30639211 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30639251 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
30639290 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30639315 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30639339 original size:80 final size:81
Alignment explanation
Indices: 30639171--30639359 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
30639161 GCTGGAAATT
* * * *
30639171 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
30639236 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
30639252 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
30639315 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
30639331 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
30639360 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:30644766 original size:53 final size:53
Alignment explanation
Indices: 30644588--30644791 Score: 201
Period size: 53 Copynumber: 3.8 Consensus size: 53
30644578 AGGGTTTAAG
* * * * * *
30644588 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * ** * ** * *
30644642 GAAATCATGTAAGACCATGTTAAGACATGGCATTTATAAACTACGATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * *
30644697 GATCCCATGTAAGACCATGTCAAGGCATGGCAATGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
*
30644750 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
30644792 TAAAAAGTAA
Statistics
Matches: 119, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 47 0.39
54 33 0.28
55 39 0.33
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:30656562 original size:40 final size:40
Alignment explanation
Indices: 30656387--30656553 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
30656377 TTCGAATGAT
*
30656387 ATCCGGGTTAATTCCCGAAGGCATTTGTGTGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
30656427 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
30656467 ATACGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
30656507 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
30656548 A-CCGGG
1 ATCCGGG
30656554 CTATGTCCCA
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 114 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:30656592 original size:80 final size:80
Alignment explanation
Indices: 30656417--30656580 Score: 197
Period size: 80 Copynumber: 2.0 Consensus size: 80
30656407 GCATTTGTGT
* * * * *
30656417 GAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATACGGGTTAATTCC
1 GAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATACGGGCTAATTCC
* * ***
30656482 CGAAGGCAATTGTGC
66 CAAAGACAATCAAGC
*
30656497 GAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGT
1 GAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTA-AATACGGGCTAAT-T
30656560 CCCAAAGACAATCAAGC
64 CCCAAAGACAATCAAGC
30656577 GAGT
1 GAGT
30656581 AGCTATATCC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
79 2 0.03
80 67 0.94
81 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (80 bp):
GAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTAAATACGGGCTAATTCC
CAAAGACAATCAAGC
Found at i:30663634 original size:80 final size:81
Alignment explanation
Indices: 30663477--30663670 Score: 259
Period size: 80 Copynumber: 2.4 Consensus size: 81
30663467 TTCGAATGAT
* * * *
30663477 ATCCGGGTTAATTCCCGAGGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
* *
30663542 TGTGCGAGTTACTA-A
66 TGCGCGAATTACTATA
30663557 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
*
30663622 TGCGTGAATTACTATA
66 TGCGCGAATTACTATA
* * * *
30663638 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGT
1 ATCCGGGTTAAT-TCCCGAAGGCAATTGTGCGAGT
30663671 ATGTGACAGC
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
79 2 0.02
80 97 0.96
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
TGCGCGAATTACTATA
Found at i:30663656 original size:40 final size:40
Alignment explanation
Indices: 30663477--30663623 Score: 258
Period size: 40 Copynumber: 3.7 Consensus size: 40
30663467 TTCGAATGAT
*
30663477 ATCCGGGTTAATTCCCGAGGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
30663517 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
30663557 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
*
30663597 ATCCGGGTTAAGTCCCGAAGGCATTTG
1 ATCCGGGTTAATTCCCGAAGGCATTTG
30663624 CGTGAATTAC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:30665394 original size:38 final size:39
Alignment explanation
Indices: 30665312--30665493 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
30665302 AATGTTCGAG
30665312 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
30665351 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
30665389 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
30665428 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
30665468 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
30665494 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:30674504 original size:40 final size:40
Alignment explanation
Indices: 30674445--30674612 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
30674435 CACTTGAATG
* * * *
30674445 ATATCCGGGATAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
30674485 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
30674525 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
30674565 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
30674605 ATATCCGG
1 ATATCCGG
30674613 TTAAATCCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 98 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:30679373 original size:70 final size:69
Alignment explanation
Indices: 30679210--30679369 Score: 160
Period size: 70 Copynumber: 2.3 Consensus size: 69
30679200 TTCCTCTTGT
* * *
30679210 CATGTTGAAGTTGCAAAGGCTCTTCCTACCATGTTGATAGTGCAAAGTTTGAAATAAGTCCTCCT
1 CATGTTGAAGTTGC-AAGGTTCTTCCTACCATGTTGATAGTACAAAGTTTGAAATAAGCCCTCCT
* **
30679275 CCCGT
65 CACAC
* ** * * **
30679280 CATGTT-AAGGGTGCAAAAATTCTTCTTACCATGTTGATGGTACAAAGTTTGAAATGGGCCCTCC
1 CATGTTGAA-GTTGC-AAGGTTCTTCCTACCATGTTGATAGTACAAAGTTTGAAATAAGCCCTCC
30679344 TCACAC
64 TCACAC
*
30679350 CATGTTGAAGTTACAAGGTT
1 CATGTTGAAGTTGCAAGGTT
30679370 TCTTTTTCTC
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
69 6 0.08
70 63 0.89
71 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (69 bp):
CATGTTGAAGTTGCAAGGTTCTTCCTACCATGTTGATAGTACAAAGTTTGAAATAAGCCCTCCTC
ACAC
Found at i:30679653 original size:29 final size:29
Alignment explanation
Indices: 30679621--30679676 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
30679611 AAATGGGTCC
*
30679621 TCTTCTCACAATGTTGAAGTTGCAAAGGT
1 TCTTCCCACAATGTTGAAGTTGCAAAGGT
* *
30679650 TCTTCCCACCATGTTGATGTTGCAAAG
1 TCTTCCCACAATGTTGAAGTTGCAAAG
30679677 TTCAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (29 bp):
TCTTCCCACAATGTTGAAGTTGCAAAGGT
Found at i:30679678 original size:70 final size:69
Alignment explanation
Indices: 30679559--30679778 Score: 214
Period size: 70 Copynumber: 3.2 Consensus size: 69
30679549 AAGTTTCTTG
* * * * * * *
30679559 CCATGCTGAAGGTGCAAAACTTCTTCTCACCGTGTTAATGATACAAAGTTCAAAATGGGTCCTCT
1 CCATGTTGAAGTTGC-AAAGTTCTTCCCACCATGTTGATGTTACAAAGTTCAAAATGGGTCCTCT
30679624 TCTCA
65 TCTCA
* * **
30679629 CAATGTTGAAGTTGCAAAGGTTCTTCCCACCATGTTGATGTTGCAAAGTTCAAAATGAATCC-C-
1 CCATGTTGAAGTTGCAAA-GTTCTTCCCACCATGTTGATGTTACAAAGTTCAAAATGGGTCCTCT
*
30679692 -CTCG
65 TCTCA
* * *** *
30679696 CCATGTCGAAGCTGCAAAGTTGCTTCCCACCATGTTGAT-TCTACAAAGTTTGGAATGGGTCATC
1 CCATGTTGAAGTTGCAAAGTT-CTTCCCACCATGTTGATGT-TACAAAGTTCAAAATGGGTCCTC
30679760 TTCTCA
64 TTCTCA
30679766 CCATGTTGAAGTT
1 CCATGTTGAAGTT
30679779 AAAAAAGCTT
Statistics
Matches: 119, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
66 4 0.03
67 49 0.41
68 1 0.01
69 4 0.03
70 61 0.51
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (69 bp):
CCATGTTGAAGTTGCAAAGTTCTTCCCACCATGTTGATGTTACAAAGTTCAAAATGGGTCCTCTT
CTCA
Found at i:30681201 original size:7 final size:7
Alignment explanation
Indices: 30681191--30681218 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
30681181 TTAATAAGAC
30681191 ATAAATA
1 ATAAATA
30681198 ATAAATA
1 ATAAATA
30681205 ATAAATA
1 ATAAATA
30681212 ATAAATA
1 ATAAATA
30681219 GGGCCAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:30682898 original size:34 final size:35
Alignment explanation
Indices: 30682848--30682928 Score: 128
Period size: 34 Copynumber: 2.3 Consensus size: 35
30682838 TACTACTAAT
* *
30682848 AAATTTTTTTACATATTTACTTTAAATCGAAA-AA
1 AAATATTTTTAAATATTTACTTTAAATCGAAAGAA
30682882 AAATATTTTTAAATATTTACTTTAAATCGAAAGAA
1 AAATATTTTTAAATATTTACTTTAAATCGAAAGAA
*
30682917 AAATATGTTTAA
1 AAATATTTTTAA
30682929 CGCATTTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
34 30 0.70
35 13 0.30
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (35 bp):
AAATATTTTTAAATATTTACTTTAAATCGAAAGAA
