Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014898.1 Kokia drynarioides strain JFW-HI SEQ_129941, whole genome shotgun sequence
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: 1273188
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 233 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:346163 original size:29 final size:29
Alignment explanation
Indices: 346129--346252 Score: 127
Period size: 29 Copynumber: 4.5 Consensus size: 29
346119 TTCTGATTGG
346129 TTGAATAAATTATTTTGATTGATTTTAAA
1 TTGAATAAATTATTTTGATTGATTTTAAA
346158 TTGAATAAATTATTTTGATTG-------A
1 TTGAATAAATTATTTTGATTGATTTTAAA
* *
346180 TTGAATAAATTATTCTAATTGATTTTAAA
1 TTGAATAAATTATTTTGATTGATTTTAAA
** * * *
346209 TTGAATAAATTATTCCGTTTAAATTTAAA
1 TTGAATAAATTATTTTGATTGATTTTAAA
*
346238 TTTAATAAATTATTT
1 TTGAATAAATTATTT
346253 CATATTCTAC
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
22 20 0.25
29 59 0.75
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (29 bp):
TTGAATAAATTATTTTGATTGATTTTAAA
Found at i:346169 original size:51 final size:51
Alignment explanation
Indices: 346085--346223 Score: 235
Period size: 51 Copynumber: 2.7 Consensus size: 51
346075 GTCAACCCTA
*
346085 AAATTATTCTGATTGA-TTTAAATTGAATAAATTATTCTGATTGGTTGAAT
1 AAATTATTCTGATTGATTTTAAATTGAATAAATTATTCTGATTGATTGAAT
* *
346135 AAATTATTTTGATTGATTTTAAATTGAATAAATTATTTTGATTGATTGAAT
1 AAATTATTCTGATTGATTTTAAATTGAATAAATTATTCTGATTGATTGAAT
*
346186 AAATTATTCTAATTGATTTTAAATTGAATAAATTATTC
1 AAATTATTCTGATTGATTTTAAATTGAATAAATTATTC
346224 CGTTTAAATT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 15 0.18
51 67 0.82
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (51 bp):
AAATTATTCTGATTGATTTTAAATTGAATAAATTATTCTGATTGATTGAAT
Found at i:347621 original size:6 final size:6
Alignment explanation
Indices: 347612--347649 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
347602 AAATAAACCA
*
347612 CAAGCC CAAGCC CAAACC CAAGCC CAAGCC CAAGCC CA
1 CAAGCC CAAGCC CAAGCC CAAGCC CAAGCC CAAGCC CA
347650 CGTTGCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.37, C:0.50, G:0.13, T:0.00
Consensus pattern (6 bp):
CAAGCC
Found at i:347635 original size:18 final size:18
Alignment explanation
Indices: 347606--347649 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
347596 AAACAAAAAT
347606 AAACCACAAGCCCAAGCCC
1 AAACC-CAAGCCCAAGCCC
347625 AAACCCAAGCCCAAGCCC
1 AAACCCAAGCCCAAGCCC
*
347643 AAGCCCA
1 AAACCCA
347650 CGTTGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.41, C:0.48, G:0.11, T:0.00
Consensus pattern (18 bp):
AAACCCAAGCCCAAGCCC
Found at i:351747 original size:29 final size:29
Alignment explanation
Indices: 351709--351778 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
351699 TGATTGACTA
351709 AATAAATTATTCTAATT-AATTTTAAATTG
1 AATAAATTATTCTAATTGAA-TTTAAATTG
* **
351738 AATAAGTTATTCTGTTTGAATTTAAATTG
1 AATAAATTATTCTAATTGAATTTAAATTG
351767 AATAAATTATTC
1 AATAAATTATTC
351779 CATATTCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (29 bp):
AATAAATTATTCTAATTGAATTTAAATTG
Found at i:353142 original size:17 final size:19
Alignment explanation
Indices: 353116--353150 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
353106 AAAATCATAA
353116 TTTTACATTT-AAAATATT
1 TTTTACATTTCAAAATATT
353134 TTTTA-ATTTCAAAATAT
1 TTTTACATTTCAAAATAT
353151 ATAGTGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTACATTTCAAAATATT
Found at i:358010 original size:17 final size:17
Alignment explanation
Indices: 357988--358026 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
357978 TTAAAATAAT
357988 TATTTATATAATTTTA-A
1 TATTTA-ATAATTTTATA
358005 TATTTAATAATTTTATA
1 TATTTAATAATTTTATA
358022 TATTT
1 TATTT
358027 TTTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTAATAATTTTATA
Found at i:358023 original size:28 final size:28
Alignment explanation
Indices: 357982--358052 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
357972 TTTTTTTTAA
357982 AATAATTATTTATATAATTTTA-ATATTT
1 AATAATT-TTTATATAATTTTATATATTT
* *
358010 AATAA-TTTTATATATTTTTTATTTATTT
1 AATAATTTTTATATA-ATTTTATATATTT
358038 AA-AATTTTTTATATA
1 AATAA-TTTTTATATA
358053 TTCATCTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 8 0.22
27 8 0.22
28 12 0.32
29 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
AATAATTTTTATATAATTTTATATATTT
Found at i:361350 original size:21 final size:22
Alignment explanation
Indices: 361309--361351 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
361299 TGTTTTTTGC
361309 TATTGTTTTTACGTTACTTTTTA
1 TATTGTTTTTA-GTTACTTTTTA
361332 TATTGTTTTT-GTTA-TTTTTA
1 TATTGTTTTTAGTTACTTTTTA
361352 CTGTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
23 10 0.50
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (22 bp):
TATTGTTTTTAGTTACTTTTTA
Found at i:362342 original size:19 final size:19
Alignment explanation
Indices: 362315--362389 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
362305 ACTTGTTTTG
*
362315 AAATTATTTTGA-TGTGTTA
1 AAATCATTTTGACT-TGTTA
* * * *
362334 AAATGATTTTAAGTTTGTTG
1 AAATCATTTTGA-CTTGTTA
362354 AAATCATTTTGACTTGTTTA
1 AAATCATTTTGACTTG-TTA
*
362374 AAATCATTTTAACTTG
1 AAATCATTTTGACTTG
362390 ATTTTAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 13 0.29
20 31 0.69
21 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.49
Consensus pattern (19 bp):
AAATCATTTTGACTTGTTA
Found at i:362377 original size:20 final size:21
Alignment explanation
Indices: 362354--362399 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
362344 AAGTTTGTTG
*
362354 AAATCATTTTGACTTG-TTTA
1 AAATCATTTTAACTTGATTTA
362374 AAATCATTTTAACTTGATTTTA
1 AAATCATTTTAACTTGA-TTTA
362396 AAAT
1 AAAT
362400 TGTTTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.65
22 8 0.35
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (21 bp):
AAATCATTTTAACTTGATTTA
Found at i:362893 original size:75 final size:75
Alignment explanation
Indices: 362729--362960 Score: 310
Period size: 75 Copynumber: 3.0 Consensus size: 75
362719 TTAGCATAAA
* *
362729 AAAATAATCAAATAATATCAATCAATTTACCTTAATTTACCTTTTTTTT-T--CATTTTTATTAT
1 AAAATAATCAAATAATATCAATCAATATACCTTAATTTACCTTTTTTTTCTCCCATTTTTGTTAT
362791 ATCAAACATC
66 ATCAAACATC
*
362801 AAAATAATCAAATAATATCAATCAGTATACCTTAATTTACCTTTTTTTTCTCCCATTTTTGTTAT
1 AAAATAATCAAATAATATCAATCAATATACCTTAATTTACCTTTTTTTTCTCCCATTTTTGTTAT
362866 ATCAAACATC
66 ATCAAACATC
* * *
362876 AAAATAATCAAATAATATCAATCAATAT-CAATCAATTTACCTTAATTTACTTTTTTCTCCCCTT
1 AAAATAATCAAATAATATCAATCAATATAC-CTTAATTTACC-----TT--TTTTTTCTCCCATT
362940 TTTGTTATATCAAACATC
58 TTTGTTATATCAAACATC
362958 AAA
1 AAA
362961 TGAAGCTTAA
Statistics
Matches: 142, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
72 47 0.33
73 1 0.01
74 1 0.01
75 57 0.40
80 2 0.01
82 34 0.24
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.43
Consensus pattern (75 bp):
AAAATAATCAAATAATATCAATCAATATACCTTAATTTACCTTTTTTTTCTCCCATTTTTGTTAT
ATCAAACATC
Found at i:369794 original size:62 final size:62
Alignment explanation
Indices: 369697--369821 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
369687 TTCACAATGC
* *
369697 ATCATTAAACCCGAGAACATCAGCTAACCTAGGGATGAGGATGACGACCATCAGAAGGATAT
1 ATCATTAAACCCGAGAACATCAACTAACCTAGGGATGAGGATGAAGACCATCAGAAGGATAT
*
369759 ATCATTAAACCCGAGAACATCAACTAACCTAGGGATGAGGATGAAGACCATCAGAAGGCTAT
1 ATCATTAAACCCGAGAACATCAACTAACCTAGGGATGAGGATGAAGACCATCAGAAGGATAT
369821 A
1 A
369822 AATAGACCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.18
Consensus pattern (62 bp):
ATCATTAAACCCGAGAACATCAACTAACCTAGGGATGAGGATGAAGACCATCAGAAGGATAT
Found at i:372676 original size:240 final size:238
Alignment explanation
Indices: 372248--372727 Score: 748
Period size: 240 Copynumber: 2.0 Consensus size: 238
372238 TAAAAAATGC
*
372248 CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAAACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
* * * *
372313 AGAGATTTTTACTCCTAATAAGAACCCTAAAGGATACCTAAATAATTCTAATAAAATACTTTCAA
66 AGAGATTTTTACTCCTAAGAAGAACCCTAAAAGATACCTAAATAATTATAATAAAATACATTCAA
**
372378 TTCTTAAAATTAATTCTATTTTAGAATACTTTAAAAAACCTAAAAAAAGTACTAATGAATTAAGA
131 TTCTTAAAATTAATTCTATTTTAGAATACTAAAAAAAACCT--AAAAAGTACTAATGAATTAAGA
*
372443 GAAATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATTA
194 GAAATATTAAAATTCATCTACAACTTATTCGATCTTTGATCATTA
* **
372488 CTCCGATTTACTTGTAACTTGACTAAAACGTGTTCGTCAAACTTATCTAATTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAAACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
* * * *
372553 AGAGATTTTTACTTCTAACGAA-AATCCTAAAAGATACTTAAATAATTATAGTAAAATACATTCA
66 AGAGATTTTTACTCCTAA-GAAGAACCCTAAAAGATACCTAAATAATTATAATAAAATACATTCA
*
372617 ATTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAAAAACCT-AAAAGTTACTAATGAATTAA
