Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold232
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: 1304497
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.30
Warning! 90120 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:352275 original size:21 final size:21
Alignment explanation
Indices: 352242--352281 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
352232 TAGAACAGCA
*
352242 ATTGGAACCACTCCAAGAATG
1 ATTGGAACAACTCCAAGAATG
* *
352263 ATTGGATCAACTCGAAGAA
1 ATTGGAACAACTCCAAGAA
352282 AGAAACCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
ATTGGAACAACTCCAAGAATG
Found at i:352622 original size:65 final size:65
Alignment explanation
Indices: 352546--352700 Score: 238
Period size: 65 Copynumber: 2.4 Consensus size: 65
352536 GTTTTATTCG
*
352546 TACAACATTAATACATTTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
1 TACAACATTAATACATGTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
* * * *
352611 TACAACATTAATACATGTCTTAGTATTTTAATTTTTTCTTAGTCTATTAATTGTGTCTTAGTTCG
1 TACAACATTAATACATGTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
* *
352676 TACAACATCAGTACATGTCTTGAGT
1 TACAACATTAATACATGTC-TGAGT
352701 CAGACACTAT
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 77 0.95
66 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (65 bp):
TACAACATTAATACATGTCTGAGTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCA
Found at i:352652 original size:19 final size:19
Alignment explanation
Indices: 352626--352672 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
352616 CATTAATACA
* *
352626 TGTCTTAGTATTTTAATTT
1 TGTCTTAGTATATTAATTG
* *
352645 TTTCTTAGTCTATTAATTG
1 TGTCTTAGTATATTAATTG
352664 TGTCTTAGT
1 TGTCTTAGT
352673 TCGTACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.13, T:0.60
Consensus pattern (19 bp):
TGTCTTAGTATATTAATTG
Found at i:353244 original size:35 final size:35
Alignment explanation
Indices: 353190--353261 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
353180 TCTAAGTCCA
* * *
353190 CTTCAATGACTATTTGGGAACTTCAATTGTCAAAG
1 CTTCAATGACTATTCGGGAACTCCAAATGTCAAAG
* * *
353225 CTTCAATGTCTGTTCGGGAACTCCAAATGTCGAAG
1 CTTCAATGACTATTCGGGAACTCCAAATGTCAAAG
353260 CT
1 CT
353262 GATCAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (35 bp):
CTTCAATGACTATTCGGGAACTCCAAATGTCAAAG
Found at i:355347 original size:65 final size:64
Alignment explanation
Indices: 355238--355389 Score: 232
Period size: 65 Copynumber: 2.3 Consensus size: 64
355228 TTATTTGTAG
* * *
355238 AACATTAATACATGTCTGATTATTTTAATTTGTTCTAAGTCTATTAATTGTGTCTTAGTTCGTAC
1 AACA-TAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
355303 AACAGTAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
1 AACA-TAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
*
355368 AACATCAGTACATGTCCTGAGT
1 AACAT-AATACATGT-CTGAGT
355390 CAGACATTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 1 0.01
65 73 0.91
66 6 0.08
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (64 bp):
AACATAATACATGTCTGAGTATTTTAATTGGTTCTAAGTCTATTAATTGTGTCTTAGTTCATAC
Found at i:358868 original size:20 final size:20
Alignment explanation
Indices: 358845--358882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
358835 GAACCACTCC
*
358845 ATTTACTTTCTTACCATTCG
1 ATTTACTTACTTACCATTCG
*
358865 ATTTACTTACTTTCCATT
1 ATTTACTTACTTACCATT
358883 TCATTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCG
Found at i:358888 original size:20 final size:19
Alignment explanation
Indices: 358844--358889 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
358834 TGAACCACTC
*
358844 CATTTACTTTCTTACCATT
1 CATTTACTTACTTACCATT
*
358863 CGATTTACTTACTTTCCATTT
1 C-ATTTACTTACTTACCA-TT
358884 CATTTA
1 CATTTA
358890 ATTAGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.52
Consensus pattern (19 bp):
CATTTACTTACTTACCATT
Found at i:362311 original size:20 final size:20
Alignment explanation
Indices: 362288--362590 Score: 126
Period size: 20 Copynumber: 15.3 Consensus size: 20
362278 AATGAGCATT
362288 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
362308 CAGGGGCA-TGTAAGTGCAAT
1 CAGGGGTACTG-AAGTACAAA
* *
362328 CAGGGGCACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * * *
362348 TAGGGGCACGTG-TGT--AAT
1 CAGGGGTAC-TGAAGTACAAA
*
362366 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* *
362386 TAGGGG--CTGTAAGTACAAC
1 CAGGGGTACTG-AAGTACAAA
* * *
362405 CAAGGTTATTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
362425 TAGGGGCATA-T-AAGTGCAAT
1 CAGGGG--TACTGAAGTACAAA
**
362445 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
362465 CAGGGGCACAT-AAGTGCAAT
1 CAGGGGTAC-TGAAGTACAAA
* *
362485 CAGGGTTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
362505 CAGGGGCAC-GTAAGTGCAAT
1 CAGGGGTACTG-AAGTACAAA
*
362525 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
362545 TAGGGGCAC-GTAAGTGCAATA
1 CAGGGGTACTG-AAGTACAA-A
* *
362566 -AGGGGTACCGAACTACAAA
1 CAGGGGTACTGAAGTACAAA
*
362585 AAGGGG
1 CAGGGG
362591 CACGTAAGTG
Statistics
Matches: 208, Mismatches: 54, Indels: 42
0.68 0.18 0.14
Matches are distributed among these distances:
17 1 0.00
18 15 0.07
19 16 0.08
20 166 0.80
21 8 0.04
22 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGGGTACTGAAGTACAAA
Found at i:362331 original size:40 final size:40
Alignment explanation
Indices: 362287--362606 Score: 421
Period size: 40 Copynumber: 8.1 Consensus size: 40
362277 AAATGAGCAT
* * *
362287 TCAGGGGTACTGAAGTACAAACAGGGGCATGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* *
362327 TCAGGGGCACCGAAGTACAAATAGGGGCACGT--GTGTAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* *
362365 TCAGGGGTACCGAAGTACAAATAGGGGC-TGTAAGTACAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* * * ** **
362404 CCAAGGTTATTGAAGTACAAATAGGGGCATATAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* * *
362444 TCAGGGGTACCAAAGTACAAACAGGGGCACATAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* *
362484 TCAGGGTTACCGAAGTACAAACAGGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
362524 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
* * *
362564 TAAGGGGTACCGAACTACAAAAAGGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
362604 TCA
1 TCA
362607 TTCAATAAAT
Statistics
Matches: 244, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
37 2 0.01
38 32 0.13
39 27 0.11
40 183 0.75
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.16
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAA
Found at i:363584 original size:21 final size:21
Alignment explanation
Indices: 363560--363603 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
363550 CTTAATTAAC
363560 TATCAAAACGTGAAAATTTCT
1 TATCAAAACGTGAAAATTTCT
* *
363581 TATCGAAACGTTAAAATTTCT
1 TATCAAAACGTGAAAATTTCT
363602 TA
1 TA
363604 ACGAAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (21 bp):
TATCAAAACGTGAAAATTTCT
Found at i:363608 original size:21 final size:21
Alignment explanation
Indices: 363565--363615 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
363555 TTAACTATCA
* *
363565 AAACGTGAAAATTTCTTATCG
1 AAACGTTAAAATTTCTTAACG
363586 AAACGTTAAAATTTCTTAACG
1 AAACGTTAAAATTTCTTAACG
*
363607 AAACTTTAA
1 AAACGTTAA
363616 TACAACCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
AAACGTTAAAATTTCTTAACG
Found at i:364712 original size:41 final size:41
Alignment explanation
Indices: 364645--364786 Score: 187
Period size: 41 Copynumber: 3.5 Consensus size: 41
364635 GAGTGTAAAC
** *
364645 AGGGGCACAAATGTGC-ATTCAAGGGTACCGAAGTACAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
* * *
364685 AGGAGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
* * *
364726 AGGGGCGCGTATGTGCAATTAAGGGGTACCGAAGTACGAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
*
364767 AGGGGCACGTATGTGTAATT
1 AGGGGCACGTATGTGCAATT
364787 TATACAATAA
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 13 0.15
41 74 0.85
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
Found at i:370648 original size:46 final size:46
Alignment explanation
Indices: 370575--370716 Score: 203
Period size: 46 Copynumber: 3.1 Consensus size: 46
370565 GTTATTCATT
* * *
370575 AGTGGTAGCTACAACTATATATTAGTGGTAGCTTCGACTACATTTC
1 AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
* * *
370621 AGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
* * *
370667 AGTGGTAGCTACGACTATGTATCAGTGGTAGCTTTGGCTACATATC
1 AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
370713 AGTG
1 AGTG
370717 TGACACTTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (46 bp):
AGTGGTAGCTACGACTATATATCAGTGGTAGCTTCGGCTACATTTC
Found at i:370712 original size:23 final size:23
Alignment explanation
Indices: 370575--370716 Score: 149
Period size: 23 Copynumber: 6.2 Consensus size: 23
370565 GTTATTCATT
* ** * *
370575 AGTGGTAGCTACAACTATATATT
1 AGTGGTAGCTTCGGCTACATATC
* *
370598 AGTGGTAGCTTCGACTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
*
370621 AGTGGTAGCTACGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
* *
370644 AGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTTCGGCTACATATC
* * **
370667 AGTGGTAGCTACGACTATGTATC
1 AGTGGTAGCTTCGGCTACATATC
*
370690 AGTGGTAGCTTTGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
370713 AGTG
1 AGTG
370717 TGACACTTAT
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 97 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:371946 original size:49 final size:49
Alignment explanation
Indices: 371889--372021 Score: 185
Period size: 49 Copynumber: 2.7 Consensus size: 49
371879 CAATAAGTGA
* *
371889 TATGTGATTTCGTGTAAAACCATAGCTGGGCTATGACATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
* * * *
371938 TATGTGATTACTTATAAGAGCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
* * *
371987 TATGTGATTACGTGTAAGACTATAGTTGGACTATG
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATG
372022 GGATTGAGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGT
Found at i:372925 original size:29 final size:29
Alignment explanation
Indices: 372879--372936 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
372869 CACTCATATC
**
372879 TACTTAATTTACTGTTTAACATTTAGCAT
1 TACTTAATTTACCATTTAACATTTAGCAT
372908 TACTTAATTTACCATTTAACATTTAGCAT
1 TACTTAATTTACCATTTAACATTTAGCAT
372937 CATAAGCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (29 bp):
TACTTAATTTACCATTTAACATTTAGCAT
Found at i:374518 original size:33 final size:33
Alignment explanation
Indices: 374463--374576 Score: 138
Period size: 33 Copynumber: 3.4 Consensus size: 33
374453 ATATTGTCAG
* * *
374463 TCCAACCAAACGCATCAGATGCTCACAAGAGCCAA
1 TCCAACC-AACACATCA-ATGCTCATAAGAGCTAA
** *
374498 TCCCTCCAACACATCAATGCTCATAAGAGTTAA
1 TCCAACCAACACATCAATGCTCATAAGAGCTAA
* *
374531 TCCAACTAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACATCAATGCTCATAAGAGCTAA
374564 TCCAACCAACACA
1 TCCAACCAACACA
374577 CCAAACAGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
33 54 0.81
34 8 0.12
35 5 0.07
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (33 bp):
