Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, 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: 10072460
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 70252 characters in sequence are not A, C, G, or T
File 2 of 20
Found at i:348372 original size:20 final size:21
Alignment explanation
Indices: 348336--348375 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
348326 AAACACTAAT
*
348336 AAATAACAATCAAATTAAAAG
1 AAATAACAATAAAATTAAAAG
348357 AAATAAC-ATAAAATTAAAA
1 AAATAACAATAAAATTAAAA
348376 TAACTCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAACAATAAAATTAAAAG
Found at i:348396 original size:16 final size:16
Alignment explanation
Indices: 348372--348414 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
348362 ACATAAAATT
*
348372 AAAATAACTCACT-TA
1 AAAATAACTAACTATA
348387 AAAATAAACTAACTATA
1 AAAAT-AACTAACTATA
*
348404 AAAACAACTAA
1 AAAATAACTAA
348415 AAATAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 6 0.25
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:351048 original size:38 final size:38
Alignment explanation
Indices: 350990--351068 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
350980 CTCATCTACG
*
350990 CTCTACTTACGGAGCCGATGCTCATTAAGTTTGTGAGA
1 CTCTACTTACGAAGCCGATGCTCATTAAGTTTGTGAGA
*
351028 CTCTACTTACGAAGCTGATGCTCATTAAGTTTGTGAGA
1 CTCTACTTACGAAGCCGATGCTCATTAAGTTTGTGAGA
351066 CTC
1 CTC
351069 ACTCCTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (38 bp):
CTCTACTTACGAAGCCGATGCTCATTAAGTTTGTGAGA
Found at i:356027 original size:88 final size:88
Alignment explanation
Indices: 355803--356069 Score: 444
Period size: 88 Copynumber: 3.0 Consensus size: 88
355793 TCAGATTTTG
* *
355803 CCCTTTTATCCATCTCTGGCTTAGTGCAACTCTGTGGCTTGACCTAACTCCTCTCTTTATAGTTG
1 CCCTTTT-TCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
**
355868 TAGACAAAGGGCTACCAATAGATA
65 TAGACAAAGGGCTACCAATTTATA
* *
355892 GCCCGTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGAACTAACTCCTCTCTTTATAGTTG
1 -CCCTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTG
*
355957 TAGACAAGGGGCTACCAATTTATA
65 TAGACAAAGGGCTACCAATTTATA
*
355981 CCCTTTTTCCATCTCTGGCTTACTTCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTGT
1 CCCTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTGT
356046 AGACAAAGGGCTACCAATTTATA
66 AGACAAAGGGCTACCAATTTATA
356069 C
1 C
356070 TACTACATCT
Statistics
Matches: 166, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
88 85 0.51
89 75 0.45
90 6 0.04
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (88 bp):
CCCTTTTTCCATCTCTGGCTTACTGCAACTCTGTAGCTTGACCTAACTCCTCTCTTTATAGTTGT
AGACAAAGGGCTACCAATTTATA
Found at i:358394 original size:31 final size:31
Alignment explanation
Indices: 358324--358397 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
358314 AATAATTTAA
* *
358324 ATATTTTAATTATAAATATTACAATTTATATT
1 ATATTTTAA-TATAAATAATACAATTTATATG
*
358356 A-ATTTTTAATATAAATAGATATAATTT-TATG
1 ATA-TTTTAATATAAATA-ATACAATTTATATG
358387 ATATTTTAATA
1 ATATTTTAATA
358398 GCAAATTAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (31 bp):
ATATTTTAATATAAATAATACAATTTATATG
Found at i:360319 original size:635 final size:635
Alignment explanation
Indices: 359064--360319 Score: 1705
Period size: 642 Copynumber: 2.0 Consensus size: 635
359054 TATGAAATAG
*
359064 TACTTATCTAAAAAAGACAATAATCCTAGCAAAGATTATTAGATATATAATAAAATATTAAAAAA
1 TACTTATCCAAAAAAGACAATAATCCTAGCAAAGATTATTAGATATATAATAAAATATTAAAAAA
* * * *
359129 TAAGAGAGCATATAACTTGTACTACTGGCAGATTAAGATAAATAGTTGTAGAATATAAGGTAATA
66 TAAGAGAGCATATAACTTGTACTACTGGCAGATTAAAATAAACAGTTGTAGAATATAAGGCAACA
* * * * **
359194 GTATAACGTAAAGATTCTATCAATATAAAATAGTTACAAATTTTTAGTGGTATCTGTCTTTTATA
131 ATATAACGTAAAGATTCTATCAATATAAAATAGTTACAAATTTCTAATAGTATCTACCTTTTATA
* * *
359259 TATAAAAGAATGGTTAAAGTTTGTCAAATTCAGTTGATTTGTTTATTCAATGATGATTGTGTATT
196 TATAAAAGAATGGTTAAAGGTTGTCAAATT-A-TTGA--TGTTGATTCAATGATGATTGTGTACT
*
359324 ATATATATTGAGAAATGAGTAGATCTTTTTGACTTTTTTACTTTGTTTAATGAATTAGATGGATA
257 ATATATATTGAGAAATGAGTAGATCTTCTTGACTTTTTTACTTTGTTTAATGAATTAGATGGATA
* * * * * * * * * *
359389 TTTATTGGAATTTAAAGTTCATGAATAAAAGAGATGTTTAAATATTATAGATTCATGTTTATGCA
322 TTTATTAGAATTTAAAATACATGAATAAAAAAGATATCTAAATACTATAGATTCAGGTTCATACA
* * * * *
359454 AAATAAAAGGATATAGGTAAAAAATAATATTAAATTGCAATTGATAAGTATTAAATGAATCTATC
387 AAATAAAAGGATATAGATAAAAAATAATATTAAATTACAATTAATAAATATTAAATGAATCTATA
* * * *
359519 CTCTAAGCATTAAAAGTTAGAAATTATTGTTTTTAAATATTTTTATTGAAATAAATAAAATTTTA
452 CTCTAAGCATTAAAAGTTAAAAATTATTGTTTTCAAATATTTTTACTGAAATAAATAAAATTTAA
* **
359584 AAAAAACCCTTCAAATGCAAAAAAAAAAAAATGCAATTTTGACATAAGGTGTAAAAAAAATTAAT
517 AAAAAACCCTTCAAAT---AAAAAAAAAAAACGCAATTTTGACATAAGGTGTAAAAAAAAAAAAT
359649 TCAATTGAGAATAACAGGTGTCAATCAATTGACCCACTTAATTCCTACTTAAAACTA
579 TCAATTGAGAATAACAGGTGTCAATCAATTGACCCACTTAATTCCTACTTAAAACTA
* * * *
359706 TACTTATCCAAAGAAGACAATAATCCTATCAAAGATTATTAGATGTATAATAAAATATTAAGAAA
1 TACTTATCCAAAAAAGACAATAATCCTAGCAAAGATTATTAGATATATAATAAAATATTAAAAAA
* * * * *
359771 TAAGAGAGTATATAACTTGTCCTATTGGCAGATTAAAATAAACAGTTGTATAATATATGGCAACA
66 TAAGAGAGCATATAACTTGTACTACTGGCAGATTAAAATAAACAGTTGTAGAATATAAGGCAACA
* * * * * *
359836 ATGTGATGTAAAGATTTTATCAATATAAAATAGTTACTAATTTCTAATAGTATTTACCTTTTATA
131 ATATAACGTAAAGATTCTATCAATATAAAATAGTTACAAATTTCTAATAGTATCTACCTTTTATA
* *
359901 TATAAAATGAATGGTTAAGGGTTGTCAAA-T-TT-A-GTTGATTCAATGATGATTGTGTGCTATA
196 TATAAAA-GAATGGTTAAAGGTTGTCAAATTATTGATGTTGATTCAATGATGATTGTGTACTATA
* *
359962 TATATTGAGAAATGTGTAGATCTTCTTGACTTTTTTATTTTGTTTAATGAATTAGATGGATATTT
260 TATATTGAGAAATGAGTAGATCTTCTTGACTTTTTTACTTTGTTTAATGAATTAGATGGATATTT
* * *
360027 ATTAGAGTTTAAACATACATGTATAAAAAAGATATCTAAATACTATAGATTCAGGTTCATACAGA
325 ATTAGAATTTAAA-ATACATGAATAAAAAAGATATCTAAATACTATAGATTCAGGTTCATACAAA
* * *
360092 ATAAGAGGATATAGATAAAAAATAATTTTAAATTACAATTAATAAATATTAAATGAATCTATATT
389 ATAAAAGGATATAGATAAAAAATAATATTAAATTACAATTAATAAATATTAAATGAATCTATACT
* * *
360157 CTAAGTATTAAAAGTTAAAAATTATTGTTTTCAAGTATTTTTTACTGAAATAAATGAAATTTAAA
454 CTAAGCATTAAAAGTTAAAAATTATTGTTTTCAAATA-TTTTTACTGAAATAAATAAAATTT--A
* * * *
360222 AAAAAAACCCTTCAAAT-ATAAAAAACAACGTAGTTTTGACATAAGGTG-AACAAAAAAAAAATT
516 AAAAAAACCCTTCAAATAAAAAAAAAAAACGCAATTTTGACATAAGGTGTAA-AAAAAAAAAATT
***
360285 CAATTGAGAATGGTAGGTGTCAATCAATTGACCCA
580 CAATTGAGAATAACAGGTGTCAATCAATTGACCCA
360320 ATCAATTATT
Statistics
Matches: 536, Mismatches: 72, Indels: 19
0.85 0.11 0.03
Matches are distributed among these distances:
634 2 0.00
635 166 0.31
636 130 0.24
637 22 0.04
638 1 0.00
639 19 0.04
642 177 0.33
643 19 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (635 bp):
TACTTATCCAAAAAAGACAATAATCCTAGCAAAGATTATTAGATATATAATAAAATATTAAAAAA
TAAGAGAGCATATAACTTGTACTACTGGCAGATTAAAATAAACAGTTGTAGAATATAAGGCAACA
ATATAACGTAAAGATTCTATCAATATAAAATAGTTACAAATTTCTAATAGTATCTACCTTTTATA
TATAAAAGAATGGTTAAAGGTTGTCAAATTATTGATGTTGATTCAATGATGATTGTGTACTATAT
ATATTGAGAAATGAGTAGATCTTCTTGACTTTTTTACTTTGTTTAATGAATTAGATGGATATTTA
TTAGAATTTAAAATACATGAATAAAAAAGATATCTAAATACTATAGATTCAGGTTCATACAAAAT
AAAAGGATATAGATAAAAAATAATATTAAATTACAATTAATAAATATTAAATGAATCTATACTCT
AAGCATTAAAAGTTAAAAATTATTGTTTTCAAATATTTTTACTGAAATAAATAAAATTTAAAAAA
AACCCTTCAAATAAAAAAAAAAAACGCAATTTTGACATAAGGTGTAAAAAAAAAAAATTCAATTG
AGAATAACAGGTGTCAATCAATTGACCCACTTAATTCCTACTTAAAACTA
Found at i:362143 original size:23 final size:21
Alignment explanation
Indices: 362117--362347 Score: 92
Period size: 22 Copynumber: 10.4 Consensus size: 21
362107 GGCTTTGTGA
362117 GACTGATTTTTAGGACATTGCAT
1 GACT-ATTTTTA-GACATTGCAT
**
362140 GACTGATTTTTAG-CATTGTGT
1 GACT-ATTTTTAGACATTGCAT
* *
362161 GATCGATCTTTA-AGCATTGCAT
1 GA-CTATTTTTAGA-CATTGCAT
*
362183 AACTAGTTTTTAGACATTGCAT
1 GACTA-TTTTTAGACATTGCAT
*
362205 GACTAGTTTTTA-AGCATTGCGT
1 GACTA-TTTTTAGA-CATTGCAT
* ** *
362227 GACTGGTTGATAGAGCATTTGCGT
1 GACT-ATTTTTAGA-CA-TTGCAT
* * **
362251 GACTAATTTTTAAACAATGTGT
1 GACT-ATTTTTAGACATTGCAT
** * *
362273 GACTAGTTGATAGGCATTACAT
1 GACTA-TTTTTAGACATTGCAT
*
362295 GACTAGTTTGTAGGGA-ATTGCAT
1 GACTA-TTTTTA--GACATTGCAT
**
362318 GACTTATTTTTAGACATTGTGT
1 GAC-TATTTTTAGACATTGCAT
362340 GACTATTT
1 GACTATTT
362348 GATAGGGCAT
Statistics
Matches: 158, Mismatches: 36, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
21 25 0.16
22 82 0.52
23 33 0.21
24 18 0.11
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (21 bp):
GACTATTTTTAGACATTGCAT
Found at i:362229 original size:22 final size:22
Alignment explanation
Indices: 362169--362329 Score: 101
Period size: 22 Copynumber: 7.2 Consensus size: 22
362159 GTGATCGATC
*
362169 TTTAAGCATTGCATAACTAGTT
1 TTTAAGCATTGCATGACTAGTT
362191 TTT-AGACATTGCATGACTAGTT
1 TTTAAG-CATTGCATGACTAGTT
* *
362213 TTTAAGCATTGCGTGACTGGTT
1 TTTAAGCATTGCATGACTAGTT
** * *
362235 GATAGAGCATTTGCGTGACTAATT
1 TTTA-AGCA-TTGCATGACTAGTT
* * **
362259 TTTAAACAATGTGTGACTAGTT
1 TTTAAGCATTGCATGACTAGTT
** * *
362281 GATAGGCATTACATGACTAGTT
1 TTTAAGCATTGCATGACTAGTT
* * *
362303 TGTAGGGAATTGCATGACTTA-TT
1 TTTA-AGCATTGCATGAC-TAGTT
362326 TTTA
1 TTTA
362330 GACATTGTGT
Statistics
Matches: 107, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
21 2 0.02
22 64 0.60
23 25 0.23
24 16 0.15
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (22 bp):
TTTAAGCATTGCATGACTAGTT
Found at i:362262 original size:46 final size:46
Alignment explanation
Indices: 362169--362299 Score: 135
Period size: 46 Copynumber: 2.9 Consensus size: 46
362159 GTGATCGATC
* * ** *
362169 TTTAAGCATTGCATAACTAGTTTTTAGA-CA-TTGCATGACTAGTT
1 TTTAAGCATTGCGTGACTAGTTGATAGAGCATTTGCATGACTAATT
* *
362213 TTTAAGCATTGCGTGACTGGTTGATAGAGCATTTGCGTGACTAATT
1 TTTAAGCATTGCGTGACTAGTTGATAGAGCATTTGCATGACTAATT
* * * *
362259 TTTAAACAATGTGTGACTAGTTGATAG-GCA-TTACATGACTA
1 TTTAAGCATTGCGTGACTAGTTGATAGAGCATTTGCATGACTA
362300 GTTTGTAGGG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 32 0.44
45 5 0.07
46 35 0.49
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (46 bp):
TTTAAGCATTGCGTGACTAGTTGATAGAGCATTTGCATGACTAATT
Found at i:362359 original size:23 final size:23
Alignment explanation
Indices: 362268--362382 Score: 78
Period size: 23 Copynumber: 5.1 Consensus size: 23
362258 TTTTAAACAA
*
362268 TGTGTGACTAGTTGATA-GGCAT
1 TGTGTGACTATTTGATAGGGCAT
*** *
362290 TACATGACTAGTTTG-TAGGGAAT
1 TGTGTGACTA-TTTGATAGGGCAT
** * *
362313 TGCATGACTTATTT-TTA-GACAT
1 TGTGTGAC-TATTTGATAGGGCAT
362335 TGTGTGACTATTTGATAGGGCAT
1 TGTGTGACTATTTGATAGGGCAT
*
362358 TGTGTGACTGATTT-TTAGGGCAT
1 TGTGTGACT-ATTTGATAGGGCAT
362381 TG
1 TG
362383 CATAACTAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