Found at i:30684470 original size:27 final size:27
Alignment explanation
Indices: 30684432--30684488 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
30684422 AAGATAGACA
30684432 AAGATGCACTAACTGATTTTTCTGTCT
1 AAGATGCACTAACTGATTTTTCTGTCT
30684459 AAGATGCACTAACTGATTTTTCTGTCT
1 AAGATGCACTAACTGATTTTTCTGTCT
30684486 AAG
1 AAG
30684489 TACTCAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (27 bp):
AAGATGCACTAACTGATTTTTCTGTCT
Found at i:30693458 original size:16 final size:16
Alignment explanation
Indices: 30693437--30693486 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
30693427 AATTAAATTA
*
30693437 AATTATATTTTGATAT
1 AATTATATTTTAATAT
*
30693453 AATTATATGTTAAATAT
1 AATTATAT-TTTAATAT
*
30693470 AATATATTTTTTAATAT
1 AAT-TATATTTTAATAT
30693487 TAGGTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 8 0.29
17 16 0.57
18 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
AATTATATTTTAATAT
Found at i:30694245 original size:15 final size:15
Alignment explanation
Indices: 30694221--30694250 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30694211 TTTATATCTT
30694221 TATAAATTTTTTAAA
1 TATAAATTTTTTAAA
*
30694236 TATAATTTTTTTAAA
1 TATAAATTTTTTAAA
30694251 GGGTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAAATTTTTTAAA
Found at i:30696951 original size:18 final size:18
Alignment explanation
Indices: 30696928--30696964 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30696918 TGGAAAAAAC
30696928 TATTTTTATACCTAGATG
1 TATTTTTATACCTAGATG
30696946 TATTTTTATACCTAGATG
1 TATTTTTATACCTAGATG
30696964 T
1 T
30696965 TCTAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TATTTTTATACCTAGATG
Found at i:30699423 original size:19 final size:17
Alignment explanation
Indices: 30699380--30699419 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30699370 AATATTAAAA
*
30699380 TAAATATATAAAAAATT
1 TAAATAAATAAAAAATT
*
30699397 TCAATAAATAAAAAATAT
1 TAAATAAATAAAAAAT-T
30699415 TAAAT
1 TAAAT
30699420 TAAAATAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATAAATAAAAAATT
Found at i:30700264 original size:27 final size:27
Alignment explanation
Indices: 30700221--30700273 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30700211 AAGCACTGAA
* *
30700221 AAACAAAGTTATTCCAATTT-TTTTTG
1 AAACAAAATTATCCCAATTTGTTTTTG
30700247 AAACGAAAATTATCCCAATTTGTTTTT
1 AAAC-AAAATTATCCCAATTTGTTTTT
30700274 AAAATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 14 0.61
28 5 0.22
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (27 bp):
AAACAAAATTATCCCAATTTGTTTTTG
Found at i:30702109 original size:29 final size:28
Alignment explanation
Indices: 30702044--30702109 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
30702034 AAACTTTTTT
*
30702044 AAAATTAAAAAAATCATAATTATCTTAA
1 AAAATTAAAAAAATCATAATCATCTTAA
*
30702072 AAATTATTAAAAAATTCA-AATCATTCATTAA
1 AAA--ATTAAAAAAATCATAATCA-TC-TTAA
30702103 AAAATTA
1 AAAATTA
30702110 TAAATTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
28 3 0.09
29 8 0.25
30 14 0.44
31 7 0.22
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAATTAAAAAAATCATAATCATCTTAA
Found at i:30705044 original size:13 final size:14
Alignment explanation
Indices: 30705001--30705048 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
30704991 GTACGAATGG
30705001 AATGGTAGGAACGAA
1 AATGGTAGGAAC-AA
30705016 AA-GGTAGGAACAA
1 AATGGTAGGAACAA
*
30705029 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
30705043 ATTGGT
1 AATGGT
30705049 CGGTTTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 4 0.13
14 24 0.80
15 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:30707602 original size:40 final size:40
Alignment explanation
Indices: 30707547--30707710 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
30707537 TGAATGATAC
* * * *
30707547 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
30707587 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
30707627 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
30707667 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
30707707 CCGG
1 CCGG
30707711 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:30715717 original size:40 final size:40
Alignment explanation
Indices: 30715662--30715825 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
30715652 TGAATGATAC
* * * *
30715662 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATGT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
30715702 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
30715742 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
30715782 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
30715822 CCGG
1 CCGG
30715826 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:30722986 original size:12 final size:12
Alignment explanation
Indices: 30722969--30723011 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
30722959 TCACTCTTTT
30722969 TTTTTTTTCGAA
1 TTTTTTTTCGAA
30722981 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
30722993 TTTTTTTTTG-A
1 TTTTTTTTCGAA
30723004 TTTTTTTT
1 TTTTTTTT
30723012 AACTTGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:30723418 original size:14 final size:14
Alignment explanation
Indices: 30723380--30723426 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
30723370 GTACGAATGG
*
30723380 AATGGTAGGAACGA
1 AATGGTAGGAACAA
30723394 AA-GGTAGGAACAA
1 AATGGTAGGAACAA
*
30723407 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
30723421 ATTGGT
1 AATGGT
30723427 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.45, C:0.06, G:0.30, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:30726971 original size:15 final size:15
Alignment explanation
Indices: 30726951--30726984 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30726941 GAGTTCCATA
*
30726951 AGAAATATATCAGCC
1 AGAAATATATCAACC
*
30726966 AGAAATTTATCAACC
1 AGAAATATATCAACC
30726981 AGAA
1 AGAA
30726985 CCACAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (15 bp):
AGAAATATATCAACC
Found at i:30732493 original size:29 final size:28
Alignment explanation
Indices: 30732437--30732497 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 28
30732427 TAATTTGGTT
30732437 TTATTTATGAGAGGTCCTTACCATGTAAA
1 TTATTTATGAGAGGTCCTTACCATGT-AA
30732466 TTATTTATGAGAGGTCCTTACC-TAGTAA
1 TTATTTATGAGAGGTCCTTACCAT-GTAA
30732494 TTAT
1 TTAT
30732498 GCCATTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (28 bp):
TTATTTATGAGAGGTCCTTACCATGTAA
Found at i:30744498 original size:38 final size:38
Alignment explanation
Indices: 30744404--30744561 Score: 244
Period size: 38 Copynumber: 4.1 Consensus size: 38
30744394 TATGATTTCT
*
30744404 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTG
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC-C
*
30744443 GGTTGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCC
1 GG--GTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
30744483 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* * *
30744521 GGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATTC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
30744559 GGG
1 GGG
30744562 CCTTTAAGCC
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
38 73 0.66
39 2 0.02
40 2 0.02
41 34 0.31
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (38 bp):
GGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
Found at i:30744651 original size:45 final size:45
Alignment explanation
Indices: 30744555--30744682 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 45
30744545 CTGGTATTAT
* * * * * *
30744555 ATTCGGGCCTTT-AAGCCTAACAGACTATTATGCCAGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-ACATG
30744600 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATG
*
30744644 ATATCGGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 AT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
30744683 TGAATAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 12 0.16
43 16 0.22
44 4 0.05
45 20 0.27
46 22 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (45 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATG
Found at i:30753581 original size:40 final size:40
Alignment explanation
Indices: 30753536--30753702 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
30753526 CGGAATATAA
30753536 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
30753576 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
30753616 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30753656 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30753695 CCGGATAT
1 CCGGATAT
30753703 TATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30773342 original size:26 final size:26
Alignment explanation
Indices: 30773313--30773362 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30773303 AATCATGCAT
* *
30773313 CACATAGGGGCAAAACAGTCATTTGC