TCCAACCAACACATCAATGCTCATAAGAGCTAA
Found at i:376438 original size:40 final size:39
Alignment explanation
Indices: 376411--376525 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
376401 ATTTAAGGGC
* *
376411 ACCAAAGTATAAACAGGGCCACATATGTGCAATGAGGGGT
1 ACCAAAGTACAAACAGGG-CACATATGTGCAATCAGGGGT
* * *
376451 GCCAGAGTACAAACAAGGGAACATATGTGCAATCAGGGGT
1 ACCAAAGTACAAAC-AGGGCACATATGTGCAATCAGGGGT
*
376491 ACCAATGTACAAACAGGGGCACATATGTGCAATCA
1 ACCAAAGTACAAACA-GGGCACATATGTGCAATCA
376526 TACAATAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 59 0.92
41 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (39 bp):
ACCAAAGTACAAACAGGGCACATATGTGCAATCAGGGGT
Found at i:376507 original size:20 final size:20
Alignment explanation
Indices: 376457--376518 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
376447 GGGTGCCAGA
*
376457 GTACAAACAAGGGAACATAT
1 GTACAAACAGGGGAACATAT
* * *
376477 GTGCAATCAGGGGTACCA-AT
1 GTACAAACAGGGG-AACATAT
*
376497 GTACAAACAGGGGCACATAT
1 GTACAAACAGGGGAACATAT
376517 GT
1 GT
376519 GCAATCATAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
GTACAAACAGGGGAACATAT
Found at i:376730 original size:14 final size:14
Alignment explanation
Indices: 376710--376752 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
376700 TCTATATGGT
376710 AATTAAATACATTC
1 AATTAAATACATTC
*
376724 TATTAAATTCACATTC
1 AATTAAA-T-ACATTC
*
376740 AATTTAATACATT
1 AATTAAATACATT
376753 TAACCCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATACATTC
Found at i:384176 original size:164 final size:163
Alignment explanation
Indices: 383894--384219 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 163
383884 TTTCGAAACG
* *
383894 AAATTTTTATAGACACTACTAAATTACTGTAGATATTAAAATAATAATAAAATTAATATTTCCAC
1 AAATTTTTATAGACACTACTAAATTACTGTAGACATTAAAATAATAATAAAATAAATATTTCCAC
* *
383959 ATCAAATTTGAGGTCCCAAAACCACTTTTCTAATTTCACTAAAAATGGGCTGTTACAACGGTGAT
66 ATCAAATTTGAGGTCCCAAAACCACTTTTCGAATTTCACTAAAAATGGGCTGTTACAACAGTGAT
* *
384024 ACACTCGACCGAATAAACCCTCTATCTTTAACA
131 ACACTCAACAGAATAAACCCTCTATCTTTAACA
*
384057 AAATTTTTATACGACACTACTAACATT-CTGTAGACATTAAAATAATAATAAAATAAATATTTTC
1 AAATTTTTATA-GACACTACTAA-ATTACTGTAGACATTAAAATAATAATAAAATAAATATTTCC
* * * * * * * *
384121 GCATTAGATTTGTGGTCCTAAAATCATTGTTTCG-ATATT-ACTAAAAATGGGCTGTTACAATAG
64 ACATCAAATTTGAGGTCCCAAAACCACT-TTTCGAAT-TTCACTAAAAATGGGCTGTTACAACAG
*
384184 TGATACACTCAATAGAATAAACCCTCTATCTTTAAC
127 TGATACACTCAACAGAATAAACCCTCTATCTTTAAC
384220 TCTTTGAGCT
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
163 11 0.08
164 123 0.86
165 9 0.06
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (163 bp):
AAATTTTTATAGACACTACTAAATTACTGTAGACATTAAAATAATAATAAAATAAATATTTCCAC
ATCAAATTTGAGGTCCCAAAACCACTTTTCGAATTTCACTAAAAATGGGCTGTTACAACAGTGAT
ACACTCAACAGAATAAACCCTCTATCTTTAACA
Found at i:389159 original size:50 final size:50
Alignment explanation
Indices: 389105--389987 Score: 604
Period size: 50 Copynumber: 17.7 Consensus size: 50
389095 TACACCTCCT
* * * * *
389105 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * *** * *
389155 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCGCTG-TATCGCCTA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAAT-GTC-A
* * *
389206 GGG-GGTAAGATTCGCC-ACTGTGGCTTTAATCTTTTTAACTGCAATGTC-
1 GGGAAGTAAGATTCACCGA-TGTGGCTTTAATCTGTTTAACTGCAATGTCA
* ** ** * *
389254 GGGAAAGCAAGATTCACCGATGT-GCTTTTAATCTACTCCACGGC-ATCGCCA
1 GGG-AAGTAAGATTCACCGATGTGGC-TTTAATCTGTTTAACTGCAAT-GTCA
* * * * * *
389305 GGGCAGTAGGATTCACC-ACTGTGGCTTTAATCTTTTTAATTGTAATGTCG
1 GGGAAGTAAGATTCACCGA-TGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * ** **
389355 GGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCACCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAAT-GTCA
* * * * * *
389405 GGGCAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * **
389455 GGGAA-TAAGATTCACCGATGTGGTTTTAATCTGCTCCAC-G-ACATCG-CTA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCA-AT-GTC-A
** * * * * *
389504 GGGCTGTAGGATTCACCGCTGTGGCTTTAATCTTTTTAACTGTAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * ** *
389554 GGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGC-ATCGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAAT-GTCA
* * ** * * *
389604 GGGCAGTAGGATTTGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * ** ** *
389654 GGGAAGCAAGATTTACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* ** * * *
389704 GGGAAGTAAGGTTTGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
** * * ** ** *
389754 GGGAAGCGAGATTCACTGATGTGGCTTTAATCTGCTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
** * * * *
389804 GGGAAGTAAGATTTGCCGCTGTGGCTTTAATCTTTTTAACTGTAATGTCG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
** * ** * *
389854 GGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACTGCCA
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
* * * * * * **
389904 AGGAAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGTAATGTTG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
*
389954 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTG
1 GGGAAGTAAGATTCACCGATGTGGCTTTAATCTG
389988 CTCCACTGCA
Statistics
Matches: 612, Mismatches: 196, Indels: 50
0.71 0.23 0.06
Matches are distributed among these distances:
47 1 0.00
48 7 0.01
49 41 0.07
50 539 0.88
51 23 0.04
52 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTTAACTGCAATGTCA
Found at i:389214 original size:100 final size:100
Alignment explanation
Indices: 389029--389997 Score: 1266
Period size: 100 Copynumber: 9.7 Consensus size: 100
389019 TAACTAGTAA
* ** ** * * * * * *
389029 CTTTAATCTGTTTAACTGTGATGTCAAGGAAGCAAGATTCGCTGTTCTAGCTTCAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * * * * * *
389094 CTACACCTCCTGGGAAGTAAGATTCGCTGTTGTAG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
389129 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * *
389194 CTGTATCGCCTAGGG-GGTAAGATTCGCCACTGTGG
66 CTGCATCGCC-AGGGCAGTAGGATTCGCCGCTGTGG
* **
389229 CTTTAATCTTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGATGT-GCTTTTAATCTACTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC-TTTAATCTGTTCC
* * *
389293 ACGGCATCGCCAGGGCAGTAGGATTCACCACTGTGG
65 ACTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
389329 CTTTAATCTTTTTAATTGTAATGTCGGGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
389394 CTGCATCACCAGGGCAGTAGGATTCGCCGCTGTGG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
389429 CTTTAATCTTTTTAACTGCAATGTCGGGGAA-TAAGATTCACCGATGTGGTTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
389493 C-GACATCGCTAGGGCTGTAGGATTCACCGCTGTGG
66 CTG-CATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* *
389528 CTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
389593 CTGCATCGCCAGGGCAGTAGGATTTGCCGCTGTGG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
*
389628 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * *
389693 CTGCACCGCCAGGGAAGTAAGG-TTTGCCGCTGTGG
66 CTGCATCGCCAGGGCAGT-AGGATTCGCCGCTGTGG
* * *
389728 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * *
389793 CTGCACCGCCAGGGAAGTAAGATTTGCCGCTGTGG
66 CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
389828 CTTTAATCTTTTTAACTGTAATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
389893 CTGCA-CTGCCAAGGAAGTAGGATTCGCCGCTGTGG
66 CTGCATC-GCCAGGGCAGTAGGATTCGCCGCTGTGG
* * *
389928 CTTTAATCTTTTTAACTGTAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
389993 CTGCA
66 CTGCA
389998 CTGCCTGAGA
Statistics
Matches: 782, Mismatches: 77, Indels: 20
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.00
99 97 0.12
100 675 0.86
101 9 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
CTGCATCGCCAGGGCAGTAGGATTCGCCGCTGTGG
Found at i:390113 original size:44 final size:44
Alignment explanation
Indices: 390036--390408 Score: 204
Period size: 44 Copynumber: 8.0 Consensus size: 44
390026 TTCGGTCTAT
* * * *
390036 TCCACCGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
*
390080 TCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC---T--G--C
* * * * *
390131 TACTCTACTGTAA-CTTCAGAGATATAAGACCATTTAT---TTTAATCCGC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAG---ATTTCTGGCTTCAATCTGC
* *
390178 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
* * *
390222 TCCGCTGTAATCCCAGGGAGATAAAATTTCTGGCTTCAATCTGATGCGATC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC---T--G--C
* * * *
390273 TACTCTACTGTAA-CTTTAGAGAGATAAGATCCTTCAT---TTTAATCCGC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTC-TGGCTTCAATCTGC
* * * * **
390320 TCCACAGTAATCTTAGGGAGATAGGATTACAAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
*
390364 TCCACTGTAATCTCAGGGAGATAAGATTTCTTGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
390408 T
1 T
390409 TCTTTTCACT
Statistics
Matches: 250, Mismatches: 43, Indels: 72
0.68 0.12 0.20
Matches are distributed among these distances:
41 4 0.02
42 2 0.01
44 163 0.65
45 4 0.02
46 2 0.01
47 6 0.02
49 4 0.02
51 4 0.02
52 2 0.01
53 4 0.02
54 46 0.18
56 3 0.01
57 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGC
Found at i:390203 original size:142 final size:142
Alignment explanation
Indices: 390036--390406 Score: 609
Period size: 142 Copynumber: 2.6 Consensus size: 142
390026 TTCGGTCTAT
* *
390036 TCCACCGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
1 TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
390101 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGATATAAGA-CCATT
66 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC-TT
*
390165 TATTTTAATCCGC
130 CATTTTAATCCGC
* *
390178 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCCCAGGGAGA
1 TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
* *
390243 TAAAATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTC
66 TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTC
390308 ATTTTAATCCGC
131 ATTTTAATCCGC
* ** *
390320 TCCACAGTAATCTTAGGGAGATAGGATTACAAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
390385 TAAGATTTCTTGCTTCAATCTG
66 TAAGATTTCTGGCTTCAATCTG
390407 CTTCTTTTCA
Statistics
Matches: 213, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
142 211 0.99
143 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (142 bp):
TCCACAGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
TAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTC
ATTTTAATCCGC
Found at i:396494 original size:11 final size:10
Alignment explanation
Indices: 396466--396520 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
396456 AATTAAAATG
396466 TTAAAATAAA
1 TTAAAATAAA
*
396476 TTTAAATAAA
1 TTAAAATAAA
396486 TTAACAAT--A
1 TTAA-AATAAA
* *
396495 TTGAAATAAG
1 TTAAAATAAA
*
396505 TTGAAATAAA
1 TTAAAATAAA
396515 TTAAAA
1 TTAAAA
396521 AATGTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:396537 original size:29 final size:29
Alignment explanation
Indices: 396456--396539 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
396446 ATAATATATG
396456 AATT-AAAATGTTAAAATAAATTT-AAATA
1 AATTAAAAATGTTAAAAT-AATTTGAAATA