21 5 0.07
22 20 0.27
23 42 0.58
24 6 0.08
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTGACTATTTGATAGGGCAT
Found at i:362421 original size:22 final size:22
Alignment explanation
Indices: 362353--362425 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
362343 TATTTGATAG
* * *
362353 GGCATTGTGTGACTGATTTTTA
1 GGCATTGCGTGACTGATATATA
* *
362375 GGGCATTGCATAACT-AGTATATA
1 -GGCATTGCGTGACTGA-TATATA
*
362398 GGCATTGCGTGACTGATATGTA
1 GGCATTGCGTGACTGATATATA
362420 GGCATT
1 GGCATT
362426 ACGTACTTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
22 24 0.60
23 16 0.40
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (22 bp):
GGCATTGCGTGACTGATATATA
Found at i:369148 original size:73 final size:73
Alignment explanation
Indices: 368964--369148 Score: 183
Period size: 73 Copynumber: 2.5 Consensus size: 73
368954 CAAACAGAAT
* * * * *
368964 GCTCTTAGTCGACTAACATTGTTACTTAGTCGATTAAGTCATTTATGTCTCTGAACCCAGTTTCT
1 GCTCTTAGTTGACTAACAATGTCACTTAGTCGATTAAGTCATTTATATCTCTGAACCCAATTTCT
* * *
369029 GGTAGTAG
66 GGCAATAA
* * * * ** * * *
369037 GCTCTTAGTTGACTAATAAT-ACTTCTTAGTCAATTAAGTTGTTTTTATCTCTGAACTCAATTTT
1 GCTCTTAGTTGACTAACAATGTC-ACTTAGTCGATTAAGTCATTTATATCTCTGAACCCAATTTC
369101 TGGCAATAA
65 TGGCAATAA
* *
369110 GCTCTTAGTTGACTAACAATGTCACTTGGTCGACTAAGT
1 GCTCTTAGTTGACTAACAATGTCACTTAGTCGATTAAGT
369149 GTCCTCTGTT
Statistics
Matches: 87, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
73 86 0.99
74 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (73 bp):
GCTCTTAGTTGACTAACAATGTCACTTAGTCGATTAAGTCATTTATATCTCTGAACCCAATTTCT
GGCAATAA
Found at i:371846 original size:21 final size:21
Alignment explanation
Indices: 371807--371848 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
371797 AGGAAACAGA
* * *
371807 ATGCTTTTAGTTAGTTAAGTG
1 ATGCTTTTAATCAGCTAAGTG
371828 ATGCTTTTAATCAGCTAAGTG
1 ATGCTTTTAATCAGCTAAGTG
371849 TGCACTGTTT
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:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (21 bp):
ATGCTTTTAATCAGCTAAGTG
Found at i:377485 original size:73 final size:73
Alignment explanation
Indices: 377349--377502 Score: 175
Period size: 73 Copynumber: 2.1 Consensus size: 73
377339 ATGCTCTTAA
* * * * *
377349 TCGACTAACATTACTACTTAGTCGATTAAGTCGTTTCTGTCTGTGAACCCAATTTTTAGTAGTAG
1 TCGACTAACAATACTACTTAGTCGACTAAGTCATTTCTGTCTCTGAACCCAATTTTGAGTAGTAG
377414 GCTCTCAG
66 GCTCTCAG
* * * * *
377422 TCGATTAACAATACTTCTTAGTCGACTAAGTCATTTCTGTTTCTGAACTCAGTTTTCGA-TAGTA
1 TCGACTAACAATACTACTTAGTCGACTAAGTCATTTCTGTCTCTGAACCCAATTTT-GAGTAGTA
* * *
377486 AGCTTTTAG
65 GGCTCTCAG
377495 TCGACTAA
1 TCGACTAA
377503 TAATGTCACT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
73 65 0.98
74 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (73 bp):
TCGACTAACAATACTACTTAGTCGACTAAGTCATTTCTGTCTCTGAACCCAATTTTGAGTAGTAG
GCTCTCAG
Found at i:385670 original size:34 final size:34
Alignment explanation
Indices: 385618--385682 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
385608 AACGTGTCAC
385618 GCAATACCTAAAAACTAGTCACACAATGCTTAAT
1 GCAATACCTAAAAACTAGTCACACAATGCTTAAT
* * *
385652 GCAATGCCTACAACCTAGTCACACAATGCTT
1 GCAATACCTAAAAACTAGTCACACAATGCTT
385683 TATTCACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (34 bp):
GCAATACCTAAAAACTAGTCACACAATGCTTAAT
Found at i:385715 original size:21 final size:21
Alignment explanation
Indices: 385686--385725 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
385676 AATGCTTTAT
* *
385686 TCACATAATGCTTAAAAACAG
1 TCACATAATACCTAAAAACAG
*
385707 TCACGTAATACCTAAAAAC
1 TCACATAATACCTAAAAAC
385726 CCATCACGCA
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:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (21 bp):
TCACATAATACCTAAAAACAG
Found at i:387892 original size:28 final size:29
Alignment explanation
Indices: 387861--387917 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
387851 AAGTTATACG
387861 TCATGTT-AAAAAAAAAGGTTATTACACA
1 TCATGTTAAAAAAAAAAGGTTATTACACA
*
387889 TCATGTTGAAAAAAAAAATGTTATTACAC
1 TCATGTT-AAAAAAAAAAGGTTATTACAC
387918 GCCATGCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.27
30 19 0.73
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (29 bp):
TCATGTTAAAAAAAAAAGGTTATTACACA
Found at i:387949 original size:126 final size:124
Alignment explanation
Indices: 387801--388038 Score: 271
Period size: 126 Copynumber: 1.9 Consensus size: 124
387791 CATGTTTAAG
* * * * * * *
387801 GTGTTTAACTTTAAGAGCTTATGT-TCTAGTGAAATATAAAGATAAAAACTAAGTTATACGTCAT
1 GTGTTTAACTCTAAGAGCTTATGTCT-TAGTAAAACACAAAGATAAAAACCAAGTTACACGCCAT
* ***
387865 GTTAAAAAAAAAGGTTATTACACATCATGTTGAAAAAAAAAATGTTATTACACGCCATGCTT
65 ATTAAAAAAAAAAACTATTACACATCATGTTG-AAAAAAAAA-GTTATTACACGCCATGCTT
* * * * *
387927 GTGTTTAACTCTAATAGTTTATGTCTTAGTAAAACACAAAGATAGATACCAAGTTACATGCCATA
1 GTGTTTAACTCTAAGAGCTTATGTCTTAGTAAAACACAAAGATAAAAACCAAGTTACACGCCATA
* * *
387992 TTAAAAAAAAAAACTGTTACGCGTCATGTTGAAAAAAAAAGTTATTA
66 TTAAAAAAAAAAACTATTACACATCATGTTGAAAAAAAAAGTTATTA
388039 TACACCATAT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
124 7 0.08
125 9 0.10
126 75 0.82
127 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (124 bp):
GTGTTTAACTCTAAGAGCTTATGTCTTAGTAAAACACAAAGATAAAAACCAAGTTACACGCCATA
TTAAAAAAAAAAACTATTACACATCATGTTGAAAAAAAAAGTTATTACACGCCATGCTT
Found at i:388165 original size:71 final size:71
Alignment explanation
Indices: 388049--388195 Score: 249
Period size: 71 Copynumber: 2.1 Consensus size: 71
388039 TACACCATAT
* * *
388049 TTAAGGTGTTTAACTCCAAAATTTTTTGTCTTAGTGAAATACAAAATTAAAGATTAAGTTACATG
1 TTAAGGTGTTTAACTCCAAAAATTTTTATCTTAGTGAAATACAAAATTAAAGACTAAGTTACATG
*
388114 CCATGA
66 CCAAGA
*
388120 TTAAGGTGTTTAACTCCAAAAATTTTTATCTTAGTGAAATACAAAATTAAAGGCTAAGTTACATG
1 TTAAGGTGTTTAACTCCAAAAATTTTTATCTTAGTGAAATACAAAATTAAAGACTAAGTTACATG
388185 CCAAGA
66 CCAAGA
388191 TTAAG
1 TTAAG
388196 TCATGTCATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (71 bp):
TTAAGGTGTTTAACTCCAAAAATTTTTATCTTAGTGAAATACAAAATTAAAGACTAAGTTACATG
CCAAGA
Found at i:389666 original size:137 final size:135
Alignment explanation
Indices: 389415--389682 Score: 364
Period size: 137 Copynumber: 2.0 Consensus size: 135
389405 AGGCGAAATA
* * *
389415 TTTTCTTTTAAATTTGTCTCGAAGGTTCCAATTTTTAAATACGTGCTTATATATGACTGGATAAT
1 TTTTCTTTTAAATTTGTCTCGAAGGTTCAAATTTTTAAATACCTGCTTATATATGACTAGATAAT
** *
389480 TTAAAGTGAATTTTTTTTGAATAATTAATAACAATAATTATTTTGTTAATTAATCTTAACAAATG
66 TTAAAGTGAAACTCTTTTGAATAATTAATAACAATAATTATTTTGTTAATTAATCTTAACAAATG
389545 CCCCC
131 CCCCC
* *
389550 TTTTTTTTTAAATTTGTCTGGAAGGTTCAAATTTTTGGAAAAGATACCTGC-T-TATATGACTAG
1 TTTTCTTTTAAATTTGTCTCGAAGGTTCAAATTTTT----AA-ATACCTGCTTATATATGACTAG
* *
389613 ATAATTTAAAGT-AAACTCTTTTGAGT-ATTAAATAACAATAATTGTTTTGTTAATTAATCTTAA
61 ATAATTTAAAGTGAAACTCTTTTGAATAATT-AATAACAATAATTATTTTGTTAATTAATCTTAA
389676 CAAATGC
125 CAAATGC
389683 TTGCAATGGT
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
135 33 0.28
136 3 0.03
137 49 0.42
138 22 0.19
139 3 0.03
140 7 0.06
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (135 bp):
TTTTCTTTTAAATTTGTCTCGAAGGTTCAAATTTTTAAATACCTGCTTATATATGACTAGATAAT
TTAAAGTGAAACTCTTTTGAATAATTAATAACAATAATTATTTTGTTAATTAATCTTAACAAATG
CCCCC
Found at i:414345 original size:30 final size:31
Alignment explanation
Indices: 414283--414346 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
414273 TCATCCTTTT
*
414283 CAATTTGATCTTTCAAACAGTTCATAAATTA
1 CAATTTGATCCTTCAAACAGTTCATAAATTA
*
414314 CAATTTGATCCTT-AAACTTGTTCAT-AATTA
1 CAATTTGATCCTTCAAAC-AGTTCATAAATTA
414344 CAA
1 CAA
414347 CTTCACCCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (31 bp):
CAATTTGATCCTTCAAACAGTTCATAAATTA
Found at i:420708 original size:80 final size:80
Alignment explanation
Indices: 420587--420816 Score: 302
Period size: 80 Copynumber: 2.9 Consensus size: 80
420577 CATCATCATA
* * * *
420587 CTTAGCCCATAGTGTACATGACTAT-CTCAACACATATATCTCATGGCATACATTTCATAATCTT
1 CTTAGCCCATAGTGTACAT-AGTATACTTAACACATACATCTCATGGCATACATTTCATAATCTA
*
420651 ATAAATCACTTACATG
65 ATAAATCACTTACACG
* * * * *
420667 TTTAGCCCATAGTGGACATAGTATACTTAACACATACATCTCATGGCATATATTCCATAACCTAA
1 CTTAGCCCATAGTGTACATAGTATACTTAACACATACATCTCATGGCATACATTTCATAATCTAA
420732 TAAATCACTTACACG
66 TAAATCACTTACACG
* * * *
420747 CTTAGTCCATAGTATACAT-GATATACTTAACACATACATCTCATGGCATACATGTCATAATCTC
1 CTTAGCCCATAGTGTACATAG-TATACTTAACACATACATCTCATGGCATACATTTCATAATCTA
420811 ATAAAT
65 ATAAAT
420817 GGAACTCATG
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 5 0.04
80 124 0.96
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (80 bp):
CTTAGCCCATAGTGTACATAGTATACTTAACACATACATCTCATGGCATACATTTCATAATCTAA
TAAATCACTTACACG
Found at i:432472 original size:74 final size:75
Alignment explanation
Indices: 432349--432500 Score: 270
Period size: 74 Copynumber: 2.0 Consensus size: 75
432339 ATTTTAGGTG
*
432349 AAAAGCTTACACACACACACACACGAAAATTCACATAACGATAAGCTTGCATTTGGATTGAAACA
1 AAAAGCTTA-ACACACACACACACGAAAATTCACATAACAATAAGCTTGCATTTGGATTGAAACA
432414 TGAACTTGAAT
65 TGAACTTGAAT
*
432425 AAAAGCTT-ACACACACACACACGAAAATTCACGTAACAATAAGCTTGCATTTGGATTGAAACAT
1 AAAAGCTTAACACACACACACACGAAAATTCACATAACAATAAGCTTGCATTTGGATTGAAACAT
432489 GAACTTGAAT
66 GAACTTGAAT
432499 AA
1 AA
432501 TATTTGTGTA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
74 66 0.89
76 8 0.11
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.22
Consensus pattern (75 bp):
AAAAGCTTAACACACACACACACGAAAATTCACATAACAATAAGCTTGCATTTGGATTGAAACAT
GAACTTGAAT
Found at i:446364 original size:32 final size:32
Alignment explanation
Indices: 446327--446412 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 32
446317 CACTTGATTA
* *
446327 AAATTGTTTAATGAAGTTGTGCCTAATTCATT
1 AAATTGTTTAATCAAGTTGGGCCTAATTCATT
* * *
446359 AAATTGTTTAATTATATTATTGGGCCTAATTGATT
1 AAATTGTTTAATCA-A--GTTGGGCCTAATTCATT
446394 AAATTTGTTTAATCAAGTT
1 AAA-TTGTTTAATCAAGTT
446413 ATTAGGCTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
32 13 0.30
33 3 0.07
35 18 0.41
36 10 0.23
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (32 bp):
AAATTGTTTAATCAAGTTGGGCCTAATTCATT
Found at i:452622 original size:35 final size:35
Alignment explanation
Indices: 452509--452652 Score: 132
Period size: 36 Copynumber: 4.0 Consensus size: 35
452499 GATATTCTTT
*
452509 ACGAATAAAGCCCAGATGTGGGGGAAAGAATACCAC
1 ACGAATAAAG-CCAGATGTGGGAGAAAGAATACCAC
* * *
452545 ATGGATTAAGCCAAGATGTGGGAGAAAGAATACCAC
1 ACGAATAAAGCC-AGATGTGGGAGAAAGAATACCAC
* *
452581 AAGAATAAAGCTCAGATGTGAGGTG-AA-AATACCAC