1 CACATAGAGGCAAAACAATCATTTGC
*
30773339 CACATAGAGGCATAACAATCATTT
1 CACATAGAGGCAAAACAATCATTT
30773363 TATCAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
CACATAGAGGCAAAACAATCATTTGC
Found at i:30774454 original size:22 final size:22
Alignment explanation
Indices: 30774429--30774504 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 22
30774419 AATGGGGATA
* *
30774429 GGAAATAGCAAGTTGGCAG-CAG
1 GGAAATAGCAA-TCGGCAGAAAG
30774451 GGAAATAGCAATCGGCAGTAAAG
1 GGAAATAGCAATCGGCAG-AAAG
* *
30774474 GGAAATAGCAAATCGACAGTAGAG
1 GGAAATAGC-AATCGGCAG-AAAG
30774498 GGAAATA
1 GGAAATA
30774505 AAATCAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.13
22 11 0.23
23 11 0.23
24 19 0.40
ACGTcount: A:0.43, C:0.12, G:0.32, T:0.13
Consensus pattern (22 bp):
GGAAATAGCAATCGGCAGAAAG
Found at i:30774479 original size:23 final size:24
Alignment explanation
Indices: 30774449--30774504 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
30774439 AGTTGGCAGC
*
30774449 AGGGAAATAGC-AATCGGCAGTAA
1 AGGGAAATAGCAAATCGACAGTAA
*
30774472 AGGGAAATAGCAAATCGACAGTAG
1 AGGGAAATAGCAAATCGACAGTAA
30774496 AGGGAAATA
1 AGGGAAATA
30774505 AAATCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.46, C:0.11, G:0.30, T:0.12
Consensus pattern (24 bp):
AGGGAAATAGCAAATCGACAGTAA
Found at i:30776625 original size:40 final size:40
Alignment explanation
Indices: 30776566--30776783 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
30776556 CGGATGATAA
* * *
30776566 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTA-TAT
* *
30776606 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * *
30776646 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
*
30776686 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * *
30776726 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
* *
30776766 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30776784 TACCTGGCTT
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:30783976 original size:11 final size:11
Alignment explanation
Indices: 30783940--30783995 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
30783930 CATGGTATGT
30783940 ATGATATGCAC
1 ATGATATGCAC
* *
30783951 ATGACATG--T
1 ATGATATGCAC
30783960 ATGATATGCAC
1 ATGATATGCAC
*
30783971 ATGATATG--T
1 ATGATATGCAC
30783980 ATGATATGCAC
1 ATGATATGCAC
30783991 ATGAT
1 ATGAT
30783996 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30783995 original size:20 final size:20
Alignment explanation
Indices: 30783929--30783995 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
30783919 ATTTTGATAA
*
30783929 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30783949 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30783969 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30783989 ACATGAT
1 ACATGAT
30783996 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30784074 original size:25 final size:25
Alignment explanation
Indices: 30784046--30784174 Score: 167
Period size: 25 Copynumber: 5.2 Consensus size: 25
30784036 AGGAAGTGTA
30784046 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
30784071 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30784096 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30784120 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
30784143 AAAGAGGC-TAGGCCTCCAGATATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
30784171 AAAG
1 AAAG
30784175 CAGCTATACT
Statistics
Matches: 95, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
23 19 0.20
24 15 0.16
25 52 0.55
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:30784394 original size:31 final size:31
Alignment explanation
Indices: 30784358--30784421 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
30784348 CGTTTACAGT
* *
30784358 AAAGGCTTCGGCCTAGTAATGTGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30784389 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30784420 AA
1 AA
30784422 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30786739 original size:15 final size:13
Alignment explanation
Indices: 30786709--30786759 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
30786699 TATTCAAAAA
30786709 TTATTTTTTGTGT
1 TTATTTTTTGTGT
30786722 TTATTTTTTGTG-
1 TTATTTTTTGTGT
* *
30786734 --AATTTATGTGT
1 TTATTTTTTGTGT
*
30786745 TAATTTTTTGTGT
1 TTATTTTTTGTGT
30786758 TT
1 TT
30786760 TAATTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 8 0.27
13 22 0.73
ACGTcount: A:0.14, C:0.00, G:0.16, T:0.71
Consensus pattern (13 bp):
TTATTTTTTGTGT
Found at i:30787933 original size:41 final size:42
Alignment explanation
Indices: 30787882--30788077 Score: 200
Period size: 43 Copynumber: 4.6 Consensus size: 42
30787872 TTTCAATATA
* *
30787882 TGATTACGTGTAAGACCATGTATGGGACATCGGCATCGTTTT
1 TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* * ** * *
30787924 TGATT-CGTGTAAGACCACGTCTGCGATGTTGGCATCGATATG
1 TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATT
*
30787966 TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCATATT
1 TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* * *
30788008 TGATT-CGTGTAAGTACCCTATCTGGGACAGT-GGCATCGATATG
1 TGATTACGTGTAAG-ACCATGTCTGGGACA-TCGGCATCG-TATT
* * *
30788051 TGATTCCATGTAAGACCACGTCTGGGA
1 TGATTACGTGTAAGACCATGTCTGGGA
30788078 TGTTGGCATT
Statistics
Matches: 125, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
41 34 0.27
42 39 0.31
43 45 0.36
44 7 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
Found at i:30788074 original size:85 final size:84
Alignment explanation
Indices: 30787877--30788077 Score: 262
Period size: 84 Copynumber: 2.4 Consensus size: 84
30787867 AGGATTTTCA
* * * * *
30787877 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCGTTTTTGATTCGTGTAAGACCAC
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGACCAC
* *
30787942 GTCTGCGATGTTGGCATCG
66 ATCTGCGAAGTTGGCATCG
*
30787961 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGTACC-
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAG-ACCA
*
30788025 CTATCTGGGACAG-TGGCATCG
65 C-ATCTGCGA-AGTTGGCATCG
* *
30788046 ATATGTGATTCCATGTAAGACCACGTCTGGGA
1 ATATGTGATTACATGTAAGACCATGTCTGGGA
30788078 TGTTGGCATT
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
84 57 0.55
85 46 0.44
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (84 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTCGTGTAAGACCAC
ATCTGCGAAGTTGGCATCG
Found at i:30789536 original size:13 final size:14
Alignment explanation
Indices: 30789508--30789540 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30789498 CATTTCAACC
*
30789508 ATGTTTATATTTAT
1 ATGTTTATATTGAT
30789522 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
30789535 ATGTTT
1 ATGTTT
30789541 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:30791843 original size:40 final size:39
Alignment explanation
Indices: 30791798--30792005 Score: 182
Period size: 40 Copynumber: 5.2 Consensus size: 39
30791788 CGGAATACAA
*
30791798 CCGGATATAACCACATGCATGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCATAAATGCCTTCGGGTCTTAGC
* * * *
30791838 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCATAAATGCCTTCGGGTCTTAGC
* * **
30791878 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCATAAATGCCTTCGGGTCTTAGC
* * ** * *
30791918 CCAGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCATAAATGCCTTCGGGTCTTAGC
* * * * *
30791958 CCGGATTTAACTACTAGCATAAATGTCTTCAGGACTTAGC
1 CCGGATATAACCACT-GCATAAATGCCTTCGGGTCTTAGC
*
30791998 CTGGATAT
1 CCGGATAT
30792006 CATTTAATTG
Statistics
Matches: 137, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 1 0.01
40 136 0.99
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
CCGGATATAACCACTGCATAAATGCCTTCGGGTCTTAGC
Found at i:30791945 original size:80 final size:80
Alignment explanation
Indices: 30791798--30791968 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 80
30791788 CGGAATACAA
* * * * *
30791798 CCGGATATAACCACATGCATGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATTTAACAACATGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGCACAAATG
*
30791863 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
30791878 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACATGCACGAATGCCTTCGGGTCTTAGCCCAGA--TAGAACGACTAGCACAAA
*
30791941 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
30791958 CCGGATTTAAC
1 CCGGATTTAAC
30791969 TACTAGCATA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 74 0.95
81 1 0.01
82 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATTTAACAACATGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:30794081 original size:94 final size:91
Alignment explanation
Indices: 30793870--30794126 Score: 214
Period size: 94 Copynumber: 2.7 Consensus size: 91
30793860 ATATGCCGGA