* * * *
396484 AATTAACAATATTGAAATAAGTTGAAATA
1 AATTAAAAATGTTAAAATAATTTGAAATA
396513 AATTAAAAAATGTTAAAAT-ATTTGAAA
1 AATT-AAAAATGTTAAAATAATTTGAAA
396540 GAGATAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
28 8 0.18
29 26 0.58
30 11 0.24
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (29 bp):
AATTAAAAATGTTAAAATAATTTGAAATA
Found at i:397568 original size:21 final size:20
Alignment explanation
Indices: 397539--397584 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
397529 CGAAAAACAA
397539 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
397560 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
397580 T-AACC
1 TCAACC
397585 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:406837 original size:30 final size:30
Alignment explanation
Indices: 406780--406841 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
406770 GTTTTTTGAA
*
406780 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCATCAAATTTTT
* *
406810 AATATTTACAAAAGGA-GTAGTCAAATTTTT
1 AATATTTACAAAAAGAGGCA-TCAAATTTTT
406840 AA
1 AA
406842 AAATAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.35
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCATCAAATTTTT
Found at i:413347 original size:9 final size:9
Alignment explanation
Indices: 413335--413360 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
413325 ACATAAACAC
413335 AATTTTAAT
1 AATTTTAAT
413344 AATTTTAAT
1 AATTTTAAT
413353 AATTTTAA
1 AATTTTAA
413361 CAAACGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATTTTAAT
Found at i:421372 original size:10 final size:10
Alignment explanation
Indices: 421359--421391 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
421349 TACATCATTG
421359 AATTAATCAA
1 AATTAATCAA
421369 AATTAATCAA
1 AATTAATCAA
*
421379 AATTAAACAA
1 AATTAATCAA
421389 AAT
1 AAT
421392 ACAATTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (10 bp):
AATTAATCAA
Found at i:425442 original size:27 final size:27
Alignment explanation
Indices: 425412--425789 Score: 334
Period size: 27 Copynumber: 14.1 Consensus size: 27
425402 GGCAAATGAT
* *
425412 CGAAATACCCTTGAAGGGTAAATTTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* ** *
425439 CGAAATATCCTTAAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
425466 AGAAATACCCTTGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
425493 TGAAATATCCTCGAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
425520 CAAAATACCCTCGATGGGT-AAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
425546 C-AAATACCCTTGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
425572 CAAAATACCCTCTAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* ** * * *
425599 TGAAATATTCTCGATGGTTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
425626 CGAAATACCCTCGATGGGTAAAATAAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
425653 C-AGAATACCCTCAAAAGGTAAAATTAC
1 CGA-AATACCCTCGAAGGGTAAAATTAC
* *
425680 CGAAATACCCTCAAAAGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
425707 CAAAATACCC-CTTAAGGGTAAAATTAC
1 CGAAATACCCTC-GAAGGGTAAAATTAC
* * * *
425734 CAAAATACCCCCAAAAGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
425761 CAAAATACCAC-CAAAGGGTAAAATAAC
1 CGAAATACC-CTCGAAGGGTAAAATTAC
425788 CG
1 CG
425790 TTATACCCCT
Statistics
Matches: 297, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
25 15 0.05
26 17 0.06
27 262 0.88
28 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAC
Found at i:428147 original size:23 final size:23
Alignment explanation
Indices: 428121--428167 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
428111 TACACATGCC
428121 ATAATTCATAATATTGCTTTCAA
1 ATAATTCATAATATTGCTTTCAA
428144 ATAATTCATAATATTGCTTTCAA
1 ATAATTCATAATATTGCTTTCAA
428167 A
1 A
428168 ATACCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAATTCATAATATTGCTTTCAA
Found at i:431780 original size:50 final size:50
Alignment explanation
Indices: 431620--431806 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
431610 GGTAAAGAGA
* **
431620 TCCCATGTAAGACCATTTCTGGGACATGGCATTGGCACCGAGT-TGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-TATGAGAAC
* * * * * **
431670 TCCGATGGAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGA-AC
* * *
431721 TCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
* * * *
431770 TCCCATGTAAGACCATATTTGGGATATGGAATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
431807 GTACAGAAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
49 4 0.04
50 103 0.93
51 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
Found at i:431805 original size:100 final size:100
Alignment explanation
Indices: 431626--431806 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 100
431616 GAGATCCCAT
* * ** * *
431626 GTAAGACCATTTCTGGGACATGGCATTGGCACCGAGTTGAGAGGTCCGATGGAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGTTGAGAACTCCCATGGAAGACCATATCTG
**
431691 GGACATGGCGTTGGCACCGAGATAAGAGGTTCCCC
66 GGACATGGAATTGGCACCGAGATAAGAGGTTCCCC
* * *
431726 GTAAGACCATGTCTGGGACATGGCATGGGCACTGA-TATGAGAACTCCCATGTAAGACCATATTT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGT-TGAGAACTCCCATGGAAGACCATATCT
*
431790 GGGATATGGAATTGGCA
65 GGGACATGGAATTGGCA
431807 GTACAGAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 67 0.99
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGTTGAGAACTCCCATGGAAGACCATATCTG
GGACATGGAATTGGCACCGAGATAAGAGGTTCCCC
Found at i:439003 original size:49 final size:49
Alignment explanation
Indices: 438891--439219 Score: 243
Period size: 49 Copynumber: 6.8 Consensus size: 49
438881 TCATTGAGAT
* *
438891 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACT-G-A-G-
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
* ** *
438936 T-TGAGAGGTCCCCCGTAAGA-CATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGA
* * * * *
438984 TATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGTA-G-
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
** * *
439031 TACAAAAAATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGA
1 TA-TGAGAA-GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GA
* **
439083 GT-TGAGAGGTCCCCCGTAAGA-CATGTCTGGGACATGGCA-TGGACACCGA
1 -TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CA-CGA
* * * *
439132 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTA-G-
1 TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
** * * *
439179 TACAAAAAACATCCCATGTTAGACCATGTCTGGGACATGGC
1 TA-TGAGAA-GTCCCATGTAAGACCATGTCTGGGACATGGC
439220 TTTTTCATGT
Statistics
Matches: 221, Mismatches: 43, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
43 18 0.08
44 18 0.08
45 2 0.01
47 5 0.02
48 13 0.06
49 110 0.50
50 48 0.22
51 6 0.03
53 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
TATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGA
Found at i:439089 original size:99 final size:95
Alignment explanation
Indices: 438835--439121 Score: 258
Period size: 99 Copynumber: 3.0 Consensus size: 95
438825 TGACATTTGG
* * **
438835 GTAAAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 GTAAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG--TATGAGAAC
*
438900 TCCCATGTAAGACCATGTCTGGGACATGGCACTGA
61 TCCCATGTAAGACCATATCTGGGACATGGCACTGA
** * ** * *
438935 GTTGAGAGGTCCCCCGTAAGA-CATGTCTGGGACATGGCATGGGCACCGA-TATGAGAACTCCCA
1 GTAAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAACTCCCA
* * *
438998 TGTAAGACCATATTTGGGATATGGCATTGGTA
66 TGTAAGACCATATCTGGGACATGGCACT-G-A
* * **
439030 GTACAAAAAATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGT-TGAGAGGTC
1 GT---AAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAACTC
** *
439094 CCCCGTAAGA-CATGTCTGGGACATGGCA
63 CCATGTAAGACCATATCTGGGACATGGCA
439122 TGGACACCGA
Statistics
Matches: 151, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
93 36 0.24
94 1 0.01
95 3 0.02
96 2 0.01
98 29 0.19
99 63 0.42
100 17 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
GTAAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGTATGAGAACTCCCA
TGTAAGACCATATCTGGGACATGGCACTGA
Found at i:439113 original size:148 final size:146
Alignment explanation
Indices: 438899--439220 Score: 553
Period size: 148 Copynumber: 2.2 Consensus size: 146
438889 ATTATGAGAG
438899 GTCCCATGTAAGACCATGTCTGGGACA----TGGCACTGAGTTGAGAGGTCCCCCGTAAGACATG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCTGGCACTGAGTTGAGAGGTCCCCCGTAAGACATG
* *
438960 TCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCAT
66 TCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
*
439025 TGGTAGTACAAAAAAT
131 TGGTAGTACAAAAAAC
439041 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGTTGAGAGGTCCCCCGTAAGACA
1 GTCCCATGTAAGACCATGTCTGGGACATGGC--TGGCACTGAGTTGAGAGGTCCCCCGTAAGACA
439106 TGTCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
64 TGTCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
439171 ATTGGTAGTACAAAAAAC
129 ATTGGTAGTACAAAAAAC
* *
439189 ATCCCATGTTAGACCATGTCTGGGACATGGCT
1 GTCCCATGTAAGACCATGTCTGGGACATGGCT
439221 TTTTCATGTT
Statistics
Matches: 169, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
142 27 0.16
146 1 0.01
148 141 0.83
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (146 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCTGGCACTGAGTTGAGAGGTCCCCCGTAAGACATG
TCTGGGACATGGCATGGACACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
TGGTAGTACAAAAAAC
Found at i:451038 original size:25 final size:25
Alignment explanation
Indices: 451019--451149 Score: 147
Period size: 25 Copynumber: 5.3 Consensus size: 25
451009 TAGCTCTTAT
* *
451019 GAGCTTATAGTTATTCAGCTTGGAG
1 GAGCTTATCGTTATTCAGCTCGGAG
* * **
451044 GAGCTTATCATTATTTAGCTC-GTT
1 GAGCTTATCGTTATTCAGCTCGGAG
* *
451068 GAGCTTACCGTTATTCAGCTCGAAG
1 GAGCTTATCGTTATTCAGCTCGGAG
* * *
451093 GAGTTTACCGTTATTCAGCTCGGAA
1 GAGCTTATCGTTATTCAGCTCGGAG
*
451118 GAGCTTATCGTTATTCAGCTTGGAG
1 GAGCTTATCGTTATTCAGCTCGGAG
451143 GAGCTTA
1 GAGCTTA
451150 CTGTTTACAA
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
24 19 0.22
25 67 0.78
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (25 bp):
GAGCTTATCGTTATTCAGCTCGGAG
Found at i:451071 original size:49 final size:49
Alignment explanation
Indices: 450999--451149 Score: 169
Period size: 49 Copynumber: 3.1 Consensus size: 49
450989 GACATTAGGG
* * *
450999 TTATCAAT-TTTAGCTCTTATGAGCTTATAGTTATTCAGCTTGGAGGAGC
1 TTATCATTATTTAGCTCGT-TGAGCTTATCGTTATTCAGCTTGGAGGAGC
* * * *
451048 TTATCATTATTTAGCTCGTTGAGCTTACCGTTATTCAGCTCGAAGGAGT
1 TTATCATTATTTAGCTCGTTGAGCTTATCGTTATTCAGCTTGGAGGAGC
* * * **
451097 TTACCGTTATTCAGCTCGGAAGAGCTTATCGTTATTCAGCTTGGAGGAGC
1 TTATCATTATTTAGCTC-GTTGAGCTTATCGTTATTCAGCTTGGAGGAGC
451147 TTA
1 TTA
451150 CTGTTTACAA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
49 46 0.55
50 38 0.45
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (49 bp):
TTATCATTATTTAGCTCGTTGAGCTTATCGTTATTCAGCTTGGAGGAGC
Found at i:457388 original size:25 final size:24
Alignment explanation
Indices: 457309--457393 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 24
457299 CGAGCTATAG
*
457309 TCGGTAAGCTCATATGAGCTGAGTAA