1 ACGAATAAAGC-CAGATGTG-GGAGAAAGAATACCAC
* * *
452616 ACGAATAAAGTCCAAATATGGG-GATAAGAATCCCAC
1 ACGAATAAAG-CCAGATGTGGGAGA-AAGAATACCAC
452652 A
1 A
452653 TGTGTTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
33 1 0.01
34 2 0.02
35 27 0.30
36 55 0.62
37 4 0.04
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (35 bp):
ACGAATAAAGCCAGATGTGGGAGAAAGAATACCAC
Found at i:452652 original size:71 final size:72
Alignment explanation
Indices: 452511--452652 Score: 166
Period size: 71 Copynumber: 2.0 Consensus size: 72
452501 TATTCTTTAC
* * * *
452511 GAATAAAGCCCAGATGTGGGGGAAAGAATACCACATGGATTAAGCCAAGATGTGGGAGAAAGAAT
1 GAATAAAGCCCAGATGTGGGGGAAAGAATACCACACGAATAAAGCCAAGATATGGGAGAAAGAAT
452576 ACCACAA
66 ACCACAA
* *
452583 GAATAAAGCTCAGATGTGAGGTG-AA-AATACCACACGAATAAAGTCCAA-ATATGGG-GATAAG
1 GAATAAAGCCCAGATGTG-GGGGAAAGAATACCACACGAATAAAG-CCAAGATATGGGAGA-AAG
*
452644 AATCCCACA
63 AATACCACA
452653 TGTGTTAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
70 2 0.03
71 32 0.53
72 23 0.38
73 3 0.05
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (72 bp):
GAATAAAGCCCAGATGTGGGGGAAAGAATACCACACGAATAAAGCCAAGATATGGGAGAAAGAAT
ACCACAA
Found at i:460390 original size:3 final size:3
Alignment explanation
Indices: 460382--460414 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
460372 TAACAAAAGC
*
460382 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
460415 TTTGATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:460823 original size:60 final size:60
Alignment explanation
Indices: 460730--460850 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
460720 TAACATCAAC
460730 ACCTACTCGTGGGAACTCCCCATGCCACCGAATATGAGTCAAGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTCCCCATGCCACCGAATATGAGTCAAGGCTTCAAGTCCCCCTTT
* * * * * *
460790 ACCTACTCGTGGGAACTCCCCTTGCCACTGAATATGAGTTAGGGCTTCATGTCTCCCTTT
1 ACCTACTCGTGGGAACTCCCCATGCCACCGAATATGAGTCAAGGCTTCAAGTCCCCCTTT
460850 A
1 A
460851 TTATCAATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.27
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTCCCCATGCCACCGAATATGAGTCAAGGCTTCAAGTCCCCCTTT
Found at i:471875 original size:14 final size:14
Alignment explanation
Indices: 471856--471882 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
471846 CTAGGAAATC
471856 ATATATATACATAT
1 ATATATATACATAT
471870 ATATATATACATA
1 ATATATATACATA
471883 CACACATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:474423 original size:17 final size:17
Alignment explanation
Indices: 474401--474434 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
474391 CTCATCAAAC
*
474401 CATTTATGATGTACACA
1 CATTTATGACGTACACA
474418 CATTTATGACGTACACA
1 CATTTATGACGTACACA
474435 AAGTCTCAAG
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:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (17 bp):
CATTTATGACGTACACA
Found at i:490819 original size:35 final size:35
Alignment explanation
Indices: 490745--490819 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
490735 CTTGGTATAG
* *
490745 GTTACGCTTGATCCTACAAAAGGCAAGTTGTAAAG
1 GTTACGCTTGATCCTACAAAAGGCAAGTTATAAAA
* *
490780 GTTACGCTTGGTCCTGCAAAAGGCATA-TTATAAAA
1 GTTACGCTTGATCCTACAAAAGGCA-AGTTATAAAA
490815 GTTAC
1 GTTAC
490820 ACCTAACCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (35 bp):
GTTACGCTTGATCCTACAAAAGGCAAGTTATAAAA
Found at i:502878 original size:18 final size:18
Alignment explanation
Indices: 502839--502881 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
502829 AAAAGACAAT
* *
502839 TTGTTGATTGTTTGTTGC
1 TTGTTGATTGGTTGTTGA
502857 TTGTTGATTGGTTGATT-A
1 TTGTTGATTGGTTG-TTGA
502875 TTGTTGA
1 TTGTTGA
502882 AATAAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.12, C:0.02, G:0.28, T:0.58
Consensus pattern (18 bp):
TTGTTGATTGGTTGTTGA
Found at i:525544 original size:17 final size:17
Alignment explanation
Indices: 525522--525562 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
525512 AGACAAATGG
525522 AATATTTTGA-AATAAAA
1 AATATTTT-ATAATAAAA
525539 AATATTTTATTAATAAAA
1 AATATTTTA-TAATAAAA
525557 AATATT
1 AATATT
525563 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 8 0.36
18 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATTTTATAATAAAA
Found at i:527557 original size:18 final size:18
Alignment explanation
Indices: 527530--527584 Score: 76
Period size: 19 Copynumber: 3.1 Consensus size: 18
527520 AAAATATTAA
*
527530 TATTTTTAAATATTATTT
1 TATTTATAAATATTATTT
527548 TATTTATAAAATATTATTT
1 TATTTAT-AAATATTATTT
*
527567 TATTTAAAAATATT-TTT
1 TATTTATAAATATTATTT
527584 T
1 T
527585 TTACTTGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 4 0.12
18 13 0.38
19 17 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATAAATATTATTT
Found at i:527573 original size:35 final size:34
Alignment explanation
Indices: 527518--527587 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
527508 GCACTAATAA
*
527518 ATAAAATATTAATATTTTTAAATATTATTTTATTT
1 ATAAAATATTAATATTTTTAAA-AATATTTTATTT
* *
527553 ATAAAATATT-ATTTTATTTAAAAATATTTTTTTT
1 ATAAAATATTAATATT-TTTAAAAATATTTTATTT
527587 A
1 A
527588 CTTGTTACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
ATAAAATATTAATATTTTTAAAAATATTTTATTT
Found at i:527580 original size:15 final size:17
Alignment explanation
Indices: 527519--527584 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
527509 CACTAATAAA
*
527519 TAAAATATTAATATT-TT
1 TAAAATATT-ATTTTATT
527536 T-AAATATTATTTTATTT
1 TAAAATATTATTTTA-TT
527553 ATAAAATATTATTTTATT
1 -TAAAATATTATTTTATT
527571 TAAAAATATT-TTTT
1 T-AAAATATTATTTT
527585 TTACTTGTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
15 4 0.09
16 7 0.16
17 8 0.19
18 11 0.26
19 13 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAAATATTATTTTATT
Found at i:527587 original size:19 final size:19
Alignment explanation
Indices: 527537--527584 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
527527 TAATATTTTT
527537 AAATATTATTTTATTTATA
1 AAATATTATTTTATTTATA
527556 AAATATTATTTTATTTA-A
1 AAATATTATTTTATTTATA
527574 AAATATT-TTTT
1 AAATATTATTTT
527585 TTACTTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.14
18 8 0.28
19 17 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AAATATTATTTTATTTATA
Found at i:556433 original size:26 final size:25
Alignment explanation
Indices: 556404--556463 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
556394 ATATAAAGGC
*
556404 ATATATATATATATAATCATAAAAAA
1 ATATATATATATATAA-CACAAAAAA
* * *
556430 ATATATAAATCTATAAGACAAAAAA
1 ATATATATATATATAACACAAAAAA
*
556455 ACATATATA
1 ATATATATA
556464 CACAAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (25 bp):
ATATATATATATATAACACAAAAAA
Found at i:557216 original size:16 final size:17
Alignment explanation
Indices: 557190--557222 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
557180 TTAATTTACT
557190 AATAGAATAAAAGATAA
1 AATAGAATAAAAGATAA
*
557207 AATA-AATAAATGATAA
1 AATAGAATAAAAGATAA
557223 CTAAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
AATAGAATAAAAGATAA
Found at i:572813 original size:10 final size:10
Alignment explanation
Indices: 572779--572821 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
572769 AATATAACAC
572779 TAATAAATAA
1 TAATAAATAA
*
572789 TATTTTAAATAA
1 TA--ATAAATAA
*
572801 TAATAATTAA
1 TAATAAATAA
572811 TAATAAATAA
1 TAATAAATAA
572821 T
1 T
572822 TTATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 18 0.67
12 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATAAATAA
Found at i:572857 original size:31 final size:31
Alignment explanation
Indices: 572809--572890 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 31
572799 AATAATAATT
* *
572809 AATAATAAATAATTTATTTAATTTAAAATAAA-A
1 AATAAGAAA-AATTTATTTAA-ATAAAA-AAAGA
572842 AATAA-AAAAATTTA-TTAAATAAAAAAAGA
1 AATAAGAAAAATTTATTTAAATAAAAAAAGA
*
572871 AA-AAGAAAATTTTATTTAAA
1 AATAAGAAAAATTTATTTAAA
572891 AGTTTTTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
28 5 0.11
29 16 0.36
30 9 0.20
31 6 0.14
32 3 0.07
33 5 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (31 bp):
AATAAGAAAAATTTATTTAAATAAAAAAAGA
Found at i:578322 original size:41 final size:41
Alignment explanation
Indices: 578276--578359 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
578266 TGTAAAAGAA
578276 TTAGGATCATTCTATCAACAGTTTGATGTTAGATATGAACC
1 TTAGGATCATTCTATCAACAGTTTGATGTTAGATATGAACC
578317 TTAGGATCATTCTATCAACAGTTTGATGTTAGATATGAACC
1 TTAGGATCATTCTATCAACAGTTTGATGTTAGATATGAACC
578358 TT
1 TT
578360 CTTCAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (41 bp):
TTAGGATCATTCTATCAACAGTTTGATGTTAGATATGAACC
Found at i:579194 original size:23 final size:23
Alignment explanation
Indices: 579150--579194 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
579140 GATATCTAAT
*
579150 AAAAATTACAATTTTAATCAATG
1 AAAAATTACAATTTAAATCAATG
*
579173 AAAAATTTCAA-TTAAATACAAT
1 AAAAATTACAATTTAAAT-CAAT
579195 AGCACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATTACAATTTAAATCAATG
Found at i:583369 original size:10 final size:11
Alignment explanation
Indices: 583351--583380 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
583341 ATTTAAACCA
583351 TTTCAAAAAAT
1 TTTCAAAAAAT
583362 TTTCAAAAAAT
1 TTTCAAAAAAT
*
583373 TTTTAAAA
1 TTTCAAAA
583381 CATAGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTCAAAAAAT
Found at i:586514 original size:727 final size:725
Alignment explanation
Indices: 585457--586816 Score: 2224
Period size: 727 Copynumber: 1.9 Consensus size: 725
585447 GTGCCGGTTT
* * * * * * *
585457 TGTTTGTTATTGAAAAGAAATGTGTTGGACCATGCCTGTTGTTAATCCTAGTAATTAAAAATGGA
1 TGTTTGTTATTAAAAAGAAATGTGTTGAACCATACCTATTGGTAATCCCAGTAATTAAAAACGGA
* * *
585522 TCAATGGTCAATTATTTTTGAGAAATTATTTAGAAATTTTTTGAAATGATTTAAATTTTCTCTCC
66 GCAACGGCCAATTATTTTTGAGAAATTATTTAGAAATTTTTTGAAATGATTTAAATTTTCTCTCC
* * * *
585587 AGTCTATAGGCCTTAAAACTTTTAAAATTTGGACCGTAGAATGGGTAATCAGAGTAGAATCGTTT
131 AATCTATAGGCCTTAAAACTTTTAAAATTTGGACCATAGAATAGGTAATCAGAGTAGAATCGTTC
* *
585652 TGGTCTGTATAATGTTTGAAAAGAACAGATCCTGTTTGGATCAAAATATTTTGATAATAATTTTG
196 TAGTCTGTATAATGTTTGAAAAGAACAGATCCTGTTTGAATCAAAATATTTTGATAATAATTTTG
* *
585717 AGGCTTCTATAGGTCCCATGGCTTGTAATGCCATCCTTGGAAAGCTTTTCTAACAACTATTTGGG
261 AGGCTTCTATAGGTCCCATGGCTTGTAATGCCATCCTTGGAAAGCCTTTCTAACAACTATTTGAG
* * *
585782 GGTATTCATGGTAAAATCTTTCTTCTATTAATAAGACATTTTGAACATTTTTCTTTCGAAAATAT
326 GGTATTCATGGTAAAACCCTTCTTC-ATTAA-AAGACATTTTGAACATTTTCCTTTCGAAAATAT
* * *
585847 TGGTTTTGGCTTTTTTGGGAGGTTGAAGATTGGGTCTGTGTTTGGGAAAGTGTTTGAGTAGGGAA
389 TGGTTTTGGCTTTATTGGGAGGTTGAAGATTGGGACTGTGTTTGGGAAAGGGTTTGAGTAGGGAA