** * *
30793870 TATGGTCTTACATGGGGCCACGTATCAATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TATGGTCTTACATGGGATCA--TATCGATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA
* * * *
30793935 TCACACTTATCGAAGCCGATAGCCCAGC
64 TCACACTGATCCAAGCCGATAGCCAAAC
* * *
30793963 TACGGTCTTACACGATGTGCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTATATGGG
1 TATGGTCTT--AC-ATGGGATCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTATATGGG
*
30794028 ATCACA-TAACGATGCCAATGCCGTGTA-CCAAAC
63 ATCACACT---GAT-CCAA-GCCG-ATAGCCAAAC
* * * * * *
30794061 -ATGGTCTTACATGGGATCATATATCGATGCCGATGTCATATCCCAGATATGGCCTTATACGGGA
1 TATGGTCTTACATGGGATC--ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA
30794125 TC
64 TC
30794127 TCATCAACAC
Statistics
Matches: 133, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
93 9 0.07
94 52 0.39
95 4 0.03
96 48 0.36
97 10 0.08
98 8 0.06
99 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (91 bp):
TATGGTCTTACATGGGATCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATC
ACACTGATCCAAGCCGATAGCCAAAC
Found at i:30794125 original size:48 final size:48
Alignment explanation
Indices: 30793871--30794126 Score: 193
Period size: 48 Copynumber: 5.4 Consensus size: 48
30793861 TATGCCGGAT
* ** * *
30793871 ATGGTCTTACATGGGGCCACGTATCAATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTATATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* * *
30793919 ATGGTCTTACATGGGATCACACTTATCGAAGCCGAT---A-G-CCCAG-C
1 ATGGTCTTATATGGGATCACA--TATCGATGCCAATGCCATGTCCCAGAC
* * * * *
30793963 TACGGTCTTACACGATG-TGCTCATATCGATGCCAATGCCATGTCCCAGAC
1 -ATGGTCTTATATG-GGAT-CACATATCGATGCCAATGCCATGTCCCAGAC
* * * *
30794013 ATGGTCTTATATGGGATCACATAACGATGCCAATGCCGTGTACCAAAC
1 ATGGTCTTATATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* * * * * *
30794061 ATGGTCTTACATGGGATCATATATCGATGCCGATGTCATATCCCAGAT
1 ATGGTCTTATATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* *
30794109 ATGGCCTTATACGGGATC
1 ATGGTCTTATATGGGATC
30794127 TCATCAACAC
Statistics
Matches: 162, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
44 12 0.07
45 17 0.10
46 5 0.03
47 2 0.01
48 99 0.61
49 16 0.10
50 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (48 bp):
ATGGTCTTATATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
Found at i:30797941 original size:27 final size:27
Alignment explanation
Indices: 30797910--30798181 Score: 348
Period size: 27 Copynumber: 10.1 Consensus size: 27
30797900 GTAGGGTAAA
* *
30797910 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
30797937 ACAGTCATTTTATCCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
30797964 ACAGTCATATTACCCTATAGGGGCATT
1 TCAGTCATTTTACCCTATAGGGGTATT
30797991 TCAGTCATTTTACCCTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
*
30798018 TCAGTCATTTTACCCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* *
30798045 TCGGTCATTTTACCTTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
30798072 TCGGTCATTTTACCTTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
*
30798099 TCAATCATTTTACCCTAT-GAGGGTATT
1 TCAGTCATTTTACCCTATAG-GGGTATT
** *
30798126 TTGGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* *
30798153 TCAGCCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
30798180 TC
1 TC
30798182 GGCCCAACAT
Statistics
Matches: 219, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
26 1 0.00
27 217 0.99
28 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (27 bp):
TCAGTCATTTTACCCTATAGGGGTATT
Found at i:30800133 original size:29 final size:29
Alignment explanation
Indices: 30800100--30800173 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30800090 GTGACGAGAT
30800100 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30800129 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30800158 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30800174 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30800189 original size:29 final size:29
Alignment explanation
Indices: 30800157--30800232 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
30800147 CTGGAAATAT
* *
30800157 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
30800186 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
30800215 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30800233 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:30800200 original size:58 final size:58
Alignment explanation
Indices: 30800100--30800232 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
30800090 GTGACGAGAT
* * * * * *
30800100 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
30800158 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
30800216 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
30800233 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:30808012 original size:29 final size:29
Alignment explanation
Indices: 30807979--30808052 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30807969 GTGACGAGAT
30807979 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30808008 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30808037 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30808053 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30808068 original size:29 final size:29
Alignment explanation
Indices: 30808036--30808111 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
30808026 CTGGAAATAT
* *
30808036 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
30808065 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
30808094 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30808112 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:30808079 original size:58 final size:58
Alignment explanation
Indices: 30807979--30808111 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
30807969 GTGACGAGAT
* * * * * *
30807979 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
30808037 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
30808095 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
30808112 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:30809651 original size:31 final size:31
Alignment explanation
Indices: 30809613--30809676 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
30809603 CGTTTACAAT
30809613 AAAGGCTTCGGCCCAGTGA-TATGAAATATGA
1 AAAGGCTTCGGCCCAGT-ATTATGAAATATGA
30809644 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
30809675 AA
1 AA
30809677 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGA
Found at i:30810484 original size:20 final size:20
Alignment explanation
Indices: 30810454--30810511 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
30810444 TGATTACCTA
*
30810454 ATGTGCATATCATACATATC
1 ATGTACATATCATACATATC
* *
30810474 ATGTACGTATCATACATTTC
1 ATGTACATATCATACATATC
*
30810494 ATGTGCATATCATACATA
1 ATGTACATATCATACATA
30810512 CCATATTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGTACATATCATACATATC
Found at i:30818376 original size:31 final size:31
Alignment explanation
Indices: 30818334--30818397 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
30818324 CCCTTTCATA
30818334 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
30818365 TTTCATGTTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
30818396 TT
1 TT
30818398 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:30818655 original size:23 final size:24
Alignment explanation
Indices: 30818589--30818729 Score: 191
Period size: 24 Copynumber: 5.9 Consensus size: 24
30818579 GCTTTATCAT
* *
30818589 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTCA
30818614 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTCA
30818638 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTCA
*
30818661 ATAACTGGGGCATAAGCCCTTT-T
1 ATAACTGGGGCATAAGCCCTTTCA
*
30818684 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTCA
30818708 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
30818730 TTCACTTCCT
Statistics
Matches: 108, Mismatches: 4, Indels: 9
0.89 0.03 0.07
Matches are distributed among these distances:
23 47 0.44
24 48 0.44
25 13 0.12
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTCA
Found at i:30818730 original size:47 final size:47
Alignment explanation
Indices: 30818588--30818730 Score: 193
Period size: 47 Copynumber: 3.0 Consensus size: 47
30818578 TGCTTTATCA
* *
30818588 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTCAATAACTGGGG-CATAAGCCCTTT
*
30818636 CAATAACTGGGGCA-AAGCCCTTTCAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTT
*
30818683 TATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTT
30818730 T
1 T
30818731 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
46 14 0.16
47 57 0.66
48 7 0.08
49 8 0.09
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTT
Found at i:30818806 original size:20 final size:20
Alignment explanation