1 TCGGTAAGCTCATACGAG-TGAG-AA
*
457335 T-GGTAAGCTCATGCGAGTGA-AA
1 TCGGTAAGCTCATACGAGTGAGAA
*
457357 TAACGGTAAGCTTATACGAGATGAGAA
1 T--CGGTAAGCTCATACGAG-TGAGAA
*
457384 TCGGTCAGCT
1 TCGGTAAGCT
457394 TTCACGAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.06
24 3 0.06
25 36 0.73
26 4 0.08
27 3 0.06
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (24 bp):
TCGGTAAGCTCATACGAGTGAGAA
Found at i:460780 original size:24 final size:26
Alignment explanation
Indices: 460732--460780 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
460722 ACATTCATTT
*
460732 ATTGAAACATACTTATGAAAGAAATA
1 ATTGAAACATACTTATGAAAAAAATA
*
460758 ATTGAAGCATAC-T-TGAAAAAAAT
1 ATTGAAACATACTTATGAAAAAAAT
460781 TTAAAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 1 0.05
26 11 0.52
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (26 bp):
ATTGAAACATACTTATGAAAAAAATA
Found at i:469609 original size:45 final size:45
Alignment explanation
Indices: 469517--469611 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
469507 TACTATGTGA
* * **
469517 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGAGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGAGCTGAACCC
* *
469562 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAACCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGAGCTGAACCC
469607 ACCGA
1 ACCGA
469612 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGAGCTGAACCC
Found at i:473685 original size:353 final size:353
Alignment explanation
Indices: 473039--473704 Score: 1152
Period size: 353 Copynumber: 1.9 Consensus size: 353
473029 TGTACGGAAG
*
473039 ATTAATAATGTGGTCGAAAAAGTGAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
1 ATTAATAATGTGGTCGAAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
*
473104 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCTGATTA
66 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCCGATTA
* *
473169 AATGATTTATTTGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTTTCTAGATCGATTTCT
131 AATGATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTATCTAGATCGATTTCT
*
473234 ATTAGTAAAGAGATAATTTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
196 ATTAGTAAAGAGATAATGTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
* * * *
473299 TATTAATAACTTAGTACAATAGCTATAATGGGGTAATTACTATGATTCTTTTTGAAACTAAACAG
261 TATTAATAACTAAGTACAATAACTATAATGGGGTAACTACTATGATTCCTTTTGAAACTAAACAG
473364 TCACATATACCTCTGAGGATAATTGTAC
326 TCACATATACCTCTGAGGATAATTGTAC
*
473392 ATTAATAATGTGGTCGGAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
1 ATTAATAATGTGGTCGAAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
*
473457 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGATGTTAAATCCGATTA
66 GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCCGATTA
* * *
473522 AATTATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCGGAAGTTTATCTGGATCGATTTCT
131 AATGATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTATCTAGATCGATTTCT
* * *
473587 GTTAGTAAAGAGATAATGTGAAAATTCTGATGACAGAATTAGACAATTAAGTAATGTTTGTATTG
196 ATTAGTAAAGAGATAATGTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
* * *
473652 TATTAATAGCTAAGTATAGTAACTATAATGGGGTAACTACTATGATTCCTTTT
261 TATTAATAACTAAGTACAATAACTATAATGGGGTAACTACTATGATTCCTTTT
473705 AGATATTCTG
Statistics
Matches: 293, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
353 293 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (353 bp):
ATTAATAATGTGGTCGAAAAAGTAAATGAATTAGCAAATGAAGACAATATAAAAAGAGAGATATT
GGATAGTTCTGAAAACTACTCAGATTATGCAAAGTTACTGTCACAAAAGAAGTTAAATCCGATTA
AATGATTTATTCGGGTATGTTATTTAAAGAAAGAATTAACCAGAAGTTTATCTAGATCGATTTCT
ATTAGTAAAGAGATAATGTGAAAATTCTGATGACAAAATTAGACAATTAAGTAATGATTGTATTG
TATTAATAACTAAGTACAATAACTATAATGGGGTAACTACTATGATTCCTTTTGAAACTAAACAG
TCACATATACCTCTGAGGATAATTGTAC
Found at i:474027 original size:2 final size:2
Alignment explanation
Indices: 474020--474047 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
474010 CTTTCTAGGC
474020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
474048 TATCATCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:475545 original size:51 final size:51
Alignment explanation
Indices: 475448--475635 Score: 288
Period size: 51 Copynumber: 3.7 Consensus size: 51
475438 AGTGAAAGTG
* * * *
475448 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
* * * *
475498 TTCGATCACGTGTGTAGTACTATGTGCAGGCGACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
475550 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
475601 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
475636 TGTGAACCGA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
50 1 0.01
51 122 0.98
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
Found at i:475615 original size:25 final size:25
Alignment explanation
Indices: 475535--475615 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
475525 AGGCGACTAC
475535 GTGTATCGGATGGTAATGGTCACAT
1 GTGTATCGGATGGTAATGGTCACAT
* * *
475560 GTGTAGTAC-TAT-GTGCA-GG-CTACTAC
1 GTGTA-T-CGGATGGT-AATGGTC-AC-AT
475586 GTGTATCGGATGGTAATGGTCACAT
1 GTGTATCGGATGGTAATGGTCACAT
475611 GTGTA
1 GTGTA
475616 GTACTATGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 21 0.51
26 16 0.39
27 2 0.05
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (25 bp):
GTGTATCGGATGGTAATGGTCACAT
Found at i:475639 original size:26 final size:26
Alignment explanation
Indices: 475558--475639 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
475548 TAATGGTCAC
475558 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
475584 ACGTGTA-T-CGGATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
475609 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
475635 ATGTG
1 ATGTG
475640 AACCGAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:475732 original size:45 final size:45
Alignment explanation
Indices: 475641--475735 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
475631 TACTATGTGA
* ** *
475641 ACCGAACATCTTTGATTAGTAAGGTGGTTGCTATGTGCTAATTCC
1 ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGATAATTCC
* *
475686 ACCGTACATCATTGATTAACAATGTGGTTGCTATGTGATGAA-TCC
1 ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGAT-AATTCC
475731 ACCGA
1 ACCGA
475736 GTATCTATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAACAAGGTGGTTGCTATGTGATAATTCC
Found at i:478542 original size:50 final size:50
Alignment explanation
Indices: 478485--478670 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
478475 TTGGTTCACA
* * *
478485 TAGTAGCCTGCACATAGTACTAC-CATGTGACCATTACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
* * * * *
478535 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACG
* * * *
478586 TAGTAGCCTGCACATAGTACTACAGATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
* *
478636 TAGTAGCTTGCACATAGTACAACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
478671 CACTTTCACT
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.02
50 61 0.55
51 45 0.41
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:478661 original size:101 final size:100
Alignment explanation
Indices: 478483--478666 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 100
478473 GTTTGGTTCA
* *
478483 CATAGTAGCCTGCACATAGTACTACCATGTGACCATTACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACCATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCAC
*
478548 ATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 ATAGTACAACACACGTGATCGAAACTATCCGGTACG
* * * *
478584 CATAGTAGCCTGCACATAGTACTACAGATGCGACC-TATCATTCCGGTACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATAGTACTAC-CATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
478648 CATAGTACAACACACGTGA
64 CATAGTACAACACACGTGA
478667 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 4 0.05
101 63 0.85
102 7 0.09
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTACCATGCGACCATACCATCCGATACACGTAGTAGCCTGCACA
TAGTACAACACACGTGATCGAAACTATCCGGTACG
Found at i:481402 original size:42 final size:42
Alignment explanation
Indices: 481321--481403 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
481311 TCGTTTTCTC
* **
481321 GATGCCATAGTCCAACTATGGTCTTACACATATTTACATATT
1 GATGCCATAGCCCAACTATGGTCTTACACATATGCACATATT
481363 GATGCCATAGCCCAACTATGGTCTTACACA-ATAGCACATAT
1 GATGCCATAGCCCAACTATGGTCTTACACATAT-GCACATAT
481404 CACACCGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATATGCACATATT
Found at i:482619 original size:61 final size:61
Alignment explanation
Indices: 482549--482675 Score: 245
Period size: 61 Copynumber: 2.1 Consensus size: 61
482539 TTTCATTAAG
*
482549 TTCAATACTAATACATATTTGTCGTTTAACTTAACGTCCCCCTTTTTGTATCATTTTACAC
1 TTCAATACTAATACATATTTGTCGTTTAACTTAACGTCCCCCTTTTTGCATCATTTTACAC
482610 TTCAATACTAATACATATTTGTCGTTTAACTTAACGTCCCCCTTTTTGCATCATTTTACAC
1 TTCAATACTAATACATATTTGTCGTTTAACTTAACGTCCCCCTTTTTGCATCATTTTACAC
482671 TTCAA
1 TTCAA
482676 GCATGAACCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (61 bp):
TTCAATACTAATACATATTTGTCGTTTAACTTAACGTCCCCCTTTTTGCATCATTTTACAC
Found at i:483816 original size:24 final size:24
Alignment explanation
Indices: 483770--483816 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
483760 TTTATGTGAA
*
483770 AATATACTCATTCAGCTTCAATTT
1 AATATACTCATTCAGCCTCAATTT
*
483794 AATATA-TTATTCAGCCTCTAATT
1 AATATACTCATTCAGCCTC-AATT
483817 CAATCTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATACTCATTCAGCCTCAATTT
Found at i:484184 original size:51 final size:50
Alignment explanation
Indices: 484126--484312 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
484116 TTGGTTCACA
* * *
484126 TAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATCTGATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TAACATCCGGTACATG
* * * * * * *
484177 TAGTAGCCTGCTCATAGTACTAAACACGTGATCAAAACTATCCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATAAC-ATCCGGTACATG
* * * * *
484228 TAGTAGCCTGCACTTAGTACTACAGATGCGACC-TACCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATAACA-TCCGGTACATG
484278 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
484313 CACTTTCACT
Statistics
Matches: 108, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 42 0.39
51 65 0.60
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATAACATCCGGTACATG
Found at i:484332 original size:101 final size:99
Alignment explanation
Indices: 484123--484311 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 99
484113 TGTTTGGTTC
* * * *
484123 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATCTGATACATGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGC
* *
484188 TCATAGTACTAAACACGTGATCAAAACTATCCGGT
65 ACATAGTACTAAACACGTGACCAAAACTATCCGGT
* * *
484223 ACGTATAGTAGCCTGCACTTAGTACTACAGATGCGACC-TACCATTCCGGTACACGTAGTAGCCT
1 AC--ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCT
* *
484287 GCACATAGTACTACACATGTGACCA
63 GCACATAGTACTAAACACGTGACCA
484312 TCACTTTCAC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
100 6 0.08
101 38 0.51
102 31 0.41
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTAAACACGTGACCAAAACTATCCGGT