*
585912 AATATTTTGTAAGTCTTTTGGTTTTGGTTTGTAGAGGACTATTTCCTTTCCTTTGGACTTTTGGA
454 AATATTTTGTAAGTCTTTTGGTTTTGGTTAGTAGAGGACTATTTCCTTTCCTTTGGACTTTTGGA
*
585977 GTGCTGAAATGGCAATCTGTTTGATA-AGAGTGTCTTTCTCAGTTTGTGAGGCTAATGCAAGTGC
519 GTGCTGAAATGGCAATCTGTTTGATAGA-AGTGTCTTTCTCAGTTTGCGAGGCTAATGCAAGTGC
*
586041 TACCTCAAGTGATTTTGAGAGGGATTCTATCCATTTCTAGATTTGAGAATCAAAATTGAAAAACT
583 TACCTCAAGTGATTTTGAGAGGGAGTCTATCCATTTCTAGATTTGAGAATCAAAATTGAAAAACT
586106 TCAAAATCTTTTGATTTCATGACAATATGAATGGAATGTAATGCAAAGATCTATTCAAAATTGAT
648 TCAAAATCTTTTGATTTCATGACAATATGAATGGAATGTAATGCAAAGATCTATTCAAAATTGAT
586171 TAGAGTTTTGAGA
713 TAGAGTTTTGAGA
*
586184 TGTTTGTTATTAAAAAGAAATGTGTTGAACCATACCTATTGGTAATCCCAGTAATTAAAAACGGG
1 TGTTTGTTATTAAAAAGAAATGTGTTGAACCATACCTATTGGTAATCCCAGTAATTAAAAACGGA
*
586249 GCAACGGCCAATTATTTTTGAGAAATTATTT-GAAACTTTTTTGAAATGGTTTAAATTTTCTC-C
66 GCAACGGCCAATTATTTTTGAGAAATTATTTAGAAA-TTTTTTGAAATGATTTAAATTTTCTCTC
* * * *
586312 TCAATCTTTAGGCGTTAAAACTTTTAAAATTTGGGCCATAGAATAGGTAATCAGAGTAGGATCGT
130 -CAATCTATAGGCCTTAAAACTTTTAAAATTTGGACCATAGAATAGGTAATCAGAGTAGAATCGT
*
586377 TCTAGTCTGTATAGTGTTTG-AAAGAAACAGATCCTGTTTGAATCAAAATATTTTGATAATAATT
194 TCTAGTCTGTATAATGTTTGAAAAG-AACAGATCCTGTTTGAATCAAAATATTTTGATAATAATT
* * *
586441 TTGAGGCTTCTGTAGGTCCTATGGCTTGTAATGCCATCCTTGGAAAGCCTTTCTAATAACTATTT
258 TTGAGGCTTCTATAGGTCCCATGGCTTGTAATGCCATCCTTGGAAAGCCTTTCTAACAACTATTT
* * *
586506 GAGGGTATTTATGGTAAAACCCTTCTTCATTAAAAGACATTTTGAACATTTTCCTTTTGGAAATA
323 GAGGGTATTCATGGTAAAACCCTTCTTCATTAAAAGACATTTTGAACATTTTCCTTTCGAAAATA
586571 TTGGTTTTGGCTTTATTGGGAGGTTGAAGATTGGGACTGTGTTTGGGAAAGGGTTTGAGTAGGGA
388 TTGGTTTTGGCTTTATTGGGAGGTTGAAGATTGGGACTGTGTTTGGGAAAGGGTTTGAGTAGGGA
* *
586636 AAATATTTTGTAAGTCTTTTGGTTTTGGTTAGTGGAGGACTATTTTCTTTCCTTTGGACTTTTGG
453 AAATATTTTGTAAGTCTTTTGGTTTTGGTTAGTAGAGGACTATTTCCTTTCCTTTGGACTTTTGG
* *
586701 AGTGCTGAAATGGCAATCTGTTTGATGGAAGTGTCTTTCTCTGTTTGCGAGGCTAATGCAAGTGC
518 AGTGCTGAAATGGCAATCTGTTTGATAGAAGTGTCTTTCTCAGTTTGCGAGGCTAATGCAAGTGC
**
586766 TACCTCGGGTGATTTTGAGAGGGAGTCTATCCATTTCTAGATTTGAGAATC
583 TACCTCAAGTGATTTTGAGAGGGAGTCTATCCATTTCTAGATTTGAGAATC
586817 TATTTCATTT
Statistics
Matches: 583, Mismatches: 46, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
725 261 0.45
726 15 0.03
727 307 0.53
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (725 bp):
TGTTTGTTATTAAAAAGAAATGTGTTGAACCATACCTATTGGTAATCCCAGTAATTAAAAACGGA
GCAACGGCCAATTATTTTTGAGAAATTATTTAGAAATTTTTTGAAATGATTTAAATTTTCTCTCC
AATCTATAGGCCTTAAAACTTTTAAAATTTGGACCATAGAATAGGTAATCAGAGTAGAATCGTTC
TAGTCTGTATAATGTTTGAAAAGAACAGATCCTGTTTGAATCAAAATATTTTGATAATAATTTTG
AGGCTTCTATAGGTCCCATGGCTTGTAATGCCATCCTTGGAAAGCCTTTCTAACAACTATTTGAG
GGTATTCATGGTAAAACCCTTCTTCATTAAAAGACATTTTGAACATTTTCCTTTCGAAAATATTG
GTTTTGGCTTTATTGGGAGGTTGAAGATTGGGACTGTGTTTGGGAAAGGGTTTGAGTAGGGAAAA
TATTTTGTAAGTCTTTTGGTTTTGGTTAGTAGAGGACTATTTCCTTTCCTTTGGACTTTTGGAGT
GCTGAAATGGCAATCTGTTTGATAGAAGTGTCTTTCTCAGTTTGCGAGGCTAATGCAAGTGCTAC
CTCAAGTGATTTTGAGAGGGAGTCTATCCATTTCTAGATTTGAGAATCAAAATTGAAAAACTTCA
AAATCTTTTGATTTCATGACAATATGAATGGAATGTAATGCAAAGATCTATTCAAAATTGATTAG
AGTTTTGAGA
Found at i:595103 original size:74 final size:74
Alignment explanation
Indices: 594983--595179 Score: 274
Period size: 74 Copynumber: 2.7 Consensus size: 74
594973 TAGACAGCGT
* * * * * *
594983 GCTCTTAGTTGACT-AGCATACTTTTTAGTCGATTAAGTCTTCTTTGTCTTATAATTGAATTCTT
1 GCTCTTAGTTGACTAACCATGCTTCTTAGTCAATTAAGTCTTCTTTGTCTTATAATTGAAGTCTC
*
595047 TGGTAGTGA
66 TGGCAGTGA
*
595056 GCTCTTAGTTGACTAACCATGCTTCTTAGTCAATTAAGT-TCTCTTTGTCTTGTAATTGAAGTCT
1 GCTCTTAGTTGACTAACCATGCTTCTTAGTCAATTAAGTCT-TCTTTGTCTTATAATTGAAGTCT
595120 CTGGCAGTGA
65 CTGGCAGTGA
*
595130 GCTTTTAGTTGACTAACCATGCTTCTTAGTCGAA-TAAGTCTTCTTTGTCT
1 GCTCTTAGTTGACTAACCATGCTTCTTAGTC-AATTAAGTCTTCTTTGTCT
595180 CTAAACCGGC
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
73 15 0.14
74 93 0.84
75 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (74 bp):
GCTCTTAGTTGACTAACCATGCTTCTTAGTCAATTAAGTCTTCTTTGTCTTATAATTGAAGTCTC
TGGCAGTGA
Found at i:595894 original size:27 final size:27
Alignment explanation
Indices: 595863--595921 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
595853 TAACAGAATG
*
595863 TCATAAACAAC-TAAACGTCATCATAA
1 TCATAAACAACTTAAACATCATCATAA
*
595889 TTCATAAACAACTTAAGCATCATCATAA
1 -TCATAAACAACTTAAACATCATCATAA
595917 TCATA
1 TCATA
595922 CTCTTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.27
Consensus pattern (27 bp):
TCATAAACAACTTAAACATCATCATAA
Found at i:599614 original size:10 final size:10
Alignment explanation
Indices: 599591--599626 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
599581 CTTTTCTTCC
599591 TTTCTTTTGCT
1 TTTCTTTTG-T
599602 TTTCTTTTGT
1 TTTCTTTTGT
599612 TTTCTTTT-T
1 TTTCTTTTGT
599621 TTTCTT
1 TTTCTT
599627 CTTTAAGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.28
10 9 0.36
11 9 0.36
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (10 bp):
TTTCTTTTGT
Found at i:601199 original size:74 final size:74
Alignment explanation
Indices: 601073--601260 Score: 229
Period size: 74 Copynumber: 2.6 Consensus size: 74
601063 CAAACAAAGT
* *
601073 GCTCTTAGTTGACTAA-CATACTTTTTAGTCAATTAAGTCTTCTCTGTCTTGTAATTGAATTCTC
1 GCTCTTAGTTGACTAACCATACTTTTTAGTCAATTAAGTCTTCTCTGTCTTGTAATTAAAGTCTC
* *
601137 TGGCAGTAA
66 TAGCAATAA
* * * * *
601146 GCTCTTTGTTAACTAACCATGCTTTTTAGT-AGATTAAGT-TCTCTTTGTTTTGTAATTAAAGTC
1 GCTCTTAGTTGACTAACCATACTTTTTAGTCA-ATTAAGTCT-TCTCTGTCTTGTAATTAAAGTC
*
601209 TCTAGCAATGA
64 TCTAGCAATAA
* *
601220 GCTCTTAGTTGACTAACCATACTTCTTAGTCAACTAAGTCT
1 GCTCTTAGTTGACTAACCATACTTTTTAGTCAATTAAGTCT
601261 AATTTGTCTC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
73 16 0.17
74 77 0.81
75 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (74 bp):
GCTCTTAGTTGACTAACCATACTTTTTAGTCAATTAAGTCTTCTCTGTCTTGTAATTAAAGTCTC
TAGCAATAA
Found at i:602035 original size:81 final size:81
Alignment explanation
Indices: 601917--602075 Score: 282
Period size: 81 Copynumber: 2.0 Consensus size: 81
601907 AATAGTTGCA
* *
601917 ATATTATTTGTCATAAGACTAGATATGTCCTTATGCATGTGCATATAGTTATATGCGTTATATTA
1 ATATTATTTGTAATAAGACTAGATATGTCCTTATGCATATGCATATAGTTATATGCGTTATATTA
601982 TGCTATGATAGCTATG
66 TGCTATGATAGCTATG
* *
601998 ATATTATTTGTAATAAGACTAGATATGTCCTTATGCATATGTATATAGTTATATGTGTTATATTA
1 ATATTATTTGTAATAAGACTAGATATGTCCTTATGCATATGCATATAGTTATATGCGTTATATTA
602063 TGCTATGATAGCT
66 TGCTATGATAGCT
602076 TCCCACTCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (81 bp):
ATATTATTTGTAATAAGACTAGATATGTCCTTATGCATATGCATATAGTTATATGCGTTATATTA
TGCTATGATAGCTATG
Found at i:605137 original size:45 final size:45
Alignment explanation
Indices: 604737--605138 Score: 220
Period size: 45 Copynumber: 9.0 Consensus size: 45
604727 TATGAAAAAT
** * * * *
604737 TATTATTAAATTGCAATAAAAGATACTTTTGTCTTTTGACA-AAA
1 TATTATTAAATTATAGTAAAAGATAATTTTATCTTTTGATATAAA
* * * *
604781 -ATTATTAGATTATAATAAAAAGGTATTTTCTAT-TTTT-ATGA-AAA
1 TATTATTAAATTATAGT-AAAAGATAATTT-TATCTTTTGAT-ATAAA
** * * * *
604825 TATTATTAAATTATAGTCCAGGATAATTTCAACTTTTGACATAAA
1 TATTATTAAATTATAGTAAAAGATAATTTTATCTTTTGATATAAA
* * * *
604870 TATTATTAAATTATAGTAAAAGGTAATTTTAGCTTTTGGTAT-AG
1 TATTATTAAATTATAGTAAAAGATAATTTTATCTTTTGATATAAA
* * *
604914 TTTTACTT-AATTATAAT-AAAGAGT-ATTTCTATCTTTTGATAAAAA
1 TATTA-TTAAATTATAGTAAAAGA-TAATTT-TATCTTTTGATATAAA
*** * * * *
604959 TCAACCTTAAATTAT-GATAAAAGGTATTTTTTTC-TTTAATA-AAA
1 T-ATTATTAAATTATAG-TAAAAGATAATTTTATCTTTTGATATAAA
* * * * * *
605003 AATTATTAGATTATATTAAACGATATTTTGTAT-TTTTTATGAT-AA
1 TATTATTAAATTATAGTAAAAGATAATTT-TATCTTTTGAT-ATAAA
* * * * *
605048 TATTATTAAATTATAGTCAAGGATAATTTCATCTTTGGACATAAA
1 TATTATTAAATTATAGTAAAAGATAATTTTATCTTTTGATATAAA
* * *
605093 TATTATTAAATTATAGGAAATGATAATTTTATCTTTTGGTATAAA
1 TATTATTAAATTATAGTAAAAGATAATTTTATCTTTTGATATAAA
605138 T
1 T
605139 TGCACTAAAT
Statistics
Matches: 266, Mismatches: 69, Indels: 45
0.70 0.18 0.12
Matches are distributed among these distances:
43 43 0.16
44 68 0.26
45 137 0.52
46 11 0.04
47 7 0.03
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.45
Consensus pattern (45 bp):
TATTATTAAATTATAGTAAAAGATAATTTTATCTTTTGATATAAA
Found at i:606115 original size:4 final size:4
Alignment explanation
Indices: 606101--606131 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
606091 GACCAGTAAC
606101 CTTT CCTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CT
606132 CCTTTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:611690 original size:25 final size:26
Alignment explanation
Indices: 611593--611692 Score: 66
Period size: 25 Copynumber: 3.9 Consensus size: 26
611583 TATTTTTATT
* * *
611593 ATAATTTTACCACCTGAAGTGAAT-G
1 ATAATTTTACCATCAGAAGTGGATAG
* * * *
611618 AATCATTTTATCATCAGAACT-TA-AG
1 -ATAATTTTACCATCAGAAGTGGATAG
*
611643 AATAATTTTACCATTAGAAGTGGATAG
1 -ATAATTTTACCATCAGAAGTGGATAG
611670 ATAA-TTTACCATCA-AACGTGGAT
1 ATAATTTTACCATCAGAA-GTGGAT
611693 GGATGCCTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
24 2 0.03
25 34 0.59
26 20 0.34
27 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (26 bp):
ATAATTTTACCATCAGAAGTGGATAG
Found at i:615454 original size:35 final size:35
Alignment explanation
Indices: 615415--615481 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
615405 GTTAGTTTTT
* *
615415 AGGTTTTGGTTGATCCCGGGAAAAACCATTGTTGA
1 AGGTTGTGGTTGAGCCCGGGAAAAACCATTGTTGA
* * *
615450 AGGTTGTGGTTGAGCCTGTGAAAAGCCATTGT
1 AGGTTGTGGTTGAGCCCGGGAAAAACCATTGT
615482 AAAAGCTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (35 bp):
AGGTTGTGGTTGAGCCCGGGAAAAACCATTGTTGA
Found at i:624841 original size:35 final size:34
Alignment explanation
Indices: 624743--624841 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 34
624733 ACTTTTCATA
* *
624743 GGCTCAGCCACAACCTTTAATAATGATTTTTCACG
1 GGCTCAGCCAAAACCTTTAA-AATGGTTTTTCACG
* * * *
624778 GGATCAACCAAAACC--CAAAATGGCTTTTCACG
1 GGCTCAGCCAAAACCTTTAAAATGGTTTTTCACG
*
624810 GGCTCAGCCATAACCTTTAACAATGGTTTTTC
1 GGCTCAGCCAAAACCTTTAA-AATGGTTTTTC
624842 CCAAGATCAA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
32 24 0.48
33 2 0.04
34 2 0.04
35 22 0.44
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (34 bp):
GGCTCAGCCAAAACCTTTAAAATGGTTTTTCACG
Found at i:627634 original size:10 final size:10
Alignment explanation
Indices: 627621--627654 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
627611 GGCATTATTC
627621 TCAATTATCA
1 TCAATTATCA
* *
627631 TCAACTATTA
1 TCAATTATCA
627641 TCAATTATCA
1 TCAATTATCA
627651 TCAA
1 TCAA