130 ATTCTTAAAATTAATTCTATTTTAGAATACT--AAAAAAAACCTAAAAAG-TACTAATGAATTAA
372681 GAGAAATATTAAAATTCATCTACAACTTATTCGATCTTTGATCATTA
192 GAGAAATATTAAAATTCATCTACAACTTATTCGATCTTTGATCATTA
372728 TTATGATTTT
Statistics
Matches: 220, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
239 5 0.02
240 204 0.93
241 2 0.01
242 9 0.04
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (238 bp):
CTCCAATTTACTTGTAACTTGACTAAAACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
AGAGATTTTTACTCCTAAGAAGAACCCTAAAAGATACCTAAATAATTATAATAAAATACATTCAA
TTCTTAAAATTAATTCTATTTTAGAATACTAAAAAAAACCTAAAAAGTACTAATGAATTAAGAGA
AATATTAAAATTCATCTACAACTTATTCGATCTTTGATCATTA
Found at i:373943 original size:29 final size:29
Alignment explanation
Indices: 373842--374214 Score: 355
Period size: 29 Copynumber: 12.8 Consensus size: 29
373832 TTTGAGGTCG
* *
373842 AAAATGGAGTTTTTGGACA--TTCGAGGTA
1 AAAATGGAATTTTTGGA-AGTTTCGGGGTA
** ** **
373870 AAAATAATAATTTTTAAAAGTTTTAGGGTCA
1 AAAAT-GGAATTTTTGGAAGTTTCGGGGT-A
* * *
373901 AAAATGGAAATTTTAGAGGTTTCGGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGGGGTA
* * **
373930 AAAATGTAATTTTTGGAAGTTTTGAGATTA
1 AAAATGGAATTTTTGGAAGTTTCG-GGGTA
* *
373960 AAAATGGAATTTTTGGAAGCTTGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGGGGTA
*
373989 AAAATGGAATTTTTGGAAGTTTCGGGGTT
1 AAAATGGAATTTTTGGAAGTTTCGGGGTA
374018 AAAATGGAATTTTTGGAAG-TTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTC-GGGGTA
*
374047 AAAATGGAATTTTTGGAAGTTT-GGGGGA
1 AAAATGGAATTTTTGGAAGTTTCGGGGTA
* * *
374075 AAAATGAAATTTTAGGAAGTTTCGAGGGCA
1 AAAATGGAATTTTTGGAAGTTTCG-GGGTA
*
374105 AAAATGGAATTTTTAGAAG-TTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTC-GGGGTA
* **
374134 AAAAAGGAA-TTTTGGAAGTTTTAGGGTCA
1 AAAATGGAATTTTTGGAAGTTTCGGGGT-A
374163 AAAATGGAATTTTTGGAAG-TTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTCG-GGGTA
* *
374192 AAAATGTAATTTTTAGACAGTTT
1 AAAATGGAATTTTTGGA-AGTTT
374215 AGGGACCTTC
Statistics
Matches: 281, Mismatches: 48, Indels: 29
0.78 0.13 0.08
Matches are distributed among these distances:
28 46 0.16
29 144 0.51
30 83 0.30
31 8 0.03
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTCGGGGTA
Found at i:374071 original size:87 final size:87
Alignment explanation
Indices: 373777--374205 Score: 408
Period size: 87 Copynumber: 4.9 Consensus size: 87
373767 TGGTAATTTT
* * * * *
373777 GGGGTTAAAAATGGAATTTTTAGACA-TTTGAGGGT-AAAAGGGTAA-TTTT-GAGAGTTTTGAG
1 GGGGGTAAAAATGGAATTTTTGGA-AGTTTGAGGGTAAAAATGG-AATTTTTGGA-AGTTTCGGG
* *
373838 GTCGAAAATGGAGTTTTTGGACA-TTC
63 GT-AAAAATGGAATTTTTGGA-AGTTC
* ** ** * * * *
373864 -GAGGTAAAAATAATAATTTTTAAAAGTTTTAGGGTCAAAAATGGAAATTTTAGAGGTTTCGGGG
1 GGGGGTAAAAAT-GGAATTTTTGGAAGTTTGAGGGT-AAAAATGGAATTTTTGGAAGTTTCGGGG
* *
373928 TAAAAATGTAATTTTTGGAAGTTTT
64 TAAAAATGGAATTTTTGGAAG-TTC
* ** * * *
373953 GAGATTAAAAATGGAATTTTTGGAAGCTTGGGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTT
1 GGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTA
374018 AAAATGGAATTTTTGGAAGTTC
66 AAAATGGAATTTTTGGAAGTTC
* * * *
374040 GGGGGTAAAAATGGAATTTTTGGAAGTTTG-GGGGAAAAATGAAATTTTAGGAAGTTTCGAGGGC
1 GGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTTCG-GGGT
*
374104 AAAAATGGAATTTTTAGAAGTTC
65 AAAAATGGAATTTTTGGAAGTTC
* *
374127 GGGGGTAAAAAAGGAA-TTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAG-TTCGAGGG
1 GGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGT-AAAAATGGAATTTTTGGAAGTTTCG-GGG
*
374190 TAAAAATGTAATTTTT
64 TAAAAATGGAATTTTT
374206 AGACAGTTTA
Statistics
Matches: 282, Mismatches: 48, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
86 48 0.17
87 110 0.39
88 79 0.28
89 36 0.13
90 9 0.03
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (87 bp):
GGGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTA
AAAATGGAATTTTTGGAAGTTC
Found at i:374734 original size:10 final size:9
Alignment explanation
Indices: 374704--374732 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
374694 CAATTTTAAG
374704 TTCATTTTT
1 TTCATTTTT
374713 TTCATTTTT
1 TTCATTTTT
374722 TTCATTTTT
1 TTCATTTTT
374731 TT
1 TT
374733 TCCTCCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCATTTTT
Found at i:375229 original size:25 final size:26
Alignment explanation
Indices: 375176--375239 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
375166 TTCAGTTTTT
* *
375176 TTATTATTATTCTTTTTTAATTAATG
1 TTATTATTATTATTTATTAATTAATG
*
375202 TTATTAATATTATTTATT-ATTAATG
1 TTATTATTATTATTTATTAATTAATG
*
375227 TTATCATTATTAT
1 TTATTATTATTAT
375240 AGATATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (26 bp):
TTATTATTATTATTTATTAATTAATG
Found at i:376039 original size:17 final size:15
Alignment explanation
Indices: 376013--376068 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
376003 GTTCTAAATC
*
376013 AATTTGAATTTTAATTA
1 AATTTAAATTTTAA--A
*
376030 AATTTAAATTTAAAGCA
1 AATTTAAATTTTAA--A
376047 AATTTAAA-TTTAAA
1 AATTTAAATTTTAAA
376061 AATTTAAA
1 AATTTAAA
376069 AATAAATTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.26
16 4 0.12
17 21 0.62
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (15 bp):
AATTTAAATTTTAAA
Found at i:376076 original size:20 final size:22
Alignment explanation
Indices: 376051--376091 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
376041 AAAGCAAATT
376051 TAAATTT-AA-AAATTTAAAAA
1 TAAATTTGAATAAATTTAAAAA
*
376071 TAAATTTGAATCAATTTAAAA
1 TAAATTTGAATAAATTTAAAA
376092 TCAATCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAATTTGAATAAATTTAAAAA
Found at i:376588 original size:86 final size:86
Alignment explanation
Indices: 376437--376631 Score: 264
Period size: 86 Copynumber: 2.3 Consensus size: 86
376427 ACTTGGCCTT
* * * *
376437 CTTCTCAGTATCTCATCAGGAAGACAACCGCATCACTTGTTTTAATCCATTTCTCTGTGTTTCAT
1 CTTCTCAGTATCTCATCAGGAAGACAACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTCAT
* **
376502 CAGGAAGACGGATTTGATTTA
66 CAGGAAGACGAATTTGATCCA
* * ** *
376523 CTTCTCCGTATCTCATCAAGAAGATGACCGCCTCACTTGTTTCAATCCACTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGACAACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTCAT
*
376588 CAGGAAGACGAATTTGGTCCA
66 CAGGAAGACGAATTTGATCCA
*
376609 CTTCTTAGTATCTCATCAGGAAG
1 CTTCTCAGTATCTCATCAGGAAG
376632 CTAACCTTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 93 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (86 bp):
CTTCTCAGTATCTCATCAGGAAGACAACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTCAT
CAGGAAGACGAATTTGATCCA
Found at i:376980 original size:115 final size:115
Alignment explanation
Indices: 376778--376992 Score: 378
Period size: 115 Copynumber: 1.9 Consensus size: 115
376768 TTTCAATCCG
*
376778 CTTCTCTGTATCACATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCACATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
*
376843 AGGAAGCTTGGGTTTGAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATT
66 AGGAAGCTTGGGTTCGAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATT
*
376893 CTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCACATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
*
376958 AGGAAGCTGTGGG-TCGAAGATTTGTTCGCATTGAG
66 AGGAAGCT-TGGGTTCGAAGATTTGCTCGCATTGAG
376993 TTGGTAAACT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
115 91 0.96
116 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (115 bp):
CTTCTCTGTATCACATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATC
AGGAAGCTTGGGTTCGAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATT
Found at i:387029 original size:2 final size:2
Alignment explanation
Indices: 387024--387048 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
387014 TCTCTCTCTC
387024 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
387049 GACAGCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:392126 original size:16 final size:16
Alignment explanation
Indices: 392105--392136 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
392095 AAAAGGTATC
392105 AAACGGACAAGCAAAA
1 AAACGGACAAGCAAAA
*
392121 AAACGGACAAGTAAAA
1 AAACGGACAAGCAAAA
392137 GTTGTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.16, G:0.19, T:0.03
Consensus pattern (16 bp):
AAACGGACAAGCAAAA
Found at i:400843 original size:18 final size:18
Alignment explanation
Indices: 400810--400844 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
400800 GTTGCATACG
*
400810 AGCATGTGATTACATCTT
1 AGCATGTGACTACATCTT
*
400828 AGCATGTGACTGCATCT
1 AGCATGTGACTACATCT
400845 GATCATGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (18 bp):
AGCATGTGACTACATCTT
Found at i:402332 original size:17 final size:17
Alignment explanation
Indices: 402312--402345 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