Indices: 30818781--30818840 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
30818771 TATGATTACC
30818781 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
30818801 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
30818821 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
30818841 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:30818915 original size:25 final size:25
Alignment explanation
Indices: 30818883--30818930 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30818873 ATACATAAAC
* * *
30818883 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
30818908 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
30818931 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:30822940 original size:12 final size:12
Alignment explanation
Indices: 30822923--30822973 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
30822913 TCGAGACTTG
30822923 ATTATATGA-ATA
1 ATTATAT-ATATA
30822935 ATTATATATATA
1 ATTATATATATA
*
30822947 GTTATATATATA
1 ATTATATATATA
* *
30822959 ATTATGTATTTA
1 ATTATATATATA
30822971 ATT
1 ATT
30822974 GTTTGGGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 1 0.03
12 33 0.97
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (12 bp):
ATTATATATATA
Found at i:30832490 original size:21 final size:20
Alignment explanation
Indices: 30832462--30832501 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
30832452 AGGTATAATA
30832462 GCCAAGCTTA-ATCATATTCG
1 GCCAAGCTTATAT-ATATTCG
30832482 GCCATAGCTTATATATATTC
1 GCCA-AGCTTATATATATTC
30832502 ACACATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (20 bp):
GCCAAGCTTATATATATTCG
Found at i:30836259 original size:2 final size:2
Alignment explanation
Indices: 30836252--30836292 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
30836242 TCATGACATG
30836252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30836293 GTCTCAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30839835 original size:50 final size:50
Alignment explanation
Indices: 30839723--30840114 Score: 340
Period size: 50 Copynumber: 7.8 Consensus size: 50
30839713 TTGAGAACAC
* * ** *
30839723 GTGTAGTACTATGTGCAGGCTACTATGTGCTTAAAATGAT-TTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATAGTTAGGTCACGT
* * * * *
30839775 GTGTAATACTAAGTGTAGGCTACTACGTGTACCAGATGGTTAGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* * * * * * *
30839825 GTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGACAACTTCA-ATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCACGT
* * * * *
30839876 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCATATAGTTAGATCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* * * * * * * *
30839926 GTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGACAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGTCACGT
* *
30839977 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* ** * *
30840027 GTGTAATACTAAGCACAGGCTACTACGTGTACCAGATTGTT-GGTCACAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* * * *
30840076 GTGTAGTACTAAGTGTAGGCTACTATGCGTACTAGATAG
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
30840115 CTTCGGTTAC
Statistics
Matches: 273, Mismatches: 62, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
49 42 0.15
50 129 0.47
51 76 0.28
52 26 0.10
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
Found at i:30839899 original size:51 final size:51
Alignment explanation
Indices: 30839824--30840001 Score: 218
Period size: 51 Copynumber: 3.5 Consensus size: 51
30839814 TTAGGTCGCA
* *
30839824 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGACAACTTCAATCACG
1 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGACAACTTCAATCACG
* * * * * *
30839875 TGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CC-ATATAGTT-AGATCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGACA-ACTTCA-ATCACG
* *
30839925 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGACAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGACAACTTCAATCACG
*
30839976 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAAGCTACTA
30840002 CGTGTATCAG
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
49 3 0.03
50 39 0.37
51 61 0.58
52 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGACAACTTCAATCACG
Found at i:30840049 original size:101 final size:101
Alignment explanation
Indices: 30839769--30840100 Score: 425
Period size: 101 Copynumber: 3.3 Consensus size: 101
30839759 TGATTTTAGG
* *
30839769 TCACGTGTGTAATACTAAGTGTAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTAC
* * *
30839834 TAAGTGTAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCAGACAACTTCGA
* * * *
30839870 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCATATAGTTAGATCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTAC
* *
30839935 TAAGTGCAAGCTACTATGCGTACCTGACAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCAGACAACTTCGA
* * * *
30839971 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAATAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTAC
** * * *** *
30840036 TAAGCACAGGCTACTACGTGTACCAGA-TTGTT-GG
66 TAAGTGCAGGCTACTATGCGTACCAGACAACTTCGA
* *
30840070 TCACATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
30840101 TGCGTACTAG
Statistics
Matches: 201, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
99 30 0.15
100 2 0.01
101 169 0.84
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCAGACAACTTCGA
Found at i:30840333 original size:16 final size:15
Alignment explanation
Indices: 30840312--30840341 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30840302 GAATGTAGCA
30840312 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
30840328 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
30840342 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:30841146 original size:32 final size:32
Alignment explanation
Indices: 30841105--30841169 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
30841095 CATATGTTAG
30841105 AAATATCAAGTGAGTGGCATGTATAGGGACTT
1 AAATATCAAGTGAGTGGCATGTATAGGGACTT
30841137 AAATATCAAGTGAGTGGCATGTATAGGGACTT
1 AAATATCAAGTGAGTGGCATGTATAGGGACTT
30841169 A
1 A
30841170 GTTCTATGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (32 bp):
AAATATCAAGTGAGTGGCATGTATAGGGACTT
Found at i:30843491 original size:23 final size:23
Alignment explanation
Indices: 30843461--30843507 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
30843451 CCCTCACAAG
30843461 TAAGTGATCTGGATGGTTTTTCT
1 TAAGTGATCTGGATGGTTTTTCT
* *
30843484 TAAGTGATGTTGATGGTTTTTCT
1 TAAGTGATCTGGATGGTTTTTCT
30843507 T
1 T
30843508 GATGATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (23 bp):
TAAGTGATCTGGATGGTTTTTCT
Found at i:30844375 original size:49 final size:49
Alignment explanation
Indices: 30844315--30844443 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
30844305 TGTTGTGTGT
* *
30844315 CAGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* * ** *
30844364 CAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
30844413 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACC-TGTCTGGGACATGGCATC
30844444 ACATCTTAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 52 0.74
50 17 0.24
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:30845510 original size:2 final size:2
Alignment explanation
Indices: 30845503--30845536 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30845493 GTTCATATTA
*
30845503 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30845537 GTGAACATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30856089 original size:2 final size:2
Alignment explanation
Indices: 30856077--30856118 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
30856067 ATGCCATACG
*
30856077 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30856119 AGTAATTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:30861859 original size:40 final size:40
Alignment explanation
Indices: 30861814--30861943 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30861804 CGGAATACAA
30861814 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
30861854 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
30861894 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
30861934 CCGGATATAA
1 CCGGATATAA
30861944 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:30861958 original size:40 final size:40
Alignment explanation
Indices: 30861814--30861977 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
30861804 CGGAATACAA
* **
30861814 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
30861854 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
30861894 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
30861934 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
30861974 CCGG
1 CCGG
30861978 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:30869896 original size:40 final size:40