Found at i:498448 original size:41 final size:41
Alignment explanation
Indices: 498402--498497 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
498392 TTCAGCTCTG
***
498402 TGCCTAGCAGGCTTTATG-TCGATGAATTTTATCAGGCTTTA
1 TGCCTAGCAGGCTTTATGCT-GATGAATCAGATCAGGCTTTA
** *
498443 TGCCTAGCAGGCTTTATGCTTTTGTATCAGATCAGGCTTTA
1 TGCCTAGCAGGCTTTATGCTGATGAATCAGATCAGGCTTTA
498484 TGCCTAGCAGGCTT
1 TGCCTAGCAGGCTT
498498 CGTGCCGGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 47 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCTGATGAATCAGATCAGGCTTTA
Found at i:498510 original size:41 final size:41
Alignment explanation
Indices: 498432--498512 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
498422 GATGAATTTT
* ***
498432 ATCAGGCTTTATGCCTAGCAGGCTTTATGCTTTTGTATCAG
1 ATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCAG
*
498473 ATCAGGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCA
1 ATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCA
498513 TATCTGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (41 bp):
ATCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCAG
Found at i:498686 original size:46 final size:46
Alignment explanation
Indices: 498635--498734 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
498625 AATTTGGTTG
498635 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
1 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
*
498681 GTTATATAACAAAAATGATACACATTGCTATTATAAGTATATGTGT
1 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
498727 -TTATATAA
1 GTTATATAA
498735 TAGGTCTATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 8 0.15
46 45 0.85
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (46 bp):
GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
Found at i:499626 original size:41 final size:41
Alignment explanation
Indices: 499569--499672 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
499559 TCAGGGATAT
* * ***
499569 TCAGGCTCTGTGCCTAGCAGGCCTTATGCCGGTGAATTTTA
1 TCAGGCTTTATGCCTAGCAGGCCTTATGCCGGTGAATCAGA
* * * *
499610 TCAGGCTTTATGCCTAGCAAGCTTTATGCTGGTGTATCAGA
1 TCAGGCTTTATGCCTAGCAGGCCTTATGCCGGTGAATCAGA
* *
499651 TCTGACTTTATGCCTAGCAGGC
1 TCAGGCTTTATGCCTAGCAGGC
499673 TTCGTGCTGG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCCTTATGCCGGTGAATCAGA
Found at i:499695 original size:41 final size:42
Alignment explanation
Indices: 499615--499703 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 42
499605 TTTTATCAGG
* *
499615 CTTTATGCCTAGCAAGCTTTATGCTGGTGTATCAGATCT-GA
1 CTTTATGCCTAGCAAGCTTCATGCTGGTGTATAAGATCTGGA
* * *
499656 CTTTATGCCTAGCAGGCTTCGTGCTGGTGTATAATATCTGGA
1 CTTTATGCCTAGCAAGCTTCATGCTGGTGTATAAGATCTGGA
499698 -TTTATG
1 CTTTATG
499704 ATTAGTAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (42 bp):
CTTTATGCCTAGCAAGCTTCATGCTGGTGTATAAGATCTGGA
Found at i:499714 original size:41 final size:41
Alignment explanation
Indices: 499615--499715 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 41
499605 TTTTATCAGG
* * ** *
499615 CTTTATGCCTAGCAAGCTTTATGCTGGTGTATCAGATCTGA
1 CTTTATGACTAGCAGGCTTCGTGCTGGTGTATAAGATCTGA
* *
499656 CTTTATGCCTAGCAGGCTTCGTGCTGGTGTATAATATCTGGA
1 CTTTATGACTAGCAGGCTTCGTGCTGGTGTATAAGATCT-GA
* *
499698 -TTTATGATTAGTAGGCTT
1 CTTTATGACTAGCAGGCTT
499716 TATGCCGATG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 49 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.39
Consensus pattern (41 bp):
CTTTATGACTAGCAGGCTTCGTGCTGGTGTATAAGATCTGA
Found at i:499863 original size:46 final size:46
Alignment explanation
Indices: 499812--499911 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
499802 AATTTGGTTG
499812 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
1 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
*
499858 GTTATATAACAAAAATGATACACATTGCTATTATAAGTATATGTGT
1 GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
499904 -TTATATAA
1 GTTATATAA
499912 TAGGTATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 8 0.15
46 45 0.85
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (46 bp):
GTTATATAACAAAAATGATACACATTGCAATTATAAGTATATGTGT
Found at i:507428 original size:25 final size:25
Alignment explanation
Indices: 507386--507438 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
507376 TTTTCTCAAA
*
507386 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
507411 AATTTAATAAAT-TGAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
507436 AAT
1 AAT
507439 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:508038 original size:22 final size:20
Alignment explanation
Indices: 507999--508045 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
507989 AATAAAGCTG
507999 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
508018 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
508041 ATAAT
1 ATAAT
508046 TACCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:515879 original size:27 final size:27
Alignment explanation
Indices: 515849--515937 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
515839 GGGGCATAAC
515849 GGTAATTTTACCCTTCGAGGGTATTTT
1 GGTAATTTTACCCTTCGAGGGTATTTT
*
515876 GGTAATTTTACCCTTCGAAGGTATTTT
1 GGTAATTTTACCCTTCGAGGGTATTTT
* *
515903 GGTAATTTTACCCTTCGAGGGCATTTC
1 GGTAATTTTACCCTTCGAGGGTATTTT
*
515930 AGTAATTT
1 GGTAATTT
515938 AAAAATTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
GGTAATTTTACCCTTCGAGGGTATTTT
Found at i:516118 original size:32 final size:32
Alignment explanation
Indices: 516076--516386 Score: 220
Period size: 32 Copynumber: 9.7 Consensus size: 32
516066 TTTAAAAATG
* * *
516076 TGATCGGCACAAACCCATCAGTAGCAGTGATA
1 TGATCAGCACAAAGCCATCAGTAACAGTGATA
* * * *
516108 TGATCAGCACACAA-CCATTAGTAACGGTAACA
1 TGATCAGCACA-AAGCCATCAGTAACAGTGATA
** * * *
516140 TGATTGGCTCAAAGCCATCAGTAGCAATGATA
1 TGATCAGCACAAAGCCATCAGTAACAGTGATA
* *
516172 TGATCGGCACAAAGCCATCAGTAACAGTGAAA
1 TGATCAGCACAAAGCCATCAGTAACAGTGATA
* *
516204 TGAT-ACGCACACAGCCATCAGTAGCAGTGATA
1 TGATCA-GCACAAAGCCATCAGTAACAGTGATA
* *
516236 TGACCAGCACACAA-CCATCAGTAACAGTGAAA
1 TGATCAGCACA-AAGCCATCAGTAACAGTGATA
* * * ** *
516268 TGATC-GATACACAGCCATCGGTAATGGTAATA
1 TGATCAG-CACAAAGCCATCAGTAACAGTGATA
* * **
516300 TGATCGGCACAAAGCCATTAGTAATGGT-ACTA
1 TGATCAGCACAAAGCCATCAGTAACAGTGA-TA
* * * *
516332 CGATCGGCACGAAGCCATTAGTAACAGT-ACTA
1 TGATCAGCACAAAGCCATCAGTAACAGTGA-TA
* *
516364 TGATCAGTACAAAGGCATCAGTA
1 TGATCAGCACAAAGCCATCAGTA
516387 GTATCGCAGT
Statistics
Matches: 220, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
31 5 0.02
32 210 0.95
33 5 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
TGATCAGCACAAAGCCATCAGTAACAGTGATA
Found at i:516195 original size:64 final size:64
Alignment explanation
Indices: 516076--516271 Score: 261
Period size: 64 Copynumber: 3.1 Consensus size: 64
516066 TTTAAAAATG
* * * *
516076 TGATCGGCACAAACCCATCAGTAGCAGTGATATGATCAGCACACAACCATTAGTAACGGT-AACA
1 TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACAGTGAA-A
* * * *
516140 TGATTGGCTCAAAGCCATCAGTAGCAATGATATGATCGGCACA-AAGCCATCAGTAACAGTGAAA
1 TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAA-CCATCAGTAACAGTGAAA
* * *
516204 TGATACGCACACAGCCATCAGTAGCAGTGATATGACCAGCACACAACCATCAGTAACAGTGAAA
1 TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACAGTGAAA
516268 TGAT
1 TGAT
516272 CGATACACAG
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
63 2 0.02
64 109 0.95
65 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (64 bp):
TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACAGTGAAA
Found at i:516460 original size:27 final size:27
Alignment explanation
Indices: 516430--516489 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
516420 AGCAAAGCTG
516430 CCAGTAATAGT-ATATGTGGCGA-AGCCA
1 CCAGTAATAGTGAT-TGTGG-GAGAGCCA
*
516457 CCAGTAATAGTGATTGTGGTAGAGCCA
1 CCAGTAATAGTGATTGTGGGAGAGCCA
516484 CCAGTA
1 CCAGTA
516490 CAGTACTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (27 bp):
CCAGTAATAGTGATTGTGGGAGAGCCA
Found at i:516591 original size:24 final size:23
Alignment explanation
Indices: 516564--516616 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
516554 TCAGAACCAC
516564 TCATTCAAATCACAGACAAATCAG
1 TCATTCAAA-CACAGACAAATCAG
* *
516588 TCATACCAAACACAGACAAGTCAG
1 TCAT-TCAAACACAGACAAATCAG
516612 TCATT
1 TCATT
516617 TAACCGTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.21
Consensus pattern (23 bp):
TCATTCAAACACAGACAAATCAG
Found at i:516719 original size:27 final size:27
Alignment explanation
Indices: 516680--516859 Score: 168
Period size: 27 Copynumber: 6.7 Consensus size: 27
516670 CGACCAGGCA
* *
516680 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACAGTCATTTTACCCTACAAGGGC
* * *
516707 ATTACACTTATTTTACCCTACAGGGGC
1 ATTACAGTCATTTTACCCTACAAGGGC
*
516734 ATTAC-GATCATTTTACCCTACAGGGGC
1 ATTACAG-TCATTTTACCCTACAAGGGC
* *
516761 ATTACAGTTATTTTACCCTACAAAGGC
1 ATTACAGTCATTTTACCCTACAAGGGC
* **
516788 ATTACGGTCATTTTACCCTA-TGGGGAC
1 ATTACAGTCATTTTACCCTACAAGGG-C
* * * *
516815 ATTTCAATCATTTTACCC-ATCGAGGGT
1 ATTACAGTCATTTTACCCTA-CAAGGGC
*
516842 ATTTCAGTCATTTTACCC
1 ATTACAGTCATTTTACCC
516860 ATCGAGAGTA
Statistics
Matches: 126, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 119 0.94
28 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTACAAGGGC
Found at i:516739 original size:54 final size:54
Alignment explanation
Indices: 516675--516807 Score: 203
Period size: 54 Copynumber: 2.4 Consensus size: 54
516665 TTTACCGACC
* *
516675 AGGCAATTACGGTCATTTTACCCTACAAGGGTATTACACTTATTTTACCCTACAG
1 AGGC-ATTACGGTCATTTTACCCTACAAGGGCATTACACTTATTTTACCCTACAA
* * * *
516730 GGGCATTACGATCATTTTACCCTACAGGGGCATTACAGTTATTTTACCCTACAA
1 AGGCATTACGGTCATTTTACCCTACAAGGGCATTACACTTATTTTACCCTACAA
516784 AGGCATTACGGTCATTTTACCCTA
1 AGGCATTACGGTCATTTTACCCTA
516808 TGGGGACATT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 67 0.96
55 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (54 bp):
AGGCATTACGGTCATTTTACCCTACAAGGGCATTACACTTATTTTACCCTACAA
Found at i:516782 original size:81 final size:81
Alignment explanation
Indices: 516680--516859 Score: 204
Period size: 81 Copynumber: 2.2 Consensus size: 81
516670 CGACCAGGCA
* * * * *
516680 ATTACGGTCATTTTACCCTACAAGGGTATTACACTTATTTTACCCTACAGGGG-CATTACGATCA
1 ATTACAGTCATTTTACCCTACAAAGGCATTACACTCATTTTACCCTA-AGGGGACATTACAATCA
516744 TTTTACCCTACAGGGGC
65 TTTTACCCTACAGGGGC
* ** * *
516761 ATTACAGTTATTTTACCCTACAAAGGCATTACGGTCATTTTACCCTATGGGGACATTTCAATCAT
1 ATTACAGTCATTTTACCCTACAAAGGCATTACACTCATTTTACCCTAAGGGGACATTACAATCAT
*
516826 TTTACCC-ATC-GAGGGT
66 TTTACCCTA-CAG-GGGC
*
516842 ATTTCAGTCATTTTACCC
1 ATTACAGTCATTTTACCC
516860 ATCGAGAGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.07
81 77 0.93
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (81 bp):
ATTACAGTCATTTTACCCTACAAAGGCATTACACTCATTTTACCCTAAGGGGACATTACAATCAT
TTTACCCTACAGGGGC
Found at i:516828 original size:54 final size:54
Alignment explanation
Indices: 516675--516832 Score: 201
Period size: 54 Copynumber: 2.9 Consensus size: 54
516665 TTTACCGACC
* * * *