402302 ATCAGATATC
402312 GATCCCATAAAGATGGT
1 GATCCCATAAAGATGGT
*
402329 GATCCCATAGAGATGGT
1 GATCCCATAAAGATGGT
402346 TGTCTATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (17 bp):
GATCCCATAAAGATGGT
Found at i:408831 original size:3 final size:3
Alignment explanation
Indices: 408817--408873 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
408807 ACAATATTTA
* *
408817 AAT AAT AA- AAT AAT AAT AAT AAC AAT AA- AAT AAT AAC AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
408862 AAT AA- AAT AAT A
1 AAT AAT AAT AAT A
408874 GTAAAACAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 8 0.17
3 38 0.83
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:408836 original size:14 final size:14
Alignment explanation
Indices: 408786--408873 Score: 90
Period size: 14 Copynumber: 6.1 Consensus size: 14
408776 GTAGAAAAAT
*
408786 TAATAATAAAACAA
1 TAATAATAAAATAA
* * *
408800 TAATTATACAATATT
1 TAATAATAAAATA-A
408815 TAAATAATAAAATAA
1 T-AATAATAAAATAA
408830 TAATAATAACAATAA
1 TAATAATAA-AATAA
408845 -AATAATAACAAT-A
1 TAATAATAA-AATAA
408858 TAATAATAAAATAA
1 TAATAATAAAATAA
408872 TA
1 TA
408874 GTAAAACAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
13 4 0.06
14 41 0.66
15 7 0.11
16 10 0.16
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAATAAAATAA
Found at i:408848 original size:11 final size:11
Alignment explanation
Indices: 408817--408879 Score: 76
Period size: 11 Copynumber: 5.9 Consensus size: 11
408807 ACAATATTTA
408817 AATAATAAAAT
1 AATAATAAAAT
408828 AATAAT--AAT
1 AATAATAAAAT
*
408837 AACAATAAAAT
1 AATAATAAAAT
* *
408848 AATAACAATAT
1 AATAATAAAAT
408859 AATAATAAAAT
1 AATAATAAAAT
*
408870 AATAGTAAAA
1 AATAATAAAA
408880 CAGTAACAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 8 0.19
11 35 0.81
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:410726 original size:14 final size:14
Alignment explanation
Indices: 410689--410716 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
410679 CATGACTTTT
410689 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
410703 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
410717 CAACTAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:417425 original size:25 final size:25
Alignment explanation
Indices: 417366--417429 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
417356 TGGCTCCACC
*
417366 AAAATAAAATAATATTTTAATTTTAA
1 AAAAT-AAATAATATTTAAATTTTAA
** *
417392 ATTAGAAATAA-ATTTAAAATTTTAA
1 AAAATAAATAATATTT-AAATTTTAA
417417 AAAATAAATAATA
1 AAAATAAATAATA
417430 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.14
25 22 0.76
26 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATAAATAATATTTAAATTTTAA
Found at i:417529 original size:7 final size:7
Alignment explanation
Indices: 417517--417545 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
417507 ACTATATATT
417517 TAAATAA
1 TAAATAA
417524 TAAATAA
1 TAAATAA
417531 TAAATAA
1 TAAATAA
417538 TAAATAA
1 TAAATAA
417545 T
1 T
417546 TAATCGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAATAA
Found at i:417623 original size:20 final size:18
Alignment explanation
Indices: 417584--417619 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
417574 CCATCAACAA
417584 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
*
417602 TAAACTATATATTTAAAT
1 TAAAATATATATTTAAAT
417620 ATTATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATATATTTAAAT
Found at i:420449 original size:2 final size:2
Alignment explanation
Indices: 420442--420475 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
420432 GTTTTCCTTC
* *
420442 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
420476 GAAATGAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:420667 original size:105 final size:105
Alignment explanation
Indices: 420485--420698 Score: 419
Period size: 105 Copynumber: 2.0 Consensus size: 105
420475 TGAAATGAGA
*
420485 AGTATACTTTTTACTTTACTGCAGAGGCTCAACAAACCAAAAGGAAACCGACCATTGATCAAGAA
1 AGTATACTTTTTACTTAACTGCAGAGGCTCAACAAACCAAAAGGAAACCGACCATTGATCAAGAA
420550 TTCGAGCAGTACTTTTCGATGCTTATGCTATAGAGGAGGG
66 TTCGAGCAGTACTTTTCGATGCTTATGCTATAGAGGAGGG
420590 AGTATACTTTTTACTTAACTGCAGAGGCTCAACAAACCAAAAGGAAACCGACCATTGATCAAGAA
1 AGTATACTTTTTACTTAACTGCAGAGGCTCAACAAACCAAAAGGAAACCGACCATTGATCAAGAA
420655 TTCGAGCAGTACTTTTCGATGCTTATGCTATAGAGGAGGG
66 TTCGAGCAGTACTTTTCGATGCTTATGCTATAGAGGAGGG
420695 AGTA
1 AGTA
420699 CTTAAATCCA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 108 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (105 bp):
AGTATACTTTTTACTTAACTGCAGAGGCTCAACAAACCAAAAGGAAACCGACCATTGATCAAGAA
TTCGAGCAGTACTTTTCGATGCTTATGCTATAGAGGAGGG
Found at i:421856 original size:11 final size:11
Alignment explanation
Indices: 421825--421876 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
421815 TTAGATCAGC
*
421825 AAATGATTTTA
1 AAATTATTTTA
421836 AAATTA--TTA
1 AAATTATTTTA
421845 AAATTATTTTA
1 AAATTATTTTA
* *
421856 AAATAAATTTA
1 AAATTATTTTA
*
421867 CAATTATTTT
1 AAATTATTTT
421877 TTAAAATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 9 0.27
11 24 0.73
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:421874 original size:22 final size:20
Alignment explanation
Indices: 421825--421876 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
421815 TTAGATCAGC
* *
421825 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATAATTA
421845 AAATTATTTTAAAATAAATTTA
1 AAATTATTTTAAAAT-AA-TTA
*
421867 CAATTATTTT
1 AAATTATTTT
421877 TTAAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 14 0.52
21 1 0.04
22 12 0.44
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
AAATTATTTTAAAATAATTA
Found at i:422034 original size:30 final size:30
Alignment explanation
Indices: 421998--422058 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
421988 TATTGAATAA
*
421998 ATGCATGGATGCATGGGACATTAGTGTATT
1 ATGCATGGATGCATGGGACACTAGTGTATT
422028 ATGCATGGATGCATGGGACACTAGTGTATT
1 ATGCATGGATGCATGGGACACTAGTGTATT
422058 A
1 A
422059 GTTGTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (30 bp):
ATGCATGGATGCATGGGACACTAGTGTATT
Found at i:423929 original size:29 final size:29
Alignment explanation
Indices: 423869--423929 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
423859 TTTAGTTCTC
* *
423869 AAACTTGACATTTTTTTAATTTGGTACCT
1 AAACTTGACATTTTTTTAAGTTGATACCT
*
423898 AAACTTGACATTTTTTTAAGTTGATACTT
1 AAACTTGACATTTTTTTAAGTTGATACCT
423927 AAA
1 AAA
423930 ATTTTTGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (29 bp):
AAACTTGACATTTTTTTAAGTTGATACCT
Found at i:424169 original size:57 final size:58
Alignment explanation
Indices: 424077--424193 Score: 209
Period size: 57 Copynumber: 2.0 Consensus size: 58
424067 GACAATATTT
* *
424077 TTATAGCATAACAAAAAAAATTTCAACACTTTTATTGTCTTGCGTAATTTTTGTAATA
1 TTATAGCATAACAAAAAAAATTTCAACACTGTTATTATCTTGCGTAATTTTTGTAATA
424135 TTATAGCATAAC-AAAAAAATTTCAACACTGTTATTATCTTGCGTAATTTTTGTAATA
1 TTATAGCATAACAAAAAAAATTTCAACACTGTTATTATCTTGCGTAATTTTTGTAATA
424192 TT
1 TT
424194 TAATAAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 45 0.79
58 12 0.21
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (58 bp):
TTATAGCATAACAAAAAAAATTTCAACACTGTTATTATCTTGCGTAATTTTTGTAATA
Found at i:427783 original size:52 final size:52
Alignment explanation
Indices: 427701--427939 Score: 388
Period size: 52 Copynumber: 4.6 Consensus size: 52
427691 TTCTCATTTA
* *
427701 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGAAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
427753 ATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * * * *
427805 ATACTCATGATAACACATAGTCATCGGACCCCATTATCTGTAAATGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
427857 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
427909 ATACTCACAATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
427940 TTTGCATTTA
Statistics
Matches: 170, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 170 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:428511 original size:18 final size:16
Alignment explanation
Indices: 428480--428515 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
428470 CCTCAATACC
428480 ATTTCATTTCAATTTA
1 ATTTCATTTCAATTTA
428496 ATTTCATTCCTCAATTTA
1 ATTTCATT--TCAATTTA
428514 AT
1 AT
428516 ATTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTCATTTCAATTTA
Found at i:428956 original size:16 final size:16
Alignment explanation
Indices: 428932--428964 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
428922 TCCTTACAAA
*
428932 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
428948 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
428964 T
1 T