627655 GCATTCATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (10 bp):
TCAATTATCA
Found at i:627644 original size:20 final size:20
Alignment explanation
Indices: 627616--627654 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
627606 CTTCAGGCAT
*
627616 TATTCTCAATTATCATCAAC
1 TATTATCAATTATCATCAAC
627636 TATTATCAATTATCATCAA
1 TATTATCAATTATCATCAA
627655 GCATTCATTA
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:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTATCAATTATCATCAAC
Found at i:634781 original size:20 final size:19
Alignment explanation
Indices: 634743--634785 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
634733 TCAAATGCTA
634743 AATTCTCAAAAACATCATG
1 AATTCTCAAAAACATCATG
*
634762 CAATTCATCAAAAGCA-CATG
1 -AATTC-TCAAAAACATCATG
634782 AATT
1 AATT
634786 AAGTTCACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 9 0.43
21 8 0.38
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.26
Consensus pattern (19 bp):
AATTCTCAAAAACATCATG
Found at i:635748 original size:32 final size:33
Alignment explanation
Indices: 635711--635805 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 33
635701 TAACAACGAT
*
635711 TTTTCACAAGATTAACCAAAACTCAAAATG-GC
1 TTTTCACAAGATCAACCAAAACTCAAAATGAGC
* * * **
635743 TTTTCACAAGCTCAACCACAACATTTAACAATGATT
1 TTTTCACAAGATCAACCA-AA-ACTCAA-AATGAGC
635779 TTTTC-CAAGATCAACCAAAACTCAAAA
1 TTTTCACAAGATCAACCAAAACTCAAAA
635806 CTAACTTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
32 18 0.36
33 6 0.12
34 6 0.12
35 15 0.30
36 5 0.10
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.26
Consensus pattern (33 bp):
TTTTCACAAGATCAACCAAAACTCAAAATGAGC
Found at i:635788 original size:67 final size:67
Alignment explanation
Indices: 635675--635805 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
635665 TTTACACTAA
* * * *
635675 CTTTTCATAAGCTCAGCCACAACCTTTAACAACGATTTTTCACAAGATTAACCAAAACTCAAAAT
1 CTTTTCACAAGCTCAACCACAACATTTAACAACGATTTTTCACAAGATCAACCAAAACTCAAAAT
635740 GG
66 GG
*
635742 CTTTTCACAAGCTCAACCACAACATTTAACAATGATTTTTTC-CAAGATCAACCAAAACTCAAAA
1 CTTTTCACAAGCTCAACCACAACATTTAACAACGA-TTTTTCACAAGATCAACCAAAACTCAAAA
635806 CTAACTTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 52 0.90
68 6 0.10
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (67 bp):
CTTTTCACAAGCTCAACCACAACATTTAACAACGATTTTTCACAAGATCAACCAAAACTCAAAAT
GG
Found at i:638507 original size:34 final size:34
Alignment explanation
Indices: 638469--638740 Score: 253
Period size: 34 Copynumber: 8.0 Consensus size: 34
638459 AATAAGGCTA
* *
638469 CATAACATAAAACTCTTCATCTTGAACGAGGTTT
1 CATAACTTAAAACTCTTCATCTTGAATGAGGTTT
* * ** *
638503 CATAACTTAAAACGTCTT-ATCTTAAATAAGACTA
1 CATAACTTAAAAC-TCTTCATCTTGAATGAGGTTT
* * *
638537 CATAACTTAAAACTCCTCATCTTGAATGAGATTC
1 CATAACTTAAAACTCTTCATCTTGAATGAGGTTT
* * *
638571 CGTAACTTAAAACTCCTT-ATCTTGAATGAGGCTA
1 CATAACTTAAAACT-CTTCATCTTGAATGAGGTTT
* ** **
638605 CGTAACTTAAAACTCCCCATCTTGAATGATATTT
1 CATAACTTAAAACTCTTCATCTTGAATGAGGTTT
* * *
638639 TATAACTTAAAACTCCTCATCTTGAATGAGGCTAT
1 CATAACTTAAAACTCTTCATCTTGAATGAGG-TTT
* * *
638674 -GTAACTTAAAACTCTTTATCTTGAATGAAGTTT
1 CATAACTTAAAACTCTTCATCTTGAATGAGGTTT
* * *
638707 CGTGACTTAAAACTCTTCATCTTGAATGAAGTTT
1 CATAACTTAAAACTCTTCATCTTGAATGAGGTTT
638741 TGCAATTTTA
Statistics
Matches: 196, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
33 6 0.03
34 182 0.93
35 8 0.04
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (34 bp):
CATAACTTAAAACTCTTCATCTTGAATGAGGTTT
Found at i:638652 original size:102 final size:102
Alignment explanation
Indices: 638538--638735 Score: 297
Period size: 102 Copynumber: 1.9 Consensus size: 102
638528 ATAAGACTAC
* * *
638538 ATAACTTAAAACTCCTCATCTTGAATGAGATTCCGTAACTTAAAACTCCTTATCTTGAATGAGGC
1 ATAACTTAAAACTCCTCATCTTGAATGAGACTACGTAACTTAAAACTCCTTATCTTGAATGAAGC
638603 TACGTAACTTAAAACTCCCCATCTTGAATGATATTTT
66 TACGTAACTTAAAACTCCCCATCTTGAATGATATTTT
* * * *
638640 ATAACTTAAAACTCCTCATCTTGAATGAGGCTATGTAACTTAAAACTCTTTATCTTGAATGAAGT
1 ATAACTTAAAACTCCTCATCTTGAATGAGACTACGTAACTTAAAACTCCTTATCTTGAATGAAGC
* * **
638705 TTCGTGACTTAAAACTCTTCATCTTGAATGA
66 TACGTAACTTAAAACTCCCCATCTTGAATGA
638736 AGTTTTGCAA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (102 bp):
ATAACTTAAAACTCCTCATCTTGAATGAGACTACGTAACTTAAAACTCCTTATCTTGAATGAAGC
TACGTAACTTAAAACTCCCCATCTTGAATGATATTTT
Found at i:638730 original size:68 final size:67
Alignment explanation
Indices: 638463--638735 Score: 307
Period size: 68 Copynumber: 4.0 Consensus size: 67
638453 CATTGAAATA
* * * * * *
638463 AGGCTACATAACATAAAACTCTTCATCTTGAACGAGGTTTCATAACTTAAAACGTCTTATCTTAA
1 AGGCTACGTAACTTAAAACTCCTCATCTTGAATGAAGTTTCATAACTTAAAAC-TCTTATCTTGA
*
638528 ATA
65 ATG
* * * *
638531 AGACTACATAACTTAAAACTCCTCATCTTGAATG-AGATTCCGTAACTTAAAACTCCTTATCTTG
1 AGGCTACGTAACTTAAAACTCCTCATCTTGAATGAAG-TTTCATAACTTAAAACT-CTTATCTTG
638595 AATG
64 AATG
* * *
638599 AGGCTACGTAACTTAAAACTCCCCATCTTGAATGATA-TTTTATAACTTAAAACTCCTCATCTTG
1 AGGCTACGTAACTTAAAACTCCTCATCTTGAATGA-AGTTTCATAACTTAAAACT-CTTATCTTG
638663 AATG
64 AATG
* * * * *
638667 AGGCTATGTAACTTAAAACTCTTTATCTTGAATGAAGTTTCGTGACTTAAAACTCTTCATCTTGA
1 AGGCTACGTAACTTAAAACTCCTCATCTTGAATGAAGTTTCATAACTTAAAACTCTT-ATCTTGA
638732 ATG
65 ATG
638735 A
1 A
638736 AGTTTTGCAA
Statistics
Matches: 175, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
67 5 0.03
68 169 0.97
70 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (67 bp):
AGGCTACGTAACTTAAAACTCCTCATCTTGAATGAAGTTTCATAACTTAAAACTCTTATCTTGAA
TG
Found at i:638791 original size:34 final size:33
Alignment explanation
Indices: 638748--638812 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 33
638738 TTTTGCAATT
*
638748 TTAAAAGGAATAAGCTCTTTGTCTTGAATAACC
1 TTAAAAGGAATAAGCTCTTTATCTTGAATAACC
638781 TTAAATAGGAATAAGCTCTTTATCTTGAATAA
1 TTAAA-AGGAATAAGCTCTTTATCTTGAATAA
638813 GGCTACGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (33 bp):
TTAAAAGGAATAAGCTCTTTATCTTGAATAACC
Found at i:638812 original size:18 final size:18
Alignment explanation
Indices: 638755--638813 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
638745 ATTTTAAAAG
*
638755 GAATAAGCTCTTTGTCTT
1 GAATAAGCTCTTTATCTT
* **
638773 GAATAA-C-CTTAAAT-AG
1 GAATAAGCTCTT-TATCTT
638789 GAATAAGCTCTTTATCTT
1 GAATAAGCTCTTTATCTT
638807 GAATAAG
1 GAATAAG
638814 GCTACGTAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (18 bp):
GAATAAGCTCTTTATCTT
Found at i:648693 original size:19 final size:19
Alignment explanation
Indices: 648655--648693 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
648645 AAAATTTTAG
**
648655 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAATT
648674 AATAAAATAATATTAAATT
1 AATAAAATAATATTAAATT
648693 A
1 A
648694 TTAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAAAATAATATTAAATT
Found at i:649514 original size:21 final size:21
Alignment explanation
Indices: 649474--649514 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
649464 GAAATTAAAG
* *
649474 GAGAGGAAATGAATGTAAATT
1 GAGAGGAAATGAAAGGAAATT
*
649495 GAGATGAAATGAAAGGAAAT
1 GAGAGGAAATGAAAGGAAAT
649515 GTTGCCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (21 bp):
GAGAGGAAATGAAAGGAAATT
Found at i:661664 original size:21 final size:21
Alignment explanation
Indices: 661639--661705 Score: 134
Period size: 21 Copynumber: 3.2 Consensus size: 21
661629 TTTTATTCTT
661639 TTATTATGTTCAATTAAATCA
1 TTATTATGTTCAATTAAATCA
661660 TTATTATGTTCAATTAAATCA
1 TTATTATGTTCAATTAAATCA
661681 TTATTATGTTCAATTAAATCA
1 TTATTATGTTCAATTAAATCA
661702 TTAT
1 TTAT
661706 ATATTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (21 bp):
TTATTATGTTCAATTAAATCA
Found at i:661731 original size:18 final size:19
Alignment explanation
Indices: 661694--661731 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
661684 TTATGTTCAA
* *
661694 TTAAATCATTATATATTTT
1 TTAAATCATAATAAATTTT
661713 TTAAATCA-AATAAATTTT
1 TTAAATCATAATAAATTTT
661731 T
1 T
661732 ATTATTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATCATAATAAATTTT
Found at i:662440 original size:20 final size:20
Alignment explanation
Indices: 662402--662454 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
662392 TAAGAAGTCA
* *
662402 AATAATATA-TATACTATAT
1 AATAATATATTGTTCTATAT
*
662421 AATAGTATATTGTTCTATAT
1 AATAATATATTGTTCTATAT
662441 AATAATATATTGTT
1 AATAATATATTGTT
662455 ATTGATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (20 bp):
AATAATATATTGTTCTATAT
Found at i:662648 original size:52 final size:51
Alignment explanation
Indices: 662579--662677 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
662569 GTTATTATAT
* *
662579 TTAATTACTAATATAAGTTATGTTATTATA-TGATACTAATATTAATATAGG
1 TTAATTACTAATATAAGTTATATTACTATAGT-ATACTAATATTAATATAGG
*
662630 TTAATTTAGTAATATAAGTTATATTACTATAGTATACTAATATTAATA
1 TTAA-TTACTAATATAAGTTATATTACTATAGTATACTAATATTAATA
662678 ATTTAATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.09
52 38 0.88
53 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.45
Consensus pattern (51 bp):
TTAATTACTAATATAAGTTATATTACTATAGTATACTAATATTAATATAGG
Found at i:663553 original size:2 final size:2
Alignment explanation
Indices: 663546--663572 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
663536 AAAACAAAAC
663546 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
663573 TTAATTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:672121 original size:20 final size:21
Alignment explanation
Indices: 672083--672121 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
672073 AGTTATAAGC
*
672083 TTATAAATACCCTTATTTTAT
1 TTATAAATACACTTATTTTAT
*
672104 TTAT-AATACACTTTTTTT
1 TTATAAATACACTTATTTT
672122 TTTCCTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATAAATACACTTATTTTAT
Found at i:688770 original size:19 final size:19
Alignment explanation
Indices: 688743--688784 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
688733 TCAAAATTAT
* *
688743 TTTTTAAGTATTATGTTTG
1 TTTTGAAGTATTATGTTTA
688762 TTTTGAAGTATTATGTTTA
1 TTTTGAAGTATTATGTTTA
688781 TTTT
1 TTTT
688785 TTTTTCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (19 bp):
TTTTGAAGTATTATGTTTA
Found at i:689291 original size:2 final size:2
Alignment explanation
Indices: 689284--689310 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
689274 TACTTATGAA
689284 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
689311 GAATACAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:699949 original size:35 final size:35
Alignment explanation
Indices: 699887--699953 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