Alignment explanation
Indices: 30869851--30869980 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30869841 CGGAATACAA
30869851 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
30869891 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
30869931 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
30869971 CCGGATATAA
1 CCGGATATAA
30869981 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:30869995 original size:40 final size:40
Alignment explanation
Indices: 30869851--30870014 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
30869841 CGGAATACAA
* **
30869851 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
30869891 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
30869931 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
30869971 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
30870011 CCGG
1 CCGG
30870015 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:30872845 original size:2 final size:2
Alignment explanation
Indices: 30872838--30872868 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30872828 ATGATTTGTG
30872838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30872869 AGTTAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30880323 original size:40 final size:40
Alignment explanation
Indices: 30880278--30880445 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
30880268 CGGAATACAA
30880278 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
30880318 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
30880358 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
30880398 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
30880438 CCGGATAT
1 CCGGATAT
30880446 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:30880418 original size:80 final size:80
Alignment explanation
Indices: 30880278--30880445 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
30880268 CGGAATACAA
* *
30880278 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
30880343 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
30880358 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
30880421 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
30880438 CCGGATAT
1 CCGGATAT
30880446 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:30888330 original size:40 final size:40
Alignment explanation
Indices: 30888285--30888452 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
30888275 CGGAATACAA
30888285 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
30888325 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
30888365 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
30888405 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
30888445 CCGGATAT
1 CCGGATAT
30888453 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:30888425 original size:80 final size:80
Alignment explanation
Indices: 30888285--30888452 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
30888275 CGGAATACAA
* *
30888285 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
30888350 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
30888365 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
30888428 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
30888445 CCGGATAT
1 CCGGATAT
30888453 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:30893945 original size:33 final size:34
Alignment explanation
Indices: 30893900--30893996 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
30893890 GTTACACAAT
* *
30893900 TGGGCCTAAGCCCATATCAGTCGCAATATCAGTG
1 TGGGCCTTAGCCCATATCAGTAGCAATATCAGTG
*
30893934 T-GGCCTTAGCCCAATAT-AGTATCAATATCAGTG
1 TGGGCCTTAGCCC-ATATCAGTAGCAATATCAGTG
* * *
30893967 TGGGCCGTAGCCCATCTCAGTA-CAGTATCA
1 TGGGCCTTAGCCCATATCAGTAGCAATATCA
30893997 TAAATGCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
33 35 0.65
34 19 0.35
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAGCAATATCAGTG
Found at i:30907762 original size:16 final size:15
Alignment explanation
Indices: 30907737--30907784 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
30907727 TGTTTTTGGA
*
30907737 TTGATTTGAATGAAT
1 TTGATTTGAATAAAT
30907752 TTGAGTTTGAATAAAT
1 TTGA-TTTGAATAAAT
** *
30907768 TAAATTTGAATTAAT
1 TTGATTTGAATAAAT
30907783 TT
1 TT
30907785 AGATCAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (15 bp):
TTGATTTGAATAAAT
Found at i:30908188 original size:42 final size:42
Alignment explanation
Indices: 30908068--30908198 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 42
30908058 CAATATGTTT
* *
30908068 TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-ACTTATAA
1 TTTCGTGTAAGACC-CTGTCTGGGACATTGACATCGTA-TT-TGA
* * *
30908111 TTTACGTGTAAGACCATGTCTGGGAAATTAACATCGTATTTGA
1 TTT-CGTGTAAGACCCTGTCTGGGACATTGACATCGTATTTGA
* * *
30908154 TTTCGTGTAAGACCCTGTTTGGGACAGTGTCATCGATATTTGA
1 TTTCGTGTAAGACCCTGTCTGGGACATTGACATCG-TATTTGA
30908197 TT
1 TT
30908199 ACATGTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 26 0.36
43 17 0.23
44 29 0.40
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTGTCTGGGACATTGACATCGTATTTGA
Found at i:30915863 original size:42 final size:42
Alignment explanation
Indices: 30915758--30915919 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
30915748 TGATATGTGT
* * ** *
30915758 TTTCGTGTAAGACCACGTCTAGGATGTTGGCATTG-ACTTATGA
1 TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGA
*
30915801 TTTGCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTT-CATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
* * *
30915844 TTTCGTGTAAGACC-CTGTCTGGGACAGTGGCGTCGATATTTGA
1 TTTCATGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGA
* * *
30915887 TTGCATGCAAGACCACGTCTGGGACGTTGGCAT
1 TTTCATGTAAGACCACGTCTGGGACATTGGCAT
30915920 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 27 0.28
43 41 0.42
44 29 0.30
45 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
Found at i:30918370 original size:21 final size:21
Alignment explanation
Indices: 30918346--30918387 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30918336 TTACAACATG
30918346 ATAGAATTATTATATAAAAGT
1 ATAGAATTATTATATAAAAGT
*
30918367 ATAGAATTATTATGTAAAAGT
1 ATAGAATTATTATATAAAAGT
30918388 TTCGTAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
ATAGAATTATTATATAAAAGT
Found at i:30922262 original size:40 final size:39
Alignment explanation
Indices: 30922207--30922410 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 39
30922197 TGAATGATAC
* * * *
30922207 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
30922247 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-TACTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
30922287 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
30922327 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* **
30922367 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
30922407 CCGG
1 CCGG
30922411 CTAAATTCCG
Statistics
Matches: 146, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 142 0.97
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:30922340 original size:80 final size:80
Alignment explanation
Indices: 30922203--30922414 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
30922193 CAATTGAATG
* * * *
30922203 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
30922267 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* *
30922283 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
30922348 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTACT
* * *
30922363 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
30922415 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:30924441 original size:8 final size:8
Alignment explanation
Indices: 30924430--30924458 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30924420 GATATTTGTA
30924430 TATGAATG
1 TATGAATG
30924438 TATGAATG
1 TATGAATG
30924446 TATGAATG
1 TATGAATG
30924454 TATGA
1 TATGA
30924459 GATATGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
TATGAATG
Found at i:30925902 original size:43 final size:43
Alignment explanation
Indices: 30925844--30926014 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
30925834 TATCGAAATG
*
30925844 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
*
30925888 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
30925931 TAATATCGGGCCTCTGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** * *
30925974 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCAGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
30926015 TGAATTCAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 11 0.10
43 98 0.85
44 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:30928346 original size:22 final size:22
Alignment explanation
Indices: 30928320--30928395 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 22