428965 AAAATCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:431671 original size:58 final size:59
Alignment explanation
Indices: 431617--431747 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 59
431607 GTTCGAGGTT
* * * *
431617 AAAAATGAGATTTTTATACACCCGAGGGTAAAACGGT-AGCTTTATAAAAATCGAGATG
1 AAAAATGAGATTTTTAGACACCCGAGGGAAAAACGGTAAGCTTTAGAAAAATCGAGATC
* * * * * * * *
431675 AAAAACGAAATTTTTGGACATCTGAGGGAAAAATGGTAATCTTTAGGAAAATCGAGATC
1 AAAAATGAGATTTTTAGACACCCGAGGGAAAAACGGTAAGCTTTAGAAAAATCGAGATC
431734 AAAAATG-GATTTTT
1 AAAAATGAGATTTTT
431748 TGGAAGTTCG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
58 35 0.60
59 23 0.40
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (59 bp):
AAAAATGAGATTTTTAGACACCCGAGGGAAAAACGGTAAGCTTTAGAAAAATCGAGATC
Found at i:431761 original size:59 final size:59
Alignment explanation
Indices: 431663--431779 Score: 139
Period size: 59 Copynumber: 2.0 Consensus size: 59
431653 TAGCTTTATA
* *
431663 AAAATCGAGATGAAAAACGAAATTTTTGGACATCTGAGGGAAAAATGGTAATCTTTAGG
1 AAAATCGAGATCAAAAACGAAATTTTTGGACATCTGAGGGAAAAATAGTAATCTTTAGG
* * * * *
431722 AAAATCGAGATCAAAAATGGATTTTTTGGA-AGT-TCGAGGGTAAAATAGTAATTTTTAG
1 AAAATCGAGATCAAAAACGAAATTTTTGGACA-TCT-GAGGGAAAAATAGTAATCTTTAG
431780 AAGTTTTGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
58 2 0.04
59 47 0.96
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (59 bp):
AAAATCGAGATCAAAAACGAAATTTTTGGACATCTGAGGGAAAAATAGTAATCTTTAGG
Found at i:431766 original size:29 final size:29
Alignment explanation
Indices: 431734--431902 Score: 164
Period size: 29 Copynumber: 5.8 Consensus size: 29
431724 AATCGAGATC
*
431734 AAAAATGGATTTTTTGGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTCGAGGGT
* * *
431763 -AAAATAGTAATTTTTAGAAGTTTTG-GGGTT
1 AAAAAT-GGAATTTTTGGAAG-TTCGAGGG-T
* *
431793 AAAATTAGAATTTTTGGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTCGAGGGT
* * *
431822 -AAAATGGTATTTTTTGAAGTTTCGAGGTT
1 AAAAATGGAATTTTTGGAAG-TTCGAGGGT
* *
431851 AAAATTTGAATTTTTGGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTCGAGGGT
*
431880 AAAAATGTAATTTTTGGACAGTT
1 AAAAATGGAATTTTTGGA-AGTT
431903 TAGGGACCTC
Statistics
Matches: 110, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
28 20 0.18
29 49 0.45
30 37 0.34
31 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTCGAGGGT
Found at i:431843 original size:58 final size:59
Alignment explanation
Indices: 431744--431903 Score: 234
Period size: 58 Copynumber: 2.7 Consensus size: 59
431734 AAAAATGGAT
* *
431744 TTTTTGGAAGTTCGAGGGTAAAATAGTAATTTTTAGAAGTTTTGGGGTTAAAATTAGAA
1 TTTTTGGAAGTTCGAGGGTAAAATAGTAATTTTTAGAAGTTTCGAGGTTAAAATTAGAA
* * *
431803 TTTTTGGAAGTTCGAGGGTAAAATGGT-ATTTTTTGAAGTTTCGAGGTTAAAATTTGAA
1 TTTTTGGAAGTTCGAGGGTAAAATAGTAATTTTTAGAAGTTTCGAGGTTAAAATTAGAA
*
431861 TTTTTGGAAGTTCGAGGGTAAAA-ATGTAATTTTTGGACAGTTT
1 TTTTTGGAAGTTCGAGGGTAAAATA-GTAATTTTTAGA-AGTTT
431904 AGGGACCTCT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
58 52 0.57
59 34 0.37
60 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.26, T:0.41
Consensus pattern (59 bp):
TTTTTGGAAGTTCGAGGGTAAAATAGTAATTTTTAGAAGTTTCGAGGTTAAAATTAGAA
Found at i:433642 original size:28 final size:30
Alignment explanation
Indices: 433580--433642 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
433570 GTAGTAGCAG
* * *
433580 ATTTGGGTCTTCTGTTTGGGTTGAATTGTA
1 ATTTGGGTCATCTGTTTGGGTCGAATTGAA
433610 A--TGGGTCAT-TGTTTGGGTCG-ATTGAA
1 ATTTGGGTCATCTGTTTGGGTCGAATTGAA
433636 ATTTGGG
1 ATTTGGG
433643 CCCAATTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 6 0.21
27 10 0.36
28 11 0.39
30 1 0.04
ACGTcount: A:0.16, C:0.06, G:0.33, T:0.44
Consensus pattern (30 bp):
ATTTGGGTCATCTGTTTGGGTCGAATTGAA
Found at i:433768 original size:17 final size:16
Alignment explanation
Indices: 433742--433801 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
433732 TTTTTTAATT
*
433742 AATTTTAATTTACAATG
1 AATTTAAATTTA-AATG
*
433759 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAA-TG
*
433776 AATTTAAATTCAAAAATG
1 AATTTAAATT--TAAATG
433794 AATTTAAA
1 AATTTAAA
433802 CTTAGAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.06
17 22 0.61
18 9 0.25
19 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (16 bp):
AATTTAAATTTAAATG
Found at i:443394 original size:13 final size:12
Alignment explanation
Indices: 443377--443424 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 12
443367 ATAGCAAACA
443377 TTTTTTTTTTCT
1 TTTTTTTTTTCT
443389 TATTTTCTTTTCTCT
1 T-TTTT-TTTT-TCT
443404 TTTATTTTTTTCT
1 TTT-TTTTTTTCT
443417 TTCTTTTT
1 TT-TTTTT
443425 CTCATTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 1 0.03
13 13 0.42
14 11 0.35
15 6 0.19
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:443420 original size:32 final size:31
Alignment explanation
Indices: 443376--443438 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
443366 CATAGCAAAC
443376 ATTTTTTTTTTCTTATTT-TC-TTTTCTCTTTT
1 ATTTTTTTTTTCTT-TTTCTCATTTTC-CTTTT
443407 ATTTTTTTCTTTCTTTTTCTCATTTTCCTTTT
1 ATTTTTTT-TTTCTTTTTCTCATTTTCCTTTT
443439 CTAAGTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 11 0.38
32 13 0.45
33 5 0.17
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (31 bp):
ATTTTTTTTTTCTTTTTCTCATTTTCCTTTT
Found at i:446347 original size:20 final size:21
Alignment explanation
Indices: 446322--446361 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
446312 GCAAGAAATT
446322 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
446342 TGAAACAAATAAAAGTAAAA
1 TGAAACAAACAAAAGTAAAA
446362 AACAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:463844 original size:23 final size:23
Alignment explanation
Indices: 463814--463860 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
463804 TATTTTTGTC
463814 ATGATTAGTCTCTAGTTATAATA
1 ATGATTAGTCTCTAGTTATAATA
463837 ATGATTAGTCTCTAGTTATAATA
1 ATGATTAGTCTCTAGTTATAATA
463860 A
1 A
463861 GATGCCATAA
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:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (23 bp):
ATGATTAGTCTCTAGTTATAATA
Found at i:467492 original size:21 final size:21
Alignment explanation
Indices: 467445--467502 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
467435 AAGGGTTATG
* * * *
467445 AAATTTTTTTATAATATTTTA
1 AAATTTTATAATAAAATTTAA
*
467466 ATATTTTATAATAAAATTTAA
1 AAATTTTATAATAAAATTTAA
467487 AAA-TTTATTAATAAAA
1 AAATTTTA-TAATAAAA
467503 AAAATTACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATTTTATAATAAAATTTAA
Found at i:473773 original size:20 final size:20
Alignment explanation
Indices: 473745--473784 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
473735 TTTATTTTGC
473745 AAAAAAACA-AAAAATATAAT
1 AAAAAAACAGAAAAA-ATAAT
*
473765 AAAATAACAGAAAAAATAAT
1 AAAAAAACAGAAAAAATAAT
473785 GTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAAAACAGAAAAAATAAT
Found at i:474009 original size:60 final size:60
Alignment explanation
Indices: 473909--474029 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
473899 TTTTACATAG
**
473909 ATCGAATACTCGAGATTGGGTCCATTTCCACAGACCCTCATTATTTGAAATATTGTTGAT
1 ATCGAATACTCGAGATTGGGTCCATCCCCACAGACCCTCATTATTTGAAATATTGTTGAT
* *
473969 ATCGAATACTCGAGATTGGGTCCATCCCCACGGACTCTCATTATTTGAAATATTGTTGAT
1 ATCGAATACTCGAGATTGGGTCCATCCCCACAGACCCTCATTATTTGAAATATTGTTGAT
474029 A
1 A
474030 GCCGTAAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (60 bp):
ATCGAATACTCGAGATTGGGTCCATCCCCACAGACCCTCATTATTTGAAATATTGTTGAT
Found at i:487702 original size:60 final size:60
Alignment explanation
Indices: 487609--487729 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
487599 TATCAACTCC
487609 AATGGTAATCTATCATTTTCCCCCCTCCATGAAATCACACACACACACACACATATATAT
1 AATGGTAATCTATCATTTTCCCCCCTCCATGAAATCACACACACACACACACATATATAT
* * *
487669 AATGGTACTCTATCATTTTCCCCCCTCCATGAAATCACACACACACACATATATATATAT
1 AATGGTAATCTATCATTTTCCCCCCTCCATGAAATCACACACACACACACACATATATAT
487729 A
1 A
487730 TATTGTTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.28
Consensus pattern (60 bp):
AATGGTAATCTATCATTTTCCCCCCTCCATGAAATCACACACACACACACACATATATAT
Found at i:490092 original size:9 final size:9
Alignment explanation
Indices: 490080--490128 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
490070 TATTGCACGA
*
490080 ATGATGAGA
1 ATGATGAGG
*
490089 ATGATGATG
1 ATGATGAGG
490098 ATGATGAGG
1 ATGATGAGG
*
490107 ACGATGAGG
1 ATGATGAGG
490116 ATGATGAGG
1 ATGATGAGG
490125 ATGA
1 ATGA
490129 CACTTCTTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.37, C:0.02, G:0.39, T:0.22
Consensus pattern (9 bp):
ATGATGAGG
Found at i:490297 original size:23 final size:23
Alignment explanation
Indices: 490271--490349 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
490261 TTTTGCAAGT