516675 AGGCAATTACGGTCATTTTACCCTACAAGGGTATTACACTTATTTTACCCTACAG
1 AGGC-ATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTACAA
* * *
516730 GGGCATTACGATCATTTTACCCTACAGGGGCATTACAGTTATTTTACCCTACAA
1 AGGCATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTACAA
* * *
516784 AGGCATTACGGTCATTTTACCCTA-TGGGGACATTTCAATCATTTTACCC
1 AGGCATTACGGTCATTTTACCCTACAGGGG-CATTACAATTATTTTACCC
516833 ATCGAGGGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.04
54 83 0.92
55 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (54 bp):
AGGCATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTACAA
Found at i:516860 original size:27 final size:27
Alignment explanation
Indices: 516794--516884 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
516784 AGGCATTACG
*
516794 GTCATTTTACCCTAT-G-GGGACATTTCA
1 GTCATTTTACCC-ATCGAGGG-TATTTCA
*
516821 ATCATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCA
*
516848 GTCATTTTACCCATCGAGAGTATTTC-
1 GTCATTTTACCCATCGAGGGTATTTCA
516874 GATCATTTTAC
1 G-TCATTTTAC
516885 GTATTTCAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.05
27 51 0.89
28 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCA
Found at i:516888 original size:18 final size:18
Alignment explanation
Indices: 516867--516902 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
516857 CCCATCGAGA
516867 GTATTTC-GATCATTTTAC
1 GTATTTCAG-TCATTTTAC
516885 GTATTTCAGTCATTTTAC
1 GTATTTCAGTCATTTTAC
516903 CTATCGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
GTATTTCAGTCATTTTAC
Found at i:519187 original size:27 final size:27
Alignment explanation
Indices: 519157--519385 Score: 194
Period size: 27 Copynumber: 8.5 Consensus size: 27
519147 GAGGCATAAT
519157 GATAATTTTACCCTTCAAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* * ** * *
519184 GATAATTTCACCATTTGAGGATATTTT
1 GATAATTTTACCCTTCAAGGGTATTTC
*
519211 GATAATTTTACCGTTCAAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* * **
519238 AATAATTTTACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* *
519265 AATAATTTTACCCTTCGAA-GGTATTTT
1 GATAATTTTACCCTTC-AAGGGTATTTC
* * *
519292 GGTAATTTCACCCGTCTAA-GGTATTTC
1 GATAATTTTACCCTTC-AAGGGTATTTC
*
519319 GATAATTTTACCCTTCGAGGGTATCTT-
1 GATAATTTTACCCTTCAAGGGTAT-TTC
* * * **
519346 GGTAATTATACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* *
519373 AATAAATTTACCC
1 GATAATTTTACCC
519386 CTTTTTCAAA
Statistics
Matches: 159, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 3 0.02
27 153 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
GATAATTTTACCCTTCAAGGGTATTTC
Found at i:519219 original size:54 final size:54
Alignment explanation
Indices: 519157--519385 Score: 250
Period size: 54 Copynumber: 4.2 Consensus size: 54
519147 GAGGCATAAT
* * *
519157 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCATTTGAGGATATTTT
1 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCTTTTGAGGGTATTTC
* * *
519211 GATAATTTTACCGTTCAAGGGTATTTCAATAATTTTACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCTTTTGAGGGTATTTC
* * * * * *
519265 AATAATTTTACCCTTCGAA-GGTATTTTGGTAATTTCACCCGTCT-AAGGTATTTC
1 GATAATTTTACCCTTC-AAGGGTATTTCGATAATTTCA-CCTTTTGAGGGTATTTC
* *
519319 GATAATTTTACCCTTCGAGGGTATCTT-GGTAATTAT-ACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTAT-TTCGATAATT-TCACCTTTTGAGGGTATTTC
* *
519373 AATAAATTTACCC
1 GATAATTTTACCC
519386 CTTTTTCAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
53 5 0.03
54 133 0.90
55 9 0.06
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (54 bp):
GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCTTTTGAGGGTATTTC
Found at i:519352 original size:81 final size:81
Alignment explanation
Indices: 519157--519371 Score: 240
Period size: 81 Copynumber: 2.7 Consensus size: 81
519147 GAGGCATAAT
* * *
519157 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCATTTG-AGGATATTTTGATAATTTTA
1 GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCATTTGAAGG-TATTTTGATAATTTCA
519221 CCGTTCAAGGGTATTTC
65 CCGTTCAAGGGTATTTC
* * * * * * *
519238 AATAATTTTACCTTTTGAGGGTATTTCAATAATTTTACCCTTCGAAGGTATTTTGGTAATTTCAC
1 GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCATTTGAAGGTATTTTGATAATTTCA-
519303 CCG-TCTAA-GGTATTTC
65 CCGTTC-AAGGGTATTTC
* * * *
519319 GATAATTTTACCCTTCGAGGGTATCTT-GGTAATTATACCTTTTGAGGGTATTT
1 GATAATTTTACCCTTCGAGGGTAT-TTCGATAATTTTACCATTTGAAGGTATTT
519372 CAATAAATTT
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
81 101 0.91
82 10 0.09
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (81 bp):
GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCATTTGAAGGTATTTTGATAATTTCAC
CGTTCAAGGGTATTTC
Found at i:523288 original size:43 final size:43
Alignment explanation
Indices: 523236--523407 Score: 344
Period size: 43 Copynumber: 4.0 Consensus size: 43
523226 ACCAATGTCT
523236 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
1 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
523279 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
1 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
523322 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
1 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
523365 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
1 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
523408 AATCCTGATG
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.47
Consensus pattern (43 bp):
GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
Found at i:538180 original size:153 final size:153
Alignment explanation
Indices: 537902--538207 Score: 531
Period size: 153 Copynumber: 2.0 Consensus size: 153
537892 TGACCATCTA
* *
537902 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAGCTTACCCTAA
1 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
*
537967 AATCTAGAAGTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
66 AATCTAGAACTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
* *
538032 TATTTCAGCTACGTATAACTCTG
131 TATTTCAGCAACATATAACTCTG
538055 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
1 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
* * * *
538120 AATCTGGAACTAAATCTCGAGTCACGGTCTGATATGATCGACAATGGTACACCATGCAATCTCAC
66 AATCTAGAACTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
538185 TATTTCAGCAACATATAACTCTG
131 TATTTCAGCAACATATAACTCTG
538208 CCAGTTTCTA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 144 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (153 bp):
TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
AATCTAGAACTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
TATTTCAGCAACATATAACTCTG
Found at i:548160 original size:20 final size:20
Alignment explanation
Indices: 548118--548177 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
548108 CAACCAGGGG
* * *
548118 CAGGGACACTGAAGTGTATA
1 CAGGGGCACTGAAGTGCAAA
*
548138 CAGGGGCACTGAAGTACAAA
1 CAGGGGCACTGAAGTGCAAA
* *
548158 CAGAGGCACCGAAGTGCAAA
1 CAGGGGCACTGAAGTGCAAA
548178 TCCCGGACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (20 bp):
CAGGGGCACTGAAGTGCAAA
Found at i:550113 original size:12 final size:12
Alignment explanation
Indices: 550090--550121 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
550080 TAACTCGATG
550090 ATATATCACGGTA
1 ATATA-CACGGTA
550103 ATATACACGGTA
1 ATATACACGGTA
550115 ATATACA
1 ATATACA
550122 TACTTCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (12 bp):
ATATACACGGTA
Found at i:563023 original size:23 final size:21
Alignment explanation
Indices: 562984--563025 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
562974 TACTTAAGTA
562984 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
563005 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
563026 ATATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:565586 original size:20 final size:19
Alignment explanation
Indices: 565541--565601 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
565531 GGCACCATAG
*
565541 ATGCATAACAGGGGCACTGAA
1 ATGCA-AACAGGGGCAC-AAA
*
565562 GTGCAAACAGGGGCACAAA
1 ATGCAAACAGGGGCACAAA
* *
565581 TATGCAAGCAAGGGCAACAAA
1 -ATGCAAACAGGGGC-ACAAA
565602 GTGTATACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 22 0.67
21 9 0.27
ACGTcount: A:0.43, C:0.20, G:0.28, T:0.10
Consensus pattern (19 bp):
ATGCAAACAGGGGCACAAA
Found at i:565600 original size:21 final size:20
Alignment explanation
Indices: 565563--565601 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
565553 GGCACTGAAG
*
565563 TGCAAACAGGGGCACAAATA
1 TGCAAACAAGGGCACAAATA
*
565583 TGCAAGCAAGGGCAACAAA
1 TGCAAACAAGGGC-ACAAA
565602 GTGTATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.21, G:0.26, T:0.08
Consensus pattern (20 bp):
TGCAAACAAGGGCACAAATA
Found at i:571953 original size:21 final size:21
Alignment explanation
Indices: 571927--571966 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
571917 ATTTTTATGT
571927 TAGAAAGGTGTCATAAACTAC
1 TAGAAAGGTGTCATAAACTAC
571948 TAGAAAGGTGTCATAAACT
1 TAGAAAGGTGTCATAAACT
571967 TCTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGAAAGGTGTCATAAACTAC
Found at i:575026 original size:22 final size:22
Alignment explanation
Indices: 575000--575046 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
574990 AAGTCACCAT
* *
575000 ATAATTACGGATAAACGGTCAC
1 ATAATTACAGATAAACGGCCAC
* *
575022 ATAATTGCAGATAAACTGCCAC
1 ATAATTACAGATAAACGGCCAC
575044 ATA
1 ATA
575047 TCTTCCTCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (22 bp):
ATAATTACAGATAAACGGCCAC
Found at i:575317 original size:18 final size:19
Alignment explanation
Indices: 575287--575323 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
575277 TTTGCACAAA
*
575287 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
575306 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
575324 AATTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:586298 original size:14 final size:15
Alignment explanation
Indices: 586269--586300 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
586259 AAAAACATCA
586269 TAATTTTATCTATTT
1 TAATTTTATCTATTT
586284 TAATTTTAT-TATTT
1 TAATTTTATCTATTT
586298 TAA
1 TAA
586301 CTATAACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTATCTATTT
Found at i:599363 original size:17 final size:17
Alignment explanation
Indices: 599341--599393 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
599331 AATTAACTAG
599341 ATGCAAGATGATCCCTA
1 ATGCAAGATGATCCCTA
* * *
599358 ATGCAA-TTTATCCTTA
1 ATGCAAGATGATCCCTA
* *
599374 TTGCTAGATGATCCCTA
1 ATGCAAGATGATCCCTA
599391 ATG
1 ATG
599394 ATAAATTAGA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (17 bp):
ATGCAAGATGATCCCTA
Found at i:611534 original size:273 final size:271
Alignment explanation
Indices: 611021--611562 Score: 874
Period size: 273 Copynumber: 2.0 Consensus size: 271
611011 TTATATTAAC
*
611021 ACCCCATTTCAGAATTAATTTGTTTTTATAATATTAAAGTAAAAAGGCAAAGTTATTGTGTTGGT
1 ACCCCATTTCAGAATTAATTTGTTTTTATAATATTAAAGTAAAAAAGCAAAGTTATTGTGTTGGT
* *
611086 GGTGATAGAAAACCATGTAAGTACGTAACCTTGGCCCTGGCCAGCAAGGATTTGCGCTGTCAACT