699877 GAATTTATTG
* * * *
699887 ATTCATGTATGCAATAGTGATAGATGAATATACCA
1 ATTCATGTATCCAATAATAATACATGAATATACCA
*
699922 ATTCTTGTATCCAATAATAATACATGAATATA
1 ATTCATGTATCCAATAATAATACATGAATATA
699954 ATAAATATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (35 bp):
ATTCATGTATCCAATAATAATACATGAATATACCA
Found at i:701714 original size:30 final size:30
Alignment explanation
Indices: 701669--701732 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
701659 AACCATTAAT
*
701669 TATAAGAATTAATTTGACTCAAAATAAAAA
1 TATAACAATTAATTTGACTCAAAATAAAAA
* * * *
701699 TATAACAATTTATTTGATTTAAAATAAAAT
1 TATAACAATTAATTTGACTCAAAATAAAAA
701729 TATA
1 TATA
701733 TGTACTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (30 bp):
TATAACAATTAATTTGACTCAAAATAAAAA
Found at i:702955 original size:19 final size:20
Alignment explanation
Indices: 702919--702959 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
702909 TCAATATCAT
*
702919 ATATATTTAAGTTGATAAATA
1 ATATATTTAAGTTAAT-AATA
702940 ATAT-TTTAA-TTAATAATA
1 ATATATTTAAGTTAATAATA
702958 AT
1 AT
702960 TAATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
20 5 0.26
21 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
ATATATTTAAGTTAATAATA
Found at i:710160 original size:39 final size:39
Alignment explanation
Indices: 710106--710185 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
710096 CCAGTCAGTC
* *
710106 AACAAAATAGAAAATTTACCAGAATGCTTAGTGGGATTG
1 AACAAAATAGAAAATTAACCAGAATGCTTAGTGGGACTG
*
710145 AACAAAATGGAAAATTAACCAGAATGCTTAGTGGGACTG
1 AACAAAATAGAAAATTAACCAGAATGCTTAGTGGGACTG
710184 AA
1 AA
710186 AGGATTGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (39 bp):
AACAAAATAGAAAATTAACCAGAATGCTTAGTGGGACTG
Found at i:713340 original size:127 final size:127
Alignment explanation
Indices: 713176--713431 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
713166 TCATTCATAG
*
713176 TAGTGGGATCAATTGATCTTTTTTTTTTCCACGCAAGGAAGATCCTTATACTGTTGAATAATGTA
1 TAGTGGGATCAATTGATCTTTTTTTTTTCCACACAAGGAAGATCCTTATACTGTTGAATAATGTA
713241 TTTGGAACCTGTAGTCTTTATGACATACTAATAGTTGAAGGAGTAATATTTTAAATAAATTA
66 TTTGGAACCTGTAGTCTTTATGACATACTAATAGTTGAAGGAGTAATATTTTAAATAAATTA
713303 TAGTGGGATCAATTGATCTTTTTTTTTTCCACACAAGGAAGATCCTTATACTGTTGAATAATGTA
1 TAGTGGGATCAATTGATCTTTTTTTTTTCCACACAAGGAAGATCCTTATACTGTTGAATAATGTA
713368 TTTGGAACCTGTAGTCTTTATGACATACTAATAGTTGAAGGAGTAATATTTTAAATAAATTA
66 TTTGGAACCTGTAGTCTTTATGACATACTAATAGTTGAAGGAGTAATATTTTAAATAAATTA
713430 TA
1 TA
713432 CATGTTGGAT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (127 bp):
TAGTGGGATCAATTGATCTTTTTTTTTTCCACACAAGGAAGATCCTTATACTGTTGAATAATGTA
TTTGGAACCTGTAGTCTTTATGACATACTAATAGTTGAAGGAGTAATATTTTAAATAAATTA
Found at i:721433 original size:35 final size:35
Alignment explanation
Indices: 721394--721562 Score: 194
Period size: 35 Copynumber: 4.8 Consensus size: 35
721384 TTAATTGTTT
** *
721394 AATTTAATCAATTAGATCAAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* ****
721429 AATTTAATTAATTAGGCCCAATAACTTAATTGTTT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
721464 AATTTAATCAATTAGGTCCAATAGCTTAATTAAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
721499 AGTTCAATCAATTAGGCCCAATAACTTGATGAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
721534 AAATTTAATCAATTAGGCCCAATAACTTA
1 -AATTTAATCAATTAGGCCCAATAACTTA
721563 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
35 84 0.77
36 25 0.23
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:721464 original size:70 final size:70
Alignment explanation
Indices: 721384--721525 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 70
721374 CTCAATTAAT
* *
721384 TTAATTGTTTAATTTAATCAATTAGATCAAATAACTTAATTAAACAATTTAATTAATTAGGCCCA
1 TTAATTGTTTAATTTAATCAATTAGATCAAATAACTTAATTAAACAATTCAATCAATTAGGCCCA
721449 ATAAC
66 ATAAC
* * * * *
721454 TTAATTGTTTAATTTAATCAATTAGGTCCAATAGCTTAATTAAATAGTTCAATCAATTAGGCCCA
1 TTAATTGTTTAATTTAATCAATTAGATCAAATAACTTAATTAAACAATTCAATCAATTAGGCCCA
721519 ATAAC
66 ATAAC
721524 TT
1 TT
721526 GATGAAACAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.39
Consensus pattern (70 bp):
TTAATTGTTTAATTTAATCAATTAGATCAAATAACTTAATTAAACAATTCAATCAATTAGGCCCA
ATAAC
Found at i:721612 original size:35 final size:35
Alignment explanation
Indices: 721573--721648 Score: 59
Period size: 32 Copynumber: 2.2 Consensus size: 35
721563 NNNNNNNNNN
* * *
721573 TTAATTAATTAGGCTCAATGACTTAATTAAATAAT
1 TTAATCAATTAGGCCCAATAACTTAATTAAATAAT
* * * *
721608 TTAATGAATTAAG--C-ACAACTTAATTAAACAATT
1 TTAATCAATTAGGCCCAATAACTTAATTAAATAA-T
721641 TTAATCAA
1 TTAATCAA
721649 GTGCTTGAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 14 0.41
33 9 0.26
35 11 0.32
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (35 bp):
TTAATCAATTAGGCCCAATAACTTAATTAAATAAT
Found at i:737659 original size:74 final size:74
Alignment explanation
Indices: 737519--737704 Score: 207
Period size: 74 Copynumber: 2.5 Consensus size: 74
737509 CAAACAATGT
* * * * * *
737519 GCTCTTAGTTTACTAACATACTCCTTAGTCGACTAAG-TCTTCTCTGTCTCGTAATTGAATTCTT
1 GCTCTTAGTTGACTAACATGCTTCTTAGTCGACTAAGTTCTTCTCTATCTCGTAACTAAATTCTT
*
737583 TGGCAGTGA
66 TGGCAGTAA
* * * *
737592 TCTCTTTGTTGACTAACTATGCTTCTTAGTCGATTAAGTTC-TCTCTATCTTGTAACTAAAGTT-
1 GCTCTTAGTTGACTAAC-ATGCTTCTTAGTCGACTAAGTTCTTCTCTATCTCGTAACTAAA-TTC
737655 TTTGGCAGTAA
64 TTTGGCAGTAA
* *
737666 GCTATTAGTTGACTAACCACGCTTCTTAGTCGACTAAGT
1 GCTCTTAGTTGACTAA-CATGCTTCTTAGTCGACTAAGT
737705 CTTTTCTGTC
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
73 14 0.15
74 74 0.80
75 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (74 bp):
GCTCTTAGTTGACTAACATGCTTCTTAGTCGACTAAGTTCTTCTCTATCTCGTAACTAAATTCTT
TGGCAGTAA
Found at i:740138 original size:13 final size:13
Alignment explanation
Indices: 740120--740157 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
740110 TTATTACTTG
740120 TTTTC-TTCTTTGT
1 TTTTCTTTCTTT-T
*
740133 TTTTCTTTCATTT
1 TTTTCTTTCTTTT
740146 TTTTCTTTCTTT
1 TTTTCTTTCTTT
740158 CTTCAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:745454 original size:70 final size:69
Alignment explanation
Indices: 745302--745468 Score: 207
Period size: 70 Copynumber: 2.4 Consensus size: 69
745292 TGAATAAAGC
745302 CCGATGTGGGGG-AAGGAATACCACAAGACCAAGATAGGTGAATGTACCCATATTAGTTCCTTTT
1 CCGATGTGGGGGTAA-GAATACCACAAGACCAAGATAGGTGAATGTACCCATATTAGTTCCTTTT
*
745366 TAATA
65 TAAAA
* * * *
745371 CCCA-GTGCAGGGGTAAGAATACCACAAGACTAAGATGGGTGAATGTACCCAT-TCTTGTT-CTT
1 CCGATGTG--GGGGTAAGAATACCACAAGACCAAGATAGGTGAATGTACCCATAT-TAGTTCCTT
745433 TTCTAAAA
63 TT-TAAAA
745441 CTCGATGTGGGGGTAAGAATACCACAAG
1 C-CGATGTGGGGGTAAGAATACCACAAG
745469 GTCTAGTTAG
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
68 3 0.04
69 9 0.11
70 66 0.78
71 4 0.05
72 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (69 bp):
CCGATGTGGGGGTAAGAATACCACAAGACCAAGATAGGTGAATGTACCCATATTAGTTCCTTTTT
AAAA
Found at i:747672 original size:21 final size:22
Alignment explanation
Indices: 747647--747690 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
747637 AAGTGATTAA
747647 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
747668 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
747690 T
1 T
747691 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:751258 original size:12 final size:12
Alignment explanation
Indices: 751241--751266 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
751231 ATATGAAATT
751241 CATTCATGAATG
1 CATTCATGAATG
751253 CATTCATGAATG
1 CATTCATGAATG
751265 CA
1 CA
751267 CATCACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (12 bp):
CATTCATGAATG
Found at i:754085 original size:20 final size:19
Alignment explanation
Indices: 754044--754089 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
754034 GCAAATGGGC
754044 AAATAGAATAGAAATAAAAT
1 AAATA-AATAGAAATAAAAT
754064 AAATAAATA-AATATAAATAT
1 AAATAAATAGAA-ATAAA-AT
754084 AAATAA
1 AAATAA
754090 TTATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 13 0.54
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATAAATAGAAATAAAAT
Found at i:758688 original size:12 final size:13
Alignment explanation
Indices: 758648--758690 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
758638 ATTTCATCAG
758648 TGATAATGAACATTT
1 TGATAATG-A-ATTT
*
758663 TGATAATGAGTTT
1 TGATAATGAATTT
758676 TGA-AATGAATTT
1 TGATAATGAATTT
758688 TGA
1 TGA
758691 GGACCAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 11 0.42
13 6 0.23
14 1 0.04
15 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (13 bp):
TGATAATGAATTT
Found at i:761723 original size:130 final size:134
Alignment explanation
Indices: 761587--761834 Score: 310
Period size: 136 Copynumber: 1.9 Consensus size: 134
761577 ACAAAATTTG
* * **
761587 ATATAAAACATTATAACATATAAGTTT-TGTCATTAA-TTATA-TATATAATAAAGTCATATA-T
1 ATATAAAACATTATAACATATAA-TTTGTATCATTAATTTATATTATACAATAAAGAAATATATT
* *
761648 -TATATATACATATATTT-AGTTTGTACATAAGAATTACTATAACTTATAATAGATTTTATTTAT
65 ATATATATACATATATTTGA-TTTATACATAAGAATTACTATAACTTAAAATAGATTTTATTTAT
761711 ATGATT
129 ATGATT
* * *
761717 ATATAAAACATTTTAACGTATAATTTGTATCATTAATTTTATATTTATACAATAATGAAATATAT
1 ATATAAAACATTATAACATATAATTTGTATCATTAA-TTTATA-TTATACAATAAAGAAATATAT
** *
761782 TATATATATACATATATTTGATTTATACATAAGCCTTACTGTAACTTAAAATA
64 TATATATATACATATATTTGATTTATACATAAGAATTACTATAACTTAAAATA
761835 AACTTTAGAG
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
129 3 0.03
130 29 0.30
132 5 0.05
134 15 0.15
135 1 0.01
136 44 0.45
137 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (134 bp):
ATATAAAACATTATAACATATAATTTGTATCATTAATTTATATTATACAATAAAGAAATATATTA
TATATATACATATATTTGATTTATACATAAGAATTACTATAACTTAAAATAGATTTTATTTATAT
GATT
Found at i:762150 original size:63 final size:63
Alignment explanation
Indices: 762050--762169 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
762040 ATCTTTCTCT
* * *
762050 CTCAACTCTTTGAACTGTATTAACTTTGTTAATTCTCTATTAAGCACCATCATCATCAGCTTG
1 CTCAACTCTCTGAACTGTATTAACTTTGTCAACTCTCTATTAAGCACCATCATCATCAGCTTG
* * *
762113 CTCAACTCTCTGAATTGTA-TAAGCTTTGTCAACTCTCTATTTAGCACCATCGTCATC
1 CTCAACTCTCTGAACTGTATTAA-CTTTGTCAACTCTCTATTAAGCACCATCATCATC
762170 GTGATGTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
62 3 0.06
63 47 0.94
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (63 bp):
CTCAACTCTCTGAACTGTATTAACTTTGTCAACTCTCTATTAAGCACCATCATCATCAGCTTG
Found at i:762455 original size:22 final size:22
Alignment explanation
Indices: 762419--762511 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
762409 TAACATGTTA
*
762419 TGAACATGGGGTGTAAGAATTTT