30928310 ACCAATTCAA
30928320 AAGCATAAAACATAATATACTT
1 AAGCATAAAACATAATATACTT
* *
30928342 AAGCAACCAAAAATCCACAAATATGAC-T
1 AAGC-A--TAAAA--CA-TAATAT-ACTT
30928370 -AGCATAAAACATAATATACTT
1 AAGCATAAAACATAATATACTT
30928391 AAGCA
1 AAGCA
30928396 ACCAAAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
20 2 0.05
21 6 0.15
22 10 0.24
23 1 0.02
24 4 0.10
25 4 0.10
26 1 0.02
27 5 0.12
28 6 0.15
29 2 0.05
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (22 bp):
AAGCATAAAACATAATATACTT
Found at i:30928378 original size:49 final size:49
Alignment explanation
Indices: 30928321--30928419 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
30928311 CCAATTCAAA
30928321 AGCATAAAACATAATATACTTAAGCAACCAAAAATCCACAAATATGACT
1 AGCATAAAACATAATATACTTAAGCAACCAAAAATCCACAAATATGACT
30928370 AGCATAAAACATAATATACTTAAGCAACCAAAAATCCACAAATATGACT
1 AGCATAAAACATAATATACTTAAGCAACCAAAAATCCACAAATATGACT
30928419 A
1 A
30928420 ACTCATGCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.54, C:0.20, G:0.06, T:0.20
Consensus pattern (49 bp):
AGCATAAAACATAATATACTTAAGCAACCAAAAATCCACAAATATGACT
Found at i:30931031 original size:40 final size:40
Alignment explanation
Indices: 30930986--30931153 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
30930976 CGGAATATAA
30930986 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
30931026 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
30931066 CCGGATATAGCCACTAACACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
30931106 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
*
30931146 CTGGATAT
1 CCGGATAT
30931154 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30944848 original size:23 final size:23
Alignment explanation
Indices: 30944794--30944912 Score: 220
Period size: 23 Copynumber: 5.1 Consensus size: 23
30944784 CCTAGCCTCT
*
30944794 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30944817 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
30944841 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30944864 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30944887 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30944910 TTT
1 TTT
30944913 TGCACTTCCT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
23 72 0.77
24 22 0.23
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:30944987 original size:20 final size:20
Alignment explanation
Indices: 30944959--30945029 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
30944949 GCATTTATGA
*
30944959 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
30944979 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
30944999 ACATGTCATGTGCATGTCAT
1 ACATATCATGTGCATATCAT
30945019 ACATATCATGT
1 ACATATCATGT
30945030 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:30951642 original size:46 final size:46
Alignment explanation
Indices: 30951592--30951767 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30951582 ATATTTGGCA
30951592 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30951638 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30951685 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30951731 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30951768 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30951747 original size:93 final size:93
Alignment explanation
Indices: 30951588--30951759 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30951578 CTGGATATTT
* *
30951588 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30951653 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30951681 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30951746 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30951760 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30958397 original size:55 final size:55
Alignment explanation
Indices: 30958337--30958443 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
30958327 ACCACGGGTG
*
30958337 TTCCACACGGGCATGTCGA-ACGCCCGTGCTATTTTGGCAGGCTCGACCACAGTTC
1 TTCCACACGAGCATGTC-ACACGCCCGTGCTATTTTGGCAGGCTCGACCACAGTTC
* * * *
30958392 TTCCACACGAGCGTGTCACACGCCCGTGTTGTTTTGGTAGGCTCGACCACAG
1 TTCCACACGAGCATGTCACACGCCCGTGCTATTTTGGCAGGCTCGACCACAG
30958444 CCATATCGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 45 0.98
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (55 bp):
TTCCACACGAGCATGTCACACGCCCGTGCTATTTTGGCAGGCTCGACCACAGTTC
Found at i:30963048 original size:29 final size:30
Alignment explanation
Indices: 30962987--30963147 Score: 130
Period size: 30 Copynumber: 5.4 Consensus size: 30
30962977 AGCTGAAGCT
*
30962987 ATCCCTTTTCATAATTCAATGGTCGTCAGC
1 ATCCCTTTTCATAATTCAATGGTCGTCACC
** * *
30963017 ATCCCTTTTCATTGTT-GATGGTTGTCACC
1 ATCCCTTTTCATAATTCAATGGTCGTCACC
* * * * * *
30963046 ATCCATTTTCATAATTCGATAGCCG-AAGCT
1 ATCCCTTTTCATAATTCAATGGTCGTCA-CC
* * * *
30963076 ATCCCTTTTCGTATTTCAATGGTCATCACT
1 ATCCCTTTTCATAATTCAATGGTCGTCACC
* * *
30963106 ATCCCTTTTCATTATT-GATGGTCATCACC
1 ATCCCTTTTCATAATTCAATGGTCGTCACC
30963135 ATCCCTTTTCATA
1 ATCCCTTTTCATA
30963148 CTTCGATATC
Statistics
Matches: 101, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
29 47 0.47
30 53 0.52
31 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCAATGGTCGTCACC
Found at i:30963110 original size:89 final size:89
Alignment explanation
Indices: 30962975--30963155 Score: 265
Period size: 89 Copynumber: 2.0 Consensus size: 89
30962965 GCATAGTTTA
* * * *
30962975 ATAGCTGAAGCTATCCCTTTTCATAATTCAATGGTCGTCAGCATCCCTTTTCATTGTTGATGGTT
1 ATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCATCAGCATCCCTTTTCATTATTGATGGTC
*
30963040 GTCACCATCCATTTTCATAATTCG
66 ATCACCATCCATTTTCATAATTCG
* *
30963064 ATAGCCGAAGCTATCCCTTTTCGTATTTCAATGGTCATCA-CTATCCCTTTTCATTATTGATGGT
1 ATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCATCAGC-ATCCCTTTTCATTATTGATGGT
* *
30963128 CATCACCATCCCTTTTCATACTTCG
65 CATCACCATCCATTTTCATAATTCG
30963153 ATA
1 ATA
30963156 TCCTTTTTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 1 0.01
89 81 0.99
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (89 bp):
ATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCATCAGCATCCCTTTTCATTATTGATGGTC
ATCACCATCCATTTTCATAATTCG
Found at i:30968249 original size:27 final size:28
Alignment explanation
Indices: 30968197--30968252 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
30968187 GATGCAATTA
* **
30968197 AGTTGTCTAAACTTAAGACATTTTAAAT
1 AGTTGTATAAACTTAAGACAAATTAAAT
30968225 AGTTGTATAAAC-TAAGACAAATTAAAT
1 AGTTGTATAAACTTAAGACAAATTAAAT
30968252 A
1 A
30968253 ACTCAAGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (28 bp):
AGTTGTATAAACTTAAGACAAATTAAAT
Found at i:30968260 original size:19 final size:18
Alignment explanation
Indices: 30968234--30968270 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
30968224 TAGTTGTATA
30968234 AACTAAGACAAATTAAAT
1 AACTAAGACAAATTAAAT
30968252 AACTCAAGACAAATTAAAT
1 AACT-AAGACAAATTAAAT
30968271 GGCCATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (18 bp):
AACTAAGACAAATTAAAT
Found at i:30968355 original size:46 final size:45
Alignment explanation
Indices: 30968229--30968363 Score: 128
Period size: 46 Copynumber: 2.9 Consensus size: 45
30968219 TTAAATAGTT
* * *
30968229 GTATAAACTAAGACAAATTAAATAACTCAAGACAAATTAAATGGCC
1 GTATATACTTAGACAAATTAAATAACTCAAGACAAATT-AATTGCC
* * * * * *
30968275 ATA-ACTAATTAGAACAAATTAATTATCTTAAGACATATTAATTGCC
1 GTATA-TACTTAG-ACAAATTAAATAACTCAAGACAAATTAATTGCC
* *
30968321 GTATATACTTAGACATATTAAATAAACTCAAGACACATTAATT
1 GTATATACTTAGACAAATTAAAT-AACTCAAGACAAATTAATT
30968364 ACTTAAACTA
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
45 10 0.14
46 36 0.52
47 23 0.33
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (45 bp):
GTATATACTTAGACAAATTAAATAACTCAAGACAAATTAATTGCC
Found at i:30971357 original size:30 final size:31
Alignment explanation
Indices: 30971281--30971363 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
30971271 TCAGTCTCGA
* * *
30971281 CATAT-ACTGGGCTGAAGACTTTTCATCAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
30971311 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
30971342 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
30971364 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 18 0.37
31 31 0.63
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:30971611 original size:25 final size:25
Alignment explanation
Indices: 30971583--30971652 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
30971573 CTCTTTTAAT
30971583 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
30971608 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30971633 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30971653 AACACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:30972492 original size:27 final size:28