66 GGTGATAGAAAACCATGTAAGTACGTAACCTTGACCCTGGCCAGCAAGGATTTGCGCTATCAACT
* *
611151 TTTGACTTGTTGCTCACCACAAACAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGTTTGT
131 TTTGACTTGTTGCTCACCACAAAAAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGTTCGT
611216 GCAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCTTCACT
196 GCAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCTTCACT
611281 CACTGATCAAA
261 CACTGATCAAA
* * * *
611292 ACCCCATTTCAGAATT-TTTTTTTATATATATAATATTAAGGTAAAAAAGCGAAGTTATTGTGTT
1 ACCCCATTTCAGAATTAATTTGTT-T-T-TATAATATTAAAGTAAAAAAGCAAAGTTATTGTGTT
* * *
611356 GGTGGTGATAGAAAACCATGTAAGTACGTGACCTTGACCCTGGCC-GCCAAGGATTTGTGCTATG
63 GGTGGTGATAGAAAACCATGTAAGTACGTAACCTTGACCCTGGCCAG-CAAGGATTTGCGCTATC
* * * *
611420 AACTTTTGACTTGTTGCTGACCACAAAAAAGT-TATCATTGATTTACTATATAAGCAGCGCTTGT
127 AACTTTTGACTTGTTGCTCACCACAAAAAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGT
611484 TCGTGCAAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCT
192 TCGTGC-AAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCT
611549 TCACTCACTGATCA
256 TCACTCACTGATCA
611563 GCAGCAAGAC
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
270 5 0.02
271 17 0.07
272 36 0.14
273 192 0.77
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (271 bp):
ACCCCATTTCAGAATTAATTTGTTTTTATAATATTAAAGTAAAAAAGCAAAGTTATTGTGTTGGT
GGTGATAGAAAACCATGTAAGTACGTAACCTTGACCCTGGCCAGCAAGGATTTGCGCTATCAACT
TTTGACTTGTTGCTCACCACAAAAAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGTTCGT
GCAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCTTCACT
CACTGATCAAA
Found at i:616635 original size:102 final size:102
Alignment explanation
Indices: 616471--616660 Score: 319
Period size: 102 Copynumber: 1.9 Consensus size: 102
616461 CCAATAATAA
* *
616471 AATAACATAGGTTAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
1 AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
**
616536 GAACTTTAATTTGATCATTTTCATTCCCATACCCAAT
66 GAACTTTAATTAAATCATTTTCATTCCCATACCCAAT
*
616573 AATAAAATAGGTCAATTTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTTG-ATTTAGTACC
1 AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTG-TGAATTTAGTACC
616637 TGAACTTTAATTAAATCATTTTCA
65 TGAACTTTAATTAAATCATTTTCA
616661 GTCCTTTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 80 0.98
103 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (102 bp):
AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
GAACTTTAATTAAATCATTTTCATTCCCATACCCAAT
Found at i:619405 original size:138 final size:138
Alignment explanation
Indices: 619137--619551 Score: 714
Period size: 138 Copynumber: 3.0 Consensus size: 138
619127 TAGAAAAAAG
* * ** *
619137 AATTGTATTCTTTCTAAAAGAATATTAATTT-TCATTTCTTTTATA-TATTGACTGAAATTAATT
1 AATTATATTCTTTCCAAAAGAATATTAATTTCT-ATGACTTTTATAGT-TTGACTGAAAGTAATT
* *
619200 AATATAA-T-TTT-TATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAA
64 AATTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAA
619262 TTCATATATT
129 TTCATATATT
619272 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGACTTTTATAGTTTGACTGAAAGTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGACTTTTATAGTTTGACTGAAAGTAATTAA
619337 TTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAATT
66 TTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAATT
619402 CATATATT
131 CATATATT
619410 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGACTTTTATAGTTTGACTGAAAGTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGACTTTTATAGTTTGACTGAAAGTAATTAA
619475 TTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAATT
66 TTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAATT
619540 CATATATT
131 CATATATT
619548 AATT
1 AATT
619552 TTATCTATGT
Statistics
Matches: 268, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
135 60 0.22
136 3 0.01
137 3 0.01
138 202 0.75
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCTATGACTTTTATAGTTTGACTGAAAGTAATTAA
TTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAATT
CATATATT
Found at i:625484 original size:34 final size:35
Alignment explanation
Indices: 625417--625506 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 35
625407 TTTTATAATT
* *
625417 TATATATGTA-AT-TATTTTTTTATAATCTATATA
1 TATATATATATATATATTTTTTTATAATATATATA
* * *
625450 TATATGTATATATCTATTTTTTTAT-ATATGTATA
1 TATATATATATATATATTTTTTTATAATATATATA
* *
625484 TGTATATATATTTATATTTTTTT
1 TATATATATATATATATTTTTTT
625507 TCTAAAGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
33 8 0.17
34 28 0.60
35 11 0.23
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.61
Consensus pattern (35 bp):
TATATATATATATATATTTTTTTATAATATATATA
Found at i:625497 original size:24 final size:24
Alignment explanation
Indices: 625448--625500 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
625438 ATAATCTATA
* * *
625448 TATATATGTATATATCTATTTTTT
1 TATATATGTATATATATATATATT
*
625472 TATATATGTATATGTATATATATT
1 TATATATGTATATATATATATATT
625496 TATAT
1 TATAT
625501 TTTTTTTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
TATATATGTATATATATATATATT
Found at i:627609 original size:23 final size:22
Alignment explanation
Indices: 627556--627614 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
627546 TAAATATTAG
*
627556 TTTATTAATATTTTAATTTGAT
1 TTTATTAATATATTAATTTGAT
* *
627578 TTTTTTAATGATATT-ATTTTAT
1 TTTATTAAT-ATATTAATTTGAT
*
627600 TGTTATTAATTTATT
1 T-TTATTAATATATT
627615 TAGTATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTATTAATATATTAATTTGAT
Found at i:635053 original size:15 final size:15
Alignment explanation
Indices: 635033--635062 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
635023 TCAGCCACTG
635033 CTCTTGGAGAGGGAA
1 CTCTTGGAGAGGGAA
635048 CTCTTGGAGAGGGAA
1 CTCTTGGAGAGGGAA
635063 ATGACAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (15 bp):
CTCTTGGAGAGGGAA
Found at i:636907 original size:21 final size:21
Alignment explanation
Indices: 636882--636929 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
636872 GTGATGTGAG
636882 AAAATGAAGAAAT-GAAAA-TGA
1 AAAATGAA-AAATGGAAAAGT-A
636903 AAAATGAAAAATGGAAAAGTA
1 AAAATGAAAAATGGAAAAGTA
636924 AAAATG
1 AAAATG
636930 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAATGAAAAATGGAAAAGTA
Found at i:636909 original size:13 final size:14
Alignment explanation
Indices: 636881--636912 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
636871 AGTGATGTGA
636881 GAAAATGAAGAAAT
1 GAAAATGAAGAAAT
636895 GAAAATGAA-AAAT
1 GAAAATGAAGAAAT
636908 GAAAA
1 GAAAA
636913 ATGGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (14 bp):
GAAAATGAAGAAAT
Found at i:636919 original size:8 final size:7
Alignment explanation
Indices: 636882--636929 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
636872 GTGATGTGAG
636882 AAAATGA
1 AAAATGA
636889 AGAAATG-
1 A-AAATGA
636896 AAAATGA
1 AAAATGA
636903 AAAATGA
1 AAAATGA
*
636910 AAAATGG
1 AAAATGA
636917 AAAA-GTA
1 AAAATG-A
636924 AAAATG
1 AAAATG
636930 GAGAGGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
6 6 0.17
7 23 0.66
8 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:638302 original size:44 final size:44
Alignment explanation
Indices: 638170--638389 Score: 151
Period size: 44 Copynumber: 5.0 Consensus size: 44
638160 CTCAGCCTTA
* *
638170 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
* * * * * * ** ** *
638214 TCTTCCTGTATCAGCAGCGAAGTAGATCGAAGGTACCAG-CCTTG
1 TCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
638258 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
* *** ** * * ** * *
638302 TCTTCCTGTATTGGCAGTAAAGT-GGATCGAAGATACTAG-CCTTA
1 TCTCCCTG-AGCAGCAGTGGAGTAGG-TTGAAAATAGAAGATCTTG
638346 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-GACAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGA-AGATCTTG
638390 CCTTCCTGTA
Statistics
Matches: 123, Mismatches: 46, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
43 38 0.31
44 46 0.37
45 39 0.32
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
Found at i:638311 original size:88 final size:88
Alignment explanation
Indices: 638162--638399 Score: 361
Period size: 88 Copynumber: 2.7 Consensus size: 88
638152 GGTGAGACCT
* *
638162 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATCA
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATCA
* *
638227 GCAGCGAAGTAGATCGAAGGTAC
66 GCAGCAAAGTAGATCGAAGATAC
* **
638250 CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATTG
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATCA
* *
638315 GCAGTAAAGTGGATCGAAGATAC
66 GCAGCAAAGTAGATCGAAGATAC
* *
638338 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-GACAGATCTTGCCTTCCTGTA
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGA-AGATCTTGTCTTCCTGTA
638400 CTAGTAGCAA
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 2 0.01
88 135 0.99
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (88 bp):
CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATCA
GCAGCAAAGTAGATCGAAGATAC
Found at i:638672 original size:50 final size:50
Alignment explanation
Indices: 638618--638896 Score: 226
Period size: 50 Copynumber: 5.6 Consensus size: 50
638608 GGCATTACAA
*
638618 TGGAATAGATTGAAGCCACAATGGTGAATCTTACTTCCCTGGCGATGCAG
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
* * * ** * *
638668 TGGAACAGATTGAAGCTACTACGGTGAATCTTGTTTCCC-GAC-ATTGCAA
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGA-TGCAG
* *** * *
638717 T-TAATAGATTGAAGCCACAACAACGAATCTTACTTCCCTAGCGATGTAG
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
* * * * *
638766 TGGAATAGATTGAAGCTACGACGGTGAATCTTATTTCCC-GAC-ATTGCAA
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGA-TGCAG
** * * * * * *
638815 TTAAAAAGATTGAGGCCACAATGGGGAGTCTTACTTCCCTGGCGATGTAG
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
* * * *
638865 TGGAACAGATTAAAGCTACGACGGTGAATCTT
1 TGGAATAGATTGAAGCCACAACGGTGAATCTT
638897 GTTTCCTGAC
Statistics
Matches: 167, Mismatches: 55, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
48 30 0.18
49 45 0.27
50 91 0.54
51 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (50 bp):
TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
Found at i:638745 original size:98 final size:99
Alignment explanation
Indices: 638621--638922 Score: 453
Period size: 99 Copynumber: 3.1 Consensus size: 99
638611 ATTACAATGG
* *
638621 AATAGATTGAAGCCACAATGGTGAATCTTACTTCCCTGGCGATGCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
*
638686 CTACGGTGAATCTTGTTTCCCGACATTGCAATT-
66 CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
*** * *
638719 AATAGATTGAAGCCACAACAACGAATCTTACTTCCCTAGCGATGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
*
638784 CGACGGTGAATCTTATTTCCCGACATTGCAATTA
66 CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
* * * * *
638818 AAAAGATTGAGGCCACAATGGGGAGTCTTACTTCCCTGGCGATGTAGTGGAACAGATTAAAGCTA
1 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
* *
638883 CGACGGTGAATCTTGTTTCCTGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
638917 AATAGA
1 AATAGA
638923 AGAACCAATC