1 TGAACATGGCGTGTAA-AATTTT
*
762442 TGAAC-TGGCGTGTAACATTTT
1 TGAACATGGCGTGTAAAATTTT
* * *
762463 TGAACATGGTGTGTATCATTTTT
1 TGAACATGGCGTGTA-AAATTTT
* * * *
762486 TAAACATGGTGGGTAACATTTT
1 TGAACATGGCGTGTAAAATTTT
762508 TGAA
1 TGAA
762512 AAATGGGATG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
21 10 0.18
22 24 0.43
23 22 0.39
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.39
Consensus pattern (22 bp):
TGAACATGGCGTGTAAAATTTT
Found at i:762491 original size:23 final size:23
Alignment explanation
Indices: 762421--762526 Score: 92
Period size: 23 Copynumber: 4.7 Consensus size: 23
762411 ACATGTTATG
* * * *
762421 AACATGGGGTGTAAGAATTTTTG
1 AACATGGTGTGTAACATTTTTTA
* *
762444 AAC-TGGCGTGTAACA-TTTTTG
1 AACATGGTGTGTAACATTTTTTA
*
762465 AACATGGTGTGTATCATTTTTTA
1 AACATGGTGTGTAACATTTTTTA
* *
762488 AACATGGTGGGTAACATTTTTGA
1 AACATGGTGTGTAACATTTTTTA
*
762511 AAAATGG-GATGTAACA
1 AACATGGTG-TGTAACA
762527 ACATGACAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
21 9 0.13
22 21 0.30
23 40 0.57
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (23 bp):
AACATGGTGTGTAACATTTTTTA
Found at i:762503 original size:45 final size:44
Alignment explanation
Indices: 762409--762527 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 44
762399 ACAGAGCGTA
* * * *
762409 TAACATGTTATGAACATGGGGTGTAAGAATTTTTGAACTGGCGTG
1 TAACAT-TTTTGAACATGGGGTGTAACAATTTTTAAACTGGCGGG
* * * *
762454 TAACATTTTTGAACATGGTGTGTATCATTTTTTAAACATGGTGGG
1 TAACATTTTTGAACATGGGGTGTAACAATTTTTAAAC-TGGCGGG
* *
762499 TAACATTTTTGAAAAATGGGATGTAACAA
1 TAACATTTTTG-AACATGGGGTGTAACAA
762528 CATGACAGAC
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 25 0.42
45 22 0.37
46 12 0.20
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (44 bp):
TAACATTTTTGAACATGGGGTGTAACAATTTTTAAACTGGCGGG
Found at i:768155 original size:31 final size:31
Alignment explanation
Indices: 768120--768317 Score: 220
Period size: 31 Copynumber: 6.4 Consensus size: 31
768110 AGAAACAAAT
*
768120 AAATGTTGTTACATGCCATAAATATCAAGTA
1 AAATGTTGTTACATGCCATGAATATCAAGTA
* *
768151 AAATGTTGTTACATGCCATGCATATCAAGTC
1 AAATGTTGTTACATGCCATGAATATCAAGTA
* * * * *
768182 AAATGTTGTTGC-TCACCTTGCATATCAAGTC
1 AAATGTTGTTACAT-GCCATGAATATCAAGTA
* * * *
768213 AAATGTTGTTGC-TCACCATGCATATCAAGTC
1 AAATGTTGTTACAT-GCCATGAATATCAAGTA
* *
768244 AAATGTTGTTACATGCTAGGAATATCAAGTA
1 AAATGTTGTTACATGCCATGAATATCAAGTA
* *
768275 AAATGATGTTACATGCCATGAAAATCAAGTA
1 AAATGTTGTTACATGCCATGAATATCAAGTA
768306 AAATGTTGTTAC
1 AAATGTTGTTAC
768318 TGTAGGGTAA
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
30 1 0.01
31 145 0.99
32 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (31 bp):
AAATGTTGTTACATGCCATGAATATCAAGTA
Found at i:768968 original size:35 final size:35
Alignment explanation
Indices: 768929--769184 Score: 257
Period size: 35 Copynumber: 7.3 Consensus size: 35
768919 TTAATTGCTT
* *
768929 AATTTAATCAATCAGGCCCAATAAATTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* ****
768964 AATTTTAATCAATTAGGCCTAATAACTTAATTGTTT
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
769000 AATTTAATCAATAAGGCCTAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
769035 AATTTAATCTATTAGGCTCAATAACTTGATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
** *
769070 AAATTTAATCAATTAGGCATAATAACTTGATTAAAC
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * * *
769106 AAATTAATCAATTAGACCCAATAACGTAATGAAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * *
769141 AATTTAATGAA-TAAG-AC-ATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
769173 AATTTTAATCAA
1 AA-TTTAATCAA
769185 GTGCTTGAGA
Statistics
Matches: 181, Mismatches: 37, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
32 14 0.08
33 9 0.05
34 2 0.01
35 96 0.53
36 60 0.33
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:768993 original size:71 final size:69
Alignment explanation
Indices: 768915--769184 Score: 255
Period size: 71 Copynumber: 3.9 Consensus size: 69
768905 GAAGCCCAAT
* *
768915 TAACTTAATTGCTTAATTTAATCAATCAGGCCCAATAAATTAATTAAACAATTTTAATCAATTAG
1 TAACTTAATTGCTTAATTTAATCAAT-AGGCACAATAACTTAATTAAACAA-TTTAATCAATTAG
768980 GCCTAA
64 GCCTAA
* *
768986 TAACTTAATTGTTTAATTTAATCAATAAGGC-CTAATAACTTAATTAAACAATTTAATCTATTAG
1 TAACTTAATTGCTTAATTTAATCAAT-AGGCAC-AATAACTTAATTAAACAATTTAATCAATTAG
769050 G-CTCAA
64 GCCT-AA
* * * * * *
769056 TAACTTGATTAAAC-AAATTTAATCAATTAGGCATAATAACTTGATTAAACAAATTAATCAATTA
1 TAACTTAATT--GCTTAATTTAATCAA-TAGGCACAATAACTTAATTAAACAATTTAATCAATTA
* *
769120 GACCCAA
63 GGCCTAA
* ** * *
769127 TAACGTAA-TGAAATAATTTAATGAATAAG-AC-ATAACTTAATTAAACAATTTTAATCAA
1 TAACTTAATTG-CTTAATTTAATCAATAGGCACAATAACTTAATTAAACAA-TTTAATCAA
769185 GTGCTTGAGA
Statistics
Matches: 165, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
67 16 0.10
68 9 0.05
69 5 0.03
70 36 0.22
71 97 0.59
72 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (69 bp):
TAACTTAATTGCTTAATTTAATCAATAGGCACAATAACTTAATTAAACAATTTAATCAATTAGGC
CTAA
Found at i:769039 original size:106 final size:105
Alignment explanation
Indices: 768929--769184 Score: 291
Period size: 106 Copynumber: 2.4 Consensus size: 105
768919 TTAATTGCTT
* * *
768929 AATTTAATCAATCAGGCCCAATAAATTAATTAAACAATTTTAATCAATTAGGCCTAATAACTTAA
1 AATTTAATCAAT-AGGCACAATAACTTAATTAAACAATTTTAATCAATTAGGCATAATAACTTAA
**** * * * * *
768994 TTGTTTAATTTAATCAATAAGGCCTAATAACTTAATTAAAC
65 TTAAACAAATTAATCAATAAGACCCAATAACGTAATGAAAC
* * * * *
769035 AATTTAATCTATTAGGCTCAATAACTTGATTAAACAAATTTAATCAATTAGGCATAATAACTTGA
1 AATTTAATC-AATAGGCACAATAACTTAATTAAACAATTTTAATCAATTAGGCATAATAACTTAA
* *
769100 TTAAACAAATTAATCAATTAGACCCAATAACGTAATGAAAT
65 TTAAACAAATTAATCAATAAGACCCAATAACGTAATGAAAC
* *
769141 AATTTAATGAATAAG-AC-ATAACTTAATTAAACAATTTTAATCAA
1 AATTTAATCAATAGGCACAATAACTTAATTAAACAATTTTAATCAA
769185 GTGCTTGAGA
Statistics
Matches: 125, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
103 25 0.20
104 1 0.01
105 4 0.03
106 93 0.74
107 2 0.02
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (105 bp):
AATTTAATCAATAGGCACAATAACTTAATTAAACAATTTTAATCAATTAGGCATAATAACTTAAT
TAAACAAATTAATCAATAAGACCCAATAACGTAATGAAAC
Found at i:774320 original size:17 final size:19
Alignment explanation
Indices: 774287--774327 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
774277 CTAACTATCG
774287 AGTTCTAATCATTATTAG-A
1 AGTTCTAAT-ATTATTAGTA
774306 AGTTCTAAT-TTATTAGTA
1 AGTTCTAATATTATTAGTA
774324 AGTT
1 AGTT
774328 TATCTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 5 0.24
19 9 0.43
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (19 bp):
AGTTCTAATATTATTAGTA
Found at i:776811 original size:71 final size:69
Alignment explanation
Indices: 776733--776982 Score: 182
Period size: 71 Copynumber: 3.6 Consensus size: 69
776723 TTAATTGTTT
*
776733 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGGTCAAATAACTTGAT
1 AATTTAATCAATTAGG-CCAATAACTTAATTAAACAATTTAATTAA-TAGGCCAAATAACTTGAT
776798 TAAACA
64 TAAACA
********* **** *
776804 AATTTAATCAATTNNNNNNNNNNACTTAATTGTTTAATTTAATTAATGAGGCCCAATAACTTGAT
1 AATTTAATCAATT-AGGCCAATAACTTAATTAAACAATTTAATTAAT-AGGCCAAATAACTTGAT
*
776869 TAAACC
64 TAAACA
* * * * *
776875 AATTTACTTAATTAGGTCCAATAACTTAATTAAACAAATTTAATCAATTAGGCCTAATAACTTAA
1 AATTTAATCAATTAGG-CCAATAACTTAATTAAAC-AATTTAATTAA-TAGGCCAAATAACTTGA
*
776940 TTAAA-T
63 TTAAACA
* * * *
776946 AATTCAATGAATTAGG-C-ACAACTTAGTTAAACAATTT
1 AATTTAATCAATTAGGCCAATAACTTAATTAAACAATTT
776983 TAATNNNNNN
Statistics
Matches: 134, Mismatches: 40, Indels: 14
0.71 0.21 0.07
Matches are distributed among these distances:
67 5 0.04
68 13 0.10
69 1 0.01
70 1 0.01
71 84 0.63
72 29 0.22
73 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.34
Consensus pattern (69 bp):
AATTTAATCAATTAGGCCAATAACTTAATTAAACAATTTAATTAATAGGCCAAATAACTTGATTA
AACA
Found at i:776886 original size:36 final size:36
Alignment explanation
Indices: 776839--776986 Score: 151
Period size: 36 Copynumber: 4.2 Consensus size: 36
776829 TTAATTGTTT
* * *
776839 AATTTAATTAATGAGGCCCAATAACTTGATTAAACC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAACA
* *
776875 AATTTACTTAATTAGGTCCAATAACTTAATTAAACA
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAACA
* * *
776911 AATTTAATCAATTAGGCCTAATAACTTAATTAAA-T
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAACA
* * * *
776946 AATTCAATGAATTAGG--C-ACAACTTAGTTAAACA
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAACA
*
776979 ATTTTAAT
1 AATTTAAT
776987 NNNNNNNNNN
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
32 12 0.13
33 6 0.06
35 14 0.15
36 61 0.66
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (36 bp):
AATTTAATTAATTAGGCCCAATAACTTAATTAAACA
Found at i:776938 original size:107 final size:106
Alignment explanation
Indices: 776719--776941 Score: 284
Period size: 107 Copynumber: 2.1 Consensus size: 106
776709 GAAACCCAAT
*
776719 TAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGG
1 TAACTTAATTGTTTAATTTAATCAATGAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGG
* ********
776784 TCAAATAACTTGATTAAACAAATTTAATCAATTNNNNNNNN
66 TCAAATAACTTAATTAAACAAATTTAATCAATTAGGCCTAA
** * * * *
776825 NNACTTAATTGTTTAATTTAATTAATGAGGCCCAATAACTTGATTAAACCAATTTACTTAATTAG
1 TAACTTAATTGTTTAATTTAATCAATGAGGCCCAATAACTTAATTAAA-CAATTTAATTAACTAG
*
776890 GTCCAATAACTTAATTAAACAAATTTAATCAATTAGGCCTAA
65 GTCAAATAACTTAATTAAACAAATTTAATCAATTAGGCCTAA
776932 TAACTTAATT
1 TAACTTAATT
776942 AAATAATTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
106 43 0.44
107 54 0.56
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.36
Consensus pattern (106 bp):
TAACTTAATTGTTTAATTTAATCAATGAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGG
TCAAATAACTTAATTAAACAAATTTAATCAATTAGGCCTAA
Found at i:776949 original size:107 final size:106
Alignment explanation
Indices: 776732--776982 Score: 247
Period size: 107 Copynumber: 2.4 Consensus size: 106
776722 CTTAATTGTT
* *
776732 TAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGGTCAAATAACTTGA
1 TAATTTAATCAATGAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGGTCAAATAACTTAA
********** ***
776797 TTAAACAAATTTAATCAATTNNNNNNNNNNACTTAATTGTT
66 TTAAACAAATTTAATCAATTAGGCCTAATAACTTAATTAAA
* * * * *
776838 TAATTTAATTAATGAGGCCCAATAACTTGATTAAACCAATTTACTTAATTAGGTCCAATAACTTA
1 TAATTTAATCAATGAGGCCCAATAACTTAATTAAA-CAATTTAATTAACTAGGTCAAATAACTTA
776903 ATTAAACAAATTTAATCAATTAGGCCTAATAACTTAATTAAA
65 ATTAAACAAATTTAATCAATTAGGCCTAATAACTTAATTAAA
* * * * *
776945 TAATTCAATGAATTAGG--C-ACAACTTAGTTAAACAATTT
1 TAATTTAATCAATGAGGCCCAATAACTTAATTAAACAATTT