**
490271 TGTTTTTGGTGCAAATTTGGTAC
1 TGTTTTTGGTGCTGATTTGGTAC
* *
490294 TGTTTTTGGTGCTGATTTGATGC
1 TGTTTTTGGTGCTGATTTGGTAC
*
490317 TGTTTTTTGTGCTGATTTGGTAC
1 TGTTTTTGGTGCTGATTTGGTAC
*
490340 TATTTTTGGT
1 TGTTTTTGGT
490350 ATTGTTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.11, C:0.08, G:0.27, T:0.54
Consensus pattern (23 bp):
TGTTTTTGGTGCTGATTTGGTAC
Found at i:490303 original size:12 final size:12
Alignment explanation
Indices: 490286--490380 Score: 70
Period size: 12 Copynumber: 8.2 Consensus size: 12
490276 TTGGTGCAAA
490286 TTTGGTACTGTT
1 TTTGGTACTGTT
* *
490298 TTTGGTGCTG-A
1 TTTGGTACTGTT
* *
490309 TTTGATGCTGTT
1 TTTGGTACTGTT
* * *
490321 TTTTGTGCTG-A
1 TTTGGTACTGTT
*
490332 TTTGGTACTATT
1 TTTGGTACTGTT
*
490344 TTTGGTATTGTT
1 TTTGGTACTGTT
* *
490356 TTTAGTGCTG-T
1 TTTGGTACTGTT
490367 TTTGGTACTGTT
1 TTTGGTACTGTT
490379 TT
1 TT
490381 CGATGTTGTT
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
11 25 0.40
12 37 0.60
ACGTcount: A:0.09, C:0.07, G:0.25, T:0.58
Consensus pattern (12 bp):
TTTGGTACTGTT
Found at i:490390 original size:35 final size:34
Alignment explanation
Indices: 490297--490391 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 34
490287 TTGGTACTGT
* * * *
490297 TTTTGGTGCTGATTTGATGCTGTTTTTTGTGCTG
1 TTTTGGTACTGTTTTGATGTTGTTTTTAGTGCTG
* * * *
490331 ATTTGGTACTATTTTTGGTATTGTTTTTAGTGCTG
1 TTTTGGTACT-GTTTTGATGTTGTTTTTAGTGCTG
490366 TTTTGGTACTGTTTTCGATGTTGTTT
1 TTTTGGTACTGTTTT-GATGTTGTTT
490392 GGATGTTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
34 12 0.26
35 35 0.74
ACGTcount: A:0.09, C:0.07, G:0.25, T:0.58
Consensus pattern (34 bp):
TTTTGGTACTGTTTTGATGTTGTTTTTAGTGCTG
Found at i:490663 original size:26 final size:24
Alignment explanation
Indices: 490634--490681 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
490624 TGTTGTTTTA
*
490634 ATATTTTTAAATGTATTTGATATATC
1 ATATTTTAAAAT-TATTT-ATATATC
490660 ATATTTTAAAATTATTTATATA
1 ATATTTTAAAATTATTTATATA
490682 ATAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTTAAAATTATTTATATATC
Found at i:491493 original size:20 final size:20
Alignment explanation
Indices: 491470--491585 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
491460 AAATGTACCG
491470 AAGTGCAAACAAGGGCACCA
1 AAGTGCAAACAAGGGCACCA
* *
491490 AAGTTCAAACAA-AGCACCA
1 AAGTGCAAACAAGGGCACCA
* * * *
491509 TAGTTCAAA-TAGAAGCACCA
1 AAGTGCAAACAAG-GGCACCA
*
491529 AAGTGCAAACAGGGGCACCA
1 AAGTGCAAACAAGGGCACCA
* * *
491549 TAGTGCAAA-TAGGGACATCA
1 AAGTGCAAACAAGGG-CACCA
*
491569 AAGTGCAAACAGGGGCA
1 AAGTGCAAACAAGGGCA
491586 TCGTAGTGCA
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.01
19 17 0.23
20 53 0.71
21 4 0.05
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (20 bp):
AAGTGCAAACAAGGGCACCA
Found at i:491558 original size:40 final size:39
Alignment explanation
Indices: 491484--491597 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 39
491474 GCAAACAAGG
* ** *
491484 GCACCAAAGTTCAAACA-AAGCACCATAGTTCAAATAGAA
1 GCACCAAAGTGCAAACAGGGGCACCATAGTGCAAATAG-A
*
491523 GCACCAAAGTGCAAACAGGGGCACCATAGTGCAAATAGG
1 GCACCAAAGTGCAAACAGGGGCACCATAGTGCAAATAGA
* * *
491562 GACATCAAAGTGCAAACAGGGGCATCGTAGTGCAAA
1 G-CACCAAAGTGCAAACAGGGGCACCATAGTGCAAA
491598 CTGAGGCATC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 17 0.26
40 48 0.74
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (39 bp):
GCACCAAAGTGCAAACAGGGGCACCATAGTGCAAATAGA
Found at i:491587 original size:20 final size:20
Alignment explanation
Indices: 491527--491616 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
491517 ATAGAAGCAC
*
491527 CAAAGTGCAAACAGGGGCAC
1 CAAAGTGCAAACAGGGGCAT
* * *
491547 CATAGTGCAAATAGGGACAT
1 CAAAGTGCAAACAGGGGCAT
491567 CAAAGTGCAAACAGGGGCAT
1 CAAAGTGCAAACAGGGGCAT
** * *
491587 CGTAGTGCAAACTGAGGCAT
1 CAAAGTGCAAACAGGGGCAT
*
491607 CGAAGTGCAA
1 CAAAGTGCAA
491617 TCCCATACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.13
Consensus pattern (20 bp):
CAAAGTGCAAACAGGGGCAT
Found at i:494725 original size:17 final size:17
Alignment explanation
Indices: 494703--494735 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
494693 TGTAGGAAAT
494703 TAAATAAAAAATAAAAA
1 TAAATAAAAAATAAAAA
*
494720 TAAATAAACAATAAAA
1 TAAATAAAAAATAAAA
494736 TAGATAGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAATAAAAAATAAAAA
Found at i:494737 original size:16 final size:16
Alignment explanation
Indices: 494703--494751 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
494693 TGTAGGAAAT
*
494703 TAAATAAAAAATAAAAA
1 TAAATAAACAAT-AAAA
494720 TAAATAAACAATAAAA
1 TAAATAAACAATAAAA
* *
494736 TAGATAGACAACTAAA
1 TAAATAAACAA-TAAA
494752 CCAATTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.18
Consensus pattern (16 bp):
TAAATAAACAATAAAA
Found at i:499216 original size:84 final size:84
Alignment explanation
Indices: 499015--499227 Score: 255
Period size: 84 Copynumber: 2.5 Consensus size: 84
499005 GTTTATCTGT
* * * * *
499015 AATATTAATGGCTTGTCCACATCTTACTGGAAGCTTGACTGCAATATTGGTGGCTTGTCCACATA
1 AATACTAATGGCTTGTCCACATATTACTGGTAGCTTAACTGCAATACTGGTGGCTTGTCCACATA
* *
499080 TTTCTAGCAGCTTTACTGC
66 TTTCTAGCAGCTTGACTAC
* ** * *
499099 AATACTAATGGCTTGTCTACATATTTTTGGTAGCTTTACTGCAATACTGGTGGCTTGTCCATATA
1 AATACTAATGGCTTGTCCACATATTACTGGTAGCTTAACTGCAATACTGGTGGCTTGTCCACATA
*
499164 TTTCTGGCAGCTTGACTAC
66 TTTCTAGCAGCTTGACTAC
** * * * *
499183 AATACTGGTGGTTTGTCCACATGTTACTAGTAGCTTAACTACAAT
1 AATACTAATGGCTTGTCCACATATTACTGGTAGCTTAACTGCAAT
499228 TATTAATGAC
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 107 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (84 bp):
AATACTAATGGCTTGTCCACATATTACTGGTAGCTTAACTGCAATACTGGTGGCTTGTCCACATA
TTTCTAGCAGCTTGACTAC
Found at i:499227 original size:42 final size:42
Alignment explanation
Indices: 499023--499204 Score: 229
Period size: 42 Copynumber: 4.3 Consensus size: 42
499013 GTAATATTAA
* * * *
499023 TGGCTTGTCCACATCTTACTGGAAGCTTGACTGCAATATTGG
1 TGGCTTGTCCACATATTTCTGGCAGCTTGACTGCAATACTGG
* * **
499065 TGGCTTGTCCACATATTTCTAGCAGCTTTACTGCAATACTAA
1 TGGCTTGTCCACATATTTCTGGCAGCTTGACTGCAATACTGG
* * * *
499107 TGGCTTGTCTACATATTTTTGGTAGCTTTACTGCAATACTGG
1 TGGCTTGTCCACATATTTCTGGCAGCTTGACTGCAATACTGG
* *
499149 TGGCTTGTCCATATATTTCTGGCAGCTTGACTACAATACTGG
1 TGGCTTGTCCACATATTTCTGGCAGCTTGACTGCAATACTGG
*
499191 TGGTTTGTCCACAT
1 TGGCTTGTCCACAT
499205 GTTACTAGTA
Statistics
Matches: 118, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 118 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (42 bp):
TGGCTTGTCCACATATTTCTGGCAGCTTGACTGCAATACTGG
Found at i:500544 original size:20 final size:18
Alignment explanation
Indices: 500497--500604 Score: 71
Period size: 19 Copynumber: 5.8 Consensus size: 18
500487 AAAGATAAAC
500497 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
500514 ATTAAGA-TAATTATTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
***
500534 ATTAAATTAATAAAAAACT
1 ATTAAATTAATATTTAA-T
*
500553 ATTAAAATAAGTA-TTAA-
1 ATTAAATTAA-TATTTAAT
*
500570 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
500590 ATTAAAATAATATTT
1 ATTAAATTAATATTT
500605 TTTTTGAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
17 16 0.23
18 9 0.13
19 23 0.33
20 22 0.31
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:500589 original size:37 final size:36
Alignment explanation
Indices: 500529--500603 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 36
500519 GATAATTATT
500529 TTAATATTAAATTAATAAAAAACTATTAAAATAAGTA
1 TTAATATTAAATTAATAAAAAACTATTAAAATAA-TA
**
500566 TTAA-ATTAAATTTAATATTAAACTATTAAAATAATA
1 TTAATATTAAA-TTAATAAAAAACTATTAAAATAATA
500602 TT
1 TT
500604 TTTTTTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAAAACTATTAAAATAATA
Found at i:501888 original size:16 final size:16
Alignment explanation
Indices: 501867--501897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
501857 CTATGCATGC
*
501867 AAAATATGAAAGACAA
1 AAAATATAAAAGACAA
501883 AAAATATAAAAGACA
1 AAAATATAAAAGACA
501898 TACTAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAA
Found at i:503559 original size:18 final size:18
Alignment explanation
Indices: 503538--503572 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
503528 AATGATATAT
*
503538 TAATTAATAATAATATTA
1 TAATAAATAATAATATTA
503556 TAATAAATAATAATATT
1 TAATAAATAATAATATT
503573 TTATTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:510434 original size:37 final size:35
Alignment explanation
Indices: 510377--510447 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
510367 ATCACTTTAT
510377 ATTAAATTAATAAAATACTATCAAAATAAGTATTAA
1 ATTAAATTAATAAAATACTATCAAAATAA-TATTAA
* *
510413 ATTAAATTTAATATTAA-ACTATTAAAATAATATTA
1 ATTAAA-TTAATA-AAATACTATCAAAATAATATTA