Alignment explanation
Indices: 30972462--30972531 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
30972452 GGGCATATTC
30972462 GTCATTTTACCA-TACAAGGG-TATTACG
1 GTCATTTTACCATTACAAGGGCT-TTACG
* *
30972489 GTCACTTTA-CATTACAGGGGCTTTACG
1 GTCATTTTACCATTACAAGGGCTTTACG
*
30972516 GTCTTTTTACCTATTA
1 GTCATTTTACC-ATTA
30972532 GGGGTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 2 0.06
27 27 0.77
28 2 0.06
29 4 0.11
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (28 bp):
GTCATTTTACCATTACAAGGGCTTTACG
Found at i:30972610 original size:27 final size:27
Alignment explanation
Indices: 30972580--30972687 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
30972570 GTAAATCTAC
30972580 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
30972607 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* *
30972633 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTAGTAATTTTGT
** * *
30972663 AAATTAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTTAGTAATTTT
30972688 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 40 0.59
28 9 0.13
29 17 0.25
30 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:30972693 original size:27 final size:27
Alignment explanation
Indices: 30972643--30972793 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
30972633 AGAAAGTCAA
* ** *
30972643 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
30972670 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
30972696 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
30972724 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
30972751 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
30972778 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
30972794 CTATCCTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 106 0.97
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:30972729 original size:54 final size:54
Alignment explanation
Indices: 30972668--30972826 Score: 196
Period size: 54 Copynumber: 2.9 Consensus size: 54
30972658 TTTGTAAATT
*
30972668 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACC
* * * * *
30972722 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
* ** *
30972776 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
30972827 TCGAGGGTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 84 0.94
55 5 0.06
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
Found at i:30972761 original size:81 final size:81
Alignment explanation
Indices: 30972644--30972793 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
30972634 GAAAGTCAAG
** ** * *
30972644 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
30972708 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
30972725 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
30972790 AATT
66 AATT
30972794 CTATCCTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:30972810 original size:81 final size:81
Alignment explanation
Indices: 30972643--30972826 Score: 212
Period size: 81 Copynumber: 2.3 Consensus size: 81
30972633 AGAAAGTCAA
** ** * *
30972643 GGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
30972708 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * *
30972724 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCG
**
30972788 GTAA-TTCTATCCTA-CAG
65 GTAATTTC-A-CAAACCAG
*
30972805 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
30972827 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.03
81 80 0.92
82 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:30972833 original size:27 final size:27
Alignment explanation
Indices: 30972668--30972833 Score: 149
Period size: 27 Copynumber: 6.1 Consensus size: 27
30972658 TTTGTAAATT
* * *
30972668 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTCGGTAATTTCACAAA-CG
*
30972696 A-GGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAACG
* * *
30972722 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACG
* * *
30972749 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACG
* **
30972776 AGGGGTATTTTGGTAA-TTCTATCCTAC-
1 AGGGGTATTTCGGTAATTTC-A-CAAACG
* *
30972803 AGGGGTATTTCAGTAATTTCACAATCG
1 AGGGGTATTTCGGTAATTTCACAAACG
30972830 AGGG
1 AGGG
30972834 TAAAATAGTA
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
26 5 0.04
27 104 0.90
28 7 0.06
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.37
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAACG
Found at i:30972859 original size:27 final size:27
Alignment explanation
Indices: 30972825--30973022 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
30972815 GTAATTTCAC
* * *
30972825 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
30972852 AATTGAGGGTAAAATGGTAATTTTCTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* **
30972879 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
30972906 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
30972933 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* *
30972960 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
30972987 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
30973014 ACTCGAGGG
1 AATCGAGGG
30973023 CATTTCAGTA
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 143 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:30972940 original size:81 final size:81
Alignment explanation
Indices: 30972825--30973022 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
30972815 GTAATTTCAC
* * ** * *
30972825 AATCGAGGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTCTAAATTGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTACAAACTGAGGGTAAAATGGTAATTTTCTAAATCGAGGGTA
30972890 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
* *
30972906 AATCGAGGGTAAAATGGTAATTCTACAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAACTGAGGGTAAAATGGTAATTTTCTAAATCGAGGGTA
*
30972971 AAACGGTAATTCTATA
66 AAACAGTAATTCTATA
*
30972987 AATCAAGGGTAAAATGGTAATTCTAC-AACTCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTACAAACT-GAGGG
30973023 CATTTCAGTA
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 4 0.04
81 102 0.96
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAACTGAGGGTAAAATGGTAATTTTCTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:30977245 original size:40 final size:39
Alignment explanation
Indices: 30977063--30977215 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
30977053 GAATGTTCGA
30977063 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
30977102 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* *
30977141 ATGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* * *
30977180 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 ATGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
30977216 GGTTACCATA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
Found at i:30980784 original size:12 final size:12
Alignment explanation
Indices: 30980767--30980817 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
30980757 GAATTGGAAC
*
30980767 CAAAATGAGAAT
1 CAAAATCAGAAT
30980779 CAAAATCAGAAT
1 CAAAATCAGAAT
* *
30980791 TAGTAA-CAGAAT
1 CA-AAATCAGAAT
*
30980803 CAGAATCAGAAT
1 CAAAATCAGAAT
30980815 CAA
1 CAA
30980818 TATTAGTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (12 bp):
CAAAATCAGAAT
Found at i:30980808 original size:30 final size:30
Alignment explanation
Indices: 30980774--30980932 Score: 230
Period size: 30 Copynumber: 5.2 Consensus size: 30
30980764 AACCAAAATG
*
30980774 AGAATCAAAATCAGAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
30980804 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
* * *
30980834 AGAATTAGAATCAAAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
30980865 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
30980895 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
30980926 AGAATCA
1 AGAATCA
30980933 AAATGTGAAT
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.01
30 71 0.61
31 44 0.38
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:30980873 original size:61 final size:61
Alignment explanation
Indices: 30980774--30980932 Score: 166
Period size: 61 Copynumber: 2.6 Consensus size: 61
30980764 AACCAAAATG
* *
30980774 AGAATCAAAATCAGA-ATTAGTAACAGAATCAGAATCAGAATCA-ATATTA-GTAACAGAATC
1 AGAATCAGAATCA-ATATTAGTAACAGAATCAGAATCAGAATCAGA-ATTAGGTGACAGAATC
* * * * *
30980834 AGAATTAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGTATTA-GTAACAGAATC
1 AGAATCAGAATCAATATTA-GTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATC
*
30980895 AGAATCAGAATCAGA-ATTAGGTGACAGAATCAGAATCA
1 AGAATCAGAATCA-ATATTA-GTAACAGAATCAGAATCA
30980933 AAATGTGAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
59 1 0.01
60 15 0.17
61 73 0.81
62 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (61 bp):
AGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATC
Done.