776983 TAATNNNNNN
Statistics
Matches: 118, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
103 6 0.05
104 11 0.09
105 1 0.01
106 32 0.27
107 68 0.58
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.34
Consensus pattern (106 bp):
TAATTTAATCAATGAGGCCCAATAACTTAATTAAACAATTTAATTAACTAGGTCAAATAACTTAA
TTAAACAAATTTAATCAATTAGGCCTAATAACTTAATTAAA
Found at i:778230 original size:31 final size:31
Alignment explanation
Indices: 778195--778267 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
778185 CATCCCAACA
* *
778195 GTTACACGTCATGCATATCAAGTCAAATGTT
1 GTTACACGCCATGCATATCAAGTAAAATGTT
778226 GTTACACGCCATGCATATCAAGTAAAATGTT
1 GTTACACGCCATGCATATCAAGTAAAATGTT
*
778257 ATTACACGCCA
1 GTTACACGCCA
778268 AAGCTGACAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (31 bp):
GTTACACGCCATGCATATCAAGTAAAATGTT
Found at i:778932 original size:47 final size:45
Alignment explanation
Indices: 778881--779010 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 45
778871 ATGTTGTCTG
778881 ACACACTCTAAACCCTGGCTTGTCACAGATTCCCTCAATGACATGTC
1 ACACACTCTAAACCCT-GCTTGTCACAGATTCCCTC-ATGACATGTC
* * * * * * *
778928 ACACACTCTAAACTCTAGCATGTTATAGATTCCTTTCATGGCGTGTC
1 ACACACTCTAAACCCT-GCTTGTCACAGATTCC-CTCATGACATGTC
* * *
778975 ACAAACTCTGAACCCTACTGTGTCACAGATTCCCTC
1 ACACACTCTAAACCCTGCT-TGTCACAGATTCCCTC
779011 CATGGCGTGT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
46 3 0.05
47 60 0.92
48 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (45 bp):
ACACACTCTAAACCCTGCTTGTCACAGATTCCCTCATGACATGTC
Found at i:779015 original size:47 final size:47
Alignment explanation
Indices: 778901--779049 Score: 167
Period size: 47 Copynumber: 3.2 Consensus size: 47
778891 AACCCTGGCT
* * * * * *
778901 TGTCACAGATTCCCTCAATGACATGTCACACACTCTAAACTCTAGCATG
1 TGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTA-C-TG
* * *
778950 T-T-ATAGATTCCTTTCATGGCGTGTCACAAACTCTGAACCCTACTG
1 TGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTACTG
* *
778995 TGTCACAGATTCCCTCCATGGCGTGTCAAAAATTCTGAACCCTACTG
1 TGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTACTG
779042 TGTCACAG
1 TGTCACAG
779050 CTGTGTCACA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
45 3 0.04
46 2 0.02
47 77 0.92
48 1 0.01
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (47 bp):
TGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTACTG
Found at i:779148 original size:23 final size:23
Alignment explanation
Indices: 779052--779162 Score: 63
Period size: 23 Copynumber: 4.9 Consensus size: 23
779042 TGTCACAGCT
** *
779052 GTGTCACATAGACTCACCATGGC
1 GTGTCACATATTCTCACCATGTC
*
779075 GTG-C-CATATTCT-AACACTAG-C
1 GTGTCACATATTCTCACCA-T-GTC
*
779096 GTGTCACAT-TCTCGCACCATGTC
1 GTGTCACATAT-TCTCACCATGTC
* * *
779119 ATATCACATATTCTCACCTTGTC
1 GTGTCACATATTCTCACCATGTC
*
779142 GTGTCACAGATTC-CATCCATG
1 GTGTCACATATTCTCA-CCATG
779163 GCATGTTGCA
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
20 3 0.05
21 11 0.17
22 7 0.11
23 41 0.62
24 4 0.06
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (23 bp):
GTGTCACATATTCTCACCATGTC
Found at i:779202 original size:47 final size:46
Alignment explanation
Indices: 779143--779237 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 46
779133 CACCTTGTCG
* **
779143 TGTCACAGATTCCATCCATGGCATGTTGCAAACTCTGAATCCTCCCA
1 TGTCACAAATTCCATCCATGGCATGTCACAAACTCTG-ATCCTCCCA
* *
779190 TGTCACAAATTCCCTCCATGGCATGTCACAAACTCTGATCCTTCCA
1 TGTCACAAATTCCATCCATGGCATGTCACAAACTCTGATCCTCCCA
779236 TG
1 TG
779238 GTGTGTCACA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 10 0.23
47 33 0.77
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (46 bp):
TGTCACAAATTCCATCCATGGCATGTCACAAACTCTGATCCTCCCA
Found at i:779237 original size:23 final size:23
Alignment explanation
Indices: 779171--779237 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 23
779161 TGGCATGTTG
779171 CAAACTCTGAATCCTCCCATGTCA
1 CAAACTCTG-ATCCTCCCATGTCA
* ** **
779195 CAAATTC-CCTCCATGGCATGTCA
1 CAAACTCTGATCC-TCCCATGTCA
*
779218 CAAACTCTGATCCTTCCATG
1 CAAACTCTGATCCTCCCATG
779238 GTGTGTCACA
Statistics
Matches: 31, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
22 3 0.10
23 19 0.61
24 9 0.29
ACGTcount: A:0.27, C:0.36, G:0.10, T:0.27
Consensus pattern (23 bp):
CAAACTCTGATCCTCCCATGTCA
Found at i:779237 original size:75 final size:75
Alignment explanation
Indices: 779157--779298 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 75
779147 ACAGATTCCA
** * * *
779157 TCCATGGCATGTTGCAAACTCTGAATCCTCCCATGTCACAAATTCCCTCCATGGCATGTCACAAA
1 TCCATGGCATGTCACAAACTCTAAACCCTCCCATGTCACAAATTCCCTCCATGACATGTCACAAA
779222 CTCTGATCCT
66 CTCTGATCCT
** * * *
779232 TCCATGGTGTGTCACAAACTCTAAACCCTCCCGTGTCACAGATTCCCTCTATGACATGTCACAAA
1 TCCATGGCATGTCACAAACTCTAAACCCTCCCATGTCACAAATTCCCTCCATGACATGTCACAAA
779297 CT
66 CT
779299 TTGAACCCTC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.27
Consensus pattern (75 bp):
TCCATGGCATGTCACAAACTCTAAACCCTCCCATGTCACAAATTCCCTCCATGACATGTCACAAA
CTCTGATCCT
Found at i:779296 original size:47 final size:47
Alignment explanation
Indices: 779241--779361 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
779231 TTCCATGGTG
* *
779241 TGTCACAAACTCTAAACCCTCCCGTGTCACAGATTCCCT-CTATGACA
1 TGTCACAAACTCTAAACCCTCCCATGTCAAAGATTCCCTAC-ATGACA
* * * *
779288 TGTCACAAACTTTGAACCCTCCCATGTCAAAGATTCTCTACATGGCA
1 TGTCACAAACTCTAAACCCTCCCATGTCAAAGATTCCCTACATGACA
* * * *
779335 TGTCACAAATTTTGAACCCTACCATGT
1 TGTCACAAACTCTAAACCCTCCCATGT
779362 GACAGCTGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 64 0.98
48 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (47 bp):
TGTCACAAACTCTAAACCCTCCCATGTCAAAGATTCCCTACATGACA
Found at i:779507 original size:23 final size:23
Alignment explanation
Indices: 779457--779510 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
779447 CCTCTAAGTA
* * *
779457 GTGTCACATAATCTCTCCCTGCC
1 GTGTCACATAATCCCTCCATGAC
* *
779480 ATGTCACATATTCCCTCCATGAC
1 GTGTCACATAATCCCTCCATGAC
779503 GTGTCACA
1 GTGTCACA
779511 AACTCCAAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (23 bp):
GTGTCACATAATCCCTCCATGAC
Found at i:782205 original size:19 final size:18
Alignment explanation
Indices: 782181--782222 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
782171 TGTTTCGTAA
782181 TATAAAATGGTATGAATTG
1 TATAAAATGGTAT-AATTG
* *
782200 TAT-AAATTGTATAATTT
1 TATAAAATGGTATAATTG
782217 TATAAA
1 TATAAA
782223 TGTATTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.35
18 10 0.50
19 3 0.15
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (18 bp):
TATAAAATGGTATAATTG
Found at i:782220 original size:17 final size:18
Alignment explanation
Indices: 782185--782227 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
782175 TCGTAATATA
*
782185 AAATGGTATGAATTGTAT
1 AAATTGTATGAATTGTAT
*
782203 AAATTGTAT-AATTTTAT
1 AAATTGTATGAATTGTAT
782220 AAA-TGTAT
1 AAATTGTAT
782228 TATGTATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (18 bp):
AAATTGTATGAATTGTAT
Found at i:782526 original size:138 final size:126
Alignment explanation
Indices: 782367--782631 Score: 314
Period size: 126 Copynumber: 2.0 Consensus size: 126
782357 ACAAACGTTA
* *
782367 ATATAAAACATTATAACATATAAGTTATGTCATTAATTATATATATATATATAAAATAAAGTCAT
1 ATATAAAACATTATAAAATATAA-TT-TGT-A-TAATTAAATATATATA-ATAAAAT-AA-TC-T
* * * *
782432 ATATTATATATACATATATTTATCTTATACATAAGCATTACTATAAGTTATAATAGACTTTATAT
58 -TA-GATATATAC--ATATTTAACTTATACATAAGCATTACTATAACTTATAATAAACTTTATAT
782497 ATATGATT
119 ATATGATT
* **
782505 ATATAAAACATTTTAAAATATAATTTGTATAATTAAATATATATAATAATGTAATCTTAGATATA
1 ATATAAAACATTATAAAATATAATTTGTATAATTAAATATATATAATAAAATAATCTTAGATATA
* * *
782570 TACATATTTAACTTATACATAAGTATTACTATAACTTATAATAAACTTTATTTCTATGATT
66 TACATATTTAACTTATACATAAGCATTACTATAACTTATAATAAACTTTATATATATGATT
782631 A
1 A
782632 CACTTAATAA
Statistics
Matches: 115, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
126 53 0.46
128 8 0.07
129 2 0.02
130 1 0.01
131 2 0.02
132 2 0.02
133 5 0.04
134 15 0.13
135 1 0.01
136 3 0.03
137 2 0.02
138 21 0.18
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (126 bp):
ATATAAAACATTATAAAATATAATTTGTATAATTAAATATATATAATAAAATAATCTTAGATATA
TACATATTTAACTTATACATAAGCATTACTATAACTTATAATAAACTTTATATATATGATT
Found at i:782684 original size:14 final size:16
Alignment explanation
Indices: 782665--782701 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
782655 CACCTTAGAT
782665 TTTATAA-TA-TATTA
1 TTTATAATTAGTATTA
782679 TTTATAATTAGTTATTA
1 TTTATAATTAG-TATTA
782696 TTTATA
1 TTTATA
782702 CAAACTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAATTAGTATTA
Found at i:785945 original size:28 final size:28
Alignment explanation
Indices: 785913--786036 Score: 88
Period size: 28 Copynumber: 4.4 Consensus size: 28
785903 TATAGAAGCC
*
785913 AGCATAACC-CATGCCTTTTCAAGGATCA
1 AGCATAACCTC-TACCTTTTCAAGGATCA
*
785941 AGCATAACCTCTACTTTTTCAAGGATCA
1 AGCATAACCTCTACCTTTTCAAGGATCA
* * * * ** **
785969 AGTAAAACTTGCATGCCTTTTCAAAAAGGA
1 AGCATAACCT-C-TACCTTTTCAAGGATCA
* *
785999 AACATAACCTCAACCTTTTCAAGGATCA
1 AGCATAACCTCTACCTTTTCAAGGATCA
* *
786027 GGCAAAACCT
1 AGCATAACCT
786037 ATACAGCACT
Statistics
Matches: 69, Mismatches: 24, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
28 49 0.71
29 3 0.04
30 17 0.25
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (28 bp):
AGCATAACCTCTACCTTTTCAAGGATCA
Found at i:795316 original size:25 final size:26
Alignment explanation
Indices: 795259--795309 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
795249 GACATGGTTG
795259 AGGCCATGGCCTGTGATATACGTGGCA
1 AGGCCATGGCCTGT-ATATACGTGGCA
*
795286 AGGCCATGGCCTGT-TATATGTGGC
1 AGGCCATGGCCTGTATATACGTGGC
795310 TAAGCCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
27 14 0.61
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (26 bp):
AGGCCATGGCCTGTATATACGTGGCA
Found at i:799385 original size:44 final size:43
Alignment explanation
Indices: 799281--799393 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
799271 ATGAGTTTTT
* * * *
799281 AAGGATAATAAATAGAATATTTGAGTATGTGATTTTAATCTTCC
1 AAGGATAAT-AACAGAATCTTTGAGTATATGATTTTAAGCTTCC
* * * * *
799325 AAGAATAATAGGCAGAATCCTTGAGTCTATGATTTTAAGCTTTC
1 AAGGATAATA-ACAGAATCTTTGAGTATATGATTTTAAGCTTCC
799369 AAGGATAATCAACAGAATCTTTGAG
1 AAGGATAAT-AACAGAATCTTTGAG
799394 CCTGTGAGCT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.02
44 53 0.96
45 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (43 bp):
AAGGATAATAACAGAATCTTTGAGTATATGATTTTAAGCTTCC
Done.