510448 TTTTTGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATCAAAATAATATTAA
Found at i:531567 original size:13 final size:14
Alignment explanation
Indices: 531549--531578 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
531539 GTCAACACAA
531549 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
531562 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
531576 TCA
1 TCA
531579 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:535235 original size:24 final size:24
Alignment explanation
Indices: 535162--535223 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
535152 TTCAGTTAAA
*
535162 CTGTTTATTTTTTTCAATTAAACT
1 CTGTTTATTTGTTTCAATTAAACT
* *
535186 ATATTTATTTGTTTCAATTAAACT
1 CTGTTTATTTGTTTCAATTAAACT
535210 CTGTTTATTTGTTT
1 CTGTTTATTTGTTT
535224 AAGTCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.60
Consensus pattern (24 bp):
CTGTTTATTTGTTTCAATTAAACT
Found at i:538600 original size:16 final size:15
Alignment explanation
Indices: 538575--538604 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
538565 TTGAAGTAAT
538575 TGATATGAAATGATG
1 TGATATGAAATGATG
538590 TGATCATGAAATGAT
1 TGAT-ATGAAATGAT
538605 CATGAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (15 bp):
TGATATGAAATGATG
Found at i:539844 original size:8 final size:8
Alignment explanation
Indices: 539833--539857 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
539823 TTCAATTAGA
539833 TGAAAATG
1 TGAAAATG
539841 TGAAAATG
1 TGAAAATG
539849 TGAAAATG
1 TGAAAATG
539857 T
1 T
539858 TGAAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (8 bp):
TGAAAATG
Found at i:564771 original size:21 final size:20
Alignment explanation
Indices: 564745--564792 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
564735 GGAGTTTTTG
564745 GTATCGGTAG-ATGCATGACTT
1 GTATCGGTAGAAT-CAT-ACTT
564766 GTATCGGTAGAAATCATACTT
1 GTATCGGTAG-AATCATACTT
564787 GTATCG
1 GTATCG
564793 CTAAAGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 20 0.80
22 3 0.12
23 2 0.08
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (20 bp):
GTATCGGTAGAATCATACTT
Found at i:571986 original size:21 final size:19
Alignment explanation
Indices: 571956--572008 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
571946 GGAGTTTCTG
*
571956 GTATCAGTAGATGCATGACTT
1 GTATCGGTAGAT-CAT-ACTT
*
571977 GTATTGGTAGAAATCATACTT
1 GTATCGGTAG--ATCATACTT
571998 GTATCGGTAGA
1 GTATCGGTAGA
572009 GCTAGCACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.04
21 21 0.78
22 3 0.11
23 2 0.07
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (19 bp):
GTATCGGTAGATCATACTT
Found at i:579192 original size:10 final size:10
Alignment explanation
Indices: 579161--579194 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
579151 TGGCAATATA
579161 TTTCTTTTCTT
1 TTTC-TTTCTT
*
579172 CTTCTTTCTT
1 TTTCTTTCTT
579182 TTTCTTTCTT
1 TTTCTTTCTT
579192 TTT
1 TTT
579195 GTGAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:579802 original size:17 final size:17
Alignment explanation
Indices: 579765--579823 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
579755 ATAAGGATGA
579765 AAATGCAACT-AC-AATG
1 AAATGC-ACTAACAAATG
*
579781 CAAATGTACTAACAAATG
1 -AAATGCACTAACAAATG
* *
579799 AAATGCAGTGACAAATG
1 AAATGCACTAACAAATG
579816 AAAATGCA
1 -AAATGCA
579824 ATGACAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 3 0.09
17 21 0.60
18 11 0.31
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (17 bp):
AAATGCACTAACAAATG
Found at i:579822 original size:18 final size:17
Alignment explanation
Indices: 579792--579830 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
579782 AAATGTACTA
*
579792 ACAAATGAAATGCAGTG
1 ACAAATGAAATGCAATG
579809 ACAAATGAAAATGCAATG
1 ACAAATG-AAATGCAATG
579827 ACAA
1 ACAA
579831 CTAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (17 bp):
ACAAATGAAATGCAATG
Found at i:588121 original size:16 final size:16
Alignment explanation
Indices: 588100--588130 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
588090 ATAATGTGAA
588100 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
588116 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
588131 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:589092 original size:38 final size:37
Alignment explanation
Indices: 589044--589146 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
589034 GCAGTGATAG
* * * *
589044 TTTT-GGTGCAATCTGGAAGTTCTCATGTGGTGACAGT
1 TTTTGGGTGCAATCTAGAAGTGCTCATGCGGCGACA-T
589081 TTTTGGGTGCAATCTAGACA-TGCTCATGCGGCGACAT
1 TTTTGGGTGCAATCTAGA-AGTGCTCATGCGGCGACAT
* *
589118 GTTTGGGCGCAATCTAGAAGTGCTCATGC
1 TTTTGGGTGCAATCTAGAAGTGCTCATGC
589147 AACGTTATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
36 1 0.02
37 30 0.53
38 25 0.44
39 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (37 bp):
TTTTGGGTGCAATCTAGAAGTGCTCATGCGGCGACAT
Found at i:589132 original size:37 final size:37
Alignment explanation
Indices: 589082--589167 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
589072 GGTGACAGTT
* **
589082 TTTGGGTGCAATCTAGACA-TGCTCATGCGGCGACATG
1 TTTGGGCGCAATCTAGA-AGTGCTCATGCAACGACATG
**
589119 TTTGGGCGCAATCTAGAAGTGCTCATGCAACGTTATG
1 TTTGGGCGCAATCTAGAAGTGCTCATGCAACGACATG
589156 TTTGGGCGCAAT
1 TTTGGGCGCAAT
589168 TCTGGATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (37 bp):
TTTGGGCGCAATCTAGAAGTGCTCATGCAACGACATG
Found at i:607983 original size:27 final size:29
Alignment explanation
Indices: 607923--607984 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
607913 AGTGAAGCTC
*
607923 TTGTGGCTGATTTTGTTATGAGAAGAGCTT
1 TTGTGGCTGATTTTGTTA-GAGAAGAGCCT
607953 TTGTGGCTGATTTTGTTA-A-AAGAGCCT
1 TTGTGGCTGATTTTGTTAGAGAAGAGCCT
607980 TTGTG
1 TTGTG
607985 ACGAAGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 12 0.39
28 1 0.03
30 18 0.58
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (29 bp):
TTGTGGCTGATTTTGTTAGAGAAGAGCCT
Found at i:610128 original size:24 final size:22
Alignment explanation
Indices: 610093--610146 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
610083 AGGTTAAGAG
* *
610093 TAAAAATTGTCAGTGTAAATATAA
1 TAAAAA-TGTCAGAGCAAAT-TAA
610117 TATAAAATGTCAGAGCAAATTAA
1 TA-AAAATGTCAGAGCAAATTAA
610140 TAAAAAT
1 TAAAAAT
610147 TGATTGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 13 0.48
25 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.30
Consensus pattern (22 bp):
TAAAAATGTCAGAGCAAATTAA
Found at i:616131 original size:16 final size:18
Alignment explanation
Indices: 616110--616157 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
616100 TTATCAAAAA
616110 TTTCTTTCTTTTTC-T-T
1 TTTCTTTCTTTTTCTTAT
*
616126 TTTCTTCCTTTTTCTTAT
1 TTTCTTTCTTTTTCTTAT
*
616144 TTTGTTTCTTTTTC
1 TTTCTTTCTTTTTC
616158 AAATGATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 13 0.48
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTCTTTCTTTTTCTTAT
Found at i:624623 original size:13 final size:14
Alignment explanation
Indices: 624605--624634 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
624595 GTCAACGCAA
624605 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
624618 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
624632 TCA
1 TCA
624635 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:626388 original size:55 final size:55
Alignment explanation
Indices: 626304--626415 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
626294 TTATACCATC
626304 TTTTAGTTTTTTCTTTGTAAATGGCAGCATTTTAATAGGCATTGCGCCGAATTTA
1 TTTTAGTTTTTTCTTTGTAAATGGCAGCATTTTAATAGGCATTGCGCCGAATTTA
*
626359 TTTTAGTTTTTTCTTTGTAAATGGCAGCATTTTAATAGGCATTGCGTCGAATTTA
1 TTTTAGTTTTTTCTTTGTAAATGGCAGCATTTTAATAGGCATTGCGCCGAATTTA
626414 TT
1 TT
626416 CTAGCCCTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (55 bp):
TTTTAGTTTTTTCTTTGTAAATGGCAGCATTTTAATAGGCATTGCGCCGAATTTA
Found at i:630428 original size:18 final size:18
Alignment explanation
Indices: 630388--630439 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
630378 GTATTCGAAC
*
630388 CTGTGGCTGCATCTGAGT
1 CTGTGACTGCATCTGAGT
*
630406 ATGTGACTGCATCTG-GTT
1 CTGTGACTGCATCTGAG-T
630424 CTGTGA-TAGCATCTGA
1 CTGTGACT-GCATCTGA
630440 TCAGGTTGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (18 bp):
CTGTGACTGCATCTGAGT
Found at i:640214 original size:41 final size:41
Alignment explanation
Indices: 640156--640238 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
640146 GCGATCCGGA
*
640156 TTGGATCCTTCAGGAAAACATATTATACATACATTATTCAT
1 TTGGATCCTTCAAGAAAACATATTATACATACATTATTCAT
640197 TTGGATCCTTCAAGAAAACATATTATACATACATTATTCAT
1 TTGGATCCTTCAAGAAAACATATTATACATACATTATTCAT
640238 T
1 T
640239 AGATTCAGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (41 bp):