Statistics
Matches: 180, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
98 89 0.49
99 91 0.51
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (99 bp):
AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
Found at i:639074 original size:45 final size:44
Alignment explanation
Indices: 639014--639393 Score: 285
Period size: 45 Copynumber: 8.7 Consensus size: 44
639004 GATCGCATCC
* * *
639014 AGTCTTATC-CTCCTGAAGTTCCAGTGGGGCAGACTGAAGATGACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGA-AACA
* * * * *
639059 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAACA
* * * * * * *
639104 A-TCCTATCT-CCTGAAGTTGTAG-AGAGCAGA-T--CGCATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
* * * * *
639142 AGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CA
* * *
639187 AGTCTTATCTCCTTCAAGTTGCAGTGGAGCAGACTG-AGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAACA
* **
639231 AGTCTTATC-CTCCT-AGAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGA-AGTTGCAGTGGAGCAGACTGAAGA-AACA
*
639276 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CA
* * * *
639321 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
* * ** *
639365 AATCCTATCTCCCCAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
639394 TGGATAAGAA
Statistics
Matches: 264, Mismatches: 54, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
38 3 0.01
39 7 0.03
40 11 0.04
41 6 0.02
42 8 0.03
43 14 0.05
44 67 0.25
45 145 0.55
46 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
Found at i:639167 original size:128 final size:130
Alignment explanation
Indices: 638929--639219 Score: 356
Period size: 128 Copynumber: 2.3 Consensus size: 130
638919 TAGAAGAACC
* ** ** * *
638929 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATGGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAATCCTATCTCTCTGAAGTTG
* * *
638994 CAAAAGAGCAGATCGCATCCAGTCTTATCCTCCTGAAGTTCCAGTGGGGCAGACTGAAG-ATGAC
66 CAAAAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTCAAGAAAG-C
639058 A
130 A
*
639059 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCCTATCTC-CTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAATGAATCCTATCTCTCTGAAGTT
* * * * * *
639122 G-TAGAGAGCAGATCGCATCTAGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGC
65 GCAAAAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTCAAGAAAGC
639186 A
130 A
* * *
639187 AGTCTTATCTCCTTCAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
639220 CTGAGTAAGC
Statistics
Matches: 139, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
128 82 0.59
129 11 0.08
130 44 0.32
131 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (130 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAATCCTATCTCTCTGAAGTTG
CAAAAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTCAAGAAAGCA
Found at i:639240 original size:89 final size:90
Alignment explanation
Indices: 639142--639393 Score: 314
Period size: 89 Copynumber: 2.8 Consensus size: 90
639132 GATCGCATCT
* *
639142 AGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGCAAGTCTTATCTCCTTCAAGTT
1 AGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTCAAGTT
* *
639207 GCAGTGGAGCAGACT-GAGTAAGCA
66 GCAGTGGAGCAGACTCAAGAAAGCA
* * ** *
639231 AGTCTTATCCTCCT-AGAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCCCCCTGAG-GTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTCAAGT
639295 TGCAGTGGAGCAGACTCAAGAAAGCA
65 TGCAGTGGAGCAGACTCAAGAAAGCA
** * * * *
639321 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATAAA-CAAATCCTATCTCCC-CAAAGT
1 AGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTC-AAGT
*
639384 TGTAGTGGAG
65 TGCAGTGGAG
639394 TGGATAAGAA
Statistics
Matches: 140, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.01
89 96 0.69
90 41 0.29
91 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (90 bp):
AGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTCAAGTT
GCAGTGGAGCAGACTCAAGAAAGCA
Found at i:639385 original size:134 final size:134
Alignment explanation
Indices: 639142--639391 Score: 340
Period size: 134 Copynumber: 1.9 Consensus size: 134
639132 GATCGCATCT
* * * * * *
639142 AGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGCAAGTCTTATCTCCTTCAAGTT
1 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTCAAATT
* * * * * *
639207 GCAGTGGAGCAGACTGAGTAAGCAAGTCTTATCCTCCTAGAGTTGCAGTGGGGCAGACTGAAGAT
66 GCAGTGGAGCAGACTGAATAAACAAATCCTATCCTCCCAAAGTTGCAGTGGGGCAGACTGAAGAT
639272 GGCA
131 GGCA
* *
639276 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATT
1 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTCAAATT
* *
639341 GCAGTGGGGCAGACTGAATAAACAAATCCTAT-CTCCCCAAAGTTGTAGTGG
66 GCAGTGGAGCAGACTGAATAAACAAATCCTATCCT-CCCAAAGTTGCAGTGG
639392 AGTGGATAAG
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
133 2 0.02
134 97 0.98
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (134 bp):
AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTCAAATT
GCAGTGGAGCAGACTGAATAAACAAATCCTATCCTCCCAAAGTTGCAGTGGGGCAGACTGAAGAT
GGCA
Found at i:641024 original size:2 final size:2
Alignment explanation
Indices: 641019--641080 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
641009 TTTTATAATC
* * * * *
641019 TA TA TA TA TA TA TG TA TA TA TC TA T- TT TT TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
641060 TA TG TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
641081 TTTTTCTAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (2 bp):
TA
Found at i:641062 original size:37 final size:36
Alignment explanation
Indices: 640992--641085 Score: 104
Period size: 37 Copynumber: 2.7 Consensus size: 36
640982 TTTTATAATT
*
640992 TATATATGTA-AT-TAT-TTTTTTATAATCTATATA
1 TATATATGTATATATATATTTTTTATAATATATATA
* *
641025 TATATATGTATATATCTATTTTTTATATATATGTATA
1 TATATATGTATATATATATTTTTTATA-ATATATATA
* * *
641062 TGTATATATATTTATATATTTTTT
1 TATATATGTATATATATATTTTTT
641086 CTAACGAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 10 0.20
34 2 0.04
35 2 0.04
36 9 0.18
37 27 0.54
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (36 bp):
TATATATGTATATATATATTTTTTATAATATATATA
Found at i:641129 original size:21 final size:23
Alignment explanation
Indices: 641105--641147 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
641095 ATTTTTCTAT
641105 ATTT-ATATATATA-TATGTAGA
1 ATTTAATATATATATTATGTAGA
*
641126 ATTTCAATGTATATATTATGTA
1 ATTT-AATATATATATTATGTA
641148 CCTTCTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
23 8 0.44
24 6 0.33
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTAATATATATATTATGTAGA
Found at i:645493 original size:44 final size:44
Alignment explanation
Indices: 645445--645554 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
645435 AACTCATCGG
*
645445 AATAATAACAGATACACGGTGGCCTGCACACAGTCCGTACCACC
1 AATAATAACAGATACACGGTGGCCTACACACAGTCCGTACCACC
* ** * *
645489 AATAATAATAGATAGGCGGTGGCCTACACATAGTCCGTGCCACC
1 AATAATAACAGATACACGGTGGCCTACACACAGTCCGTACCACC
645533 AATAATAACAGATACACGGTGG
1 AATAATAACAGATACACGGTGG
645555 ATTAGCACAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (44 bp):
AATAATAACAGATACACGGTGGCCTACACACAGTCCGTACCACC
Found at i:645592 original size:43 final size:43
Alignment explanation
Indices: 645543--645673 Score: 192
Period size: 43 Copynumber: 3.0 Consensus size: 43
645533 AATAATAACA
*
645543 GATACACGGTGGATTAGCACATAGCACCACCCTTATAGTCAAT
1 GATACACGGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
** * * *
645586 GATACACAATGGATCAGCACATAACACCACCCGTATAATCAAT
1 GATACACGGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
645629 GATAC-CTGGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
1 GATACAC-GGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
645672 GA
1 GA
645674 CATCTGGTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 75 0.99
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (43 bp):
GATACACGGTGGATCAGCACATAGCACCACCCTTATAGTCAAT
Found at i:647418 original size:15 final size:15
Alignment explanation
Indices: 647398--647427 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
647388 TCAGAAGAAC
647398 TTCCAGTTAATACAT
1 TTCCAGTTAATACAT
647413 TTCCAGTTAATACAT
1 TTCCAGTTAATACAT
647428 ACATTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
TTCCAGTTAATACAT
Found at i:649935 original size:44 final size:44
Alignment explanation
Indices: 649887--649994 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
649877 AACTCATCGG
*
649887 AATAATAACAGATACACGGTGGCCTGCACATAGTCCGT-CCTACC
1 AATAATAACAGATACACGGTGGCCTGAACATAGTCCGTGCC-ACC
*
649931 AATAATAACAGATA-AGCGATGGCCTGAACATAGTCCGTGCCACC
1 AATAATAACAGATACA-CGGTGGCCTGAACATAGTCCGTGCCACC
*
649975 AATAATAATAGATACACGGT
1 AATAATAACAGATACACGGT
649995 AGATCAGCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.02
44 53 0.93
45 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (44 bp):
AATAATAACAGATACACGGTGGCCTGAACATAGTCCGTGCCACC
Found at i:650033 original size:43 final size:42
Alignment explanation
Indices: 649985--650114 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 42
649975 AATAATAATA
* *
649985 GATACACGGTAGATCAGCACATAGCACCAGCTTTATAGTTAAT
1 GATACACGGTGGATCAGCACATAGCACCA-CTTTATAGTCAAT
* * ** *
650028 GATACACGGTGGATCAGCACATAACACTACCCGTATAATCAAT
1 GATACACGGTGGATCAGCACATAGCACCA-CTTTATAGTCAAT
650071 GATAC-CTGGTGGATCAGCACATAGCACCACTCTTATAGTCAAT
1 GATACAC-GGTGGATCAGCACATAGCACCACT-TTATAGTCAAT
650114 G
1 G
650115 TCATCTGGTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.03
43 70 0.97
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
GATACACGGTGGATCAGCACATAGCACCACTTTATAGTCAAT
Found at i:653928 original size:22 final size:20
Alignment explanation
Indices: 653885--653923 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
653875 CAATTTAAAA
653885 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
653905 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
653924 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:657058 original size:45 final size:45
Alignment explanation
Indices: 656994--657080 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
656984 CAGATACTCG
*
656994 GTGGATTCAGCACATAGCAACCACCTTAT-TAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTT-TCTAATCAATGATGTCCA
*
657039 GTGGAATCAGCACATAGCAACCACCTTTCTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTTCTAATCAATGATGT
657081 TCTGTTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTCTAATCAATGATGTCCA
Found at i:657149 original size:51 final size:52
Alignment explanation
Indices: 657091--657226 Score: 215
Period size: 50 Copynumber: 2.7 Consensus size: 52
657081 TCTGTTCACA
657091 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCCAGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCAGTACACG
* * *
657142 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCAGTACACG
*
657192 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
657227 CACTTTCCTT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
49 4 0.05
50 41 0.53
51 32 0.42
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCAGTACACG
Done.