TTGGATCCTTCAAGAAAACATATTATACATACATTATTCAT
Found at i:641886 original size:81 final size:81
Alignment explanation
Indices: 641751--641940 Score: 281
Period size: 81 Copynumber: 2.3 Consensus size: 81
641741 AACCGACGAC
* * * *
641751 CCTGGCACCTAGTGCCTAGCTGATAAACCGCAAAAGTGAGCCCAACTCTAGTTAGACTAACTAAC
1 CCTGGCACCAAGTGCCTAGCAGATAAACCGCAAAAGTGAACCCAACTCTAGTTAGACTAACCAAC
641816 AAATAATCCGTCAAAT
66 AAATAATCCGTCAAAT
* * * ** * *
641832 CCTGGCACCCAGTGCCTAGCGGATATATTGCAAAAGTGAACCCAGCTCTAGTTAGATTAACCAAC
1 CCTGGCACCAAGTGCCTAGCAGATAAACCGCAAAAGTGAACCCAACTCTAGTTAGACTAACCAAC
641897 AAATAATCCGTCAAAT
66 AAATAATCCGTCAAAT
641913 CCTGGCACCAAGTGCCTAGCAGATAAAC
1 CCTGGCACCAAGTGCCTAGCAGATAAAC
641941 AACAATTGTG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (81 bp):
CCTGGCACCAAGTGCCTAGCAGATAAACCGCAAAAGTGAACCCAACTCTAGTTAGACTAACCAAC
AAATAATCCGTCAAAT
Found at i:646433 original size:20 final size:20
Alignment explanation
Indices: 646385--646435 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
646375 AAGTATCCAA
* * *
646385 ACTTTAAGCAATATATAGAT
1 ACTTTAAGTAATATACAAAT
646405 ACTTTAAGTAATATACAAAT
1 ACTTTAAGTAATATACAAAT
646425 ACTTTAAGTAA
1 ACTTTAAGTAA
646436 ACATATTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (20 bp):
ACTTTAAGTAATATACAAAT
Found at i:648286 original size:24 final size:24
Alignment explanation
Indices: 648225--648287 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
648215 TAGACTAATA
*
648225 AGAGTTTAACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
648249 AAAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
648273 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
648288 GATTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:650233 original size:24 final size:24
Alignment explanation
Indices: 650205--650253 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
650195 GACTAATAAG
*
650205 AATTTGACTCAAACAAATAAACAA
1 AATTTAACTCAAACAAATAAACAA
* * *
650229 AATTTAATTGAAACAAATAAGCAA
1 AATTTAACTCAAACAAATAAACAA
650253 A
1 A
650254 GCTTAACTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (24 bp):
AATTTAACTCAAACAAATAAACAA
Found at i:650259 original size:24 final size:24
Alignment explanation
Indices: 650215--650265 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
650205 AATTTGACTC
* *
650215 AAACAAATAAACAAAATTTAATTG
1 AAACAAATAAACAAAACTTAACTG
* *
650239 AAACAAATAAGCAAAGCTTAACTG
1 AAACAAATAAACAAAACTTAACTG
650263 AAA
1 AAA
650266 GATTATTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.20
Consensus pattern (24 bp):
AAACAAATAAACAAAACTTAACTG
Found at i:650967 original size:75 final size:75
Alignment explanation
Indices: 650793--650967 Score: 244
Period size: 75 Copynumber: 2.3 Consensus size: 75
650783 AATTTGTGCT
* * * *
650793 TAGCGCTAGTCGGTTAAACCGACAATATAAAAGGTGAGCCCAGATTTAGTTGGATATACCAACAA
1 TAGCACTAGTCGGTTAAACAGACAATATAAAAGGTGAACCCAGATCTAGTTGGATATACCAACAA
650858 ATATTGCACC
66 ATATTGCACC
* * *
650868 CAGCACTAGTCGGTTAAACTGACAATATAAAAGGTGAATCCA-ACTCTAGTTGGATATACCAACA
1 TAGCACTAGTCGGTTAAACAGACAATATAAAAGGTGAACCCAGA-TCTAGTTGGATATACCAACA
*
650932 AATATTGCGCC
65 AATATTGCACC
* *
650943 TAGCACTAGTCGATCAAACAGACAA
1 TAGCACTAGTCGGTTAAACAGACAA
650968 ATGGTGTGCC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 1 0.01
75 87 0.99
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (75 bp):
TAGCACTAGTCGGTTAAACAGACAATATAAAAGGTGAACCCAGATCTAGTTGGATATACCAACAA
ATATTGCACC
Found at i:651755 original size:42 final size:41
Alignment explanation
Indices: 651653--651781 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 41
651643 CAAAAGGTAA
* *
651653 GCGTTTATGGGAAAACGTCGCAAAA-GT-AA-AGCAATAGCG
1 GCGTTTATGTGAAAACGCCGCAAAAGGTAAAGAGC-ATAGCG
*
651692 GCGTTT-TTTGAGAAACGCCGCAAAAGGTAAAGAGCTATAGCG
1 GCGTTTATGTGA-AAACGCCGCAAAAGGTAAAGAGC-ATAGCG
* *
651734 ACGTTTATGTGAAAACACCGCAAAAGGTAAAGAGCATTAGCG
1 GCGTTTATGTGAAAACGCCGCAAAAGGTAAAGAGCA-TAGCG
651776 GCGTTT
1 GCGTTT
651782 TCCCATAAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
38 3 0.04
39 18 0.24
40 2 0.03
41 3 0.04
42 46 0.61
43 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (41 bp):
GCGTTTATGTGAAAACGCCGCAAAAGGTAAAGAGCATAGCG
Found at i:651802 original size:42 final size:42
Alignment explanation
Indices: 651704--651831 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
651694 GTTTTTTGAG
***
651704 AAACGCCGCAAAAGGTAAAGAGC-TATAGCGACGTTTATGTGA-
1 AAACGCCGCAAAAGGTAAAGAGCAT-TAGCGACGTTT-TCCCAT
* *
651746 AAACACCGCAAAAGGTAAAGAGCATTAGCGGCGTTTTCCCAT
1 AAACGCCGCAAAAGGTAAAGAGCATTAGCGACGTTTTCCCAT
* * * *
651788 AAACGCCGCTAAAGGT-TA-AGCAATAGCGACATTTTCCCAT
1 AAACGCCGCAAAAGGTAAAGAGCATTAGCGACGTTTTCCCAT
651828 AAAC
1 AAAC
651832 ACGTTAATAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 23 0.32
41 3 0.04
42 46 0.63
43 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTAAAGAGCATTAGCGACGTTTTCCCAT
Found at i:652397 original size:21 final size:22
Alignment explanation
Indices: 652364--652407 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
652354 AACGTTTTAG
652364 AATTCAAAATTAAA-CCAAAAA
1 AATTCAAAATTAAAGCCAAAAA
*
652385 AATT-AAAATTTAAAGGCAAAAA
1 AATTCAAAA-TTAAAGCCAAAAA
652407 A
1 A
652408 GGATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (22 bp):
AATTCAAAATTAAAGCCAAAAA
Found at i:655336 original size:6 final size:6
Alignment explanation
Indices: 655325--655369 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
655315 TAGGATGATA
655325 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAA
655370 CATATAACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATCT
Found at i:661391 original size:43 final size:43
Alignment explanation
Indices: 661343--661768 Score: 351
Period size: 43 Copynumber: 10.0 Consensus size: 43
661333 ATGTTAGTGG
* *
661343 CGTTTGTGGGAAAAATGCCGCTAAAGACCATGTTTTATAGCGA
1 CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
*** * *
661386 CGTTTGTGGGAAAAATATCGCTAAAGA-TATGTTGTATAGCGA
1 CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* * * * * * *
661428 CCTTTGTGAGAAAAGCGTCACTAAAGATCATGTTCTATAGCGG
1 CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* * * * *
661471 CATTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGTGG
1 C-GTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* *
661515 TGTTTGT-GGAAAAAGCACCGCTAAAGACCATGTTCTATAGC-A
1 CGTTTGTGGGAAAAA-CGCCGCTAAAGACCATGTTCTATAGCGA
** * * ** ** *
661557 GCGTTTACGTGTAAAGTGTTGCTAAAGGCCATGTTCTATAGC-A
1 -CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* * * *
661600 GCGTTTGTGGAAAAAACGTCGTTAAAGACCATGTTCTATA-CGG
1 -CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* * * * * *
661643 CATTTGTGGTAAAAGCGCTGCTAAAGATCATGTTCTATAGCGG
1 CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* *
661686 CGTTTGTGGAAAAAACGCCGTTAAAGACCATGTTCTATA-CGA
1 CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
* * * * *
661728 CATTTGTGGGAAAAGCGCTGCTAACGATCATGTTCTATAGC
1 CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGC
661769 AATGTTTTCC
Statistics
Matches: 307, Mismatches: 68, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
42 107 0.35
43 159 0.52
44 41 0.13
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
CGTTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTATAGCGA
Found at i:661694 original size:85 final size:86
Alignment explanation
Indices: 661341--661768 Score: 461
Period size: 85 Copynumber: 5.0 Consensus size: 86
661331 TAATGTTAGT
* * * * * ***
661341 GGCGTTTGTGGGAAAAATGCCGCTAAAGACCATGTTTTATAGCGACGTTTGTGGGAAAA-ATATC
1 GGCGTTTGTGGAAAAAACGCCGCTAAAGACCATGTTCTATAGCGGCATTTGTGGGAAAAGCGCT-
*
661405 GCTAAAGAT-ATGTTGTATAGC
65 GCTAAAGATCATGTTCTATAGC
* * * * * *
661426 GACCTTTGT-GAGAAAAGCGTCACTAAAGATCATGTTCTATAGCGGCATTTTGTGGGAAAAGCGC
1 GGCGTTTGTGGA-AAAAACGCCGCTAAAGACCATGTTCTATAGCGGCA-TTTGTGGGAAAAGCGC
* *
661490 CGCTAAAGATCATGTTCTATAGT
64 TGCTAAAGATCATGTTCTATAGC
* * * * * ** * * * *
661513 GGTGTTTGTGGAAAAAGCACCGCTAAAGACCATGTTCTATAGCAGCGTTTACGTGTAAAGTGTTG
1 GGCGTTTGTGGAAAAAACGCCGCTAAAGACCATGTTCTATAGCGGCATTTGTGGGAAAAGCGCTG
**
661578 CTAAAGGCCATGTTCTATAGC
66 CTAAAGATCATGTTCTATAGC
* * * *
661599 AGCGTTTGTGGAAAAAACGTCGTTAAAGACCATGTTCTATA-CGGCATTTGTGGTAAAAGCGCTG
1 GGCGTTTGTGGAAAAAACGCCGCTAAAGACCATGTTCTATAGCGGCATTTGTGGGAAAAGCGCTG
661663 CTAAAGATCATGTTCTATAGC
66 CTAAAGATCATGTTCTATAGC
* *
661684 GGCGTTTGTGGAAAAAACGCCGTTAAAGACCATGTTCTATA-CGACATTTGTGGGAAAAGCGCTG
1 GGCGTTTGTGGAAAAAACGCCGCTAAAGACCATGTTCTATAGCGGCATTTGTGGGAAAAGCGCTG
*
661748 CTAACGATCATGTTCTATAGC
66 CTAAAGATCATGTTCTATAGC
661769 AATGTTTTCC
Statistics
Matches: 280, Mismatches: 58, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
84 1 0.00
85 147 0.52
86 85 0.30
87 45 0.16
88 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (86 bp):
GGCGTTTGTGGAAAAAACGCCGCTAAAGACCATGTTCTATAGCGGCATTTGTGGGAAAAGCGCTG
CTAAAGATCATGTTCTATAGC
Found at i:661791 original size:171 final size:173
Alignment explanation
Indices: 661449--661775 Score: 419
Period size: 171 Copynumber: 1.9 Consensus size: 173
661439 AAAGCGTCAC
* *
661449 TAAAGATCATGTTCTATAGCGGCATTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGTG
1 TAAAGACCATGTTCTATAGCGGCATTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGCG
* * * * * * *
661514 GTGTTTGTGGAAAAAGCACCGCTAAAGACCATGTTCTATAGCAGCGTTTACGTGTAAAGTGTTGC
66 GCGTTTGTGGAAAAAACACCGCTAAAGACCATGTTCTATAGCAGCATTTACGGGAAAAGCGCTGC
* * **
661579 TAAAGGCCATGTTCTATAGCAGCGTTTGTGGAAAAAACGTCGT
131 TAAAGACCATGTTCTATAGCAACGTTTGTCCAAAAAACGTCGT
* *
661622 TAAAGACCATGTTCTATA-CGGCA-TTTGTGGTAAAAGCGCTGCTAAAGATCATGTTCTATAGCG
1 TAAAGACCATGTTCTATAGCGGCATTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGCG
* * **
661685 GCGTTTGTGGAAAAAACGCCGTTAAAGACCATGTTCTATA-C-GACATTTGTGGGAAAAGCGCTG
66 GCGTTTGTGGAAAAAACACCGCTAAAGACCATGTTCTATAGCAG-CATTTACGGGAAAAGCGCTG
* * *
661748 CTAACGATCATGTTCTATAGCAATGTTT
130 CTAAAGACCATGTTCTATAGCAACGTTT
661776 TCCCACATAA
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
169 1 0.01
170 37 0.28
171 73 0.55
172 5 0.04
173 17 0.13
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (173 bp):
TAAAGACCATGTTCTATAGCGGCATTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGCG
GCGTTTGTGGAAAAAACACCGCTAAAGACCATGTTCTATAGCAGCATTTACGGGAAAAGCGCTGC
TAAAGACCATGTTCTATAGCAACGTTTGTCCAAAAAACGTCGT
Found at i:664596 original size:52 final size:52
Alignment explanation
Indices: 664524--664753 Score: 361
Period size: 52 Copynumber: 4.4 Consensus size: 52
664514 CGACGACTAA
* * *
664524 GTGTCATCGTGAGTATATGAATCCTTTACGGATTACGAGGTCTGGTGACTAT
1 GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGGTGGCTAT
* *
664576 GTGTCATCATGAGTGTATGAATCCTTTACGGATTATGAGGTCCGGTGGCTAT
1 GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGGTGGCTAT
* * * *
664628 GTGTCATCATGAGTATATGAGTCCTTTACGGATTATGAGGTCCGATGGTTAT
1 GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGGTGGCTAT
* *
664680 GTGTCATCGTGAGTATATGAATCTTTTATGGATTATGAGGTCCGGTGGCTAT
1 GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGGTGGCTAT
664732 GTGTCATCGTGAGTATATGAAT
1 GTGTCATCGTGAGTATATGAAT
664754 GAAATGAAAT
Statistics
Matches: 163, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 163 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (52 bp):
GTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGGTGGCTAT
Found at i:674223 original size:58 final size:59
Alignment explanation
Indices: 674100--674213 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
674090 TATATTATTA
* * *
674100 TACAAAATTTAACAAATTATTTCTATAAAATACATAAGTTCATATAAAAAATTTATGTG
1 TACAAAATTTAACAAATTATTTCTACAAAACACATAACTTCATATAAAAAATTTATGTG
* *
674159 TACAAAATTTAACAAATTATTTGTACAAATACACATAACTTCATA-AAAAAGTTTA
1 TACAAAATTTAACAAATTATTTCTACAAA-ACACATAACTTCATATAAAAAATTTA
674214 GTTCACAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 36 0.73
60 13 0.27
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (59 bp):
TACAAAATTTAACAAATTATTTCTACAAAACACATAACTTCATATAAAAAATTTATGTG
Found at i:679832 original size:42 final size:42
Alignment explanation
Indices: 679773--679856 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
679763 TAAGGAATAA
679773 GTATAACTTCCATGGGTTATTACCAGATACTATACATCGGAG
1 GTATAACTTCCATGGGTTATTACCAGATACTATACATCGGAG
679815 GTATAACTTCCATGGGTTATTACCAGATACTATACATCGGAG
1 GTATAACTTCCATGGGTTATTACCAGATACTATACATCGGAG
679857 CCATTATTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (42 bp):
GTATAACTTCCATGGGTTATTACCAGATACTATACATCGGAG
Found at i:685976 original size:21 final size:22
Alignment explanation
Indices: 685952--685995 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
685942 CACCATTAAG
685952 CTTTAATTAA-CTATTT-TAAAC
1 CTTT-ATTAACCTATTTATAAAC
685973 CTTTATTAAGCCTATTTATAAAC
1 CTTTATTAA-CCTATTTATAAAC
685996 AATATAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
22 6 0.30
23 5 0.25
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (22 bp):
CTTTATTAACCTATTTATAAAC
Found at i:686037 original size:20 final size:20
Alignment explanation
Indices: 686012--686051 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
686002 AATCATACTA
686012 ATCCACTAACTAATACTCCT
1 ATCCACTAACTAATACTCCT
686032 ATCCACTAACTAATACTCCT
1 ATCCACTAACTAATACTCCT
686052 TTGGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCCACTAACTAATACTCCT
Found at i:690257 original size:26 final size:26
Alignment explanation
Indices: 690228--690382 Score: 184
Period size: 26 Copynumber: 6.0 Consensus size: 26
690218 TTGAAGAAAT
* *
690228 TACTGAACTGGCTCGTAAGAGTGATA
1 TACTAAACTGGCTCGTAAGAGCGATA
*
690254 TACTAAACTGGTTCGTAAGAGCGATA
1 TACTAAACTGGCTCGTAAGAGCGATA
690280 TACTAAACTGGCTCGTAAGAGCGATA
1 TACTAAACTGGCTCGTAAGAGCGATA
*
690306 TACTGAACTGGCTCGTAAGAGCGATA
1 TACTAAACTGGCTCGTAAGAGCGATA
* **** * *
690332 TACTGAAGAAACTTGTAAGAGTGATA
1 TACTAAACTGGCTCGTAAGAGCGATA
* * *
690358 TACTAAATTGGCTCATACGAGCGAT
1 TACTAAACTGGCTCGTAAGAGCGAT
690383 CTCCTAACTG
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 109 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (26 bp):
TACTAAACTGGCTCGTAAGAGCGATA
Found at i:690358 original size:78 final size:78
Alignment explanation
Indices: 690228--690382 Score: 206
Period size: 78 Copynumber: 2.0 Consensus size: 78
690218 TTGAAGAAAT
* ***
690228 TACTGAACTGGCTCGTAAGAGTGATATACTAAACTGGTTCGTAAGAGCGATATACTAAACTGGCT
1 TACTGAACTGGCTCGTAAGAGCGATATACTAAACAACTTCGTAAGAGCGATATACTAAACTGGCT
*
690293 CGTAAGAGCGATA
66 CATAAGAGCGATA
* *
690306 TACTGAACTGGCTCGTAAGAGCGATATACTGAAGA-AACTT-GTAAGAGTGATATACTAAATTGG
1 TACTGAACTGGCTCGTAAGAGCGATATACT-AA-ACAACTTCGTAAGAGCGATATACTAAACTGG
*
690369 CTCATACGAGCGAT
64 CTCATAAGAGCGAT
690383 CTCCTAACTG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 62 0.93
79 4 0.06
80 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (78 bp):
TACTGAACTGGCTCGTAAGAGCGATATACTAAACAACTTCGTAAGAGCGATATACTAAACTGGCT
CATAAGAGCGATA
Found at i:709453 original size:21 final size:21
Alignment explanation
Indices: 709424--709465 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
709414 TTAGACACTT
**
709424 GAAAAAAAATGAGAAAAAGAA
1 GAAAAAAAAAAAGAAAAAGAA
*
709445 GAAAGAAAAAAAGAAAAAGAA
1 GAAAAAAAAAAAGAAAAAGAA
709466 TAAATCGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
GAAAAAAAAAAAGAAAAAGAA
Found at i:709463 original size:14 final size:15
Alignment explanation
Indices: 709437--709465 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
709427 AAAAAATGAG
709437 AAAAAGAAGAAAGAA
1 AAAAAGAAGAAAGAA
709452 AAAAAGAA-AAAGAA
1 AAAAAGAAGAAAGAA
709466 TAAATCGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAAGAA
Found at i:723897 original size:3 final size:3
Alignment explanation
Indices: 723889--723916 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
723879 ATATACAAGG
723889 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
723917 TTATATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:730438 original size:17 final size:17
Alignment explanation
Indices: 730418--730474 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
730408 GCTGTCATCA
730418 CATTTCATTTGTCATTG
1 CATTTCATTTGTCATTG
* **
730435 CATTT-TTCTTGTCACAG
1 CATTTCAT-TTGTCATTG
730452 CATCTTCA-TTGTCATTG
1 CAT-TTCATTTGTCATTG
730469 CATTTC
1 CATTTC
730475 CATATATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
16 4 0.13
17 25 0.81
18 2 0.06
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.49
Consensus pattern (17 bp):
CATTTCATTTGTCATTG
Found at i:731052 original size:15 final size:16
Alignment explanation
Indices: 731028--731057 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
731018 CAGTCACATA
731028 AAAAAGAAAAAGAAAG
1 AAAAAGAAAAAGAAAG
731044 AAAAA-AAAAAGAAA
1 AAAAAGAAAAAGAAA
731058 AACATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:734357 original size:13 final size:12
Alignment explanation
Indices: 734339--734371 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
734329 ATAAATATTT
734339 TTTTTCTTTTCTC
1 TTTTTCTTTT-TC
734352 TTTTTC-TTTTC
1 TTTTTCTTTTTC
734363 TTTTTCTTT
1 TTTTTCTTT
734372 CTTTTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 5 0.26
13 6 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:734359 original size:6 final size:6
Alignment explanation
Indices: 734339--734371 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
734329 ATAAATATTT
734339 TTTTTC TTTTCTC TTTTTC -TTTTC TTTTTC TTT
1 TTTTTC TTTT-TC TTTTTC TTTTTC TTTTTC TTT
734372 CTTTTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Done.